Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167860.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_13, 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: 22724830
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82000 characters in sequence are not A, C, G, or T
File 90 of 109
Found at i:18080893 original size:36 final size:36
Alignment explanation
Indices: 18080846--18080914 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
18080836 ACATGGAAGT
*
18080846 ACAGAGTTACTTTGCTAAAGAAGCATTGATTAAAGG
1 ACAGAGTTACTTCGCTAAAGAAGCATTGATTAAAGG
*
18080882 ACAGAGTTACTTCGTTAAAGAAGCATTGATTAA
1 ACAGAGTTACTTCGCTAAAGAAGCATTGATTAA
18080915 TCAATGTGCC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (36 bp):
ACAGAGTTACTTCGCTAAAGAAGCATTGATTAAAGG
Found at i:18082603 original size:18 final size:16
Alignment explanation
Indices: 18082565--18082616 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 16
18082555 AATAATTTTC
18082565 TTGATTTTCTTTGTT-T
1 TTGATTTT-TTTGTTAT
18082581 GTTGAAATTTTTTTGTTAT
1 -TTG--ATTTTTTTGTTAT
18082600 TTGA-TTTTTTGTTAT
1 TTGATTTTTTTGTTAT
18082615 TT
1 TT
18082617 AGTGTTCAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
15 13 0.41
16 1 0.03
17 3 0.09
18 9 0.28
19 6 0.19
ACGTcount: A:0.13, C:0.02, G:0.13, T:0.71
Consensus pattern (16 bp):
TTGATTTTTTTGTTAT
Found at i:18084602 original size:48 final size:47
Alignment explanation
Indices: 18084525--18085142 Score: 438
Period size: 48 Copynumber: 13.1 Consensus size: 47
18084515 TTTTTAATTT
* ** * *
18084525 AAAAAGCTCCTCCAATTAAAGGCTTAACAACTTTAAAATTCATCTTGG
1 AAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAATTCATCTT-G
* ** * *
18084573 AAAAGGCTTATCTAAGCAGAAGCTCAACAACTTTAAAAACTCATCTTG
1 AAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTT-AAAATTCATCTTG
* * * * * * *
18084621 AAAAAACTCTTCTAAGTAAATGCTCAAAAACTTTAAAAATTCATCTTTAA
1 AAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTT-AAAATTCATC-TT-G
* ** * * *
18084671 AAAAAGCTCCTATAAGCAGATACTTAACAATTTTAAAAATCCATCTTG
1 AAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTT-AAAATTCATCTTG
* *
18084719 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATTTATCTTG
1 AAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTT-AAAATTCATCTTG
*** * *
18084767 AAAAAAAGAAGCTC-AA-CA-A--CTTTAA-AA-TTT---AT-C-T-TAG
1 --AAAAAGCTCCTCTAAGCAGAGGC-TCAACAACTTTAAAATTCATCTTG
* * * *
18084804 -AAAAGCTCCTCTCAGCAGAGGCTCAATAACTTTAAAATTTTATCTTA
1 AAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAA-TTCATCTTG
* * *
18084851 AAAAAGTTCTTCTCAGCAGAGGCTCAACAACTTTAAAATTCATCTTG
1 AAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAATTCATCTTG
* ** * * * *
18084898 AAAAAACTTTTCTCAGTAGAGGCTTAACAACTTTAAAAATTTATCTTG
1 AAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTT-AAAATTCATCTTG
* * *
18084946 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATTTATCTTA
1 AAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTT-AAAATTCATCTTG
* *
18084994 AAAAAGCTCCTCTCAGCAGAAGCTCAACAACTTTAAAATTTTCATCTTG
1 AAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAA--TTCATCTTG
* * *
18085043 AAAAAGCTCTTCTAACCAGAGGCTCAA-AAGTTTAAAATTTATCATCTTG
1 AAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAA--T-TCATCTTG
** * * * *
18085092 GGAAAGCTCCTCTAAGTAGGGGCTCAATAACTTTAAAATTTTATCTTG
1 AAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAA-TTCATCTTG
18085140 AAA
1 AAA
18085143 CATAACTTCG
Statistics
Matches: 455, Mismatches: 89, Indels: 52
0.76 0.15 0.09
Matches are distributed among these distances:
34 8 0.02
35 1 0.00
36 2 0.00
37 3 0.01
38 4 0.01
39 3 0.01
40 5 0.01
43 1 0.00
44 4 0.01
45 3 0.01
46 4 0.01
47 42 0.09
48 245 0.54
49 77 0.17
50 53 0.12
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.30
Consensus pattern (47 bp):
AAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAATTCATCTTG
Found at i:18084706 original size:98 final size:98
Alignment explanation
Indices: 18084542--18085142 Score: 317
Period size: 98 Copynumber: 6.3 Consensus size: 98
18084532 TCCTCCAATT
* * * * ** *
18084542 AAAGGCTTAACAACTTT-AAAATTCATCTTG-GAAAAGGCTTATCTAAGCAGAAGCTCAACAACT
1 AAAGGCTCAAAAACTTTAAAAATTCATCTTGAAAAAAAGCTCCTATAAGCAGAAGCTCAACAACT
* *
18084605 TTAAAAA-CTCATCTTGAAAAAACTCTTCTAAGT
66 TTAAAAATC-CATCTTGAAAAAACTCCTCTAAGC
* * * *
18084638 AAATGCTCAAAAACTTTAAAAATTCATCTTTAAAAAAAGCTCCTATAAGCAGATA-CTTAACAAT
1 AAAGGCTCAAAAACTTTAAAAATTCATCTTGAAAAAAAGCTCCTATAAGCAGA-AGCTCAACAAC
* *
18084702 TTTAAAAATCCATCTTGAAAAAGCTCCTCTCAGC
65 TTTAAAAATCCATCTTGAAAAAACTCCTCTAAGC
* * * *** * *
18084736 AGAGGCTCAACAACTTTAAAAATTTATCTTGAAAAAAAGAAGCT-CAA-C--AA-CTTTAA-AA-
1 AAAGGCTCAAAAACTTTAAAAATTCATCTTGAAAAAAAGCTCCTATAAGCAGAAGC-TCAACAAC
* * *
18084794 TTT----AT-C-T-TAG-AAAAGCTCCTCTCAGC
65 TTTAAAAATCCATCTTGAAAAAACTCCTCTAAGC
* * * * * * * * *
18084820 AGAGGCTCAATAACTTTAAAATTTTATCTT--AAAAAAGTTCTTCTCAGCAGAGGCTCAACAACT
1 AAAGGCTCAAAAACTTTAAAAATTCATCTTGAAAAAAAGCTCCTATAAGCAGAAGCTCAACAACT
* ** * *
18084883 TT-AAAATTCATCTTGAAAAAACTTTTCTCAGT
66 TTAAAAATCCATCTTGAAAAAACTCCTCTAAGC
* * * * * * *
18084915 AGAGGCTTAACAACTTTAAAAATTTATCTTG--AAAAAGCTCCTCTCAGCAGAGGCTCAACAACT
1 AAAGGCTCAAAAACTTTAAAAATTCATCTTGAAAAAAAGCTCCTATAAGCAGAAGCTCAACAACT
** *
18084978 TTAAAAATTTATCTT-AAAAAAGCTCCTCTCAGC
66 TTAAAAATCCATCTTGAAAAAA-CTCCTCTAAGC
* * * * * *
18085011 AGAA-GCTCAACAACTTTAAAATTTTCATCTTG--AAAAAGCTCTTCTAACCAGAGGCTCAA-AA
1 A-AAGGCTCAAAAACTTTAAAA-ATTCATCTTGAAAAAAAGCTCCTATAAGCAGAAGCTCAACAA
* ** * *
18085072 GTTTAAAATTTAT-CATCTTGGGAAAGCTCCTCTAAGT
64 CTTTAAAA---ATCCATCTTGAAAAAACTCCTCTAAGC
** * * *
18085109 AGGGGCTCAATAACTTTAAAATTTTATCTTGAAA
1 AAAGGCTCAAAAACTTTAAAAATTCATCTTGAAA
18085143 CATAACTTCG
Statistics
Matches: 407, Mismatches: 67, Indels: 59
0.76 0.13 0.11
Matches are distributed among these distances:
82 8 0.02
83 1 0.00
84 45 0.11
85 2 0.00
86 5 0.01
87 4 0.01
88 5 0.01
91 2 0.00
92 4 0.01
93 5 0.01
94 7 0.02
95 77 0.19
96 60 0.15
97 56 0.14
98 118 0.29
99 8 0.02
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.30
Consensus pattern (98 bp):
AAAGGCTCAAAAACTTTAAAAATTCATCTTGAAAAAAAGCTCCTATAAGCAGAAGCTCAACAACT
TTAAAAATCCATCTTGAAAAAACTCCTCTAAGC
Found at i:18084941 original size:95 final size:94
Alignment explanation
Indices: 18084777--18085142 Score: 446
Period size: 95 Copynumber: 3.8 Consensus size: 94
18084767 AAAAAAAGAA
* *
18084777 GCTCAACAACTTTAAAATTTATCTTAGAAAAGCTCCTCTCAGCAGAGGCTCAATAACTTTAAAAT
1 GCTCAACAACTTTAAAATTTATCTTA-AAAAACTCCTCTCAGCAGAGGCTCAACAACTTTAAAAT
* *
18084842 TTTATCTTAAAAAAGTTCTTCTCAGCAGAG
65 TTTATCTTGAAAAAGCTCTTCTCAGCAGAG
* ** * * *
18084872 GCTCAACAACTTTAAAATTCATCTTGAAAAAACTTTTCTCAGTAGAGGCTTAACAACTTTAAAAA
1 GCTCAACAACTTTAAAATTTATCTT-AAAAAACTCCTCTCAGCAGAGGCTCAACAACTTTAAAAT
*
18084937 TTTATCTTGAAAAAGCTCCTCTCAGCAGAG
65 TTTATCTTGAAAAAGCTCTTCTCAGCAGAG
*
18084967 GCTCAACAACTTTAAAAATTTATCTTAAAAAAGCTCCTCTCAGCAGAAGCTCAACAACTTTAAAA
1 GCTCAACAACTTT-AAAATTTATCTTAAAAAA-CTCCTCTCAGCAGAGGCTCAACAACTTTAAAA
* *
18085032 TTTTCATCTTGAAAAAGCTCTTCTAACCAGAG
64 TTTT-ATCTTGAAAAAGCTCTTCTCAGCAGAG
* ** * * * * *
18085064 GCTCAA-AAGTTTAAAATTTATCATCTTGGGAAAGCTCCTCTAAGTAGGGGCTCAATAACTTTAA
1 GCTCAACAACTTTAAAA-TT-T-ATCTT-AAAAAACTCCTCTCAGCAGAGGCTCAACAACTTTAA
18085128 AATTTTATCTTGAAA
62 AATTTTATCTTGAAA
18085143 CATAACTTCG
Statistics
Matches: 233, Mismatches: 30, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
95 105 0.45
96 49 0.21
97 40 0.17
98 36 0.15
99 3 0.01
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.31
Consensus pattern (94 bp):
GCTCAACAACTTTAAAATTTATCTTAAAAAACTCCTCTCAGCAGAGGCTCAACAACTTTAAAATT
TTATCTTGAAAAAGCTCTTCTCAGCAGAG
Found at i:18084946 original size:227 final size:230
Alignment explanation
Indices: 18084550--18084998 Score: 602
Period size: 227 Copynumber: 2.0 Consensus size: 230
18084540 TTAAAGGCTT
* *
18084550 AACAACTTTAAAATTCATCTTGGAAAAGGCTTATCTAAGCAGAAGCTCAACAACTTTAAAAACTC
1 AACAACTTTAAAATTCATCTTAGAAAAGGCTCATCTAAGCAGAAGCTCAACAACTTTAAAAACTC
* *
18084615 ATCTTGAAAAAACTCTTCTAAGTAAATGCTCAAAAACTTTAAAAATTCATCTTTAAAAAAAGCTC
66 ATCTTGAAAAAACTCTTCTAAGCAAAGGCTCAAAAACTTTAAAAATTCATCTTTAAAAAAAGCTC
* *
18084680 CTATAAGCAGATACTTAACAATTTTAAAAATCCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCA
131 CTATAAGCAGAGACTTAACAACTTTAAAAATCCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCA
18084745 ACAACTTTAAAAATTTATCTTGAAAAAAAGAAGCTC
196 ACAACTTTAAAAATTTATCTT-AAAAAAAGAAGCTC
* * * * * ** *
18084781 AACAACTTTAAAATTTATCTTAGAAAA-GCTCCTCTCAGCAGAGGCTCAATAACTTTAAAATTTT
1 AACAACTTTAAAATTCATCTTAGAAAAGGCTCATCTAAGCAGAAGCTCAACAACTTTAAAAACTC
* * * * *
18084845 ATCTT-AAAAAAGTTCTTCTCAGCAGAGGCTCAACAACTTT-AAAATTCATC-TTGAAAAAA-CT
66 ATCTTGAAAAAA-CTCTTCTAAGCAAAGGCTCAAAAACTTTAAAAATTCATCTTTAAAAAAAGCT
** * * * * **
18084906 TTTCTCAGTAGAGGCTTAACAACTTTAAAAATTTATCTTGAAAAAGCTCCTCTCAGCAGAGGCTC
130 CCTATAAGCAGAGACTTAACAACTTTAAAAATCCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTC
18084971 AACAACTTTAAAAATTTATCTTAAAAAA
195 AACAACTTTAAAAATTTATCTTAAAAAA
18084999 GCTCCTCTCA
Statistics
Matches: 190, Mismatches: 27, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
226 6 0.03
227 79 0.42
228 8 0.04
229 16 0.08
230 56 0.29
231 25 0.13
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.29
Consensus pattern (230 bp):
AACAACTTTAAAATTCATCTTAGAAAAGGCTCATCTAAGCAGAAGCTCAACAACTTTAAAAACTC
ATCTTGAAAAAACTCTTCTAAGCAAAGGCTCAAAAACTTTAAAAATTCATCTTTAAAAAAAGCTC
CTATAAGCAGAGACTTAACAACTTTAAAAATCCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCA
ACAACTTTAAAAATTTATCTTAAAAAAAGAAGCTC
Found at i:18084954 original size:143 final size:144
Alignment explanation
Indices: 18084777--18085138 Score: 498
Period size: 143 Copynumber: 2.5 Consensus size: 144
18084767 AAAAAAAGAA
18084777 GCTCAACAACTTT-AAAATTTATCTT-AGAAAAGCTCCTCTCAGCAGAGGCTCAATAACTTTAAA
1 GCTCAACAACTTTAAAAATTTATCTTGA-AAAAGCTCCTCTCAGCAGAGGCTCAATAACTTTAAA
* * *
18084840 ATTTTATCTTAAAAAAGTTCTTCTCAGCAGAGGCTCAACAACTTTAAAA-TTCATCTTGAAAAAA
65 ATTTTATCTTAAAAAAGCTCCTCTCAGCAGAAGCTCAACAACTTTAAAATTTCATCTTGAAAAAA
* * **
18084904 CTTTTCTCAGTAGAG
130 CTCTTCTAACCAGAG
* *
18084919 GCTTAACAACTTTAAAAATTTATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA
1 GCTCAACAACTTTAAAAATTTATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAATAACTTTAAAA
* *
18084984 ATTTATCTTAAAAAAGCTCCTCTCAGCAGAAGCTCAACAACTTTAAAATTTTCATCTTGAAAAAG
66 TTTTATCTTAAAAAAGCTCCTCTCAGCAGAAGCTCAACAACTTTAAAA-TTTCATCTTGAAAAAA
18085049 CTCTTCTAACCAGAG
130 CTCTTCTAACCAGAG
* * ** * * *
18085064 GCTCAA-AAGTTTAAAATTTATCATCTTGGGAAAGCTCCTCTAAGTAGGGGCTCAATAACTTTAA
1 GCTCAACAACTTTAAAAATT-T-ATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAATAACTTTAA
18085128 AATTTTATCTT
64 AATTTTATCTT
18085139 GAAACATAAC
Statistics
Matches: 193, Mismatches: 21, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
142 12 0.06
143 92 0.48
144 12 0.06
145 31 0.16
146 46 0.24
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.31
Consensus pattern (144 bp):
GCTCAACAACTTTAAAAATTTATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAATAACTTTAAAA
TTTTATCTTAAAAAAGCTCCTCTCAGCAGAAGCTCAACAACTTTAAAATTTCATCTTGAAAAAAC
TCTTCTAACCAGAG
Found at i:18085459 original size:75 final size:74
Alignment explanation
Indices: 18085339--18085756 Score: 313
Period size: 75 Copynumber: 5.6 Consensus size: 74
18085329 AAAAAATGTT
* * * *
18085339 ATTCAAGCTTTAACACTCTGATATCACCACTGAGAATATGCAAATGACTTCGGATATTGCCACTG
1 ATTCAAACTTTGACACTCAGATATCACCACTGAGAA-ATGCAAATGACTTCGGATATCGCCACTG
18085404 AGAAAATGCA
65 AGAAAATGCA
* * * *
18085414 ATTCAAACATTGACACTACAGATATCACGCACCGAGAAA-GTAAATGACTTCGGATATCACCAC-
1 ATTCAAACTTTGACACT-CAGATATCAC-CACTGAGAAATGCAAATGACTTCGGATATCGCCACT
* *
18085477 CA-AAATATGCG
64 GAGAAA-ATGCA
* * *
18085488 ATTCAAACCTTGACCACTTAAGATATCACCA-TCGAGAAAATGTAAATGA-TTCGGATATC-CTC
1 ATTCAAACTTTGA-CAC-TCAGATATCACCACT-GAG-AAATGCAAATGACTTCGGATATCGC-C
* * *
18085550 AATCGAGAAAATACG
61 ACT-GAGAAAATGCA
* * * ** *
18085565 ATTCAAACTTTGACACTCGGATATCACCAGTGAGAAAAG-AAATGACTTTAGATATCGCCAAATC
1 ATTCAAACTTTGACACTCAGATATCACCACTGAGAAATGCAAATGACTTCGGATATCGCC-ACT-
*
18085629 CAGAATAATGCCA
64 GAGAA-AATG-CA
* * * *
18085642 ATTCAAAC-CTGACACTCCGAATATCACCACTGAGAATATGCAAATGGCTTC-GATATCGCCACC
1 ATTCAAACTTTGACACTCAG-ATATCACCACTGAGAA-ATGCAAATGACTTCGGATATCGCCACT
* *
18085705 GAGAATATGTA
64 GAGAAAATGCA
18085716 ATTCAAA-TTTGACACTC-G-TAATCACCA-TCGAGAAAATGCAA
1 ATTCAAACTTTGACACTCAGAT-ATCACCACT-GAG-AAATGCAA
18085757 TTCAATTATA
Statistics
Matches: 281, Mismatches: 37, Indels: 53
0.76 0.10 0.14
Matches are distributed among these distances:
71 2 0.01
72 16 0.06
73 12 0.04
74 52 0.19
75 88 0.31
76 39 0.14
77 50 0.18
78 14 0.05
79 8 0.03
ACGTcount: A:0.39, C:0.22, G:0.15, T:0.24
Consensus pattern (74 bp):
ATTCAAACTTTGACACTCAGATATCACCACTGAGAAATGCAAATGACTTCGGATATCGCCACTGA
GAAAATGCA
Found at i:18085708 original size:151 final size:148
Alignment explanation
Indices: 18085351--18085751 Score: 392
Period size: 151 Copynumber: 2.7 Consensus size: 148
18085341 TCAAGCTTTA
* * *
18085351 ACACTCTG-ATATCACCACTGAGAATATGCAAATGACTTCGGATATTGCCACTGAGAAAATGCAA
1 ACACTCTGAATATCACCACTGAGAATATGCAAATGGCTTCGGATATCGCCACCGAGAAAATGCAA
* * * *
18085415 TTCAAACATTGACACTACAGATATCACGCACCGAG-AAAGTAAATGACTTCGGATATCACCACCA
66 TTCAAACTTTGACACT-CGGATATCAC-CA-TGAGAAAAGTAAATGACTTCAGATATCACCACCA
*
18085479 AAATATGCGATTCAAACCTTG
128 AAATATGCAATTCAAACCTTG
* * * * *
18085500 ACCACT-TAAGATATCACCA-TCGAGAAAATGTAAAT-GATTCGGATATC-CTCAATCGAGAAAA
1 A-CACTCTGA-ATATCACCACT-GAGAATATGCAAATGGCTTCGGATATCGC-C-ACCGAGAAAA
* * * *
18085561 TACGATTCAAACTTTGACACTCGGATATCACCAGTGAGAAAAG-AAATGACTTTAGATATCGCCA
61 TGCAATTCAAACTTTGACACTCGGATATCACCA-TGAGAAAAGTAAATGACTTCAGATATCACC-
*
18085625 AATCCAGAATAATGCCAATTCAAACC-TG
124 -A-CCAAAAT-ATG-CAATTCAAACCTTG
* * *
18085653 ACACTCCGAATATCACCACTGAGAATATGCAAATGGCTTC-GATATCGCCACCGAGAATATGTAA
1 ACACTCTGAATATCACCACTGAGAATATGCAAATGGCTTCGGATATCGCCACCGAGAAAATGCAA
*
18085717 TTCAAA-TTTGACACTCGTA-ATCACCATCGAGAAAA
66 TTCAAACTTTGACACTCGGATATCACCAT-GAGAAAA
18085752 TGCAATTCAA
Statistics
Matches: 205, Mismatches: 30, Indels: 34
0.76 0.11 0.13
Matches are distributed among these distances:
148 1 0.00
149 39 0.19
150 40 0.20
151 64 0.31
152 38 0.19
153 13 0.06
154 10 0.05
ACGTcount: A:0.39, C:0.23, G:0.15, T:0.23
Consensus pattern (148 bp):
ACACTCTGAATATCACCACTGAGAATATGCAAATGGCTTCGGATATCGCCACCGAGAAAATGCAA
TTCAAACTTTGACACTCGGATATCACCATGAGAAAAGTAAATGACTTCAGATATCACCACCAAAA
TATGCAATTCAAACCTTG
Found at i:18085996 original size:42 final size:42
Alignment explanation
Indices: 18085929--18086180 Score: 208
Period size: 42 Copynumber: 6.0 Consensus size: 42
18085919 TGAAGAAATG
* * *
18085929 AATTCAAACCTTGACATTC-AGATATCACCACTGAGAAAATAA
1 AATTCAAATCTTGACACTCGA-ATATCACCACCGAGAAAATAA
* * * **
18085971 AATTCAAACCTCGATACTCGAATATCACCACCGA-AAAGATGT
1 AATTCAAATCTTGACACTCGAATATCACCACCGAGAAA-ATAA
* *
18086013 AATTCAGATCTTGACACTC-AGATATCACCACCGAGAAAATAC
1 AATTCAAATCTTGACACTCGA-ATATCACCACCGAGAAAATAA
* *
18086055 AATTCAAATCTTGACATTC-AGATATCACCATCGAGAAAA-AA
1 AATTCAAATCTTGACACTCGA-ATATCACCACCGAGAAAATAA
* * ** * * *
18086096 TGCAATTCAAACCTTGACATTCGGTTATCACCACTGAAAAAATAT
1 ---AATTCAAATCTTGACACTCGAATATCACCACCGAGAAAATAA
* * *
18086141 AATTCAGATCTTGACACTCGGATATCACCACCAAGAAAAT
1 AATTCAAATCTTGACACTCGAATATCACCACCGAGAAAAT
18086181 GTAAATGAAT
Statistics
Matches: 171, Mismatches: 30, Indels: 18
0.78 0.14 0.08
Matches are distributed among these distances:
41 5 0.03
42 129 0.75
43 4 0.02
44 32 0.19
45 1 0.01
ACGTcount: A:0.42, C:0.23, G:0.11, T:0.24
Consensus pattern (42 bp):
AATTCAAATCTTGACACTCGAATATCACCACCGAGAAAATAA
Found at i:18086145 original size:128 final size:126
Alignment explanation
Indices: 18085929--18086180 Score: 355
Period size: 128 Copynumber: 2.0 Consensus size: 126
18085919 TGAAGAAATG
*
18085929 AATTCAAACCTTGACATTCAGATATCACCACTGAGAAAATAAAATTCAAACCTCGATACTCGAAT
1 AATTCAAACCTTGACATTCAGATATCACCACTGAGAAAATAAAATTCAAACCTCGACACTCGAAT
* * *
18085994 ATCACCACCGAAAAGATGTAATTCAGATCTTGACACTCAGATATCACCACCGAGAAAATAC
66 ATCACCACCGAAAAAATATAATTCAGATCTTGACACTCAGATATCACCACCAAGAAAATAC
* * *
18086055 AATTCAAATCTTGACATTCAGATATCACCA-TCGAGAAAA-AATGCAATTCAAACCTTGACATTC
1 AATTCAAACCTTGACATTCAGATATCACCACT-GAGAAAATAA---AATTCAAACCTCGACACTC
** * *
18086118 GGTTATCACCACTGAAAAAATATAATTCAGATCTTGACACTCGGATATCACCACCAAGAAAAT
62 GAATATCACCACCGAAAAAATATAATTCAGATCTTGACACTCAGATATCACCACCAAGAAAAT
18086181 GTAAATGAAT
Statistics
Matches: 111, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
125 3 0.03
126 36 0.32
128 72 0.65
ACGTcount: A:0.42, C:0.23, G:0.11, T:0.24
Consensus pattern (126 bp):
AATTCAAACCTTGACATTCAGATATCACCACTGAGAAAATAAAATTCAAACCTCGACACTCGAAT
ATCACCACCGAAAAAATATAATTCAGATCTTGACACTCAGATATCACCACCAAGAAAATAC
Found at i:18086178 original size:86 final size:84
Alignment explanation
Indices: 18085924--18086179 Score: 307
Period size: 86 Copynumber: 3.0 Consensus size: 84
18085914 CACCTTGAAG
* * *
18085924 AAATGAATTCAAACCTTGACATTCAGATATCACCACTGAGAAAATAAAATTCAAACCTCGATACT
1 AAATGAATTCAAACCTTGACATTCAGATATCACCACTGAGAAAATAAAATTCAAATCTTGACACT
*
18085989 CGAATATCACCACC-GAAA
66 CGGATATCACCACCAGAAA
* * * * * * *
18086007 AGATGTAATTCAGATCTTGACACTCAGATATCACCACCGAGAAAATACAATTCAAATCTTGACAT
1 AAATG-AATTCAAACCTTGACATTCAGATATCACCACTGAGAAAATAAAATTCAAATCTTGACAC
* *
18086072 TCAGATATCACCATCGAGAAA
65 TCGGATATCACCA-CCAGAAA
* * * * *
18086093 AAATGCAATTCAAACCTTGACATTCGGTTATCACCACTGAAAAAATATAATTCAGATCTTGACAC
1 AAATG-AATTCAAACCTTGACATTCAGATATCACCACTGAGAAAATAAAATTCAAATCTTGACAC
18086158 TCGGATATCACCACCAAGAAA
65 TCGGATATCACCACC-AGAAA
18086179 A
1 A
18086180 TGTAAATGAA
Statistics
Matches: 142, Mismatches: 27, Indels: 5
0.82 0.16 0.03
Matches are distributed among these distances:
83 4 0.03
84 61 0.43
85 2 0.01
86 75 0.53
ACGTcount: A:0.42, C:0.23, G:0.11, T:0.23
Consensus pattern (84 bp):
AAATGAATTCAAACCTTGACATTCAGATATCACCACTGAGAAAATAAAATTCAAATCTTGACACT
CGGATATCACCACCAGAAA
Found at i:18086284 original size:41 final size:42
Alignment explanation
Indices: 18086231--18086309 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
18086221 GAAAATATGC
* *
18086231 AAATTCAAACTTTAA-ACTTGGATATCACCACCAAGAAAATG
1 AAATTCAAACTTTAATACTCGAATATCACCACCAAGAAAATG
* * *
18086272 AAATTCATACTTTAATACTCGAATATCATCACCGAGAA
1 AAATTCAAACTTTAATACTCGAATATCACCACCAAGAA
18086310 TAATTTATCA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
41 14 0.44
42 18 0.56
ACGTcount: A:0.44, C:0.20, G:0.09, T:0.27
Consensus pattern (42 bp):
AAATTCAAACTTTAATACTCGAATATCACCACCAAGAAAATG
Found at i:18086568 original size:26 final size:26
Alignment explanation
Indices: 18086534--18086586 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
18086524 ATGAGGATGC
*
18086534 AAATGCAAATCTCTTCTCTTAAAATG
1 AAATACAAATCTCTTCTCTTAAAATG
* *
18086560 AAATACAAATGTCTTTTCTTAAAATG
1 AAATACAAATCTCTTCTCTTAAAATG
18086586 A
1 A
18086587 TGCACATGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.36
Consensus pattern (26 bp):
AAATACAAATCTCTTCTCTTAAAATG
Found at i:18087506 original size:18 final size:19
Alignment explanation
Indices: 18087483--18087528 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
18087473 CTTAAAGCTT
18087483 TTATTTTTTAC-TTTTCTC
1 TTATTTTTTACTTTTTCTC
*
18087501 TTATTTTTT-CTTTTTTTC
1 TTATTTTTTACTTTTTCTC
*
18087519 TTTTTTTTTA
1 TTATTTTTTA
18087529 TGATTTCATC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 1 0.04
18 23 0.96
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.80
Consensus pattern (19 bp):
TTATTTTTTACTTTTTCTC
Found at i:18091205 original size:14 final size:14
Alignment explanation
Indices: 18091166--18091206 Score: 75
Period size: 14 Copynumber: 3.0 Consensus size: 14
18091156 TTTTTGAAAT
18091166 TTTTGA-TTTTTTA
1 TTTTGATTTTTTTA
18091179 TTTTGATTTTTTTA
1 TTTTGATTTTTTTA
18091193 TTTTGATTTTTTTA
1 TTTTGATTTTTTTA
18091207 AAAAAATGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 6 0.22
14 21 0.78
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (14 bp):
TTTTGATTTTTTTA
Found at i:18092695 original size:13 final size:13
Alignment explanation
Indices: 18092677--18092712 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
18092667 AATGCACACA
18092677 TTTTATTATTGAT
1 TTTTATTATTGAT
*
18092690 TTTTATTATTTAT
1 TTTTATTATTGAT
*
18092703 TATTATTATT
1 TTTTATTATT
18092713 TTGGATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (13 bp):
TTTTATTATTGAT
Found at i:18093277 original size:21 final size:22
Alignment explanation
Indices: 18093249--18093298 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
18093239 TATTAATAAT
18093249 AAAA-TTTAAAAT-AACAAAAA
1 AAAATTTTAAAATCAACAAAAA
* *
18093269 AAAATTTTAAATTCAATAAAAA
1 AAAATTTTAAAATCAACAAAAA
*
18093291 AAATTTTT
1 AAAATTTT
18093299 TTACATGAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 4 0.16
21 7 0.28
22 14 0.56
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (22 bp):
AAAATTTTAAAATCAACAAAAA
Found at i:18093289 original size:20 final size:21
Alignment explanation
Indices: 18093234--18093297 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
18093224 TTTAACATGC
** *
18093234 TTAAATATTAATAATAAAATT
1 TTAAATAACAATAAAAAAATT
*
18093255 TAAAATAACAA-AAAAAAATT
1 TTAAATAACAATAAAAAAATT
*
18093275 TTAAAT-TCAATAAAAAAAATT
1 TTAAATAACAAT-AAAAAAATT
18093296 TT
1 TT
18093298 TTTACATGAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
19 3 0.09
20 13 0.37
21 19 0.54
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (21 bp):
TTAAATAACAATAAAAAAATT
Found at i:18100620 original size:29 final size:29
Alignment explanation
Indices: 18100575--18100638 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 29
18100565 AGTAAAAATA
*
18100575 AATAT-TTAAAAATTTAATTAATTCATAAT
1 AATATATTAAAAACTTAATTAATT-ATAAT
18100604 AATATATT-AAAACTTAATTAATTATAAT
1 AATATATTAAAAACTTAATTAATTATAAT
*
18100632 AAAATAT
1 AATATAT
18100639 CAAATGCTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
28 11 0.34
29 19 0.59
30 2 0.06
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (29 bp):
AATATATTAAAAACTTAATTAATTATAAT
Found at i:18100649 original size:29 final size:29
Alignment explanation
Indices: 18100583--18100642 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 29
18100573 TAAATATTTA
* * *
18100583 AAAATTTAATTAATTCATAATAATATATT
1 AAAACTTAATTAATTCATAATAAAATATC
18100612 AAAACTTAATTAATT-ATAATAAAATATC
1 AAAACTTAATTAATTCATAATAAAATATC
18100640 AAA
1 AAA
18100643 TGCTTAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 14 0.50
29 14 0.50
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (29 bp):
AAAACTTAATTAATTCATAATAAAATATC
Found at i:18102565 original size:23 final size:24
Alignment explanation
Indices: 18102515--18102565 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
18102505 TAGTTTTTGA
**
18102515 ATTATAAAAAATTTTTATGATTTTAT
1 ATTATAAAAAA--TTTATGATTAAAT
18102541 ATTATAAAAAA-TTATGATTAAAT
1 ATTATAAAAAATTTATGATTAAAT
18102564 AT
1 AT
18102566 AATTTTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 12 0.52
26 11 0.48
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (24 bp):
ATTATAAAAAATTTATGATTAAAT
Found at i:18103497 original size:30 final size:30
Alignment explanation
Indices: 18103425--18103498 Score: 76
Period size: 30 Copynumber: 2.5 Consensus size: 30
18103415 TTATTTTTTA
* ** **
18103425 TTATATTCAAATTGACTCTTAATTTTTAAC
1 TTATATTAAAATAAACTCTTAAACTTTAAC
* *
18103455 TTGTATCAAAATAAACTCTTAAACTTTAAC
1 TTATATTAAAATAAACTCTTAAACTTTAAC
*
18103485 TTATATTTAAATAA
1 TTATATTAAAATAA
18103499 GCTTATAAAT
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.41, C:0.12, G:0.03, T:0.45
Consensus pattern (30 bp):
TTATATTAAAATAAACTCTTAAACTTTAAC
Found at i:18104581 original size:57 final size:58
Alignment explanation
Indices: 18104344--18104614 Score: 403
Period size: 57 Copynumber: 4.8 Consensus size: 58
18104334 TGCTTTTGTA
* *
18104344 CAAGAAAAATTGATACTTTCAA-TTTTCCTCGAAAATATTTTTTTGAAAACTTA-TTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTACTTT
*
18104400 CAA-AGAAATTGATACTTTCAAC-TTTCCTCAAAAATATTTTTTAGAAAAACTTACTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAG-AAAACTTACTTT
18104457 CAAGGAAAAATTGATACTTTCAAC-TTTCCTCAAAAATATTTTTTAGAAAACTTACTTT
1 CAA-GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTACTTT
* * *
18104515 CAAG-GAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTAGACAACTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTACTTT
* *
18104571 TAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT
18104615 TTTGGAATTT
Statistics
Matches: 197, Mismatches: 10, Indels: 14
0.89 0.05 0.06
Matches are distributed among these distances:
55 37 0.19
56 48 0.24
57 52 0.26
58 20 0.10
59 40 0.20
ACGTcount: A:0.38, C:0.14, G:0.06, T:0.41
Consensus pattern (58 bp):
CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTACTTT
Found at i:18104642 original size:5 final size:5
Alignment explanation
Indices: 18104634--18104685 Score: 56
Period size: 5 Copynumber: 10.4 Consensus size: 5
18104624 TTATTTAAAG
18104634 AAAAT -AAA- AAAAT AAAAT AAAA- AAAAT AAAGAT AAAAT AAAAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA-AT AAAAT --AAAAT
18104679 AAAAT AA
1 AAAAT AA
18104686 GAAATACTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
4 10 0.24
5 21 0.51
6 5 0.12
7 5 0.12
ACGTcount: A:0.83, C:0.00, G:0.02, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:18104657 original size:12 final size:12
Alignment explanation
Indices: 18104634--18104691 Score: 61
Period size: 12 Copynumber: 5.1 Consensus size: 12
18104624 TTATTTAAAG
18104634 AAAATAAAAAAAT
1 AAAAT-AAAAAAT
18104647 AAAAT--AAAA-
1 AAAATAAAAAAT
*
18104656 AAAAT-AAAGAT
1 AAAATAAAAAAT
18104667 AAAATAAAAAAT
1 AAAATAAAAAAT
*
18104679 AAAATAAGAAAT
1 AAAATAAAAAAT
18104691 A
1 A
18104692 CTAAATAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
9 5 0.13
10 7 0.18
11 5 0.13
12 17 0.44
13 5 0.13
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (12 bp):
AAAATAAAAAAT
Found at i:18104691 original size:19 final size:18
Alignment explanation
Indices: 18104634--18104685 Score: 60
Period size: 14 Copynumber: 3.1 Consensus size: 18
18104624 TTATTTAAAG
18104634 AAAATAAAAAAATAAA-AT
1 AAAAT-AAAAAATAAAGAT
18104652 --AA-AAAAAATAAAGAT
1 AAAATAAAAAATAAAGAT
18104667 AAAATAAAAAATAAA-AT
1 AAAATAAAAAATAAAGAT
18104684 AA
1 AA
18104686 GAAATACTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
14 10 0.33
15 2 0.07
16 2 0.07
17 6 0.20
18 10 0.33
ACGTcount: A:0.83, C:0.00, G:0.02, T:0.15
Consensus pattern (18 bp):
AAAATAAAAAATAAAGAT
Found at i:18105005 original size:10 final size:11
Alignment explanation
Indices: 18104990--18105034 Score: 51
Period size: 10 Copynumber: 4.3 Consensus size: 11
18104980 GCAGATCACT
18104990 TCTTTCTT-TC
1 TCTTTCTTCTC
18105000 TCTTTCTTCTCC
1 TCTTTCTTCT-C
*
18105012 CCTTT-TTCTC
1 TCTTTCTTCTC
18105022 TCTTTC-TCTC
1 TCTTTCTTCTC
18105032 TCT
1 TCT
18105035 AAACAATCTC
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
10 20 0.67
11 5 0.17
12 5 0.17
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (11 bp):
TCTTTCTTCTC
Found at i:18108721 original size:10 final size:11
Alignment explanation
Indices: 18108702--18108726 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
18108692 AAATAGGAAG
18108702 AAAATAAAAAA
1 AAAATAAAAAA
18108713 AAAATAAAAAA
1 AAAATAAAAAA
18108724 AAA
1 AAA
18108727 GAAAGAGAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (11 bp):
AAAATAAAAAA
Found at i:18110310 original size:21 final size:21
Alignment explanation
Indices: 18110295--18110344 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
18110285 CAAATTGGAG
*
18110295 TCTTTGAATTTCAAATGAGAA
1 TCTTTGAATGTCAAATGAGAA
18110316 TCTTTGAATGTCAAATGAGAA
1 TCTTTGAATGTCAAATGAGAA
18110337 TCTTTGAA
1 TCTTTGAA
18110345 ATGAGAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.38
Consensus pattern (21 bp):
TCTTTGAATGTCAAATGAGAA
Found at i:18110932 original size:42 final size:42
Alignment explanation
Indices: 18110749--18110933 Score: 212
Period size: 42 Copynumber: 4.4 Consensus size: 42
18110739 GATTGTCGAT
* * *
18110749 GAGCATTTTA-TTTTTCAAAAGTTGTTGTGCCTCTGTTTAGAT
1 GAGCAATTTATTTTTTC-AAAGTTGTGGTGCCTCTGTTTAGAG
* ** * *
18110791 GAGCACTTTATTTTTTTCAAAGTTGTGGTATCTCTATTTAGAT
1 GAGCAATTTA-TTTTTTCAAAGTTGTGGTGCCTCTGTTTAGAG
* * *
18110834 GAGCAATTTA-TTTTTCAAAGTTATGGTGTCTCTGTTTAAAG
1 GAGCAATTTATTTTTTCAAAGTTGTGGTGCCTCTGTTTAGAG
* *
18110875 GAGCATTTTATTTTTTCAAAGTTGTGATGCCTCTGTTTAGAG
1 GAGCAATTTATTTTTTCAAAGTTGTGGTGCCTCTGTTTAGAG
*
18110917 GAGTAATTTATTTTTTC
1 GAGCAATTTATTTTTTC
18110934 TCTATTTAGA
Statistics
Matches: 122, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
41 35 0.29
42 51 0.42
43 30 0.25
44 6 0.05
ACGTcount: A:0.23, C:0.11, G:0.18, T:0.48
Consensus pattern (42 bp):
GAGCAATTTATTTTTTCAAAGTTGTGGTGCCTCTGTTTAGAG
Found at i:18110941 original size:28 final size:28
Alignment explanation
Indices: 18110905--18110960 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
18110895 GTTGTGATGC
* *
18110905 CTCTGTTTAGAGGAGTAATTTATTTTTT
1 CTCTATTTAGAGGAGCAATTTATTTTTT
18110933 CTCTATTTAGAGGAGCAATTTATTTTTT
1 CTCTATTTAGAGGAGCAATTTATTTTTT
18110961 TCAAAGTCGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.23, C:0.09, G:0.16, T:0.52
Consensus pattern (28 bp):
CTCTATTTAGAGGAGCAATTTATTTTTT
Found at i:18111814 original size:16 final size:17
Alignment explanation
Indices: 18111793--18111824 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
18111783 GCCATTTCGC
18111793 TTTTTTAGTT-TTTTTA
1 TTTTTTAGTTATTTTTA
18111809 TTTTTTAGTTATTTTT
1 TTTTTTAGTTATTTTT
18111825 TCCCTTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.81
Consensus pattern (17 bp):
TTTTTTAGTTATTTTTA
Found at i:18113441 original size:14 final size:14
Alignment explanation
Indices: 18113426--18113476 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
18113416 TTTTTGAATT
*
18113426 TTATTTTATTGTTT
1 TTATTTTATTGTTA
*
18113440 TTATTTT-TATGATA
1 TTATTTTAT-TGTTA
*
18113454 TTATTTCA-TGTTA
1 TTATTTTATTGTTA
18113467 TTATTTTATT
1 TTATTTTATT
18113477 ACTCTTTCTT
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
13 12 0.41
14 17 0.59
ACGTcount: A:0.22, C:0.02, G:0.06, T:0.71
Consensus pattern (14 bp):
TTATTTTATTGTTA
Found at i:18114049 original size:21 final size:21
Alignment explanation
Indices: 18114025--18114066 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
18114015 TAAAAAACAT
*
18114025 AAAATGAA-TAAATAAATAATG
1 AAAATAAAGTAAATAAA-AATG
18114046 AAAATAAAGTAAATAAAAATG
1 AAAATAAAGTAAATAAAAATG
18114067 TTTAATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.69, C:0.00, G:0.10, T:0.21
Consensus pattern (21 bp):
AAAATAAAGTAAATAAAAATG
Found at i:18115290 original size:24 final size:28
Alignment explanation
Indices: 18115246--18115315 Score: 76
Period size: 27 Copynumber: 2.6 Consensus size: 28
18115236 ATGGGTTTTT
*
18115246 TATTTTTATTTTCATTATTTAATATA-T-A
1 TATTTTTATTAT--TTATTTAATATATTAA
*
18115274 T-TTTTTA-TATTTATTTAATCTATTAA
1 TATTTTTATTATTTATTTAATATATTAA
18115300 TATTTTTATTATTTAT
1 TATTTTTATTATTTAT
18115316 CTGCTTTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
24 11 0.31
25 1 0.03
26 4 0.11
27 12 0.33
28 8 0.22
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (28 bp):
TATTTTTATTATTTATTTAATATATTAA
Found at i:18115300 original size:32 final size:33
Alignment explanation
Indices: 18115241--18115302 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
18115231 CCCCAATGGG
* *
18115241 TTTTTTATTTTTATTTTCATTATTTAATATATA
1 TTTTTTATATTTATTTTAATTATTTAATATATA
18115274 TTTTTTATATTTA-TTTAATCTA-TTAATAT
1 TTTTTTATATTTATTTTAAT-TATTTAATAT
18115303 TTTTATTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
32 12 0.46
33 14 0.54
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (33 bp):
TTTTTTATATTTATTTTAATTATTTAATATATA
Found at i:18115348 original size:17 final size:19
Alignment explanation
Indices: 18115328--18115362 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
18115318 GCTTTTATTT
18115328 TTTATCT-ATT-TCTTTTA
1 TTTATCTAATTATCTTTTA
18115345 TTTATCTAATTATCTTTT
1 TTTATCTAATTATCTTTT
18115363 TTTGTTATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 3 0.19
19 6 0.38
ACGTcount: A:0.20, C:0.11, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTATCTAATTATCTTTTA
Found at i:18115370 original size:25 final size:24
Alignment explanation
Indices: 18115329--18115378 Score: 57
Period size: 25 Copynumber: 2.0 Consensus size: 24
18115319 CTTTTATTTT
*
18115329 TTATCTATTTCTTTTATTTATCTAA
1 TTATCTATTTCTTTTATCTAT-TAA
*
18115354 TTATCT-TTTTTTGTTATCTATTAA
1 TTATCTATTTCTT-TTATCTATTAA
18115378 T
1 T
18115379 ATATTTATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 9 0.41
25 13 0.59
ACGTcount: A:0.22, C:0.10, G:0.02, T:0.66
Consensus pattern (24 bp):
TTATCTATTTCTTTTATCTATTAA
Found at i:18115596 original size:18 final size:19
Alignment explanation
Indices: 18115573--18115608 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
18115563 GAATAGAAGA
18115573 AGACACACAG-AGAAACAC
1 AGACACACAGAAGAAACAC
*
18115591 AGACACAGAGAAGAAACA
1 AGACACACAGAAGAAACA
18115609 GAAGCTGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.58, C:0.22, G:0.19, T:0.00
Consensus pattern (19 bp):
AGACACACAGAAGAAACAC
Found at i:18115787 original size:5 final size:5
Alignment explanation
Indices: 18115766--18115832 Score: 50
Period size: 6 Copynumber: 12.8 Consensus size: 5
18115756 TTTAATATTC
*
18115766 TTTTA TTTTTA TCTTTA TTTTA CTTTT- CTTTA TTTTTA TTTTGA TTTTGA
1 TTTTA -TTTTA T-TTTA TTTTA -TTTTA TTTTA -TTTTA TTTT-A TTTT-A
18115816 TTTTA --TTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTT
18115833 CTTTAAATAA
Statistics
Matches: 52, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
3 3 0.06
4 3 0.06
5 17 0.33
6 29 0.56
ACGTcount: A:0.16, C:0.04, G:0.03, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:18115803 original size:21 final size:20
Alignment explanation
Indices: 18115773--18115837 Score: 69
Period size: 21 Copynumber: 3.2 Consensus size: 20
18115763 TTCTTTTATT
*
18115773 TTTATCTTTATTTTACTTTTC
1 TTTATTTTTATTTTA-TTTTC
*
18115794 TTTATTTTTATTTTGATTTTG
1 TTTATTTTTATTTT-ATTTTC
* *
18115815 ATT-TTATTATTTTATTTTC
1 TTTATTTTTATTTTATTTTC
18115834 TTTA
1 TTTA
18115838 AATAAAATTA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
19 7 0.19
20 9 0.25
21 19 0.53
22 1 0.03
ACGTcount: A:0.17, C:0.06, G:0.03, T:0.74
Consensus pattern (20 bp):
TTTATTTTTATTTTATTTTC
Found at i:18115819 original size:27 final size:25
Alignment explanation
Indices: 18115766--18115832 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 25
18115756 TTTAATATTC
18115766 TTTTATTTTTATCTTTATTTTACTTT
1 TTTTATTTTTAT-TTTATTTTACTTT
18115792 TCTTTATTTTTATTTTGATTTTGA-TTT
1 T-TTTATTTTTATTTT-ATTTT-ACTTT
*
18115819 TATTA-TTTTATTTT
1 TTTTATTTTTATTTT
18115833 CTTTAAATAA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
25 9 0.24
26 7 0.19
27 20 0.54
28 1 0.03
ACGTcount: A:0.16, C:0.04, G:0.03, T:0.76
Consensus pattern (25 bp):
TTTTATTTTTATTTTATTTTACTTT
Found at i:18116098 original size:58 final size:57
Alignment explanation
Indices: 18115849--18116525 Score: 633
Period size: 58 Copynumber: 11.7 Consensus size: 57
18115839 ATAAAATTAA
* * *
18115849 AAAAATATATTTTTGAGAAAAAGTT-AAAGTATCAATTTTCCTC-GAATTAAAGTTTCC
1 AAAAA-ATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAGTTTCC
* * * * * *
18115906 ATAAAATATTTTTTAAGAAAAAG-TGAAAGTATCAATTTTCCTTAAAAATAAATTTTTC
1 AAAAAATA-TTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAGTTTCC
* * * * *
18115964 AAAAAA-GTTTTTGAGAAAA-TTAAAAGTATCAATTTTCCT---AAATAAATTTTCA
1 AAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAGTTTCC
* * *
18116016 AAAAAGATTTTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTCAAAACTAAAGTTTCC
1 AAAAA-ATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAGTTTCC
* * * *
18116075 AAAAACTATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAA-TTTTC
1 AAAAAATATTTTTGGG-AAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAGTTTCC
* * * *
18116132 AAAAAAGGT-TTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAATTTTCA
1 AAAAAA--TATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAGTTTCC
* * *
18116191 AAAAAGATTTTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTCAAAACTAAAGTTTCC
1 AAAAA-ATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAGTTTCC
* * * *
18116250 AAAAACTATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAA-TTTTC
1 AAAAAATATTTTTGGG-AAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAGTTTCC
** * * *
18116307 AAAAAA-GGTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTCC
1 AAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAGTTTCC
* * * * *
18116364 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCTTTAAGAATAAATTTTCAAAA
1 AAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAGTTTC---C
* * * * *
18116425 AAAAAGATTTTTTTTGAGGAAAAATTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCT
1 AAAAA-A-TATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAGTTTCC
*
18116485 AAAAAATATTTTGGGGAGAAA-TTGAAAGTATCAATTTTCCT
1 AAAAAATATTTTTGGGA-AAAGTTGAAAGTATCAATTTTCCT
18116526 TGTACAAAAC
Statistics
Matches: 514, Mismatches: 75, Indels: 62
0.79 0.12 0.10
Matches are distributed among these distances:
52 16 0.03
53 1 0.00
54 6 0.01
55 27 0.05
56 64 0.12
57 90 0.18
58 179 0.35
59 77 0.15
60 6 0.01
61 5 0.01
62 2 0.00
63 41 0.08
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.36
Consensus pattern (57 bp):
AAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAGTTTCC
Found at i:18116227 original size:175 final size:171
Alignment explanation
Indices: 18115848--18116526 Score: 815
Period size: 175 Copynumber: 3.9 Consensus size: 171
18115838 AATAAAATTA
* * * * *
18115848 AAAAAATATATTTTTGAGAAAAAGTT-AAAGTATCAATTTTCCTC-GAATTAAAGTTTCCATAAA
1 AAAAAAGATATTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTCAAAACTAAAGTTTCCA-AAA
**
18115911 A-TATTTTTTAAGAAAAAG-TGAAAGTATCAATTTTCCTTAAAAATAAATTTTTCAAAAAAGTTT
65 ACTA-TTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTTTCAAAAAAGTTT
18115974 TTGA-GAAAATTAAAAGTATCAATTTTCC-T-AAATAAATTTTC
128 TTGAGGAAAATTAAAAGTATCAATTTTCCTTAAAATAAATTTTC
*
18116015 AAAAAAGATTTTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTCAAAACTAAAGTTTCCAAAAA
1 AAAAAAGATATTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTCAAAACTAAAGTTTCCAAAAA
*
18116080 CTATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAGGTTTTT
66 CTATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAA-G-TTTT
18116145 TGAGGAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAATTTTC
129 TGAGGAAAA-TTAAAAGTATCAATTTTCCTT-AAAATAAATTTTC
*
18116190 AAAAAAGATTTTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTCAAAACTAAAGTTTCCAAAAA
1 AAAAAAGATATTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTCAAAACTAAAGTTTCCAAAAA
* *
18116255 CTATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAGGTTTTG
66 CTATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAGTTTTTG
* * * * *
18116320 AGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTC
131 AGGAAAA-TTAAAAGTATCAATTTTCCT-TAAAATAAATTTTC
* * * * *
18116363 CAAAAA-ATATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTCTTTAAGAA-TAAATTTTCAAAA
1 AAAAAAGATATTTTTGA-GGAAAAGTTGAAAATATCAATTTTCCTCAA-AACTAAAGTTTC----
* * * ** * *
18116425 AAAAAGATTTTTTTTGAGGAAAAA-TTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCTAAAA
60 CAAAA-ACTATTTTTG-GGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC-AAAA
* *
18116489 AA-TATTTTGGGGAGAAATTGAAAGTATCAATTTTCCTT
122 AAGT-TTTTGAGGA-AAATTAAAAGTATCAATTTTCCTT
18116527 GTACAAAACG
Statistics
Matches: 456, Mismatches: 33, Indels: 36
0.87 0.06 0.07
Matches are distributed among these distances:
167 23 0.05
168 44 0.10
169 44 0.10
170 7 0.02
171 6 0.01
172 61 0.13
173 50 0.11
174 1 0.00
175 135 0.30
176 4 0.01
177 38 0.08
178 40 0.09
179 3 0.01
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.36
Consensus pattern (171 bp):
AAAAAAGATATTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTCAAAACTAAAGTTTCCAAAAA
CTATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAGTTTTTG
AGGAAAATTAAAAGTATCAATTTTCCTTAAAATAAATTTTC
Found at i:18116558 original size:121 final size:117
Alignment explanation
Indices: 18115858--18116523 Score: 678
Period size: 114 Copynumber: 5.8 Consensus size: 117
18115848 AAAAAATATA
*
18115858 TTTTTGA-GAAAAAGTT-AAAGTATCAATTTTCCTCG-AATTAAAGTTTCCATAAAATATTTTTT
1 TTTTTGAGGAAAAA-TTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCCAAAAAATA-TTTTT
* * * *
18115920 AAGAAAAAG-TGAAAGTATCAATTTTCCTTAAAAATAAATTTTTCAAAAA-A--G
64 AGGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAA-TTTTCAAAAAGATTT
* * * *
18115971 TTTTTGA-G-AAAATTAAAAGTATCAATTTTCCT--AAA-TAAA-TTTTCAAAAAAGATTTTTTT
1 TTTTTGAGGAAAAATTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCCAAAAAATA-TTTTTA
* * * * * * * *
18116030 GAGGAAAAGTTGAAAATATCAATTTTCCTCAAAACTAAAGTTTCCAAAA-ACTA
65 G-GGAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAATTTTCAAAAAGATTT
* ** * * ** *
18116083 TTTTTG-GGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAA-TTTTCAAAAAAGGTTTTTT
1 TTTTTGAGGAAAAA-TTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCCAAAAAATATTTTTA
* *
18116146 GAGGAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAGA-TT
65 G-GGAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAATTTTC-AAAAAGATTT
* * * * *
18116200 TTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTCAAAACTAAAGTTTCCAAAAACTATTTTT-G
1 TTTTTGAGGAAAAATTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCCAAAAAATATTTTTAG
*
18116264 GGAAAAAGTTGAAAGTATCAATTTT-TCTTAAAAATAAATTTTCAAAAA-A--G
66 GG-AAAAGTTGAAAGTATCAATTTTCT-TTAAAAATAAATTTTCAAAAAGATTT
* * *
18116314 GTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTCCAAAAAATATTTTTAG
1 TTTTTGAGGAAAAATTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCCAAAAAATATTTTTAG
*
18116379 GGAAAAGTTGAAAGTATCAATTTTCTTTAAGAATAAATTTTCAAAAAAAAAGATTT
66 GGAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAATTTTC----AAAAAGATTT
* *
18116435 TTTTTGAGGAAAAATTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCTAAAAAATA-TTTTGG
1 TTTTTGAGGAAAAATTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCCAAAAAATATTTTTAG
18116499 GGAGAAA-TTGAAAGTATCAATTTTC
66 GGA-AAAGTTGAAAGTATCAATTTTC
18116524 CTTGTACAAA
Statistics
Matches: 478, Mismatches: 47, Indels: 49
0.83 0.08 0.09
Matches are distributed among these distances:
109 16 0.03
110 19 0.04
111 30 0.06
112 28 0.06
113 12 0.03
114 112 0.23
115 5 0.01
116 55 0.12
117 91 0.19
118 26 0.05
119 1 0.00
120 26 0.05
121 57 0.12
ACGTcount: A:0.43, C:0.08, G:0.12, T:0.36
Consensus pattern (117 bp):
TTTTTGAGGAAAAATTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCCAAAAAATATTTTTAG
GGAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAATTTTCAAAAAGATTT
Found at i:18120317 original size:11 final size:11
Alignment explanation
Indices: 18120301--18120325 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
18120291 AACAATGGAT
18120301 GAAAAAAAAAA
1 GAAAAAAAAAA
18120312 GAAAAAAAAAA
1 GAAAAAAAAAA
18120323 GAA
1 GAA
18120326 GATGATGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (11 bp):
GAAAAAAAAAA
Found at i:18120377 original size:17 final size:19
Alignment explanation
Indices: 18120357--18120404 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
18120347 GAAAAAATGG
*
18120357 AAAAAAAAGAAA-GA-AAA
1 AAAAAAAAAAAATGAGAAA
18120374 AAAATAAAAAAAATGAGAAA
1 AAAA-AAAAAAAATGAGAAA
18120394 ATAAAAAAAAA
1 A-AAAAAAAAA
18120405 TTCAAATTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 4 0.15
18 7 0.27
19 2 0.08
20 10 0.38
21 3 0.12
ACGTcount: A:0.85, C:0.00, G:0.08, T:0.06
Consensus pattern (19 bp):
AAAAAAAAAAAATGAGAAA
Found at i:18121539 original size:22 final size:21
Alignment explanation
Indices: 18121514--18121571 Score: 73
Period size: 21 Copynumber: 2.7 Consensus size: 21
18121504 GAATATTTTG
*
18121514 ATGAGAATTTTTGAGAACTC-AA
1 ATGAGAATCTTTGAG--CTCAAA
*
18121536 ATGAGAATCTTTGAGTTCAAA
1 ATGAGAATCTTTGAGCTCAAA
18121557 ATGAGAATCTTTGAG
1 ATGAGAATCTTTGAG
18121572 GAGTGAAACC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
20 2 0.06
21 17 0.52
22 14 0.42
ACGTcount: A:0.38, C:0.09, G:0.21, T:0.33
Consensus pattern (21 bp):
ATGAGAATCTTTGAGCTCAAA
Found at i:18122521 original size:42 final size:41
Alignment explanation
Indices: 18122084--18122589 Score: 464
Period size: 42 Copynumber: 12.1 Consensus size: 41
18122074 ATGATTGTCA
* * * * * *
18122084 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCCATTTATTTTTCAAAGTTGTTGAGCCTCTGATTAG
* * * *
18122125 AGGAGCAATTTATTTTCCAAAGTTGTGGTGCCTCT-ATTTAG
1 AGGAGCCATTTATTTTTCAAAGTTGTTGAGCCTCTGA-TTAG
* * ** *
18122166 AGGAGCAATTTATTTTTCAAAAATTGAGGTGCCTCT-ATTTAG
1 AGGAGCCATTTATTTTTC-AAAGTTGTTGAGCCTCTGA-TTAG
* * * * *
18122208 AGGAACAATTTTCTTTTTCAAAGTTGTGGTGCCTCT-ATTTAG
1 AGGAGCCA-TTTATTTTTCAAAGTTGTTGAGCCTCTGA-TTAG
* * *
18122250 AGGAGCAATTTATTTTCCAAAGTTG-TGAGCCTCTGATTAA
1 AGGAGCCATTTATTTTTCAAAGTTGTTGAGCCTCTGATTAG
** *
18122290 AGGAGCCATTTATTTTTTCAAAGTCATTGAGCCTCTGATTAA
1 AGGAGCCATTTA-TTTTTCAAAGTTGTTGAGCCTCTGATTAG
* *
18122332 AAGAGCCGTTTA-TTTTCAAAGTTGTTGAGCCTCTGATTAG
1 AGGAGCCATTTATTTTTCAAAGTTGTTGAGCCTCTGATTAG
* *
18122372 AGGAGCCATTTATTTTTTCAAAGTCGTTGAGCTTCTGATTAG
1 AGGAGCCATTTA-TTTTTCAAAGTTGTTGAGCCTCTGATTAG
* * *
18122414 AGGAGCCATTTATTTTTTTAAAGTTGTTAAGCCTCTGATTAA
1 AGGAGCCATTTA-TTTTTCAAAGTTGTTGAGCCTCTGATTAG
*
18122456 AGGAGCCATTTATTTTTTCAAAGTTATTGAGCCTCTGATTAG
1 AGGAGCCATTTA-TTTTTCAAAGTTGTTGAGCCTCTGATTAG
* ** * *
18122498 ATGAGCCATTTATTTTTCAAAAGTCATTGAGTCTCTGATTAT
1 AGGAGCCATTTATTTTTC-AAAGTTGTTGAGCCTCTGATTAG
** * *
18122540 AGGAGCTTTGTTATGTTTCTCAAAGTTGTTAAGCCTCTGCTTAG
1 AGGAGCCAT-TTAT-TTT-TCAAAGTTGTTGAGCCTCTGATTAG
*
18122584 AAGAGC
1 AGGAGC
18122590 TTTAATCAAA
Statistics
Matches: 400, Mismatches: 53, Indels: 21
0.84 0.11 0.04
Matches are distributed among these distances:
40 56 0.14
41 85 0.21
42 219 0.55
43 13 0.03
44 25 0.06
45 2 0.00
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.39
Consensus pattern (41 bp):
AGGAGCCATTTATTTTTCAAAGTTGTTGAGCCTCTGATTAG
Found at i:18122624 original size:16 final size:16
Alignment explanation
Indices: 18122605--18122654 Score: 75
Period size: 17 Copynumber: 3.1 Consensus size: 16
18122595 TCAAAATTTT
18122605 AACAAAA-AAAAAACAA
1 AACAAAACAAAAAA-AA
18122621 AACAAAACAAAAAAAA
1 AACAAAACAAAAAAAA
18122637 AACAAAAACAAAAAAAA
1 AAC-AAAACAAAAAAAA
18122654 A
1 A
18122655 TGTCAAGTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
16 12 0.38
17 20 0.62
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (16 bp):
AACAAAACAAAAAAAA
Found at i:18122630 original size:21 final size:22
Alignment explanation
Indices: 18122605--18122654 Score: 86
Period size: 21 Copynumber: 2.4 Consensus size: 22
18122595 TCAAAATTTT
18122605 AACAAAAAAAAAAC-AAAACAA
1 AACAAAAAAAAAACAAAAACAA
18122626 AACAAAAAAAAAACAAAAACAA
1 AACAAAAAAAAAACAAAAACAA
18122648 AA-AAAAA
1 AACAAAAA
18122655 TGTCAAGTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 19 0.68
22 9 0.32
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (22 bp):
AACAAAAAAAAAACAAAAACAA
Found at i:18122861 original size:12 final size:13
Alignment explanation
Indices: 18122844--18122911 Score: 52
Period size: 14 Copynumber: 5.1 Consensus size: 13
18122834 CCCAATGGAT
18122844 TTTTTATT-TTTA
1 TTTTTATTATTTA
18122856 TTTTTATTATTTAA
1 TTTTTATTATTT-A
* *
18122870 TATATATTATATT-
1 TTTTTATTAT-TTA
18122883 TTTTTATCTATTAATA
1 TTTTTAT-TATT--TA
18122899 TTTTT-TTATTTA
1 TTTTTATTATTTA
18122911 T
1 T
18122912 CTGCTTTTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 14
0.71 0.06 0.22
Matches are distributed among these distances:
12 11 0.24
13 9 0.20
14 16 0.36
15 4 0.09
16 5 0.11
ACGTcount: A:0.26, C:0.01, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTTATTATTTA
Found at i:18122894 original size:17 final size:18
Alignment explanation
Indices: 18122874--18122907 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
18122864 ATTTAATATA
18122874 TATT-ATATTTTTTTATC
1 TATTAATATTTTTTTATC
18122891 TATTAATATTTTTTTAT
1 TATTAATATTTTTTTAT
18122908 TTATCTGCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (18 bp):
TATTAATATTTTTTTATC
Found at i:18122954 original size:17 final size:19
Alignment explanation
Indices: 18122934--18122968 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
18122924 TTAATTATTT
18122934 TTTATCT-ATT-TCTTTTA
1 TTTATCTAATTATCTTTTA
18122951 TTTATCTAATTATCTTTT
1 TTTATCTAATTATCTTTT
18122969 TTTTGTTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 3 0.19
19 6 0.38
ACGTcount: A:0.20, C:0.11, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTATCTAATTATCTTTTA
Found at i:18122955 original size:66 final size:65
Alignment explanation
Indices: 18122851--18122979 Score: 156
Period size: 66 Copynumber: 2.0 Consensus size: 65
18122841 GATTTTTTAT
18122851 TTTTATTTTTATTATTTAATATATATTATATTTTTTTATCT-ATTAATATTTTTTTAT-TTATCT
1 TTTTATTTTTATTATTTAATATATATTATATTTTTTTATCTAATT-ATATTTTTTT-TGTTATCT
18122914 GC
64 GC
** * * *
18122916 TTTTATTTTTAATTATTTTTTATCTATT-TCTTTTATTTATCTAATTATCTTTTTTTTGTTATCT
1 TTTTATTTTT-ATTATTTAATATATATTATATTTT-TTTATCTAATTATATTTTTTTTGTTATCT
18122980 ATTAATATCT
Statistics
Matches: 55, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
65 16 0.29
66 36 0.65
67 3 0.05
ACGTcount: A:0.22, C:0.06, G:0.02, T:0.70
Consensus pattern (65 bp):
TTTTATTTTTATTATTTAATATATATTATATTTTTTTATCTAATTATATTTTTTTTGTTATCTGC
Found at i:18123383 original size:6 final size:6
Alignment explanation
Indices: 18123372--18123438 Score: 55
Period size: 6 Copynumber: 10.5 Consensus size: 6
18123362 TTTAATATTC
* *
18123372 TTTTAT TTTTAT CTTTA- TTTTAC TTTTACTT TTCCTTAT TTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTA--T TT--TTAT TTTTAT TTTTAT
*
18123423 TTTTTT ATTTTAT TTT
1 TTTTAT -TTTTAT TTT
18123439 CTTTAAATAA
Statistics
Matches: 50, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
5 4 0.08
6 33 0.66
7 5 0.10
8 5 0.10
10 3 0.06
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:18123433 original size:13 final size:14
Alignment explanation
Indices: 18123410--18123443 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
18123400 CTTTTCCTTA
18123410 TTTTTATTTTTATT
1 TTTTTATTTTTATT
18123424 TTTTTA-TTTTATT
1 TTTTTATTTTTATT
18123437 TTCTTTA
1 TT-TTTA
18123444 AATAAAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.47
14 10 0.53
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTTTATTTTTATT
Found at i:18123535 original size:58 final size:57
Alignment explanation
Indices: 18123455--18123840 Score: 363
Period size: 58 Copynumber: 6.7 Consensus size: 57
18123445 ATAAAATTAA
*
18123455 AAAAATATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCC
1 AAAAA-ATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCC
* ** * *
18123514 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAA-TTTTC
1 AAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCC
* *
18123571 AAAAAAGGTTTTTTTGAGGAAAAGTTGAAAGTATCAAATTTTCGT-GAAATTAAAGTTTCC
1 AAAAAA--TATTTTTG-GGAAAAGTTGAAAGTATC-AATTTTCCTCGAAATTAAAGTTTCC
* * * * *
18123631 AAAAACTA-CTTT----AAAGTTGAAAGTATCAATTTTTCTCGTAACTAAAGTTTCC
1 AAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCC
* ** * * **
18123683 AAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAATTTTTGA
1 AAAAAATATTTTTGGG-AAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAA-GTTTCC
* * * *
18123742 AAAAAAGGTTTTTTTTTAGGAAAAGTTAAAAGTATCAATTTTCCTCGAAATTAAAGTTTCT
1 AAAAAA----TATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCC
* * *
18123803 AAAAAATATTTTGGGGAGAAGTTGAAAGTATTAATTTT
1 AAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTT
18123841 TCCTGTACAA
Statistics
Matches: 263, Mismatches: 46, Indels: 38
0.76 0.13 0.11
Matches are distributed among these distances:
51 7 0.03
52 35 0.13
53 3 0.01
57 39 0.15
58 70 0.27
59 46 0.17
60 16 0.06
61 9 0.03
62 30 0.11
63 8 0.03
ACGTcount: A:0.42, C:0.07, G:0.13, T:0.37
Consensus pattern (57 bp):
AAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCC
Found at i:18123730 original size:169 final size:172
Alignment explanation
Indices: 18123474--18123807 Score: 527
Period size: 169 Copynumber: 2.0 Consensus size: 172
18123464 TTTTTGAGAA
*
18123474 AAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCCAAAAAATATTTTTAGGGAAAAGTTG
1 AAAGTTGAAAGTATCAATTTTCCTCGAAACTAAAGTTTCCAAAAAATATTTTTAGGGAAAAGTTG
* *
18123539 AAAGTATCAATTTTTCTTAAAAATAAA-TTTT-CAAAAAAGG-TTTTTTTGAGGAAAAGTTGAAA
66 AAAGTATCAATTTTTCTTAAAAATAAATTTTTGAAAAAAAGGTTTTTTTTGAGGAAAAGTTAAAA
*
18123601 GTATCAAATTTTCGT-GAAATTAAAGTTTCCAAAAACTACTTT
131 GTATC-AATTTTCCTCGAAATTAAAGTTTCCAAAAACTACTTT
* *
18123643 AAAGTTGAAAGTATCAATTTTTCTCGTAACTAAAGTTTCCAAAAAATATTTTT-GGGAAAAAGTT
1 AAAGTTGAAAGTATCAATTTTCCTCGAAACTAAAGTTTCCAAAAAATATTTTTAGGG-AAAAGTT
*
18123707 GAAAGTATCAA-TTTTCTTTAAAAATAAATTTTTGAAAAAAAGGTTTTTTTTTAGGAAAAGTTAA
65 GAAAGTATCAATTTTTC-TTAAAAATAAATTTTTGAAAAAAAGGTTTTTTTTGAGGAAAAGTTAA
*
18123771 AAGTATCAATTTTCCTCGAAATTAAAGTTTCTAAAAA
129 AAGTATCAATTTTCCTCGAAATTAAAGTTTCCAAAAA
18123808 ATATTTTGGG
Statistics
Matches: 151, Mismatches: 8, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
168 8 0.05
169 79 0.52
170 4 0.03
171 16 0.11
172 44 0.29
ACGTcount: A:0.42, C:0.08, G:0.13, T:0.37
Consensus pattern (172 bp):
AAAGTTGAAAGTATCAATTTTCCTCGAAACTAAAGTTTCCAAAAAATATTTTTAGGGAAAAGTTG
AAAGTATCAATTTTTCTTAAAAATAAATTTTTGAAAAAAAGGTTTTTTTTGAGGAAAAGTTAAAA
GTATCAATTTTCCTCGAAATTAAAGTTTCCAAAAACTACTTT
Found at i:18124775 original size:17 final size:18
Alignment explanation
Indices: 18124739--18124776 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
18124729 AAAAAGATTT
* *
18124739 TTTTATTTTTTTGTTTTA
1 TTTTATTTTTATGTTGTA
18124757 TTTTATTTTTAT-TTGTA
1 TTTTATTTTTATGTTGTA
18124774 TTT
1 TTT
18124777 GTCTAAAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.13, C:0.00, G:0.05, T:0.82
Consensus pattern (18 bp):
TTTTATTTTTATGTTGTA
Found at i:18124931 original size:16 final size:17
Alignment explanation
Indices: 18124892--18124933 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
18124882 AAAAACTAGT
*
18124892 AAAAT-AAAAGAAATTG
1 AAAATAAAAACAAATTG
18124908 AAAATAAAAACAAATT-
1 AAAATAAAAACAAATTG
*
18124924 AAATTAAAAA
1 AAAATAAAAA
18124934 AATAAAGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.19
Consensus pattern (17 bp):
AAAATAAAAACAAATTG
Found at i:18125410 original size:3 final size:3
Alignment explanation
Indices: 18125402--18125537 Score: 146
Period size: 3 Copynumber: 47.3 Consensus size: 3
18125392 CAGAAAAGCG
* * *
18125402 AAT AAT AAT AAT GAT AAT -CT AAT AAT AAT AAT AGT AAT AACT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT
*
18125446 AAT AAT -AT ACCAT AGT -AT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT A--AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
18125491 AAT AAT AAT AAT AAT AAT AAT -AT AAT -AT AAT -AT AAT -AT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
18125534 AAT A
1 AAT A
18125538 TAACAAAAAA
Statistics
Matches: 113, Mismatches: 8, Indels: 24
0.78 0.06 0.17
Matches are distributed among these distances:
2 15 0.13
3 94 0.83
4 1 0.01
5 3 0.03
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:18125840 original size:42 final size:42
Alignment explanation
Indices: 18125779--18125887 Score: 175
Period size: 42 Copynumber: 2.6 Consensus size: 42
18125769 CACCCTCAAG
* *
18125779 ATCAGGATCATCTCTTTTTAATTGTGTCCCAATACTCTCGAT
1 ATCAGGATCATCTCCTTTTAATTGTGTCCCAACACTCTCGAT
18125821 ATCAGGATCATCTCCTTTTAATTGTGTCCCAACACTCTCGAT
1 ATCAGGATCATCTCCTTTTAATTGTGTCCCAACACTCTCGAT
*
18125863 ATCAGGATCAT-TTCTTCTTAATTGT
1 ATCAGGATCATCTCCTT-TTAATTGT
18125888 ACCTGAACAA
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
41 4 0.06
42 59 0.94
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.40
Consensus pattern (42 bp):
ATCAGGATCATCTCCTTTTAATTGTGTCCCAACACTCTCGAT
Found at i:18136620 original size:34 final size:34
Alignment explanation
Indices: 18136582--18136667 Score: 120
Period size: 34 Copynumber: 2.5 Consensus size: 34
18136572 TTGTTCTTTA
* *
18136582 AATCATCGTCCATCACATACTAGTAA-AGTAGTCC
1 AATCATCGTCCATCACAGACTAGTAAGA-CAGTCC
18136616 AATCATCGTCCATCACAGACTAGTAAGACAGTCC
1 AATCATCGTCCATCACAGACTAGTAAGACAGTCC
**
18136650 AATCATCACCCATCACAG
1 AATCATCGTCCATCACAG
18136668 GCTACTAACA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
34 46 0.98
35 1 0.02
ACGTcount: A:0.36, C:0.30, G:0.12, T:0.22
Consensus pattern (34 bp):
AATCATCGTCCATCACAGACTAGTAAGACAGTCC
Found at i:18137748 original size:13 final size:13
Alignment explanation
Indices: 18137730--18137755 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18137720 TTCAACCCAA
18137730 ATTTTTATTTTTT
1 ATTTTTATTTTTT
18137743 ATTTTTATTTTTT
1 ATTTTTATTTTTT
18137756 TGTTTGAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
ATTTTTATTTTTT
Found at i:18137979 original size:22 final size:23
Alignment explanation
Indices: 18137944--18138002 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
18137934 TTTAATAATG
18137944 AAAAAAAAACTAAA-AAAACACAT
1 AAAAAAAAACTAAACAAAACAC-T
* *
18137967 AAAAATAAA-TAAACAAAATACT
1 AAAAAAAAACTAAACAAAACACT
*
18137989 AAAAAAAACCTAAA
1 AAAAAAAAACTAAA
18138003 AAATTACCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 12 0.40
23 18 0.60
ACGTcount: A:0.76, C:0.12, G:0.00, T:0.12
Consensus pattern (23 bp):
AAAAAAAAACTAAACAAAACACT
Found at i:18138019 original size:34 final size:34
Alignment explanation
Indices: 18137944--18138020 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 34
18137934 TTTAATAATG
*
18137944 AAAAAAAA-ACTAAAAAAACACATAAAAATAAAT
1 AAAAAAAATACTAAAAAAACACATAAAAATAAAC
* * * *
18137977 AAACAAAATACTAAAAAAA-ACCTAAAAAATTACC
1 AAAAAAAATACTAAAAAAACACAT-AAAAATAAAC
18138011 AAAAAAAATA
1 AAAAAAAATA
18138021 AAACGGCTCG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
33 10 0.28
34 26 0.72
ACGTcount: A:0.75, C:0.12, G:0.00, T:0.13
Consensus pattern (34 bp):
AAAAAAAATACTAAAAAAACACATAAAAATAAAC
Found at i:18139096 original size:21 final size:21
Alignment explanation
Indices: 18139055--18139096 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
18139045 TAAAAAACAT
*
18139055 AAAATGAATAAATAAGTAATG
1 AAAATGAATAAATAAGAAATG
*
18139076 AAAATTAAGTAAATAA-AAATG
1 AAAATGAA-TAAATAAGAAATG
18139097 TTTTTTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (21 bp):
AAAATGAATAAATAAGAAATG
Found at i:18139441 original size:14 final size:14
Alignment explanation
Indices: 18139422--18139448 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
18139412 AAAAAAGTTC
18139422 AAATTAATTTTAAG
1 AAATTAATTTTAAG
18139436 AAATTAATTTTAA
1 AAATTAATTTTAA
18139449 ATATAAAAAA
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:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (14 bp):
AAATTAATTTTAAG
Found at i:18140064 original size:42 final size:42
Alignment explanation
Indices: 18139975--18140533 Score: 350
Period size: 42 Copynumber: 13.2 Consensus size: 42
18139965 AGATCTATCT
* * * * * * *
18139975 ACTTAATTGCATCTCAGCACCCTCAAGATCAAGATCTTTTTC
1 ACTTAATTGTATCTCAACACCTTCAAGATCAGGATCATCTCC
18140017 ACTTAATTGTATCTCAACACCTTCAAGATCAGGATCATCTCC
1 ACTTAATTGTATCTCAACACCTTCAAGATCAGGATCATCTCC
* * *
18140059 GCTTAACTGTATCTCAACACCTTCAGGATC---ATC-TCTACC
1 ACTTAATTGTATCTCAACACCTTCAAGATCAGGATCATCT-CC
* * * **
18140098 ACTTAATGGTATCTTAACACCCTC-AGAATCAAAATCATCTCC
1 ACTTAATTGTATCTCAACACCTTCAAG-ATCAGGATCATCTCC
* * *
18140140 ACTTAACTGTATCTCGACACCCTT-AGGATCAGGATCATCTCC
1 ACTTAATTGTATCTCAACA-CCTTCAAGATCAGGATCATCTCC
* * * *
18140182 ACTTAACTGTATCTCAACACCTTTAGGATTAGGATCATCTCTACC
1 ACTTAATTGTATCTCAACACCTTCAAGATCAGGATCA--TCT-CC
* * * *
18140227 ACTTAACTGTATCTCAACACCTTTAGGATTAGGATCATCTCTACC
1 ACTTAATTGTATCTCAACACCTTCAAGATCAGGATCA--TCT-CC
* * * *
18140272 ACTTAACTGTATCTTAACACCCTT-AGGATCAGGATCATCTAC
1 ACTTAATTGTATCTCAACA-CCTTCAAGATCAGGATCATCTCC
* * * *
18140314 ACTTAACTCTA-CTTCAACACCCTCAGGATCAGGATCATCTCC
1 ACTTAATTGTATC-TCAACACCTTCAAGATCAGGATCATCTCC
* * * * * * *
18140356 TCTTAATTGTGTATCAATA-CTCTCAATATCAAGATCATCTCT
1 ACTTAATTGTATCTCAACACCT-TCAAGATCAGGATCATCTCC
* * * *
18140398 TCTTAATTGTGTCTCAACA-CTCTCGATATCAGGATCATCTCC
1 ACTTAATTGTATCTCAACACCT-TCAAGATCAGGATCATCTCC
* * * * * * * * *
18140440 TCTTAATTGTGTATCAATA-CTCTCGATATGAAGATCATCTCT
1 ACTTAATTGTATCTCAACACCT-TCAAGATCAGGATCATCTCC
* ** * * *
18140482 TCTTAATTGTGCCTCAACA-CTCTCCATATTAGGATCATCTCC
1 ACTTAATTGTATCTCAACACCT-TCAAGATCAGGATCATCTCC
*
18140524 TCTTAATTGT
1 ACTTAATTGT
18140534 GTATCAATAC
Statistics
Matches: 439, Mismatches: 61, Indels: 34
0.82 0.11 0.06
Matches are distributed among these distances:
38 4 0.01
39 27 0.06
41 9 0.02
42 305 0.69
43 10 0.02
44 3 0.01
45 77 0.18
46 4 0.01
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.33
Consensus pattern (42 bp):
ACTTAATTGTATCTCAACACCTTCAAGATCAGGATCATCTCC
Found at i:18140233 original size:45 final size:43
Alignment explanation
Indices: 18140016--18140361 Score: 376
Period size: 42 Copynumber: 8.2 Consensus size: 43
18140006 AGATCTTTTT
* *
18140016 CACTTAATTGTATCTCAACA-CCTTCAAGATCAGGATCATCT-C
1 CACTTAACTGTATCTCAACACCCTT-AGGATCAGGATCATCTAC
*
18140058 CGCTTAACTGTATCTCAACA-CCTTCAGGATC---ATC-TCTAC
1 CACTTAACTGTATCTCAACACCCTT-AGGATCAGGATCATCTAC
* * * **
18140097 CACTTAA-TGGTATCTTAACACCCTCAGAATCAAAATCATCT-C
1 CACTTAACT-GTATCTCAACACCCTTAGGATCAGGATCATCTAC
*
18140139 CACTTAACTGTATCTCGACACCCTTAGGATCAGGATCATCT-C
1 CACTTAACTGTATCTCAACACCCTTAGGATCAGGATCATCTAC
* *
18140181 CACTTAACTGTATCTCAACACCTTTAGGATTAGGATCATCTCTAC
1 CACTTAACTGTATCTCAACACCCTTAGGATCAGGATCA--TCTAC
* *
18140226 CACTTAACTGTATCTCAACACCTTTAGGATTAGGATCATCTCTAC
1 CACTTAACTGTATCTCAACACCCTTAGGATCAGGATCA--TCTAC
*
18140271 CACTTAACTGTATCTTAACACCCTTAGGATCAGGATCATCTA-
1 CACTTAACTGTATCTCAACACCCTTAGGATCAGGATCATCTAC
* *
18140313 CACTTAACTCTA-CTTCAACACCCTCAGGATCAGGATCATCT-C
1 CACTTAACTGTATC-TCAACACCCTTAGGATCAGGATCATCTAC
*
18140355 CTCTTAA
1 CACTTAA
18140362 TTGTGTATCA
Statistics
Matches: 268, Mismatches: 23, Indels: 26
0.85 0.07 0.08
Matches are distributed among these distances:
38 4 0.01
39 25 0.09
40 3 0.01
41 1 0.00
42 143 0.53
43 8 0.03
44 3 0.01
45 81 0.30
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.31
Consensus pattern (43 bp):
CACTTAACTGTATCTCAACACCCTTAGGATCAGGATCATCTAC
Found at i:18140394 original size:174 final size:174
Alignment explanation
Indices: 18139985--18140397 Score: 454
Period size: 174 Copynumber: 2.4 Consensus size: 174
18139975 ACTTAATTGC
* * * * * * * * *
18139985 ATCTCAGCACCCTCAAGATCAAGATCTTTTTCACTTAATTGTATCTCAACACCTTCAAGATCAGG
1 ATCTCAACACCCTCAGGATCAGGATCATCTCCACTTAACTGTATATCAACACCTTCAAGATCAAG
* *
18140050 ATCA--TCT-CCGCTTAACTGTATCTCAACACC--T----TCAGGATCATCTCTACCACTTAATG
66 ATCATCTCTACCACTTAACTGTATCTCAACACCTTTAGGATTAGGATCATCTCTACCACTTAATG
* *
18140106 GTATCTTAACACCCTCAGAATCAAAATCATCTCCACTTAACTGT
131 GTATCTTAACACCCTCAGAATCAAAATCATCTACACTTAACTCT
* * * * * * *
18140150 ATCTCGACACCCTTAGGATCAGGATCATCTCCACTTAACTGTATCTCAACACCTTTAGGATTAGG
1 ATCTCAACACCCTCAGGATCAGGATCATCTCCACTTAACTGTATATCAACACCTTCAAGATCAAG
18140215 ATCATCTCTACCACTTAACTGTATCTCAACACCTTTAGGATTAGGATCATCTCTACCACTTAACT
66 ATCATCTCTACCACTTAACTGTATCTCAACACCTTTAGGATTAGGATCATCTCTACCACTTAA-T
* * **
18140280 -GTATCTTAACACCCTTAGGATCAGGATCATCTACACTTAACTCT
130 GGTATCTTAACACCCTCAGAATCAAAATCATCTACACTTAACTCT
* * * * *
18140324 A-CTTCAACACCCTCAGGATCAGGATCATCTCCTCTTAATTGTGTATCAATA-CTCTCAATATCA
1 ATC-TCAACACCCTCAGGATCAGGATCATCTCCACTTAACTGTATATCAACACCT-TCAAGATCA
18140387 AGATCATCTCT
64 AGATCATCTCT
18140398 TCTTAATTGT
Statistics
Matches: 204, Mismatches: 32, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
165 57 0.28
167 3 0.01
168 22 0.11
170 1 0.00
173 3 0.01
174 117 0.57
175 1 0.00
ACGTcount: A:0.30, C:0.29, G:0.10, T:0.31
Consensus pattern (174 bp):
ATCTCAACACCCTCAGGATCAGGATCATCTCCACTTAACTGTATATCAACACCTTCAAGATCAAG
ATCATCTCTACCACTTAACTGTATCTCAACACCTTTAGGATTAGGATCATCTCTACCACTTAATG
GTATCTTAACACCCTCAGAATCAAAATCATCTACACTTAACTCT
Found at i:18140627 original size:42 final size:42
Alignment explanation
Indices: 18140341--18140652 Score: 372
Period size: 42 Copynumber: 7.4 Consensus size: 42
18140331 CACCCTCAGG
* * * * *
18140341 ATCAGGATCATCTCCTCTTAATTGTGTATCAATACTCTCAAT
1 ATCAAGATCATCTCTTCTTAATTGTGTCTCAACACTCTCGAT
18140383 ATCAAGATCATCTCTTCTTAATTGTGTCTCAACACTCTCGAT
1 ATCAAGATCATCTCTTCTTAATTGTGTCTCAACACTCTCGAT
* * * *
18140425 ATCAGGATCATCTCCTCTTAATTGTGTATCAATACTCTCGAT
1 ATCAAGATCATCTCTTCTTAATTGTGTCTCAACACTCTCGAT
* * *
18140467 ATGAAGATCATCTCTTCTTAATTGTGCCTCAACACTCTCCAT
1 ATCAAGATCATCTCTTCTTAATTGTGTCTCAACACTCTCGAT
* * * * *
18140509 ATTAGGATCATCTCCTCTTAATTGTGTATCAATACTCTCGAT
1 ATCAAGATCATCTCTTCTTAATTGTGTCTCAACACTCTCGAT
*
18140551 ATCAAGATCATCTATTCTTAATTGTGTCTCAACACTCTCGAT
1 ATCAAGATCATCTCTTCTTAATTGTGTCTCAACACTCTCGAT
** * * * * * * *
18140593 ATCGGGATCATCTCTTCTCACTTGTATCTGAACACCCTGGAG
1 ATCAAGATCATCTCTTCTTAATTGTGTCTCAACACTCTCGAT
*
18140635 AGCAAGATCATCTCTTCT
1 ATCAAGATCATCTCTTCT
18140653 CATTCTAATC
Statistics
Matches: 228, Mismatches: 42, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 228 1.00
ACGTcount: A:0.26, C:0.25, G:0.12, T:0.37
Consensus pattern (42 bp):
ATCAAGATCATCTCTTCTTAATTGTGTCTCAACACTCTCGAT
Found at i:18140641 original size:84 final size:84
Alignment explanation
Indices: 18140341--18140652 Score: 446
Period size: 84 Copynumber: 3.7 Consensus size: 84
18140331 CACCCTCAGG
* *
18140341 ATCAGGATCATCTCCTCTTAATTGTGTATCAATACTCTCAATATCAAGATCATCTCTTCTTAATT
1 ATCAGGATCATCTCCTCTTAATTGTGTATCAATACTCTCGATAGCAAGATCATCTCTTCTTAATT
18140406 GTGTCTCAACACTCTCGAT
66 GTGTCTCAACACTCTCGAT
18140425 ATCAGGATCATCTCCTCTTAATTGTGTATCAATACTCTCGATATG-AAGATCATCTCTTCTTAAT
1 ATCAGGATCATCTCCTCTTAATTGTGTATCAATACTCTCGATA-GCAAGATCATCTCTTCTTAAT
* *
18140489 TGTGCCTCAACACTCTCCAT
65 TGTGTCTCAACACTCTCGAT
* * *
18140509 ATTAGGATCATCTCCTCTTAATTGTGTATCAATACTCTCGATATCAAGATCATCTATTCTTAATT
1 ATCAGGATCATCTCCTCTTAATTGTGTATCAATACTCTCGATAGCAAGATCATCTCTTCTTAATT
18140574 GTGTCTCAACACTCTCGAT
66 GTGTCTCAACACTCTCGAT
* * * * * * * * * * *
18140593 ATCGGGATCATCTCTTCTCACTTGTATCTGAACACCCTGGAGAGCAAGATCATCTCTTCT
1 ATCAGGATCATCTCCTCTTAATTGTGTATCAATACTCTCGATAGCAAGATCATCTCTTCT
18140653 CATTCTAATC
Statistics
Matches: 203, Mismatches: 23, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
84 203 1.00
ACGTcount: A:0.26, C:0.25, G:0.12, T:0.37
Consensus pattern (84 bp):
ATCAGGATCATCTCCTCTTAATTGTGTATCAATACTCTCGATAGCAAGATCATCTCTTCTTAATT
GTGTCTCAACACTCTCGAT
Found at i:18143977 original size:98 final size:99
Alignment explanation
Indices: 18143695--18143990 Score: 549
Period size: 99 Copynumber: 3.0 Consensus size: 99
18143685 TTGGATGAAA
18143695 CTCATCCAAGGGTCAAAGTTTTTTCTTCCTCTTTTTTTCAAGGAATCACCTTTGGCCATTTGTTC
1 CTCATCCAAGGGTCAAAGTTTTTTCTTCCTCTTTTTTTCAAGGAATCACCTTTGGCCATTTGTTC
*
18143760 AAAATTAATGAAAGATAAAATGGCCACCTCACTC
66 AAAATTAACGAAAGATAAAATGGCCACCTCACTC
*
18143794 CTCATCTAAGGGTCAAAGTTTTTTCTTCCTCTTTTTTTCAAGGAATCACCTTTGGCCATTTGTTC
1 CTCATCCAAGGGTCAAAGTTTTTTCTTCCTCTTTTTTTCAAGGAATCACCTTTGGCCATTTGTTC
*
18143859 AAAATTAACAAAAGATAAAATGGCCACCTCACTC
66 AAAATTAACGAAAGATAAAATGGCCACCTCACTC
18143893 CTCATCCAAGGGTCAAAGTTTTTTCTTCCT-TTTTTTTCAAGGAATCACCTTTGGCCATTTGTTC
1 CTCATCCAAGGGTCAAAGTTTTTTCTTCCTCTTTTTTTCAAGGAATCACCTTTGGCCATTTGTTC
*
18143957 AAAATTAACGAAAGATAAAATGGCCACCTTACTC
66 AAAATTAACGAAAGATAAAATGGCCACCTCACTC
18143991 ACTACCAAGG
Statistics
Matches: 191, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
98 66 0.35
99 125 0.65
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (99 bp):
CTCATCCAAGGGTCAAAGTTTTTTCTTCCTCTTTTTTTCAAGGAATCACCTTTGGCCATTTGTTC
AAAATTAACGAAAGATAAAATGGCCACCTCACTC
Found at i:18145822 original size:12 final size:13
Alignment explanation
Indices: 18145805--18145840 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
18145795 GTTTGGAAAA
18145805 AAATTTTATAAG-
1 AAATTTTATAAGT
18145817 AAATTTTATAAGT
1 AAATTTTATAAGT
*
18145830 AAAATTTATAA
1 AAATTTTATAA
18145841 AACTTTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 12 0.55
13 10 0.45
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.42
Consensus pattern (13 bp):
AAATTTTATAAGT
Found at i:18145878 original size:20 final size:20
Alignment explanation
Indices: 18145853--18145898 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
18145843 CTTTTTATTA
*
18145853 AAAATAAGTAAATCA-AAATT
1 AAAATAA-TAAATAATAAATT
18145873 AAAATAATAAATAATAAATT
1 AAAATAATAAATAATAAATT
18145893 AAAATA
1 AAAATA
18145899 TTTCGTCACA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (20 bp):
AAAATAATAAATAATAAATT
Found at i:18147372 original size:17 final size:18
Alignment explanation
Indices: 18147345--18147378 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
18147335 AATATCACAC
18147345 AATATAATATAAATTTTA
1 AATATAATATAAATTTTA
*
18147363 AATA-AATATATATTTT
1 AATATAATATAAATTTT
18147379 CTTACAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
AATATAATATAAATTTTA
Found at i:18147571 original size:19 final size:18
Alignment explanation
Indices: 18147544--18147580 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
18147534 TAAATTTGTA
18147544 CTATCAAATAATTAATTAT
1 CTATCAAATAATT-ATTAT
*
18147563 CTATGAAATAATTATTAT
1 CTATCAAATAATTATTAT
18147581 ATCAAGTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.43
Consensus pattern (18 bp):
CTATCAAATAATTATTAT
Found at i:18148143 original size:32 final size:32
Alignment explanation
Indices: 18148106--18148228 Score: 111
Period size: 32 Copynumber: 3.6 Consensus size: 32
18148096 TTTATCAAGG
18148106 AAAGAAATTTTATAGGTTGAGTATCAACAAAT
1 AAAGAAATTTTATAGGTTGAGTATCAACAAAT
* * * * *
18148138 AAAGAAAGCTTTATTTTATAGGTTAAGTTTTTTATCAAAG
1 AAAG-AA-----ATTTTATAGGTTGAG--TATCAACAAAT
18148178 AAAGAAATTTTATAGGTTGAGTATCAACAAAT
1 AAAGAAATTTTATAGGTTGAGTATCAACAAAT
*
18148210 AAAGAAAGCTTTATAGGTT
1 AAAGAAA-TTTTATAGGTT
18148229 AGGCTAAGTT
Statistics
Matches: 71, Mismatches: 11, Indels: 17
0.72 0.11 0.17
Matches are distributed among these distances:
32 18 0.25
33 12 0.17
34 14 0.20
38 14 0.20
39 2 0.03
40 11 0.15
ACGTcount: A:0.43, C:0.06, G:0.16, T:0.35
Consensus pattern (32 bp):
AAAGAAATTTTATAGGTTGAGTATCAACAAAT
Found at i:18148146 original size:67 final size:67
Alignment explanation
Indices: 18148072--18148229 Score: 235
Period size: 72 Copynumber: 2.3 Consensus size: 67
18148062 TATCTCAACC
* * *
18148072 AAGAAAGCTCTACAGGTTAAGGTTTTTATCAAGGAAAGAAATTTTATAGGTTGAGTATCAACAAA
1 AAGAAAGCTTTATAGGTTAAGGTTTTTATCAAAGAAAGAAATTTTATAGGTTGAGTATCAACAAA
18148137 TA
66 TA
*
18148139 AAGAAAGCTTTATTTTATAGGTTAAGTTTTTTATCAAAGAAAGAAATTTTATAGGTTGAGTATCA
1 AAGAAAGC-----TTTATAGGTTAAGGTTTTTATCAAAGAAAGAAATTTTATAGGTTGAGTATCA
18148204 ACAAATA
61 ACAAATA
18148211 AAGAAAGCTTTATAGGTTA
1 AAGAAAGCTTTATAGGTTA
18148230 GGCTAAGTTA
Statistics
Matches: 82, Mismatches: 4, Indels: 10
0.85 0.04 0.10
Matches are distributed among these distances:
67 19 0.23
72 63 0.77
ACGTcount: A:0.42, C:0.07, G:0.18, T:0.34
Consensus pattern (67 bp):
AAGAAAGCTTTATAGGTTAAGGTTTTTATCAAAGAAAGAAATTTTATAGGTTGAGTATCAACAAA
TA
Found at i:18148171 original size:72 final size:72
Alignment explanation
Indices: 18148085--18148223 Score: 260
Period size: 72 Copynumber: 1.9 Consensus size: 72
18148075 AAAGCTCTAC
*
18148085 AGGTTAAGGTTTTTATCAAGGAAAGAAATTTTATAGGTTGAGTATCAACAAATAAAGAAAGCTTT
1 AGGTTAAGGTTTTTATCAAAGAAAGAAATTTTATAGGTTGAGTATCAACAAATAAAGAAAGCTTT
18148150 ATTTTAT
66 ATTTTAT
*
18148157 AGGTTAAGTTTTTTATCAAAGAAAGAAATTTTATAGGTTGAGTATCAACAAATAAAGAAAGCTTT
1 AGGTTAAGGTTTTTATCAAAGAAAGAAATTTTATAGGTTGAGTATCAACAAATAAAGAAAGCTTT
18148222 AT
66 AT
18148224 AGGTTAGGCT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 65 1.00
ACGTcount: A:0.42, C:0.06, G:0.17, T:0.35
Consensus pattern (72 bp):
AGGTTAAGGTTTTTATCAAAGAAAGAAATTTTATAGGTTGAGTATCAACAAATAAAGAAAGCTTT
ATTTTAT
Found at i:18148214 original size:36 final size:36
Alignment explanation
Indices: 18148105--18148217 Score: 115
Period size: 36 Copynumber: 3.1 Consensus size: 36
18148095 TTTTATCAAG
18148105 GAAAGAAATTTTATAGGTTGAGTATCAACAAATAAA
1 GAAAGAAATTTTATAGGTTGAGTATCAACAAATAAA
** * ****
18148141 GAAAGCTTTATTTTATAGGTTAAGT-T--TTTTATCAAA
1 GAAAG--AAATTTTATAGGTTGAGTATCAACAAAT-AAA
18148177 GAAAGAAATTTTATAGGTTGAGTATCAACAAATAAA
1 GAAAGAAATTTTATAGGTTGAGTATCAACAAATAAA
18148213 GAAAG
1 GAAAG
18148218 CTTTATAGGT
Statistics
Matches: 57, Mismatches: 14, Indels: 12
0.69 0.17 0.14
Matches are distributed among these distances:
34 15 0.26
35 3 0.05
36 21 0.37
37 3 0.05
38 15 0.26
ACGTcount: A:0.45, C:0.05, G:0.17, T:0.33
Consensus pattern (36 bp):
GAAAGAAATTTTATAGGTTGAGTATCAACAAATAAA
Found at i:18158736 original size:151 final size:151
Alignment explanation
Indices: 18158462--18158751 Score: 440
Period size: 151 Copynumber: 1.9 Consensus size: 151
18158452 ACAATACGAA
* * * *
18158462 GAGAAATTCGAGCATTCGGTTTCAGCTTTTATCTTTAATTAAGGTAATTTCGAATTCAATTCTCC
1 GAGAAATTCAACCATTAGGTTTCAGCTTTTATCTTTAATTAAGGTAATTTCAAATTCAATTCTCC
** * *
18158527 AAATAGAATATATTTAAATTTTATTTTTTAAAAAAATTACTTTGATCTAATTAAATTTTATATCA
66 AAATAGAATATATTTAAAAATTATTTTTTAAAAAAATTACTTTAATCTAATTAAATTTTATATAA
18158592 GCTTCATATTAATAAAGCAAG
131 GCTTCATATTAATAAAGCAAG
* * * *
18158613 GAGAAATTCAACCATTAGGTTTTAGTTTTTTTCCTTT-ATTATGGTAATTTCAAATTCAATTCTC
1 GAGAAATTCAACCATTAGGTTTCAGCTTTTAT-CTTTAATTAAGGTAATTTCAAATTCAATTCTC
18158677 CAAATAGAATATATTTAAAAATTA-TTTTTAAATAAAATTACTTTAATCTAATTAAATTTTATAT
65 CAAATAGAATATATTTAAAAATTATTTTTTAAA-AAAATTACTTTAATCTAATTAAATTTTATAT
18158741 AAGCTTCATAT
129 AAGCTTCATAT
18158752 CAACATCTTT
Statistics
Matches: 125, Mismatches: 12, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
150 8 0.06
151 113 0.90
152 4 0.03
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.43
Consensus pattern (151 bp):
GAGAAATTCAACCATTAGGTTTCAGCTTTTATCTTTAATTAAGGTAATTTCAAATTCAATTCTCC
AAATAGAATATATTTAAAAATTATTTTTTAAAAAAATTACTTTAATCTAATTAAATTTTATATAA
GCTTCATATTAATAAAGCAAG
Found at i:18160199 original size:29 final size:28
Alignment explanation
Indices: 18160157--18160228 Score: 108
Period size: 28 Copynumber: 2.5 Consensus size: 28
18160147 CTCGTGATGC
18160157 TACCAGCTTTTGAAAATTGACGACCATGA
1 TACCAGCTTTTGAAAATTG-CGACCATGA
* *
18160186 TACCAGCTTTTGAAAATTGCTACCATGC
1 TACCAGCTTTTGAAAATTGCGACCATGA
*
18160214 TACCAGCTTGTGAAA
1 TACCAGCTTTTGAAA
18160229 TATTTTTCAT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 21 0.52
29 19 0.47
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (28 bp):
TACCAGCTTTTGAAAATTGCGACCATGA
Found at i:18160219 original size:28 final size:29
Alignment explanation
Indices: 18160153--18160228 Score: 118
Period size: 29 Copynumber: 2.7 Consensus size: 29
18160143 ATGCCTCGTG
18160153 ATGCTACCAGCTTTTGAAAATTGACGACC
1 ATGCTACCAGCTTTTGAAAATTGACGACC
* *
18160182 ATGATACCAGCTTTTGAAAATTG-CTACC
1 ATGCTACCAGCTTTTGAAAATTGACGACC
*
18160210 ATGCTACCAGCTTGTGAAA
1 ATGCTACCAGCTTTTGAAA
18160229 TATTTTTCAT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
28 21 0.49
29 22 0.51
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (29 bp):
ATGCTACCAGCTTTTGAAAATTGACGACC
Found at i:18165217 original size:11 final size:11
Alignment explanation
Indices: 18165214--18165244 Score: 55
Period size: 10 Copynumber: 2.9 Consensus size: 11
18165204 TTAAATTATT
18165214 TTTATTTTTAA
1 TTTATTTTTAA
18165225 TTTA-TTTTAA
1 TTTATTTTTAA
18165235 TTTATTTTTA
1 TTTATTTTTA
18165245 TAATTTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTATTTTTAA
Found at i:18165245 original size:16 final size:17
Alignment explanation
Indices: 18165203--18165237 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
18165193 TTAATATTTG
*
18165203 TTTAAATTATTTTTATT
1 TTTAAATTATTTTAATT
*
18165220 TTTAATTTATTTTAATT
1 TTTAAATTATTTTAATT
18165237 T
1 T
18165238 ATTTTTATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTAAATTATTTTAATT
Found at i:18165260 original size:27 final size:27
Alignment explanation
Indices: 18165203--18165264 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
18165193 TTAATATTTG
* **
18165203 TTTAAATTATTTTTATTTTTAATTTAT
1 TTTAAATTATTTTTATATTTAAAATAT
*
18165230 TTTAATTTATTTTTATAATTTAAAATA-
1 TTTAAATTATTTTTAT-ATTTAAAATAT
18165257 TTTAAATT
1 TTTAAATT
18165265 TCAATCGAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
27 22 0.76
28 7 0.24
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (27 bp):
TTTAAATTATTTTTATATTTAAAATAT
Found at i:18165487 original size:21 final size:21
Alignment explanation
Indices: 18165463--18165503 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
18165453 ATTGTGTCTC
*
18165463 AACACTCTCGATATCAGGATT
1 AACACCCTCGATATCAGGATT
*
18165484 AACACCCTTGATATCAGGAT
1 AACACCCTCGATATCAGGAT
18165504 CATCTCTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (21 bp):
AACACCCTCGATATCAGGATT
Found at i:18166833 original size:19 final size:19
Alignment explanation
Indices: 18166797--18166836 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
18166787 TAAATTAATC
* **
18166797 AATAGATAATTAGGTTTTA
1 AATAGAAAATTAAATTTTA
18166816 AATAGAAAATTAAATTTTA
1 AATAGAAAATTAAATTTTA
18166835 AA
1 AA
18166837 AAATAAAGTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.38
Consensus pattern (19 bp):
AATAGAAAATTAAATTTTA
Found at i:18169472 original size:145 final size:145
Alignment explanation
Indices: 18169273--18169684 Score: 490
Period size: 145 Copynumber: 2.8 Consensus size: 145
18169263 CCATTTTTGG
** * * *
18169273 GATTTTAAA-ACATAAAAAATCAAAAAATATTATA-AGATTATGATCTGAAAAGTTTCGTGAAAT
1 GATTTTAAATACATAAAAAATCATGAAATATTATAGA-ATTAGGATCTGGAAAGTTTCATGAAAT
* * *
18169336 TTTGAGCTTGGAAATATCAAATTACGAAAATACCCCTATAAGGGTATTTTGATAATTTCACACTT
65 TTTGAGCTCGGAAAGATCAAATTACGAAAATACCCTTATAAGGGTATTTTGATAATTTCACACTT
*
18169401 CTTTG-GGTACTGATAT
130 -ATTGAGGTACTGATAT
* *
18169417 GATTTTAAATACATCAAAAATCATGAAATATTATAGAACTAGGATCTGGAAAGTTTCATGAAATT
1 GATTTTAAATACATAAAAAATCATGAAATATTATAGAATTAGGATCTGGAAAGTTTCATGAAATT
* * * * * * *
18169482 TTGATCTCGGAAAGACCAAATAATGAAAATACTCTTATAAGGGCATTTTGTTAATTTCACACTTA
66 TTGAGCTCGGAAAGATCAAATTACGAAAATACCCTTATAAGGGTATTTTGATAATTTCACACTTA
* * *
18169547 TTGAGGTATTGCTCT
131 TTGAGGTACTGATAT
* * * * *
18169562 GATTTTAAATGCATAAAAAATCATGAAATATTATAGGATTAAGG-TCTGGAAGGTTTCACGAAAA
1 GATTTTAAATACATAAAAAATCATGAAATATTATAGAATT-AGGATCTGGAAAGTTTCATGAAAT
** * *
18169626 TTCAAGCTCAGAAAGATCAAATTACGAAAATATCCCTTATAAGGGTATTTTGGTAATTT
65 TTTGAGCTCGGAAAGATCAAATTACGAAAATA-CCCTTATAAGGGTATTTTGATAATTT
18169685 AACTTTTTTA
Statistics
Matches: 225, Mismatches: 38, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
144 12 0.05
145 186 0.83
146 27 0.12
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.34
Consensus pattern (145 bp):
GATTTTAAATACATAAAAAATCATGAAATATTATAGAATTAGGATCTGGAAAGTTTCATGAAATT
TTGAGCTCGGAAAGATCAAATTACGAAAATACCCTTATAAGGGTATTTTGATAATTTCACACTTA
TTGAGGTACTGATAT
Found at i:18170802 original size:17 final size:18
Alignment explanation
Indices: 18170775--18170808 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
18170765 AATATCACAC
18170775 AATATAATATAAATTTTA
1 AATATAATATAAATTTTA
*
18170793 AATA-AATATATATTTT
1 AATATAATATAAATTTT
18170809 CTTACAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
AATATAATATAAATTTTA
Found at i:18176353 original size:151 final size:151
Alignment explanation
Indices: 18176129--18176437 Score: 519
Period size: 151 Copynumber: 2.0 Consensus size: 151
18176119 TTTGCCCTTC
* *
18176129 ATCAACAATACAAAGAGAAATTCGAGCATTAGGTTTCAGCTTTTATCTTTAATTAAGGTAATTTC
1 ATCAACAATACAAAGAGAAATTCAACCATTAGGTTTCAGCTTTTATCTTTAATTAAGGTAATTTC
*
18176194 AAATTCAATTCTCCAAATAGAATATATTTAAATTTTATTTTTAAACAAAATTACTTTGATCTAAT
66 AAATTCAATTCTCCAAATAGAATATATTTAAAATTTATTTTTAAACAAAATTACTTTGATCTAAT
18176259 TAAATTTTATATCAGCTTCAT
131 TAAATTTTATATCAGCTTCAT
* * * * * * * *
18176280 ATTAACAATGCAAGGAGAAATTCAACCATTAGGTTTTAGTTTTTTTCTTTTATTATGGTAATTTC
1 ATCAACAATACAAAGAGAAATTCAACCATTAGGTTTCAGCTTTTATCTTTAATTAAGGTAATTTC
18176345 AAATTCAATTCTCCAAATAGAATATATTTAAAATTTATTTTTAAACAAAATTACTTTGATCTAAT
66 AAATTCAATTCTCCAAATAGAATATATTTAAAATTTATTTTTAAACAAAATTACTTTGATCTAAT
18176410 TAAATTTTATATCAGCTTCAT
131 TAAATTTTATATCAGCTTCAT
18176431 ATCAACA
1 ATCAACA
18176438 TCTTTCGTTA
Statistics
Matches: 146, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
151 146 1.00
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (151 bp):
ATCAACAATACAAAGAGAAATTCAACCATTAGGTTTCAGCTTTTATCTTTAATTAAGGTAATTTC
AAATTCAATTCTCCAAATAGAATATATTTAAAATTTATTTTTAAACAAAATTACTTTGATCTAAT
TAAATTTTATATCAGCTTCAT
Found at i:18179550 original size:14 final size:14
Alignment explanation
Indices: 18179531--18179558 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
18179521 TACAAAACAA
18179531 TAGTTAAACATTTT
1 TAGTTAAACATTTT
18179545 TAGTTAAACATTTT
1 TAGTTAAACATTTT
18179559 AATTAACTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.50
Consensus pattern (14 bp):
TAGTTAAACATTTT
Found at i:18180912 original size:20 final size:20
Alignment explanation
Indices: 18180867--18180914 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
18180857 ATATGTGAAT
* * *
18180867 TATATATAAATTAATTCATA
1 TATATATAAATTAAATAAGA
18180887 TATATATAAATTAAATAAGA
1 TATATATAAATTAAATAAGA
*
18180907 TTTATATA
1 TATATATA
18180915 TATTTTATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (20 bp):
TATATATAAATTAAATAAGA
Found at i:18181178 original size:17 final size:17
Alignment explanation
Indices: 18181152--18181198 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
18181142 TTAATATTTG
18181152 TTTAAATTATTTTTATT
1 TTTAAATTATTTTTATT
*
18181169 TTTAATTTATTTTTATAAT
1 TTTAAATTATTTTTAT--T
*
18181188 TTAAAATTATT
1 TTTAAATTATT
18181199 AAATTTCAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 15 0.60
19 10 0.40
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTAAATTATTTTTATT
Found at i:18181381 original size:42 final size:41
Alignment explanation
Indices: 18181309--18181421 Score: 111
Period size: 42 Copynumber: 2.7 Consensus size: 41
18181299 ATCTACTTAG
*
18181309 CACCCTCAAGATCAAGATCT-TCTTCACTTAACTGTATCTCAA
1 CACCCTCAAGATCAAGATATCTCTT--CTTAACTGTATCTCAA
* * *
18181351 CGCCCTCAAGATCAAGATGATCTCTTCTTAATTGTGTCTCAA
1 CACCCTCAAGATCAAGAT-ATCTCTTCTTAACTGTATCTCAA
* * * *
18181393 CACTCTCGATATCAGGATCATCTCTTCTT
1 CACCCTCAAGATCAAGAT-ATCTCTTCTT
18181422 GATTGTACCT
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
42 54 0.92
43 1 0.02
44 4 0.07
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.34
Consensus pattern (41 bp):
CACCCTCAAGATCAAGATATCTCTTCTTAACTGTATCTCAA
Found at i:18181427 original size:42 final size:42
Alignment explanation
Indices: 18181361--18181482 Score: 129
Period size: 42 Copynumber: 2.9 Consensus size: 42
18181351 CGCCCTCAAG
* *
18181361 ATCAAGATGATCTCTTCTTAATTGTGTCTCAACACTCTCGAT
1 ATCAAGATCATCTCTTCTTGATTGTGTCTCAACACTCTCGAT
* ** * * *
18181403 ATCAGGATCATCTCTTCTTGATTGTACCTGAACAGTCTGGAT
1 ATCAAGATCATCTCTTCTTGATTGTGTCTCAACACTCTCGAT
* * *
18181445 -TGCAAGATCATCTCTTCTCGACTGTGTCTCAGCACTCT
1 AT-CAAGATCATCTCTTCTTGATTGTGTCTCAACACTCT
18181483 TCCCCCACAA
Statistics
Matches: 63, Mismatches: 16, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
41 1 0.02
42 62 0.98
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (42 bp):
ATCAAGATCATCTCTTCTTGATTGTGTCTCAACACTCTCGAT
Found at i:18182785 original size:19 final size:19
Alignment explanation
Indices: 18182749--18182788 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
18182739 TAAATTAATC
* **
18182749 AATAGATAATTAGGTTTTA
1 AATAGAAAATTAAATTTTA
18182768 AATAGAAAATTAAATTTTA
1 AATAGAAAATTAAATTTTA
18182787 AA
1 AA
18182789 AAATAAAGTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.38
Consensus pattern (19 bp):
AATAGAAAATTAAATTTTA
Found at i:18185450 original size:12 final size:13
Alignment explanation
Indices: 18185433--18185468 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
18185423 GTTTGGAAAA
18185433 AAATTTTATAAG-
1 AAATTTTATAAGT
18185445 AAATTTTATAAGT
1 AAATTTTATAAGT
*
18185458 AAAATTTATAA
1 AAATTTTATAA
18185469 AACTTTTAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 12 0.55
13 10 0.45
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.42
Consensus pattern (13 bp):
AAATTTTATAAGT
Found at i:18186959 original size:17 final size:18
Alignment explanation
Indices: 18186932--18186965 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
18186922 AATATCACAC
18186932 AATATAATATAAATTTTA
1 AATATAATATAAATTTTA
*
18186950 AATA-AATATATATTTT
1 AATATAATATAAATTTT
18186966 CTTACAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
AATATAATATAAATTTTA
Found at i:18187158 original size:19 final size:18
Alignment explanation
Indices: 18187131--18187167 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
18187121 TAAATTTGTA
18187131 CTATCAAATAATTAATTAT
1 CTATCAAATAATT-ATTAT
*
18187150 CTATGAAATAATTATTAT
1 CTATCAAATAATTATTAT
18187168 ATCAAGTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.43
Consensus pattern (18 bp):
CTATCAAATAATTATTAT
Found at i:18197343 original size:151 final size:151
Alignment explanation
Indices: 18197069--18197358 Score: 481
Period size: 151 Copynumber: 1.9 Consensus size: 151
18197059 ACAATACGAA
* * *
18197069 GAGAAATTCGAGCATTAGGTTTCAGCTTTTATCTTTAATTAAGGTAATTTCGAATTCAATTCTCC
1 GAGAAATTCAACCATTAGGTTTCAGCTTTTATCTTTAATTAAGGTAATTTCAAATTCAATTCTCC
* *
18197134 AAATATAATATATTTAAATTTTATTTTTAAAAAAAATTACTTTGATCTAATTAAATTTTATATCA
66 AAATAAAATATATTTAAAATTTATTTTTAAAAAAAATTACTTTGATCTAATTAAATTTTATATCA
18197199 GCTTCATATTAATAATGCAAG
131 GCTTCATATTAATAATGCAAG
* * * * *
18197220 GAGAAATTCAACCATTAGGTTTTAGTTTTTTTCTTTTATTATGGTAATTTCAAATTCAATTCTCC
1 GAGAAATTCAACCATTAGGTTTCAGCTTTTATCTTTAATTAAGGTAATTTCAAATTCAATTCTCC
*
18197285 AAATAAAATATATTTAAAATTTATTTTTAAACAAAATTACTTTGATCTAATTAAATTTTATATCA
66 AAATAAAATATATTTAAAATTTATTTTTAAAAAAAATTACTTTGATCTAATTAAATTTTATATCA
18197350 GCTTCATAT
131 GCTTCATAT
18197359 CAACATCTTT
Statistics
Matches: 128, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
151 128 1.00
ACGTcount: A:0.37, C:0.11, G:0.08, T:0.44
Consensus pattern (151 bp):
GAGAAATTCAACCATTAGGTTTCAGCTTTTATCTTTAATTAAGGTAATTTCAAATTCAATTCTCC
AAATAAAATATATTTAAAATTTATTTTTAAAAAAAATTACTTTGATCTAATTAAATTTTATATCA
GCTTCATATTAATAATGCAAG
Found at i:18197969 original size:12 final size:12
Alignment explanation
Indices: 18197952--18197976 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18197942 TGTGGGTCCC
18197952 TTAACTCCCCAT
1 TTAACTCCCCAT
18197964 TTAACTCCCCAT
1 TTAACTCCCCAT
18197976 T
1 T
18197977 ACACCCAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.40, G:0.00, T:0.36
Consensus pattern (12 bp):
TTAACTCCCCAT
Found at i:18200494 original size:14 final size:14
Alignment explanation
Indices: 18200475--18200509 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
18200465 ACAAAACAAA
18200475 TAGTTAAACATTTT
1 TAGTTAAACATTTT
18200489 TAGTTAAACATTTT
1 TAGTTAAACATTTT
*
18200503 TAATTAA
1 TAGTTAA
18200510 CTCAAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.49
Consensus pattern (14 bp):
TAGTTAAACATTTT
Found at i:18203855 original size:17 final size:17
Alignment explanation
Indices: 18203829--18203863 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
18203819 TTAATATTTG
18203829 TTTAAATTATTTTTATT
1 TTTAAATTATTTTTATT
*
18203846 TTTAATTTATTTTTATT
1 TTTAAATTATTTTTATT
18203863 T
1 T
18203864 ATTTTTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTAAATTATTTTTATT
Found at i:18203863 original size:10 final size:10
Alignment explanation
Indices: 18203840--18203871 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
18203830 TTAAATTATT
18203840 TTTATTTTTAA
1 TTTATTTTT-A
18203851 TTTATTTTTA
1 TTTATTTTTA
18203861 TTTATTTTTA
1 TTTATTTTTA
18203871 T
1 T
18203872 AATTTAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTATTTTTA
Found at i:18203884 original size:23 final size:23
Alignment explanation
Indices: 18203832--18203885 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
18203822 ATATTTGTTT
*
18203832 AAATTATTTTTATTTTTAATTTA
1 AAATTATTTTTATTTATAATTTA
***
18203855 TTTTTATTTATT-TTTATAATTTA
1 AAATTATTT-TTATTTATAATTTA
18203878 AAATTATT
1 AAATTATT
18203886 AAATTTCAAT
Statistics
Matches: 23, Mismatches: 7, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
23 21 0.91
24 2 0.09
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (23 bp):
AAATTATTTTTATTTATAATTTA
Found at i:18204068 original size:42 final size:42
Alignment explanation
Indices: 18204000--18204108 Score: 105
Period size: 42 Copynumber: 2.6 Consensus size: 42
18203990 ACTTAGCACC
* * *
18204000 CTCAAGATCAAGATC-T-TCTTCACTTAACTGTATCTCAACGCG
1 CTCAAGATCAGGATCATCTCTT--CTTAACTATATCTCAACACG
* * * *
18204042 CTCAAGATCAGGATGATCTCTTCTTAATTATGTCTCAACACT
1 CTCAAGATCAGGATCATCTCTTCTTAACTATATCTCAACACG
* *
18204084 CTCGATATCAGGATCATCTCTTCTT
1 CTCAAGATCAGGATCATCTCTTCTT
18204109 GATTGTACTT
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
42 50 0.91
43 1 0.02
44 4 0.07
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (42 bp):
CTCAAGATCAGGATCATCTCTTCTTAACTATATCTCAACACG
Found at i:18205473 original size:19 final size:19
Alignment explanation
Indices: 18205437--18205476 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
18205427 TAAATTAATC
* **
18205437 AATAGATAATTAGGTTTTA
1 AATAGAAAATTAAATTTTA
18205456 AATAGAAAATTAAATTTTA
1 AATAGAAAATTAAATTTTA
18205475 AA
1 AA
18205477 AAATAAAGTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.38
Consensus pattern (19 bp):
AATAGAAAATTAAATTTTA
Found at i:18206077 original size:19 final size:18
Alignment explanation
Indices: 18206049--18206099 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 18
18206039 TATATCAACC
* *
18206049 ATGAATTTAAACATGAGA
1 ATGAAATTAAACATAAGA
18206067 TATGAAATTAAA-ATAAGA
1 -ATGAAATTAAACATAAGA
18206085 ATGAGAATCTAAACA
1 ATGA-AAT-TAAACA
18206100 ATAAAAGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 4 0.15
18 8 0.30
19 14 0.52
20 1 0.04
ACGTcount: A:0.55, C:0.06, G:0.14, T:0.25
Consensus pattern (18 bp):
ATGAAATTAAACATAAGA
Found at i:18207037 original size:12 final size:13
Alignment explanation
Indices: 18207020--18207053 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
18207010 GTTTGGAAAA
18207020 AAATTTTATAAG-
1 AAATTTTATAAGT
18207032 AAATTTTATAAGT
1 AAATTTTATAAGT
*
18207045 AAAATTTAT
1 AAATTTTAT
18207054 GAAACTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (13 bp):
AAATTTTATAAGT
Found at i:18207093 original size:20 final size:20
Alignment explanation
Indices: 18207068--18207113 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
18207058 CTTTTAGTTA
*
18207068 AAAATAAGTAAATCA-AAATT
1 AAAATAA-TAAATAATAAATT
18207088 AAAATAATAAATAATAAATT
1 AAAATAATAAATAATAAATT
18207108 AAAATA
1 AAAATA
18207114 TTTCGTCACA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (20 bp):
AAAATAATAAATAATAAATT
Found at i:18208742 original size:19 final size:18
Alignment explanation
Indices: 18208715--18208751 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
18208705 TAAATTTGTA
18208715 CTATCAAATAATTAATTAT
1 CTATCAAATAATT-ATTAT
*
18208734 CTATGAAATAATTATTAT
1 CTATCAAATAATTATTAT
18208752 ATCAAGTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.43
Consensus pattern (18 bp):
CTATCAAATAATTATTAT
Found at i:18215340 original size:12 final size:12
Alignment explanation
Indices: 18215323--18215347 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18215313 TGTGGGTCCC
18215323 TTAACTCCCCAT
1 TTAACTCCCCAT
18215335 TTAACTCCCCAT
1 TTAACTCCCCAT
18215347 T
1 T
18215348 ACACCCAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.40, G:0.00, T:0.36
Consensus pattern (12 bp):
TTAACTCCCCAT
Found at i:18220003 original size:17 final size:17
Alignment explanation
Indices: 18219977--18220023 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
18219967 TTAATATTTG
18219977 TTTAAATTATTTTTATT
1 TTTAAATTATTTTTATT
*
18219994 TTTAATTTATTTTTATAAT
1 TTTAAATTATTTTTAT--T
*
18220013 TTAAAATTATT
1 TTTAAATTATT
18220024 AAATTTCAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 15 0.60
19 10 0.40
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTAAATTATTTTTATT
Found at i:18220206 original size:42 final size:42
Alignment explanation
Indices: 18220138--18220246 Score: 114
Period size: 42 Copynumber: 2.6 Consensus size: 42
18220128 ACTTAGCACC
* *
18220138 CTCAAGATCAAGATC-T-TCTTCACTTAACTGTATCTCAACGCG
1 CTCAAGATCAGGATCATCTCTT--CTTAACTGTATCTCAACACG
* * * *
18220180 CTCAAGATCAGGATGATCTCTTCTTAATTGTGTCTCAACACT
1 CTCAAGATCAGGATCATCTCTTCTTAACTGTATCTCAACACG
* *
18220222 CTCGATATCAGGATCATCTCTTCTT
1 CTCAAGATCAGGATCATCTCTTCTT
18220247 GATTGTACTT
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
42 51 0.91
43 1 0.02
44 4 0.07
ACGTcount: A:0.26, C:0.27, G:0.13, T:0.35
Consensus pattern (42 bp):
CTCAAGATCAGGATCATCTCTTCTTAACTGTATCTCAACACG
Found at i:18220252 original size:42 final size:42
Alignment explanation
Indices: 18220186--18220307 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
18220176 CGCGCTCAAG
* *
18220186 ATCAGGATGATCTCTTCTTAATTGTGTCTCAACACTCTCGAT
1 ATCAGGATCATCTCTTCTTGATTGTGTCTCAACACTCTCGAT
* * * *
18220228 ATCAGGATCATCTCTTCTTGATTGT-ACTTGAACAATCTGGAT
1 ATCAGGATCATCTCTTCTTGATTGTGTC-TCAACACTCTCGAT
* * * *
18220270 -TGCAAGATCATCTCTTCTCGACTGTGTCTCAGCACTCT
1 AT-CAGGATCATCTCTTCTTGATTGTGTCTCAACACTCT
18220308 TCCCCCACAA
Statistics
Matches: 64, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
41 2 0.03
42 61 0.95
43 1 0.02
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.37
Consensus pattern (42 bp):
ATCAGGATCATCTCTTCTTGATTGTGTCTCAACACTCTCGAT
Done.