Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 88 of 199
Found at i:30700221 original size:174 final size:173
Alignment explanation
Indices: 30700026--30700644 Score: 893
Period size: 174 Copynumber: 3.5 Consensus size: 173
30700016 GGTTATAATC
*
30700026 TAATTGGTTATAATCTATTCAATTGAAATGTATTAAATTATTTTTTATTTAATCTTGAAATTGAT
1 TAATTGGTTATAATCTATTCAATTGAAATGTATTAAATTATTTTTTATTTAATCTTTAAATTGAT
* * *
30700091 TTTTTAAATTAAAAATAAGAAATTCAATTAAATTTTAATTTAAACTTTAATTATTAAGTTAAACT
66 TTTGT-AATTAAAATTAAGAAATTCAATTAATTTTTAATTTAAACTTTAATTATTAAGTTAAACT
* *
30700156 TTATGTTTTTAATTTTTATTTTTTAACTGAAATTATCTATACTT
130 TTATGTATTTAATTTTTATTTTTTAATTGAAATTATCTATACTT
30700200 TAATTGGTTATAATCTATTCAATTGAAATGTATTAAATTA-TTTTTATTTAATCTTTAAATTGAT
1 TAATTGGTTATAATCTATTCAATTGAAATGTATTAAATTATTTTTTATTTAATCTTTAAATTGAT
* *
30700264 TTTTTAAAATTAAAATTAAGAAATTCAATTAATTTTTAATTTAAACTTTAATTATTAAGTTAAAA
66 TTTGT--AATTAAAATTAAGAAATTCAATTAATTTTTAATTTAAACTTTAATTATTAAGTTAAAC
30700329 TTTATGTATTTAATTTTTA-TTTTTAATTGAAATTATCTATACTT
129 TTTATGTATTTAATTTTTATTTTTTAATTGAAATTATCTATACTT
* ** *
30700373 TAATTGGTTATAATATATTCAATTGAAACCTATTAAATTATTTTTTATTTAACCTTTAAATTGAT
1 TAATTGGTTATAATCTATTCAATTGAAATGTATTAAATTATTTTTTATTTAATCTTTAAATTGAT
* * *
30700438 TTTGTAATTAAAATTAAGGAATCCAATTAATTTTTAATTTAAACTTTAATTATCAAGTTAAACTT
66 TTTGTAATTAAAATTAAGAAATTCAATTAATTTTTAATTTAAACTTTAATTATTAAGTTAAACTT
* *
30700503 AATGTATTTAATTTTTTATGTTTTAATTGAAATTATCTATACTT
131 TATGTATTTAA-TTTTTATTTTTTAATTGAAATTATCTATACTT
* *
30700547 TAATTGGTTTATTAGTTGGTTTTAATCT-TTCAATTGAAATGTTTTAAATTATTATTTATTTAAT
1 TAATTGG----TTA--------TAATCTATTCAATTGAAATGTATTAAATTATTTTTTATTTAAT
*
30700611 CTTTAAATTGATTTTGTAATTGAAATTAAGAAAT
54 CTTTAAATTGATTTTGTAATTAAAATTAAGAAAT
30700645 CATGGGAAAT
Statistics
Matches: 404, Mismatches: 25, Indels: 21
0.90 0.06 0.05
Matches are distributed among these distances:
172 66 0.16
173 95 0.24
174 172 0.43
178 3 0.01
185 63 0.16
186 5 0.01
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.51
Consensus pattern (173 bp):
TAATTGGTTATAATCTATTCAATTGAAATGTATTAAATTATTTTTTATTTAATCTTTAAATTGAT
TTTGTAATTAAAATTAAGAAATTCAATTAATTTTTAATTTAAACTTTAATTATTAAGTTAAACTT
TATGTATTTAATTTTTATTTTTTAATTGAAATTATCTATACTT
Found at i:30700314 original size:19 final size:19
Alignment explanation
Indices: 30700292--30700332 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
30700282 AGAAATTCAA
* * *
30700292 TTAATTTTTAATTTAAACT
1 TTAATTATTAAGTTAAAAT
30700311 TTAATTATTAAGTTAAAAT
1 TTAATTATTAAGTTAAAAT
30700330 TTA
1 TTA
30700333 TGTATTTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (19 bp):
TTAATTATTAAGTTAAAAT
Found at i:30700448 original size:24 final size:24
Alignment explanation
Indices: 30700399--30700448 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
30700389 ATTCAATTGA
* *
30700399 AACCTATTAAATTATTTTTTATTT
1 AACCTATTAAATTATTTTGTAATT
30700423 AACCT-TTAAATTGATTTTGTAATT
1 AACCTATTAAATT-ATTTTGTAATT
30700447 AA
1 AA
30700449 AATTAAGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 7 0.30
24 16 0.70
ACGTcount: A:0.36, C:0.08, G:0.04, T:0.52
Consensus pattern (24 bp):
AACCTATTAAATTATTTTGTAATT
Found at i:30700486 original size:19 final size:18
Alignment explanation
Indices: 30700464--30700516 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 18
30700454 AGGAATCCAA
30700464 TTAATTTTTAATTTAAAC
1 TTAATTTTTAATTTAAAC
* * *
30700482 TTTAATTATCAAGTTAAAC
1 -TTAATTTTTAATTTAAAC
30700501 TTAATGTATTTAATTT
1 TTAAT-T-TTTAATTT
30700517 TTTATGTTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
18 5 0.19
19 16 0.62
20 5 0.19
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.53
Consensus pattern (18 bp):
TTAATTTTTAATTTAAAC
Found at i:30703840 original size:108 final size:109
Alignment explanation
Indices: 30703718--30703925 Score: 264
Period size: 108 Copynumber: 1.9 Consensus size: 109
30703708 TTCCCGAAAT
* *
30703718 AGCTGATGTCGGCCATCTAGCT-CCCCCAATCCAAAATTTT-TTTATCTAATAAAGTGAGTGTCG
1 AGCTGATGTCGGCCATCTAG-TACCCCCAA-CCAAAATTTTATTTATCTAATAAAGCGAGTGCCG
*
30703781 ACCATTACTGTGCTAGCACAC-AAAAAA-TTATTTTTTAATCTAAAA
64 ACCATCACTGTGCTAGCAC-CTAAAAAATTTATTTTTTAATCTAAAA
* * * * *
30703826 AGCTGATG-CTGGCCATCTAGTACTCCCAACCCAAATTTTATTTATCTGATAAAGCGGGTGCCGG
1 AGCTGATGTC-GGCCATCTAGTACCCCCAACCAAAATTTTATTTATCTAATAAAGCGAGTGCCGA
*
30703890 CCATCAGTGTGCTAGCACCTAAAAAATTTATTTTTT
65 CCATCACTGTGCTAGCACCTAAAAAATTTATTTTTT
30703926 TAAAAATTAT
Statistics
Matches: 86, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
107 12 0.14
108 65 0.76
109 9 0.10
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.32
Consensus pattern (109 bp):
AGCTGATGTCGGCCATCTAGTACCCCCAACCAAAATTTTATTTATCTAATAAAGCGAGTGCCGAC
CATCACTGTGCTAGCACCTAAAAAATTTATTTTTTAATCTAAAA
Found at i:30706184 original size:49 final size:46
Alignment explanation
Indices: 30706112--30706218 Score: 124
Period size: 49 Copynumber: 2.3 Consensus size: 46
30706102 TCCGAATAAG
* * **
30706112 AAAAGGTAAAACTATATCGTTTTGATAAATGTTTACTTTTTCTAAAGTT
1 AAAAGGTAAAACTACATCGTTTTGATAAATATTTAC-TCAT-T-AAGTT
* * *
30706161 AAAAGGTAAAATTACGTTGTTTTGATAAATATTTACTCATTAAGTT
1 AAAAGGTAAAACTACATCGTTTTGATAAATATTTACTCATTAAGTT
30706207 AAAAGGTAAAAC
1 AAAAGGTAAAAC
30706219 AATTATATTA
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
46 16 0.32
47 1 0.02
48 2 0.04
49 31 0.62
ACGTcount: A:0.41, C:0.07, G:0.13, T:0.38
Consensus pattern (46 bp):
AAAAGGTAAAACTACATCGTTTTGATAAATATTTACTCATTAAGTT
Found at i:30707928 original size:29 final size:30
Alignment explanation
Indices: 30707875--30707931 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
30707865 GAATTGGATT
*
30707875 AAATCAAAATTTCATATATAAAATTACATA
1 AAATCAAAATTCCATATATAAAATTACATA
* *
30707905 AAATCAAAA-TCCATGTATACAATTACA
1 AAATCAAAATTCCATATATAAAATTACA
30707932 CATTAGACCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 15 0.62
30 9 0.38
ACGTcount: A:0.54, C:0.14, G:0.02, T:0.30
Consensus pattern (30 bp):
AAATCAAAATTCCATATATAAAATTACATA
Found at i:30719637 original size:66 final size:66
Alignment explanation
Indices: 30719566--30719707 Score: 214
Period size: 66 Copynumber: 2.2 Consensus size: 66
30719556 GAGGCAACAT
* *
30719566 CGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCAGCTCCAACTTAAAGCAGATGCGGC
1 CGAGAGAAGCTGAGGTTCAACAAAAG-TATGAACAACTCCAGCACCAACTTAAAGCAGATGCGGC
30719630 AG
65 AG
* * * *
30719632 CGAGAGAAGCTGAGGTTCAACGAAAGTATGAACAACTCCAGCAGCAGCTTAAAGTAGATGCGGCA
1 CGAGAGAAGCTGAGGTTCAACAAAAGTATGAACAACTCCAGCACCAACTTAAAGCAGATGCGGCA
30719697 G
66 G
30719698 CGAGAGAAGC
1 CGAGAGAAGC
30719708 AGCGGCTGTA
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
66 65 0.94
67 4 0.06
ACGTcount: A:0.38, C:0.20, G:0.28, T:0.14
Consensus pattern (66 bp):
CGAGAGAAGCTGAGGTTCAACAAAAGTATGAACAACTCCAGCACCAACTTAAAGCAGATGCGGCA
G
Found at i:30719747 original size:21 final size:21
Alignment explanation
Indices: 30719683--30719748 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
30719673 CAGCAGCTTA
* * *
30719683 AAGTAGATGCGGCAGCGAGAG
1 AAGTAGAGGCTGCAGCGAGGG
* * * * *
30719704 AAGCAGCGGCTGTAGCAAAGG
1 AAGTAGAGGCTGCAGCGAGGG
30719725 AAGTAGAGGCTGCAGCGAGGG
1 AAGTAGAGGCTGCAGCGAGGG
30719746 AAG
1 AAG
30719749 CAGAATAGCT
Statistics
Matches: 32, Mismatches: 13, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.33, C:0.15, G:0.42, T:0.09
Consensus pattern (21 bp):
AAGTAGAGGCTGCAGCGAGGG
Found at i:30719979 original size:14 final size:14
Alignment explanation
Indices: 30719960--30719989 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
30719950 TTATTTAGAT
30719960 TTGGTTAGATTTGG
1 TTGGTTAGATTTGG
30719974 TTGGTTAGATTTGG
1 TTGGTTAGATTTGG
30719988 TT
1 TT
30719990 TCTTCTGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.00, G:0.33, T:0.53
Consensus pattern (14 bp):
TTGGTTAGATTTGG
Found at i:30720164 original size:43 final size:43
Alignment explanation
Indices: 30720073--30720537 Score: 476
Period size: 43 Copynumber: 10.9 Consensus size: 43
30720063 CGTTTTTCTA
* * ***
30720073 AAAGCGCCGCTAAAAACCATGAGGTC--TAGCGGCGTTTGTTTTT
1 AAAGCGCCGCTAAAGACCAT--GGTCTATAGCGGCGTTTGATGGG
* *
30720116 TAAGCGCCGCTAAAGACCAAGGTCTATAGCGGCGTTTGATGGG
1 AAAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGATGGG
* * *
30720159 AAAGCGCCGCGAAAGATCC-TGGTCTATAGCGGCGTTTTATGGT
1 AAAGCGCCGCTAAAGA-CCATGGTCTATAGCGGCGTTTGATGGG
* * * * *
30720202 TAAGCGCCGCGAAAGATCTTGGTCTATAGCGGCGTTTTATGGG
1 AAAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGATGGG
* * * *
30720245 AAAGCGCCGCGAAAGATCTTGGTCTATAGCGGCGTTTTATGGG
1 AAAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGATGGG
* *
30720288 AAAGCGCCGCAAAAGATCC-TGGTCTATAGCGGCGTTTTA-GGG
1 AAAGCGCCGCTAAAGA-CCATGGTCTATAGCGGCGTTTGATGGG
* * * **
30720330 TAAGCGCCGCTAAAGACCATGGTCTATGGCGGCATTTGATGCA
1 AAAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGATGGG
* * * **
30720373 AAAGCGCCGCTAAAGACCACGGTCTATGGCGGCGATTGATGCC
1 AAAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGATGGG
** **
30720416 AAAGCGCCGCTAAAGACCACAGTCTATAGCGGCGTTTGATGCA
1 AAAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGATGGG
* **
30720459 AAAGCGCCCCTAAAGACCATGGTCTATAGCGGCGTTT-AT-TT
1 AAAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGATGGG
* *
30720500 ATAAGTGCCGCTAAAGACCATTGTCTATAGCGGCGTTT
1 A-AAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTT
30720538 ATTGTATAAA
Statistics
Matches: 372, Mismatches: 42, Indels: 17
0.86 0.10 0.04
Matches are distributed among these distances:
41 7 0.02
42 70 0.19
43 292 0.78
44 3 0.01
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (43 bp):
AAAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGATGGG
Found at i:30720443 original size:171 final size:171
Alignment explanation
Indices: 30720117--30720559 Score: 498
Period size: 171 Copynumber: 2.6 Consensus size: 171
30720107 TTTGTTTTTT
* * * *
30720117 AAGCGCCGCTAAAGACCAAGGTCTATAGCGGCGTTTGATGGGAAAGCGCCGCGAAAGATCC-TGG
1 AAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTTATGGGTAAGCGCCGCTAAAGA-CCATGG
*** * ** * * **
30720181 TCTATAGCGGCGTTTTATGGTTAAGCGCCGCGAAAGATCTTGGTCTATAGCGGCGTTTTATGGGA
65 TCTATAGCGGCG-TTTATGCAAAAGCGCCGCGAAAGACCACGGTCTATAGCGGCGATTGATGCCA
* *** * **
30720246 AAGCGCCGCGAAAGATCTTGGTCTATAGCGGCGTTTTATGGGA
129 AAGCGCCGCGAAAGACCACAGTCTATAGCGGCGTTTGATGCAA
*
30720289 AAGCGCCGCAAAAGATCC-TGGTCTATAGCGGCGTTTTA-GGGTAAGCGCCGCTAAAGACCATGG
1 AAGCGCCGCTAAAGA-CCATGGTCTATAGCGGCGTTTTATGGGTAAGCGCCGCTAAAGACCATGG
* * * *
30720352 TCTATGGCGGCATTTGATGCAAAAGCGCCGCTAAAGACCACGGTCTATGGCGGCGATTGATGCCA
65 TCTATAGCGGCGTTT-ATGCAAAAGCGCCGCGAAAGACCACGGTCTATAGCGGCGATTGATGCCA
*
30720417 AAGCGCCGCTAAAGACCACAGTCTATAGCGGCGTTTGATGCAA
129 AAGCGCCGCGAAAGACCACAGTCTATAGCGGCGTTTGATGCAA
* *** * *
30720460 AAGCGCCCCTAAAGACCATGGTCTATAGCGGCG-TTTATTTATAAGTGCCGCTAAAGACCATTGT
1 AAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTTATGGGTAAGCGCCGCTAAAGACCATGGT
*
30720524 CTATAGCGGCGTTTATTGTATAAAGCGCCGCGAAAG
66 CTATAGCGGCGTTTA-TGCA-AAAGCGCCGCGAAAG
30720560 TTACCGACGC
Statistics
Matches: 226, Mismatches: 38, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
170 12 0.05
171 166 0.73
172 46 0.20
173 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (171 bp):
AAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTTATGGGTAAGCGCCGCTAAAGACCATGGT
CTATAGCGGCGTTTATGCAAAAGCGCCGCGAAAGACCACGGTCTATAGCGGCGATTGATGCCAAA
GCGCCGCGAAAGACCACAGTCTATAGCGGCGTTTGATGCAA
Found at i:30728230 original size:83 final size:83
Alignment explanation
Indices: 30728134--30728303 Score: 268
Period size: 83 Copynumber: 2.0 Consensus size: 83
30728124 TTAATTGGAC
* * * *
30728134 TTTAATTATTTTTGTTTGATTTATTTTTCTGGTTGGATTTTTGTTTGGGTCGAGGCCGAACTAAA
1 TTTAATTATTTTTGTTTGACTTATTTTTCTAGTTGGATTTTTGTTTGGGTCGAGGCCAAACGAAA
*
30728199 TTTGGCTTTCACATAATG
66 TTGGGCTTTCACATAATG
* * *
30728217 TTTAATTATTTTTGTTTGACTTATTTTTCTATTTGGTTTTTTGTTTGGGTCGGGGCCAAACGAAA
1 TTTAATTATTTTTGTTTGACTTATTTTTCTAGTTGGATTTTTGTTTGGGTCGAGGCCAAACGAAA
30728282 TTGGGCTTTCACATAATG
66 TTGGGCTTTCACATAATG
30728300 TTTA
1 TTTA
30728304 TATTGTAGAT
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
83 79 1.00
ACGTcount: A:0.19, C:0.10, G:0.20, T:0.51
Consensus pattern (83 bp):
TTTAATTATTTTTGTTTGACTTATTTTTCTAGTTGGATTTTTGTTTGGGTCGAGGCCAAACGAAA
TTGGGCTTTCACATAATG
Found at i:30730112 original size:15 final size:16
Alignment explanation
Indices: 30730082--30730120 Score: 62
Period size: 15 Copynumber: 2.4 Consensus size: 16
30730072 TTATTTTATT
30730082 TTAAAATGTTAAAAAAA
1 TTAAAATG-TAAAAAAA
30730099 TTAAAATG-AAAAAAA
1 TTAAAATGTAAAAAAA
30730114 TTAAAAT
1 TTAAAAT
30730121 TCTCACGTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 14 0.64
17 8 0.36
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (16 bp):
TTAAAATGTAAAAAAA
Found at i:30730863 original size:21 final size:21
Alignment explanation
Indices: 30730839--30730886 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
30730829 TGTGTCCCCG
*
30730839 TCACACAGCCGTGTGCCTCTT
1 TCACACAGCCGTGTACCTCTT
* *
30730860 TCACACGGGCGTGTACCTCTT
1 TCACACAGCCGTGTACCTCTT
*
30730881 CCACAC
1 TCACAC
30730887 GGCTATGTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.17, C:0.40, G:0.19, T:0.25
Consensus pattern (21 bp):
TCACACAGCCGTGTACCTCTT
Found at i:30730887 original size:21 final size:21
Alignment explanation
Indices: 30730848--30730888 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
30730838 GTCACACAGC
* *
30730848 CGTGTGCCTCTTTCACACGGG
1 CGTGTACCTCTTCCACACGGG
30730869 CGTGTACCTCTTCCACACGG
1 CGTGTACCTCTTCCACACGG
30730889 CTATGTGACC
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:0.12, C:0.37, G:0.24, T:0.27
Consensus pattern (21 bp):
CGTGTACCTCTTCCACACGGG
Found at i:30735916 original size:18 final size:18
Alignment explanation
Indices: 30735893--30735929 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
30735883 ACATACCACA
30735893 GTGTTTTGAAAATGATTT
1 GTGTTTTGAAAATGATTT
*
30735911 GTGTTTTGAAAATGTTTT
1 GTGTTTTGAAAATGATTT
30735929 G
1 G
30735930 CAAAAATGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.51
Consensus pattern (18 bp):
GTGTTTTGAAAATGATTT
Found at i:30736339 original size:39 final size:39
Alignment explanation
Indices: 30736275--30736361 Score: 129
Period size: 39 Copynumber: 2.2 Consensus size: 39
30736265 TCAAAATCTA
* *
30736275 AAATAATTTGAAAATGGGTGAAGATTGTTGGAACATTTTC
1 AAAT-ATTTGAAAATGGGGGAAGATTGTTGGAACATTTAC
* *
30736315 AATTATTTGAAAATGGGGGGAGATTGTTGGAACATTTAC
1 AAATATTTGAAAATGGGGGAAGATTGTTGGAACATTTAC
30736354 AAATATTT
1 AAATATTT
30736362 ATAGTGTTTC
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
39 39 0.93
40 3 0.07
ACGTcount: A:0.37, C:0.05, G:0.23, T:0.36
Consensus pattern (39 bp):
AAATATTTGAAAATGGGGGAAGATTGTTGGAACATTTAC
Found at i:30738376 original size:3 final size:3
Alignment explanation
Indices: 30738368--30738410 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
30738358 TAAAATATAT
* * * *
30738368 ATA ATA ATA CTA ATA CTA ATA CTA ATA CTA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
30738411 ACATACTATC
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:30738393 original size:18 final size:18
Alignment explanation
Indices: 30738368--30738410 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
30738358 TAAAATATAT
30738368 ATAATAATACTAATACTA
1 ATAATAATACTAATACTA
* *
30738386 ATACTAATACTAATAATA
1 ATAATAATACTAATACTA
30738404 ATAATAA
1 ATAATAA
30738411 ACATACTATC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (18 bp):
ATAATAATACTAATACTA
Found at i:30738410 original size:6 final size:6
Alignment explanation
Indices: 30738372--30738406 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
30738362 ATATATATAA
*
30738372 TAATAC TAATAC TAATAC TAATAC TAATAA TAATA
1 TAATAC TAATAC TAATAC TAATAC TAATAC TAATA
30738407 ATAAACATAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.34
Consensus pattern (6 bp):
TAATAC
Found at i:30739669 original size:44 final size:43
Alignment explanation
Indices: 30739536--30739678 Score: 196
Period size: 43 Copynumber: 3.3 Consensus size: 43
30739526 GTCAACACCG
* * *
30739536 ACAAACGCCGCTAAAGATCAGGACCTTTAGCGGCGCTTTTTAC
1 ACAAACGCCGCTATAGATCAGGACTTTTAGCGGCGCTTTTCAC
* *
30739579 ACAAACGCCGCTATAGCTCAGGACTTTTAGCGGCGCTTTTCCC
1 ACAAACGCCGCTATAGATCAGGACTTTTAGCGGCGCTTTTCAC
* * *
30739622 ACAAACGCTGCTATAGATCAAGACTTTTTAGCGGCGCTTTGCAC
1 ACAAACGCCGCTATAGATCAGGAC-TTTTAGCGGCGCTTTTCAC
*
30739666 ACAAATGCCGCTA
1 ACAAACGCCGCTA
30739679 AAGGTCATGA
Statistics
Matches: 87, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
43 59 0.68
44 28 0.32
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (43 bp):
ACAAACGCCGCTATAGATCAGGACTTTTAGCGGCGCTTTTCAC
Found at i:30740836 original size:17 final size:17
Alignment explanation
Indices: 30740814--30740846 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
30740804 TATGTCACTG
30740814 CAATTAATTATATATAA
1 CAATTAATTATATATAA
30740831 CAATTAATTATATATA
1 CAATTAATTATATATA
30740847 GAAAGTATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (17 bp):
CAATTAATTATATATAA
Found at i:30749146 original size:17 final size:16
Alignment explanation
Indices: 30749116--30749156 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
30749106 TTTTGGCTTC
*
30749116 TTTCTTTTTGTTTTTT
1 TTTCTTTTTATTTTTT
30749132 TTTCTATTTTA-TTTTT
1 TTTCT-TTTTATTTTTT
30749148 TTTCTTTTT
1 TTTCTTTTT
30749157 CTAGTGGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 4 0.17
16 15 0.65
17 4 0.17
ACGTcount: A:0.05, C:0.07, G:0.02, T:0.85
Consensus pattern (16 bp):
TTTCTTTTTATTTTTT
Found at i:30749191 original size:10 final size:10
Alignment explanation
Indices: 30749176--30749204 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
30749166 TGGGTTTCTT
30749176 TATTCTTTGC
1 TATTCTTTGC
30749186 TATTCTTTGC
1 TATTCTTTGC
30749196 TATTCTTTG
1 TATTCTTTG
30749205 GATATTTCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.10, C:0.17, G:0.10, T:0.62
Consensus pattern (10 bp):
TATTCTTTGC
Found at i:30754104 original size:25 final size:25
Alignment explanation
Indices: 30754074--30754127 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
30754064 TTAATAAATA
* *
30754074 ATTTATATA-GAGAATTTATATTAAT
1 ATTTATATATGA-AAATTATATTAAC
30754099 ATTTATATATGAAAATTATATTAAC
1 ATTTATATATGAAAATTATATTAAC
30754124 ATTT
1 ATTT
30754128 TTTTAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 24 0.92
26 2 0.08
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (25 bp):
ATTTATATATGAAAATTATATTAAC
Found at i:30754888 original size:18 final size:18
Alignment explanation
Indices: 30754865--30754900 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
30754855 GTGACACCTT
30754865 GTAACTAGAACCTAACGA
1 GTAACTAGAACCTAACGA
**
30754883 GTAACTCTAACCTAACGA
1 GTAACTAGAACCTAACGA
30754901 TTGAGTTGGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.25, G:0.14, T:0.19
Consensus pattern (18 bp):
GTAACTAGAACCTAACGA
Found at i:30755735 original size:11 final size:11
Alignment explanation
Indices: 30755719--30755747 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
30755709 TACTGCATAC
30755719 AATAATTACTT
1 AATAATTACTT
30755730 AATAATTACTT
1 AATAATTACTT
30755741 AATAATT
1 AATAATT
30755748 TCGAAATCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (11 bp):
AATAATTACTT
Found at i:30764022 original size:22 final size:21
Alignment explanation
Indices: 30763981--30764022 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
30763971 AATGCGAGAA
*
30763981 TTTTGAAACACAATATTTTTT
1 TTTTGAAACACAATAATTTTT
30764002 TTTTGAAAACACGAA-AATTTT
1 TTTTG-AAACAC-AATAATTTT
30764023 GAAATATGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 5 0.28
22 11 0.61
23 2 0.11
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (21 bp):
TTTTGAAACACAATAATTTTT
Found at i:30764080 original size:18 final size:18
Alignment explanation
Indices: 30764001--30764291 Score: 141
Period size: 17 Copynumber: 16.3 Consensus size: 18
30763991 CAATATTTTT
30764001 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
* * *
30764019 -TTTTG-AAATATGAGAA
1 TTTTTGAAAACACGAAAA
*
30764035 TTTTAG-AAACACGAAAA
1 TTTTTGAAAACACGAAAA
* *
30764052 TTTCT-AAAACATGAAAA
1 TTTTTGAAAACACGAAAA
30764069 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
30764087 TTTTTG-AAACACGAGAAAAAAA
1 TTTTTGAAAACAC--G---AAAA
*
30764109 ATTTT--AAACACGAAAA
1 TTTTTGAAAACACGAAAA
* *
30764125 TTTAT-AAAACGCGAGAAA
1 TTTTTGAAAACACGA-AAA
*
30764143 TTTTTTTTTGAAAACTC-AAAA
1 ----TTTTTGAAAACACGAAAA
*** *
30764164 TTTTTTTTAACACGAACA
1 TTTTTGAAAACACGAAAA
* *
30764182 TTGTTGAAAACAC-AAATTT
1 TTTTTGAAAACACGAAA--A
*
30764201 TTTTTG-AAACACAGAAAT
1 TTTTTGAAAACAC-GAAAA
*
30764219 TTTTTGAAAACAATG-AAA
1 TTTTTGAAAAC-ACGAAAA
*
30764237 TTTTTGAAATAC-CG-GAA
1 TTTTTGAAA-ACACGAAAA
30764254 TTTTTGAAAACAC-AAAGA
1 TTTTTGAAAACACGAAA-A
30764272 TTTTTG-AAACAC--AAA
1 TTTTTGAAAACACGAAAA
30764287 TTTTT
1 TTTTT
30764292 CGATTTTTCC
Statistics
Matches: 212, Mismatches: 35, Indels: 55
0.70 0.12 0.18
Matches are distributed among these distances:
15 6 0.03
16 19 0.09
17 78 0.37
18 63 0.30
19 14 0.07
20 4 0.02
21 9 0.04
22 13 0.06
23 6 0.03
ACGTcount: A:0.46, C:0.10, G:0.11, T:0.33
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:30764275 original size:35 final size:35
Alignment explanation
Indices: 30764000--30764291 Score: 135
Period size: 35 Copynumber: 8.1 Consensus size: 35
30763990 ACAATATTTT
* *
30764000 TTTTTTGAAAACACGAAAA-TTTTGAAATA-TGAGAA
1 TTTTTTGAAAACAC-AAAATTTTTGAAACACAGA-AA
* *
30764035 -TTTTAG-AAACACGAAAATTTCT-AAA-ACATGAAA
1 TTTTTTGAAAACAC-AAAATTTTTGAAACACA-GAAA
*
30764068 ATTTTTGAAAACACGAAAATTTTTGAAACACGAGAAAAAA
1 TTTTTTGAAAACAC-AAAATTTTTGAAACAC-AG---AAA
** * * *
30764108 AATTTT--AAACACGAAAATTTATAAAACGCGAGAAA
1 TTTTTTGAAAACAC-AAAATTTTTGAAACAC-AGAAA
* **
30764143 TTTTTTTTTGAAAACTCAAAATTTTTTTTAACAC-GAACA
1 ---TTTTTTGAAAACACAAAA-TTTTTGAAACACAGAA-A
* *
30764182 -TTGTTGAAAACACAAATTTTTTTTGAAACACAGAAA
1 TTTTTTGAAAACACAAA--ATTTTTGAAACACAGAAA
* * *
30764218 TTTTTTGAAAACA-ATGAAATTTTTGAAATACCGGAA
1 TTTTTTGAAAACACA--AAATTTTTGAAACACAGAAA
30764254 -TTTTTGAAAACACAAAGATTTTTGAAACAC--AAA
1 TTTTTTGAAAACACAAA-ATTTTTGAAACACAGAAA
30764287 TTTTT
1 TTTTT
30764292 CGATTTTTCC
Statistics
Matches: 202, Mismatches: 28, Indels: 55
0.71 0.10 0.19
Matches are distributed among these distances:
32 1 0.00
33 18 0.09
34 21 0.10
35 56 0.28
36 30 0.15
37 17 0.08
38 33 0.16
39 5 0.02
40 21 0.10
ACGTcount: A:0.46, C:0.10, G:0.11, T:0.33
Consensus pattern (35 bp):
TTTTTTGAAAACACAAAATTTTTGAAACACAGAAA
Found at i:30764794 original size:23 final size:24
Alignment explanation
Indices: 30764761--30764816 Score: 78
Period size: 23 Copynumber: 2.3 Consensus size: 24
30764751 AATTCGGGCT
*
30764761 TTTTTTGTTTTTTTCCTTTTC-TC
1 TTTTTTCTTTTTTTCCTTTTCTTC
*
30764784 TTTTTTCTTTTTTTTCTTTTCTTC
1 TTTTTTCTTTTTTTCCTTTTCTTC
30764808 TTTTCTTCT
1 TTTT-TTCT
30764817 CTTATTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 19 0.66
24 6 0.21
25 4 0.14
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.80
Consensus pattern (24 bp):
TTTTTTCTTTTTTTCCTTTTCTTC
Found at i:30764795 original size:24 final size:25
Alignment explanation
Indices: 30764759--30764829 Score: 78
Period size: 24 Copynumber: 2.9 Consensus size: 25
30764749 GCAATTCGGG
*
30764759 CTTTTTT-TGTTTTTTTCCTTTTC-T
1 CTTTTTTCTCTTTTTTT-CTTTTCTT
30764783 CTTTTTTCT-TTTTTTTCTTTTCTT
1 CTTTTTTCTCTTTTTTTCTTTTCTT
30764807 CTTTTCTTCTCTTATTTTT-TTTT
1 CTTTT-TTCTCTT-TTTTTCTTTT
30764830 GCAGATTGGG
Statistics
Matches: 42, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
23 6 0.14
24 20 0.48
25 5 0.12
26 6 0.14
27 5 0.12
ACGTcount: A:0.01, C:0.17, G:0.01, T:0.80
Consensus pattern (25 bp):
CTTTTTTCTCTTTTTTTCTTTTCTT
Found at i:30764796 original size:16 final size:16
Alignment explanation
Indices: 30764777--30764829 Score: 63
Period size: 16 Copynumber: 3.2 Consensus size: 16
30764767 GTTTTTTTCC
30764777 TTTTCTCTTTTTTCTT
1 TTTTCTCTTTTTTCTT
*
30764793 TTTTTTCTTTTCTTCTT
1 TTTTCTCTTTT-TTCTT
30764810 TTCTTCTCTTATTTT-TT
1 TT-TTCTCTT-TTTTCTT
30764827 TTT
1 TTT
30764830 GCAGATTGGG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
16 11 0.34
17 11 0.34
18 8 0.25
19 2 0.06
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTCTCTTTTTTCTT
Found at i:30764797 original size:31 final size:34
Alignment explanation
Indices: 30764759--30764830 Score: 84
Period size: 31 Copynumber: 2.3 Consensus size: 34
30764749 GCAATTCGGG
*
30764759 CTTTTTTTGT-TTTT-TTCCTTTTC-TCT-TTTTT
1 CTTTTTTTGTCTTTTCTT-CTTTTCTTCTCTTATT
30764790 CTTTTTTT-TCTTTTCTTCTTTTCTTCTCTTATT
1 CTTTTTTTGTCTTTTCTTCTTTTCTTCTCTTATT
30764823 -TTTTTTTG
1 CTTTTTTTG
30764831 CAGATTGGGC
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
30 1 0.03
31 18 0.51
32 12 0.34
33 4 0.11
ACGTcount: A:0.01, C:0.17, G:0.03, T:0.79
Consensus pattern (34 bp):
CTTTTTTTGTCTTTTCTTCTTTTCTTCTCTTATT
Found at i:30764808 original size:8 final size:8
Alignment explanation
Indices: 30764776--30764816 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
30764766 TGTTTTTTTC
30764776 CTTTTC-T
1 CTTTTCTT
30764783 CTTTT-TT
1 CTTTTCTT
*
30764790 CTTTTTTTT
1 C-TTTTCTT
30764799 CTTTTCTT
1 CTTTTCTT
30764807 CTTTTCTT
1 CTTTTCTT
30764815 CT
1 CT
30764817 CTTATTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
7 7 0.23
8 20 0.67
9 3 0.10
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (8 bp):
CTTTTCTT
Found at i:30764827 original size:32 final size:32
Alignment explanation
Indices: 30764760--30764829 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
30764750 CAATTCGGGC
* * *
30764760 TTTTTTTGTTTTTTTCCTTTTCTCTTTTTTCT
1 TTTTTTTCTTTTCTTCCTTTTCTCTTTATTCT
30764792 TTTTTTTCTTTTCTT-CTTTTCTTCTCTTATT-T
1 TTTTTTTCTTTTCTTCCTTTTC-TCT-TTATTCT
30764824 TTTTTT
1 TTTTTT
30764830 GCAGATTGGG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
31 6 0.18
32 23 0.70
33 4 0.12
ACGTcount: A:0.01, C:0.16, G:0.01, T:0.81
Consensus pattern (32 bp):
TTTTTTTCTTTTCTTCCTTTTCTCTTTATTCT
Found at i:30765945 original size:30 final size:30
Alignment explanation
Indices: 30765897--30765968 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
30765887 GCTAGTGGTC
* * *
30765897 AAAATGTAAATTTAGAAAAATTTAGGGGTT
1 AAAATGTAATTTTAGAAAAATTTAAGGGCT
* * *
30765927 AAAATATAATTTTTGAAAAGTTTAAGGGCT
1 AAAATGTAATTTTAGAAAAATTTAAGGGCT
30765957 AAAATGTAATTT
1 AAAATGTAATTT
30765969 ATATTTTTTT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.46, C:0.01, G:0.17, T:0.36
Consensus pattern (30 bp):
AAAATGTAATTTTAGAAAAATTTAAGGGCT
Found at i:30766599 original size:77 final size:77
Alignment explanation
Indices: 30766290--30766804 Score: 675
Period size: 76 Copynumber: 6.7 Consensus size: 77
30766280 GATCTGAAGT
* ** * *
30766290 TCAACTCACCTCTCAG-ATTATGAGTTGA--CCTTTGAAAAATAGAAATTGAAAAATACCTCGGC
1 TCAACTCACCTCTC-GCAATATGAGTTGATTTTTTTGAAAAACAGAAATT-AAAAATACCTCGGT
30766352 ATGTGACCCGAGGC
64 ATGTGACCCGAGGC
* * * * **
30766366 TCAACTCACCTCTCGCAATATGAGTT--TATTTTTGAAAAGCATAAATTGAAAAATACCTCAGCG
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATT-AAAAATACCTCGGTA
** *
30766429 TGCAACCCGAGGT
65 TGTGACCCGAGGC
* *
30766442 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAAAAATTGAAAAATAACTCGGTA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATT-AAAAATACCTCGGTA
*
30766507 TGTGACCCGATGC
65 TGTGACCCGAGGC
* *
30766520 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAAAAATTAAAGATACCTCGGTAT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAATACCTCGGTAT
30766585 GTGACCCGAGGC
66 GTGACCCGAGGC
* * * * *
30766597 TCAACTCATCTCTCGCAATATAAGTTGA-TTTTTTGAAAAATATAAGTTAAAAATACCTCGGTAT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAATACCTCGGTAT
30766661 GTGACCCGAGGC
66 GTGACCCGAGGC
* * *
30766673 TCAACTCATCTCTCGCAATATGAGTTGA-TTTTTTGAAAAATAGAAATTAAATATACCTCGGATA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAATACCTCGG-TA
30766737 TGTGACCCGAGGC
65 TGTGACCCGAGGC
*
30766750 TCAACTCACCTCTCGCAATATGAGTTGTTTTTTTTTGAAAAACAGAAATTAAAAA
1 TCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTTGAAAAACAGAAATTAAAAA
30766805 ATATAATTCT
Statistics
Matches: 392, Mismatches: 39, Indels: 13
0.88 0.09 0.03
Matches are distributed among these distances:
75 1 0.00
76 188 0.48
77 92 0.23
78 88 0.22
79 23 0.06
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.30
Consensus pattern (77 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAATACCTCGGTAT
GTGACCCGAGGC
Found at i:30766651 original size:231 final size:230
Alignment explanation
Indices: 30766290--30766804 Score: 707
Period size: 231 Copynumber: 2.2 Consensus size: 230
30766280 GATCTGAAGT
* ** *
30766290 TCAACTCACCTCTCAG-ATTATGAGTTGA--CCTTTGAAAAATAGAAATTGAAAAATACCTCGGC
1 TCAACTCACCTCTC-GCAATATGAGTTGATTTTTTTGAAAAACAGAAATT-AAAAATACCTCGGC
* * *
30766352 ATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTTATTTTTGAAAAGCATAAATTGAAA
64 ATGTGACCCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTGAAAAACATAAATTGAAA
* *
30766417 AATACCTCAGCGTGCAACCCGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAA
129 AATACCTCAGCATGCAACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAA
*
30766482 ACAAAAATTGAAAAATAACTCGG-TATGTGACCCGATGC
193 ACAAAAATT-AAAAATAACTCGGATATGTGACCCGAGGC
* * *
30766520 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAAAAATTAAAGATACCTCGGTAT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAATACCTCGGCAT
* * *
30766585 GTGACCCGAGGCTCAACTCATCTCTCGCAATATAAGTTGATTTTTTGAAAAATATAAGTT-AAAA
66 GTGACCCGAGGCTCAACTCACCTCTCGCAATATAAGTTGA-TTTTTGAAAAACATAAATTGAAAA
* * ** * *
30766649 ATACCTCGGTATGTGACCCGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTTGAAAAAT
130 ATACCTCAGCATGCAACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAC
* * *
30766714 AGAAATTAAATATACCTCGGATATGTGACCCGAGGC
195 AAAAATTAAAAATAACTCGGATATGTGACCCGAGGC
*
30766750 TCAACTCACCTCTCGCAATATGAGTTGTTTTTTTTTGAAAAACAGAAATTAAAAA
1 TCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTTGAAAAACAGAAATTAAAAA
30766805 ATATAATTCT
Statistics
Matches: 251, Mismatches: 28, Indels: 11
0.87 0.10 0.04
Matches are distributed among these distances:
229 12 0.05
230 84 0.33
231 124 0.49
232 31 0.12
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.30
Consensus pattern (230 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAATACCTCGGCAT
GTGACCCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTGAAAAACATAAATTGAAAAA
TACCTCAGCATGCAACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACA
AAAATTAAAAATAACTCGGATATGTGACCCGAGGC
Found at i:30766694 original size:153 final size:154
Alignment explanation
Indices: 30766290--30766807 Score: 670
Period size: 153 Copynumber: 3.4 Consensus size: 154
30766280 GATCTGAAGT
* ** * *
30766290 TCAACTCACCTCTCAG-ATTATGAGTTGA-CCTTTGAAAAATAGAAATTGAAAAATACCTCGGCA
1 TCAACTCACCTCTC-GCAATATGAGTTGATTTTTTGAAAAATAAAAATTGAAAAATACCTCGGTA
* * *
30766353 TGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTT--TATTTTTGAAAAGCATAAATTGAA
65 TGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAAAAATT-AA
* ** ** *
30766416 AAATACCTCAGCGTGCAACCCGAGGT
129 AAATACCTCGGTATGTGACCCGAGGC
* *
30766442 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAAAAATTGAAAAATAACTCGGTA
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAATAAAAATTGAAAAATACCTCGGTA
*
30766507 TGTGACCCGATGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAAAAATTAAA
65 TGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAAAAATTAAA
*
30766572 GATACCTCGGTATGTGACCCGAGGC
130 AATACCTCGGTATGTGACCCGAGGC
* * * *
30766597 TCAACTCATCTCTCGCAATATAAGTTGATTTTTTGAAAAATATAAGTT-AAAAATACCTCGGTAT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAAAAATTGAAAAATACCTCGGTAT
* * * *
30766661 GTGACCCGAGGCTCAACTCATCTCTCGCAATATGAGTTGA-TTTTTTGAAAAATAGAAATTAAAT
66 GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAAAAATTAAAA
30766725 ATACCTCGGATATGTGACCCGAGGC
131 ATACCTCGG-TATGTGACCCGAGGC
* * * *
30766750 TCAACTCACCTCTCGCAATATGAGTTGTTTTTTTTTGAAAAACAGAAATTAAAAAATA
1 TCAACTCACCTCTCGCAATATGAGTTG--ATTTTTTGAAAAATAAAAATTGAAAAATA
30766808 TAATTCTTGA
Statistics
Matches: 322, Mismatches: 35, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
151 1 0.00
152 55 0.17
153 93 0.29
154 84 0.26
155 64 0.20
156 25 0.08
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.30
Consensus pattern (154 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAAAAATTGAAAAATACCTCGGTAT
GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAAAAATTAAAA
ATACCTCGGTATGTGACCCGAGGC
Found at i:30767706 original size:6 final size:6
Alignment explanation
Indices: 30767690--30767742 Score: 72
Period size: 6 Copynumber: 8.8 Consensus size: 6
30767680 TTTTGGGTTT
* *
30767690 TTTTGTG TTTTTG TTTTT- TTTGTA TTTTTG TTTTTG TTTTTG TTTTTG
1 TTTT-TG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG
30767738 TTTTT
1 TTTTT
30767743 TTTCTTTAGG
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
5 4 0.10
6 34 0.81
7 4 0.10
ACGTcount: A:0.02, C:0.00, G:0.15, T:0.83
Consensus pattern (6 bp):
TTTTTG
Found at i:30767707 original size:17 final size:17
Alignment explanation
Indices: 30767687--30767745 Score: 91
Period size: 17 Copynumber: 3.4 Consensus size: 17
30767677 TTTTTTTGGG
30767687 TTTTTTTGTGTTTTTGT
1 TTTTTTTGTGTTTTTGT
*
30767704 TTTTTTTGTATTTTTGT
1 TTTTTTTGTGTTTTTGT
*
30767721 TTTTGTTTTTGTTTTTGT
1 TTTT-TTTGTGTTTTTGT
30767739 TTTTTTT
1 TTTTTTT
30767746 CTTTAGGCAT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
17 23 0.61
18 15 0.39
ACGTcount: A:0.02, C:0.00, G:0.14, T:0.85
Consensus pattern (17 bp):
TTTTTTTGTGTTTTTGT
Found at i:30767718 original size:35 final size:35
Alignment explanation
Indices: 30767679--30767745 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
30767669 TTTTCCTTTT
30767679 TTTTTGGGTTTT-TTTGTGTTTTTGTTTTTTTTGTA
1 TTTTT-GGTTTTGTTTGTGTTTTTGTTTTTTTTGTA
* *
30767714 TTTTTGTTTTTGTTTTTGTTTTTGTTTTTTTT
1 TTTTTGGTTTTGTTTGTGTTTTTGTTTTTTTT
30767746 CTTTAGGCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 5 0.17
35 24 0.83
ACGTcount: A:0.01, C:0.00, G:0.16, T:0.82
Consensus pattern (35 bp):
TTTTTGGTTTTGTTTGTGTTTTTGTTTTTTTTGTA
Found at i:30778025 original size:17 final size:17
Alignment explanation
Indices: 30777929--30778172 Score: 143
Period size: 17 Copynumber: 13.7 Consensus size: 17
30777919 CACAATATTT
*
30777929 TTTTTGAAAACACGGAAA
1 TTTTTG-AAACACGAAAA
* * *
30777947 -GTTTGAAATACGAGAA
1 TTTTTGAAACACGAAAA
*
30777963 TTTTAGAAACACGAAAA
1 TTTTTGAAACACGAAAA
* * *
30777980 ATTCTAAAACACGAAAA
1 TTTTTGAAACACGAAAA
30777997 TTTTTGACAACACGAAAA
1 TTTTTGA-AACACGAAAA
*
30778015 TTTTTGAAACATGAGAAA
1 TTTTTGAAACACGA-AAA
*
30778033 TGTTTTTTTGAAA-ACTCAAAA
1 ----TTTTTGAAACAC-GAAAA
** *
30778054 TTTTTTTAATACGAAAA
1 TTTTTGAAACACGAAAA
* **
30778071 TTGTTTGAAACGCGAATTT
1 TT-TTTGAAACACGAA-AA
*
30778090 TTTTTGAAACACGGAAAT
1 TTTTTGAAACAC-GAAAA
* *
30778108 TTTTTGAAAACAAGGAAA
1 TTTTTG-AAACACGAAAA
* *
30778126 TTTTTGAAATACCAAAA
1 TTTTTGAAACACGAAAA
*
30778143 TTTTTAAAAACAC-AAAGA
1 TTTTT-GAAACACGAAA-A
30778161 TTTTTGAAACAC
1 TTTTTGAAACAC
30778173 AATTTTTTCA
Statistics
Matches: 172, Mismatches: 39, Indels: 31
0.71 0.16 0.13
Matches are distributed among these distances:
16 8 0.05
17 73 0.42
18 67 0.39
19 10 0.06
21 4 0.02
22 10 0.06
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.32
Consensus pattern (17 bp):
TTTTTGAAACACGAAAA
Found at i:30778173 original size:17 final size:16
Alignment explanation
Indices: 30777961--30778174 Score: 79
Period size: 18 Copynumber: 12.0 Consensus size: 16
30777951 GAAATACGAG
*
30777961 AATTTTAGAAACACGAA
1 AATTTTTGAAACAC-AA
* * *
30777978 AAATTCTAAAACACGAA
1 AATTTTTGAAACAC-AA
30777995 AATTTTTGACAACACGAA
1 AATTTTTGA-AACAC-AA
*
30778013 AATTTTTGAAACATGAGA
1 AATTTTTGAAACA-CA-A
*
30778031 AATGTTTTTTTGAAAACTCAA
1 AA----TTTTTG-AAACACAA
** *
30778052 AATTTTTTTAATACGAA
1 AATTTTTGAAACAC-AA
*
30778069 AATTGTTTGAAACGCGAA
1 AATT-TTTGAAACAC-AA
**
30778087 TTTTTTTTGAAACACGGAA
1 -AATTTTTGAAACAC--AA
*
30778106 ATTTTTTGAAA-ACAAGGA
1 AATTTTTGAAACAC-A--A
*
30778124 AATTTTTGAAATACCAA
1 AATTTTTGAAACA-CAA
*
30778141 AATTTTTAAAAACACAA
1 AATTTTT-GAAACACAA
30778158 AGATTTTTGAAACACAA
1 A-ATTTTTGAAACACAA
30778175 TTTTTTCAAT
Statistics
Matches: 152, Mismatches: 27, Indels: 36
0.71 0.13 0.17
Matches are distributed among these distances:
16 4 0.03
17 57 0.38
18 69 0.45
19 7 0.05
20 1 0.01
21 3 0.02
22 7 0.05
23 4 0.03
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.33
Consensus pattern (16 bp):
AATTTTTGAAACACAA
Found at i:30778662 original size:8 final size:8
Alignment explanation
Indices: 30778649--30778720 Score: 65
Period size: 8 Copynumber: 8.8 Consensus size: 8
30778639 CAATTCAGGC
*
30778649 TTTTTTGT
1 TTTTTTCT
*
30778657 TTTTTTCC
1 TTTTTTCT
*
30778665 TTTTCTC-
1 TTTTTTCT
30778672 TTTTTTCTT
1 TTTTTTC-T
*
30778681 TTTTTTTT
1 TTTTTTCT
30778689 ATTTTTTCT
1 -TTTTTTCT
*
30778698 TTTCTTCT
1 TTTTTTCT
30778706 TTTTTTCT
1 TTTTTTCT
30778714 CTTTTTT
1 -TTTTTT
30778721 TTTCTGCAGA
Statistics
Matches: 52, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
7 6 0.12
8 27 0.52
9 19 0.37
ACGTcount: A:0.01, C:0.14, G:0.01, T:0.83
Consensus pattern (8 bp):
TTTTTTCT
Found at i:30778684 original size:25 final size:26
Alignment explanation
Indices: 30778656--30778711 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 26
30778646 GGCTTTTTTG
*
30778656 TTTTTTTCCTTTTCTCTTTT-TTCTT
1 TTTTTTTCATTTTCTCTTTTCTTCTT
* *
30778681 TTTTTTTTATTTTTTCTTTTCTTCTT
1 TTTTTTTCATTTTCTCTTTTCTTCTT
30778707 TTTTT
1 TTTTT
30778712 CTCTTTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 17 0.63
26 10 0.37
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (26 bp):
TTTTTTTCATTTTCTCTTTTCTTCTT
Found at i:30778686 original size:18 final size:17
Alignment explanation
Indices: 30778665--30778721 Score: 69
Period size: 18 Copynumber: 3.2 Consensus size: 17
30778655 GTTTTTTTCC
*
30778665 TTTTCTCTTTTTTCTTT
1 TTTTCTTTTTTTTCTTT
*
30778682 TTTTTTTATTTTTTCTTT
1 TTTTCTT-TTTTTTCTTT
*
30778700 TCTTCTTTTTTTCTCTTT
1 TTTTCTTTTTTT-TCTTT
30778718 TTTT
1 TTTT
30778722 TTCTGCAGAT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
17 10 0.30
18 23 0.70
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTTCTTTTTTTTCTTT
Found at i:30778694 original size:26 final size:26
Alignment explanation
Indices: 30778656--30778711 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
30778646 GGCTTTTTTG
*
30778656 TTTTTTTCCTTTTCTCTTTT-TTCTTT
1 TTTTTTTACTTTT-TCTTTTCTTCTTT
*
30778682 TTTTTTTATTTTTTCTTTTCTTCTTT
1 TTTTTTTACTTTTTCTTTTCTTCTTT
30778708 TTTT
1 TTTT
30778712 CTCTTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 6 0.22
26 21 0.78
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (26 bp):
TTTTTTTACTTTTTCTTTTCTTCTTT
Found at i:30778694 original size:33 final size:34
Alignment explanation
Indices: 30778648--30778723 Score: 104
Period size: 32 Copynumber: 2.3 Consensus size: 34
30778638 GCAATTCAGG
* *
30778648 CTTTTTTGTTTTTTTCCTTTTC-TC-TTTTTTCT
1 CTTTTTTTTTTTTTTTCTTTTCTTCTTTTTTTCT
30778680 -TTTTTTTTTATTTTTTCTTTTCTTCTTTTTTTCT
1 CTTTTTTTTT-TTTTTTCTTTTCTTCTTTTTTTCT
30778714 CTTTTTTTTT
1 CTTTTTTTTT
30778724 CTGCAGATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
31 8 0.21
32 11 0.29
33 2 0.05
34 8 0.21
35 9 0.24
ACGTcount: A:0.01, C:0.14, G:0.01, T:0.83
Consensus pattern (34 bp):
CTTTTTTTTTTTTTTTCTTTTCTTCTTTTTTTCT
Found at i:30778700 original size:23 final size:23
Alignment explanation
Indices: 30778672--30778725 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 23
30778662 TCCTTTTCTC
*
30778672 TTTTTTCTTTTTTTTTTAT-TTT
1 TTTTTTCTTCTTTTTTTATCTTT
*
30778694 TTCTTTTCTTCTTTTTTTCTCTTT
1 TT-TTTTCTTCTTTTTTTATCTTT
30778718 TTTTTTCT
1 TTTTTTCT
30778726 GCAGATTAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 2 0.07
23 21 0.75
24 5 0.18
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.85
Consensus pattern (23 bp):
TTTTTTCTTCTTTTTTTATCTTT
Found at i:30778718 original size:25 final size:23
Alignment explanation
Indices: 30778648--30778720 Score: 74
Period size: 25 Copynumber: 3.0 Consensus size: 23
30778638 GCAATTCAGG
* * *
30778648 CTTTTTTGTTTTTTTCCTTTTCT
1 CTTTTTTCTTTTTTTCTTTTTTT
*
30778671 CTTTTTTCTTTTTTTTTTATTTTTT
1 CTTTTTTC-TTTTTTTCT-TTTTTT
30778696 CTTTTCTTCTTTTTTTCTCTTTTTT
1 CTTTT-TTCTTTTTTTCT-TTTTTT
30778721 TTTCTGCAGA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
23 7 0.17
24 7 0.17
25 24 0.59
26 3 0.07
ACGTcount: A:0.01, C:0.15, G:0.01, T:0.82
Consensus pattern (23 bp):
CTTTTTTCTTTTTTTCTTTTTTT
Found at i:30779227 original size:24 final size:25
Alignment explanation
Indices: 30779200--30779246 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
30779190 TTTTTGTTTG
30779200 CTATTTTT-TTT-TCTCTTTTGCTCA
1 CTATTTTTATTTAT-TCTTTTGCTCA
30779224 CTATTTTTATTTATTCTTTTGCT
1 CTATTTTTATTTATTCTTTTGCT
30779247 TGTTGCTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 8 0.38
25 12 0.57
26 1 0.05
ACGTcount: A:0.11, C:0.17, G:0.04, T:0.68
Consensus pattern (25 bp):
CTATTTTTATTTATTCTTTTGCTCA
Found at i:30779807 original size:30 final size:29
Alignment explanation
Indices: 30779761--30779909 Score: 119
Period size: 30 Copynumber: 5.1 Consensus size: 29
30779751 GAAGTACAAT
*
30779761 TTTAGAAAA-TAT-GGGGCCAAAATGTAA
1 TTTAGAAAAGTTTAGGGGCCAAAATGTAA
*
30779788 TTTCATG-AAAGTTTAGGGGCTC-AAATGTAG
1 TTT-A-GAAAAGTTTAGGGGC-CAAAATGTAA
* * *
30779818 TTTACAAAA-TTCTAGGTGTCAAAATGTAAA
1 TTTAGAAAAGTT-TAGGGGCCAAAATGT-AA
* **
30779848 TTTAGAAAAATTTAGGGGTTAAAATGTAA
1 TTTAGAAAAGTTTAGGGGCCAAAATGTAA
* *
30779877 TTTTTGAAAAGTTTAGGGGCTAAAATGTAA
1 -TTTAGAAAAGTTTAGGGGCCAAAATGTAA
30779907 TTT
1 TTT
30779910 GTATTTTTTT
Statistics
Matches: 99, Mismatches: 12, Indels: 20
0.76 0.09 0.15
Matches are distributed among these distances:
27 3 0.03
28 7 0.07
29 23 0.23
30 63 0.64
31 3 0.03
ACGTcount: A:0.39, C:0.06, G:0.21, T:0.34
Consensus pattern (29 bp):
TTTAGAAAAGTTTAGGGGCCAAAATGTAA
Found at i:30780690 original size:19 final size:19
Alignment explanation
Indices: 30780661--30780700 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
30780651 ATCAAAATTT
30780661 TTAATATATTAATAGTAAAA
1 TTAATATATTAA-AGTAAAA
*
30780681 TTAA-ATATTAAATTAAAA
1 TTAATATATTAAAGTAAAA
30780699 TT
1 TT
30780701 TATTAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 7 0.37
20 4 0.21
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (19 bp):
TTAATATATTAAAGTAAAA
Found at i:30783865 original size:14 final size:14
Alignment explanation
Indices: 30783831--30783866 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
30783821 TTGTTTCACT
*
30783831 AAAAATAATTTTTG
1 AAAAATGATTTTTG
30783845 AAAAATGATTTTTG
1 AAAAATGATTTTTG
30783859 AAAAATGA
1 AAAAATGA
30783867 CTTACTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.53, C:0.00, G:0.11, T:0.36
Consensus pattern (14 bp):
AAAAATGATTTTTG
Found at i:30784161 original size:31 final size:31
Alignment explanation
Indices: 30784123--30784187 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
30784113 AAATTTATAA
30784123 TTGAAATAAGAAAAGTGATATGCATGAAAAT
1 TTGAAATAAGAAAAGTGATATGCATGAAAAT
30784154 TTGAAATAAGAAAAGTGATATGCATGAAAAT
1 TTGAAATAAGAAAAGTGATATGCATGAAAAT
30784185 TTG
1 TTG
30784188 TTATGTGTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.49, C:0.03, G:0.20, T:0.28
Consensus pattern (31 bp):
TTGAAATAAGAAAAGTGATATGCATGAAAAT
Found at i:30795525 original size:27 final size:27
Alignment explanation
Indices: 30795495--30795548 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
30795485 CTTGGTATTG
*
30795495 CGATCACTGAATTCAAACCAATCACAT
1 CGATCACCGAATTCAAACCAATCACAT
30795522 CGATCACCGAATTCAAACCAATCACAT
1 CGATCACCGAATTCAAACCAATCACAT
30795549 ATTTCTTTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.41, C:0.31, G:0.07, T:0.20
Consensus pattern (27 bp):
CGATCACCGAATTCAAACCAATCACAT
Found at i:30797629 original size:42 final size:42
Alignment explanation
Indices: 30797582--30797684 Score: 127
Period size: 42 Copynumber: 2.5 Consensus size: 42
30797572 GGCACACGGA
* *
30797582 CATATGTCCAGGCCGTGTGTGTCACACGGGTAAGGACATGGG
1 CATATGTCCAGGCCGTGTGAGTCACACGGGAAAGGACATGGG
* * *
30797624 CATATGTCTAGGCTGTGTGAGTCATACGGGAAAGGACATGGG
1 CATATGTCCAGGCCGTGTGAGTCACACGGGAAAGGACATGGG
* *
30797666 CCTGTG-CTCAGGCCGTGTG
1 CATATGTC-CAGGCCGTGTG
30797685 GCATGGAAAA
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
41 1 0.02
42 50 0.98
ACGTcount: A:0.20, C:0.20, G:0.36, T:0.23
Consensus pattern (42 bp):
CATATGTCCAGGCCGTGTGAGTCACACGGGAAAGGACATGGG
Found at i:30806390 original size:102 final size:105
Alignment explanation
Indices: 30806217--30806422 Score: 231
Period size: 102 Copynumber: 2.0 Consensus size: 105
30806207 GTCTAGGCTG
* * * ** * * * *
30806217 TGTAACTCACTGTTTGTGACTTAGAACCACACGGGCAAGGCACATGGGCATTTGTCCAGGCCGTG
1 TGTAACTCACTATTTATGACTCAGAACCACACGGGCAAGGCACATGAACATGTGCCCAAGCCATG
* *
30806282 TAAGTCAC-GA-GT-AGGACACGGGCATGTGTTCAGGCCA
66 TAAGTCACACAGGTAAGGACACGGGCATGTGTCCAGGCCA
* * *
30806319 TGTAACTCTCTATTTATGACTCAGAACCACATGGGCAGAGG-ACATGAACGTGTGCCCAAGCCAT
1 TGTAACTCACTATTTATGACTCAGAACCACACGGGCA-AGGCACATGAACATGTGCCCAAGCCAT
* *
30806383 GTGAGTCACACAGGTAAGGACATGGGCATGTGTCCAGGCC
65 GTAAGTCACACAGGTAAGGACACGGGCATGTGTCCAGGCC
30806423 GTGTGAGCCA
Statistics
Matches: 84, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
102 56 0.67
103 4 0.05
104 2 0.02
105 22 0.26
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (105 bp):
TGTAACTCACTATTTATGACTCAGAACCACACGGGCAAGGCACATGAACATGTGCCCAAGCCATG
TAAGTCACACAGGTAAGGACACGGGCATGTGTCCAGGCCA
Found at i:30808089 original size:40 final size:40
Alignment explanation
Indices: 30807975--30808213 Score: 182
Period size: 40 Copynumber: 6.0 Consensus size: 40
30807965 TGTGATTAGA
* * * * *
30807975 GGTACCGAAGTCCAAACAGGGGCACAG-ATGTGCAATCAAG
1 GGTACCAAAGTACAAACAGGGACAC-GTATGTGCATTTAAG
* * * ** * *
30808015 GGCACCAAAGTGCAAAAAATGGG-CACAAATGTGCATTCAGG
1 GGTACCAAAGTAC-AAACA-GGGACACGTATGTGCATTTAAG
* * ** **
30808056 GGTACCGAAGTACAAATAGGGACATATATGTGCATTTTGG
1 GGTACCAAAGTACAAACAGGGACACGTATGTGCATTTAAG
* *
30808096 GGTACCAAACTACAAACAGGGGCACGTATGTGCATTTAAG
1 GGTACCAAAGTACAAACAGGGACACGTATGTGCATTTAAG
*
30808136 TGTACCAAAGTACAAACA-GGAGCACGTATGTGCATTTAAG
1 GGTACCAAAGTACAAACAGGGA-CACGTATGTGCATTTAAG
* *
30808176 GGTACCGAAA-TACAAACAAAGG-CACGTGTGTGCATTTA
1 GGTACC-AAAGTACAAAC-AGGGACACGTATGTGCATTTA
30808214 GTAACATTTT
Statistics
Matches: 163, Mismatches: 28, Indels: 16
0.79 0.14 0.08
Matches are distributed among these distances:
39 5 0.03
40 121 0.74
41 32 0.20
42 5 0.03
ACGTcount: A:0.36, C:0.18, G:0.26, T:0.20
Consensus pattern (40 bp):
GGTACCAAAGTACAAACAGGGACACGTATGTGCATTTAAG
Found at i:30808147 original size:80 final size:80
Alignment explanation
Indices: 30807975--30808213 Score: 207
Period size: 80 Copynumber: 3.0 Consensus size: 80
30807965 TGTGATTAGA
* * * * * * * *
30807975 GGTACCGAAGTCCAAACAGGGGCACAGATGTGCAATCAAGGGCACC-AAAGTGCAAA-AAATGGG
1 GGTACCAAAGTACAAACAGGAGCACATATGTGCATTTAAGGGTACCGAAA-TACAAACAAA--GG
** * *
30808038 CACAAATGTGCATTCAGG
63 CACGTATGTGCATTTAAG
* * * ** **
30808056 GGTACCGAAGTACAAATAGG-GACATATATGTGCATTTTGGGGTACC-AAACTACAAACAGGGGC
1 GGTACCAAAGTACAAACAGGAG-CACATATGTGCATTTAAGGGTACCGAAA-TACAAACAAAGGC
30808119 ACGTATGTGCATTTAAG
64 ACGTATGTGCATTTAAG
* *
30808136 TGTACCAAAGTACAAACAGGAGCACGTATGTGCATTTAAGGGTACCGAAATACAAACAAAGGCAC
1 GGTACCAAAGTACAAACAGGAGCACATATGTGCATTTAAGGGTACCGAAATACAAACAAAGGCAC
*
30808201 GTGTGTGCATTTA
66 GTATGTGCATTTA
30808214 GTAACATTTT
Statistics
Matches: 127, Mismatches: 27, Indels: 9
0.78 0.17 0.06
Matches are distributed among these distances:
80 79 0.62
81 47 0.37
82 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.26, T:0.20
Consensus pattern (80 bp):
GGTACCAAAGTACAAACAGGAGCACATATGTGCATTTAAGGGTACCGAAATACAAACAAAGGCAC
GTATGTGCATTTAAG
Found at i:30808747 original size:25 final size:25
Alignment explanation
Indices: 30808692--30808754 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 25
30808682 AAAAAACAAA
* * *
30808692 AGAACAGGACAGAGCAGAACATAAC
1 AGAACAGAATAGAGCAGAACAAAAC
30808717 AGAACAGAATAGAGCAGAACAAAAC
1 AGAACAGAATAGAGCAGAACAAAAC
30808742 TA-AACAGAATAGA
1 -AGAACAGAATAGA
30808755 ATAGAGCGGA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
25 33 0.97
26 1 0.03
ACGTcount: A:0.57, C:0.16, G:0.21, T:0.06
Consensus pattern (25 bp):
AGAACAGAATAGAGCAGAACAAAAC
Found at i:30813077 original size:19 final size:19
Alignment explanation
Indices: 30813053--30813091 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
30813043 CCAAAGTTGA
30813053 ATTCTTTTAATTTTGTTTT
1 ATTCTTTTAATTTTGTTTT
30813072 ATTCTTTTAATTTTGTTTT
1 ATTCTTTTAATTTTGTTTT
30813091 A
1 A
30813092 ATTTCTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.18, C:0.05, G:0.05, T:0.72
Consensus pattern (19 bp):
ATTCTTTTAATTTTGTTTT
Found at i:30813100 original size:19 final size:19
Alignment explanation
Indices: 30813053--30813100 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
30813043 CCAAAGTTGA
*
30813053 ATTCTTTTAATTTTGTTTT
1 ATTCTCTTAATTTTGTTTT
*
30813072 ATTCTTTTAATTTTGTTTT
1 ATTCTCTTAATTTTGTTTT
30813091 AATT-TCTTAA
1 -ATTCTCTTAA
30813101 AATTTACCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 24 0.89
20 3 0.11
ACGTcount: A:0.21, C:0.06, G:0.04, T:0.69
Consensus pattern (19 bp):
ATTCTCTTAATTTTGTTTT
Found at i:30813104 original size:21 final size:19
Alignment explanation
Indices: 30813061--30813105 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
30813051 GAATTCTTTT
**
30813061 AATTTTGTTTTATTCTTTT
1 AATTTTGTTTTATTCTTAA
30813080 AATTTTGTTTTAATTTCTTAA
1 AATTTTGTTTT-A-TTCTTAA
30813101 AATTT
1 AATTT
30813106 ACCATTTTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 11 0.50
20 1 0.05
21 10 0.45
ACGTcount: A:0.24, C:0.04, G:0.04, T:0.67
Consensus pattern (19 bp):
AATTTTGTTTTATTCTTAA
Found at i:30814741 original size:43 final size:43
Alignment explanation
Indices: 30814691--30814873 Score: 212
Period size: 43 Copynumber: 4.3 Consensus size: 43
30814681 TTATGTGAAA
*
30814691 AAACGCCGCTAAAGATCATGAACTTTAGTGGCGCTTCTACCAC
1 AAACGCCGCTAAAGATCATGAACTTTAGCGGCGCTTCTACCAC
**
30814734 AAACGCCGCTAAAGATCATGTCCTTTAGCGGCGCTTCTACCAC
1 AAACGCCGCTAAAGATCATGAACTTTAGCGGCGCTTCTACCAC
* * **
30814777 AAACGCCGCTAAAGATCATTACCTTTAGCAACGCTTCTACCAC
1 AAACGCCGCTAAAGATCATGAACTTTAGCGGCGCTTCTACCAC
* * ***
30814820 AAACACCACTATAAGA--ATG-ACTTTTAGCGGCGCTT-TTTGAC
1 AAACGCCGCTA-AAGATCATGAAC-TTTAGCGGCGCTTCTACCAC
30814861 AAACGCCGCTAAA
1 AAACGCCGCTAAA
30814874 AACATGACTT
Statistics
Matches: 120, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
40 2 0.02
41 13 0.11
42 13 0.11
43 88 0.73
44 4 0.03
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTAAAGATCATGAACTTTAGCGGCGCTTCTACCAC
Found at i:30823861 original size:23 final size:23
Alignment explanation
Indices: 30823826--30823877 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 23
30823816 AAAAAAGAGC
*
30823826 AAAAAGCAAAAAAAAACTAGAAAAT
1 AAAAAGC-AAAAAAAACCA-AAAAT
30823851 AAAAAGCAAAAAAAACCAAAAAT
1 AAAAAGCAAAAAAAACCAAAAAT
30823874 AAAA
1 AAAA
30823878 GAAAAGACCT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 9 0.35
24 10 0.38
25 7 0.27
ACGTcount: A:0.79, C:0.10, G:0.06, T:0.06
Consensus pattern (23 bp):
AAAAAGCAAAAAAAACCAAAAAT
Found at i:30824321 original size:13 final size:12
Alignment explanation
Indices: 30824303--30824345 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
30824293 ACTTCACTCG
30824303 AAAAAGAAACAAA
1 AAAAAGAAA-AAA
30824316 AAAAAGAAAAAA
1 AAAAAGAAAAAA
* * *
30824328 AAGAACAAAAAG
1 AAAAAGAAAAAA
30824340 AAAAAG
1 AAAAAG
30824346 GAGAGGCGGA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
12 16 0.64
13 9 0.36
ACGTcount: A:0.84, C:0.05, G:0.12, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAAAA
Found at i:30824325 original size:9 final size:9
Alignment explanation
Indices: 30824302--30824344 Score: 59
Period size: 9 Copynumber: 4.7 Consensus size: 9
30824292 TACTTCACTC
30824302 GAAAAAGAAA
1 GAAAAA-AAA
*
30824312 CAAAAAAAA
1 GAAAAAAAA
30824321 GAAAAAAAA
1 GAAAAAAAA
*
30824330 GAACAAAAA
1 GAAAAAAAA
30824339 GAAAAA
1 GAAAAA
30824345 GGAGAGGCGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
9 24 0.83
10 5 0.17
ACGTcount: A:0.84, C:0.05, G:0.12, T:0.00
Consensus pattern (9 bp):
GAAAAAAAA
Found at i:30825772 original size:43 final size:43
Alignment explanation
Indices: 30825725--30825905 Score: 132
Period size: 43 Copynumber: 4.2 Consensus size: 43
30825715 CTCCCTGATT
*
30825725 ACAGTGGAGTACATTGAAGCTGGTAGTTCTATCTCCCTGGGCA
1 ACAGTGGAGTACATCGAAGCTGGTAGTTCTATCTCCCTGGGCA
* * * *** * **
30825768 ACAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCTAAGCA
1 ACAGTGGAGTACATCGAAGCTGGTAGTTC-TATCTCCCTGGGCA
* * ** * * * ***
30825812 ATAGTGGAGCAGGTCGAAGAC-GGTGAATTTTACCTCCCT-GATT
1 ACAGTGGAGTACATCGAAG-CTGGT-AGTTCTATCTCCCTGGGCA
*
30825855 ACAGTGGAGTACATTGAAGCTGGTAGTTCTATCTCCCTGGGCA
1 ACAGTGGAGTACATCGAAGCTGGTAGTTCTATCTCCCTGGGCA
30825898 ACAGTGGA
1 ACAGTGGA
30825906 ATATATCAAA
Statistics
Matches: 96, Mismatches: 37, Indels: 10
0.67 0.26 0.07
Matches are distributed among these distances:
42 12 0.12
43 47 0.49
44 35 0.36
45 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.27
Consensus pattern (43 bp):
ACAGTGGAGTACATCGAAGCTGGTAGTTCTATCTCCCTGGGCA
Found at i:30825805 original size:44 final size:44
Alignment explanation
Indices: 30825754--30825997 Score: 136
Period size: 44 Copynumber: 5.6 Consensus size: 44
30825744 CTGGTAGTTC
*
30825754 TATCTCCCTGGGCAACAGTGGAATAGATCGAAGATTACAGATCT
1 TATCTCCCTGGGCAACAGTGGAGTAGATCGAAGATTACAGATCT
** * * * * * *
30825798 TATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGACGGT-GA-ATTT
1 TATCTCCCTGGGCAACAGTGGAGTAGATCGAAGA--TTACAGATCT
* *** * * * *** *
30825842 TACCTCCCT-GATTACAGTGGAGTACATTGAAGCTGGTAGTTC-
1 TATCTCCCTGGGCAACAGTGGAGTAGATCGAAGATTACAGATCT
* * *
30825884 TATCTCCCTGGGCAACAGTGGAATATATCAAAGATTACAGATCT
1 TATCTCCCTGGGCAACAGTGGAGTAGATCGAAGATTACAGATCT
** ** ** *
30825928 TATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGCAGATTT
1 TATCTCCCTGGGCAACAGTGGAGTAGATCGAAGATTACAGATCT
* * *
30825972 TACCTCCCTGTGACTACAGTGGAGTA
1 TATCTCCCTG-GGCAACAGTGGAGTA
30825998 CATTGAAGCC
Statistics
Matches: 138, Mismatches: 55, Indels: 13
0.67 0.27 0.06
Matches are distributed among these distances:
42 9 0.07
43 36 0.26
44 81 0.59
45 11 0.08
46 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (44 bp):
TATCTCCCTGGGCAACAGTGGAGTAGATCGAAGATTACAGATCT
Found at i:30825886 original size:130 final size:130
Alignment explanation
Indices: 30825662--30826025 Score: 577
Period size: 130 Copynumber: 2.8 Consensus size: 130
30825652 TGAAGATAGA
*
30825662 AGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGACGGTGGATTTTACCTCCCTGATTAC
1 AGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGACGGTGAATTTTACCTCCCTGATTAC
*
30825727 AGTGGAGTACATTGAAGCTGGTAGTTCTATCTCCCTGGGCAACAGTGGAATAGATCGAAGATTAC
66 AGTGGAGTACATTGAAGCTGGTAGTTCTATCTCCCTGGGCAACAGTGGAATAGATCAAAGATTAC
30825792 AGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGACGGTGAATTTTACCTCCCTGATTAC
1 AGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGACGGTGAATTTTACCTCCCTGATTAC
*
30825857 AGTGGAGTACATTGAAGCTGGTAGTTCTATCTCCCTGGGCAACAGTGGAATATATCAAAGATTAC
66 AGTGGAGTACATTGAAGCTGGTAGTTCTATCTCCCTGGGCAACAGTGGAATAGATCAAAGATTAC
* * * * * *
30825922 AGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGG-CAGATTTTACCTCCCTGTGAC
1 AGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGACGGTGA-ATTTTACCTCCC--TGAT
* * **
30825986 TACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTG
63 TACAGTGGAGTACATTGAAGCTGGTAGTTCTATCTCCCTG
30826026 TTTTTGGCAG
Statistics
Matches: 218, Mismatches: 13, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
129 1 0.00
130 178 0.82
132 39 0.18
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (130 bp):
AGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGACGGTGAATTTTACCTCCCTGATTAC
AGTGGAGTACATTGAAGCTGGTAGTTCTATCTCCCTGGGCAACAGTGGAATAGATCAAAGATTAC
Found at i:30826441 original size:270 final size:269
Alignment explanation
Indices: 30825952--30826584 Score: 1115
Period size: 270 Copynumber: 2.3 Consensus size: 269
30825942 GTAGTGGAGT
30825952 AGATCGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
1 AGATCGAAGATGGCAGATTTTACCTCCC-GTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
* *
30826017 ATCTCCCTGTTTTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
65 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGACTGCAGATCTTGCCTTCCTGTATTTGGCAG
*
30826082 AGAAGCAGATCGAATATGGCAGATTTTACCTCCCTGACTACAGTGAAGTACATTGAAGCCGATAA
130 AGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGACTACAGTGAAGTACATTGAAGCCGATAA
*
30826147 CTCTATCTCCCTGTATTTGGCAGTGGAATAGACTGAAGATTACAGATCTTGCCTTCCTGTATTTG
195 CTCTATCTCCCTGTATTTGGCAGTGGAATAGACTAAAGATTACAGATCTTGCCTTCCTGTATTTG
30826212 GCAGCGAAGC
260 GCAGCGAAGC
* *
30826222 AGATCGAAGATGGCAGATTTTACCTCCC-TGACTACAATGGAGTACATTGAAGTCGATAACTCTA
1 AGATCGAAGATGGCAGATTTTACCTCCCGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTA
* *
30826286 TCTCTCTGTATTTGGCAGTGGAATAGATTGAAGACTGCAGATCTTGCCTTCCTGTATTTGGCAGC
66 TCTCCCTGTATTTGGCAGTGGAATAGATTGAAGACTGCAGATCTTGCCTTCCTGTATTTGGCAGA
*
30826351 GAAGCAGATCGAAGATGGCAGATTTTACCTCCCTATGACTACAGTGGAGTACATTGAAGCCGATA
131 GAAGCAGATCGAAGATGGCAGATTTTACCTCCC--TGACTACAGTGAAGTACATTGAAGCCGATA
* *
30826416 ACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTAAAGATTGCAGATCTTGCCTTCCTGTATTT
194 ACTCTATCTCCCTGTATTTGGCAGTGGAATAGACTAAAGATTACAGATCTTGCCTTCCTGTATTT
30826481 GGCAGCGAAGC
259 GGCAGCGAAGC
30826492 AGATCGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
1 AGATCGAAGATGGCAGATTTTACCTCCC-GTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
*
30826557 ATCTCCCTGTATTTGGCAGTAGAATAGA
65 ATCTCCCTGTATTTGGCAGTGGAATAGA
30826585 GCAAAAAAAT
Statistics
Matches: 344, Mismatches: 15, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
268 127 0.37
270 158 0.46
272 59 0.17
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (269 bp):
AGATCGAAGATGGCAGATTTTACCTCCCGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTA
TCTCCCTGTATTTGGCAGTGGAATAGATTGAAGACTGCAGATCTTGCCTTCCTGTATTTGGCAGA
GAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGACTACAGTGAAGTACATTGAAGCCGATAAC
TCTATCTCCCTGTATTTGGCAGTGGAATAGACTAAAGATTACAGATCTTGCCTTCCTGTATTTGG
CAGCGAAGC
Found at i:30826461 original size:136 final size:135
Alignment explanation
Indices: 30825952--30826584 Score: 1117
Period size: 134 Copynumber: 4.7 Consensus size: 135
30825942 GTAGTGGAGT
30825952 AGATCGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
1 AGATCGAAGATGGCAGATTTTACCTCCCT-TGACTACAGTGGAGTACATTGAAGCCGATAACTCT
*
30826017 ATCTCCCTGTTTTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
65 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
*
30826082 AGAAGC
130 CGAAGC
* *
30826088 AGATCGAATATGGCAGATTTTACCTCCC-TGACTACAGTGAAGTACATTGAAGCCGATAACTCTA
1 AGATCGAAGATGGCAGATTTTACCTCCCTTGACTACAGTGGAGTACATTGAAGCCGATAACTCTA
* *
30826152 TCTCCCTGTATTTGGCAGTGGAATAGACTGAAGATTACAGATCTTGCCTTCCTGTATTTGGCAGC
66 TCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGC
30826217 GAAGC
131 GAAGC
* *
30826222 AGATCGAAGATGGCAGATTTTACCTCCC-TGACTACAATGGAGTACATTGAAGTCGATAACTCTA
1 AGATCGAAGATGGCAGATTTTACCTCCCTTGACTACAGTGGAGTACATTGAAGCCGATAACTCTA
* *
30826286 TCTCTCTGTATTTGGCAGTGGAATAGATTGAAGACTGCAGATCTTGCCTTCCTGTATTTGGCAGC
66 TCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGC
30826351 GAAGC
131 GAAGC
30826356 AGATCGAAGATGGCAGATTTTACCTCCCTATGACTACAGTGGAGTACATTGAAGCCGATAACTCT
1 AGATCGAAGATGGCAGATTTTACCTCCCT-TGACTACAGTGGAGTACATTGAAGCCGATAACTCT
*
30826421 ATCTCCCTGTATTTGGCAGTGGAATAGATTAAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
65 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
30826486 CGAAGC
130 CGAAGC
30826492 AGATCGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
1 AGATCGAAGATGGCAGATTTTACCTCCCT-TGACTACAGTGGAGTACATTGAAGCCGATAACTCT
*
30826557 ATCTCCCTGTATTTGGCAGTAGAATAGA
65 ATCTCCCTGTATTTGGCAGTGGAATAGA
30826585 GCAAAAAAAT
Statistics
Matches: 474, Mismatches: 21, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
134 255 0.54
136 219 0.46
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (135 bp):
AGATCGAAGATGGCAGATTTTACCTCCCTTGACTACAGTGGAGTACATTGAAGCCGATAACTCTA
TCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGC
GAAGC
Found at i:30826685 original size:82 final size:82
Alignment explanation
Indices: 30826595--30827037 Score: 606
Period size: 82 Copynumber: 5.4 Consensus size: 82
30826585 GCAAAAAAAT
*
30826595 AGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGC
1 AGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGT
*
30826660 GGAGCGGACAAAACCAC
66 GGAGCAGACAAAACCAC
* *
30826677 AGATCTTATCTCCCTAAGCAATAGTGGAGCGGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGC
1 AGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGT
* *
30826742 GGAGCGGACAAAACCAT
66 GGAGCAGACAAAACCAC
* **
30826759 AGATCTTATCTCCCTAAGCAATAGTAGAGTGGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGT
1 AGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGT
*
30826824 GGAGCAGACAGAACCAC
66 GGAGCAGACAAAACCAC
* * * *
30826841 AGATCTTATCTCCCTAAGCAGTAGTGGAGCATATCGCATCAAGTCTTATCTCCCTAAACAATAGT
1 AGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGT
* *
30826906 GGAGCAGACAGAACCAT
66 GGAGCAGACAAAACCAC
** * *
30826923 AGATCTTATCTCCCTAAGCAATAGTGGAGCAGAAAGAACCACAGATCTTAT-TCCCCTAAGCAGT
1 AGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGCATCA-AG-TCTTATCT-CCCTAAGCAGT
* * *
30826987 AGTGGAGTAGATC-ACATC-C
63 AGTGGAGCAGA-CAAAACCAC
*
30827006 AG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGA
1 AGATCTTATCTCCCTAAGCAATAGTGGAGCAGA
30827038 CTAAAAACAC
Statistics
Matches: 327, Mismatches: 30, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
82 294 0.90
83 5 0.02
84 27 0.08
85 1 0.00
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.23
Consensus pattern (82 bp):
AGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGT
GGAGCAGACAAAACCAC
Found at i:30827010 original size:124 final size:123
Alignment explanation
Indices: 30826595--30827038 Score: 531
Period size: 124 Copynumber: 3.6 Consensus size: 123
30826585 GCAAAAAAAT
* * * *
30826595 AGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGC
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAATAGT
* * * ** * *
30826660 GGAGCGGACAAAACCACAGATCTTATCTCCCTAAGCAATAGTGGAGCGGATCGCATCA-
66 GGAGCAGACAGAACCA-AGATCTTATCTCCCTAAGCAATAGTGGAGCAGAAAGAACCAC
* * * *
30826718 AG-TCTTATCTCCCTAAGCAGTAGCGGAGCGGA-CAAAACCATAGATCTTATCTCCCTAAGCAAT
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-ACATCA-AG-TCTTATCTCCCTAAGCAAT
* ** * * * *
30826781 AGTAGAGTGGATC-GCATCAAG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAACCAC
63 AGTGGAGCAGA-CAGAACCAAGATCTTATCTCCCTAAGCAATAGTGGAGCAGAAAGAACCAC
* * *
30826841 AGATCTTATCTCCCTAAGCAGTAGTGGAGCATATCGCATCAAGTCTTATCTCCCTAAACAATAGT
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAATAGT
30826906 GGAGCAGACAGAACCATAGATCTTATCTCCCTAAGCAATAGTGGAGCAGAAAGAACCAC
66 GGAGCAGACAGAACCA-AGATCTTATCTCCCTAAGCAATAGTGGAGCAGAAAGAACCAC
* * *
30826965 AGATCTTAT-TCCCCTAAGCAGTAGTGGAGTAGATCACATCCAGTCTTATCTCCCTAAGCAGTAG
1 AGATCTTATCT-CCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAATAG
30827029 TGGAGCAGAC
65 TGGAGCAGAC
30827039 TAAAAACACA
Statistics
Matches: 271, Mismatches: 39, Indels: 21
0.82 0.12 0.06
Matches are distributed among these distances:
121 2 0.01
122 92 0.34
123 13 0.05
124 162 0.60
125 2 0.01
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (123 bp):
AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAATAGT
GGAGCAGACAGAACCAAGATCTTATCTCCCTAAGCAATAGTGGAGCAGAAAGAACCAC
Found at i:30832467 original size:13 final size:13
Alignment explanation
Indices: 30832449--30832474 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30832439 CAGTTCAGTG
30832449 GAGGCAAAAAAAA
1 GAGGCAAAAAAAA
30832462 GAGGCAAAAAAAA
1 GAGGCAAAAAAAA
30832475 ACCAAAAACC
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:0.69, C:0.08, G:0.23, T:0.00
Consensus pattern (13 bp):
GAGGCAAAAAAAA
Found at i:30832508 original size:26 final size:26
Alignment explanation
Indices: 30832466--30832515 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
30832456 AAAAAAGAGG
* *
30832466 CAAAAAAAAACCAAAAACCAAAAACA
1 CAAAAAAAAAACAAAAACAAAAAACA
30832492 CAAAAAAAAGAAC-AAAACAAAAAA
1 CAAAAAAAA-AACAAAAACAAAAAA
30832516 ACTCTACTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 19 0.90
27 2 0.10
ACGTcount: A:0.80, C:0.18, G:0.02, T:0.00
Consensus pattern (26 bp):
CAAAAAAAAAACAAAAACAAAAAACA
Found at i:30832961 original size:16 final size:16
Alignment explanation
Indices: 30832940--30833011 Score: 58
Period size: 16 Copynumber: 4.4 Consensus size: 16
30832930 TACTCCACTT
*
30832940 GAAAAAAAAATGAAAA-
1 GAAAAAAAAA-AAAAAG
*
30832956 GAAAAAAGAAAAAAAAT
1 GAAAAAA-AAAAAAAAG
* *
30832973 GAAAAAAGAAGAAAAG
1 GAAAAAAAAAAAAAAG
30832989 GAAAAAAAGAACAAAAA-
1 GAAAAAAA-AA-AAAAAG
30833006 GAAAAA
1 GAAAAA
30833012 GGAGAGGCCA
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
16 24 0.52
17 18 0.39
18 4 0.09
ACGTcount: A:0.81, C:0.01, G:0.15, T:0.03
Consensus pattern (16 bp):
GAAAAAAAAAAAAAAG
Found at i:30832969 original size:9 final size:9
Alignment explanation
Indices: 30832957--30833011 Score: 53
Period size: 9 Copynumber: 6.3 Consensus size: 9
30832947 AAATGAAAAG
30832957 AAAAAAGAA
1 AAAAAAGAA
30832966 AAAAAATG--
1 AAAAAA-GAA
30832974 AAAAAAG-A
1 AAAAAAGAA
* *
30832982 AGAAAAGGA
1 AAAAAAGAA
30832991 AAAAAAGAA
1 AAAAAAGAA
*
30833000 CAAAAAGAA
1 AAAAAAGAA
30833009 AAA
1 AAA
30833012 GGAGAGGCCA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
7 1 0.03
8 12 0.32
9 24 0.63
10 1 0.03
ACGTcount: A:0.82, C:0.02, G:0.15, T:0.02
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:30832976 original size:17 final size:16
Alignment explanation
Indices: 30832952--30833011 Score: 75
Period size: 17 Copynumber: 3.6 Consensus size: 16
30832942 AAAAAAAATG
30832952 AAAAGAAAAAAGAAAA
1 AAAAGAAAAAAGAAAA
*
30832968 AAAATGAAAAAAGAAGA
1 AAAA-GAAAAAAGAAAA
* *
30832985 AAAGGAAAAAAAGAACA
1 AAAAG-AAAAAAGAAAA
30833002 AAAAGAAAAA
1 AAAAGAAAAA
30833012 GGAGAGGCCA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
16 10 0.26
17 28 0.74
ACGTcount: A:0.82, C:0.02, G:0.15, T:0.02
Consensus pattern (16 bp):
AAAAGAAAAAAGAAAA
Found at i:30832993 original size:33 final size:34
Alignment explanation
Indices: 30832939--30833011 Score: 98
Period size: 33 Copynumber: 2.2 Consensus size: 34
30832929 ATACTCCACT
30832939 TGAAAAAAAAATGAAAAG-AAAAAAGAAAAAAAA
1 TGAAAAAAAAATGAAAAGAAAAAAAGAAAAAAAA
* *
30832972 TGAAAAAAGAA-GAAAAGGAAAAAAAGAACAAAAA
1 TGAAAAAAAAATGAAAA-GAAAAAAAGAAAAAAAA
30833006 -GAAAAA
1 TGAAAAA
30833012 GGAGAGGCCA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
32 5 0.14
33 17 0.47
34 14 0.39
ACGTcount: A:0.79, C:0.01, G:0.15, T:0.04
Consensus pattern (34 bp):
TGAAAAAAAAATGAAAAGAAAAAAAGAAAAAAAA
Found at i:30833012 original size:24 final size:25
Alignment explanation
Indices: 30832952--30833014 Score: 76
Period size: 24 Copynumber: 2.5 Consensus size: 25
30832942 AAAAAAAATG
*
30832952 AAAAGAAAAAAGAAAAAAAATGAAAA
1 AAAAG-AAAAAGGAAAAAAATGAAAA
*
30832978 AAGAAG-AAAAGGAAAAAAA-GAACA
1 AA-AAGAAAAAGGAAAAAAATGAAAA
30833002 AAAAGAAAAAGGA
1 AAAAGAAAAAGGA
30833015 GAGGCCAAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
23 3 0.09
24 13 0.39
25 12 0.36
26 2 0.06
27 3 0.09
ACGTcount: A:0.79, C:0.02, G:0.17, T:0.02
Consensus pattern (25 bp):
AAAAGAAAAAGGAAAAAAATGAAAA
Found at i:30834084 original size:44 final size:44
Alignment explanation
Indices: 30834036--30834224 Score: 181
Period size: 44 Copynumber: 4.4 Consensus size: 44
30834026 ACATTGGTAG
* * *
30834036 GAAGTGGATCGAAGACGCAAATCTTGTCTTCCCATACTGGTGGT
1 GAAGTAGATCGAAGAAGCAGATCTTGTCTTCCCATACTGGTGGT
*** * *
30834080 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG-CGT
1 GAAGTAGATCGAAG-AAGCAGATCTTGTCTTCCCATACTGGTGGT
* * * * *
30834124 GAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAG-
1 GAAGTAGATCGAAGA-AGCAGATCTTGTCTTCCCATACTGGTGGT
* * *
30834168 GAAGTGGATCGAAGATGCAGATATTGTCTTCCCATAC---TGGT
1 GAAGTAGATCGAAGAAGCAGATCTTGTCTTCCCATACTGGTGGT
30834209 GAAGTAGATCGAAGAA
1 GAAGTAGATCGAAGAA
30834225 AACAGATCAA
Statistics
Matches: 118, Mismatches: 23, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
40 2 0.02
41 14 0.12
43 17 0.14
44 64 0.54
45 21 0.18
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.28
Consensus pattern (44 bp):
GAAGTAGATCGAAGAAGCAGATCTTGTCTTCCCATACTGGTGGT
Found at i:30834111 original size:88 final size:89
Alignment explanation
Indices: 30833991--30834223 Score: 203
Period size: 88 Copynumber: 2.7 Consensus size: 89
30833981 TGTATTGGCC
* * ** * * * *
30833991 TGAAGTAGATCGAATATAGTTGGTCTTGTCTTCTTACATTGGTAG-GAAGTGGATCGAAGA-CGC
1 TGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATACATTGG-AGTGAAGTAGATCGAAGATAGC
* *
30834054 AAATCTTGTCTTCCCATACTGGTGG
65 AAATCCTGTCTTCCCATACTGGTAG
** *
30834079 TGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
1 TGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATACATTGGAGTGAAGTAGATCGAAGATAGCA
** * *
30834144 GGTCCTGTCTTCCTATATTGGTAG
66 AATCCTGTCTTCCCATACTGGTAG
* * *
30834168 -GAAGTGGATCGAAG-ATGCAGATATTGTCTTCCCATAC--T-G-GTGAAGTAGATCGAAGA
1 TGAAGTAGATCGAAGAAAGCAGATCTTGTCTT--CATACATTGGAGTGAAGTAGATCGAAGA
30834224 AAACAGATCA
Statistics
Matches: 119, Mismatches: 22, Indels: 11
0.78 0.14 0.07
Matches are distributed among these distances:
85 17 0.14
86 1 0.01
87 16 0.13
88 61 0.51
89 24 0.20
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (89 bp):
TGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATACATTGGAGTGAAGTAGATCGAAGATAGCA
AATCCTGTCTTCCCATACTGGTAG
Found at i:30834202 original size:132 final size:129
Alignment explanation
Indices: 30833965--30834232 Score: 410
Period size: 132 Copynumber: 2.1 Consensus size: 129
30833955 AGTCACCAAG
* ** * *
30833965 GCAGATCTTGTCTTCATGTATTGGCCTGAAGTAGATCGAATATAGTTGGTCTTGTCTTCTTACAT
1 GCAGATCTTGTCTTCATGTATTGGCCTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTACAT
*
30834030 TGGTAGGAAGTGGATCGAAGACGCAAATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGA
66 TGGTAGGAAGTGGATCGAAGACGCAAATATTGTCTTCCCATAC---TGGTGAAGTAGATCGAAGA
30834095 AA
128 AA
* *
30834097 GCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATAT
1 GCAGATCTTGTCTTCATGTATTGGCCTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTACAT
* *
30834162 TGGTAGGAAGTGGATCGAAGATGCAGATATTGTCTTCCCATACTGGTGAAGTAGATCGAAGAAA
66 TGGTAGGAAGTGGATCGAAGACGCAAATATTGTCTTCCCATACTGGTGAAGTAGATCGAAGAAA
*
30834226 ACAGATC
1 GCAGATC
30834233 AATGAAGTTA
Statistics
Matches: 125, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
129 27 0.22
132 98 0.78
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (129 bp):
GCAGATCTTGTCTTCATGTATTGGCCTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTACAT
TGGTAGGAAGTGGATCGAAGACGCAAATATTGTCTTCCCATACTGGTGAAGTAGATCGAAGAAA
Found at i:30834520 original size:100 final size:99
Alignment explanation
Indices: 30834244--30834522 Score: 422
Period size: 98 Copynumber: 2.8 Consensus size: 99
30834234 ATGAAGTTAC
* *
30834244 CTTCCCTGGCAGTGCAGTGGAGTAGATTAAAGCTACGACGGCGAATCTTG-TTCCCCGACATTGC
1 CTTCTCTGGCAGT-CAGTGGAGTAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGACATTGC
*
30834308 AATTAAAGAGATTGAAGCCACAACGGCGAATCTCA
65 AATTAAAGAGATTGAAGCCACAACAGCGAATCTCA
* *
30834343 CTTCTCTGGCAGT-AGTGGAGCAGATTAAAGCTACGACGGTGAATCTTGCTT-CCTCGACATTGC
1 CTTCTCTGGCAGTCAGTGGAGTAGATTAAAGCTACGACGGCGAATCTTGCTTCCCT-GACATTGC
*
30834406 AATTAAAGATATTGAAGCCACAACAGCGAATCTCA
65 AATTAAAGAGATTGAAGCCACAACAGCGAATCTCA
* *
30834441 CTTCTCTGGCAGTACAGTAGAGTAGATTAAAGCTACGACGGCGATTCTTGCTTCCCTGACATTGC
1 CTTCTCTGGCAGT-CAGTGGAGTAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGACATTGC
30834506 AATTTAAA-AGATTGAAG
65 AA-TTAAAGAGATTGAAG
30834523 ATGGCGGATT
Statistics
Matches: 163, Mismatches: 11, Indels: 11
0.88 0.06 0.06
Matches are distributed among these distances:
97 35 0.21
98 56 0.34
99 12 0.07
100 52 0.32
101 8 0.05
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (99 bp):
CTTCTCTGGCAGTCAGTGGAGTAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGACATTGCA
ATTAAAGAGATTGAAGCCACAACAGCGAATCTCA
Found at i:30834760 original size:132 final size:132
Alignment explanation
Indices: 30834514--30834966 Score: 642
Period size: 132 Copynumber: 3.4 Consensus size: 132
30834504 GCAATTTAAA
* * * * * *
30834514 AGATTGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCTAGG-AATTC
1 AGATCGAAGATGGCAGATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGC-CGGTAGTTC
30834578 TACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGTAGTAGTGA
65 TACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGTAGTAGTGA
30834643 AGC
130 AGC
* *
30834646 AAATCGAATATGGCAGATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCGGTAGTTCT
1 AGATCGAAGATGGCAGATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCGGTAGTTCT
* * *
30834711 ACTTTCCTAGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGTAGTAGTGGA
66 ACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGTAGTAGTGAA
30834776 GC
131 GC
30834778 AGATCGAAGATGGCAGATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCGGTAGTTCT
1 AGATCGAAGATGGCAGATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCGGTAGTTCT
* ** * ** * * *
30834843 ACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
66 ACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATC-TCC-CTAAGTAGTAGTG
30834908 AAGC
129 AAGC
* * * *
30834912 AGATCAAAGATGGTAGATTTTACCT-CCT-TGACTACAGTGGAGTACATTGAAGCCG
1 AGATCGAAGATGGCAGATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCG
30834967 ATAACTCTAT
Statistics
Matches: 289, Mismatches: 29, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
131 2 0.01
132 248 0.86
133 6 0.02
134 33 0.11
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.29
Consensus pattern (132 bp):
AGATCGAAGATGGCAGATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCGGTAGTTCT
ACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGTAGTAGTGAA
GC
Found at i:30834795 original size:44 final size:44
Alignment explanation
Indices: 30834615--30834806 Score: 109
Period size: 44 Copynumber: 4.4 Consensus size: 44
30834605 TTGAAGATTT
* * * * *
30834615 CAGATCTTATCTCCCTAAGTAGTAGTGAAGCAAATCGAATATGG
1 CAGATCTTACCTCCCTAAGTAGCAGTGGAGCAGATCGAAGATGG
* * * * * **
30834659 CAGATTTTACCTCCCTGAGATTA-CAGTGGAGTACATTGAAGCCGG
1 CAGATCTTACCTCCCT-A-AGTAGCAGTGGAGCAGATCGAAGATGG
* * * * * * * ** * **
30834704 TAGTTC-TACTTTCCTAGGCAACAGTGGAATAGATTGAAGATTT
1 CAGATCTTACCTCCCTAAGTAGCAGTGGAGCAGATCGAAGATGG
* *
30834747 CAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGATGG
1 CAGATCTTACCTCCCTAAGTAGCAGTGGAGCAGATCGAAGATGG
*
30834791 CAGATTTTACCTCCCT
1 CAGATCTTACCTCCCT
30834807 GAGATTACAG
Statistics
Matches: 103, Mismatches: 41, Indels: 8
0.68 0.27 0.05
Matches are distributed among these distances:
42 1 0.01
43 21 0.20
44 60 0.58
45 18 0.17
46 3 0.03
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (44 bp):
CAGATCTTACCTCCCTAAGTAGCAGTGGAGCAGATCGAAGATGG
Found at i:30835064 original size:40 final size:42
Alignment explanation
Indices: 30835010--30835564 Score: 201
Period size: 44 Copynumber: 12.9 Consensus size: 42
30835000 AGAGTGAAGA
*
30835010 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCA-
1 AAACAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAG
* *
30835051 CATCAAG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAG
1 AAACAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC---AG
* *
30835094 AAACCAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCA-
1 AAACAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAG
* * * * * * *
30835135 AAGATGGCAA-ATTTTACCTCCCTGA-CTA-CAGTGGAGTACAT-TG
1 AA-A---CAAGATCTTATCTCCCTAAGC-AGTAGTGGAGCAGATCAG
* * * *
30835178 AAGC-CGATAACTCTATCTCCCTGTATTTGGCAGTAGAATAGAGC-GA--AG
1 AAACAAGAT--CT-TATCTCCC--TA---AGCAGTAG--TGGAGCAGATCAG
*
30835226 AAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCA-
1 -AAACAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAG
* *
30835268 CATCAAG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAG
1 AAACAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC---AG
* *
30835311 AAACCAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCA-
1 AAACAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAG
* * * * * *
30835352 AAGATGGC-AGATTTTACCTCCCTAA-CTA-CAGTGGAGTACAT-TG
1 AA-A---CAAGATCTTATCTCCCTAAGC-AGTAGTGGAGCAGATCAG
* * * * *
30835395 AAGC-CGATAACTCTATCTCCCTGTATTTGGCAGTAGAATAGAG-TGA--AG
1 AAACAAGAT--CT-TATCTCCC--TA---AGCAGTAG--TGGAGCAGATCAG
*
30835443 AAAACTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCA-
1 -AAACAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAG
* * *
30835485 CATCAAG-TATTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAG
1 AAACAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC---AG
* * *
30835528 AAACCAGATCTTATCTCCCTAAACAATAGTGGAGCAG
1 AAACAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAG
30835565 GTCGAAGATG
Statistics
Matches: 382, Mismatches: 68, Indels: 125
0.66 0.12 0.22
Matches are distributed among these distances:
39 10 0.03
40 98 0.26
41 22 0.06
42 35 0.09
43 40 0.10
44 116 0.30
45 9 0.02
47 18 0.05
48 12 0.03
49 8 0.02
50 14 0.04
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (42 bp):
AAACAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAG
Found at i:30835102 original size:84 final size:83
Alignment explanation
Indices: 30835010--30835564 Score: 257
Period size: 84 Copynumber: 6.4 Consensus size: 83
30835000 AGAGTGAAGA
30835010 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCA
1 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCA
30835075 GTAGTGGAGCAGACGAAAG
66 GTAGTGGAGCAGAC-AAAG
* * * * * *
30835094 AAACCAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCAAAGATGGCAAATTTTACCTCCCTG
1 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC--ACAT--CAAGTCTTATCTCCCTA
* * **
30835159 A-CTA-CAGTGGAG--TACATTG
62 AGC-AGTAGTGGAGCAGACAAAG
* * * ** * * *
30835178 AAGCC-GATAACTCTATCTCCCTGTATTTGGCAGTAGAATAGAGC-GAAGAAAACCAGATCTTAT
1 AAACCAGAT--CT-TATCTCCC--TA---AGCAGTAG--TGGAGCAGATCACATCAAG-TCTTAT
30835241 CTCCCTAAGCAGTAGTGGAGCAGATC--A-
55 CTCCCTAAGCAGTAGTGGAGCAGA-CAAAG
* * * * * *
30835268 CATCAAG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAGAAACCAGATCTTATCTCCCT
1 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC---A-CATCAAG-TCTTATCTCCCT
*
30835331 AAGCAATAGTGGAGCAGATCAAAG
61 AAGCAGTAGTGGAGCAGA-CAAAG
*** * * * * *
30835355 ATGGCAGATTTTACCTCCCTAA-CTA-CAGTGGAGTACATTGAAGC-CGAT-AACTC-TATCTCC
1 AAACCAGATCTTATCTCCCTAAGC-AGTAGTGGAG--CA--G-ATCAC-ATCAAGTCTTATCTCC
* * * *
30835415 CTGTATTTGGCAGTAGAATAGAG-TGA-AGA-
59 C--TA---AGCAGTAG--TGGAGCAGACAAAG
* *
30835444 AAACTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTATTATCTCCCTAAGCA
1 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCA
30835509 GTAGTGGAGCAGACGAAAG
66 GTAGTGGAGCAGAC-AAAG
* *
30835528 AAACCAGATCTTATCTCCCTAAACAATAGTGGAGCAG
1 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAG
30835565 GTCGAAGATG
Statistics
Matches: 349, Mismatches: 67, Indels: 110
0.66 0.13 0.21
Matches are distributed among these distances:
80 9 0.03
81 4 0.01
82 14 0.04
83 6 0.02
84 118 0.34
85 12 0.03
86 25 0.07
87 36 0.10
88 39 0.11
89 32 0.09
90 23 0.07
91 14 0.04
92 6 0.02
93 11 0.03
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (83 bp):
AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCA
GTAGTGGAGCAGACAAAG
Found at i:30835153 original size:217 final size:217
Alignment explanation
Indices: 30834909--30835736 Score: 1360
Period size: 217 Copynumber: 3.8 Consensus size: 217
30834899 TTGGCAGCGA
* *
30834909 AGCAGATCAAAGATGGTAGATTTTACCTCCTTGACTACAGTGGAGTACATTGAAGCCGATAACTC
1 AGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTC
30834974 TATCTCCCTGTATTTGGCAGTAGAATAGAGTGAAGAAAACCAGATCTTATCTCCCTAAGCAGTAG
66 TATCTCCCTGTATTTGGCAGTAGAATAGAGTGAAGAAAACCAGATCTTATCTCCCTAAGCAGTAG
30835039 TGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAGATC
131 TGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAGATC
30835104 TTATCTCCCTAAGCAATAGTGG
196 TTATCTCCCTAAGCAATAGTGG
*
30835126 AGCAGATCAAAGATGGCAAATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTC
1 AGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTC
*
30835191 TATCTCCCTGTATTTGGCAGTAGAATAGAGCGAAGAAAACCAGATCTTATCTCCCTAAGCAGTAG
66 TATCTCCCTGTATTTGGCAGTAGAATAGAGTGAAGAAAACCAGATCTTATCTCCCTAAGCAGTAG
30835256 TGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAGATC
131 TGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAGATC
30835321 TTATCTCCCTAAGCAATAGTGG
196 TTATCTCCCTAAGCAATAGTGG
*
30835343 AGCAGATCAAAGATGGCAGATTTTACCTCCCTAACTACAGTGGAGTACATTGAAGCCGATAACTC
1 AGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTC
*
30835408 TATCTCCCTGTATTTGGCAGTAGAATAGAGTGAAGAAAACTAGATCTTATCTCCCTAAGCAGTAG
66 TATCTCCCTGTATTTGGCAGTAGAATAGAGTGAAGAAAACCAGATCTTATCTCCCTAAGCAGTAG
*
30835473 TGGAGCAGATCACATCAAGTATTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAGATC
131 TGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAGATC
*
30835538 TTATCTCCCTAAACAATAGTGG
196 TTATCTCCCTAAGCAATAGTGG
* * * * * * **
30835560 AGCAGGTCGAAGATGGCGGATTTTACCTCCCCGATTA-AGGTGGAGTACATTAAAGCC-AGTAGT
1 AGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACA-GTGGAGTACATTGAAGCCGA-TAAC
***** * ** *
30835623 TCTATCTCCCTG--GGCAACAGTGGAATAGAGTGAAGAGCA-CAGATCTTATCTCCCTAAGTAGT
64 TCTATCTCCCTGTATTTGGCAGTAGAATAGAGTGAAGAAAACCAGATCTTATCTCCCTAAGCAGT
* *
30835685 AGTGGAGCAGATCACATCCAGTCTTATCTCCCTAAGTAGTAGTGGAGCAGAC
129 AGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGAC
30835737 TAAAAACACA
Statistics
Matches: 577, Mismatches: 32, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
214 70 0.12
215 19 0.03
216 2 0.00
217 486 0.84
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (217 bp):
AGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTC
TATCTCCCTGTATTTGGCAGTAGAATAGAGTGAAGAAAACCAGATCTTATCTCCCTAAGCAGTAG
TGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAGATC
TTATCTCCCTAAGCAATAGTGG
Found at i:30839678 original size:17 final size:16
Alignment explanation
Indices: 30839635--30839680 Score: 65
Period size: 17 Copynumber: 2.8 Consensus size: 16
30839625 TTGTCTGCTA
*
30839635 AAAATTATTAGTTAAGT
1 AAAATTATT-TTTAAGT
30839652 AAAATTATTTTTAAAGT
1 AAAATTATTTTT-AAGT
30839669 AAAATTATTTTT
1 AAAATTATTTTT
30839681 TGTGGTGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 2 0.07
17 25 0.93
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.48
Consensus pattern (16 bp):
AAAATTATTTTTAAGT
Found at i:30840189 original size:41 final size:41
Alignment explanation
Indices: 30840132--30840218 Score: 156
Period size: 41 Copynumber: 2.1 Consensus size: 41
30840122 TTATATGGAT
30840132 AAAATTTTTATATGGATAAGCCCGTATAACAAAGTCGGCCC
1 AAAATTTTTATATGGATAAGCCCGTATAACAAAGTCGGCCC
* *
30840173 AAAATTTTTATATGGATATGCCTGTATAACAAAGTCGGCCC
1 AAAATTTTTATATGGATAAGCCCGTATAACAAAGTCGGCCC
30840214 AAAAT
1 AAAAT
30840219 CGTAGAACTT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (41 bp):
AAAATTTTTATATGGATAAGCCCGTATAACAAAGTCGGCCC
Found at i:30840717 original size:41 final size:41
Alignment explanation
Indices: 30840639--30840720 Score: 119
Period size: 41 Copynumber: 2.0 Consensus size: 41
30840629 AAAAACGCCT
* **
30840639 TGAGCATTAGCGGCGCTTTCTTAAAAACACCGTTAAAGCCC
1 TGAGCATTAGCGGCCCTTTCTTAAAAACACCACTAAAGCCC
**
30840680 TGAGCATTAGCGGCCCTTTCTTAAAAACGTCACTAAAGCCC
1 TGAGCATTAGCGGCCCTTTCTTAAAAACACCACTAAAGCCC
30840721 CGAAAGCTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.24
Consensus pattern (41 bp):
TGAGCATTAGCGGCCCTTTCTTAAAAACACCACTAAAGCCC
Found at i:30840805 original size:39 final size:39
Alignment explanation
Indices: 30840756--30840831 Score: 100
Period size: 39 Copynumber: 1.9 Consensus size: 39
30840746 GGGCTTAGGT
* *
30840756 TTTTTTGCGGCGCTTTCTGGAAAA-CGCAGCTAATGCTTA
1 TTTTTAGCGGCGCTTTCT-AAAAAGCGCAGCTAATGCTTA
* *
30840795 TTTTTAGCGGCGTTTTCTAAAAAGCGCCGCTAATGCT
1 TTTTTAGCGGCGCTTTCTAAAAAGCGCAGCTAATGCT
30840832 CGACCTTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 4 0.12
39 28 0.88
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (39 bp):
TTTTTAGCGGCGCTTTCTAAAAAGCGCAGCTAATGCTTA
Found at i:30841156 original size:22 final size:22
Alignment explanation
Indices: 30841118--30841160 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
30841108 CAATCAACAT
*
30841118 TAAATATTATACAAATATAAAA
1 TAAATATTAGACAAATATAAAA
30841140 TAAAT-TTAGACACAATATAAA
1 TAAATATTAGACA-AATATAAA
30841161 TGATCACAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.30
Consensus pattern (22 bp):
TAAATATTAGACAAATATAAAA
Found at i:30841260 original size:9 final size:9
Alignment explanation
Indices: 30841252--30841289 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
30841242 ACATGCATAT
30841252 ATAA-AATA
1 ATAATAATA
30841260 TATA-TAATA
1 -ATAATAATA
30841269 ATAATAATA
1 ATAATAATA
30841278 ATAATAATA
1 ATAATAATA
30841287 ATA
1 ATA
30841290 TCAAGCCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 3 0.11
9 24 0.89
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (9 bp):
ATAATAATA
Found at i:30841271 original size:3 final size:3
Alignment explanation
Indices: 30841263--30841289 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
30841253 TAAAATATAT
30841263 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
30841290 TCAAGCCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:30846929 original size:13 final size:13
Alignment explanation
Indices: 30846911--30846935 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30846901 GATTAGTACT
30846911 ATTATTATTATTA
1 ATTATTATTATTA
30846924 ATTATTATTATT
1 ATTATTATTATT
30846936 GTTATCATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
ATTATTATTATTA
Found at i:30847809 original size:108 final size:105
Alignment explanation
Indices: 30847617--30847825 Score: 337
Period size: 108 Copynumber: 2.0 Consensus size: 105
30847607 TTTCTAAATA
*
30847617 AGGCAATATTTTGCTTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATTTCTCG
1 AGGCAATATTTTGCTTTGGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATTTCTCG
*
30847682 TTCGACCAAATAGCCAAATATCCTTTTTAAACTTTCAAAGCG
66 TTCGACCAAATAACCAAATAT-CTTTTT-AACTTTCAAAGCG
* * *
30847724 AGGCAATGTTTTGCGTTTGGGAAATTCGAGAGAACGTGCCCTAACGTGCTGGGTTTCGATTTCTC
1 AGGCAATATTTTGC-TTTGGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATTTCTC
*
30847789 GTTCGACCAAATAACTAAATATCTTTTTAACTTTCAA
65 GTTCGACCAAATAACCAAATATCTTTTTAACTTTCAA
30847826 TCAATATTAT
Statistics
Matches: 95, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
106 9 0.09
107 19 0.20
108 67 0.71
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.33
Consensus pattern (105 bp):
AGGCAATATTTTGCTTTGGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATTTCTCG
TTCGACCAAATAACCAAATATCTTTTTAACTTTCAAAGCG
Found at i:30851048 original size:24 final size:24
Alignment explanation
Indices: 30851021--30851072 Score: 81
Period size: 22 Copynumber: 2.2 Consensus size: 24
30851011 TAATGTATTT
*
30851021 TATTTTGAGACGAGATTATTAAAA
1 TATTTTGAGACGAAATTATTAAAA
30851045 TA--TTGAGACGAAATTATTAAAA
1 TATTTTGAGACGAAATTATTAAAA
30851067 TATTTT
1 TATTTT
30851073 TATTGTTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
22 21 0.84
24 4 0.16
ACGTcount: A:0.42, C:0.04, G:0.13, T:0.40
Consensus pattern (24 bp):
TATTTTGAGACGAAATTATTAAAA
Found at i:30851052 original size:22 final size:22
Alignment explanation
Indices: 30851025--30851070 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
30851015 GTATTTTATT
*
30851025 TTGAGACGAGATTATTAAAATA
1 TTGAGACGAAATTATTAAAATA
30851047 TTGAGACGAAATTATTAAAATA
1 TTGAGACGAAATTATTAAAATA
30851069 TT
1 TT
30851071 TTTATTGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.46, C:0.04, G:0.15, T:0.35
Consensus pattern (22 bp):
TTGAGACGAAATTATTAAAATA
Found at i:30853389 original size:25 final size:23
Alignment explanation
Indices: 30853357--30853412 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 23
30853347 ATTTAGAAAA
30853357 AAATTTAATAGTATTTAAAAATTTT
1 AAATTTAATAG-ATTT-AAAATTTT
*
30853382 AATTTTAAATAGATTTAAAATTTT
1 AAATTT-AATAGATTTAAAATTTT
30853406 AAATTTA
1 AAATTTA
30853413 GAAACAATGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 1 0.04
24 13 0.46
25 9 0.32
26 5 0.18
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (23 bp):
AAATTTAATAGATTTAAAATTTT
Found at i:30855296 original size:14 final size:14
Alignment explanation
Indices: 30855272--30855306 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
30855262 ATAAAGATTA
*
30855272 AAAGCAAAATAAAAT
1 AAAG-AAAATAAAAG
30855287 AAAGAAAATAAAAG
1 AAAGAAAATAAAAG
30855301 AAAGAA
1 AAAGAA
30855307 TGAGCAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 15 0.79
15 4 0.21
ACGTcount: A:0.77, C:0.03, G:0.11, T:0.09
Consensus pattern (14 bp):
AAAGAAAATAAAAG
Found at i:30857512 original size:18 final size:20
Alignment explanation
Indices: 30857468--30857512 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 20
30857458 TGGTTTAATA
*
30857468 AAATAATATATAATTAAATT
1 AAATAATATATAATTAAAGT
30857488 AAATAATA-ATAA-TAAAGT
1 AAATAATATATAATTAAAGT
*
30857506 AACTAAT
1 AAATAAT
30857513 TTAATAACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 11 0.48
19 4 0.17
20 8 0.35
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (20 bp):
AAATAATATATAATTAAAGT
Found at i:30858879 original size:22 final size:22
Alignment explanation
Indices: 30858826--30858867 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
30858816 AGGATAAGAA
*
30858826 TCTGCATCTGTATCTGATATGT
1 TCTGCATCTATATCTGATATGT
30858848 TCTGCATCTATATCTGATAT
1 TCTGCATCTATATCTGATAT
30858868 TCTCTGTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.19, G:0.14, T:0.45
Consensus pattern (22 bp):
TCTGCATCTATATCTGATATGT
Found at i:30859159 original size:26 final size:27
Alignment explanation
Indices: 30859130--30859184 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
30859120 ATTTTTTTAG
* *
30859130 TAAAC-ACCAAAAAATTATTTTAAAAA
1 TAAACAACAAAAAAATTATTTAAAAAA
*
30859156 TAAACAATAAAAAAATTATTTAAAAAA
1 TAAACAACAAAAAAATTATTTAAAAAA
30859183 TA
1 TA
30859185 TTTTAAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 5 0.20
27 20 0.80
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.27
Consensus pattern (27 bp):
TAAACAACAAAAAAATTATTTAAAAAA
Found at i:30860362 original size:25 final size:25
Alignment explanation
Indices: 30860312--30860362 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
30860302 AAAACCAAAG
* *
30860312 TTTAATTTTAATATAATATTTATAT
1 TTTAATTGTAATATAATACTTATAT
*
30860337 TTTAATTGTATTATGAATACTT-TAT
1 TTTAATTGTAATAT-AATACTTATAT
30860362 T
1 T
30860363 ATCTCCATCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (25 bp):
TTTAATTGTAATATAATACTTATAT
Found at i:30863083 original size:6 final size:6
Alignment explanation
Indices: 30863072--30863097 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
30863062 TTTTCATAAC
30863072 TTTATT TTTATT TTTATT TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TT
30863098 GTTTCCCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:30863573 original size:33 final size:34
Alignment explanation
Indices: 30863501--30863580 Score: 112
Period size: 33 Copynumber: 2.4 Consensus size: 34
30863491 CCGTGTGCCA
* *
30863501 GGCCGTGTGGG-CTACATGGGCAAGGCCATTTTG
1 GGCCGTGTGGGCCCACATAGGCAAGGCCATTTTG
30863534 GG-CGTGTGGGCCCACATAGGCAA-GCCATTTTG
1 GGCCGTGTGGGCCCACATAGGCAAGGCCATTTTG
*
30863566 GGCCGTGTAGGCCCA
1 GGCCGTGTGGGCCCA
30863581 AATTTCATAA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
32 19 0.45
33 23 0.55
ACGTcount: A:0.16, C:0.25, G:0.38, T:0.21
Consensus pattern (34 bp):
GGCCGTGTGGGCCCACATAGGCAAGGCCATTTTG
Found at i:30866604 original size:13 final size:15
Alignment explanation
Indices: 30866571--30866603 Score: 50
Period size: 14 Copynumber: 2.2 Consensus size: 15
30866561 CATTTAACAG
30866571 TTTTATTATTATTATT
1 TTTTATT-TTATTATT
30866587 TTTTATTTT-TTATT
1 TTTTATTTTATTATT
30866601 TTT
1 TTT
30866604 ACTTTTACGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 2 0.12
16 7 0.41
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTATTTTATTATT
Found at i:30867150 original size:17 final size:18
Alignment explanation
Indices: 30867110--30867150 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
30867100 TCATCACCAT
* *
30867110 CATTTTAATTTTTTTTTA
1 CATTTTTATTTTATTTTA
30867128 CA-TTTTATTTTATTTTA
1 CATTTTTATTTTATTTTA
30867145 -ATTTTT
1 CATTTTT
30867151 TAATACTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 1 0.05
17 17 0.85
18 2 0.10
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (18 bp):
CATTTTTATTTTATTTTA
Found at i:30881782 original size:13 final size:13
Alignment explanation
Indices: 30881743--30881806 Score: 76
Period size: 13 Copynumber: 4.9 Consensus size: 13
30881733 AGTTCTTCAT
30881743 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
30881756 TG-TTGTGTAAAAG
1 TGCTTTTG-AAAAG
*
30881769 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
* *
30881782 TACTTTTGAGAAG
1 TGCTTTTGAAAAG
30881795 TGCTTTTGAAAA
1 TGCTTTTGAAAA
30881807 TTTTGAGTGT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
12 4 0.09
13 35 0.81
14 4 0.09
ACGTcount: A:0.30, C:0.06, G:0.25, T:0.39
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:30882367 original size:58 final size:58
Alignment explanation
Indices: 30882293--30882408 Score: 232
Period size: 58 Copynumber: 2.0 Consensus size: 58
30882283 AAAGTTAAAA
30882293 AATTTTGCATTTTCATCTGTCCAAAAACACTTTAAATAAGTTAAAAATTTACTACCAC
1 AATTTTGCATTTTCATCTGTCCAAAAACACTTTAAATAAGTTAAAAATTTACTACCAC
30882351 AATTTTGCATTTTCATCTGTCCAAAAACACTTTAAATAAGTTAAAAATTTACTACCAC
1 AATTTTGCATTTTCATCTGTCCAAAAACACTTTAAATAAGTTAAAAATTTACTACCAC
30882409 CGAAGTTTGT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.40, C:0.19, G:0.05, T:0.36
Consensus pattern (58 bp):
AATTTTGCATTTTCATCTGTCCAAAAACACTTTAAATAAGTTAAAAATTTACTACCAC
Found at i:30891451 original size:23 final size:23
Alignment explanation
Indices: 30891422--30891468 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 23
30891412 TATTTATCAG
30891422 ATTTTAATTTATAT-TAAAGTGTA
1 ATTTTAATTTATATATAAA-TGTA
30891445 ATTTTAATTTATATATAAATGTA
1 ATTTTAATTTATATATAAATGTA
30891468 A
1 A
30891469 CATTAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 19 0.83
24 4 0.17
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (23 bp):
ATTTTAATTTATATATAAATGTA
Found at i:30891474 original size:23 final size:23
Alignment explanation
Indices: 30891425--30891474 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
30891415 TTATCAGATT
**
30891425 TTAATTTATATTAAAGTGTAATT
1 TTAATTTATATTAAAGTGTAACA
30891448 TTAATTTATATATAAA-TGTAACA
1 TTAATTTATAT-TAAAGTGTAACA
30891471 TTAA
1 TTAA
30891475 ATAAATAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 20 0.83
24 4 0.17
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (23 bp):
TTAATTTATATTAAAGTGTAACA
Found at i:30894072 original size:24 final size:24
Alignment explanation
Indices: 30894045--30894101 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
30894035 GCTCAATTGA
* * * *
30894045 TTTTTTTAATTTTTGATTGAGGAC
1 TTTTTTTAATTTATCATTAAGCAC
*
30894069 TTTTTTTTATTTATCATTAAGCAC
1 TTTTTTTAATTTATCATTAAGCAC
30894093 TTTTTTTAA
1 TTTTTTTAA
30894102 CAATTAAGTC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.23, C:0.07, G:0.09, T:0.61
Consensus pattern (24 bp):
TTTTTTTAATTTATCATTAAGCAC
Done.