Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 31 of 196
Found at i:8725060 original size:26 final size:27
Alignment explanation
Indices: 8724994--8725062 Score: 70
Period size: 26 Copynumber: 2.5 Consensus size: 27
8724984 TAAGAATAAG
8724994 AAAATAAAATAAAACAATTAACAATAATA
1 AAAATAAAA-AAAA-AATTAACAATAATA
* * *
8725023 AGAATCATAAAAAAA-TAACAAGTAA-A
1 AAAATAAAAAAAAAATTAACAA-TAATA
8725049 AAAATAAAAAAAAA
1 AAAATAAAAAAAAA
8725063 CAAGAAAACA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
26 18 0.55
27 5 0.15
28 4 0.12
29 6 0.18
ACGTcount: A:0.75, C:0.06, G:0.03, T:0.16
Consensus pattern (27 bp):
AAAATAAAAAAAAAATTAACAATAATA
Found at i:8725064 original size:22 final size:22
Alignment explanation
Indices: 8725029--8725092 Score: 71
Period size: 21 Copynumber: 3.0 Consensus size: 22
8725019 AATAAGAATC
8725029 ATAAAAAAATAACAAGTAAAAAA
1 ATAAAAAAATAACAAG-AAAAAA
*
8725052 ATAAAAAAA-AACAAGAAAACA
1 ATAAAAAAATAACAAGAAAAAA
*
8725073 AT--AAGAATAACAATGAAAAA
1 ATAAAAAAATAACAA-GAAAAA
8725093 TAACAAATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
19 4 0.11
20 5 0.14
21 12 0.33
22 6 0.17
23 9 0.25
ACGTcount: A:0.77, C:0.06, G:0.06, T:0.11
Consensus pattern (22 bp):
ATAAAAAAATAACAAGAAAAAA
Found at i:8725092 original size:55 final size:55
Alignment explanation
Indices: 8724994--8725098 Score: 133
Period size: 55 Copynumber: 1.9 Consensus size: 55
8724984 TAAGAATAAG
* * * * *
8724994 AAAATAAAATAAAACAATTAACAATAATAAGAATCATAAAAAAATAACAAGTAAA
1 AAAATAAAAAAAAACAATGAACAACAATAAGAATAACAAAAAAATAACAAGTAAA
8725049 AAAATAAAAAAAAACAA-GAA-AACAATAAGAATAACAATGAAAAATAACAA
1 AAAATAAAAAAAAACAATGAACAACAATAAGAATAACAA--AAAAATAACAA
8725099 ATAAGGATAA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
53 14 0.33
54 2 0.05
55 27 0.63
ACGTcount: A:0.73, C:0.08, G:0.05, T:0.14
Consensus pattern (55 bp):
AAAATAAAAAAAAACAATGAACAACAATAAGAATAACAAAAAAATAACAAGTAAA
Found at i:8725885 original size:14 final size:14
Alignment explanation
Indices: 8725866--8725895 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
8725856 TTTGTTTTTA
8725866 TAACTAAATTTATT
1 TAACTAAATTTATT
*
8725880 TAACTAATTTTATT
1 TAACTAAATTTATT
8725894 TA
1 TA
8725896 CAATAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (14 bp):
TAACTAAATTTATT
Found at i:8740459 original size:16 final size:16
Alignment explanation
Indices: 8740438--8740483 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
8740428 AATTGGGTTG
*
8740438 AGAAAATTATTTAATT
1 AGAAAATTAATTAATT
8740454 AGAAAATTAATTAATT
1 AGAAAATTAATTAATT
8740470 --AAAATTAATGTAAT
1 AGAAAATTAAT-TAAT
8740484 AAATAATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 9 0.32
15 4 0.14
16 15 0.54
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (16 bp):
AGAAAATTAATTAATT
Found at i:8751110 original size:18 final size:19
Alignment explanation
Indices: 8751075--8751116 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
8751065 GCATGGTTGA
8751075 TTTTCTTTTGCTGCCTATT-
1 TTTTCTTTTGCT-CCTATTC
8751094 TTTTCTTTTGCAT-CTATTC
1 TTTTCTTTTGC-TCCTATTC
8751113 TTTT
1 TTTT
8751117 TTTATATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
18 5 0.24
19 15 0.71
20 1 0.05
ACGTcount: A:0.07, C:0.19, G:0.07, T:0.67
Consensus pattern (19 bp):
TTTTCTTTTGCTCCTATTC
Found at i:8752989 original size:12 final size:12
Alignment explanation
Indices: 8752968--8752997 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
8752958 TCTATTCACA
*
8752968 AATTTTTAATTT
1 AATTTATAATTT
8752980 AATTTATAATTT
1 AATTTATAATTT
8752992 AATTTA
1 AATTTA
8752998 ATTTTCAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
AATTTATAATTT
Found at i:8754220 original size:22 final size:22
Alignment explanation
Indices: 8754192--8754235 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
8754182 ATTCAAATAG
*
8754192 GGTGTTAATTAGGCTTAGTGCC
1 GGTGTTAATCAGGCTTAGTGCC
8754214 GGTGTTAATCAGGCTTAGTGCC
1 GGTGTTAATCAGGCTTAGTGCC
8754236 TAGCAAGCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.32, T:0.34
Consensus pattern (22 bp):
GGTGTTAATCAGGCTTAGTGCC
Found at i:8755022 original size:30 final size:30
Alignment explanation
Indices: 8754982--8755042 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
8754972 ACGGCCTAGC
* *
8754982 ACACGGCCGTGTGTGGAAAATTAGTGAGTT
1 ACACGACCGTGTGTGGAAAATCAGTGAGTT
* *
8755012 ACACGACCGTGTGTGGTAACTCAGTGAGTT
1 ACACGACCGTGTGTGGAAAATCAGTGAGTT
8755042 A
1 A
8755043 TATGGCCTAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.26
Consensus pattern (30 bp):
ACACGACCGTGTGTGGAAAATCAGTGAGTT
Found at i:8759276 original size:24 final size:24
Alignment explanation
Indices: 8759228--8759276 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
8759218 GTCCATTAGA
**
8759228 ATAAGAAGTTTGATATGTATCATG
1 ATAAGAAGTTTGATATACATCATG
*
8759252 ATAAGAAGTTTGATATACATTATG
1 ATAAGAAGTTTGATATACATCATG
8759276 A
1 A
8759277 CTCTAATGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.41, C:0.04, G:0.18, T:0.37
Consensus pattern (24 bp):
ATAAGAAGTTTGATATACATCATG
Found at i:8765565 original size:64 final size:64
Alignment explanation
Indices: 8765487--8765834 Score: 205
Period size: 64 Copynumber: 5.3 Consensus size: 64
8765477 GATATCATTA
*
8765487 AAGTTCGTTGATTTAAGATCGCAACCTAAGTTCATTTGATTTAAGATCATGAACAATCTTATTT
1 AAGTTAGTTGATTTAAGATCGCAACCTAAGTTCATTTGATTTAAGATCATGAACAATCTTATTT
* * * ** * *
8765551 GAGTTAGTTTATTTAAGATCGCTAATCCAAACAACTC-GTTGATTTAATAT--TG--CAAT-TGA
1 AAGTTAGTTGATTTAAGATCGC-AA-CC-TA-AGTTCATTTGATTTAAGATCATGAACAATCT--
8765610 TATCATT
60 TAT--TT
* * * *
8765617 AAGGTTTGTTGATTTAAAATCACAACCTAAGTTCATTTCATTTAAGATCATGAACAATCTTATTT
1 AA-GTTAGTTGATTTAAGATCGCAACCTAAGTTCATTTGATTTAAGATCATGAACAATCTTATTT
** * * * * * * * *
8765682 AAGTTAACTAATTTAATATCGCTACTCT-AG-GCAACTCGTTGATTTAAGA-C-CGCAGCTGATA
1 AAGTTAGTTGATTTAAGATCGCAAC-CTAAGTTC-A-T--TTGATTTAAGATCATG-AAC-AATC
*
8765743 TCA-TT
59 TTATTT
* * * *
8765748 AAGTTTTGTTGATTTAAGATTGCAATCTAAGTTCATTCGATTTAAGATCATGAACAATCTTATTT
1 AAG-TTAGTTGATTTAAGATCGCAACCTAAGTTCATTTGATTTAAGATCATGAACAATCTTATTT
* *
8765813 GAGTTAGCTGATTTAAGATCGC
1 AAGTTAGTTGATTTAAGATCGC
8765835 TACTCCAGAC
Statistics
Matches: 204, Mismatches: 52, Indels: 56
0.65 0.17 0.18
Matches are distributed among these distances:
62 1 0.00
63 8 0.04
64 82 0.40
65 21 0.10
66 21 0.10
67 62 0.30
68 8 0.04
69 1 0.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (64 bp):
AAGTTAGTTGATTTAAGATCGCAACCTAAGTTCATTTGATTTAAGATCATGAACAATCTTATTT
Found at i:8765629 original size:131 final size:131
Alignment explanation
Indices: 8765395--8765933 Score: 627
Period size: 131 Copynumber: 4.1 Consensus size: 131
8765385 TATCAGTTAC
* * * *** ** *
8765395 TTTAATATCATGAACAA-CTTTATTTGAGTTAACTGATTTAAGATCGCTACTCCACTTAGTTTGC
1 TTTAAGATCATGAACAATC-TTATTTGAGTTAGCTAATTTAAGATCGCTACTCCAGACAACTCG-
* * *
8765459 TT-ATTTAAGATCACAG-TAGATATCATTAAAGTTCGTTGATTTAAGATCGCAACCTAAGTTCAT
64 TTGATTTAAGATCGCAGCT-GATATCATTAAGGTTCGTTGATTTAAGATCACAACCTAAGTTCAT
*
8765522 TTGA
128 TCGA
* * * *
8765526 TTTAAGATCATGAACAATCTTATTTGAGTTAGTTTATTTAAGATCGCTAATCCAAACAACTCGTT
1 TTTAAGATCATGAACAATCTTATTTGAGTTAGCTAATTTAAGATCGCTACTCCAGACAACTCGTT
* * ** * *
8765591 GATTTAATATTGCAATTGATATCATTAAGGTTTGTTGATTTAAAATCACAACCTAAGTTCATTTC
66 GATTTAAGATCGCAGCTGATATCATTAAGGTTCGTTGATTTAAGATCACAACCTAAGTTCA-TTC
8765656 -A
130 GA
* * * * *
8765657 TTTAAGATCATGAACAATCTTATTTAAGTTAACTAATTTAATATCGCTACTCTAGGCAACTCGTT
1 TTTAAGATCATGAACAATCTTATTTGAGTTAGCTAATTTAAGATCGCTACTCCAGACAACTCGTT
* * * ** *
8765722 GATTTAAGACCGCAGCTGATATCATTAAGTTTTGTTGATTTAAGATTGCAATCTAAGTTCATTCG
66 GATTTAAGATCGCAGCTGATATCATTAAGGTTCGTTGATTTAAGATCACAACCTAAGTTCATTCG
8765787 A
131 A
* *
8765788 TTTAAGATCATGAACAATCTTATTTGAGTTAGCTGATTTAAGATCGCTACTCCAGACAGCTCGTT
1 TTTAAGATCATGAACAATCTTATTTGAGTTAGCTAATTTAAGATCGCTACTCCAGACAACTCGTT
* * ** * *
8765853 GATTTAAGATCGTAGCTAATATCATTAAGGTTCACTGATTTAAGATCACAACATAAGTTTATTCG
66 GATTTAAGATCGCAGCTGATATCATTAAGGTTCGTTGATTTAAGATCACAACCTAAGTTCATTCG
8765918 A
131 A
*
8765919 TTTAATATCATGAAC
1 TTTAAGATCATGAAC
8765934 TAGCTTTTCT
Statistics
Matches: 344, Mismatches: 59, Indels: 10
0.83 0.14 0.02
Matches are distributed among these distances:
130 5 0.01
131 335 0.97
132 4 0.01
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (131 bp):
TTTAAGATCATGAACAATCTTATTTGAGTTAGCTAATTTAAGATCGCTACTCCAGACAACTCGTT
GATTTAAGATCGCAGCTGATATCATTAAGGTTCGTTGATTTAAGATCACAACCTAAGTTCATTCG
A
Found at i:8766415 original size:41 final size:41
Alignment explanation
Indices: 8766352--8766433 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
8766342 GACTAAAAGC
*
8766352 ATCAAAGTTTACCCTACGAGCATTGAAAGGACCGCCAACTA
1 ATCAAAGTTTACCCTACAAGCATTGAAAGGACCGCCAACTA
*
8766393 ATCAAAGTTTACCCTGCAAGCATTGAAAGGACCGCCAACTA
1 ATCAAAGTTTACCCTACAAGCATTGAAAGGACCGCCAACTA
8766434 CTTGAGTATG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.37, C:0.27, G:0.17, T:0.20
Consensus pattern (41 bp):
ATCAAAGTTTACCCTACAAGCATTGAAAGGACCGCCAACTA
Found at i:8776768 original size:3 final size:3
Alignment explanation
Indices: 8776760--8776806 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
8776750 ATTAACCCAG
8776760 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
8776807 TGTCGAAACC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:8779339 original size:17 final size:17
Alignment explanation
Indices: 8779317--8779349 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8779307 TTTGGCGCGG
*
8779317 AGGCGCTACACGTGCAC
1 AGGCGCAACACGTGCAC
8779334 AGGCGCAACACGTGCA
1 AGGCGCAACACGTGCA
8779350 AGGAGGAGGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.33, G:0.30, T:0.09
Consensus pattern (17 bp):
AGGCGCAACACGTGCAC
Found at i:8780718 original size:13 final size:13
Alignment explanation
Indices: 8780700--8780725 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8780690 TTTTTTTTAA
8780700 CCTTATAGAATTT
1 CCTTATAGAATTT
8780713 CCTTATAGAATTT
1 CCTTATAGAATTT
8780726 AGAACTGCTC
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:0.31, C:0.15, G:0.08, T:0.46
Consensus pattern (13 bp):
CCTTATAGAATTT
Found at i:8783049 original size:40 final size:39
Alignment explanation
Indices: 8783005--8783121 Score: 101
Period size: 37 Copynumber: 3.2 Consensus size: 39
8782995 TATAAATATG
*
8783005 TATATATGTATGCATATGAAAATTATAAAGTATATAAAAA
1 TATATATGTATGAATATGAAAATTATAAA-TATATAAAAA
* *
8783045 TATATATGTA--AATAT-AAATTGTAAAAAATATATAAAAA
1 TATATATGTATGAATATGAAAAT-T-ATAAATATATAAAAA
*
8783083 -ATATATG--TGTATATG--AATTATAAA-A-ATAAAAA
1 TATATATGTATGAATATGAAAATTATAAATATATAAAAA
8783115 TATATAT
1 TATATAT
8783122 ATGTAAAAAG
Statistics
Matches: 65, Mismatches: 6, Indels: 19
0.72 0.07 0.21
Matches are distributed among these distances:
32 7 0.11
33 7 0.11
34 4 0.06
35 1 0.02
36 2 0.03
37 15 0.23
38 15 0.23
39 4 0.06
40 10 0.15
ACGTcount: A:0.56, C:0.01, G:0.08, T:0.36
Consensus pattern (39 bp):
TATATATGTATGAATATGAAAATTATAAATATATAAAAA
Found at i:8783052 original size:30 final size:28
Alignment explanation
Indices: 8783018--8783087 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
8783008 ATATGTATGC
8783018 ATATGAAAATTATAAAGTATATAAAAATAT
1 ATATGAAAA-TATAAAGTATA-AAAAATAT
* * *
8783048 ATATGTAAATATAAATTGTAAAAAATAT
1 ATATGAAAATATAAAGTATAAAAAATAT
*
8783076 ATA-AAAAATATA
1 ATATGAAAATATA
8783088 TGTGTATATG
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
27 7 0.20
28 11 0.31
29 9 0.26
30 8 0.23
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (28 bp):
ATATGAAAATATAAAGTATAAAAAATAT
Found at i:8783107 original size:37 final size:38
Alignment explanation
Indices: 8783035--8783128 Score: 115
Period size: 37 Copynumber: 2.6 Consensus size: 38
8783025 AATTATAAAG
*
8783035 TATATAAAAATATATATGTAAATATAAATTGTAAAAAA
1 TATATAAAAATATATATGTAAATATAAATTATAAAAAA
** *
8783073 TATATAAAAA-ATATATGTGTATATGAATTAT-AAAAA
1 TATATAAAAATATATATGTAAATATAAATTATAAAAAA
*
8783109 TA-A-AAATATATATATGTAAA
1 TATATAAAAATATATATGTAAA
8783129 AAGGGTATAT
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
34 4 0.08
35 10 0.21
36 7 0.15
37 17 0.35
38 10 0.21
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (38 bp):
TATATAAAAATATATATGTAAATATAAATTATAAAAAA
Found at i:8785337 original size:88 final size:88
Alignment explanation
Indices: 8785188--8785349 Score: 261
Period size: 88 Copynumber: 1.8 Consensus size: 88
8785178 TACTACCTTG
* ** *
8785188 GAGATAAGATTCGCTGCCTTTAGCTTTAATCTGCTCCGCTACAACGCCAAGGAAAAGAAGACTCG
1 GAGATAAGATTCGCTGCCTTCAGCTTTAATCCACTCCGCTACAACGCCAAGGAAAAAAAGACTCG
8785253 CTGTCTTCAGTCTTAACGCTAAA
66 CTGTCTTCAGTCTTAACGCTAAA
* *
8785276 GAGATAAGATTCGCTGTCTTCAGCTTTAATCCACTCCGCTACAACGCCAGGGAAAAAAAGACTCG
1 GAGATAAGATTCGCTGCCTTCAGCTTTAATCCACTCCGCTACAACGCCAAGGAAAAAAAGACTCG
*
8785341 TTGTCTTCA
66 CTGTCTTCA
8785350 ATCTGCTTCA
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
88 67 1.00
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (88 bp):
GAGATAAGATTCGCTGCCTTCAGCTTTAATCCACTCCGCTACAACGCCAAGGAAAAAAAGACTCG
CTGTCTTCAGTCTTAACGCTAAA
Found at i:8786326 original size:15 final size:15
Alignment explanation
Indices: 8786289--8786317 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
8786279 CTTGGCCTCT
8786289 TCTTTTTATTTTCTC
1 TCTTTTTATTTTCTC
8786304 TCTTTTTATTTTCT
1 TCTTTTTATTTTCT
8786318 TTTTTTTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (15 bp):
TCTTTTTATTTTCTC
Found at i:8792834 original size:9 final size:9
Alignment explanation
Indices: 8792820--8792850 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
8792810 GTTAAACGAA
8792820 TCGAGTTAT
1 TCGAGTTAT
*
8792829 TCGAGTTAA
1 TCGAGTTAT
8792838 TCGAGTTAT
1 TCGAGTTAT
8792847 TCGA
1 TCGA
8792851 ATCAACTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:8792924 original size:9 final size:9
Alignment explanation
Indices: 8792910--8792949 Score: 62
Period size: 9 Copynumber: 4.4 Consensus size: 9
8792900 TTCGAATTCA
8792910 AATAACTCG
1 AATAACTCG
8792919 AATAACTCG
1 AATAACTCG
*
8792928 AATAATTCG
1 AATAACTCG
*
8792937 AATAATTCG
1 AATAACTCG
8792946 AATA
1 AATA
8792950 TCAAACTATA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.47, C:0.15, G:0.10, T:0.28
Consensus pattern (9 bp):
AATAACTCG
Found at i:8792937 original size:18 final size:18
Alignment explanation
Indices: 8792904--8792949 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
8792894 TCAGTTTTCG
*
8792904 AATTCAAATAACTCGAAT
1 AATTCGAATAACTCGAAT
* *
8792922 AACTCGAATAATTCGAAT
1 AATTCGAATAACTCGAAT
8792940 AATTCGAATA
1 AATTCGAATA
8792950 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.48, C:0.15, G:0.09, T:0.28
Consensus pattern (18 bp):
AATTCGAATAACTCGAAT
Found at i:8793210 original size:30 final size:31
Alignment explanation
Indices: 8793162--8793221 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
8793152 AAACCTTTTA
*
8793162 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* * *
8793192 TTTTCCTCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
8793222 TCCCACCTCC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.20, C:0.38, G:0.00, T:0.42
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:8796925 original size:16 final size:16
Alignment explanation
Indices: 8796904--8796938 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
8796894 TTTTATAATG
*
8796904 AAATGCCATGTAGTCA
1 AAATGCCATGTAGCCA
8796920 AAATGCCATGTAGCCA
1 AAATGCCATGTAGCCA
8796936 AAA
1 AAA
8796939 CAAAACACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (16 bp):
AAATGCCATGTAGCCA
Found at i:8798069 original size:16 final size:17
Alignment explanation
Indices: 8798042--8798073 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
8798032 GCCCGGCCCG
8798042 TTTTTAATTAAAATTAT
1 TTTTTAATTAAAATTAT
8798059 TTTTTAA-TAAAATTA
1 TTTTTAATTAAAATTA
8798074 AAACTAATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTTTAATTAAAATTAT
Found at i:8798107 original size:16 final size:16
Alignment explanation
Indices: 8798072--8798111 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
8798062 TTAATAAAAT
* *
8798072 TAAAACTAATTGCTAT
1 TAAAATTAATTGCTAG
*
8798088 TAAAATTAATTGTTAG
1 TAAAATTAATTGCTAG
8798104 TAAAATTA
1 TAAAATTA
8798112 TCAAATTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.40
Consensus pattern (16 bp):
TAAAATTAATTGCTAG
Found at i:8798190 original size:59 final size:59
Alignment explanation
Indices: 8798122--8798300 Score: 259
Period size: 68 Copynumber: 2.9 Consensus size: 59
8798112 TCAAATTATT
*
8798122 AATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
8798181 AATTATTAATTGTATTAATTGTATTAATTATTGTAATAAAATCTAACATTTGATTAGTAAATTTA
1 AATTATTAATTGTATTAATTG---------TTGTAATAAAATCTAACATTTGATTAGTAAATTTA
8798246 TCA
57 TCA
*
8798249 AATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAA
8798301 ACAAACTTGA
Statistics
Matches: 109, Mismatches: 2, Indels: 18
0.84 0.02 0.14
Matches are distributed among these distances:
59 50 0.46
68 59 0.54
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (59 bp):
AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
Found at i:8798196 original size:9 final size:9
Alignment explanation
Indices: 8798184--8798209 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
8798174 TTTATCAAAT
8798184 TATTAATTG
1 TATTAATTG
8798193 TATTAATTG
1 TATTAATTG
8798202 TATTAATT
1 TATTAATT
8798210 ATTGTAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.58
Consensus pattern (9 bp):
TATTAATTG
Found at i:8798222 original size:68 final size:68
Alignment explanation
Indices: 8798100--8798270 Score: 310
Period size: 68 Copynumber: 2.5 Consensus size: 68
8798090 AAATTAATTG
* *
8798100 TTAGTAAAATTATCAAATTATTAATTG--TTAATTGTATTAATTGTTGTAATAAAATCTAACATT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTATTGTAATAAAATCTAACATT
8798163 TGA
66 TGA
8798166 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTATTGTAATAAAATCTAACATT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTATTGTAATAAAATCTAACATT
8798231 TGA
66 TGA
8798234 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGT
8798271 TGTAACAAAA
Statistics
Matches: 101, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
66 26 0.26
68 75 0.74
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.47
Consensus pattern (68 bp):
TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTATTGTAATAAAATCTAACATT
TGA
Found at i:8799192 original size:24 final size:23
Alignment explanation
Indices: 8799148--8799192 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
8799138 TAATGATGAA
*
8799148 AACGTGAAAAAATAATTAAAAGG
1 AACGTGAAAAAATAATAAAAAGG
*
8799171 AACGTGAACAAAATTATAAAAA
1 AACGTGAA-AAAATAATAAAAA
8799193 TACAAGAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.62, C:0.07, G:0.13, T:0.18
Consensus pattern (23 bp):
AACGTGAAAAAATAATAAAAAGG
Found at i:8803516 original size:147 final size:147
Alignment explanation
Indices: 8803240--8803516 Score: 349
Period size: 147 Copynumber: 1.9 Consensus size: 147
8803230 GTAAAATTCG
** * * * * *
8803240 GGTTTACTCACACAAGCTGTAGGTTGGGGTTTTTGATATAAGTGTTATTTGATGCTGCTCACAGA
1 GGTTTACTCACACAAGCTGTAGGTCAGGATTATTCATATAAGTGTTATTCGATGCTGCTCACACA
** * * *
8803305 AGATGTAGAGAACCCGCAACATATGTTAGATCTCGGCCATCGATAACTAAGCCATTGACAAGCAC
66 AGATGTAGAGAACCCGCAACATATGCAAGATCTCAGCCATCAATAACTAAGCCACTGACAAGCAC
8803370 TTGAACTATATCATTTA
131 TTGAACTATATCATTTA
* * *
8803387 GGTTTGCTCACACAAGCTGTAGGTCAGGATTATTCATATAAGTGTTATTCGATGTTGCTCGCACA
1 GGTTTACTCACACAAGCTGTAGGTCAGGATTATTCATATAAGTGTTATTCGATGCTGCTCACACA
* * * * * *
8803452 AGCTTTAGAGTATCCGCAACATATGCAAGATCTCAGTCATCAATAACTAAGTCC-CTGACTAGCA
66 AGATGTAGAGAACCCGCAACATATGCAAGATCTCAGCCATCAATAACTAAG-CCACTGACAAGCA
8803516 C
130 C
8803517 CCAATTCCTT
Statistics
Matches: 108, Mismatches: 21, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
147 106 0.98
148 2 0.02
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (147 bp):
GGTTTACTCACACAAGCTGTAGGTCAGGATTATTCATATAAGTGTTATTCGATGCTGCTCACACA
AGATGTAGAGAACCCGCAACATATGCAAGATCTCAGCCATCAATAACTAAGCCACTGACAAGCAC
TTGAACTATATCATTTA
Found at i:8805376 original size:188 final size:188
Alignment explanation
Indices: 8805055--8805437 Score: 608
Period size: 188 Copynumber: 2.0 Consensus size: 188
8805045 AATATGAGGT
* * * *
8805055 GTCA-TCACAAGCACCTGTCAATAAGGAACACATGTTATTGCTAGCTGCATTTTACTTTGCAAAT
1 GTCACTCACAAGAACCTGTCAATAAGAAACACATGTTATTGCTAGCTACATTTTACTTTGCAAAC
*
8805119 CACAAAAAAACTTAGGAAAAACTTAACAAAAGAACAGACCAAAGTCTCCCACTATAAACTTCATC
66 CACAAAAAAACTTAGGAAAAACTTAACAAAAGAACAGACCAAAATCTCCCACTATAAACTTCATC
* * *
8805184 TTTCATCTTGAATAAGTTTCACTAACTAGTTCATTTCATTCCAATAGCATTCTTCAAA
131 TTTCATCTTGAATAAGTTTCACTAACTAGTTCATTTCATTCCAACAACATTCCTCAAA
*
8805242 GTCACTCACAAGAACCTGTCAGTAAGAAACACATGTTATTGCTAGCTACATTTTACTTTGCAAAC
1 GTCACTCACAAGAACCTGTCAATAAGAAACACATGTTATTGCTAGCTACATTTTACTTTGCAAAC
* * **
8805307 CACAAAAAAA-TTGAGGAAAAACTTAATAAAAGAACATACCAAAATCTCCTGCTATAAACTTCAT
66 CACAAAAAAACTT-AGGAAAAACTTAACAAAAGAACAGACCAAAATCTCCCACTATAAACTTCAT
*
8805371 CTTTCATCTTGAATAAGTTTCACTAACTAGTTCATTTCTTTCCAACAACATTCCTCAAA
130 CTTTCATCTTGAATAAGTTTCACTAACTAGTTCATTTCATTCCAACAACATTCCTCAAA
*
8805430 GTCCCTCA
1 GTCACTCA
8805438 AAAAAATTTG
Statistics
Matches: 179, Mismatches: 15, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
187 6 0.03
188 173 0.97
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.30
Consensus pattern (188 bp):
GTCACTCACAAGAACCTGTCAATAAGAAACACATGTTATTGCTAGCTACATTTTACTTTGCAAAC
CACAAAAAAACTTAGGAAAAACTTAACAAAAGAACAGACCAAAATCTCCCACTATAAACTTCATC
TTTCATCTTGAATAAGTTTCACTAACTAGTTCATTTCATTCCAACAACATTCCTCAAA
Found at i:8808464 original size:27 final size:27
Alignment explanation
Indices: 8808427--8808483 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
8808417 AACATTGAGT
8808427 AAAACATTGAATTATCAAATAATAAGA
1 AAAACATTGAATTATCAAATAATAAGA
8808454 AAAACATTGAATTATCAAATAATAAGA
1 AAAACATTGAATTATCAAATAATAAGA
8808481 AAA
1 AAA
8808484 GTCAAAATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.61, C:0.07, G:0.07, T:0.25
Consensus pattern (27 bp):
AAAACATTGAATTATCAAATAATAAGA
Found at i:8808848 original size:98 final size:97
Alignment explanation
Indices: 8808659--8808850 Score: 287
Period size: 98 Copynumber: 2.0 Consensus size: 97
8808649 ATATATGAAA
* * *
8808659 ATAAAGACACAACAATGAGTTCAGGCTAGTAGAATACAAGCAATGGAAAAATCAACATTGTACTC
1 ATAAAGACACAACAAGGAGTTCAGGATAGTAGAATACAAGCAATGAAAAAATCAACATTGTACTC
*
8808724 GAAATAGAAAAATTAGAGATAACAATGTTCGC
66 GAAATAGAAAAATCAGAGATAACAATGTTCGC
* * *
8808756 ATAAAGACACAACAGGGAGTTCATGATAGTAGAATACTAAGTAATGAAAAAATCAACATTGTACT
1 ATAAAGACACAACAAGGAGTTCAGGATAGTAGAATAC-AAGCAATGAAAAAATCAACATTGTACT
*
8808821 C-AGAATAGAAAAATCAGAGATAGCAATGTT
65 CGA-AATAGAAAAATCAGAGATAACAATGTT
8808851 GGTAGTGGAA
Statistics
Matches: 85, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
97 34 0.40
98 51 0.60
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.21
Consensus pattern (97 bp):
ATAAAGACACAACAAGGAGTTCAGGATAGTAGAATACAAGCAATGAAAAAATCAACATTGTACTC
GAAATAGAAAAATCAGAGATAACAATGTTCGC
Found at i:8810184 original size:18 final size:19
Alignment explanation
Indices: 8810157--8810192 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
8810147 CCCTTGCACC
*
8810157 CACCATGTTGAAG-ATCAA
1 CACCAAGTTGAAGTATCAA
8810175 CACCAAGTTGAAGTATCA
1 CACCAAGTTGAAGTATCA
8810193 GAATCCATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.22
Consensus pattern (19 bp):
CACCAAGTTGAAGTATCAA
Found at i:8815468 original size:23 final size:23
Alignment explanation
Indices: 8815441--8815484 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
8815431 TCTTTTAAAT
*
8815441 AATAT-TATACTTTTATAAATTCA
1 AATATATATAATTTTA-AAATTCA
8815464 AATATATATAATTTTAAAATT
1 AATATATATAATTTTAAAATT
8815485 TTACAATTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (23 bp):
AATATATATAATTTTAAAATTCA
Found at i:8815697 original size:8 final size:8
Alignment explanation
Indices: 8815686--8815733 Score: 80
Period size: 8 Copynumber: 6.1 Consensus size: 8
8815676 ATATTTTTAT
8815686 ATTTTAAA
1 ATTTTAAA
8815694 ATTTTAAA
1 ATTTTAAA
8815702 ATTTTAAA
1 ATTTTAAA
8815710 ATTTTAAA
1 ATTTTAAA
*
8815718 A-TTTATA
1 ATTTTAAA
8815725 ATTTTAAA
1 ATTTTAAA
8815733 A
1 A
8815734 AATAAAATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
7 6 0.16
8 31 0.84
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
ATTTTAAA
Found at i:8815698 original size:15 final size:15
Alignment explanation
Indices: 8815680--8815732 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
8815670 TATTTTATAT
*
8815680 TTTTATATTTTAAAA
1 TTTTAAATTTTAAAA
8815695 TTTTAAAATTTTAAAA
1 TTTT-AAATTTTAAAA
* *
8815711 TTTTAAAATTTATAA
1 TTTTAAATTTTAAAA
8815726 TTTTAAA
1 TTTTAAA
8815733 AAATAAAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
15 20 0.59
16 14 0.41
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TTTTAAATTTTAAAA
Found at i:8818111 original size:16 final size:16
Alignment explanation
Indices: 8818090--8818120 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
8818080 TCTTGAACAT
8818090 TTTAACCCTTAGCTAA
1 TTTAACCCTTAGCTAA
8818106 TTTAACCCTTAGCTA
1 TTTAACCCTTAGCTA
8818121 CCTTAGAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.29, C:0.26, G:0.06, T:0.39
Consensus pattern (16 bp):
TTTAACCCTTAGCTAA
Found at i:8818409 original size:3 final size:3
Alignment explanation
Indices: 8818401--8818426 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
8818391 ACATGTTCAT
8818401 AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AA
8818427 AAATTAAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:8830666 original size:64 final size:63
Alignment explanation
Indices: 8830568--8830693 Score: 153
Period size: 64 Copynumber: 2.0 Consensus size: 63
8830558 CATTAAGAGC
* * * * * * * * * *
8830568 CATATATTGGGACGCTCATAAAGAGTTACGGTATGTCTGCAATATATGCAGGATCCATACCGAT
1 CATATACTAGGACACTCACAAAGAGCTACAGTATGTCTACAACACATGCA-GATCAATACCGAT
8830632 CATATACTAGGACACTCACAAAGAGCTACAGTATGTCTACAACACATGCAGATCAATACCGA
1 CATATACTAGGACACTCACAAAGAGCTACAGTATGTCTACAACACATGCAGATCAATACCGA
8830694 CCAGCATGCT
Statistics
Matches: 52, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
63 11 0.21
64 41 0.79
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (63 bp):
CATATACTAGGACACTCACAAAGAGCTACAGTATGTCTACAACACATGCAGATCAATACCGAT
Found at i:8832888 original size:55 final size:55
Alignment explanation
Indices: 8832827--8832946 Score: 195
Period size: 55 Copynumber: 2.2 Consensus size: 55
8832817 TTTTGGGGGT
* *
8832827 ATACTGACTTCGTCACACTGCCAAGCCACACGCCCGTGTGCTAGGCCGTGTGAGC
1 ATACTGACTTCGTCACACTGCCAAGCCACACACCCGTGTGCTAAGCCGTGTGAGC
* * *
8832882 ATACTGACATGGTCGCACTGCCAAGCCACACACCCGTGTGCTAAGCCGTGTGAGC
1 ATACTGACTTCGTCACACTGCCAAGCCACACACCCGTGTGCTAAGCCGTGTGAGC
8832937 ATACTGACTT
1 ATACTGACTT
8832947 GGATAATTAC
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 59 1.00
ACGTcount: A:0.23, C:0.33, G:0.24, T:0.21
Consensus pattern (55 bp):
ATACTGACTTCGTCACACTGCCAAGCCACACACCCGTGTGCTAAGCCGTGTGAGC
Found at i:8835542 original size:13 final size:13
Alignment explanation
Indices: 8835524--8835548 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8835514 TGTAATCAGT
8835524 AAAATTTTCATAA
1 AAAATTTTCATAA
8835537 AAAATTTTCATA
1 AAAATTTTCATA
8835549 TGAATTCTCT
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:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATTTTCATAA
Found at i:8838268 original size:316 final size:315
Alignment explanation
Indices: 8837647--8838278 Score: 1084
Period size: 316 Copynumber: 2.0 Consensus size: 315
8837637 CGTGTAGAAG
* * *
8837647 AGCTGTAGCCATTTGGTTCACGAATTAGCCTGAGGTTTTAAAGGCACATGGTCGTGTGGTGGCCA
1 AGCTATAGCCATTTGGTTCACGAACTAGCCTGAGGTTTTAAAGGCACATAGTCGTGTGGTGGCCA
*
8837712 TGTGGTCCACCTATGTAGAAGACCGTGTGGCCCTAATCCTACACACGATAAGCACTGATTCACTT
66 TGTGGTCCACCTATGTAGAAGACCGTGTGGCCCTAATCCTACAAACGATAAGCACTGATTCACTT
* * *
8837777 GGGAACGATCACACGCCTTTCATCAGAGTTCTGATTGACGTTCTTCACGATCAAACCTGATCTAA
131 GGGAAAGATCACACGCCTTTCATCAGAGTTCTGATTGACGTTCCTCACGATCAAACCTGATCCAA
* * *
8837842 TACACTTAAATTCGATCCTTCAGAAATATGTACACAATTAGTTATTAATGTCAAGATTGACGAGA
196 TACACTTAAATTCGATCCTTCAGAAATATGTACACAATTAGTGATTAACGTCAAGAATGACGAGA
*
8837907 TTTGCAAAAGATTTATCAAGATTTCAAATAGATCGATTCATCGAATTAAAGATTA
261 TTTGCAAAAGATCTATCAAGATTTCAAATAGATCGATTCATCGAATTAAAGATTA
*
8837962 AGCTATAGCCATTTGGTTCACGAACTAGCCTGAGGTTTTAAGAGGCACATAGTCGTGTGGTTGCC
1 AGCTATAGCCATTTGGTTCACGAACTAGCCTGAGGTTTTAA-AGGCACATAGTCGTGTGGTGGCC
**
8838027 ATGTGGTCCACCTATGTAGAAGATTGTGTGGCCCTAATCCTACAAACGATAAGCACTGATTCACT
65 ATGTGGTCCACCTATGTAGAAGACCGTGTGGCCCTAATCCTACAAACGATAAGCACTGATTCACT
*
8838092 TGGGAAAGATCACACGCCTTTCATCAGAGTTCTGATTGACGTTCCTCACGATCAAACCTGATCCG
130 TGGGAAAGATCACACGCCTTTCATCAGAGTTCTGATTGACGTTCCTCACGATCAAACCTGATCCA
*
8838157 ATACACTTAAATTCGATCCTTCAGACATATGTACACAATTAGTGATTAACGTCAAGAATGACGAG
195 ATACACTTAAATTCGATCCTTCAGAAATATGTACACAATTAGTGATTAACGTCAAGAATGACGAG
* * *
8838222 ATTTTCAAAAGATCTATCAATATTTCAAATAGATCGATTGATCGAATTAAAGATTA
260 ATTTGCAAAAGATCTATCAAGATTTCAAATAGATCGATTCATCGAATTAAAGATTA
8838278 A
1 A
8838279 AGGTTGGAGA
Statistics
Matches: 297, Mismatches: 19, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
315 39 0.13
316 258 0.87
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.29
Consensus pattern (315 bp):
AGCTATAGCCATTTGGTTCACGAACTAGCCTGAGGTTTTAAAGGCACATAGTCGTGTGGTGGCCA
TGTGGTCCACCTATGTAGAAGACCGTGTGGCCCTAATCCTACAAACGATAAGCACTGATTCACTT
GGGAAAGATCACACGCCTTTCATCAGAGTTCTGATTGACGTTCCTCACGATCAAACCTGATCCAA
TACACTTAAATTCGATCCTTCAGAAATATGTACACAATTAGTGATTAACGTCAAGAATGACGAGA
TTTGCAAAAGATCTATCAAGATTTCAAATAGATCGATTCATCGAATTAAAGATTA
Found at i:8840117 original size:5 final size:5
Alignment explanation
Indices: 8840102--8840136 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
8840092 TTCCATTTGC
*
8840102 TCTTT TTTTT TCTTT TCTTT TCTTT TCTTT TCTTT
1 TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT
8840137 CTGTATTGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (5 bp):
TCTTT
Found at i:8841838 original size:29 final size:29
Alignment explanation
Indices: 8841795--8841917 Score: 151
Period size: 29 Copynumber: 4.2 Consensus size: 29
8841785 CAAAAAATAA
*
8841795 AAAATTATATTTTAACCCCTAAACTTTTT
1 AAAATTACATTTTAACCCCTAAACTTTTT
*
8841824 GAAATTACATTTTAACCCCT-AACTTTTAT
1 AAAATTACATTTTAACCCCTAAACTTTT-T
* *
8841853 AAAATTACATTTTGACCCATAAACTTTTT
1 AAAATTACATTTTAACCCCTAAACTTTTT
* *
8841882 AAAATTACGTTTTGACCCCTAAA-TTTTCT
1 AAAATTACATTTTAACCCCTAAACTTTT-T
8841911 CAAAATT
1 -AAAATT
8841918 TTGTTTTGGC
Statistics
Matches: 83, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
28 11 0.13
29 59 0.71
30 13 0.16
ACGTcount: A:0.37, C:0.19, G:0.03, T:0.41
Consensus pattern (29 bp):
AAAATTACATTTTAACCCCTAAACTTTTT
Found at i:8841858 original size:58 final size:59
Alignment explanation
Indices: 8841795--8841917 Score: 167
Period size: 58 Copynumber: 2.1 Consensus size: 59
8841785 CAAAAAATAA
* * * *
8841795 AAAATTATATTTTAACCCCTAAACTTTTTGAAATTACATTTTAACCCCTAACTTTTAT-
1 AAAATTACATTTTAACCCATAAACTTTTTAAAATTACATTTTAACCCCTAAATTTTATC
* * * *
8841853 AAAATTACATTTTGACCCATAAACTTTTTAAAATTACGTTTTGACCCCTAAATTTTCTC
1 AAAATTACATTTTAACCCATAAACTTTTTAAAATTACATTTTAACCCCTAAATTTTATC
8841912 AAAATT
1 AAAATT
8841918 TTGTTTTGGC
Statistics
Matches: 56, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
58 50 0.89
59 6 0.11
ACGTcount: A:0.37, C:0.19, G:0.03, T:0.41
Consensus pattern (59 bp):
AAAATTACATTTTAACCCATAAACTTTTTAAAATTACATTTTAACCCCTAAATTTTATC
Found at i:8842257 original size:3 final size:3
Alignment explanation
Indices: 8842249--8842317 Score: 65
Period size: 3 Copynumber: 23.7 Consensus size: 3
8842239 CCAATGCGTA
*
8842249 AAG AAG AAG AAG AAG AAG AAG AAGG AAG AAG AAAG AA- AA- AAG AAA
1 AAG AAG AAG AAG AAG AAG AAG AA-G AAG AAG -AAG AAG AAG AAG AAG
* *
8842294 AAG -AG AA- AAG AAA AAG AAA AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
8842318 AAATAATAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 10
0.77 0.08 0.14
Matches are distributed among these distances:
2 8 0.15
3 41 0.75
4 6 0.11
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:8842300 original size:8 final size:7
Alignment explanation
Indices: 8842274--8842320 Score: 55
Period size: 7 Copynumber: 7.1 Consensus size: 7
8842264 AAGAAGAAGG
*
8842274 AAGAAGA
1 AAGAAAA
8842281 AAGAAAA
1 AAGAAAA
8842288 AAG-AAA
1 AAGAAAA
*
8842294 AAGAGAA
1 AAGAAAA
8842301 AAG-AAA
1 AAGAAAA
8842307 AAG-AAA
1 AAGAAAA
8842313 AAGAAAA
1 AAGAAAA
8842320 A
1 A
8842321 TAATAAAGCA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
6 17 0.49
7 18 0.51
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (7 bp):
AAGAAAA
Found at i:8842318 original size:6 final size:6
Alignment explanation
Indices: 8842248--8842320 Score: 74
Period size: 6 Copynumber: 11.5 Consensus size: 6
8842238 ACCAATGCGT
* * * *
8842248 AAAGAA GAAGAA GAAGAA GAAGAA GGAAGAA GAAAGAAA AAAGAA AAAGAGA
1 AAAGAA AAAGAA AAAGAA AAAGAA -AAAGAA -AAAG-AA AAAGAA AAAGA-A
8842300 AAAGAA AAAGAA AAAGAA AAA
1 AAAGAA AAAGAA AAAGAA AAA
8842321 TAATAAAGCA
Statistics
Matches: 62, Mismatches: 2, Indels: 6
0.89 0.03 0.09
Matches are distributed among these distances:
6 40 0.65
7 20 0.32
8 2 0.03
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:8842328 original size:19 final size:19
Alignment explanation
Indices: 8842280--8842320 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
8842270 AAGGAAGAAG
8842280 AAAGAAAAAAGAAAAAGAGA
1 AAAG-AAAAAGAAAAAGAGA
8842300 AAAGAAAAAGAAAAAGA-A
1 AAAGAAAAAGAAAAAGAGA
8842318 AAA
1 AAA
8842321 TAATAAAGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 4 0.19
19 13 0.62
20 4 0.19
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (19 bp):
AAAGAAAAAGAAAAAGAGA
Found at i:8842625 original size:5 final size:5
Alignment explanation
Indices: 8842617--8842672 Score: 50
Period size: 5 Copynumber: 11.8 Consensus size: 5
8842607 GCCCAGCAGA
*
8842617 AAAAG AAAAG -AAA- AAAAG AAAA- AAAA- AAGAA- AAAAG AAGAG AAAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AA-AAG AAAAG AAAAG -AAAAG
8842664 AAAAG AAAA
1 AAAAG AAAA
8842673 ATTCAATTTG
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
4 14 0.32
5 26 0.59
6 4 0.09
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:8842630 original size:11 final size:11
Alignment explanation
Indices: 8842614--8842673 Score: 72
Period size: 11 Copynumber: 5.6 Consensus size: 11
8842604 ACAGCCCAGC
8842614 AGAAAAAGAAA
1 AGAAAAAGAAA
8842625 AG--AAA-AAA
1 AGAAAAAGAAA
*
8842633 AGAAAAAAAAA
1 AGAAAAAGAAA
*
8842644 AGAAAAAAGAAG
1 AG-AAAAAGAAA
8842656 AGAAAAAGAAA
1 AGAAAAAGAAA
8842667 AGAAAAA
1 AGAAAAA
8842674 TTCAATTTGT
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
8 5 0.12
9 3 0.07
10 3 0.07
11 22 0.52
12 9 0.21
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (11 bp):
AGAAAAAGAAA
Found at i:8842643 original size:18 final size:18
Alignment explanation
Indices: 8842614--8842667 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
8842604 ACAGCCCAGC
8842614 AGAAAAAGAAAAGAAAAAA
1 AGAAAAA-AAAAGAAAAAA
8842633 AGAAAAAAAAA-AGAAAAA
1 AGAAAAAAAAAGA-AAAAA
*
8842651 AGAAGAGAAAAAGAAAA
1 AGAA-AAAAAAAGAAAA
8842668 GAAAAATTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
17 1 0.03
18 13 0.42
19 16 0.52
20 1 0.03
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (18 bp):
AGAAAAAAAAAGAAAAAA
Found at i:8842673 original size:23 final size:22
Alignment explanation
Indices: 8842614--8842673 Score: 90
Period size: 20 Copynumber: 2.8 Consensus size: 22
8842604 ACAGCCCAGC
8842614 AGAAAAAGAAAAG-AAAAAAAG
1 AGAAAAAGAAAAGAAAAAAAAG
8842635 A-AAAAA-AAAAGAAAAAAGAAG
1 AGAAAAAGAAAAGAAAAAA-AAG
8842656 AGAAAAAGAAAAGAAAAA
1 AGAAAAAGAAAAGAAAAA
8842674 TTCAATTTGT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
19 5 0.14
20 10 0.29
21 5 0.14
22 5 0.14
23 10 0.29
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (22 bp):
AGAAAAAGAAAAGAAAAAAAAG
Found at i:8843070 original size:21 final size:20
Alignment explanation
Indices: 8843033--8843074 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
8843023 TCGGGTTTCG
8843033 AAATTTTCGTGTCTTCAAAA
1 AAATTTTCGTGTCTTCAAAA
* *
8843053 AAATTTCTCGTTTTTTCAAAA
1 AAATTT-TCGTGTCTTCAAAA
8843074 A
1 A
8843075 TAAAGTAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (20 bp):
AAATTTTCGTGTCTTCAAAA
Found at i:8843230 original size:35 final size:35
Alignment explanation
Indices: 8843180--8843309 Score: 154
Period size: 35 Copynumber: 3.7 Consensus size: 35
8843170 AAAAAATTAG
*
8843180 AAAATTTTTCGTGTTTTCAAAAAATTCCAATTTTC
1 AAAATTTTTCGTGTTTTCAAAAAATTCCAGTTTTC
* * *
8843215 AAAATTTTTCATGTTTTCAGAAAATTCCCGTGTTTC
1 AAAATTTTTCGTGTTTTCAAAAAATTCCAGT-TTTC
* * * * *
8843251 AAAAATTCTCGTGTTTTCAAAAATTTCGATGTTTTG
1 AAAATTTTTCGTGTTTTCAAAAAATTCCA-GTTTTC
8843287 AAAA-TTTTCGTGTTTTCAAAAAA
1 AAAATTTTTCGTGTTTTCAAAAAA
8843310 AAATCTCGTG
Statistics
Matches: 79, Mismatches: 14, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
35 44 0.56
36 33 0.42
37 2 0.03
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.44
Consensus pattern (35 bp):
AAAATTTTTCGTGTTTTCAAAAAATTCCAGTTTTC
Found at i:8843233 original size:18 final size:18
Alignment explanation
Indices: 8843180--8843308 Score: 113
Period size: 18 Copynumber: 7.3 Consensus size: 18
8843170 AAAAAATTAG
*
8843180 AAAATTTTTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
* ***
8843198 AAAAA-ATTCCAATTTTC
1 AAAAATTTTCGTGTTTTC
* *
8843215 AAAATTTTTCATGTTTTC
1 AAAAATTTTCGTGTTTTC
**
8843233 AGAAAATTCCCGTG-TTTC
1 A-AAAATTTTCGTGTTTTC
*
8843251 AAAAATTCTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
8843269 AAAAA-TTTCGATGTTTT-
1 AAAAATTTTCG-TGTTTTC
*
8843286 GAAAATTTTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
8843304 AAAAA
1 AAAAA
8843309 AAAATCTCGT
Statistics
Matches: 87, Mismatches: 18, Indels: 12
0.74 0.15 0.10
Matches are distributed among these distances:
17 37 0.43
18 42 0.48
19 8 0.09
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.44
Consensus pattern (18 bp):
AAAAATTTTCGTGTTTTC
Found at i:8843338 original size:71 final size:72
Alignment explanation
Indices: 8843192--8843393 Score: 200
Period size: 71 Copynumber: 2.8 Consensus size: 72
8843182 AATTTTTCGT
* * * * *
8843192 GTTTTCAAAAAATTCCA-ATTTTCAAAATTTTTCATGTTTTC--AGAAAATTCCCGTGTTTCAAA
1 GTTTTCAAAAAATTCGATGTTTTCAAAA-TTTTCGTGTTTTCAAAAAAAATTCTCGTGTTTCAAA
8843254 AATTCTCG
65 AATTCTCG
* * * *
8843262 TGTTTTCAAAAATTTCGATGTTTTGAAAATTTTCGTGTTTTCAAAAAAAAATCTCGTGTTTCATA
1 -GTTTTCAAAAAATTCGATGTTTTCAAAATTTTCGTGTTTTCAAAAAAAATTCTCGTGTTTCAAA
*
8843327 AATTTTCG
65 AATTCTCG
* * * *
8843335 TTTTTTAGACAAAATT-G-TGTTTCCAAAATTCTCGTGTTTT-AAAAAAAATTCTCGTGTTT
1 GTTTTCA-A-AAAATTCGATGTTTTCAAAATTTTCGTGTTTTCAAAAAAAATTCTCGTGTTT
8843394 TAATCGGATC
Statistics
Matches: 109, Mismatches: 17, Indels: 10
0.80 0.12 0.07
Matches are distributed among these distances:
71 45 0.41
72 33 0.30
73 26 0.24
74 5 0.05
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.44
Consensus pattern (72 bp):
GTTTTCAAAAAATTCGATGTTTTCAAAATTTTCGTGTTTTCAAAAAAAATTCTCGTGTTTCAAAA
ATTCTCG
Found at i:8843364 original size:34 final size:34
Alignment explanation
Indices: 8843244--8843384 Score: 108
Period size: 34 Copynumber: 4.0 Consensus size: 34
8843234 GAAAATTCCC
* * *
8843244 GTGTTTCAAAAATTCTCGTGTTTT-CAAAAATTT
1 GTGTTTCATAAATTCTCGTGTTTTAAAAAAAATT
* *
8843277 CGATGTTTTGA-AAATTTTCGTGTTTTCAAAAAAAAATCT
1 -G-TG-TTTCATAAATTCTCGTGTTTT--AAAAAAAAT-T
* * * *
8843316 CGTGTTTCATAAATTTTCGTTTTTTAGACAAAATT
1 -GTGTTTCATAAATTCTCGTGTTTTAAAAAAAATT
8843351 GTGTTTCCA-AAATTCTCGTGTTTTAAAAAAAATT
1 GTGTTT-CATAAATTCTCGTGTTTTAAAAAAAATT
8843385 CTCGTGTTTT
Statistics
Matches: 87, Mismatches: 12, Indels: 16
0.76 0.10 0.14
Matches are distributed among these distances:
34 28 0.32
35 19 0.22
36 11 0.13
37 4 0.05
38 22 0.25
39 3 0.03
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.44
Consensus pattern (34 bp):
GTGTTTCATAAATTCTCGTGTTTTAAAAAAAATT
Found at i:8843373 original size:17 final size:17
Alignment explanation
Indices: 8843229--8843393 Score: 93
Period size: 17 Copynumber: 9.2 Consensus size: 17
8843219 TTTTTCATGT
*
8843229 TTTCAGAAAATTCCCGTG
1 TTTCA-AAAATTCTCGTG
8843247 TTTCAAAAATTCTCGTG
1 TTTCAAAAATTCTCGTG
8843264 TTTTCAAAAATT-TCGATG
1 -TTTCAAAAATTCTCG-TG
** *
8843282 TTTTGAAAATTTTCGTG
1 TTTCAAAAATTCTCGTG
*
8843299 TTTTCAAAAAAAAATCTCGTG
1 -TTTC---AAAAATTCTCGTG
* * *
8843320 TTTCATAAATTTTCGTT
1 TTTCAAAAATTCTCGTG
* *
8843337 TTTTAGACAAAAT-T-GTG
1 TTTCA-A-AAATTCTCGTG
*
8843354 TTTCCAAAATTCTCGTG
1 TTTCAAAAATTCTCGTG
*
8843371 TTTTAAAAAAAATTCTCGTG
1 -TTT--CAAAAATTCTCGTG
8843391 TTT
1 TTT
8843394 TAATCGGATC
Statistics
Matches: 113, Mismatches: 20, Indels: 27
0.71 0.12 0.17
Matches are distributed among these distances:
15 4 0.04
16 2 0.02
17 46 0.41
18 28 0.25
19 7 0.06
20 16 0.14
21 10 0.09
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.44
Consensus pattern (17 bp):
TTTCAAAAATTCTCGTG
Found at i:8843384 original size:20 final size:20
Alignment explanation
Indices: 8843359--8843396 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
8843349 TTGTGTTTCC
8843359 AAAATTCTCGTGTTTTAAAA
1 AAAATTCTCGTGTTTTAAAA
8843379 AAAATTCTCGTGTTTTAA
1 AAAATTCTCGTGTTTTAA
8843397 TCGGATCACG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.42
Consensus pattern (20 bp):
AAAATTCTCGTGTTTTAAAA
Found at i:8849040 original size:10 final size:10
Alignment explanation
Indices: 8849025--8849063 Score: 53
Period size: 10 Copynumber: 3.8 Consensus size: 10
8849015 TATTATGCCC
8849025 AAAAAAAACA
1 AAAAAAAACA
8849035 AAAAAAAACA
1 AAAAAAAACA
8849045 AAAAAAGAA-A
1 AAAAAA-AACA
8849055 AAGAAAAAA
1 AA-AAAAAA
8849064 ATCAAGATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 21 0.78
11 6 0.22
ACGTcount: A:0.90, C:0.05, G:0.05, T:0.00
Consensus pattern (10 bp):
AAAAAAAACA
Found at i:8849070 original size:18 final size:16
Alignment explanation
Indices: 8849025--8849070 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 16
8849015 TATTATGCCC
8849025 AAAAAAAACAA-AAAA
1 AAAAAAAACAAGAAAA
8849040 AAACAAAAA-AAGAAAA
1 AAA-AAAAACAAGAAAA
8849056 AGAAAAAAATCAAGA
1 A-AAAAAAA-CAAGA
8849071 TGAAAACCCG
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 5 0.19
16 15 0.58
17 2 0.08
18 4 0.15
ACGTcount: A:0.85, C:0.07, G:0.07, T:0.02
Consensus pattern (16 bp):
AAAAAAAACAAGAAAA
Found at i:8850051 original size:79 final size:81
Alignment explanation
Indices: 8849919--8850082 Score: 278
Period size: 79 Copynumber: 2.0 Consensus size: 81
8849909 TCAAGAAATA
*
8849919 TTTTTAAAATTCTATTTTTTTTCAAAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGG
1 TTTTTAAAATTCTAGTTTTTTTC-AAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGG
*
8849984 GTCACGCTGAGGTATTT
65 GTCACGCTGAGATATTT
*
8850001 TTTTTAAAATTCT-GTTTTTTTC-AAAAAATCAACTCATAATACAGATGTGAGTTGAGCCTCGGG
1 TTTTTAAAATTCTAGTTTTTTTCAAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGG
8850064 TCACGCTGAGATATTT
66 TCACGCTGAGATATTT
8850080 TTT
1 TTT
8850083 AAATTGAGTT
Statistics
Matches: 79, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
79 58 0.73
81 8 0.10
82 13 0.16
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.38
Consensus pattern (81 bp):
TTTTTAAAATTCTAGTTTTTTTCAAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGG
TCACGCTGAGATATTT
Found at i:8850106 original size:118 final size:120
Alignment explanation
Indices: 8849969--8850204 Score: 388
Period size: 122 Copynumber: 2.0 Consensus size: 120
8849959 AATACAGAGG
* *
8849969 TGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTT-TAA-AA-TTCTGTTTTTTTCAAAAAATC
1 TGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTGAAATAATTTATG-TTTTTTCAAAAAATC
*
8850031 AACTCATAATACAGATGTGAGTTGAGCCTCGGGTCACGCTGAGATATTTTTTAAAT
65 AACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGATATTTTTTAAAT
8850087 TGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTGAAATTTAATTTATGTTTTTTCAAAAAAT
1 TGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTGAAA--TAATTTATGTTTTTTCAAAAAAT
*
8850152 CAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTT
64 CAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGATATTTTTT
8850205 TTAATTTCTG
Statistics
Matches: 109, Mismatches: 4, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
118 36 0.33
119 2 0.02
122 67 0.61
123 4 0.04
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (120 bp):
TGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTGAAATAATTTATGTTTTTTCAAAAAATCA
ACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGATATTTTTTAAAT
Found at i:8850499 original size:82 final size:79
Alignment explanation
Indices: 8850087--8852099 Score: 2074
Period size: 82 Copynumber: 25.2 Consensus size: 79
8850077 TTTTTTAAAT
* *
8850087 TGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTGAAATTTAATTTATGTTTTTTCAAAAAAT
1 TGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTT-AAA-TT--TCTGT-TTTTTTCAAAAAAT
* *
8850152 CAACTCATAATAC-AGAGG
61 CAACTCATATTGCGAGAGG
* * *
8850170 TGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTTAATTTCTGCTTTTTTCAAAAAATAAACT
1 TGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTAAATTTCTGTTTTTTTCAAAAAATCAACT
* *
8850235 CATAATAC-AGAGG
66 CATATTGCGAGAGG
**
8850248 TGAGTTGAGCCTCGGGTCACGCTGAGGTA--TTTTTAAATTTCTGCTTTTTTAAAAAAAATCAAC
1 TGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTAAATTTCTG-TTTTTTTCAAAAAATCAAC
* *
8850311 TCATAATAC-AGAGG
65 TCATATTGCGAGAGG
* *
8850325 TGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTAAATTTATGCTTTTTTCAAAAAATCAACT
1 TGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTAAATTTCTGTTTTTTTCAAAAAATCAACT
* *
8850390 CATAATAC-AGAGG
66 CATATTGCGAGAGG
8850403 TGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTAATTTAATTTCTGTTTTTTTCAAAAAATC
1 TGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTT-A---AATTTCTGTTTTTTTCAAAAAATC
* *
8850468 AACTCATAATAC-AGAGG
62 AACTCATATTGCGAGAGG
8850485 TGAGTTGAGCCTCGGGTCACGCTGAGGTA--TTTTTAAATTTCT-TCTTTTTTCAAAAAAATCAA
1 TGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTAAATTTCTGT-TTTTTTC-AAAAAATCAA
* *
8850547 CTCATAATAC-AGAGG
64 CTCATATTGCGAGAGG
* * *
8850562 TGAGTTGAGCCTCGAGTCACGCTGATGTA--TTTTTAAATTTCTGCTTTTTTCAAAAAATCAACT
1 TGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTAAATTTCTGTTTTTTTCAAAAAATCAACT
* *
8850625 CATAATAC-AGAGG
66 CATATTGCGAGAGG
* * *
8850638 AGAGTTGAGCCTCGGGTCACGCTGAGGTA--TTTTT-AATTTATGTTTTTTTTTAAAAAAAATCA
1 TGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTAAATTTCTG--TTTTTTT-CAAAAAATCA
* *
8850700 ACTCATAATAC-AGAGG
63 ACTCATATTGCGAGAGG
* * * *
8850716 TGAGTTGAGCCTCGGGTCACACCGAGGTATTTCTTTTAAATTTATG--TTTTTCAAAAAATTAAC
1 TGAGTTGAGCCTCGGGTCACGCTGAGGTATTT-TTTTAAATTTCTGTTTTTTTCAAAAAATCAAC
*
8850779 TCATATTGCGAGAAG
65 TCATATTGCGAGAGG
* * *
8850794 TGAGTTGAGCCTCGAGTCGCATGCTGAGGTATTTTTTTTAAATTTCTATTTTTGTTTC-AAAAAT
1 TGAGTTGAGCCTCGGGT--CACGCTGAGGTA-TTTTTTTAAATTTCT-GTTTT-TTTCAAAAAAT
8850858 CAACTCATATTGCGAGAGG
61 CAACTCATATTGCGAGAGG
* * *
8850877 TGAGTTGAGTCTCGGATCGCACGCTGAGGTATTTTTTT-AATTTCTATTTTTTTTTC-AAAAATC
1 TGAGTTGAGCCTCGGGT--CACGCTGAGGTATTTTTTTAAATTTC--TGTTTTTTTCAAAAAATC
* * *
8850940 AACTCATATTGCAATAAG
62 AACTCATATTGCGAGAGG
*
8850958 TGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTTTTAAATTTCTATTTTTTTTC-AAAAATCA
1 TGAGTTGAGCCTCGGGT--CACGCTGAGGTATTTTTTTAAATTTCT-GTTTTTTTCAAAAAATCA
* *
8851022 ACACATATTGCGAGAAG
63 ACTCATATTGCGAGAGG
*
8851039 TGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTTTTAAAATTTCTATTTTTTTTC-AAAAATC
1 TGAGTTGAGCCTCGGGT--CACGCTGAGGTATTTTTTT-AAATTTCT-GTTTTTTTCAAAAAATC
* *
8851103 AGCTCATATTGCGAGAAG
62 AACTCATATTGCGAGAGG
* *
8851121 TGAGTTAAGCCTCGGGTCGCACGCTGAGGTATTTTTTTAAAAAATTTCTGTTTTTTT---TAAAT
1 TGAGTTGAGCCTCGGGT--CACGCTGAGGTATTTTTTT---AAATTTCTGTTTTTTTCAAAAAAT
*
8851183 CAACTCATATTGCGAGAAG
61 CAACTCATATTGCGAGAGG
*
8851202 TGAGTTGAGCCTCGGGTCGCACGCTGAGGTATGTTTTTAAAATTTCTGTTTTTTTTC-AAAAATC
1 TGAGTTGAGCCTCGGGT--CACGCTGAGGTAT-TTTTTTAAATTTCTG-TTTTTTTCAAAAAATC
*
8851266 AACTCATATTGCGAGAAG
62 AACTCATATTGCGAGAGG
* * * ****
8851284 TGAGTTGAACCTCGGGTCGCACGCTGATGTATTTTTTTAAATTACTGTTTTTTATGTTTTTTTTA
1 TGAGTTGAGCCTCGGGT--CACGCTGAGGTATTTTTTTAAATTTCTG----TT-T-TTTTCAAAA
*
8851349 AATCAACTCATATTGCGAGAAG
58 AATCAACTCATATTGCGAGAGG
8851371 TGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTCTTTTAAATTTCTG-TTTTTTCAAAAAATCA
1 TGAGTTGAGCCTCGGGT--CACGCTGAGGTATTT-TTTTAAATTTCTGTTTTTTTCAAAAAATCA
*
8851435 ACTCATATTGCGAGAAG
63 ACTCATATTGCGAGAGG
* ***
8851452 TGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTCTTTTAAATTTTTGTTTTTCAAAAAAAATCA
1 TGAGTTGAGCCTCGGGT--CACGCTGAGGTATTT-TTTTAAATTTCTGTTTTTTTCAAAAAATCA
*
8851517 ACTCATATTGCGAGAAG
63 ACTCATATTGCGAGAGG
* * * ***
8851534 TGAGTTGAGCCTCGAGTCGCATGCTGAGGTATTTCTTTTAAATTTCTATTTTTCAAAAAAAAAAT
1 TGAGTTGAGCCTCGGGT--CACGCTGAGGTATTT-TTTTAAATTTCTGTTTTT--TTCAAAAAAT
*
8851599 CAACTCATATTAC-AGAGG
61 CAACTCATATTGCGAGAGG
*
8851617 TGAGTTGAGCCCCGGGTCACGCTGAGGTATTTCTTTTAAATTTCTGTTTTTTTTTTCAAAAAATC
1 TGAGTTGAGCCTCGGGTCACGCTGAGGTATTT-TTTTAAATTTCTG---TTTTTTTCAAAAAATC
8851682 AACTCATATTGCGAGAGG
62 AACTCATATTGCGAGAGG
* *** * *
8851700 TGAGTTGAGTCTCGAACCATGCCGAGGTATTTCTTTTAAATTTCTG--TTTTTC-AAAAATCAAC
1 TGAGTTGAGCCTCGGGTCACGCTGAGGTATTT-TTTTAAATTTCTGTTTTTTTCAAAAAATCAAC
* *
8851762 TCATAATGCGAGAAG
65 TCATATTGCGAGAGG
*
8851777 TGAGTTGAGCCTCGGGTCGCACGCTGAGGTA---TTTTAAATTTCT-ATTTTTTC-AAAAATCAA
1 TGAGTTGAGCCTCGGGT--CACGCTGAGGTATTTTTTTAAATTTCTGTTTTTTTCAAAAAATCAA
8851837 CTCATATTGCGAGAGG
64 CTCATATTGCGAGAGG
***
8851853 TGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTCTTTTAAATTTCTGTTTTTCAAAAAAAAATC
1 TGAGTTGAGCCTCGGGT--CACGCTGAGGTATTT-TTTTAAATTTCTGTTTTT-TTCAAAAAATC
* *
8851918 AACTCATAATAC-AGAGG
62 AACTCATATTGCGAGAGG
* * ***
8851935 TGAGTTGAGCCTTGGGTCACGCTGAGGTA--TTTTT-AATTTCGGTCTTTTTTTTTAAAATCAAC
1 TGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTAAATTTCTGT-TTTTTTCAAAAAATCAAC
* *
8851997 TCATAATAC-AGAGG
65 TCATATTGCGAGAGG
* * * *
8852011 TGAGTTGAGCCTCGGATCACACTGAGGTA-TTTTTT-AATTTATGTTTTTTT---TAAATCAACT
1 TGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTAAATTTCTGTTTTTTTCAAAAAATCAACT
* **
8852071 CATAAT-ATAGAGG
66 CATATTGCGAGAGG
8852084 TGAGTTGAGCCTCGGG
1 TGAGTTGAGCCTCGGG
8852100 CGACACTCCG
Statistics
Matches: 1733, Mismatches: 133, Indels: 138
0.86 0.07 0.07
Matches are distributed among these distances:
73 35 0.02
75 20 0.01
76 206 0.12
77 209 0.12
78 209 0.12
79 36 0.02
80 58 0.03
81 317 0.18
82 352 0.20
83 177 0.10
84 42 0.02
85 1 0.00
86 4 0.00
87 55 0.03
88 12 0.01
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (79 bp):
TGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTAAATTTCTGTTTTTTTCAAAAAATCAACT
CATATTGCGAGAGG
Found at i:8851111 original size:163 final size:158
Alignment explanation
Indices: 8850087--8852099 Score: 1992
Period size: 163 Copynumber: 12.6 Consensus size: 158
8850077 TTTTTTAAAT
* *
8850087 TGAGTTGAGCCTCGGGT-CACGCTGAGGTATTTTTTTGAAATTTAATTTATGTTTTTTCAAAAAA
1 TGAGTTGAGCCTCGGGTCCACGCTGAGGTATTTTTTT-AAA-TT--TCTATTTTTTTTC-AAAAA
* * *
8850151 TCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTTAATTTCT-G
61 TCAACTCATAATACAGAAGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTAAATTTCTAT
* * * *
8850215 CTTTTTTCAAAAAATAAACTCATAATAC-AGAGG
126 TTTTTTTC-AAAAATCAACTCATATTGCGAGAGG
* ***
8850248 TGAGTTGAGCCTCGGGT-CACGCTGAGGTA--TTTTTAAATTTCTGCTTTTTTAAAAAAAATCAA
1 TGAGTTGAGCCTCGGGTCCACGCTGAGGTATTTTTTTAAATTTCT-ATTTTTTTTCAAAAATCAA
* *
8850310 CTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTAAA-TT-TATGCTT
65 CTCATAATACAGAAGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTAAATTTCTAT-TTT
* *
8850373 TTTTCAAAAAATCAACTCATAATAC-AGAGG
129 TTTTC-AAAAATCAACTCATATTGCGAGAGG
*
8850403 TGAGTTGAGCCTCGGGT-CACGCTGAGGTATTTTTTTAATTTAATTTCT-GTTTTTTTCAAAAAA
1 TGAGTTGAGCCTCGGGTCCACGCTGAGGTATTTTTTT-A---AATTTCTATTTTTTTTC-AAAAA
*
8850466 TCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA--TTTTTAAATTTCT-T
61 TCAACTCATAATACAGAAGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTAAATTTCTAT
* * *
8850528 CTTTTTTCAAAAAAATCAACTCATAATAC-AGAGG
126 TTTTTTTC--AAAAATCAACTCATATTGCGAGAGG
* * **
8850562 TGAGTTGAGCCTCGAGT-CACGCTGATGTA--TTTTTAAATTTCT-GCTTTTTTCAAAAAATCAA
1 TGAGTTGAGCCTCGGGTCCACGCTGAGGTATTTTTTTAAATTTCTATTTTTTTTC-AAAAATCAA
* * * *
8850623 CTCATAATACAGAGGAGAGTTGAGCCTCGGGTCACGCTGAGGTA--TTTTT-AATTTATGTTTTT
65 CTCATAATACAGAAGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTAAATTTCT-ATTTT
* * *
8850685 TTTTAAAAAAAATCAACTCATAATAC-AGAGG
129 TTTT--CAAAAATCAACTCATATTGCGAGAGG
* *
8850716 TGAGTTGAGCCTCGGGTCACAC-C-GAGGTATTTCTTTTAAA-TT-TA-TGTTTTTCAAAAAATT
1 TGAGTTGAGCCTCGGGTC-CACGCTGAGGTATTT-TTTTAAATTTCTATTTTTTTTC-AAAAATC
* * * *
8850776 AACTCATATTGCGAGAAGTGAGTTGAGCCTCGAGTCGCATGCTGAGGTATTTTTTTTAAATTTCT
63 AACTCATAATAC-AGAAGTGAGTTGAGCCTCGGGT--CACGCTGAGGTA-TTTTTTTAAATTTCT
8850841 ATTTTTGTTTCAAAAATCAACTCATATTGCGAGAGG
124 ATTTTT-TTTCAAAAATCAACTCATATTGCGAGAGG
* *
8850877 TGAGTTGAGTCTCGGATCGCACGCTGAGGTATTTTTTT-AATTTCTATTTTTTTTTCAAAAATCA
1 TGAGTTGAGCCTCGGGTC-CACGCTGAGGTATTTTTTTAAATTTCTA-TTTTTTTTCAAAAATCA
* * *
8850941 ACTCATATTGCAATAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTTTTAAATTTCTAT
64 ACTCATAATAC-AGAAGTGAGTTGAGCCTCGGGT--CACGCTGAGGTATTTTTTTAAATTTCTAT
* *
8851006 TTTTTTTCAAAAATCAACACATATTGCGAGAAG
126 TTTTTTTCAAAAATCAACTCATATTGCGAGAGG
8851039 TGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTTTTAAAATTTCTATTTTTTTTCAAAAATCA
1 TGAGTTGAGCCTCGGGTC-CACGCTGAGGTATTTTTTT-AAATTTCTATTTTTTTTCAAAAATCA
* * * *
8851104 GCTCATATTGCGAGAAGTGAGTTAAGCCTCGGGTCGCACGCTGAGGTATTTTTTTAAAAAATTTC
64 ACTCATAATAC-AGAAGTGAGTTGAGCCTCGGGT--CACGCTGAGGTATTTTTTT---AAATTTC
* *
8851169 TGTTTTTTTT---AAATCAACTCATATTGCGAGAAG
123 TATTTTTTTTCAAAAATCAACTCATATTGCGAGAGG
* *
8851202 TGAGTTGAGCCTCGGGTCGCACGCTGAGGTATGTTTTTAAAATTTCTGTTTTTTTTCAAAAATCA
1 TGAGTTGAGCCTCGGGTC-CACGCTGAGGTAT-TTTTTTAAATTTCTATTTTTTTTCAAAAATCA
* * * *
8851267 ACTCATATTGCGAGAAGTGAGTTGAACCTCGGGTCGCACGCTGATGTATTTTTTTAAATTACTGT
64 ACTCATAATAC-AGAAGTGAGTTGAGCCTCGGGT--CACGCTGAGGTATTTTTTTAAA-T--T-T
* * *** *
8851332 TTTTTATGTTTTTTTTAAATCAACTCATATTGCGAGAAG
122 CTATT-T-TTTTTCAAAAATCAACTCATATTGCGAGAGG
*
8851371 TGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTCTTTTAAATTTC--TGTTTTTTCAAAAAATC
1 TGAGTTGAGCCTCGGGTC-CACGCTGAGGTATTT-TTTTAAATTTCTATTTTTTTTC-AAAAATC
* * *
8851434 AACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTCTTTTAAATTTTT
63 AACTCATAATAC-AGAAGTGAGTTGAGCCTCGGGT--CACGCTGAGGTATTT-TTTTAAATTTCT
* **** *
8851499 GTTTTTCAAAAAAAATCAACTCATATTGCGAGAAG
124 ATTTTTTTTCAAAAATCAACTCATATTGCGAGAGG
* * ****
8851534 TGAGTTGAGCCTCGAGTCGCATGCTGAGGTATTTCTTTTAAATTTCTATTTTTCAAAAAAAAAAT
1 TGAGTTGAGCCTCGGGTC-CACGCTGAGGTATTT-TTTTAAATTTCTATTTTT--TTTCAAAAAT
* * *
8851599 CAACTCATATTACAGAGGTGAGTTGAGCCCCGGGTCACGCTGAGGTATTTCTTTTAAATTTCTGT
62 CAACTCATAATACAGAAGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTT-TTTTAAATTTC--T
*
8851664 TTTTTTTTTCAAAAAATCAACTCATATTGCGAGAGG
124 ATTTTTTTTC-AAAAATCAACTCATATTGCGAGAGG
* ** * * *
8851700 TGAGTTGAGTCTC-GAACCATGCCGAGGTATTTCTTTTAAATTTC---TGTTTTTCAAAAATCAA
1 TGAGTTGAGCCTCGGGTCCACGCTGAGGTATTT-TTTTAAATTTCTATTTTTTTTCAAAAATCAA
*
8851761 CTCATAATGCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTA---TTTTAAATTTCTA--
65 CTCATAATAC-AGAAGTGAGTTGAGCCTCGGGT--CACGCTGAGGTATTTTTTTAAATTTCTATT
8851821 TTTTTTCAAAAATCAACTCATATTGCGAGAGG
127 TTTTTTCAAAAATCAACTCATATTGCGAGAGG
* ****
8851853 TGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTCTTTTAAATTTCTGTTTTTCAAAAAAAAATC
1 TGAGTTGAGCCTCGGGTC-CACGCTGAGGTATTT-TTTTAAATTTCTATTTTT-TTTCAAAAATC
* * *
8851918 AACTCATAATACAGAGGTGAGTTGAGCCTTGGGTCACGCTGAGGTA--TTTTT-AATTTCGGTCT
63 AACTCATAATACAGAAGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTAAATTTC--TAT
* * *
8851980 TTTTTTT-TAAAATCAACTCATAATAC-AGAGG
126 TTTTTTTCAAAAATCAACTCATATTGCGAGAGG
* * * *
8852011 TGAGTTGAGCCTCGGAT-CACACTGAGGTA-TTTTTT-AATTTATGTTTTTTTT---AAATCAAC
1 TGAGTTGAGCCTCGGGTCCACGCTGAGGTATTTTTTTAAATTTCTATTTTTTTTCAAAAATCAAC
* *
8852070 TCATAATATAGAGGTGAGTTGAGCCTCGGG
66 TCATAATACAGAAGTGAGTTGAGCCTCGGG
8852100 CGACACTCCG
Statistics
Matches: 1644, Mismatches: 131, Indels: 166
0.85 0.07 0.09
Matches are distributed among these distances:
149 36 0.02
152 6 0.00
153 123 0.07
154 67 0.04
155 177 0.11
156 61 0.04
157 23 0.01
158 87 0.05
159 116 0.07
160 100 0.06
161 76 0.05
162 91 0.06
163 326 0.20
164 95 0.06
165 44 0.03
166 76 0.05
167 8 0.00
168 60 0.04
169 72 0.04
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (158 bp):
TGAGTTGAGCCTCGGGTCCACGCTGAGGTATTTTTTTAAATTTCTATTTTTTTTCAAAAATCAAC
TCATAATACAGAAGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTAAATTTCTATTTTTT
TTCAAAAATCAACTCATATTGCGAGAGG
Found at i:8852344 original size:29 final size:29
Alignment explanation
Indices: 8852302--8852414 Score: 138
Period size: 29 Copynumber: 3.9 Consensus size: 29
8852292 AAAAAATAAA
8852302 AAATTACATTTTAACCCCTAAACTTTTTG
1 AAATTACATTTTAACCCCTAAACTTTTTG
* * *
8852331 AAATTTCATTTTAACCCCTAAA-TTTCATA
1 AAATTACATTTTAACCCCTAAACTTT-TTG
* * *
8852360 AAATTACATTTTGACCCATAAAGTTTTTG
1 AAATTACATTTTAACCCCTAAACTTTTTG
* *
8852389 AAATTACATTTTGACCACTAAACTTT
1 AAATTACATTTTAACCCCTAAACTTT
8852415 CTCAAAATTT
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
28 3 0.04
29 65 0.92
30 3 0.04
ACGTcount: A:0.36, C:0.19, G:0.04, T:0.41
Consensus pattern (29 bp):
AAATTACATTTTAACCCCTAAACTTTTTG
Found at i:8852364 original size:58 final size:59
Alignment explanation
Indices: 8852301--8852423 Score: 169
Period size: 58 Copynumber: 2.1 Consensus size: 59
8852291 CAAAAAATAA
* * *
8852301 AAAATTACATTTTAACCCCTAAACTTTTTGAAATTTCATTTTAACCCCTAAA-TTTCAT-
1 AAAATTACATTTTAACCCATAAACTTTTTGAAATTACATTTTAACCACTAAACTTTC-TC
* * *
8852359 AAAATTACATTTTGACCCATAAAGTTTTTGAAATTACATTTTGACCACTAAACTTTCTC
1 AAAATTACATTTTAACCCATAAACTTTTTGAAATTACATTTTAACCACTAAACTTTCTC
8852418 AAAATT
1 AAAATT
8852424 TTGTTTCGGC
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
58 47 0.82
59 10 0.18
ACGTcount: A:0.37, C:0.19, G:0.04, T:0.40
Consensus pattern (59 bp):
AAAATTACATTTTAACCCATAAACTTTTTGAAATTACATTTTAACCACTAAACTTTCTC
Found at i:8852766 original size:3 final size:3
Alignment explanation
Indices: 8852758--8852836 Score: 76
Period size: 3 Copynumber: 26.7 Consensus size: 3
8852748 CCAATGCGTA
8852758 AAG AAG AAG AAG AAG AAG AAG AAGG AAG AAG AAAG AAG AAGG AAG AA-
1 AAG AAG AAG AAG AAG AAG AAG AA-G AAG AAG -AAG AAG AA-G AAG AAG
* * *
8852805 AA- AAG AAA AAG -AG AA- AAG AAA AAG AAA AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
8852837 AAATAATAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 12
0.78 0.07 0.15
Matches are distributed among these distances:
2 8 0.12
3 47 0.73
4 9 0.14
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:8852839 original size:7 final size:7
Alignment explanation
Indices: 8852786--8852839 Score: 51
Period size: 7 Copynumber: 8.1 Consensus size: 7
8852776 AAGAAGGAAG
*
8852786 AAGAAAG
1 AAGAAAA
**
8852793 AAGAAGG
1 AAGAAAA
8852800 AAGAAAA
1 AAGAAAA
8852807 AAG-AAA
1 AAGAAAA
*
8852813 AAGAGAA
1 AAGAAAA
8852820 AAG-AAA
1 AAGAAAA
8852826 AAG-AAA
1 AAGAAAA
8852832 AAGAAAA
1 AAGAAAA
8852839 A
1 A
8852840 TAATAAAGCA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
6 17 0.43
7 23 0.57
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (7 bp):
AAGAAAA
Found at i:8852847 original size:19 final size:19
Alignment explanation
Indices: 8852783--8852839 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
8852773 AAGAAGAAGG
*
8852783 AAGAAGAAAGAAGAAG-GAA
1 AAGAA-AAAGAAAAAGAGAA
*
8852802 GA-AAAAAGAAAAAGAGAA
1 AAGAAAAAGAAAAAGAGAA
8852820 AAGAAAAAGAAAAAGA-AA
1 AAGAAAAAGAAAAAGAGAA
8852838 AA
1 AA
8852840 TAATAAAGCA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
17 9 0.27
18 10 0.30
19 14 0.42
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (19 bp):
AAGAAAAAGAAAAAGAGAA
Found at i:8852981 original size:14 final size:15
Alignment explanation
Indices: 8852944--8852992 Score: 52
Period size: 13 Copynumber: 3.5 Consensus size: 15
8852934 AAAGCAGCCC
8852944 AAAAAAATAA--AGA
1 AAAAAAATAAGCAGA
*
8852957 AAAAACA-AAGCA-A
1 AAAAAAATAAGCAGA
8852970 AAAAAAATAAGCAGCA
1 AAAAAAATAAGCAG-A
8852986 AAAAAAA
1 AAAAAAA
8852993 AGGGGGCAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
12 2 0.07
13 13 0.45
14 6 0.21
16 8 0.28
ACGTcount: A:0.80, C:0.08, G:0.08, T:0.04
Consensus pattern (15 bp):
AAAAAAATAAGCAGA
Found at i:8853125 original size:11 final size:11
Alignment explanation
Indices: 8853109--8853175 Score: 65
Period size: 11 Copynumber: 6.6 Consensus size: 11
8853099 GCAGCCCAGC
8853109 AGAAAAAGAAA
1 AGAAAAAGAAA
*
8853120 AGAAAAA-AGA
1 AGAAAAAGAAA
8853130 A-AAAAAG--A
1 AGAAAAAGAAA
*
8853138 A-AAAAAGAAG
1 AGAAAAAGAAA
*
8853148 A-AAAAAGAAG
1 AGAAAAAGAAA
8853158 AGAAAAAGAAA
1 AGAAAAAGAAA
8853169 AGAAAAA
1 AGAAAAA
8853176 TTCAATTTGT
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
8 8 0.16
9 5 0.10
10 14 0.29
11 22 0.45
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (11 bp):
AGAAAAAGAAA
Found at i:8853135 original size:8 final size:8
Alignment explanation
Indices: 8853117--8853175 Score: 59
Period size: 8 Copynumber: 7.2 Consensus size: 8
8853107 GCAGAAAAAG
8853117 AAAAG-AA
1 AAAAGAAA
8853124 AAAAGAAA
1 AAAAGAAA
8853132 AAAAGAAA
1 AAAAGAAA
8853140 AAAAGAAGAA
1 AAAAG-A-AA
8853150 AAAAGAAGA
1 AAAAGAA-A
* *
8853159 GAAA-AAG
1 AAAAGAAA
8853166 AAAAGAAA
1 AAAAGAAA
8853174 AA
1 AA
8853176 TTCAATTTGT
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
7 8 0.19
8 22 0.51
9 6 0.14
10 7 0.16
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (8 bp):
AAAAGAAA
Found at i:8853169 original size:26 final size:24
Alignment explanation
Indices: 8853109--8853175 Score: 84
Period size: 23 Copynumber: 2.8 Consensus size: 24
8853099 GCAGCCCAGC
8853109 AGAAAAAGAAAAGAAAAAAGAAAAAA
1 AGAAAAAGAAAAGAAAAAAG--AAAA
*
8853135 AGAAAAA-AAGAAGAAAAAAG-AAG
1 AGAAAAAGAA-AAGAAAAAAGAAAA
8853158 AGAAAAAGAAAAGAAAAA
1 AGAAAAAGAAAAGAAAAA
8853176 TTCAATTTGT
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
23 17 0.45
24 2 0.05
25 2 0.05
26 17 0.45
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (24 bp):
AGAAAAAGAAAAGAAAAAAGAAAA
Found at i:8853556 original size:21 final size:21
Alignment explanation
Indices: 8853530--8853572 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
8853520 TCGGGTTTCG
*
8853530 AAATTTTTCGTGTCTT-CAAAA
1 AAATTTCTCGTGT-TTGCAAAA
8853551 AAATTTCTCGTGTTTGCAAAA
1 AAATTTCTCGTGTTTGCAAAA
8853572 A
1 A
8853573 TAAAGTAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.40
Consensus pattern (21 bp):
AAATTTCTCGTGTTTGCAAAA
Found at i:8853755 original size:17 final size:17
Alignment explanation
Indices: 8853727--8853834 Score: 78
Period size: 17 Copynumber: 6.2 Consensus size: 17
8853717 TTTTTCATGT
8853727 TTTCAGAAAATTCTCGTG
1 TTTCA-AAAATTCTCGTG
8853745 TTTCAAAAATTCTCGTG
1 TTTCAAAAATTCTCGTG
* * *
8853762 TTTTATAAATTTTCGT-
1 TTTCAAAAATTCTCGTG
* *
8853778 TTTTAGACAAAAT-T-GTG
1 TTTCA-A-AAATTCTCGTG
*
8853795 TTTCCAAAATTCTCGTG
1 TTTCAAAAATTCTCGTG
*
8853812 TTTTAAAAAAAATTCTCGTG
1 -TTT--CAAAAATTCTCGTG
8853832 TTT
1 TTT
8853835 TAATCGGATC
Statistics
Matches: 72, Mismatches: 10, Indels: 15
0.74 0.10 0.15
Matches are distributed among these distances:
15 4 0.06
16 9 0.12
17 32 0.44
18 12 0.17
19 3 0.04
20 12 0.17
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.45
Consensus pattern (17 bp):
TTTCAAAAATTCTCGTG
Found at i:8853764 original size:36 final size:35
Alignment explanation
Indices: 8853686--8853765 Score: 90
Period size: 36 Copynumber: 2.3 Consensus size: 35
8853676 AGAAAATTTT
* *
8853686 TCGTGTTTTCAAAAAATTCCAATTTTCAAAATTTT
1 TCGTGTTTTCAAAAAATTCCAATTTTCAAAAATTC
* * *
8853721 TCATGTTTTCAGAAAATTCTC-GTGTTTCAAAAATTC
1 TCGTGTTTTCAAAAAATTC-CAAT-TTTCAAAAATTC
8853757 TCGTGTTTT
1 TCGTGTTTT
8853766 ATAAATTTTC
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
35 18 0.49
36 19 0.51
ACGTcount: A:0.29, C:0.15, G:0.10, T:0.46
Consensus pattern (35 bp):
TCGTGTTTTCAAAAAATTCCAATTTTCAAAAATTC
Found at i:8853825 original size:20 final size:20
Alignment explanation
Indices: 8853800--8853837 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
8853790 TTGTGTTTCC
8853800 AAAATTCTCGTGTTTTAAAA
1 AAAATTCTCGTGTTTTAAAA
8853820 AAAATTCTCGTGTTTTAA
1 AAAATTCTCGTGTTTTAA
8853838 TCGGATCACG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.42
Consensus pattern (20 bp):
AAAATTCTCGTGTTTTAAAA
Found at i:8864353 original size:19 final size:20
Alignment explanation
Indices: 8864329--8864367 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
8864319 AAAGGGTGAG
8864329 AAAT-AAAAGTTTAGGGGAA
1 AAATAAAAAGTTTAGGGGAA
*
8864348 AAATAAAAAGTTTTGGGGAA
1 AAATAAAAAGTTTAGGGGAA
8864368 TAAAAGTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.51, C:0.00, G:0.26, T:0.23
Consensus pattern (20 bp):
AAATAAAAAGTTTAGGGGAA
Found at i:8870182 original size:17 final size:15
Alignment explanation
Indices: 8870158--8870200 Score: 59
Period size: 17 Copynumber: 2.7 Consensus size: 15
8870148 GTGTATATAT
*
8870158 AAAAACAAATGTTTG
1 AAAAACAAATGTTTC
8870173 AATGAAACAAATGTTTC
1 AA--AAACAAATGTTTC
8870190 AAAAACAAATG
1 AAAAACAAATG
8870201 CCATGCCATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 11 0.44
17 14 0.56
ACGTcount: A:0.56, C:0.09, G:0.12, T:0.23
Consensus pattern (15 bp):
AAAAACAAATGTTTC
Found at i:8871578 original size:27 final size:27
Alignment explanation
Indices: 8871540--8871597 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
8871530 TAAAGCATTG
* *
8871540 AAGGTCAGATGCTATTGTATTGGTGTT
1 AAGGTCAAATGCTACTGTATTGGTGTT
8871567 AAGGTCAAATGCTACTGTATTGGTGTT
1 AAGGTCAAATGCTACTGTATTGGTGTT
8871594 AAGG
1 AAGG
8871598 CTGCAATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.26, C:0.09, G:0.29, T:0.36
Consensus pattern (27 bp):
AAGGTCAAATGCTACTGTATTGGTGTT
Found at i:8871871 original size:13 final size:13
Alignment explanation
Indices: 8871853--8871878 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8871843 CCAGAAACTG
8871853 ATTTGCAGAAAAC
1 ATTTGCAGAAAAC
8871866 ATTTGCAGAAAAC
1 ATTTGCAGAAAAC
8871879 TCCCATTTGT
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:0.46, C:0.15, G:0.15, T:0.23
Consensus pattern (13 bp):
ATTTGCAGAAAAC
Found at i:8872054 original size:14 final size:14
Alignment explanation
Indices: 8872035--8872064 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
8872025 AACAAAACTA
8872035 GCAGAGAAGATGAG
1 GCAGAGAAGATGAG
*
8872049 GCAGAGATGATGAG
1 GCAGAGAAGATGAG
8872063 GC
1 GC
8872065 TGCAATCAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.10, G:0.43, T:0.10
Consensus pattern (14 bp):
GCAGAGAAGATGAG
Found at i:8872122 original size:24 final size:24
Alignment explanation
Indices: 8872087--8872132 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
8872077 GGTGACGAGA
*
8872087 GTGAAGAGAGGAGCTGTGGAAAGG
1 GTGAAGAAAGGAGCTGTGGAAAGG
8872111 GTGAAGAAAGGAGCTGTGGAAA
1 GTGAAGAAAGGAGCTGTGGAAA
8872133 TGGTTTCAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.37, C:0.04, G:0.46, T:0.13
Consensus pattern (24 bp):
GTGAAGAAAGGAGCTGTGGAAAGG
Found at i:8873055 original size:45 final size:44
Alignment explanation
Indices: 8872991--8873083 Score: 116
Period size: 44 Copynumber: 2.1 Consensus size: 44
8872981 ATAGAGGTAT
** * *
8872991 AATGGAATAGATGTGTAATAGTAATTCAAT-TGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAGT-ATTC-ATGTGTTTGGTAGAATGA
*
8873036 AATGGAATAGAACTGTAATAGTATTCTTGTGTTTGGTAGAATGA
1 AATGGAATAGAACTGTAATAGTATTCATGTGTTTGGTAGAATGA
8873080 AATG
1 AATG
8873084 ATGTTGTAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
43 1 0.02
44 21 0.50
45 20 0.48
ACGTcount: A:0.34, C:0.03, G:0.26, T:0.37
Consensus pattern (44 bp):
AATGGAATAGAACTGTAATAGTATTCATGTGTTTGGTAGAATGA
Found at i:8873292 original size:29 final size:29
Alignment explanation
Indices: 8873260--8873369 Score: 87
Period size: 29 Copynumber: 3.6 Consensus size: 29
8873250 TAATAAAAAT
8873260 ATATAATTTAATAAAATTCTTAATATTAA
1 ATATAATTTAATAAAATTCTTAATATTAA
* *
8873289 ATATTAATTTATTAAAA-TCATAATATATAA
1 ATA-TAATTTAATAAAATTCTTAATAT-TAA
* ** *
8873319 TACTATAAAATATAATTTAAAATAATTATTATTAA
1 -A-TAT--AATTTAA--TAAAATTCTTAATATTAA
8873354 ATATAATTTAATAAAA
1 ATATAATTTAATAAAA
8873370 ATATATAACT
Statistics
Matches: 63, Mismatches: 9, Indels: 18
0.70 0.10 0.20
Matches are distributed among these distances:
29 16 0.25
30 15 0.24
31 8 0.13
32 2 0.03
33 8 0.13
34 1 0.02
35 8 0.13
36 5 0.08
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.43
Consensus pattern (29 bp):
ATATAATTTAATAAAATTCTTAATATTAA
Found at i:8873346 original size:112 final size:116
Alignment explanation
Indices: 8873222--8873461 Score: 380
Period size: 112 Copynumber: 2.1 Consensus size: 116
8873212 TTAATCATAT
* *
8873222 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTC-T-TAA-T
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAACTTAATAAAATTCATATAATT
* *
8873284 ATT-AAATATTAATTTATTAAAATCATAATATATAATACTATAAAATATAA
66 ATTCAAATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
8873334 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAACTTAATAAAATTCAATATAAT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAACTTAATAAAATTC-ATATAAT
**
8873399 TATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
65 TATTCAAATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
*
8873451 ATTAAAATAAT
1 TTTAAAATAAT
8873462 CTACTTTATT
Statistics
Matches: 116, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
112 55 0.47
114 1 0.01
115 3 0.03
116 4 0.03
117 53 0.46
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (116 bp):
TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAACTTAATAAAATTCATATAATT
ATTCAAATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:8873382 original size:29 final size:28
Alignment explanation
Indices: 8873237--8873382 Score: 97
Period size: 30 Copynumber: 5.2 Consensus size: 28
8873227 CATAATTATT
8873237 ATTAAATATAATTTAATAAAAATATATA
1 ATTAAATATAATTTAATAAAAATATATA
* * *
8873265 ATTTAATAAAATTCTTAATATTAAATAT-TA
1 ATTAAATATAA-T-TTAATA-AAAATATATA
* * * * *
8873295 ATTTATTAAAATCATAATATATAATACTAT-
1 ATTAAATATAAT-TTAATA-AAAATA-TATA
* *
8873325 A--AAATATAATTTAA-AATAAT-TATT
1 ATTAAATATAATTTAATAAAAATATATA
8873349 ATTAAATATAATTTAATAAAAATATATA
1 ATTAAATATAATTTAATAAAAATATATA
8873377 ACTTAA
1 A-TTAA
8873383 TAAAATTCAA
Statistics
Matches: 94, Mismatches: 13, Indels: 21
0.73 0.10 0.16
Matches are distributed among these distances:
23 3 0.03
24 1 0.01
25 5 0.05
26 14 0.15
27 8 0.09
28 19 0.20
29 17 0.18
30 20 0.21
31 7 0.07
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (28 bp):
ATTAAATATAATTTAATAAAAATATATA
Found at i:8875980 original size:12 final size:12
Alignment explanation
Indices: 8875965--8875998 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
8875955 ACTTAACAGA
8875965 AACCAAAACATG
1 AACCAAAACATG
8875977 AACCAAAACATG
1 AACCAAAACATG
8875989 AACCAAAACA
1 AACCAAAACA
8875999 ATAGAGATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.62, C:0.26, G:0.06, T:0.06
Consensus pattern (12 bp):
AACCAAAACATG
Found at i:8876478 original size:20 final size:20
Alignment explanation
Indices: 8876437--8876496 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
8876427 AAACAGGAAA
* *
8876437 AAATTTGGAAGAAGAAGCAG
1 AAATCTGGAAGAAGAAGAAG
8876457 AAATCTGGAGAGAAGAA-AAG
1 AAATCTGGA-AGAAGAAGAAG
*
8876477 AAATGTGAGAAGAA-AAGAAG
1 AAATCTG-GAAGAAGAAGAAG
8876497 CGTACCGTAC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
19 2 0.06
20 23 0.68
21 9 0.26
ACGTcount: A:0.55, C:0.03, G:0.30, T:0.12
Consensus pattern (20 bp):
AAATCTGGAAGAAGAAGAAG
Found at i:8879367 original size:39 final size:40
Alignment explanation
Indices: 8879322--8879546 Score: 215
Period size: 40 Copynumber: 5.7 Consensus size: 40
8879312 GCTCCTCGTT
* * * * *
8879322 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
*
8879362 C-AATGCCTTCGGGACTTAACCCGGATTTAATGACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
* *
8879401 CGAATGCCTTCGGGACTTAACCCGGATTTAATATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
* * * * *
8879441 CAAAGGCCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAATAACTCGCA
** * * * *
8879481 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCA
*
8879522 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
8879547 CAGCATTCAA
Statistics
Matches: 155, Mismatches: 24, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
39 37 0.24
40 104 0.67
41 14 0.09
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
Found at i:8879555 original size:41 final size:41
Alignment explanation
Indices: 8879478--8879555 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
8879468 CTTGTATCTC
* * *
8879478 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
8879519 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
8879556 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:8881461 original size:17 final size:17
Alignment explanation
Indices: 8881441--8881496 Score: 67
Period size: 17 Copynumber: 3.3 Consensus size: 17
8881431 TCGCACATTG
*
8881441 ACACAAATCGCATATAA
1 ACACAACTCGCATATAA
* * *
8881458 ACACAACTCACAAATAG
1 ACACAACTCGCATATAA
*
8881475 ACACAGCTCGCATATAA
1 ACACAACTCGCATATAA
8881492 ACACA
1 ACACA
8881497 TATATGTATA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.50, C:0.29, G:0.07, T:0.14
Consensus pattern (17 bp):
ACACAACTCGCATATAA
Found at i:8883411 original size:25 final size:25
Alignment explanation
Indices: 8883383--8883430 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
8883373 AAAATGGTAA
* *
8883383 GCTCCTCCGAGCTGAATAATGGGGT
1 GCTCATCCGAGCTAAATAATGGGGT
**
8883408 GCTCATGTGAGCTAAATAATGGG
1 GCTCATCCGAGCTAAATAATGGG
8883431 AAGCTTATGC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (25 bp):
GCTCATCCGAGCTAAATAATGGGGT
Found at i:8895397 original size:26 final size:26
Alignment explanation
Indices: 8895361--8895419 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
8895351 CTTGTAAGTG
8895361 TTCTGAAACTGATACATGCTATGATA
1 TTCTGAAACTGATACATGCTATGATA
* **
8895387 TTCTGAAACTGATATATTTTATGATA
1 TTCTGAAACTGATACATGCTATGATA
*
8895413 TTTTGAA
1 TTCTGAA
8895420 TTTACTATAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.42
Consensus pattern (26 bp):
TTCTGAAACTGATACATGCTATGATA
Found at i:8899707 original size:17 final size:17
Alignment explanation
Indices: 8899685--8899718 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
8899675 GTTTTTTCCC
*
8899685 TTTTTGTTCCCTTTTGG
1 TTTTTGTTCCCCTTTGG
8899702 TTTTTGTTCCCCTTTGG
1 TTTTTGTTCCCCTTTGG
8899719 CCGAGTCTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.00, C:0.21, G:0.18, T:0.62
Consensus pattern (17 bp):
TTTTTGTTCCCCTTTGG
Found at i:8904467 original size:16 final size:16
Alignment explanation
Indices: 8904446--8904477 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
8904436 TATTATCATT
8904446 TTTATAATTTTTTCCA
1 TTTATAATTTTTTCCA
8904462 TTTATAATTTTTTCCA
1 TTTATAATTTTTTCCA
8904478 AAATAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.12, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTATAATTTTTTCCA
Found at i:8905432 original size:15 final size:14
Alignment explanation
Indices: 8905410--8905450 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 14
8905400 ATGAAAATAC
8905410 AAAAATTAAATTAT
1 AAAAATTAAATTAT
* *
8905424 ATTAAATTAAAATAT
1 A-AAAATTAAATTAT
8905439 AAAAATTAAATT
1 AAAAATTAAATT
8905451 TTATAGTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AAAAATTAAATTAT
Found at i:8925828 original size:16 final size:16
Alignment explanation
Indices: 8925807--8925838 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
8925797 TATTATCATT
8925807 TTTATAATTTTTTCCA
1 TTTATAATTTTTTCCA
8925823 TTTATAATTTTTTCCA
1 TTTATAATTTTTTCCA
8925839 AAATAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.12, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTATAATTTTTTCCA
Found at i:8926803 original size:15 final size:14
Alignment explanation
Indices: 8926781--8926821 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 14
8926771 ATGAAAATAC
8926781 AAAAATTAAATTAT
1 AAAAATTAAATTAT
* *
8926795 ATTAAATTAAAATAT
1 A-AAAATTAAATTAT
8926810 AAAAATTAAATT
1 AAAAATTAAATT
8926822 TTATAGTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AAAAATTAAATTAT
Found at i:8926929 original size:21 final size:19
Alignment explanation
Indices: 8926895--8926934 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
8926885 CATTTGATAT
8926895 AAAAAAATTAGTATATTAAA
1 AAAAAAATTAGTAT-TTAAA
*
8926915 AAAAAATATTTGTATTTAAA
1 AAAAAA-ATTAGTATTTAAA
8926935 TTGATTGGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (19 bp):
AAAAAAATTAGTATTTAAA
Found at i:8934675 original size:26 final size:26
Alignment explanation
Indices: 8934639--8934700 Score: 88
Period size: 26 Copynumber: 2.4 Consensus size: 26
8934629 CCTGTAAGTG
8934639 TTCTAAAACTGATACATGGTATGATA
1 TTCTAAAACTGATACATGGTATGATA
* * *
8934665 TTCTAGAACTGATATATGTTATGATA
1 TTCTAAAACTGATACATGGTATGATA
*
8934691 TTCTGAAACT
1 TTCTAAAACT
8934701 ACTATAGGTA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (26 bp):
TTCTAAAACTGATACATGGTATGATA
Found at i:8937160 original size:27 final size:27
Alignment explanation
Indices: 8937122--8937175 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
8937112 GCTAAGTTCA
8937122 GCAGGTGCGAGTTCTGGTTACGTGAAG
1 GCAGGTGCGAGTTCTGGTTACGTGAAG
8937149 GCAGGTGCGAGTTCTGGTTACGTGAAG
1 GCAGGTGCGAGTTCTGGTTACGTGAAG
8937176 TAACATTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.19, C:0.15, G:0.41, T:0.26
Consensus pattern (27 bp):
GCAGGTGCGAGTTCTGGTTACGTGAAG
Found at i:8939650 original size:17 final size:17
Alignment explanation
Indices: 8939618--8939651 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8939608 GTTTTCTCCC
*
8939618 TTTTTGTTCACTTTTGG
1 TTTTTGTTCACCTTTGG
*
8939635 TTTTTGTTCTCCTTTGG
1 TTTTTGTTCACCTTTGG
8939652 CCCAATCTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.03, C:0.15, G:0.18, T:0.65
Consensus pattern (17 bp):
TTTTTGTTCACCTTTGG
Found at i:8946627 original size:15 final size:14
Alignment explanation
Indices: 8946605--8946645 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 14
8946595 TAAAAAATAC
8946605 AAAAATTAAATTAT
1 AAAAATTAAATTAT
* *
8946619 ATTAAATTAAAATAT
1 A-AAAATTAAATTAT
8946634 AAAAATTAAATT
1 AAAAATTAAATT
8946646 TTATAGTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AAAAATTAAATTAT
Found at i:8946650 original size:31 final size:29
Alignment explanation
Indices: 8946598--8946655 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 29
8946588 TTTAAACTAA
*
8946598 AAAATACAAAAATTAAATTATATTAAATT
1 AAAATACAAAAATTAAATTATAGTAAATT
*
8946627 AAAATATAAAAATTAAATTTTATAGTAAA
1 AAAATACAAAAATTAAA--TTATAGTAAA
8946656 AAATCATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 16 0.64
31 9 0.36
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (29 bp):
AAAATACAAAAATTAAATTATAGTAAATT
Found at i:8966938 original size:26 final size:24
Alignment explanation
Indices: 8966890--8966940 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 24
8966880 TTTAAAATAC
* *
8966890 TTTTAAAATATTTTTATTTTTTAT
1 TTTTAAAATATTTTTAATGTTTAT
8966914 TTTTAAAATAATTTTTTAATGTTTAT
1 TTTTAAAAT-A-TTTTTAATGTTTAT
8966940 T
1 T
8966941 AAAAAATGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 9 0.39
25 1 0.04
26 13 0.57
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (24 bp):
TTTTAAAATATTTTTAATGTTTAT
Found at i:8969066 original size:17 final size:17
Alignment explanation
Indices: 8969034--8969067 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8969024 GTTTTCTCCC
*
8969034 TTTTTGTTCACTTTTGG
1 TTTTTGTTCACCTTTGG
*
8969051 TTTTTGTTCCCCTTTGG
1 TTTTTGTTCACCTTTGG
8969068 CCGAATCTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.03, C:0.18, G:0.18, T:0.62
Consensus pattern (17 bp):
TTTTTGTTCACCTTTGG
Found at i:8971098 original size:18 final size:17
Alignment explanation
Indices: 8971072--8971107 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
8971062 AAATTTTGGG
*
8971072 TTTTATTTATTTATTTA
1 TTTTATTTATTGATTTA
8971089 TTTTACTTTATTGATTTA
1 TTTTA-TTTATTGATTTA
8971107 T
1 T
8971108 ACCTGCTGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.72
Consensus pattern (17 bp):
TTTTATTTATTGATTTA
Found at i:8975591 original size:85 final size:86
Alignment explanation
Indices: 8975430--8975593 Score: 199
Period size: 86 Copynumber: 1.9 Consensus size: 86
8975420 ATATGAGTTA
* * * ** *
8975430 TCGTGTAAGACCAAGTCTGGGACATTGGCGTCGATTTGAGATTTACGTGTAAGACCATGTCTGGT
1 TCGTGTAAGACCAAGTCTGGGACAGTGGCATCGATTTGAGATTTACATGTAAGACCACATCTGGG
8975495 ACTTCGGCATTGTATACAATT
66 ACTTCGGCATTGTATACAATT
** *
8975516 TCGTGTAAGACCTTGTCTGGGACAGTGGCATCGATATT-TG-TTTACATGTAAGACCACATCTGG
1 TCGTGTAAGACCAAGTCTGGGACAGTGGCATCGAT-TTGAGATTTACATGTAAGACCACATCTGG
*
8975579 GA-TGTTGGCATTGTA
65 GACT-TCGGCATTGTA
8975594 AGAGCTTCCA
Statistics
Matches: 66, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
84 1 0.02
85 31 0.47
86 32 0.48
87 2 0.03
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (86 bp):
TCGTGTAAGACCAAGTCTGGGACAGTGGCATCGATTTGAGATTTACATGTAAGACCACATCTGGG
ACTTCGGCATTGTATACAATT
Found at i:8978770 original size:15 final size:15
Alignment explanation
Indices: 8978750--8978781 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
8978740 CATTTCACTA
*
8978750 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
8978765 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
8978780 TT
1 TT
8978782 TGCAGGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:8981052 original size:13 final size:13
Alignment explanation
Indices: 8981034--8981060 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8981024 ATTTCTCGTC
8981034 TTTTTGAATGATT
1 TTTTTGAATGATT
8981047 TTTTTGAATGATT
1 TTTTTGAATGATT
8981060 T
1 T
8981061 GATTACATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.00, G:0.15, T:0.63
Consensus pattern (13 bp):
TTTTTGAATGATT
Found at i:8994506 original size:17 final size:18
Alignment explanation
Indices: 8994480--8994513 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
8994470 ACCAAAGAGT
8994480 AATATAATTT-TTTTTAA
1 AATATAATTTATTTTTAA
*
8994497 AATATTATTTATTTTTA
1 AATATAATTTATTTTTA
8994514 CTGTTAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
AATATAATTTATTTTTAA
Found at i:8997555 original size:24 final size:21
Alignment explanation
Indices: 8997501--8997557 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 21
8997491 TATTAAATTA
8997501 AATTTCACATTTTATATTATT
1 AATTTCACATTTTATATTATT
*
8997522 --TTT-AAATTTTATATTAGTAT
1 AATTTCACATTTTATATTA-T-T
8997542 CAATTTCACATTTTAT
1 -AATTTCACATTTTAT
8997558 TTTTAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 9
0.72 0.05 0.23
Matches are distributed among these distances:
18 12 0.43
19 4 0.14
20 1 0.04
23 3 0.11
24 8 0.29
ACGTcount: A:0.33, C:0.09, G:0.02, T:0.56
Consensus pattern (21 bp):
AATTTCACATTTTATATTATT
Found at i:9000894 original size:59 final size:59
Alignment explanation
Indices: 9000829--9000946 Score: 182
Period size: 59 Copynumber: 2.0 Consensus size: 59
9000819 GTTTTGCAGA
** * *
9000829 TTAATGCTTAGTATGTTGTAATGGAATTTACAACACTTAGCTTGCTCATAGGTAAGCAT
1 TTAATGCTTAGTATGTTCAAATGAAATTTACAACACTTACCTTGCTCATAGGTAAGCAT
* *
9000888 TTAATGCTTTGTATGTTCAAATGAAATTTACAACACTTACCTTGCTCATAGGTGAGCAT
1 TTAATGCTTAGTATGTTCAAATGAAATTTACAACACTTACCTTGCTCATAGGTAAGCAT
9000947 GTTACTACCA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
59 53 1.00
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (59 bp):
TTAATGCTTAGTATGTTCAAATGAAATTTACAACACTTACCTTGCTCATAGGTAAGCAT
Done.