Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11
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: 47972186
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2603476 characters in sequence are not A, C, G, or T
File 72 of 145
Found at i:24472342 original size:135 final size:138
Alignment explanation
Indices: 24472100--24472389 Score: 523
Period size: 135 Copynumber: 2.1 Consensus size: 138
24472090 ATGATGTAGC
*
24472100 TTAGATGCATACTTTGAAGTTTGAACTCTTTAAATGCTTACTTTTATAATAGAATTTTAAATTAA
1 TTAGATGCATACTTTGAAGTTTGAACTCTTTAAATGCTTACTTTTATAAAAGAATTTTAAATTAA
24472165 TAACTCTTTAAACTTCTAATTAACTTGCTGTTATATTAACC-AA-AAAAAA-AAAACTACTCATC
66 TAACTCTTTAAACTTCTAATTAACTTGCTGTTATATTAACCAAAGAAAAAAGAAAACTACTCATC
24472227 CACTTAGA
131 CACTTAGA
24472235 TTAGATGCATACTTTGAAGTTTGAACTCTTTAAATGCTTACTTTTATAAAAGAATTTTAAATTAA
1 TTAGATGCATACTTTGAAGTTTGAACTCTTTAAATGCTTACTTTTATAAAAGAATTTTAAATTAA
24472300 TAACTCTTTAAACTTCTAATTAACTTGCTGTTATATTAACCAAAAAGAAAAAAGAAAACTACTCA
66 TAACTCTTTAAACTTCTAATTAACTTGCTGTTATATTAACC--AAAGAAAAAAGAAAACTACTCA
24472365 TCCACTTAGA
129 TCCACTTAGA
*
24472375 TTGGATGCATACTTT
1 TTAGATGCATACTTT
24472390 TATAATATAT
Statistics
Matches: 148, Mismatches: 2, Indels: 5
0.95 0.01 0.03
Matches are distributed among these distances:
135 105 0.71
138 2 0.01
139 6 0.04
140 35 0.24
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.38
Consensus pattern (138 bp):
TTAGATGCATACTTTGAAGTTTGAACTCTTTAAATGCTTACTTTTATAAAAGAATTTTAAATTAA
TAACTCTTTAAACTTCTAATTAACTTGCTGTTATATTAACCAAAGAAAAAAGAAAACTACTCATC
CACTTAGA
Found at i:24472658 original size:251 final size:249
Alignment explanation
Indices: 24472264--24472720 Score: 738
Period size: 251 Copynumber: 1.8 Consensus size: 249
24472254 TTTGAACTCT
* *
24472264 TTAAATGCTTACTTTTATAAAAGAATTTTAAATTAATAACTCTTTAAACTTCTAATTAACTTGCT
1 TTAAATGCATACTTTTATAAAAGAATTTTAAATTAATAACTCTTTAAACTACTAATTAACTTGCT
* *
24472329 GTTATATTAACCAAAAAGAAAAAAGAAAACTACTCATCCACTTAGATTGGATGCATACTTTTATA
66 GTTATAGTAACC------AAAAAAGAAAACTACTCATCCACTTAGATTAGATGCATACTTTTATA
24472394 ATATATAGAATTTTAATTTAGTAACTGTTTAAACTACTAAATACTAATTAACTTGCTGTTATATC
125 ATATATAGAATTTTAATTTAGTAACTGTTTAAACTACTAAATACTAATTAACTTGCTGTTATATC
24472459 AACAAAAAAAAAACACTTTGAACTCTTTAACTAAAAAAAAAAACTACTCATCCACTTAGA
190 AACAAAAAAAAAACACTTTGAACTCTTTAACTAAAAAAAAAAACTACTCATCCACTTAGA
* * *
24472519 TTAAATGCATACTTTTATAATATATAGAATTTTAATTTAGTAACTCTTTAAACTACTAATTAATT
1 TTAAATGCATACTTTTAT-A-A-A-AGAATTTTAAATTAATAACTCTTTAAACTACTAATTAACT
24472584 TGCTGTTATAGTAACC-AAAAA-AAAACTACTCATCCACTTAGATTAGATGCATACTTTTATAAT
62 TGCTGTTATAGTAACCAAAAAAGAAAACTACTCATCCACTTAGATTAGATGCATACTTTTATAAT
*
24472647 ATATAGAATTTTAATTTAGTAACTGTTTAAACTACTAAATACTAATTAACTTGCTGTTATATTAA
127 ATATAGAATTTTAATTTAGTAACTGTTTAAACTACTAAATACTAATTAACTTGCTGTTATATCAA
24472712 CAAAAAAAA
192 CAAAAAAAA
24472721 CACTACTCAT
Statistics
Matches: 190, Mismatches: 8, Indels: 12
0.90 0.04 0.06
Matches are distributed among these distances:
251 114 0.60
252 5 0.03
255 17 0.09
256 1 0.01
257 1 0.01
258 1 0.01
259 51 0.27
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (249 bp):
TTAAATGCATACTTTTATAAAAGAATTTTAAATTAATAACTCTTTAAACTACTAATTAACTTGCT
GTTATAGTAACCAAAAAAGAAAACTACTCATCCACTTAGATTAGATGCATACTTTTATAATATAT
AGAATTTTAATTTAGTAACTGTTTAAACTACTAAATACTAATTAACTTGCTGTTATATCAACAAA
AAAAAAACACTTTGAACTCTTTAACTAAAAAAAAAAACTACTCATCCACTTAGA
Found at i:24472664 original size:107 final size:110
Alignment explanation
Indices: 24472493--24472733 Score: 382
Period size: 107 Copynumber: 2.2 Consensus size: 110
24472483 CTTTAACTAA
24472493 AAAAAAAAACTACTCATCCACTTAGATTAAATGCATACTTTTATAATATATAGAATTTTAATTTA
1 AAAAAAAAACTACTCATCCACTTAGATTAAATGCATACTTTTATAATATATAGAATTTTAATTTA
24472558 GTAACTCTTTAAACTACT-AAT-TAA-T-TTGCTGTTATAGTAACC
66 GTAACTCTTTAAACTACTAAATATAATTATTGCTGTTATAGTAA-C
*
24472600 AAAAAAAAACTACTCATCCACTTAGATTAGATGCATACTTTTATAATATATAGAATTTTAATTTA
1 AAAAAAAAACTACTCATCCACTTAGATTAAATGCATACTTTTATAATATATAGAATTTTAATTTA
* *
24472665 GTAACTGTTTAAACTACTAAATACTAATTAACTTGCTGTTATATTAAC
66 GTAACTCTTTAAACTACTAAATA-TAATT-A-TTGCTGTTATAGTAAC
24472713 AAAAAAAACACTACTCATCCA
1 AAAAAAAA-ACTACTCATCCA
24472734 TATAATTTGT
Statistics
Matches: 123, Mismatches: 3, Indels: 9
0.91 0.02 0.07
Matches are distributed among these distances:
107 81 0.66
108 3 0.02
110 3 0.02
111 1 0.01
113 9 0.07
114 26 0.21
ACGTcount: A:0.43, C:0.15, G:0.06, T:0.36
Consensus pattern (110 bp):
AAAAAAAAACTACTCATCCACTTAGATTAAATGCATACTTTTATAATATATAGAATTTTAATTTA
GTAACTCTTTAAACTACTAAATATAATTATTGCTGTTATAGTAAC
Found at i:24472798 original size:42 final size:42
Alignment explanation
Indices: 24472752--24472858 Score: 171
Period size: 42 Copynumber: 2.5 Consensus size: 42
24472742 GTTATTAAAT
24472752 ATTTTAAATTAATAACTCTTTAATTTGTTATAAATATATAGA
1 ATTTTAAATTAATAACTCTTTAATTTGTTATAAATATATAGA
***
24472794 ATTTTAAATTAATTTGT-TATTAATTTGTTATAAATATATAGA
1 ATTTTAAATTAATAACTCT-TTAATTTGTTATAAATATATAGA
24472836 ATTTTAAATTAATAACTCTTTAA
1 ATTTTAAATTAATAACTCTTTAA
24472859 NNNNNNNNNN
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
41 1 0.02
42 55 0.96
43 1 0.02
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.50
Consensus pattern (42 bp):
ATTTTAAATTAATAACTCTTTAATTTGTTATAAATATATAGA
Found at i:24475513 original size:140 final size:140
Alignment explanation
Indices: 24475261--24475539 Score: 513
Period size: 140 Copynumber: 2.0 Consensus size: 140
24475251 AATCAAAGTA
*
24475261 GTGTCTTCGAAGGAATTGATGTTACAATTCTGTCATTTCTTCAAATTAATCAAATTGTGATTTTA
1 GTGTCTTCGAAGGAATGGATGTTACAATTCTGTCATTTCTTCAAATTAATCAAATTGTGATTTTA
* *
24475326 CTTTTACACAGAAAGTTTATAGCAAAAACAACTACAAAACCAGACAAAATTTACTTTAAGAATAT
66 CTTTTACACAGAAAGTTTATAGAAAAAACAACTACAAAACCAGACAAAATTTACTTTAAGAATAC
24475391 GTGTAATGTT
131 GTGTAATGTT
* *
24475401 GTGTCTTCGTAGGAATGGATGTTACAATTCTGTCATTTCTTCAAATTAATCAAATTGTGATTTTG
1 GTGTCTTCGAAGGAATGGATGTTACAATTCTGTCATTTCTTCAAATTAATCAAATTGTGATTTTA
24475466 CTTTTACACAGAAAGTTTATAGAAAAAACAACTACAAAACCAGACAAAATTTACTTTAAGAATAC
66 CTTTTACACAGAAAGTTTATAGAAAAAACAACTACAAAACCAGACAAAATTTACTTTAAGAATAC
24475531 GTGTAATGT
131 GTGTAATGT
24475540 ACTTCCCATC
Statistics
Matches: 134, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
140 134 1.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.35
Consensus pattern (140 bp):
GTGTCTTCGAAGGAATGGATGTTACAATTCTGTCATTTCTTCAAATTAATCAAATTGTGATTTTA
CTTTTACACAGAAAGTTTATAGAAAAAACAACTACAAAACCAGACAAAATTTACTTTAAGAATAC
GTGTAATGTT
Found at i:24479883 original size:21 final size:21
Alignment explanation
Indices: 24479859--24479899 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
24479849 AGGATTTGTG
24479859 ATTTCATCATTGTACTTGTAA
1 ATTTCATCATTGTACTTGTAA
*
24479880 ATTTCATCATTGTATTTGTA
1 ATTTCATCATTGTACTTGTA
24479900 TGATTCTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.12, G:0.10, T:0.51
Consensus pattern (21 bp):
ATTTCATCATTGTACTTGTAA
Found at i:24481533 original size:29 final size:29
Alignment explanation
Indices: 24481415--24481536 Score: 145
Period size: 29 Copynumber: 4.2 Consensus size: 29
24481405 TGATAGCTTT
* *
24481415 GACTATCGATTATGAAAAGGGATGGTGAT
1 GACTATCGACTATGAAAAGGGATGGTGAC
* * *
24481444 GACCATCAACTATGAAAAGGGATGGTGAT
1 GACTATCGACTATGAAAAGGGATGGTGAC
* * * * **
24481473 GACCATTGATTATGAAAAGGGATAGTTTC
1 GACTATCGACTATGAAAAGGGATGGTGAC
24481502 GACTATCGACTATGAAAAGGGATGGTGAC
1 GACTATCGACTATGAAAAGGGATGGTGAC
24481531 GACTAT
1 GACTAT
24481537 GAAAAGGGAT
Statistics
Matches: 77, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 77 1.00
ACGTcount: A:0.35, C:0.11, G:0.28, T:0.25
Consensus pattern (29 bp):
GACTATCGACTATGAAAAGGGATGGTGAC
Found at i:24481552 original size:21 final size:22
Alignment explanation
Indices: 24481508--24481554 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
24481498 TTTCGACTAT
24481508 CGACTATGAAAAGGGATGGTGA
1 CGACTATGAAAAGGGATGGTGA
24481530 CGACTATGAAAAGGGAT-GTGA
1 CGACTATGAAAAGGGATGGTGA
24481551 CGAC
1 CGAC
24481555 CATCGATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 8 0.32
22 17 0.68
ACGTcount: A:0.36, C:0.13, G:0.34, T:0.17
Consensus pattern (22 bp):
CGACTATGAAAAGGGATGGTGA
Found at i:24496597 original size:40 final size:40
Alignment explanation
Indices: 24496542--24496859 Score: 421
Period size: 40 Copynumber: 8.0 Consensus size: 40
24496532 TTATTGAAAG
* *
24496542 ATTGCACTTACGTGCCCTTGTTTGTACTTCGATACCCCTA
1 ATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCCTA
* *
24496582 ATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCTTG
1 ATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCCTA
* * * * *
24496622 ATTGCACTTACATGCCCTTGTTTGTACTTTGATACCCCTG
1 ATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCCTA
* *
24496662 ATTGCACTTACATGCCCCTGTTTGTACTTTGGTA-CCCTA
1 ATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCCTA
*
24496701 GATTGCACTTACGTGCCCCTGTTTGTACTTCGATACCCCTA
1 -ATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCCTA
24496742 ATTGCACTTACGTGCCCCTGTTTGTACTTCGGTA-CCCTA
1 ATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCCTA
24496781 GATTGCACTTACGTGCCCCTGTTTGTACTTCGGTA-CCCTGA
1 -ATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCCT-A
* * * *
24496822 A-TGCACAT-CTGTGACCCTGTTTGCACTTCGGTGCCCCT
1 ATTGCACTTAC-GTGCCCCTGTTTGTACTTCGGTACCCCT
24496860 GATCACACGT
Statistics
Matches: 252, Mismatches: 20, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
38 1 0.00
39 35 0.14
40 210 0.83
41 6 0.02
ACGTcount: A:0.16, C:0.30, G:0.18, T:0.36
Consensus pattern (40 bp):
ATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCCTA
Found at i:24496678 original size:80 final size:80
Alignment explanation
Indices: 24496540--24496853 Score: 481
Period size: 80 Copynumber: 3.9 Consensus size: 80
24496530 AATTATTGAA
*
24496540 AGATTGCACTTACGTGCCCTTGTTTGTACTTCGATACCCCTAATTGCACTTACGTGCCCCTGTTT
1 AGATTGCACTTACGTGCCCCTGTTTGTACTTCGATACCCCTAATTGCACTTACGTGCCCCTGTTT
24496605 GTACTTCGGTACCCT
66 GTACTTCGGTACCCT
* * * * * *
24496620 TGATTGCACTTACATGCCCTTGTTTGTACTTTGATACCCCTGATTGCACTTACATGCCCCTGTTT
1 AGATTGCACTTACGTGCCCCTGTTTGTACTTCGATACCCCTAATTGCACTTACGTGCCCCTGTTT
*
24496685 GTACTTTGGTACCCT
66 GTACTTCGGTACCCT
24496700 AGATTGCACTTACGTGCCCCTGTTTGTACTTCGATACCCCTAATTGCACTTACGTGCCCCTGTTT
1 AGATTGCACTTACGTGCCCCTGTTTGTACTTCGATACCCCTAATTGCACTTACGTGCCCCTGTTT
24496765 GTACTTCGGTACCCT
66 GTACTTCGGTACCCT
* * *
24496780 AGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTA-CCCTGAA-TGCACAT-CTGTGACCCTGT
1 AGATTGCACTTACGTGCCCCTGTTTGTACTTCGATACCCCT-AATTGCACTTAC-GTGCCCCTGT
*
24496842 TTGCACTTCGGT
64 TTGTACTTCGGT
24496854 GCCCCTGATC
Statistics
Matches: 215, Mismatches: 17, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
78 1 0.00
79 30 0.14
80 184 0.86
ACGTcount: A:0.16, C:0.29, G:0.18, T:0.36
Consensus pattern (80 bp):
AGATTGCACTTACGTGCCCCTGTTTGTACTTCGATACCCCTAATTGCACTTACGTGCCCCTGTTT
GTACTTCGGTACCCT
Found at i:24496859 original size:20 final size:20
Alignment explanation
Indices: 24496541--24496899 Score: 173
Period size: 20 Copynumber: 18.0 Consensus size: 20
24496531 ATTATTGAAA
*
24496541 GATTGCACTTAC-GTGCCCTT
1 GATTGCACTT-CGGTGCCCCT
* * * *
24496561 GTTTGTACTTCGATACCCCT
1 GATTGCACTTCGGTGCCCCT
*
24496581 AATTGCACTTAC-GTGCCCCT
1 GATTGCACTT-CGGTGCCCCT
* * * *
24496601 GTTTGTACTTCGGTACCCTT
1 GATTGCACTTCGGTGCCCCT
* *
24496621 GATTGCACTTAC-ATGCCCTT
1 GATTGCACTT-CGGTGCCCCT
* * * * *
24496641 GTTTGTACTTTGATACCCCT
1 GATTGCACTTCGGTGCCCCT
*
24496661 GATTGCACTTAC-ATGCCCCT
1 GATTGCACTT-CGGTGCCCCT
* * * *
24496681 GTTTGTACTTTGGT-ACCCT
1 GATTGCACTTCGGTGCCCCT
24496700 AGATTGCACTTAC-GTGCCCCT
1 -GATTGCACTT-CGGTGCCCCT
* * * *
24496721 GTTTGTACTTCGATACCCCT
1 GATTGCACTTCGGTGCCCCT
*
24496741 AATTGCACTTAC-GTGCCCCT
1 GATTGCACTT-CGGTGCCCCT
* * *
24496761 GTTTGTACTTCGGT-ACCCT
1 GATTGCACTTCGGTGCCCCT
24496780 AGATTGCACTTAC-GTGCCCCT
1 -GATTGCACTT-CGGTGCCCCT
* * *
24496801 GTTTGTACTTCGGT-ACCCT
1 GATTGCACTTCGGTGCCCCT
* * * *
24496820 GAATGCACATCTGTGACCCT
1 GATTGCACTTCGGTGCCCCT
*
24496840 GTTTGCACTTCGGTGCCCCT
1 GATTGCACTTCGGTGCCCCT
** *
24496860 GATCACACGTTC-GTGCTCCT
1 GATTGCAC-TTCGGTGCCCCT
*
24496880 GATTGCACTTTGGTGCCCCT
1 GATTGCACTTCGGTGCCCCT
24496900 ATTATCCATC
Statistics
Matches: 245, Mismatches: 74, Indels: 40
0.68 0.21 0.11
Matches are distributed among these distances:
19 28 0.11
20 202 0.82
21 15 0.06
ACGTcount: A:0.15, C:0.30, G:0.19, T:0.36
Consensus pattern (20 bp):
GATTGCACTTCGGTGCCCCT
Found at i:24496900 original size:120 final size:118
Alignment explanation
Indices: 24496540--24496900 Score: 424
Period size: 120 Copynumber: 3.0 Consensus size: 118
24496530 AATTATTGAA
* *
24496540 AGATTGCACTTACGTGCCCTTGTTTGTACTTCGATACCCCT-AATTGCACTTACGTGCCCCTGTT
1 AGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTA-CCCTGAA-TGCACTTACGTGCCCCTGTT
* * *
24496604 TGTACTTCGGTACCCTTGATTGCACTTACATGCCCTTGTTTGTACTTTGATACCCCT
64 TGTACTTCGGTACCCCTGATTGCACTTACGTGCCC-TGTTTGTACTTTGGT-CCCCT
* * *
24496661 -GATTGCACTTACATGCCCCTGTTTGTACTTTGGTACCCTAGATTGCACTTACGTGCCCCTGTTT
1 AGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCT-GAATGCACTTACGTGCCCCTGTTT
* * * *
24496725 GTACTTCGATACCCCTAATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCT
65 GTACTTCGGTACCCCTGATTGCACTTACGTG-CCCTGTTTGTACTTTGGTCCCCT
* *
24496780 AGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCTGAATGCACAT-CTGTGACCCTGTTT
1 AGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCTGAATGCACTTAC-GTGCCCCTGTTT
* * ** * *
24496844 GCACTTCGGTGCCCCTGATCACACGTT-CGTGCTCCTGATTGCACTTTGGTGCCCCT
65 GTACTTCGGTACCCCTGATTGCAC-TTACGTGC-CCTGTTTGTACTTTGGT-CCCCT
24496900 A
1 A
24496901 TTATCCATCT
Statistics
Matches: 205, Mismatches: 27, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
118 2 0.01
119 63 0.31
120 136 0.66
121 4 0.02
ACGTcount: A:0.16, C:0.30, G:0.19, T:0.35
Consensus pattern (118 bp):
AGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCTGAATGCACTTACGTGCCCCTGTTTG
TACTTCGGTACCCCTGATTGCACTTACGTGCCCTGTTTGTACTTTGGTCCCCT
Found at i:24504206 original size:303 final size:304
Alignment explanation
Indices: 24503649--24504255 Score: 1207
Period size: 303 Copynumber: 2.0 Consensus size: 304
24503639 GTACCCAAGG
24503649 GTTTGCAGATTGGAGAAATTTATTATTAAATTAATTATAGAAAATAATTAGTAATCTAATCGATT
1 GTTTGCAGATTGGAGAAATTTATTATTAAATTAATTATAGAAAATAATTAGTAATCTAATCGATT
24503714 TACAAGTTAGTAGTGCAGATCCAAATTGAAAGATTAATTAAACTAATTAAATTAATTACCCTAAA
66 TACAAGTTAGTAGTGCAGATCCAAATTGAAAGATTAATTAAACTAATTAAATTAATTACCCTAAA
24503779 TTAACCTAATTTAATTTCCTATTCCTAGTGTCAACAATGCAAGCTTTAGCCTATGTTCGATTAAC
131 TTAACCTAATTTAATTTCCTATTCCTAGTGTCAACAATGCAAGCTTTAGCCTATGTTCGATTAAC
24503844 AGGTAGAAAATTAAGTTGTTTTAATGGTTGTAATTAGCAGGAGAACTCGAGTTTTAATGATGAAT
196 AGGTAGAAAATTAAGTTGTTTTAATGGTTGTAATTAGCAGGAGAACTCGAGTTTTAATGATGAAT
24503909 TAATTATTAACTAGACAGTATTACCTCTCGACCTTTACTGCGTA
261 TAATTATTAACTAGACAGTATTACCTCTCGACCTTTACTGCGTA
24503953 GTTTGCAGA-TGGAGAAATTTATTATTAAATTAATTATAGAAAATAATTAGTAATCTAATCGATT
1 GTTTGCAGATTGGAGAAATTTATTATTAAATTAATTATAGAAAATAATTAGTAATCTAATCGATT
24504017 TACAAGTTAGTAGTGCAGATCCAAATTGAAAGATTAATTAAACTAATTAAATTAATTACCCTAAA
66 TACAAGTTAGTAGTGCAGATCCAAATTGAAAGATTAATTAAACTAATTAAATTAATTACCCTAAA
24504082 TTAACCTAATTTAATTTCCTATTCCTAGTGTCAACAATGCAAGCTTTAGCCTATGTTCGATTAAC
131 TTAACCTAATTTAATTTCCTATTCCTAGTGTCAACAATGCAAGCTTTAGCCTATGTTCGATTAAC
24504147 AGGTAGAAAATTAAGTTGTTTTAATGGTTGTAATTAGCAGGAGAACTCGAGTTTTAATGATGAAT
196 AGGTAGAAAATTAAGTTGTTTTAATGGTTGTAATTAGCAGGAGAACTCGAGTTTTAATGATGAAT
24504212 TAATTATTAACTAGACAGTATTACCTCTCGACCTTTACTGCGTA
261 TAATTATTAACTAGACAGTATTACCTCTCGACCTTTACTGCGTA
24504256 ACTAATCGAT
Statistics
Matches: 303, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
303 294 0.97
304 9 0.03
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.36
Consensus pattern (304 bp):
GTTTGCAGATTGGAGAAATTTATTATTAAATTAATTATAGAAAATAATTAGTAATCTAATCGATT
TACAAGTTAGTAGTGCAGATCCAAATTGAAAGATTAATTAAACTAATTAAATTAATTACCCTAAA
TTAACCTAATTTAATTTCCTATTCCTAGTGTCAACAATGCAAGCTTTAGCCTATGTTCGATTAAC
AGGTAGAAAATTAAGTTGTTTTAATGGTTGTAATTAGCAGGAGAACTCGAGTTTTAATGATGAAT
TAATTATTAACTAGACAGTATTACCTCTCGACCTTTACTGCGTA
Found at i:24505878 original size:91 final size:91
Alignment explanation
Indices: 24505724--24505976 Score: 445
Period size: 91 Copynumber: 2.8 Consensus size: 91
24505714 TTGTGTATCA
*
24505724 TGATCTGCCATTT-GATTCATACACTATCGAAAGCTACACCATGAATATAAATACAAATATATCA
1 TGATCTGCCATTTCGATTCATACACTATCGAAGGCTACACCATGAATATAAATACAAATATATCA
24505788 TGCCATGGGTTATAACCACATGGTCT
66 TGCCATGGGTTATAACCACATGGTCT
*
24505814 TGATCTTCCATTTCGATTCATACACTATCGAAGGCTACACCATGAATATAAATACAAATATATCA
1 TGATCTGCCATTTCGATTCATACACTATCGAAGGCTACACCATGAATATAAATACAAATATATCA
24505879 TGCCATGGGTTATAACCACATGGTCT
66 TGCCATGGGTTATAACCACATGGTCT
* * * *
24505905 TGATCTGCCATTTCGATTCATACACTATCGAAGACTACACCATGAATATAAATATAGACATATCA
1 TGATCTGCCATTTCGATTCATACACTATCGAAGGCTACACCATGAATATAAATACAAATATATCA
24505970 TGCCATG
66 TGCCATG
24505977 AGTCTTAGCC
Statistics
Matches: 155, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
90 12 0.08
91 143 0.92
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (91 bp):
TGATCTGCCATTTCGATTCATACACTATCGAAGGCTACACCATGAATATAAATACAAATATATCA
TGCCATGGGTTATAACCACATGGTCT
Found at i:24506108 original size:110 final size:110
Alignment explanation
Indices: 24505905--24506134 Score: 347
Period size: 110 Copynumber: 2.1 Consensus size: 110
24505895 CACATGGTCT
*
24505905 TGATCTGCCATTTCGATTCATACACTATCGAAGACTACACCATGAATATAAATATAGACATATCA
1 TGATCTGCCATTTCGATTCATACACTATCGAAGACTACACCATGAATATAAATACAGACATATCA
* *
24505970 TGCCATGAGTCTTAGCCACATGAGCTTACACACATTCATGTATCG
66 TGCCATGAGTCTTAACCACATGAGCTTACACACATTCATGTATCA
* * * *
24506015 TGATTTGCCATTTTGATTCATACACTATCGCATG-TTACACCATGAATATAAATACAGACATATC
1 TGATCTGCCATTTCGATTCATACACTATCG-AAGACTACACCATGAATATAAATACAGACATATC
* *
24506079 ATGCCATGGGTCTTAACCATATG-GTCTTACACACATTCATGTATCA
65 ATGCCATGAGTCTTAACCACATGAG-CTTACACACATTCATGTATCA
24506125 TGATCTGCCA
1 TGATCTGCCA
24506135 ATCTGGTTAG
Statistics
Matches: 108, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
109 1 0.01
110 105 0.97
111 2 0.02
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.31
Consensus pattern (110 bp):
TGATCTGCCATTTCGATTCATACACTATCGAAGACTACACCATGAATATAAATACAGACATATCA
TGCCATGAGTCTTAACCACATGAGCTTACACACATTCATGTATCA
Found at i:24509138 original size:14 final size:15
Alignment explanation
Indices: 24509119--24509150 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
24509109 GTGGTTATAG
24509119 TTAAAATA-ATAAAA
1 TTAAAATAGATAAAA
24509133 TTAAAATAGATAAAA
1 TTAAAATAGATAAAA
24509148 TTA
1 TTA
24509151 TGATGTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (15 bp):
TTAAAATAGATAAAA
Found at i:24529519 original size:22 final size:22
Alignment explanation
Indices: 24529493--24529539 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
24529483 TCCAAAACAT
*
24529493 AAAATTTATGAAAAATAGATTA
1 AAAATTTACGAAAAATAGATTA
* *
24529515 AAAATTTACGAAAAATGGGTTA
1 AAAATTTACGAAAAATAGATTA
24529537 AAA
1 AAA
24529540 TTCACTTACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.57, C:0.02, G:0.13, T:0.28
Consensus pattern (22 bp):
AAAATTTACGAAAAATAGATTA
Found at i:24530270 original size:22 final size:22
Alignment explanation
Indices: 24530220--24530272 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
24530210 GGTTGCTACA
**
24530220 TCACAACATGGTATGATTGATG
1 TCACAACATGGTATGATCAATG
**
24530242 TTGCAACATGGTATGATCAATG
1 TCACAACATGGTATGATCAATG
24530264 TCACAACAT
1 TCACAACAT
24530273 AGGGAGCAGA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (22 bp):
TCACAACATGGTATGATCAATG
Found at i:24531219 original size:20 final size:24
Alignment explanation
Indices: 24531182--24531224 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
24531172 GACATAGAAA
24531182 TTATTATAATATGATTTT-ATGCT
1 TTATTATAATATGATTTTCATGCT
24531205 TTATTAT-ATA-G-TTTTCATGC
1 TTATTATAATATGATTTTCATGC
24531225 AATAAATGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 4 0.21
21 5 0.26
22 3 0.16
23 7 0.37
ACGTcount: A:0.28, C:0.07, G:0.09, T:0.56
Consensus pattern (24 bp):
TTATTATAATATGATTTTCATGCT
Found at i:24531794 original size:11 final size:11
Alignment explanation
Indices: 24531778--24531816 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
24531768 TCCTTCATTC
24531778 ATCATCCCTCA
1 ATCATCCCTCA
24531789 ATCATCCCTCA
1 ATCATCCCTCA
* *
24531800 AGCATCCATCA
1 ATCATCCCTCA
*
24531811 AACATC
1 ATCATC
24531817 ATTATCTCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.33, C:0.41, G:0.03, T:0.23
Consensus pattern (11 bp):
ATCATCCCTCA
Found at i:24542425 original size:21 final size:22
Alignment explanation
Indices: 24542382--24542425 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
24542372 TCCTTCATTC
*
24542382 ATCATCCCTCAAGCATCCCTCA
1 ATCATCCCTCAAGCATCCATCA
* *
24542404 ATCAT-CCTGAAGCATCTATCA
1 ATCATCCCTCAAGCATCCATCA
24542425 A
1 A
24542426 GCTTCATTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.32, C:0.36, G:0.07, T:0.25
Consensus pattern (22 bp):
ATCATCCCTCAAGCATCCATCA
Found at i:24553825 original size:17 final size:17
Alignment explanation
Indices: 24553781--24553826 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 17
24553771 GTANNNNNNN
**
24553781 TTTTTTTAAAACATCAA
1 TTTTTTTAAATTATCAA
*
24553798 TTTTTTT--ATTATTAA
1 TTTTTTTAAATTATCAA
24553813 TTTTTTTAAATTAT
1 TTTTTTTAAATTAT
24553827 AAAAAAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 12 0.50
17 12 0.50
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTTTTTAAATTATCAA
Found at i:24557587 original size:25 final size:25
Alignment explanation
Indices: 24557554--24557602 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
24557544 AAGAAAATTG
*
24557554 TTATTTATTATCATTATTATTATTA
1 TTATCTATTATCATTATTATTATTA
* *
24557579 TTATCTATTATCTTTATTTTTATT
1 TTATCTATTATCATTATTATTATT
24557603 TTTTATATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (25 bp):
TTATCTATTATCATTATTATTATTA
Found at i:24564593 original size:50 final size:50
Alignment explanation
Indices: 24564539--24564712 Score: 181
Period size: 50 Copynumber: 3.5 Consensus size: 50
24564529 GTAGTGGAAC
* *
24564539 AGATTGAAGATGCGACGACGAATCTAGTTTCCCCAACATTGCAATTTAAA
1 AGATTGAAGCTGCAACGACGAATCTAGTTTCCCCAACATTGCAATTTAAA
** ** * ** **** *
24564589 AGATTGAAGCTGCAACGGTGAATCTTA-TTTCCCTGACGTTATAGCGGAAC
1 AGATTGAAGCTGCAACGACGAATC-TAGTTTCCCCAACATTGCAATTTAAA
*
24564639 AGATTGAAGCTGCGACGACGAATCTAG-TTCCCCAACATTGCAATTTAAA
1 AGATTGAAGCTGCAACGACGAATCTAGTTTCCCCAACATTGCAATTTAAA
*
24564688 AGATTGAAGCCGCAACGACGAATCT
1 AGATTGAAGCTGCAACGACGAATCT
24564713 TATTTCCTTG
Statistics
Matches: 93, Mismatches: 29, Indels: 5
0.73 0.23 0.04
Matches are distributed among these distances:
49 37 0.40
50 54 0.58
51 2 0.02
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (50 bp):
AGATTGAAGCTGCAACGACGAATCTAGTTTCCCCAACATTGCAATTTAAA
Found at i:24564662 original size:100 final size:99
Alignment explanation
Indices: 24564503--24564747 Score: 355
Period size: 99 Copynumber: 2.5 Consensus size: 99
24564493 TGAAACCATG
* * * * * *
24564503 ACGATGAATCTTACTCCCCTGGCGGTGTAGTGGAACAGATTGAAGATGCGACGACGAATCTAGTT
1 ACGATGAATCTTATTTCCCTGGCGTTATAGCGGAACAGATTGAAGCTGCGACGACGAATCTAG-T
*
24564568 TCCCCAACATTGCAATTTAAAAGATTGAAGCTGCA
65 TCCCCAACATTGCAATTTAAAAGATTGAAGCCGCA
* *
24564603 ACGGTGAATCTTATTTCCCTGACGTTATAGCGGAACAGATTGAAGCTGCGACGACGAATCTAGTT
1 ACGATGAATCTTATTTCCCTGGCGTTATAGCGGAACAGATTGAAGCTGCGACGACGAATCTAGTT
24564668 CCCCAACATTGCAATTTAAAAGATTGAAGCCGCA
66 CCCCAACATTGCAATTTAAAAGATTGAAGCCGCA
* * * * *
24564702 ACGACGAATCTTATTTCCTTGGCGTTATAGCAGAGCAAATTGAAGC
1 ACGATGAATCTTATTTCCCTGGCGTTATAGCGGAACAGATTGAAGC
24564748 CCTGATGGCG
Statistics
Matches: 129, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
99 74 0.57
100 55 0.43
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (99 bp):
ACGATGAATCTTATTTCCCTGGCGTTATAGCGGAACAGATTGAAGCTGCGACGACGAATCTAGTT
CCCCAACATTGCAATTTAAAAGATTGAAGCCGCA
Found at i:24565066 original size:44 final size:45
Alignment explanation
Indices: 24565015--24565136 Score: 135
Period size: 45 Copynumber: 2.7 Consensus size: 45
24565005 GATCACATCT
* *
24565015 AGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACT-AAG-TAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAATGAAGAT-AGCA
*
24565059 AGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGAATGAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGAATGAAGATAGCA
* * *
24565104 AATCTTATCTACGTGAAGTTGCAGTGGAGCAGA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
24565137 TCAAAGCCGA
Statistics
Matches: 66, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
43 3 0.05
44 28 0.42
45 32 0.48
46 3 0.05
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.25
Consensus pattern (45 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAATGAAGATAGCA
Found at i:24566640 original size:45 final size:46
Alignment explanation
Indices: 24566573--24566665 Score: 179
Period size: 45 Copynumber: 2.0 Consensus size: 46
24566563 CATTTAGAGG
24566573 AAATGGATTATTTCCATTTAGGACCCTCATATAATGCGCGCATCGC
1 AAATGGATTATTTCCATTTAGGACCCTCATATAATGCGCGCATCGC
24566619 AAATGGATTA-TTCCATTTAGGACCCTCATATAATGCGCGCATCGC
1 AAATGGATTATTTCCATTTAGGACCCTCATATAATGCGCGCATCGC
24566664 AA
1 AA
24566666 TTCGACCCTC
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 37 0.79
46 10 0.21
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (46 bp):
AAATGGATTATTTCCATTTAGGACCCTCATATAATGCGCGCATCGC
Found at i:24566786 original size:19 final size:19
Alignment explanation
Indices: 24566736--24566779 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
24566726 AAATTGTTAT
24566736 TTATTATC-ATTATCATTA
1 TTATTATCTATTATCATTA
*
24566754 TTATTATCTATTATCTTTA
1 TTATTATCTATTATCATTA
*
24566773 TTTTTAT
1 TTATTAT
24566780 TTTTTATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.27, C:0.09, G:0.00, T:0.64
Consensus pattern (19 bp):
TTATTATCTATTATCATTA
Found at i:24584780 original size:55 final size:56
Alignment explanation
Indices: 24584720--24584854 Score: 175
Period size: 55 Copynumber: 2.4 Consensus size: 56
24584710 AGAGATAGCG
* * **
24584720 ACAAAGGTTTCTTTTAATAGAGATCACCACAAAGGCTTCATTTACA-A-AGATTTCC
1 ACAAAGGTTTCCTTTAATAGAGATCACCACAAAGACTTCATTTA-ATAGAGATCACC
* * * *
24584775 GCAAAGGCTTCCTTTAACAGAGATCACCACAAAGACTTCCTTTAATAGAGATCACC
1 ACAAAGGTTTCCTTTAATAGAGATCACCACAAAGACTTCATTTAATAGAGATCACC
24584831 ACAAAGGTTTCCTTTAATAGAGAT
1 ACAAAGGTTTCCTTTAATAGAGAT
24584855 TGCCGCAAAG
Statistics
Matches: 67, Mismatches: 11, Indels: 3
0.83 0.14 0.04
Matches are distributed among these distances:
54 1 0.01
55 39 0.58
56 27 0.40
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.28
Consensus pattern (56 bp):
ACAAAGGTTTCCTTTAATAGAGATCACCACAAAGACTTCATTTAATAGAGATCACC
Found at i:24584853 original size:56 final size:55
Alignment explanation
Indices: 24584720--24584872 Score: 173
Period size: 56 Copynumber: 2.8 Consensus size: 55
24584710 AGAGATAGCG
* * * **
24584720 ACAAAGGTTTCTTTTAATAGAGATCACCACAAAGGCTTCATTTACAAAGATTTCC
1 ACAAAGGTTTCCTTTAATAGAGATCACCACAAAGACTTCCTTTACAAAGATCACC
* * *
24584775 GCAAAGGCTTCCTTTAACAGAGATCACCACAAAGACTTCCTTTA-ATAGAGATCACC
1 ACAAAGGTTTCCTTTAATAGAGATCACCACAAAGACTTCCTTTACA-A-AGATCACC
** * *
24584831 ACAAAGGTTTCCTTTAATAGAGATTGCCGCAAAGACGTCCTT
1 ACAAAGGTTTCCTTTAATAGAGATCACCACAAAGACTTCCTT
24584873 CATCTAGTGT
Statistics
Matches: 81, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
54 1 0.01
55 39 0.48
56 41 0.51
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (55 bp):
ACAAAGGTTTCCTTTAATAGAGATCACCACAAAGACTTCCTTTACAAAGATCACC
Found at i:24584864 original size:28 final size:28
Alignment explanation
Indices: 24584720--24584854 Score: 166
Period size: 28 Copynumber: 4.9 Consensus size: 28
24584710 AGAGATAGCG
* *
24584720 ACAAAGGTTTCTTTTAATAGAGATCACC
1 ACAAAGGCTTCCTTTAATAGAGATCACC
* **
24584748 ACAAAGGCTTCATTTACA-A-AGATTTCC
1 ACAAAGGCTTCCTTTA-ATAGAGATCACC
* *
24584775 GCAAAGGCTTCCTTTAACAGAGATCACC
1 ACAAAGGCTTCCTTTAATAGAGATCACC
*
24584803 ACAAAGACTTCCTTTAATAGAGATCACC
1 ACAAAGGCTTCCTTTAATAGAGATCACC
*
24584831 ACAAAGGTTTCCTTTAATAGAGAT
1 ACAAAGGCTTCCTTTAATAGAGAT
24584855 TGCCGCAAAG
Statistics
Matches: 91, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
26 1 0.01
27 21 0.23
28 68 0.75
29 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.28
Consensus pattern (28 bp):
ACAAAGGCTTCCTTTAATAGAGATCACC
Found at i:24584871 original size:28 final size:28
Alignment explanation
Indices: 24584732--24584872 Score: 142
Period size: 28 Copynumber: 5.1 Consensus size: 28
24584722 AAAGGTTTCT
* *
24584732 TTTAATAGAGATCACCACAAAGGCTTCA
1 TTTAATAGAGATCACCACAAAGACTTCC
** * *
24584760 TTTACA-A-AGATTTCCGCAAAGGCTTCC
1 TTTA-ATAGAGATCACCACAAAGACTTCC
*
24584787 TTTAACAGAGATCACCACAAAGACTTCC
1 TTTAATAGAGATCACCACAAAGACTTCC
**
24584815 TTTAATAGAGATCACCACAAAGGTTTCC
1 TTTAATAGAGATCACCACAAAGACTTCC
** * *
24584843 TTTAATAGAGATTGCCGCAAAGACGTCC
1 TTTAATAGAGATCACCACAAAGACTTCC
24584871 TT
1 TT
24584873 CATCTAGTGT
Statistics
Matches: 93, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
26 1 0.01
27 21 0.23
28 70 0.75
29 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (28 bp):
TTTAATAGAGATCACCACAAAGACTTCC
Found at i:24585600 original size:17 final size:18
Alignment explanation
Indices: 24585573--24585611 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
24585563 TTCACTTACC
24585573 TTTTGAAAACAT-TT-TA
1 TTTTGAAAACATCTTGTA
24585589 TTTTGTAAAACATCTTGTA
1 TTTTG-AAAACATCTTGTA
24585608 TTTT
1 TTTT
24585612 TTGTTATAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 5 0.25
17 7 0.35
18 2 0.10
19 6 0.30
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.54
Consensus pattern (18 bp):
TTTTGAAAACATCTTGTA
Found at i:24594306 original size:29 final size:30
Alignment explanation
Indices: 24594249--24594303 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
24594239 AAATATAAAA
*
24594249 TACTATAAAAACTACTAAAAATCATAATTG
1 TACTACAAAAACTACTAAAAATCATAATTG
24594279 TACTACAAAAACT-CTAAAAAT-ATAA
1 TACTACAAAAACTACTAAAAATCATAA
24594304 ATTATTATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 4 0.17
29 8 0.33
30 12 0.50
ACGTcount: A:0.56, C:0.15, G:0.02, T:0.27
Consensus pattern (30 bp):
TACTACAAAAACTACTAAAAATCATAATTG
Found at i:24597851 original size:183 final size:183
Alignment explanation
Indices: 24597543--24597910 Score: 592
Period size: 183 Copynumber: 2.0 Consensus size: 183
24597533 CTATGGTTTC
* *
24597543 ATATAGATAATGTCATCCAACCGAGCCGATTTAGATGAGGTTGAAAGTAACGCATAAGCCTCTGT
1 ATATAGATAATGTCATCCAACCGAGCCGATTTAGATGAGGATGAAAGTAACGCATAAGCCTCTAT
* * ** * * *
24597608 TCATAGAGCAGCGGTGAGTGGTAGCAAGCACATATTTGAGGATCGGGGAGGAGAGGCTAAGGAAG
66 TCACAGAGCAACGACGAGTGGTAGCAAGCACATATCTGAGGACCGAGGAGGAGAGGCTAAGGAAG
*
24597673 CCTTCTTCCAAATGATGAATGAGTGGTTTACCGAGTTCATATGAACGAACCCG
131 CCTTCTTCCAAATGATGAATGAGTGGTTTACCGAGTTCATACGAACGAACCCG
*
24597726 ATATAGATAATGTCATCCAACCGAGCTGATTTAGATGAGGATGAAAGTAACGCATAAGCCTCTAT
1 ATATAGATAATGTCATCCAACCGAGCCGATTTAGATGAGGATGAAAGTAACGCATAAGCCTCTAT
* * *
24597791 TCACAGAGCAACGACGAGTGGTAGTAAGCCCATATCTGAGGACCGAGGAGGGGAGGCTAAGGAAG
66 TCACAGAGCAACGACGAGTGGTAGCAAGCACATATCTGAGGACCGAGGAGGAGAGGCTAAGGAAG
* *
24597856 CCTTCTTCCAGATGATGAATGAGTGGTTTACCGAGTTCGTACGAACGAACCCG
131 CCTTCTTCCAAATGATGAATGAGTGGTTTACCGAGTTCATACGAACGAACCCG
24597909 AT
1 AT
24597911 GGCTCAACGA
Statistics
Matches: 169, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
183 169 1.00
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.23
Consensus pattern (183 bp):
ATATAGATAATGTCATCCAACCGAGCCGATTTAGATGAGGATGAAAGTAACGCATAAGCCTCTAT
TCACAGAGCAACGACGAGTGGTAGCAAGCACATATCTGAGGACCGAGGAGGAGAGGCTAAGGAAG
CCTTCTTCCAAATGATGAATGAGTGGTTTACCGAGTTCATACGAACGAACCCG
Found at i:24605960 original size:15 final size:15
Alignment explanation
Indices: 24605940--24605973 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
24605930 GATCTTTTTG
24605940 ACATTCTAATTCCAT
1 ACATTCTAATTCCAT
24605955 ACATTCTAATTCCAT
1 ACATTCTAATTCCAT
24605970 ACAT
1 ACAT
24605974 AGACATAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.35, C:0.26, G:0.00, T:0.38
Consensus pattern (15 bp):
ACATTCTAATTCCAT
Found at i:24613139 original size:16 final size:17
Alignment explanation
Indices: 24613118--24613152 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
24613108 AAATTTGAGC
24613118 ATATTT-TATTTAATAA
1 ATATTTATATTTAATAA
*
24613134 ATATTTATTTTTAATAA
1 ATATTTATATTTAATAA
24613151 AT
1 AT
24613153 TAATAGCAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATATTTATATTTAATAA
Found at i:24616769 original size:22 final size:22
Alignment explanation
Indices: 24616743--24616787 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
24616733 AATATGTGTA
24616743 TTAATTCATAATATAA-TTAATT
1 TTAATT-ATAATATAATTTAATT
* *
24616765 TTAATTTTAATCTAATTTAATT
1 TTAATTATAATATAATTTAATT
24616787 T
1 T
24616788 GGGTTAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAATTATAATATAATTTAATT
Found at i:24623230 original size:42 final size:42
Alignment explanation
Indices: 24623192--24623744 Score: 683
Period size: 42 Copynumber: 13.2 Consensus size: 42
24623182 GGATACATAG
* * * *
24623192 CTTGTCACCTAAGCTTACGTAGGGAGCTTCGCTAATACACAG
1 CTTGTCACTTAAGCTCACGTGGGGAGCTTCGCTAATACACAA
* * * * *
24623234 CTTGTCATTTAAGCTCACGAGGGAAGCTTCACTAATACACAG
1 CTTGTCACTTAAGCTCACGTGGGGAGCTTCGCTAATACACAA
* * *
24623276 CTTATCACTTAAGCTCACGTAGAGAGCTTCGCTAATACACAA
1 CTTGTCACTTAAGCTCACGTGGGGAGCTTCGCTAATACACAA
* * * *
24623318 CTTATCACTTAAGCTCACTTGGGGAGCTTTGCTGATACACAA
1 CTTGTCACTTAAGCTCACGTGGGGAGCTTCGCTAATACACAA
* *
24623360 ATTGTCACTTAAGCTCACGTGGGGAGCTTAGCTAATACACAA
1 CTTGTCACTTAAGCTCACGTGGGGAGCTTCGCTAATACACAA
* ** * * *
24623402 CTTATCACTTAAGCTCATTTAGGGAGCTTTGCTGATACACAA
1 CTTGTCACTTAAGCTCACGTGGGGAGCTTCGCTAATACACAA
* * *
24623444 ATTGTCACTTAAGCTCACGTAGAGAGCTTCGCTAATACACAA
1 CTTGTCACTTAAGCTCACGTGGGGAGCTTCGCTAATACACAA
* * * *
24623486 CTTATCACTTAAGCTCACTTGGGGAGCTTTGCTGATACACAA
1 CTTGTCACTTAAGCTCACGTGGGGAGCTTCGCTAATACACAA
* **
24623528 ATTGTCACTTAAGCTCACGTGGGGAGCTTAACTAATACACAA
1 CTTGTCACTTAAGCTCACGTGGGGAGCTTCGCTAATACACAA
* * *
24623570 CTTATCACTTAAGCTCACATGGGGAGCTTCGCTGATACACAA
1 CTTGTCACTTAAGCTCACGTGGGGAGCTTCGCTAATACACAA
* **
24623612 ATTGTCACTTAAGCTCACGTGGGGAGCTTAACTAATACACAA
1 CTTGTCACTTAAGCTCACGTGGGGAGCTTCGCTAATACACAA
* * *
24623654 CTTATCACTTAAGCTCACATGGGGAGCTTCGCTGATACACAA
1 CTTGTCACTTAAGCTCACGTGGGGAGCTTCGCTAATACACAA
* * * *
24623696 ATTGTCACTTAAGCTCACGTGGGGAGCTTCGCTGATACATAG
1 CTTGTCACTTAAGCTCACGTGGGGAGCTTCGCTAATACACAA
24623738 CTTGTCA
1 CTTGTCA
24623745 AATCGTTTCT
Statistics
Matches: 435, Mismatches: 76, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 435 1.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (42 bp):
CTTGTCACTTAAGCTCACGTGGGGAGCTTCGCTAATACACAA
Found at i:24623289 original size:84 final size:84
Alignment explanation
Indices: 24623193--24623734 Score: 775
Period size: 84 Copynumber: 6.5 Consensus size: 84
24623183 GATACATAGC
* * * * * * * *
24623193 TTGTCACCTAAGCTTACGTAGGGAGCTTCGCTAATACACAGCTTGTCATTTAAGCTCACGAGGGA
1 TTGTCACTTAAGCTCACGTGGGGAGCTTCGCTAATACACAACTTATCACTTAAGCTCACTAGGGG
* * **
24623258 AGCTTCACTAATACACAGC
66 AGCTTCGCTGATACACAAA
* * * *
24623277 TTATCACTTAAGCTCACGTAGAGAGCTTCGCTAATACACAACTTATCACTTAAGCTCACTTGGGG
1 TTGTCACTTAAGCTCACGTGGGGAGCTTCGCTAATACACAACTTATCACTTAAGCTCACTAGGGG
*
24623342 AGCTTTGCTGATACACAAA
66 AGCTTCGCTGATACACAAA
* *
24623361 TTGTCACTTAAGCTCACGTGGGGAGCTTAGCTAATACACAACTTATCACTTAAGCTCATTTA-GG
1 TTGTCACTTAAGCTCACGTGGGGAGCTTCGCTAATACACAACTTATCACTTAAGCTCA-CTAGGG
*
24623425 GAGCTTTGCTGATACACAAA
65 GAGCTTCGCTGATACACAAA
* * *
24623445 TTGTCACTTAAGCTCACGTAGAGAGCTTCGCTAATACACAACTTATCACTTAAGCTCACTTGGGG
1 TTGTCACTTAAGCTCACGTGGGGAGCTTCGCTAATACACAACTTATCACTTAAGCTCACTAGGGG
*
24623510 AGCTTTGCTGATACACAAA
66 AGCTTCGCTGATACACAAA
**
24623529 TTGTCACTTAAGCTCACGTGGGGAGCTTAACTAATACACAACTTATCACTTAAGCTCAC-ATGGG
1 TTGTCACTTAAGCTCACGTGGGGAGCTTCGCTAATACACAACTTATCACTTAAGCTCACTA-GGG
24623593 GAGCTTCGCTGATACACAAA
65 GAGCTTCGCTGATACACAAA
**
24623613 TTGTCACTTAAGCTCACGTGGGGAGCTTAACTAATACACAACTTATCACTTAAGCTCAC-ATGGG
1 TTGTCACTTAAGCTCACGTGGGGAGCTTCGCTAATACACAACTTATCACTTAAGCTCACTA-GGG
24623677 GAGCTTCGCTGATACACAAA
65 GAGCTTCGCTGATACACAAA
*
24623697 TTGTCACTTAAGCTCACGTGGGGAGCTTCGCTGATACA
1 TTGTCACTTAAGCTCACGTGGGGAGCTTCGCTAATACA
24623735 TAGCTTGTCA
Statistics
Matches: 420, Mismatches: 35, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
83 1 0.00
84 418 1.00
85 1 0.00
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.28
Consensus pattern (84 bp):
TTGTCACTTAAGCTCACGTGGGGAGCTTCGCTAATACACAACTTATCACTTAAGCTCACTAGGGG
AGCTTCGCTGATACACAAA
Found at i:24623995 original size:111 final size:111
Alignment explanation
Indices: 24623787--24623997 Score: 343
Period size: 111 Copynumber: 1.9 Consensus size: 111
24623777 ACTCGTATAA
*
24623787 GAGCTCGCACAAAATTGTGCTTTAAAAATCATATTTTTAAAACGCATTTGAGAAAAGAGGTTCAT
1 GAGCTCGCACAAAACTGTGCTTTAAAAATCATATTTTTAAAACGCATTTGAGAAAAGAGGTTCAT
* *
24623852 AACTTTCAAACATATCCTTTTAGAAAACTTACCTTAGCTTGCGTAG
66 AACTTTAAAACATATCCTTTTAGAAAAATTACCTTAGCTTGCGTAG
* *
24623898 GAGCTCGCACAAAACTGTGCTTTAAAAATCATATTTTTGAAATGCATTTGAGAAAAGAGGTTCAT
1 GAGCTCGCACAAAACTGTGCTTTAAAAATCATATTTTTAAAACGCATTTGAGAAAAGAGGTTCAT
**
24623963 AACTTTAAAACATATATTTTTTA-AAAAATTACCTT
66 AACTTTAAAACATAT-CCTTTTAGAAAAATTACCTT
24623998 TGAAACTTGT
Statistics
Matches: 92, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
111 87 0.95
112 5 0.05
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (111 bp):
GAGCTCGCACAAAACTGTGCTTTAAAAATCATATTTTTAAAACGCATTTGAGAAAAGAGGTTCAT
AACTTTAAAACATATCCTTTTAGAAAAATTACCTTAGCTTGCGTAG
Found at i:24635456 original size:138 final size:137
Alignment explanation
Indices: 24635270--24635684 Score: 479
Period size: 138 Copynumber: 3.1 Consensus size: 137
24635260 AGAGAACATA
* *** *
24635270 AATAAAATTAATATATGAATTCCTTTCATACAAAATATTATTTGTATATATTTTACCGAATTTAT
1 AATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTAT
* *
24635335 TAATATTAACAGTTACATTAATTAATGTCAATAAAAATATAAAAGACATGAAAATTAATATTCTT
66 TAATATTAACAGTTA-ATTAATTAATTTCAATCAAAATATAAAAGACATGAAAATTAATATTCTT
**
24635400 TTTTAAAG
130 TTGAAAAG
* * * * *
24635408 AATGTAATTAATATATGAATTTGATTCTTACAAAAGATTAATTATATATATTTTACTGAATTTAT
1 AATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTAT
* * *
24635473 TCA-ATT---A--T-ATTAATTAATTTCGATCAAAATATAAAAGACATAGAAAA-TAGTATTCTT
66 TAATATTAACAGTTAATTAATTAATTTCAATCAAAATATAAAAGACAT-GAAAATTAATATTCTT
24635530 TTGAAAAG
130 TTGAAAAG
* * * * *
24635538 AATATAATTAGTATATAAATTTGATTCATACAAAATATTAATTGTATATATTCTATCGAAATTAT
1 AATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTAT
* * * * *
24635603 TAATATAAACAGTTATACTAATTAATTTTAGTCAAAATATAAAAGACAT-AGAAATTAATGTTCT
66 TAATATTAACAGTTA-ATTAATTAATTTCAATCAAAATATAAAAGACATGA-AAATTAATATTCT
*
24635667 TTTGGAAAG
129 TTTGAAAAG
24635676 AATATAATT
1 AATATAATT
24635685 CATTTTTCTA
Statistics
Matches: 230, Mismatches: 36, Indels: 22
0.80 0.12 0.08
Matches are distributed among these distances:
130 102 0.44
131 7 0.03
132 1 0.00
134 2 0.01
136 2 0.01
137 6 0.03
138 110 0.48
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.40
Consensus pattern (137 bp):
AATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTAT
TAATATTAACAGTTAATTAATTAATTTCAATCAAAATATAAAAGACATGAAAATTAATATTCTTT
TGAAAAG
Found at i:24635790 original size:75 final size:75
Alignment explanation
Indices: 24635663--24635804 Score: 232
Period size: 75 Copynumber: 1.9 Consensus size: 75
24635653 GAAATTAATG
* * * *
24635663 TTCTTTTGGAAAGAATATAATTCATTTTTCTAACTTTCCATTTGTCTTCTCTATTAATATGGGAA
1 TTCTTTTGGAAAGAATATAATTCATATTTCTAAATTTCCATTTGTCTTCTCTAATAATAAGGGAA
24635728 TAACCTTATA
66 TAACCTTATA
24635738 TTCTTTTGGAAAGAATATAATTCATATTTCTAAATTTCCATTTGT-TTGCTCTAATAATAAGGGA
1 TTCTTTTGGAAAGAATATAATTCATATTTCTAAATTTCCATTTGTCTT-CTCTAATAATAAGGGA
24635802 ATA
65 ATA
24635805 CTCTTGGTTT
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
74 2 0.03
75 60 0.97
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.45
Consensus pattern (75 bp):
TTCTTTTGGAAAGAATATAATTCATATTTCTAAATTTCCATTTGTCTTCTCTAATAATAAGGGAA
TAACCTTATA
Found at i:24636250 original size:26 final size:26
Alignment explanation
Indices: 24636221--24636273 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
24636211 TAAACCGAAA
24636221 ACATATGAAATTTTTTAGAAAAAGGC
1 ACATATGAAATTTTTTAGAAAAAGGC
24636247 ACATATGAAATTTTTTAGAAAAAGGC
1 ACATATGAAATTTTTTAGAAAAAGGC
24636273 A
1 A
24636274 AATTTTTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.47, C:0.08, G:0.15, T:0.30
Consensus pattern (26 bp):
ACATATGAAATTTTTTAGAAAAAGGC
Found at i:24637525 original size:39 final size:39
Alignment explanation
Indices: 24637466--24637712 Score: 271
Period size: 39 Copynumber: 6.3 Consensus size: 39
24637456 CTACCAAGAT
*
24637466 TACTGAAGTACAACATGGGCACGTAAGTGCATTCAGGGG
1 TACTGAAGTACAACAAGGGCACGTAAGTGCATTCAGGGG
* *
24637505 TACTAAAGTACAACAAGGGCACCTAAGTGCATTCAGGGG
1 TACTGAAGTACAACAAGGGCACGTAAGTGCATTCAGGGG
* * * * *
24637544 TACTGAAGTACAATAGGGGCACGCAAGTACATTCAGTGG
1 TACTGAAGTACAACAAGGGCACGTAAGTGCATTCAGGGG
** * * * * * *
24637583 TACCAAAGGACAACACGTGTACATAACTGCAATT-AGGGG
1 TACTGAAGTACAACAAGGGCACGTAAGTGC-ATTCAGGGG
* * * *
24637622 TACCGAAGTACAATAGGGGCACGTAAGTGCATTTAGGGG
1 TACTGAAGTACAACAAGGGCACGTAAGTGCATTCAGGGG
* *
24637661 TACTGAAGTACAACAAAGGCACGTAAGTGAATTCAGGGG
1 TACTGAAGTACAACAAGGGCACGTAAGTGCATTCAGGGG
*
24637700 TACCGAAGTACAA
1 TACTGAAGTACAA
24637713 TAGTTTTCTA
Statistics
Matches: 169, Mismatches: 37, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
38 3 0.02
39 163 0.96
40 3 0.02
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (39 bp):
TACTGAAGTACAACAAGGGCACGTAAGTGCATTCAGGGG
Found at i:24637561 original size:19 final size:19
Alignment explanation
Indices: 24637539--24637673 Score: 60
Period size: 19 Copynumber: 6.9 Consensus size: 19
24637529 AAGTGCATTC
24637539 AGGGGTACTGAAGTACAAT
1 AGGGGTACTGAAGTACAAT
* *
24637558 AGGGGCAC-GCAAGTACATT
1 AGGGGTACTG-AAGTACAAT
* ** * *
24637577 CAGTGGTACCAAAGGACAAC
1 -AGGGGTACTGAAGTACAAT
* * * *
24637597 ACGTGTACAT-AACTGCAATT
1 AGGGGTAC-TGAAGTACAA-T
*
24637617 AGGGGTACCGAAGTACAAT
1 AGGGGTACTGAAGTACAAT
* * *
24637636 AGGGGCAC-GTAAGTGCATTT
1 AGGGGTACTG-AAGTACA-AT
24637656 AGGGGTACTGAAGTACAA
1 AGGGGTACTGAAGTACAA
24637674 CAAAGGCACG
Statistics
Matches: 80, Mismatches: 27, Indels: 18
0.64 0.22 0.14
Matches are distributed among these distances:
18 2 0.03
19 39 0.49
20 38 0.47
21 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.29, T:0.19
Consensus pattern (19 bp):
AGGGGTACTGAAGTACAAT
Found at i:24637596 original size:78 final size:78
Alignment explanation
Indices: 24637470--24637715 Score: 314
Period size: 78 Copynumber: 3.2 Consensus size: 78
24637460 CAAGATTACT
* * *
24637470 GAAGTACAACATGGGCACGTAAGTGCATTCAGGGGTACTAAAGTACAACAAGGGCACCTAAGTGC
1 GAAGTACAATAGGGGCACGTAAGTGCATTCAGGGGTACTAAAGTACAACAAGGGCACATAAGTGC
*
24637535 ATTCAGGGGTACT
66 ATTCAGGGGTACC
* * * * * * * * *
24637548 GAAGTACAATAGGGGCACGCAAGTACATTCAGTGGTACCAAAGGACAACACGTGTACATAACTGC
1 GAAGTACAATAGGGGCACGTAAGTGCATTCAGGGGTACTAAAGTACAACAAGGGCACATAAGTGC
24637613 AATT-AGGGGTACC
66 -ATTCAGGGGTACC
* * * * *
24637626 GAAGTACAATAGGGGCACGTAAGTGCATTTAGGGGTACTGAAGTACAACAAAGGCACGTAAGTGA
1 GAAGTACAATAGGGGCACGTAAGTGCATTCAGGGGTACTAAAGTACAACAAGGGCACATAAGTGC
24637691 ATTCAGGGGTACC
66 ATTCAGGGGTACC
24637704 GAAGTACAATAG
1 GAAGTACAATAG
24637716 TTTTCTACTA
Statistics
Matches: 139, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
77 3 0.02
78 133 0.96
79 3 0.02
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (78 bp):
GAAGTACAATAGGGGCACGTAAGTGCATTCAGGGGTACTAAAGTACAACAAGGGCACATAAGTGC
ATTCAGGGGTACC
Found at i:24637635 original size:20 final size:20
Alignment explanation
Indices: 24637612--24637673 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
24637602 TACATAACTG
24637612 CAATTAGGGGTACCGAAGTA
1 CAATTAGGGGTACCGAAGTA
* *
24637632 CAA-TAGGGGCA-CGTAAGTG
1 CAATTAGGGGTACCG-AAGTA
* *
24637651 CATTTAGGGGTACTGAAGTA
1 CAATTAGGGGTACCGAAGTA
24637671 CAA
1 CAA
24637674 CAAAGGCACG
Statistics
Matches: 32, Mismatches: 7, Indels: 6
0.71 0.16 0.13
Matches are distributed among these distances:
18 2 0.06
19 13 0.41
20 16 0.50
21 1 0.03
ACGTcount: A:0.34, C:0.15, G:0.31, T:0.21
Consensus pattern (20 bp):
CAATTAGGGGTACCGAAGTA
Found at i:24644648 original size:39 final size:39
Alignment explanation
Indices: 24644593--24644842 Score: 322
Period size: 39 Copynumber: 6.4 Consensus size: 39
24644583 AGTAGAAAAC
* *
24644593 TGTTGTACTTCGGTACCCCTGGATGCACTTACATGCCCT
1 TGTTGTACTTCGGTACCCCTGAATGCACTTACGTGCCCT
* *
24644632 TGTTGTACTTCAGTACCCCTGAATGCACTTACGCGCCCT
1 TGTTGTACTTCGGTACCCCTGAATGCACTTACGTGCCCT
* * *
24644671 TGTTGTACTTTGGTACCCCTGAATGCACTTATGTGCCCC
1 TGTTGTACTTCGGTACCCCTGAATGCACTTACGTGCCCT
* * * **
24644710 TGTTGCACTTCAGTACCCCTAAATGCACTTGTGTGCTCC-
1 TGTTGTACTTCGGTACCCCTGAATGCACTTACGTGC-CCT
* *
24644749 TGTTGTACTTTGGTACCCCTGAATGCACTTACGTGCCCC
1 TGTTGTACTTCGGTACCCCTGAATGCACTTACGTGCCCT
* *
24644788 TGTTGTACTTTGGTACCCCTGAACGCACTTACGTGCCCT
1 TGTTGTACTTCGGTACCCCTGAATGCACTTACGTGCCCT
* *
24644827 TGTTGTGCTTTGGTAC
1 TGTTGTACTTCGGTAC
24644843 TCCCGATAGC
Statistics
Matches: 186, Mismatches: 23, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
38 2 0.01
39 182 0.98
40 2 0.01
ACGTcount: A:0.16, C:0.30, G:0.20, T:0.34
Consensus pattern (39 bp):
TGTTGTACTTCGGTACCCCTGAATGCACTTACGTGCCCT
Found at i:24644661 original size:20 final size:19
Alignment explanation
Indices: 24644599--24644739 Score: 63
Period size: 20 Copynumber: 7.2 Consensus size: 19
24644589 AAACTGTTGT
*
24644599 ACTTCGGTACCCCTGGATGC
1 ACTTCAGTACCCCT-GATGC
* * * *
24644619 ACTTACA-TGCCCTTGTTGT
1 ACTT-CAGTACCCCTGATGC
24644638 ACTTCAGTACCCCTGAATGC
1 ACTTCAGTACCCCTG-ATGC
** * * *
24644658 ACTT-ACGCGCCCTTGTTGT
1 ACTTCA-GTACCCCTGATGC
**
24644677 ACTTTGGTACCCCTGAATGC
1 ACTTCAGTACCCCTG-ATGC
* *
24644697 ACTT-ATGTGCCCCTGTTGC
1 ACTTCA-GTACCCCTGATGC
*
24644716 ACTTCAGTACCCCTAAATGC
1 ACTTCAGTACCCCT-GATGC
24644736 ACTT
1 ACTT
24644740 GTGTGCTCCT
Statistics
Matches: 86, Mismatches: 26, Indels: 18
0.66 0.20 0.14
Matches are distributed among these distances:
18 2 0.02
19 40 0.47
20 43 0.50
21 1 0.01
ACGTcount: A:0.18, C:0.32, G:0.18, T:0.32
Consensus pattern (19 bp):
ACTTCAGTACCCCTGATGC
Found at i:24644718 original size:19 final size:19
Alignment explanation
Indices: 24644694--24644797 Score: 68
Period size: 19 Copynumber: 5.4 Consensus size: 19
24644684 TACCCCTGAA
24644694 TGCACTTATGTGCCCCTGT
1 TGCACTTATGTGCCCCTGT
* **
24644713 TGCACTTCA-GTACCCCTAAA
1 TGCACTT-ATGTGCCCCT-GT
* *
24644733 TGCACTTGTGTGCTCCTGT
1 TGCACTTATGTGCCCCTGT
* * *
24644752 TGTACTT-TGGTACCCCTGAA
1 TGCACTTAT-GTGCCCCTG-T
*
24644772 TGCACTTACGTGCCCCTGT
1 TGCACTTATGTGCCCCTGT
*
24644791 TGTACTT
1 TGCACTT
24644798 TGGTACCCCT
Statistics
Matches: 62, Mismatches: 17, Indels: 12
0.68 0.19 0.13
Matches are distributed among these distances:
18 1 0.02
19 33 0.53
20 28 0.45
ACGTcount: A:0.15, C:0.30, G:0.19, T:0.36
Consensus pattern (19 bp):
TGCACTTATGTGCCCCTGT
Found at i:24644722 original size:78 final size:78
Alignment explanation
Indices: 24644593--24644842 Score: 358
Period size: 78 Copynumber: 3.2 Consensus size: 78
24644583 AGTAGAAAAC
* * * *
24644593 TGTTGTACTTCGGTACCCCTGGATGCACTTACATGCCCTTGTTGTACTTCAGTACCCCTGAATGC
1 TGTTGTACTTTGGTACCCCTGAATGCACTTACGTGCCCCTGTTGTACTTCAGTACCCCTGAATGC
*
24644658 ACTTACGCGCCCT
66 ACTTACGTGCCCT
* * *
24644671 TGTTGTACTTTGGTACCCCTGAATGCACTTATGTGCCCCTGTTGCACTTCAGTACCCCTAAATGC
1 TGTTGTACTTTGGTACCCCTGAATGCACTTACGTGCCCCTGTTGTACTTCAGTACCCCTGAATGC
**
24644736 ACTTGTGTGCTCC-
66 ACTTACGTGC-CCT
** *
24644749 TGTTGTACTTTGGTACCCCTGAATGCACTTACGTGCCCCTGTTGTACTTTGGTACCCCTGAACGC
1 TGTTGTACTTTGGTACCCCTGAATGCACTTACGTGCCCCTGTTGTACTTCAGTACCCCTGAATGC
24644814 ACTTACGTGCCCT
66 ACTTACGTGCCCT
*
24644827 TGTTGTGCTTTGGTAC
1 TGTTGTACTTTGGTAC
24644843 TCCCGATAGC
Statistics
Matches: 151, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
77 2 0.01
78 147 0.97
79 2 0.01
ACGTcount: A:0.16, C:0.30, G:0.20, T:0.34
Consensus pattern (78 bp):
TGTTGTACTTTGGTACCCCTGAATGCACTTACGTGCCCCTGTTGTACTTCAGTACCCCTGAATGC
ACTTACGTGCCCT
Found at i:24650805 original size:16 final size:16
Alignment explanation
Indices: 24650792--24650846 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
24650782 TAGAATAGGA
24650792 TTGTAATGGAATAGAG
1 TTGTAATGGAATAGAG
* *
24650808 TTGTAATGTAATATAG
1 TTGTAATGGAATAGAG
* *
24650824 CTGTAATGGAATAAAG
1 TTGTAATGGAATAGAG
24650840 TTGTAAT
1 TTGTAAT
24650847 CAGTAATTCA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.38, C:0.02, G:0.24, T:0.36
Consensus pattern (16 bp):
TTGTAATGGAATAGAG
Found at i:24661253 original size:26 final size:26
Alignment explanation
Indices: 24661212--24661263 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
24661202 AAGAAAAGAA
*
24661212 AGTAGAAAGAAGCTTGCCAAACCCTT
1 AGTAGAAAGAAACTTGCCAAACCCTT
* *
24661238 AGTAGAAGGAAACTTGTCAAACCCTT
1 AGTAGAAAGAAACTTGCCAAACCCTT
24661264 TCATCCATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.21
Consensus pattern (26 bp):
AGTAGAAAGAAACTTGCCAAACCCTT
Found at i:24666058 original size:16 final size:16
Alignment explanation
Indices: 24666037--24666073 Score: 67
Period size: 15 Copynumber: 2.4 Consensus size: 16
24666027 GCTTAGGGGT
24666037 AATACCCCTAGGTACC
1 AATACCCCTAGGTACC
24666053 AATA-CCCTAGGTACC
1 AATACCCCTAGGTACC
24666068 AATACC
1 AATACC
24666074 TCACCCTAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 15 0.75
16 5 0.25
ACGTcount: A:0.35, C:0.35, G:0.11, T:0.19
Consensus pattern (16 bp):
AATACCCCTAGGTACC
Found at i:24669130 original size:23 final size:21
Alignment explanation
Indices: 24669104--24669161 Score: 71
Period size: 23 Copynumber: 2.6 Consensus size: 21
24669094 TATCCATTTG
24669104 TTTTATTTATTTATAAATAATAT
1 TTTTA-TTATTTATAAAT-ATAT
*
24669127 TTTTGATTATTTTATAAATATTT
1 TTTT-ATTA-TTTATAAATATAT
24669150 TTTTATTATTTA
1 TTTTATTATTTA
24669162 AGAAATGCAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
21 4 0.12
22 4 0.12
23 14 0.44
24 10 0.31
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (21 bp):
TTTTATTATTTATAAATATAT
Found at i:24669145 original size:24 final size:22
Alignment explanation
Indices: 24669113--24669160 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
24669103 GTTTTATTTA
24669113 TTTATAAATAATATTTTTGATTAT
1 TTTATAAAT-AT-TTTTTGATTAT
*
24669137 TTTATAAATATTTTTTTATTAT
1 TTTATAAATATTTTTTGATTAT
24669159 TT
1 TT
24669161 AAGAAATGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 12 0.52
23 2 0.09
24 9 0.39
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (22 bp):
TTTATAAATATTTTTTGATTAT
Found at i:24669167 original size:22 final size:22
Alignment explanation
Indices: 24669099--24669161 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 22
24669089 ATACTTATCC
24669099 ATTTGTTTTATTTATTTATAAATA
1 ATTT-TTTTA-TTATTTATAAATA
*
24669123 ATATTTTTGATTATTTTATAAAT-
1 AT-TTTTTTATTA-TTTATAAATA
24669146 ATTTTTTTATTATTTA
1 ATTTTTTTATTATTTA
24669162 AGAAATGCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
21 4 0.11
22 9 0.26
23 5 0.14
24 15 0.43
25 2 0.06
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (22 bp):
ATTTTTTTATTATTTATAAATA
Found at i:24669967 original size:43 final size:43
Alignment explanation
Indices: 24669902--24670001 Score: 128
Period size: 43 Copynumber: 2.3 Consensus size: 43
24669892 AAAAATAAAT
* ** * *
24669902 GCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCCGCAAAC
1 GCCGCTAAAGGACAAATACTTTAGCGGCGCTTTTCCCGAAAAC
*
24669945 GCCGCTAAAGGACAAATACTTTAGCGGCGCTTTTCCTGAAAAC
1 GCCGCTAAAGGACAAATACTTTAGCGGCGCTTTTCCCGAAAAC
* *
24669988 ACCGCTAAAAGACA
1 GCCGCTAAAGGACA
24670002 TGTTAAATAA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (43 bp):
GCCGCTAAAGGACAAATACTTTAGCGGCGCTTTTCCCGAAAAC
Found at i:24670156 original size:43 final size:43
Alignment explanation
Indices: 24670024--24670159 Score: 227
Period size: 43 Copynumber: 3.2 Consensus size: 43
24670014 AAAAATAAAT
*
24670024 GCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCGCAAAC
1 GCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCACAAAC
*
24670067 GCCACTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCACAAAC
1 GCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCACAAAC
* * *
24670110 GCCGTTAAAGGTCATGTTCTTTAGCGGTGCTTTTCCCACAAAC
1 GCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCACAAAC
24670153 GCCGCTA
1 GCCGCTA
24670160 TTGTTTGGTG
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 86 1.00
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.27
Consensus pattern (43 bp):
GCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCACAAAC
Found at i:24681900 original size:15 final size:14
Alignment explanation
Indices: 24681882--24681924 Score: 61
Period size: 15 Copynumber: 3.0 Consensus size: 14
24681872 TTATGCATGA
24681882 TATTATTGTATCTGT
1 TATT-TTGTATCTGT
24681897 TATTTCTGTATCTG-
1 TATTT-TGTATCTGT
24681911 TATTTTGTATCTGT
1 TATTTTGTATCTGT
24681925 GATTGGCGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 8 0.31
14 6 0.23
15 12 0.46
ACGTcount: A:0.16, C:0.09, G:0.14, T:0.60
Consensus pattern (14 bp):
TATTTTGTATCTGT
Found at i:24688921 original size:15 final size:15
Alignment explanation
Indices: 24688903--24688945 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
24688893 TTATGCATGA
24688903 TATTATTGTATCTGT
1 TATTATTGTATCTGT
* *
24688918 TATTTTTGTATCAG-
1 TATTATTGTATCTGT
24688932 TATTA-TGTATCTGT
1 TATTATTGTATCTGT
24688946 GATTGGCGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
13 7 0.30
14 4 0.17
15 12 0.52
ACGTcount: A:0.21, C:0.07, G:0.14, T:0.58
Consensus pattern (15 bp):
TATTATTGTATCTGT
Found at i:24691102 original size:24 final size:24
Alignment explanation
Indices: 24691075--24691132 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
24691065 ATTGATTTTT
* *
24691075 AAAATTTAAA-ATTTCAAAAAATTC
1 AAAATTTAAAGA-TTAAAAAAAGTC
* *
24691099 AAAAATTAAAGATTAAAAAAAGTG
1 AAAATTTAAAGATTAAAAAAAGTC
24691123 AAAATTTAAA
1 AAAATTTAAA
24691133 TGAATGACTA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
24 27 0.96
25 1 0.04
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.28
Consensus pattern (24 bp):
AAAATTTAAAGATTAAAAAAAGTC
Found at i:24695535 original size:20 final size:19
Alignment explanation
Indices: 24695510--24695559 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
24695500 TAATAGTATT
24695510 TTATTAATTTAATATTAAAA
1 TTATTAATTTAATATT-AAA
24695530 TTATT-ATCTTAATATTAAA
1 TTATTAAT-TTAATATTAAA
24695549 -T-TTAATTTAAT
1 TTATTAATTTAAT
24695560 GTTTATCTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
17 7 0.25
18 3 0.11
19 5 0.18
20 13 0.46
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (19 bp):
TTATTAATTTAATATTAAA
Found at i:24695566 original size:68 final size:72
Alignment explanation
Indices: 24695470--24695600 Score: 189
Period size: 68 Copynumber: 1.9 Consensus size: 72
24695460 TTTAATAGAT
* *
24695470 TTAATATTAAATTAAATTTAATACTTATC-T-TA-AT-AGTATTTTATTAATTTAATATTAAAAT
1 TTAATATTAAATTAAATTTAATACTTATCTTGTAGATAAATATTCTATTAATTTAATATTAAAAT
24695531 TATTATC
66 TATTATC
* **
24695538 TTAATATTAAATTTAATTTAATGTTTATCTTGTAGATAAATATTCTATTAATTTAATATTAAA
1 TTAATATTAAATTAAATTTAATACTTATCTTGTAGATAAATATTCTATTAATTTAATATTAAA
24695601 GTGATTAAGT
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
68 26 0.48
69 1 0.02
70 2 0.04
71 2 0.04
72 23 0.43
ACGTcount: A:0.42, C:0.04, G:0.03, T:0.51
Consensus pattern (72 bp):
TTAATATTAAATTAAATTTAATACTTATCTTGTAGATAAATATTCTATTAATTTAATATTAAAAT
TATTATC
Found at i:24696280 original size:49 final size:49
Alignment explanation
Indices: 24696208--24696371 Score: 197
Period size: 49 Copynumber: 3.3 Consensus size: 49
24696198 TTTTCCAATA
*
24696208 ATTCTACCATCCC-GAGTGGCCCAACAATGATGATTTTCACTATTTGCAT
1 ATTCTACCATCCCAG-GTGGCCCAACAATGATGGTTTTCACTATTTGCAT
* * *
24696257 ATTCTACCATCCCAGGTGACCCAACAATGATGGTTTTCACAATTTTCAT
1 ATTCTACCATCCCAGGTGGCCCAACAATGATGGTTTTCACTATTTGCAT
*** * * *
24696306 ATTCTACCATCTTGGGTGGCTCGAA-AATGATGGCTTTCACTGTTTGCAT
1 ATTCTACCATCCCAGGTGGC-CCAACAATGATGGTTTTCACTATTTGCAT
*
24696355 ATCCTACCATCCCAGGT
1 ATTCTACCATCCCAGGT
24696372 TGCCTGACAA
Statistics
Matches: 96, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
49 92 0.96
50 4 0.04
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (49 bp):
ATTCTACCATCCCAGGTGGCCCAACAATGATGGTTTTCACTATTTGCAT
Found at i:24698244 original size:16 final size:16
Alignment explanation
Indices: 24698223--24698253 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24698213 TATTATTTTC
*
24698223 TTATATATTATGAAAT
1 TTATATAATATGAAAT
24698239 TTATATAATATGAAA
1 TTATATAATATGAAA
24698254 ATTAAGTATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (16 bp):
TTATATAATATGAAAT
Found at i:24701981 original size:2 final size:2
Alignment explanation
Indices: 24701974--24702006 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
24701964 TTAAGTTATG
24701974 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
24702007 TATTTACCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:24702413 original size:18 final size:18
Alignment explanation
Indices: 24702381--24702419 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
24702371 TTATAATTCT
*
24702381 TATACGTACACACATATA
1 TATACGTACACACATACA
* *
24702399 TATACGTATAGACATACA
1 TATACGTACACACATACA
24702417 TAT
1 TAT
24702420 TTTCATTATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.18, G:0.08, T:0.31
Consensus pattern (18 bp):
TATACGTACACACATACA
Found at i:24702587 original size:15 final size:15
Alignment explanation
Indices: 24702567--24702600 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
24702557 TTTATTTTTG
* *
24702567 TTATTTTTGCTCGTA
1 TTATTTTTACTCGCA
24702582 TTATTTTTACTCGCA
1 TTATTTTTACTCGCA
24702597 TTAT
1 TTAT
24702601 CATAATTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.15, G:0.09, T:0.59
Consensus pattern (15 bp):
TTATTTTTACTCGCA
Found at i:24707584 original size:14 final size:14
Alignment explanation
Indices: 24707563--24707610 Score: 53
Period size: 13 Copynumber: 3.4 Consensus size: 14
24707553 TACTTCACTT
*
24707563 GAAAAAAAAAGAAAC
1 GAAAAAAAAA-AAAA
24707578 GAAAAAAAAAAAAA
1 GAAAAAAAAAAAAA
**
24707592 G-AAAAATGAAAAA
1 GAAAAAAAAAAAAA
24707605 GAAAAA
1 GAAAAA
24707611 GGAGAGGCCA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
13 11 0.38
14 8 0.28
15 10 0.34
ACGTcount: A:0.83, C:0.02, G:0.12, T:0.02
Consensus pattern (14 bp):
GAAAAAAAAAAAAA
Found at i:24708584 original size:50 final size:50
Alignment explanation
Indices: 24708503--24709576 Score: 406
Period size: 50 Copynumber: 21.7 Consensus size: 50
24708493 GCAATTAAAA
** * * ***
24708503 AGATTGAAGCCGCAACAGTGAATCTTACTTCCCTAGCGATGCAGTGGGGC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTAGCGATGCAGTGAAAC
* * * * * *
24708553 AGATTAAAACTACAACGGCGAATCTTGCTTCCC-CGAC-ATTGCAGTTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTAG-CGA-TGCAGTGAAAC
** * * * * *
24708603 AGATTGAAGCCGCAACGGTGAATCTTACTTCCCTGGCGATGTAGTGGATC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTAGCGATGCAGTGAAAC
* * * * * *
24708653 AGATTGAAGCTACAACGGCGAATCTT-GTTCCCCAAC-ATTGCAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTAGCGA-TGCAGTGAAAC
** * * * *
24708702 AGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGATGTAGTGGATC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTAGCGATGCAGTGAAAC
* * * * * * *
24708752 AGATTAAAGCTACAACGGCGAATCTT-GTTCCCCAAC-ATTGCAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTAGCGA-TGCAGTGAAAC
* * * *
24708801 AGATTGAAGCCACAACGGCGAATCTTACTTCCTTGGCGATGCAGTGAAGC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTAGCGATGCAGTGAAAC
* * * * * * * *
24708851 AGATTAAAGCTACGACGGTGAATCTTGCTTCCC-CGAC-ATTGCAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTAG-CGA-TGCAGTGAAAC
* * * * * * *
24708901 AGCTTGAAGCTTCAACGGCGAATCTTACTTTCCTGGCGGTGCAGTGGAGC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTAGCGATGCAGTGAAAC
* * * * * * * *
24708951 AGATTAAAGCTACGACGGTGAATCTTGCTTCCC-CGAC-ATCACAATTAAA-
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTAG-CGAT-GCAGTGAAAC
* * * ** * * * *
24709000 AGATTAAAG-TCGCAACGGTGAATCTTACTTTTCTGGCAATGCAGTGGATC
1 AGATTGAAGCT-ACAACGGCGAATCTTACTTCCCTAGCGATGCAGTGAAAC
** * * * * * * * * *
24709050 ATCTTAAAGCTACGACGACGAATTTTGCTTCCC-CGAC-ATTGCAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTAG-CGA-TGCAGTGAAAC
* * * * * * *
24709100 AGATTGAATC-ACAAGGGCGAATCTTACTTTCCTGGCAATGCAGTGGATC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTAGCGATGCAGTGAAAC
* * * * ** * * *
24709149 AAATTGAAGCTACAACGGCAAATCTT-GTTCCC-CGATATTGCAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTAGCGA-TGCAGTGAAAC
** ** * * ***
24709198 AGATTGAAGCCGCAACGATGAATCTTACTTCCCTGGCAATGCAGTGGGGC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTAGCGATGCAGTGAAAC
* * * * * *
24709248 AGATTAAAGCTACAACGGCGAATCTTGCTTCCC-CGAC-ATTGCAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTAG-CGA-TGCAGTGAAAC
** * * * *
24709298 AGATTGAAGCCGCAACGGTGAATCTTACTTCCCTAGTGATGCAGTGGATC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTAGCGATGCAGTGAAAC
* * * * * * *
24709348 AGATTGAAGCTACAACGGTGAATCTT-GTTCCCGAAC-ATTGCAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTAGCGA-TGCAGTGAAAC
* * ** * * * *
24709397 AGATTGAAGCTGCAACGACGAATCTTACTTTTCTGGCGGTGC-GTGGAGC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTAGCGATGCAGTGAAAC
* * * * *
24709446 AGATTAAAGCTACGACGGCGAATCTTGCTTCCC-CGAC-ATTGCAATGAAA-
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTAG-CGA-TGCAGTGAAAC
* ** ** * *
24709495 AAATTGAAGCCGCAATAGCGAATCTTACTTCTCT-G-GTAGTGTAGT-AGAAC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTAGCG-A-TGCAGTGA-AAC
*
24709545 AGATTGAAGCTACAACAGCGAATCTTA-TTCCC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCC
24709577 CGACATTGCA
Statistics
Matches: 714, Mismatches: 266, Indels: 89
0.67 0.25 0.08
Matches are distributed among these distances:
48 8 0.01
49 275 0.39
50 421 0.59
51 10 0.01
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (50 bp):
AGATTGAAGCTACAACGGCGAATCTTACTTCCCTAGCGATGCAGTGAAAC
Found at i:24708734 original size:99 final size:100
Alignment explanation
Indices: 24708490--24709591 Score: 1407
Period size: 99 Copynumber: 11.1 Consensus size: 100
24708480 TACCTCTGAG
* * * *
24708490 ATTGCAATTAAAAAGATTGAAGCCGCAACAGTGAATCTTACTTCCCTAGCGATGCAGTGGGGCAG
1 ATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGATGCAGTGGAGCAG
*
24708555 ATTAAAACTACAACGGCGAATCTTGCTTCCCCGAC
66 ATTAAAGCTACAACGGCGAATCTTGCTTCCCCGAC
* * * *
24708590 ATTGCAGTTAAAAAGATTGAAGCCGCAACGGTGAATCTTACTTCCCTGGCGATGTAGTGGATCAG
1 ATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGATGCAGTGGAGCAG
* *
24708655 ATTGAAGCTACAACGGCGAATCTTG-TTCCCCAAC
66 ATTAAAGCTACAACGGCGAATCTTGCTTCCCCGAC
* *
24708689 ATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGATGTAGTGGATCAG
1 ATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGATGCAGTGGAGCAG
*
24708754 ATTAAAGCTACAACGGCGAATCTTG-TTCCCCAAC
66 ATTAAAGCTACAACGGCGAATCTTGCTTCCCCGAC
* * *
24708788 ATTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCTTGGCGATGCAGTGAAGCAG
1 ATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGATGCAGTGGAGCAG
* *
24708853 ATTAAAGCTACGACGGTGAATCTTGCTTCCCCGAC
66 ATTAAAGCTACAACGGCGAATCTTGCTTCCCCGAC
* ** * *
24708888 ATTGCAATTAAAAAGCTTGAAGCTTCAACGGCGAATCTTACTTTCCTGGCGGTGCAGTGGAGCAG
1 ATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGATGCAGTGGAGCAG
* *
24708953 ATTAAAGCTACGACGGTGAATCTTGCTTCCCCGAC
66 ATTAAAGCTACAACGGCGAATCTTGCTTCCCCGAC
** * * * ** * * *
24708988 ATCACAATT-AAAAGATTAAAGTCGCAACGGTGAATCTTACTTTTCTGGCAATGCAGTGGATCAT
1 ATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGATGCAGTGGAGCAG
* * * *
24709052 CTTAAAGCTACGACGACGAATTTTGCTTCCCCGAC
66 ATTAAAGCTACAACGGCGAATCTTGCTTCCCCGAC
* * * * * * *
24709087 ATTGCAATTAAAAAGATTGAA-TCACAAGGGCGAATCTTACTTTCCTGGCAATGCAGTGGATCAA
1 ATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGATGCAGTGGAGCAG
* * *
24709151 ATTGAAGCTACAACGGCAAATCTTG-TTCCCCGAT
66 ATTAAAGCTACAACGGCGAATCTTGCTTCCCCGAC
** * *
24709185 ATTGCAATTAAAAAGATTGAAGCCGCAACGATGAATCTTACTTCCCTGGCAATGCAGTGGGGCAG
1 ATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGATGCAGTGGAGCAG
24709250 ATTAAAGCTACAACGGCGAATCTTGCTTCCCCGAC
66 ATTAAAGCTACAACGGCGAATCTTGCTTCCCCGAC
* * * *
24709285 ATTGCAATTAAAAAGATTGAAGCCGCAACGGTGAATCTTACTTCCCTAGTGATGCAGTGGATCAG
1 ATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGATGCAGTGGAGCAG
* *
24709350 ATTGAAGCTACAACGGTGAATCTTG-TT-CCCGAAC
66 ATTAAAGCTACAACGGCGAATCTTGCTTCCCCG-AC
* * ** *
24709384 ATTGCAATTAAAAAGATTGAAGCTGCAACGACGAATCTTACTTTTCTGGCGGTGC-GTGGAGCAG
1 ATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGATGCAGTGGAGCAG
*
24709448 ATTAAAGCTACGACGGCGAATCTTGCTTCCCCGAC
66 ATTAAAGCTACAACGGCGAATCTTGCTTCCCCGAC
* ** * * * * *
24709483 ATTGCAATGAAAAA-ATTGAAGCCGCAATAGCGAATCTTACTTCTCTGG-TAGTGTAGTAGAACA
1 ATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGA-TGCAGTGGAGCA
* * *
24709546 GATTGAAGCTACAACAGCGAATCTT-ATTCCCCGAC
65 GATTAAAGCTACAACGGCGAATCTTGCTTCCCCGAC
*
24709581 ATTGCAGTTAA
1 ATTGCAATTAA
24709592 TTAGACTGAA
Statistics
Matches: 885, Mismatches: 108, Indels: 20
0.87 0.11 0.02
Matches are distributed among these distances:
98 112 0.13
99 479 0.54
100 294 0.33
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (100 bp):
ATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGATGCAGTGGAGCAG
ATTAAAGCTACAACGGCGAATCTTGCTTCCCCGAC
Found at i:24708892 original size:199 final size:199
Alignment explanation
Indices: 24708490--24709591 Score: 1421
Period size: 199 Copynumber: 5.6 Consensus size: 199
24708480 TACCTCTGAG
* * * **
24708490 ATTGCAATTAAAAAGATTGAAGCCGCAACAGTGAATCTTACTTCCCTAGCGATGCAGTGGGGCAG
1 ATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGATGCAGTGGATCAG
* *
24708555 ATTAAAACTACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTGAAGCCGCAACG
66 ATTAAAGCTACAACGGCGAATCTTG-TTCCCCGACATTGCAATTAAAAAGATTGAAGCCGCAACG
* * * * *
24708620 GTGAATCTTACTTCCCTGGCGATGTAGTGGATCAGATTGAAGCTACAACGGCGAATCTTG-TTCC
130 GTGAATCTTACTTCCTTGGCGATGCAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCC
*
24708684 CCAAC
195 CCGAC
*
24708689 ATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGATGTAGTGGATCAG
1 ATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGATGCAGTGGATCAG
* *
24708754 ATTAAAGCTACAACGGCGAATCTTGTTCCCCAACATTGCAATTAAAAAGATTGAAGCCACAACGG
66 ATTAAAGCTACAACGGCGAATCTTGTTCCCCGACATTGCAATTAAAAAGATTGAAGCCGCAACGG
* * *
24708819 CGAATCTTACTTCCTTGGCGATGCAGTGAAGCAGATTAAAGCTACGACGGTGAATCTTGCTTCCC
131 TGAATCTTACTTCCTTGGCGATGCAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCC
24708884 CGAC
196 CGAC
* ** * * *
24708888 ATTGCAATTAAAAAGCTTGAAGCTTCAACGGCGAATCTTACTTTCCTGGCGGTGCAGTGGAGCAG
1 ATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGATGCAGTGGATCAG
* * ** * *
24708953 ATTAAAGCTACGACGGTGAATCTTGCTTCCCCGACATCACAATT-AAAAGATTAAAGTCGCAACG
66 ATTAAAGCTACAACGGCGAATCTTG-TTCCCCGACATTGCAATTAAAAAGATTGAAGCCGCAACG
* * * ** * *
24709017 GTGAATCTTACTT-TTCTGGCAATGCAGTGGATCATCTTAAAGCTACGACGACGAATTTTGCTTC
130 GTGAATCTTACTTCCT-TGGCGATGCAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTC
24709081 CCCGAC
194 CCCGAC
* * * * * *
24709087 ATTGCAATTAAAAAGATTGAA-TCACAAGGGCGAATCTTACTTTCCTGGCAATGCAGTGGATCAA
1 ATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGATGCAGTGGATCAG
* * * *
24709151 ATTGAAGCTACAACGGCAAATCTTGTTCCCCGATATTGCAATTAAAAAGATTGAAGCCGCAACGA
66 ATTAAAGCTACAACGGCGAATCTTGTTCCCCGACATTGCAATTAAAAAGATTGAAGCCGCAACGG
* * * *
24709216 TGAATCTTACTTCCCTGGCAATGCAGTGGGGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCC
131 TGAATCTTACTTCCTTGGCGATGCAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCC
24709281 CGAC
196 CGAC
* * *
24709285 ATTGCAATTAAAAAGATTGAAGCCGCAACGGTGAATCTTACTTCCCTAGTGATGCAGTGGATCAG
1 ATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGATGCAGTGGATCAG
* * *
24709350 ATTGAAGCTACAACGGTGAATCTTGTT-CCCGAACATTGCAATTAAAAAGATTGAAGCTGCAACG
66 ATTAAAGCTACAACGGCGAATCTTGTTCCCCG-ACATTGCAATTAAAAAGATTGAAGCCGCAACG
** * *
24709414 ACGAATCTTACTT-TTCTGGCGGTGC-GTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTC
130 GTGAATCTTACTTCCT-TGGCGATGCAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTC
24709477 CCCGAC
194 CCCGAC
* ** * * * * *
24709483 ATTGCAATGAAAAA-ATTGAAGCCGCAATAGCGAATCTTACTTCTCTGG-TAGTGTAGTAGAACA
1 ATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGA-TGCAGTGGATCA
* * * *
24709546 GATTGAAGCTACAACAGCGAATCTTATTCCCCGACATTGCAGTTAA
65 GATTAAAGCTACAACGGCGAATCTTGTTCCCCGACATTGCAATTAA
24709592 TTAGACTGAA
Statistics
Matches: 787, Mismatches: 106, Indels: 22
0.86 0.12 0.02
Matches are distributed among these distances:
196 1 0.00
197 90 0.11
198 306 0.39
199 375 0.48
200 15 0.02
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (199 bp):
ATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGATGCAGTGGATCAG
ATTAAAGCTACAACGGCGAATCTTGTTCCCCGACATTGCAATTAAAAAGATTGAAGCCGCAACGG
TGAATCTTACTTCCTTGGCGATGCAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCC
CGAC
Found at i:24709026 original size:298 final size:299
Alignment explanation
Indices: 24708490--24709591 Score: 1439
Period size: 298 Copynumber: 3.7 Consensus size: 299
24708480 TACCTCTGAG
* * * * * *
24708490 ATTGCAATTAAAAAGATTGAAGCCGCAACAGTGAATCTTACTTCCCTAGCGATGCAGTGGGGCAG
1 ATTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCTTGGCGATGCAGTGGAGCAG
* *
24708555 ATTAAAACTACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTGAAGCCGCAACG
66 ATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCCGCAACG
* * * * *
24708620 GTGAATCTTACTTCCCTGGCGATGTAGTGGATCAGATTGAAGCTACAACGGCGAATCTTG-TTCC
131 GCGAATCTTACTTCCCTGGCAATGCAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCC
* * *
24708684 CCAACATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGATGTAGTGG
196 CCGACATTGCAATTAAAAAGATTGAAGCCGCAACGGTGAATCTTACTTCCCTGGCGATGCAGTGG
24708749 ATCAGATTAAAGCTACAACGGCGAATCTTGTTCCCCAAC
261 ATCAGATTAAAGCTACAACGGCGAATCTTGTTCCCCAAC
*
24708788 ATTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCTTGGCGATGCAGTGAAGCAG
1 ATTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCTTGGCGATGCAGTGGAGCAG
* * * **
24708853 ATTAAAGCTACGACGGTGAATCTTGCTTCCCCGACATTGCAATTAAAAAGCTTGAAGCTTCAACG
66 ATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCCGCAACG
* ** * *
24708918 GCGAATCTTACTTTCCTGGCGGTGCAGTGGAGCAGATTAAAGCTACGACGGTGAATCTTGCTTCC
131 GCGAATCTTACTTCCCTGGCAATGCAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCC
** * * ** *
24708983 CCGACATCACAATT-AAAAGATTAAAGTCGCAACGGTGAATCTTACTTTTCTGGCAATGCAGTGG
196 CCGACATTGCAATTAAAAAGATTGAAGCCGCAACGGTGAATCTTACTTCCCTGGCGATGCAGTGG
** * * * *
24709047 ATCATCTTAAAGCTACGACGACGAATTTTGCTTCCCCGAC
261 ATCAGATTAAAGCTACAACGGCGAATCTTG-TTCCCCAAC
* * * *
24709087 ATTGCAATTAAAAAGATTGAA-TCACAAGGGCGAATCTTACTTTCC-TGGCAATGCAGTGGATCA
1 ATTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTAC-TTCCTTGGCGATGCAGTGGAGCA
* * * *
24709150 AATTGAAGCTACAACGGCAAATCTTG-TTCCCCGATATTGCAATTAAAAAGATTGAAGCCGCAAC
65 GATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCCGCAAC
** *
24709214 GATGAATCTTACTTCCCTGGCAATGCAGTGGGGCAGATTAAAGCTACAACGGCGAATCTTGCTTC
130 GGCGAATCTTACTTCCCTGGCAATGCAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTC
* *
24709279 CCCGACATTGCAATTAAAAAGATTGAAGCCGCAACGGTGAATCTTACTTCCCTAGTGATGCAGTG
195 CCCGACATTGCAATTAAAAAGATTGAAGCCGCAACGGTGAATCTTACTTCCCTGGCGATGCAGTG
* * *
24709344 GATCAGATTGAAGCTACAACGGTGAATCTTGTTCCCGAAC
260 GATCAGATTAAAGCTACAACGGCGAATCTTGTTCCCCAAC
** * * *
24709384 ATTGCAATTAAAAAGATTGAAGCTGCAACGACGAATCTTACTT-TTCTGGCGGTGC-GTGGAGCA
1 ATTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCT-TGGCGATGCAGTGGAGCA
* * *
24709447 GATTAAAGCTACGACGGCGAATCTTGCTTCCCCGACATTGCAATGAAAAA-ATTGAAGCCGCAAT
65 GATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCCGCAAC
* * * * * * * * * *
24709511 AGCGAATCTTACTTCTCTGGTAGTGTAGTAGAACAGATTGAAGCTACAACAGCGAATCTT-ATTC
130 GGCGAATCTTACTTCCCTGGCAATGCAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTC
*
24709575 CCCGACATTGCAGTTAA
195 CCCGACATTGCAATTAA
24709592 TTAGACTGAA
Statistics
Matches: 688, Mismatches: 108, Indels: 18
0.85 0.13 0.02
Matches are distributed among these distances:
296 19 0.03
297 224 0.33
298 397 0.58
299 48 0.07
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (299 bp):
ATTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCTTGGCGATGCAGTGGAGCAG
ATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCCGCAACG
GCGAATCTTACTTCCCTGGCAATGCAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCC
CCGACATTGCAATTAAAAAGATTGAAGCCGCAACGGTGAATCTTACTTCCCTGGCGATGCAGTGG
ATCAGATTAAAGCTACAACGGCGAATCTTGTTCCCCAAC
Found at i:24709633 original size:45 final size:45
Alignment explanation
Indices: 24709593--24709794 Score: 318
Period size: 45 Copynumber: 4.5 Consensus size: 45
24709583 TGCAGTTAAT
* *
24709593 TAGACTGAAGATAAC-AGATCTTGTCTTCCTGTATTGGCAGTGAAG
1 TAGACTGAAGATAGCAAG-TCTTGTCTTCCTGTATTGGCAGCGAAG
* *
24709638 TAGATTGAAGATAGCAAGTCTTGTCTTCCTGTATTGGCAGCAAAG
1 TAGACTGAAGATAGCAAGTCTTGTCTTCCTGTATTGGCAGCGAAG
*
24709683 TAGATTGAAGATAGCAAGTCTTGTCTTCCTGTATTGGCAGCGAAG
1 TAGACTGAAGATAGCAAGTCTTGTCTTCCTGTATTGGCAGCGAAG
24709728 TAGACTGAAGATAGCAAGTCTTGTCTTCCTGTATTGGCAGCGAAG
1 TAGACTGAAGATAGCAAGTCTTGTCTTCCTGTATTGGCAGCGAAG
*
24709773 TAGA-TCGAAGATAGCAGGTCTT
1 TAGACT-GAAGATAGCAAGTCTT
24709795 ATCTCCCTAA
Statistics
Matches: 148, Mismatches: 7, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
44 1 0.01
45 145 0.98
46 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (45 bp):
TAGACTGAAGATAGCAAGTCTTGTCTTCCTGTATTGGCAGCGAAG
Found at i:24709930 original size:40 final size:40
Alignment explanation
Indices: 24709790--24710030 Score: 191
Period size: 40 Copynumber: 5.8 Consensus size: 40
24709780 AAGATAGCAG
*
24709790 GTCTTATCTCCCTAAGCAGTAGTAGAGCAGA-CAAAAAAAATCAA
1 GTCTTATCTCCCTAAGCAGTAGTAGAGCAGATC-----GAATCAA
** * * * *
24709834 -TCTTATCTCCCTGAAGTTGTAGTGGAGCTGATTAGAACCACA
1 GTCTTATCTCCCT-AAGCAGTAGTAGAGCAGA-TCGAATCA-A
*
24709876 GATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGCATCAA
1 G-TCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAATCAA
* ** ** *
24709917 GTCTTATCTCCCTAAGCAGTAGTGGAGTGGAATAAAACCACA
1 GTCTTATCTCCCTAAGCAGTAGTAGAGCAG-ATCGAATCA-A
*
24709959 GATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGCATCAA
1 G-TCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAATCAA
* *
24710000 GTCTTA-CTTCCCTGAGCAGTAGTGGAGCAGA
1 GTCTTATC-TCCCTAAGCAGTAGTAGAGCAGA
24710031 CAGAAAAAAA
Statistics
Matches: 157, Mismatches: 30, Indels: 24
0.74 0.14 0.11
Matches are distributed among these distances:
39 1 0.01
40 52 0.33
41 13 0.08
42 13 0.08
43 52 0.33
44 26 0.17
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (40 bp):
GTCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAATCAA
Found at i:24709967 original size:83 final size:83
Alignment explanation
Indices: 24709791--24710027 Score: 311
Period size: 83 Copynumber: 2.8 Consensus size: 83
24709781 AGATAGCAGG
** **
24709791 TCTTATCTCCCTAAGCAGTAGTAGAGCAGA-CAAAAAAAATCAA-TCTTATCTCCCTGAAGTTGT
1 TCTTATCTCCCTAAGCAGTAGTAGAGCAGATC-----GCATCAAGTCTTATCTCCCT-AAGCAGT
* *
24709854 AGTGGAGCTGATTAGAACCACAGA
60 AGTGGAGCTGAATAAAACCACAGA
24709878 TCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGA
1 TCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGA
24709943 G-TGGAATAAAACCACAGA
66 GCT-GAATAAAACCACAGA
*
24709961 TCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGCATCAAGTCTTA-CTTCCCTGAGCAGTAGTGG
1 TCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGCATCAAGTCTTATC-TCCCTAAGCAGTAGTGG
24710025 AGC
65 AGC
24710028 AGACAGAAAA
Statistics
Matches: 138, Mismatches: 7, Indels: 13
0.87 0.04 0.08
Matches are distributed among these distances:
82 2 0.01
83 93 0.67
84 12 0.09
87 30 0.22
88 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (83 bp):
TCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGA
GCTGAATAAAACCACAGA
Found at i:24710817 original size:9 final size:9
Alignment explanation
Indices: 24710805--24710846 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
24710795 TTTCTTTTGA
24710805 TATTTTTTC
1 TATTTTTTC
*
24710814 TATTTATT-
1 TATTTTTTC
24710822 TATTTTTTC
1 TATTTTTTC
*
24710831 TCTTTTTTC
1 TATTTTTTC
24710840 T-TTTTTT
1 TATTTTTT
24710847 TTTCTTTCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
8 13 0.45
9 16 0.55
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.81
Consensus pattern (9 bp):
TATTTTTTC
Found at i:24710827 original size:17 final size:16
Alignment explanation
Indices: 24710805--24710845 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
24710795 TTTCTTTTGA
24710805 TATTTTTTCTATTTATT
1 TATTTTTTCTATTT-TT
*
24710822 TATTTTTTCTCTTTTT
1 TATTTTTTCTATTTTT
*
24710838 TCTTTTTT
1 TATTTTTT
24710846 TTTTCTTTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.80
Consensus pattern (16 bp):
TATTTTTTCTATTTTT
Found at i:24711617 original size:2 final size:2
Alignment explanation
Indices: 24711610--24711634 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
24711600 TTAAGTTATG
24711610 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
24711635 TATTTACCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:24725968 original size:13 final size:13
Alignment explanation
Indices: 24725950--24726026 Score: 118
Period size: 13 Copynumber: 5.9 Consensus size: 13
24725940 ACACTCAAAT
*
24725950 TTCTCAAAAGTAC
1 TTCTCAAAAGCAC
*
24725963 TTCTCAAAATCAC
1 TTCTCAAAAGCAC
24725976 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
*
24725989 TTCTGAAAAGCAC
1 TTCTCAAAAGCAC
*
24726002 TTCTCAAAAGCAT
1 TTCTCAAAAGCAC
24726015 TTCTCAAAAGCA
1 TTCTCAAAAGCA
24726027 ATGAAGAACT
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 58 1.00
ACGTcount: A:0.39, C:0.26, G:0.08, T:0.27
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:24731978 original size:43 final size:43
Alignment explanation
Indices: 24731921--24732353 Score: 388
Period size: 43 Copynumber: 10.1 Consensus size: 43
24731911 GTCTATTTGT
* * * * * *
24731921 TGATGCATTTTGTGTTCTAGTATAGTTACTTCGATATATCCGA
1 TGATGCACTGTGTGTGCCAGTATAGTTACTTCGGTTTATCCGA
* * * * * **
24731964 TAATGTACTGTGTGTGTCAGTATAGTTGCCTCAATTTATCCGA
1 TGATGCACTGTGTGTGCCAGTATAGTTACTTCGGTTTATCCGA
* * *
24732007 TGATGCACTGTGTGTGCCAGTATAGTTTCTTCAGTTT-T-TGA
1 TGATGCACTGTGTGTGCCAGTATAGTTACTTCGGTTTATCCGA
* * * * ** * *
24732048 TAAAGCACTGTGTGTGTCAATATAGTTGTTTCGATTTATCTGA
1 TGATGCACTGTGTGTGCCAGTATAGTTACTTCGGTTTATCCGA
* * *
24732091 TGATGCA-TAGTGTGTGCCAGTATAGTTACTTTGGTATATTCGA
1 TGATGCACT-GTGTGTGCCAGTATAGTTACTTCGGTTTATCCGA
* **
24732134 TGATGCACTGTGTATGCCAGTATAGTTGTTTCGGTTTATCCGA
1 TGATGCACTGTGTGTGCCAGTATAGTTACTTCGGTTTATCCGA
* * * * * * *
24732177 TGATGTATTGTGTATGCCAGTATGGTTAATTCGGTATATCTGA
1 TGATGCACTGTGTGTGCCAGTATAGTTACTTCGGTTTATCCGA
** * *
24732220 TGATTAACTGTGTGTGCCAATATAGTTGCTTCGGTTTATCCGA
1 TGATGCACTGTGTGTGCCAGTATAGTTACTTCGGTTTATCCGA
* * *
24732263 TGATGCACTGTGTGTGCCAGTATACTTACTTCGGTATATTCGA
1 TGATGCACTGTGTGTGCCAGTATAGTTACTTCGGTTTATCCGA
* * * * *
24732306 TGATGTACTATGTTTG-AAGTATAGTTATTTCGGTTTATCCGA
1 TGATGCACTGTGTGTGCCAGTATAGTTACTTCGGTTTATCCGA
24732348 TGATGC
1 TGATGC
24732354 GTTACGATGC
Statistics
Matches: 310, Mismatches: 76, Indels: 9
0.78 0.19 0.02
Matches are distributed among these distances:
41 31 0.10
42 29 0.09
43 249 0.80
44 1 0.00
ACGTcount: A:0.22, C:0.14, G:0.23, T:0.41
Consensus pattern (43 bp):
TGATGCACTGTGTGTGCCAGTATAGTTACTTCGGTTTATCCGA
Found at i:24733488 original size:15 final size:15
Alignment explanation
Indices: 24733468--24733498 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
24733458 GCAAAAAAAT
*
24733468 ATGTAAATGCATGGA
1 ATGTAAATACATGGA
24733483 ATGTAAATACATGGA
1 ATGTAAATACATGGA
24733498 A
1 A
24733499 ATATTAAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.06, G:0.23, T:0.26
Consensus pattern (15 bp):
ATGTAAATACATGGA
Found at i:24733632 original size:17 final size:17
Alignment explanation
Indices: 24733606--24733638 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
24733596 GGGTTGTAGC
24733606 ACGAAGAAGC-AGGAGA
1 ACGAAGAAGCTAGGAGA
24733622 ACGATAGAAGCTAGGAG
1 ACGA-AGAAGCTAGGAG
24733639 CAGTTCTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 6 0.40
18 5 0.33
ACGTcount: A:0.45, C:0.12, G:0.36, T:0.06
Consensus pattern (17 bp):
ACGAAGAAGCTAGGAGA
Found at i:24734070 original size:69 final size:69
Alignment explanation
Indices: 24733983--24734228 Score: 384
Period size: 69 Copynumber: 3.6 Consensus size: 69
24733973 ATTATTGATA
* * * * *
24733983 CAAATGTGGCTGTTTTTACATGTTATAATGGTGTACAAATGTGGTTGGTATGCATGTTACAACGG
1 CAAATGTGGCTGTTTTTACATGTTATAATGTTGTCCAAATGTGGTTGTTTTGCATGTTACAATGG
24734048 TGTC
66 TGTC
* * *
24734052 CAAATGTGGTTGTTTTTACATGTTATAATGTTGTCCAAATGTGGTTGTTTTGCATATTACAATGA
1 CAAATGTGGCTGTTTTTACATGTTATAATGTTGTCCAAATGTGGTTGTTTTGCATGTTACAATGG
*
24734117 TATC
66 TGTC
*
24734121 CAAATGTGGCTGTTTTTACATGTTATAATGTTGTCCAAATGTGGTTGTTTTGCATGTTATAATGG
1 CAAATGTGGCTGTTTTTACATGTTATAATGTTGTCCAAATGTGGTTGTTTTGCATGTTACAATGG
24734186 TGTC
66 TGTC
* *
24734190 CAAATGTGGTTGCTTTTACATGTTATAATGTTGTCCAAA
1 CAAATGTGGCTGTTTTTACATGTTATAATGTTGTCCAAA
24734229 ATTGTTTTGT
Statistics
Matches: 161, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
69 161 1.00
ACGTcount: A:0.25, C:0.11, G:0.22, T:0.42
Consensus pattern (69 bp):
CAAATGTGGCTGTTTTTACATGTTATAATGTTGTCCAAATGTGGTTGTTTTGCATGTTACAATGG
TGTC
Found at i:24734271 original size:34 final size:34
Alignment explanation
Indices: 24733983--24734326 Score: 306
Period size: 35 Copynumber: 10.1 Consensus size: 34
24733973 ATTATTGATA
* * * *
24733983 CAAATGTGGCTGTTTTTACATGTTATAATGGTGTA
1 CAAATGTGGTTG-TTTTGCATGTTATAATGTTGTC
* * * * *
24734018 CAAATGTGGTTGGTATGCATGTTACAACGGTGTC
1 CAAATGTGGTTGTTTTGCATGTTATAATGTTGTC
*
24734052 CAAATGTGGTTGTTTTTACATGTTATAATGTTGTC
1 CAAATGTGGTTG-TTTTGCATGTTATAATGTTGTC
* * * *
24734087 CAAATGTGGTTGTTTTGCATATTACAATGATATC
1 CAAATGTGGTTGTTTTGCATGTTATAATGTTGTC
* *
24734121 CAAATGTGGCTGTTTTTACATGTTATAATGTTGTC
1 CAAATGTGGTTG-TTTTGCATGTTATAATGTTGTC
*
24734156 CAAATGTGGTTGTTTTGCATGTTATAATGGTGTC
1 CAAATGTGGTTGTTTTGCATGTTATAATGTTGTC
*
24734190 CAAATGTGGTTGCTTTTACATGTTATAATGTTGTC
1 CAAATGTGGTTG-TTTTGCATGTTATAATGTTGTC
* *
24734225 CAAA----ATTGTTTTGTATGTT-TAATGTTGTC
1 CAAATGTGGTTGTTTTGCATGTTATAATGTTGTC
* * * * ** *
24734254 CAAAGGCGGCTGCTTTTGGTATGTTGCAATGTTGTT
1 CAAATGTGGTTG-TTTT-GCATGTTATAATGTTGTC
* * * *
24734290 CTAA--TGGTTGTTTCGCATGTTATAAGGATGTC
1 CAAATGTGGTTGTTTTGCATGTTATAATGTTGTC
24734322 CAAAT
1 CAAAT
24734327 ATGTTTGCAG
Statistics
Matches: 251, Mismatches: 47, Indels: 24
0.78 0.15 0.07
Matches are distributed among these distances:
29 14 0.06
30 9 0.04
31 3 0.01
32 15 0.06
33 5 0.02
34 96 0.38
35 98 0.39
36 11 0.04
ACGTcount: A:0.24, C:0.11, G:0.23, T:0.43
Consensus pattern (34 bp):
CAAATGTGGTTGTTTTGCATGTTATAATGTTGTC
Found at i:24734285 original size:65 final size:65
Alignment explanation
Indices: 24734033--24734325 Score: 194
Period size: 69 Copynumber: 4.4 Consensus size: 65
24734023 GTGGTTGGTA
* * * * * * * *
24734033 TGCATGTTACAACGGTGTCCAAATGTGGTTGTTTTTACATGTTATAATGTTGTCCAAATGTGGTT
1 TGCATGTTATAATGGTGTCCAAAGGCGGCTGCTTTTACATGTTACAATGTTGTCCAAA----ATT
24734098 GTTT
62 GTTT
* * * * * * * * *
24734102 TGCATATTACAATGATATCCAAATGTGGCTGTTTTTACATGTTATAATGTTGTCCAAATGTGGTT
1 TGCATGTTATAATGGTGTCCAAAGGCGGCTGCTTTTACATGTTACAATGTTGTCCAAA----ATT
24734167 GTTT
62 GTTT
* * * *
24734171 TGCATGTTATAATGGTGTCCAAATGTGGTTGCTTTTACATGTTATAATGTTGTCCAAAATTGTTT
1 TGCATGTTATAATGGTGTCCAAAGGCGGCTGCTTTTACATGTTACAATGTTGTCCAAAATTGTTT
* * ** * * **
24734236 TGTATGTT-TAATGTTGTCCAAAGGCGGCTGCTTTTGGTATGTTGCAATGTTGTTCTAATGGTTG
1 TGCATGTTATAATGGTGTCCAAAGGCGGCTGCTTTT-ACATGTTACAATGTTG-TCCAA-AATTG
24734300 TTT
63 TTT
*
24734303 CGCATGTTATAA-GGATGTCCAAA
1 TGCATGTTATAATGG-TGTCCAAA
24734326 TATGTTTGCA
Statistics
Matches: 192, Mismatches: 27, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
64 23 0.12
65 25 0.13
66 4 0.02
67 13 0.07
68 11 0.06
69 116 0.60
ACGTcount: A:0.23, C:0.12, G:0.22, T:0.43
Consensus pattern (65 bp):
TGCATGTTATAATGGTGTCCAAAGGCGGCTGCTTTTACATGTTACAATGTTGTCCAAAATTGTTT
Found at i:24735881 original size:14 final size:14
Alignment explanation
Indices: 24735862--24735890 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
24735852 TTAATCTCCC
24735862 TTATTGAGTTAGTT
1 TTATTGAGTTAGTT
24735876 TTATTGAGTTAGTT
1 TTATTGAGTTAGTT
24735890 T
1 T
24735891 GAGTTTACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.59
Consensus pattern (14 bp):
TTATTGAGTTAGTT
Found at i:24738058 original size:10 final size:9
Alignment explanation
Indices: 24738011--24738147 Score: 82
Period size: 10 Copynumber: 14.6 Consensus size: 9
24738001 ACATGTGACA
24738011 AAAAATTAT
1 AAAAATTAT
24738020 AAAAA--AT
1 AAAAATTAT
*
24738027 AAAAATCAAT
1 AAAAAT-TAT
24738037 AAAAATTAT
1 AAAAATTAT
*
24738046 AAAAGTTATT
1 AAAAATTA-T
**
24738056 AAATTTTATT
1 AAAAATTA-T
* *
24738066 CAAAATTAGAA
1 AAAAATT--AT
*
24738077 AAAAATTGT
1 AAAAATTAT
*
24738086 AAAAAAATAT
1 -AAAAATTAT
*
24738096 AAAAATTGT
1 AAAAATTAT
24738105 AAAAATTTAT
1 AAAAA-TTAT
*
24738115 AAAAATCAT
1 AAAAATTAT
24738124 AAAAGATTAT
1 AAAA-ATTAT
24738134 -AAAATGTAT
1 AAAAAT-TAT
24738143 AAAAA
1 AAAAA
24738148 AAGCTCTTTA
Statistics
Matches: 99, Mismatches: 18, Indels: 21
0.72 0.13 0.15
Matches are distributed among these distances:
7 7 0.07
8 2 0.02
9 39 0.39
10 44 0.44
11 6 0.06
12 1 0.01
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:24738099 original size:19 final size:19
Alignment explanation
Indices: 24738077--24738120 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
24738067 AAAATTAGAA
24738077 AAAAATTGTAAAAAAATAT
1 AAAAATTGTAAAAAAATAT
**
24738096 AAAAATTGTAAAAATTTAT
1 AAAAATTGTAAAAAAATAT
24738115 AAAAAT
1 AAAAAT
24738121 CATAAAAGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.30
Consensus pattern (19 bp):
AAAAATTGTAAAAAAATAT
Found at i:24738118 original size:28 final size:30
Alignment explanation
Indices: 24738077--24738148 Score: 82
Period size: 28 Copynumber: 2.5 Consensus size: 30
24738067 AAAATTAGAA
*
24738077 AAAAATTGTA-AAAAAAT-ATAAAA-ATTGT
1 AAAAATT-TATAAAAAATCATAAAAGATTAT
24738105 AAAAATTTAT-AAAAATCATAAAAGATTAT
1 AAAAATTTATAAAAAATCATAAAAGATTAT
*
24738134 -AAAATGTATAAAAAA
1 AAAAATTTATAAAAAA
24738149 AGCTCTTTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
27 8 0.21
28 21 0.55
29 9 0.24
ACGTcount: A:0.65, C:0.01, G:0.06, T:0.28
Consensus pattern (30 bp):
AAAAATTTATAAAAAATCATAAAAGATTAT
Found at i:24738126 original size:19 final size:19
Alignment explanation
Indices: 24738093--24738137 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
24738083 TGTAAAAAAA
**
24738093 TATAAAAATTGTAAAA-ATT
1 TATAAAAATCATAAAAGA-T
24738112 TATAAAAATCATAAAAGAT
1 TATAAAAATCATAAAAGAT
24738131 TATAAAA
1 TATAAAA
24738138 TGTATAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 22 0.96
20 1 0.04
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.31
Consensus pattern (19 bp):
TATAAAAATCATAAAAGAT
Found at i:24738288 original size:20 final size:20
Alignment explanation
Indices: 24738263--24738303 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
24738253 ATTGTAGAAT
24738263 ATTATAAAAAT-CATAAAAAA
1 ATTAT-AAAATGCATAAAAAA
24738283 ATTATAAAATGCATAAAAAA
1 ATTATAAAATGCATAAAAAA
24738303 A
1 A
24738304 AAGGTCATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.24
Consensus pattern (20 bp):
ATTATAAAATGCATAAAAAA
Found at i:24738398 original size:158 final size:153
Alignment explanation
Indices: 24738097--24738403 Score: 370
Period size: 158 Copynumber: 2.0 Consensus size: 153
24738087 AAAAAATATA
* *
24738097 AAAATTGTAAAAATTTATAAAAATCATAAAAGATTATAAAATGTATAAAAAAAGCTCTTTAACCA
1 AAAATTGTAAAAATTTATAAAAATCATAAAAAATTATAAAATGTAAAAAAAAAGCTCTTTAACCA
*
24738162 TTAACTTTAACAGTTGACCATTAAAGTTAACAACCCTATTTTTCCAGCTAAAGCCATCATGTGTC
66 TTAACTTTAACAGTTGACCATTAAAGTTAACAACCCCATTTTTCCAGCTAAAGCCATCATGTGTC
**
24738227 GCAACACTGCGTGACATGTGGCG
131 GCAACACAACGTGACATGTGGCG
* *
24738250 AAAATTGT-AGAATATTATAAAAATCATAAAAAAATTATAAAATGCATAAAAAAAAAGGTCATTT
1 AAAATTGTAAAAAT-TTATAAAAATCAT-AAAAAATTATAAAATG--TAAAAAAAAAGCTC-TTT
* ** * **
24738314 AATCATTAACTTTAACCA-TT-ACTGTTAAAGTTAACGACCCCCAGTTTTTTTA-CTTAAAGCCA
61 AACCATTAACTTTAA-CAGTTGACCATTAAAGTTAAC-AACCCCA-TTTTTCCAGC-TAAAGCCA
* *
24738376 TTATGTGTCGCAATACAACGTGACATGT
122 TCATGTGTCGCAACACAACGTGACATGT
24738404 AACGAAAAAT
Statistics
Matches: 130, Mismatches: 15, Indels: 13
0.82 0.09 0.08
Matches are distributed among these distances:
152 4 0.03
153 21 0.16
154 15 0.12
156 25 0.19
157 25 0.19
158 40 0.31
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.31
Consensus pattern (153 bp):
AAAATTGTAAAAATTTATAAAAATCATAAAAAATTATAAAATGTAAAAAAAAAGCTCTTTAACCA
TTAACTTTAACAGTTGACCATTAAAGTTAACAACCCCATTTTTCCAGCTAAAGCCATCATGTGTC
GCAACACAACGTGACATGTGGCG
Found at i:24738752 original size:90 final size:89
Alignment explanation
Indices: 24738645--24739050 Score: 401
Period size: 103 Copynumber: 4.4 Consensus size: 89
24738635 GCATTTTGGC
* * *
24738645 AGTTCAAA-TACCTAATTGAGTAGAAAAAAAAGGCAGAGGCTTAATTGCTTTTTTTGAAAAAGTT
1 AGTT-AAAGTACCCAATTGAGTAGAAAAAAAAAGCAGAGGCTTAATTACTTTTTTTGAAAAAGTT
* *
24738709 TGAGGTTTTTTTTTATACATTAAGAA
65 TGAGG-GTTTTTTTATACATTATGAA
* * *
24738735 A-TCTAAAGTACCCAATTGAGTACAAAAAAAAAGCAGGGGCTTAATTACTTTTTTTTAAAAAGTT
1 AGT-TAAAGTACCCAATTGAGTAGAAAAAAAAAGCAGAGGCTTAATTACTTTTTTTGAAAAAGTT
24738799 TGAGGG-TTTTTTAT-CATTATGAA
65 TGAGGGTTTTTTTATACATTATGAA
* ** * *
24738822 AGTTAAAGTACTCAATTGAGT-GCAAAAAAAAAATAGATGCTTAATTTTTTTATTTTTTTTGAAA
1 AGTTAAAGTACCCAATTGAGTAG-AAAAAAAAAGCAGAGGCTTAA-----TTACTTTTTTTGAAA
*
24738886 AAGTTTGAGGGATTTTTTATACATTATGAA
60 AAGTTTGAGGGTTTTTTTATACATTATGAA
* * **
24738916 AGTTAAAGTACCCAATTGAGTGCAAAAAAAAAAAGAAAAAAGAAAAGAGGCTTAATGGTTTTTTT
1 AGTTAAAGTACCCAATTGAGT--------AGAAA-AAAAAAG--CAGAGGCTTAAT--TACTTTT
24738981 TTTGGAAAAAGTTTGAGGGTTTTTTTATACATTATGAA
53 TTT-GAAAAAGTTTGAGGGTTTTTTTATACATTATGAA
24739019 AGTTAAAGTACCCAATTGAGT-GAAAAAAAAAG
1 AGTTAAAGTACCCAATTGAGTAGAAAAAAAAAG
24739051 GTTTAATTAC
Statistics
Matches: 266, Mismatches: 24, Indels: 49
0.78 0.07 0.14
Matches are distributed among these distances:
87 43 0.16
88 9 0.03
89 4 0.02
90 57 0.21
92 24 0.09
93 15 0.06
94 32 0.12
100 1 0.00
102 12 0.05
103 60 0.23
105 9 0.03
ACGTcount: A:0.40, C:0.07, G:0.17, T:0.35
Consensus pattern (89 bp):
AGTTAAAGTACCCAATTGAGTAGAAAAAAAAAGCAGAGGCTTAATTACTTTTTTTGAAAAAGTTT
GAGGGTTTTTTTATACATTATGAA
Found at i:24758726 original size:15 final size:14
Alignment explanation
Indices: 24758707--24758753 Score: 60
Period size: 15 Copynumber: 3.3 Consensus size: 14
24758697 CTACAAAACA
24758707 TTTATTATTAATAT
1 TTTATTATTAATAT
*
24758721 ATTTATAATATAATAT
1 -TTTATTAT-TAATAT
24758737 TTTA-TATTAATAT
1 TTTATTATTAATAT
24758750 TTTA
1 TTTA
24758754 ATAATTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 10 0.34
14 2 0.07
15 11 0.38
16 6 0.21
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTATTATTAATAT
Found at i:24758738 original size:14 final size:14
Alignment explanation
Indices: 24758719--24758756 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
24758709 TATTATTAAT
24758719 ATATTTATAATA-TA
1 ATATTT-TAATATTA
24758733 ATATTTT-ATATTA
1 ATATTTTAATATTA
24758746 ATATTTTAATA
1 ATATTTTAATA
24758757 ATTTTAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.14
13 10 0.45
14 9 0.41
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
ATATTTTAATATTA
Found at i:24758742 original size:21 final size:22
Alignment explanation
Indices: 24758718--24758762 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
24758708 TTATTATTAA
*
24758718 TATATTTATAATATAAT-ATTT
1 TATATTAATAATATAATAATTT
* *
24758739 TATATTAATATTTTAATAATTT
1 TATATTAATAATATAATAATTT
24758761 TA
1 TA
24758763 AATATTTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
TATATTAATAATATAATAATTT
Found at i:24759674 original size:247 final size:249
Alignment explanation
Indices: 24759179--24759696 Score: 538
Period size: 247 Copynumber: 2.1 Consensus size: 249
24759169 GTTAAAATGT
* * *
24759179 ATAAAAATATAAAAATAAAACTTTAGTTGAGTGATAAATAAAATGTTTTTACTAATGCAATTGGT
1 ATAAAAATATAAAAATAAAACTTTAGTTAAGTGATAAATAAAATGGTTTTACTAATGCAATTAGT
* * *
24759244 TTAGGTCCAAATCCTACCATATGCATATTTTTATTGTTTTTTCTAAATAAAAAAAAACTAAAGTA
66 TTAGGTCCAAACCCCACCATATGCATATTTTTATTGTTTTCTCTAAATAAAAAAAAACTAAAGTA
* * * * *
24759309 TCCTCAGATAATAAAATTTATTTAAATTACAGAAGAGCATTTTCAAAATTTTCTTAACTGAGTTG
131 TCCTCAGATAATAAAACTTATTTAAATTACAGAAGAACATCTTCAAAATTTCCCTAACTGAGTTG
* * * *
24759374 GTGACCTGTTTGAGGATGACATCAACTCTATCAAGAGCTTAAATTATAGTTTAG
196 GTGACCTGGTTAAGGATGACATCAACTCTATCAAGAGCTTAAATAACAGTTTAG
* * * *
24759428 ATAAAATATATCAAAATAAAATTTTAGTTAA-TGGATAAATTAAA-GGTTTTGCTAATGCAATTA
1 ATAAAA-ATATAAAAATAAAACTTTAGTTAAGT-GATAAATAAAATGGTTTTACTAATGCAATTA
* * * *
24759491 GTTT-GAGTTCAAACCCCATCATATATGTATATTTTTATT-TTTTCT-TAAAT-AAAAAAGACTA
64 GTTTAG-GTCCAAACCCCA-C-CATATGCATATTTTTATTGTTTTCTCTAAATAAAAAAAAACTA
* * * ** *
24759552 AAGTA-CCATC-GAATAATATAACTTATTTTAATTACGGAAGAACATCTT-GTAATTTCCCTAAT
126 AAGTATCC-TCAG-ATAATAAAACTTATTTAAATTACAGAAGAACATCTTCAAAATTTCCCTAAC
* * *
24759614 TGAGTTGGTGATCTGGTTAA-GAGTGACA-CTAACTC-AGTGAGGAGCTTAAATAACAGTTTAG
189 TGAGTTGGTGACCTGGTTAAGGA-TGACATC-AACTCTA-TCAAGAGCTTAAATAACAGTTTAG
* *
24759675 ATACACAAATATATAAAGAAAA
1 ATA-A-AAATATAAAAATAAAA
24759697 AAAATCATAC
Statistics
Matches: 222, Mismatches: 35, Indels: 25
0.79 0.12 0.09
Matches are distributed among these distances:
246 4 0.02
247 62 0.28
248 60 0.27
249 43 0.19
250 37 0.17
251 16 0.07
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (249 bp):
ATAAAAATATAAAAATAAAACTTTAGTTAAGTGATAAATAAAATGGTTTTACTAATGCAATTAGT
TTAGGTCCAAACCCCACCATATGCATATTTTTATTGTTTTCTCTAAATAAAAAAAAACTAAAGTA
TCCTCAGATAATAAAACTTATTTAAATTACAGAAGAACATCTTCAAAATTTCCCTAACTGAGTTG
GTGACCTGGTTAAGGATGACATCAACTCTATCAAGAGCTTAAATAACAGTTTAG
Found at i:24761273 original size:21 final size:20
Alignment explanation
Indices: 24761249--24761298 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 20
24761239 ACCACCATTA
24761249 CCTGCTCCACCGCCTAAACCT
1 CCTGCTCCACC-CCTAAACCT
*
24761270 CCTGGTCCA--CCTAAACCT
1 CCTGCTCCACCCCTAAACCT
*
24761288 CCTGCCCCACC
1 CCTGCTCCACC
24761299 TAAACCGCCG
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
18 16 0.67
21 8 0.33
ACGTcount: A:0.18, C:0.54, G:0.10, T:0.18
Consensus pattern (20 bp):
CCTGCTCCACCCCTAAACCT
Found at i:24761282 original size:18 final size:18
Alignment explanation
Indices: 24761261--24761304 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
24761251 TGCTCCACCG
**
24761261 CCTAAACCTCCTGGTCCA
1 CCTAAACCTCCTGCCCCA
24761279 CCTAAACCTCCTGCCCCA
1 CCTAAACCTCCTGCCCCA
24761297 CCTAAACC
1 CCTAAACC
24761305 GCCGAGACCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.25, C:0.50, G:0.07, T:0.18
Consensus pattern (18 bp):
CCTAAACCTCCTGCCCCA
Found at i:24764080 original size:16 final size:16
Alignment explanation
Indices: 24764059--24764093 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
24764049 CTAATTTAAC
24764059 ATATTAA-TATTAATTA
1 ATATTAATTATTAA-TA
24764075 ATATTAATTATTAATA
1 ATATTAATTATTAATA
24764091 ATA
1 ATA
24764094 GATAAAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
ATATTAATTATTAATA
Found at i:24765085 original size:26 final size:24
Alignment explanation
Indices: 24765030--24765098 Score: 66
Period size: 26 Copynumber: 2.7 Consensus size: 24
24765020 AGATTCATTA
* *
24765030 AATTTAGTTTGATTATATTTAATAC
1 AATTTAGTTTG-TTTTAATTAATAC
24765055 AATTTGAGTTTGCTTTTAATTAATAAC
1 AATTT-AGTTTG-TTTTAATTAAT-AC
* *
24765082 ATTTTATTTTGTTTTAA
1 AATTTAGTTTGTTTTAA
24765099 ATCAGAAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 11 0.30
26 20 0.54
27 6 0.16
ACGTcount: A:0.32, C:0.04, G:0.09, T:0.55
Consensus pattern (24 bp):
AATTTAGTTTGTTTTAATTAATAC
Found at i:24767285 original size:21 final size:21
Alignment explanation
Indices: 24767247--24767286 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
24767237 TTCGAAAACA
* *
24767247 TTAATAATTATTTTATAAATT
1 TTAATAATTATGTAATAAATT
24767268 TTAATAATTATGTAATAAA
1 TTAATAATTATGTAATAAA
24767287 AAGAAAACTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (21 bp):
TTAATAATTATGTAATAAATT
Found at i:24768714 original size:24 final size:23
Alignment explanation
Indices: 24768687--24768851 Score: 115
Period size: 24 Copynumber: 7.1 Consensus size: 23
24768677 ATGTTTAAAC
24768687 TTATTATTAAATTTATCATTAATA
1 TTATT-TTAAATTTATCATTAATA
* * ** *
24768711 TTA-TCTAAGTTTATTGTATATTA
1 TTATTTTAAATTTATCAT-TAATA
* *
24768734 TTATTTTAGATTTATCACGTT-TTA
1 TTATTTTAAATTTATCA--TTAATA
* *
24768758 TTATTTGT-AATTTATCAATATTA
1 TTATTT-TAAATTTATCATTAATA
* * *
24768781 TTATTTTAAATTCATC-GTAACA
1 TTATTTTAAATTTATCATTAATA
24768803 TTATTTTAAATTTATCATGT-ATA
1 TTATTTTAAATTTATCAT-TAATA
*
24768826 TTTATTTAAAATTTATCATTAATA
1 -TTATTTTAAATTTATCATTAATA
24768850 TT
1 TT
24768852 TAAAATTTAT
Statistics
Matches: 110, Mismatches: 20, Indels: 23
0.72 0.13 0.15
Matches are distributed among these distances:
22 29 0.26
23 29 0.26
24 49 0.45
25 2 0.02
26 1 0.01
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.55
Consensus pattern (23 bp):
TTATTTTAAATTTATCATTAATA
Found at i:24768853 original size:20 final size:23
Alignment explanation
Indices: 24768732--24768954 Score: 106
Period size: 24 Copynumber: 9.7 Consensus size: 23
24768722 TATTGTATAT
* * * *
24768732 TATTATTTTAGATTTATCACGTTT
1 TATTATTTAAAATTTATCATG-TA
** *
24768756 TATTATTTGTAATTTATCA-ATA
1 TATTATTTAAAATTTATCATGTA
* *
24768778 TTATTATTTTAAATTCATC--GTAA
1 -TATTATTTAAAATTTATCATGT-A
* *
24768801 CATTATTTTAAATTTATCATGTA
1 TATTATTTAAAATTTATCATGTA
24768824 TATTTATTTAAAATTTATCAT-TA
1 TA-TTATTTAAAATTTATCATGTA
*
24768847 -A-TATTTAAAATTTATTATGTA
1 TATTATTTAAAATTTATCATGTA
***
24768868 CTATTATTTTGGATTTATC-TCGTA
1 -TATTATTTAAAATTTATCAT-GTA
* **
24768892 TGATTATTCTAGAA-TTATCATCAA
1 T-ATTATT-TAAAATTTATCATGTA
* *
24768916 AATT-TTTAAATTTTAT-ATGTA
1 TATTATTTAAAATTTATCATGTA
*
24768937 TTATTATTTCAAATTTAT
1 -TATTATTTAAAATTTAT
24768955 TATATATTGT
Statistics
Matches: 153, Mismatches: 30, Indels: 33
0.71 0.14 0.15
Matches are distributed among these distances:
20 16 0.10
21 8 0.05
22 28 0.18
23 36 0.24
24 61 0.40
25 4 0.03
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.54
Consensus pattern (23 bp):
TATTATTTAAAATTTATCATGTA
Found at i:24779146 original size:23 final size:23
Alignment explanation
Indices: 24779078--24779148 Score: 58
Period size: 23 Copynumber: 3.2 Consensus size: 23
24779068 TGTCATGGAG
24779078 TCTTTCAGACATGATCTTACTCA
1 TCTTTCAGACATGATCTTACTCA
* * ** *
24779101 TATTT-A-TCATGATAAATA-GCA
1 TCTTTCAGACATGAT-CTTACTCA
*
24779122 TCTTTCAGCCATGATCTTACTCA
1 TCTTTCAGACATGATCTTACTCA
24779145 TCTT
1 TCTT
24779149 CATCATGATG
Statistics
Matches: 34, Mismatches: 10, Indels: 8
0.65 0.19 0.15
Matches are distributed among these distances:
21 12 0.35
22 6 0.18
23 16 0.47
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.41
Consensus pattern (23 bp):
TCTTTCAGACATGATCTTACTCA
Found at i:24779157 original size:21 final size:21
Alignment explanation
Indices: 24779087--24779157 Score: 54
Period size: 21 Copynumber: 3.3 Consensus size: 21
24779077 GTCTTTCAGA
* *
24779087 CATGATCTTACTCATATTTAT
1 CATGATCTTACTCATCTTCAT
** * *
24779108 CATGATAAATA-GCATCTTTCAGC
1 CATGAT-CTTACTCATC-TTCA-T
24779131 CATGATCTTACTCATCTTCAT
1 CATGATCTTACTCATCTTCAT
24779152 CATGAT
1 CATGAT
24779158 GCCATAGAAT
Statistics
Matches: 36, Mismatches: 10, Indels: 8
0.67 0.19 0.15
Matches are distributed among these distances:
21 15 0.42
22 11 0.31
23 10 0.28
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (21 bp):
CATGATCTTACTCATCTTCAT
Found at i:24779190 original size:45 final size:44
Alignment explanation
Indices: 24779078--24779174 Score: 131
Period size: 44 Copynumber: 2.2 Consensus size: 44
24779068 TGTCATGGAG
* * *
24779078 TCTTTCAGACATGATCTTACTCATATTTATCATGATAAATAGCA
1 TCTTTCAGCCATGATCTTACTCATATTCATCATGATAAATAGAA
* **
24779122 TCTTTCAGCCATGATCTTACTCATCTTCATCATGATGCCATAGAA
1 TCTTTCAGCCATGATCTTACTCATATTCATCATGAT-AAATAGAA
24779167 TCTTTCAG
1 TCTTTCAG
24779175 TTATGGTTTT
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 33 0.72
45 13 0.28
ACGTcount: A:0.29, C:0.23, G:0.10, T:0.38
Consensus pattern (44 bp):
TCTTTCAGCCATGATCTTACTCATATTCATCATGATAAATAGAA
Found at i:24784175 original size:25 final size:25
Alignment explanation
Indices: 24784147--24784198 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
24784137 TTCTTCAGGC
24784147 AAAACAAGATAT-GGAATTGAATGGG
1 AAAACAAGATATGGGAA-TGAATGGG
24784172 AAAACAAGATATGGGAATGAATGGG
1 AAAACAAGATATGGGAATGAATGGG
24784197 AA
1 AA
24784199 TTGAAACCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 22 0.85
26 4 0.15
ACGTcount: A:0.50, C:0.04, G:0.29, T:0.17
Consensus pattern (25 bp):
AAAACAAGATATGGGAATGAATGGG
Found at i:24786950 original size:22 final size:23
Alignment explanation
Indices: 24786902--24786950 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
24786892 TAAAAAACTA
24786902 CATCTGATTCTAATCTATTCTGT
1 CATCTGATTCTAATCTATTCTGT
*
24786925 -ATCTG-TATCTAATTTATTCT-T
1 CATCTGAT-TCTAATCTATTCTGT
24786946 CATCT
1 CATCT
24786951 TATTTGAACC
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.22, C:0.20, G:0.06, T:0.51
Consensus pattern (23 bp):
CATCTGATTCTAATCTATTCTGT
Found at i:24791620 original size:130 final size:131
Alignment explanation
Indices: 24791431--24791691 Score: 515
Period size: 130 Copynumber: 2.0 Consensus size: 131
24791421 CTAAAATTAC
24791431 TTAGTGATAAAATTCAAGCTCGGAATAGGACTTAAAAGAAATTTAAAGTTTAAAGTTAAAAATGA
1 TTAGTGATAAAATTCAAGCTCGGAATAGGACTTAAAAGAAATTTAAAGTTTAAAGTTAAAAATGA
24791496 AAATCCATAGTTGGTATTGATACCAAATCGATACCTTTTTGAATACTATTTTCTTTGCAAAACAA
66 AAATCCATAGTTGGTATTGATACCAAATCGATACCTTTTTGAATACTATTTTCTTTGCAAAACAA
24791561 T
131 T
24791562 TTAGTGAT-AAATTCAAGCTCGGAATAGGACTTAAAAGAAATTTAAAGTTTAAAGTTAAAAATGA
1 TTAGTGATAAAATTCAAGCTCGGAATAGGACTTAAAAGAAATTTAAAGTTTAAAGTTAAAAATGA
24791626 AAATCCATAGTTGGTATTGATACCAAATCGATACCTTTTTGAATACTATTTTCTTTGCAAAACAA
66 AAATCCATAGTTGGTATTGATACCAAATCGATACCTTTTTGAATACTATTTTCTTTGCAAAACAA
24791691 T
131 T
24791692 GGTATCGATA
Statistics
Matches: 130, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
130 122 0.94
131 8 0.06
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.34
Consensus pattern (131 bp):
TTAGTGATAAAATTCAAGCTCGGAATAGGACTTAAAAGAAATTTAAAGTTTAAAGTTAAAAATGA
AAATCCATAGTTGGTATTGATACCAAATCGATACCTTTTTGAATACTATTTTCTTTGCAAAACAA
T
Found at i:24792823 original size:8 final size:7
Alignment explanation
Indices: 24792787--24792821 Score: 61
Period size: 7 Copynumber: 4.9 Consensus size: 7
24792777 AGTTTGCAAC
24792787 AAACCCT
1 AAACCCT
24792794 AAAACCCT
1 -AAACCCT
24792802 AAACCCT
1 AAACCCT
24792809 AAACCCT
1 AAACCCT
24792816 AAACCC
1 AAACCC
24792822 CTCAATTAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 20 0.74
8 7 0.26
ACGTcount: A:0.46, C:0.43, G:0.00, T:0.11
Consensus pattern (7 bp):
AAACCCT
Found at i:24793968 original size:15 final size:16
Alignment explanation
Indices: 24793943--24793975 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
24793933 AGGGTTAACT
24793943 TTTACATCTTTTTCAA
1 TTTACATCTTTTTCAA
24793959 TTTA-ATCTTTTTCAA
1 TTTACATCTTTTTCAA
24793974 TT
1 TT
24793976 AATTAACTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTACATCTTTTTCAA
Found at i:24799603 original size:381 final size:382
Alignment explanation
Indices: 24798890--24799652 Score: 1519
Period size: 381 Copynumber: 2.0 Consensus size: 382
24798880 AAAAAGTTAT
24798890 AAAAATTTATTAATTAATAATTATAAGTTAAGCATGATTTTAAAAATATTTTTAAATTAGTGAAT
1 AAAAATTTATTAATTAATAATTATAAGTTAAGCATGATTTTAAAAATATTTTTAAATTAGTGAAT
24798955 TATCGGGTCTCCGTTTTGGTAAAACGGACTTGTAAAATAATTATTAAAAATATTTATAGAATTAG
66 TATCGGGTCTCCGTTTTGGTAAAACGGACTTGTAAAATAATTATTAAAAATATTTATAGAATTAG
24799020 TTATATAACAAATTGGATTTTAGTTAAGTGAATTTAGTTAAATTAAAGTTAATTGAGTATTAGGA
131 TTATATAACAAATTGGATTTTAGTTAAGTGAATTTAGTTAAATTAAAGTTAATTGAGTATTAGGA
24799085 CTAAATTGAATTAAGTGTGAAAGTTAATTATAAAATACAAAAAGGTGAAAGAACTAAACTTATAA
196 CTAAATTGAATTAAGTGTGAAAGTTAATTATAAAATACAAAAAGGTGAAAGAACTAAACTTATAA
24799150 TTAAACCATAAAAAGTGACAAGTGTGTGGTAATTATAAATACATGTGTAATAAATATATGTATAT
261 TTAAACCATAAAAAGTGACAAGTGTGTGGTAATTATAAATACATGTGTAATAAATATATGTATAT
24799215 GTTTGTAATTAATATATGTACATACTTATTAATTAAGTAAAAGATATTTATATATTA
326 GTTTGTAATTAATATATGTACATACTTATTAATTAAGTAAAAGATATTTATATATTA
24799272 AAAAATTTA-TAATTAATAATTATAAGTTAAGCATGATTTTAAAAATATTTTTAAATTAGTGAAT
1 AAAAATTTATTAATTAATAATTATAAGTTAAGCATGATTTTAAAAATATTTTTAAATTAGTGAAT
24799336 TATCGGGTCTCCGTTTTGGTAAAACGGACTTGTAAAATAATTATTAAAAATATTTATAGAATTAG
66 TATCGGGTCTCCGTTTTGGTAAAACGGACTTGTAAAATAATTATTAAAAATATTTATAGAATTAG
24799401 TTATATAACAAATTGGATTTTAGTTAAGTGAATTTAGTTAAATTAAAGTTAATTGAGTATTAGGA
131 TTATATAACAAATTGGATTTTAGTTAAGTGAATTTAGTTAAATTAAAGTTAATTGAGTATTAGGA
24799466 CTAAATTGAATTAAGTGTGAAAGTTAATTATAAAATACAAAAAGGTGAAAGAACTAAACTTATAA
196 CTAAATTGAATTAAGTGTGAAAGTTAATTATAAAATACAAAAAGGTGAAAGAACTAAACTTATAA
24799531 TTAAACCATAAAAAGTGACAAGTGTGTGGTAATTATAAATACATGTGTAATAAATATATGTATAT
261 TTAAACCATAAAAAGTGACAAGTGTGTGGTAATTATAAATACATGTGTAATAAATATATGTATAT
24799596 GTTTGTAATTAATATATGTACATACTTATTAATTAAGTAAAAGATATTTATATATTA
326 GTTTGTAATTAATATATGTACATACTTATTAATTAAGTAAAAGATATTTATATATTA
24799653 TATTATTATT
Statistics
Matches: 381, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
381 372 0.98
382 9 0.02
ACGTcount: A:0.44, C:0.05, G:0.13, T:0.38
Consensus pattern (382 bp):
AAAAATTTATTAATTAATAATTATAAGTTAAGCATGATTTTAAAAATATTTTTAAATTAGTGAAT
TATCGGGTCTCCGTTTTGGTAAAACGGACTTGTAAAATAATTATTAAAAATATTTATAGAATTAG
TTATATAACAAATTGGATTTTAGTTAAGTGAATTTAGTTAAATTAAAGTTAATTGAGTATTAGGA
CTAAATTGAATTAAGTGTGAAAGTTAATTATAAAATACAAAAAGGTGAAAGAACTAAACTTATAA
TTAAACCATAAAAAGTGACAAGTGTGTGGTAATTATAAATACATGTGTAATAAATATATGTATAT
GTTTGTAATTAATATATGTACATACTTATTAATTAAGTAAAAGATATTTATATATTA
Found at i:24800511 original size:93 final size:94
Alignment explanation
Indices: 24800375--24800564 Score: 373
Period size: 93 Copynumber: 2.0 Consensus size: 94
24800365 GGTAAGTGAT
24800375 TGAGGTGAGAATTATTGTGTTTTACAATTGAAATGGATTGTTTTGGTATGTGATGAAATTATATT
1 TGAGGTGAGAATTATTGTGTTTTACAATTGAAATGGATTGTTTTGGTATGTGATGAAATTATATT
24800440 GGTTGAATTAAATTGGAATATATATATTA
66 GGTTGAATTAAATTGGAATATATATATTA
24800469 TGAGGTGAGAA-TATTGTGTTTTACAATTGAAATGGATTGTTTTGGTATGTGATGAAATTATATT
1 TGAGGTGAGAATTATTGTGTTTTACAATTGAAATGGATTGTTTTGGTATGTGATGAAATTATATT
24800533 GGTTGAATTAAATTGGAATATATATATTA
66 GGTTGAATTAAATTGGAATATATATATTA
24800562 TGA
1 TGA
24800565 ATATATATGT
Statistics
Matches: 96, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
93 85 0.89
94 11 0.11
ACGTcount: A:0.33, C:0.01, G:0.23, T:0.43
Consensus pattern (94 bp):
TGAGGTGAGAATTATTGTGTTTTACAATTGAAATGGATTGTTTTGGTATGTGATGAAATTATATT
GGTTGAATTAAATTGGAATATATATATTA
Found at i:24810911 original size:62 final size:62
Alignment explanation
Indices: 24810760--24810965 Score: 175
Period size: 62 Copynumber: 3.3 Consensus size: 62
24810750 ACAACCCCTC
* * * * * *
24810760 ACACAGCCTGGGCACACGCCCGTGTCCTTAGCCCGTGTGACT-TATAAATCCCTAACAATGAGTT
1 ACACAGCCTGGACACACGCCCGTGTCCCTAGTCTGTGTG-CTCCA-AAAT-CCAAACAATGAGTT
* * * *** * *
24810824 ACACAACCTAGACACATGGTTGTGTCCCTAG-CTTGTGTGAC-CCAAAATCCAAATAATGATTT
1 ACACAGCCTGGACACACGCCCGTGTCCCTAGTC-TGTGTG-CTCCAAAATCCAAACAATGAGTT
* * *
24810886 ACACGGCCTGGACACACGCCCGTGTCCCTAGTCTGTGTGCTTCTAAAATCCAAACAGTGAGTT
1 ACACAGCCTGGACACACGCCCGTGTCCCTAGTCTGTGTGC-TCCAAAATCCAAACAATGAGTT
*
24810949 ACACATCCTGGACACAC
1 ACACAGCCTGGACACAC
24810966 TTCTATATCC
Statistics
Matches: 111, Mismatches: 26, Indels: 11
0.75 0.18 0.07
Matches are distributed among these distances:
61 1 0.01
62 41 0.37
63 38 0.34
64 31 0.28
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.24
Consensus pattern (62 bp):
ACACAGCCTGGACACACGCCCGTGTCCCTAGTCTGTGTGCTCCAAAATCCAAACAATGAGTT
Found at i:24816742 original size:16 final size:16
Alignment explanation
Indices: 24816721--24816756 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
24816711 TTTGGTTCGC
24816721 TGTATTAGATTAGAGG
1 TGTATTAGATTAGAGG
*
24816737 TGTATTGGATTAGAGG
1 TGTATTAGATTAGAGG
24816753 TGTA
1 TGTA
24816757 ATAGCAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.33, T:0.39
Consensus pattern (16 bp):
TGTATTAGATTAGAGG
Found at i:24817019 original size:14 final size:15
Alignment explanation
Indices: 24816980--24817021 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
24816970 TTTTAACATA
*
24816980 ATTATTATTAAATAT
1 ATTATAATTAAATAT
24816995 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
24817009 A-TATAATTTAATA
1 ATTATAATTAAATA
24817022 AAATAGAGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Done.