Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 44 of 145
Found at i:14294743 original size:10 final size:10
Alignment explanation
Indices: 14294718--14294748 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
14294708 AATTGAATTG
14294718 AATAAATAATA
1 AATAAATAA-A
14294729 AATAAATAAA
1 AATAAATAAA
14294739 AATAAATAAA
1 AATAAATAAA
14294749 TATGTGAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 11 0.55
11 9 0.45
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (10 bp):
AATAAATAAA
Found at i:14295444 original size:6 final size:6
Alignment explanation
Indices: 14295433--14295459 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
14295423 GTGTGTTGAA
14295433 TACTGT TACTGT TACTGT TACTGT TAC
1 TACTGT TACTGT TACTGT TACTGT TAC
14295460 CGATTCGGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.48
Consensus pattern (6 bp):
TACTGT
Found at i:14295470 original size:51 final size:51
Alignment explanation
Indices: 14295394--14295556 Score: 219
Period size: 51 Copynumber: 3.3 Consensus size: 51
14295384 ATGTGCCGAC
* *
14295394 TACTGTTACTGTTACTGGTTCGGCACTTTGTGTGTTGAATACTGTTACTGT
1 TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTTGAATACTGTTACTGT
* *
14295445 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA-A----TACTGT
1 TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTTGAATACTGTTACTGT
* *
14295491 TACCGTTACTGTTACAGATTCAGCACTTTGTGTGTTGAATACTGTTACTGT
1 TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTTGAATACTGTTACTGT
* *
14295542 TACTGCTACCGTTAC
1 TACTGTTACTGTTAC
14295557 TGTTTACTGT
Statistics
Matches: 97, Mismatches: 10, Indels: 10
0.83 0.09 0.09
Matches are distributed among these distances:
46 41 0.42
47 1 0.01
50 1 0.01
51 54 0.56
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.41
Consensus pattern (51 bp):
TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTTGAATACTGTTACTGT
Found at i:14295541 original size:6 final size:6
Alignment explanation
Indices: 14295530--14295572 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
14295520 GTGTGTTGAA
* *
14295530 TACTGT TACTGT TACTGC TACCGT TACTGTT TACTGTT TACTG
1 TACTGT TACTGT TACTGT TACTGT TACTG-T TACTG-T TACTG
14295573 GTGTGTTTGG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
6 19 0.59
7 13 0.41
ACGTcount: A:0.16, C:0.21, G:0.16, T:0.47
Consensus pattern (6 bp):
TACTGT
Found at i:14303989 original size:18 final size:18
Alignment explanation
Indices: 14303968--14304008 Score: 50
Period size: 16 Copynumber: 2.3 Consensus size: 18
14303958 TTTTTAATAT
*
14303968 TTTTTTCTTTTTTTTGTA
1 TTTTTTCTTTTTTTTCTA
14303986 --TTTTCTTTTTTTTCTA
1 TTTTTTCTTTTTTTTCTA
14304002 TATTTTT
1 T-TTTTT
14304009 TAGATCACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 5
0.76 0.04 0.20
Matches are distributed among these distances:
16 15 0.79
19 4 0.21
ACGTcount: A:0.07, C:0.07, G:0.02, T:0.83
Consensus pattern (18 bp):
TTTTTTCTTTTTTTTCTA
Found at i:14313596 original size:33 final size:33
Alignment explanation
Indices: 14313547--14313642 Score: 174
Period size: 33 Copynumber: 2.9 Consensus size: 33
14313537 ACATAGTAGT
*
14313547 AAACTAAAACACATAAGTAAACAAACTAAACAA
1 AAACTAAAACATATAAGTAAACAAACTAAACAA
*
14313580 AAACTACAACATATAAGTAAACAAACTAAACAA
1 AAACTAAAACATATAAGTAAACAAACTAAACAA
14313613 AAACTAAAACATATAAGTAAACAAACTAAA
1 AAACTAAAACATATAAGTAAACAAACTAAA
14313643 ATAAAATAAA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.66, C:0.17, G:0.03, T:0.15
Consensus pattern (33 bp):
AAACTAAAACATATAAGTAAACAAACTAAACAA
Found at i:14313602 original size:12 final size:11
Alignment explanation
Indices: 14313548--14313636 Score: 51
Period size: 12 Copynumber: 7.9 Consensus size: 11
14313538 CATAGTAGTA
14313548 AACTAAAACACAT
1 AACT-AAACA-AT
*
14313561 AAGTAAAC-A-
1 AACTAAACAAT
*
14313570 AACTAAACAAA
1 AACTAAACAAT
14313581 AACTACAACATAT
1 AACTA-AACA-AT
*
14313594 AAGTAAAC-A-
1 AACTAAACAAT
*
14313603 AACTAAACAAA
1 AACTAAACAAT
14313614 AACTAAAACATAT
1 AACT-AAACA-AT
*
14313627 AAGTAAACAA
1 AACTAAACAA
14313637 ACTAAAATAA
Statistics
Matches: 61, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
9 14 0.23
10 4 0.07
11 10 0.16
12 21 0.34
13 12 0.20
ACGTcount: A:0.65, C:0.17, G:0.03, T:0.15
Consensus pattern (11 bp):
AACTAAACAAT
Found at i:14319811 original size:20 final size:20
Alignment explanation
Indices: 14319783--14319826 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
14319773 GCACGTTCCT
*
14319783 TGCATGGCCACCTTGACTCC
1 TGCACGGCCACCTTGACTCC
*
14319803 TGCACGGCCACCTTGACTGC
1 TGCACGGCCACCTTGACTCC
14319823 TGCA
1 TGCA
14319827 TAGGAGCTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.16, C:0.39, G:0.23, T:0.23
Consensus pattern (20 bp):
TGCACGGCCACCTTGACTCC
Found at i:14324306 original size:20 final size:20
Alignment explanation
Indices: 14324281--14324318 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
14324271 GCACGTTCCT
14324281 TGCATGGCCACCTTGACTCC
1 TGCATGGCCACCTTGACTCC
14324301 TGCATGGCCACCTTGACT
1 TGCATGGCCACCTTGACT
14324319 GCTACATAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.16, C:0.37, G:0.21, T:0.26
Consensus pattern (20 bp):
TGCATGGCCACCTTGACTCC
Found at i:14326304 original size:49 final size:49
Alignment explanation
Indices: 14326189--14326325 Score: 150
Period size: 49 Copynumber: 2.8 Consensus size: 49
14326179 GAACTTGTAC
* * * * * * *
14326189 ATTCAACCATCCCGAATGACCCAACAGTGATGACTTTTACTATTTGCAT
1 ATTCTACCATCCCGAGTGGCCTAACAATGATGGCTTTGACTATTTGCAT
*
14326238 ATTCTACCATCCCGAGTGGCAC-AACGATGATGGCTTTGACTATTTGCAT
1 ATTCTACCATCCCGAGTGGC-CTAACAATGATGGCTTTGACTATTTGCAT
* ** *
14326287 ATTCTATCATCTTGAGTGGCCTAACAATGATGGTTTTGA
1 ATTCTACCATCCCGAGTGGCCTAACAATGATGGCTTTGA
14326326 ATCATTATAT
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
48 1 0.01
49 72 0.97
50 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.33
Consensus pattern (49 bp):
ATTCTACCATCCCGAGTGGCCTAACAATGATGGCTTTGACTATTTGCAT
Found at i:14327184 original size:19 final size:20
Alignment explanation
Indices: 14327151--14327190 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
14327141 GGTTAACATT
*
14327151 AGTTAATTATTAATTAATTA
1 AGTTAATTATAAATTAATTA
14327171 AGTTAATTA-AAATTAATTA
1 AGTTAATTATAAATTAATTA
14327190 A
1 A
14327191 AATTTAATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (20 bp):
AGTTAATTATAAATTAATTA
Found at i:14327188 original size:10 final size:10
Alignment explanation
Indices: 14327162--14327194 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
14327152 GTTAATTATT
14327162 AATTAATT-A
1 AATTAATTAA
*
14327171 AGTTAATTAA
1 AATTAATTAA
14327181 AATTAATTAA
1 AATTAATTAA
14327191 AATT
1 AATT
14327195 TAATCTTAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 7 0.33
10 14 0.67
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (10 bp):
AATTAATTAA
Found at i:14327513 original size:4 final size:4
Alignment explanation
Indices: 14327504--14327543 Score: 57
Period size: 4 Copynumber: 10.2 Consensus size: 4
14327494 TTAGTTAAAT
14327504 ATTA ATTA ATTA ATTA ATTA ATTTA ATT- A-TA ATTA ATTA A
1 ATTA ATTA ATTA ATTA ATTA A-TTA ATTA ATTA ATTA ATTA A
14327544 AGTTTAATCT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 1 0.03
3 2 0.06
4 26 0.79
5 4 0.12
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:14327522 original size:27 final size:27
Alignment explanation
Indices: 14327492--14327543 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
14327482 TTAAGGTTAA
*
14327492 AATTAGTTAAA-TATTAATTAATTAATT
1 AATTAATTAAATTA-TAATTAATTAATT
*
14327519 AATTAATTTAATTATAATTAATTAA
1 AATTAATTAAATTATAATTAATTAA
14327544 AGTTTAATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 20 0.91
28 2 0.09
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (27 bp):
AATTAATTAAATTATAATTAATTAATT
Found at i:14327551 original size:15 final size:14
Alignment explanation
Indices: 14327492--14327551 Score: 61
Period size: 15 Copynumber: 4.2 Consensus size: 14
14327482 TTAAGGTTAA
*
14327492 AATTAGTTAAATATT
1 AATTAATTAAAT-TT
14327507 AATTAATT-AA-TT
1 AATTAATTAAATTT
*
14327519 AATTAATTTAATTAT
1 AATTAATTAAATT-T
14327534 AATTAATTAAAGTTT
1 AATTAATTAAA-TTT
14327549 AAT
1 AAT
14327552 CTTAGTATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
12 10 0.26
13 2 0.05
14 3 0.08
15 22 0.56
16 2 0.05
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (14 bp):
AATTAATTAAATTT
Found at i:14327702 original size:355 final size:345
Alignment explanation
Indices: 14327061--14327758 Score: 1130
Period size: 355 Copynumber: 2.0 Consensus size: 345
14327051 TTAATTGAAG
* * * *
14327061 ACCACTTGATCAATTAGACCTTTTTTAATATAGTGAACGGTGGTGATGGATAACTATCATCCACC
1 ACCACTTGATCAATTAAACCCTTTTTAATATAGTGAACGGTGGTGATGGACAACTACCATCCACC
*
14327126 TAATTGGCTAATTAAGGTTAACATTAGTTAATTATTAATTAATTAAGTTAATTAAAATTAATTAA
66 TAATTGGCTAATTAAGGTTAAAATTAGTTAATTATTAATTAATTAAGTTAATTAAAATTAATTAA
* ** *
14327191 AATTTAATCTTAGTATAAAAGATAAGTTAAAGAAAAAAATGGTTTCTTTTCATGTTCATCTTCTC
131 AATTTAATCTTAGTATAAAAGATAAGTTAAAAAAAAAAACAGTTACTTTTCATGTTCATCTTCTC
14327256 CCCATCGTATCTAAGAAGAAGAAAAAGGGTTTCAAAGCTTTCAAACTTTGGTCCCTAAATTGGTA
196 CCCATCGTATCTAAGAAGAAGAAAAAGGGTTTCAAAGCTTTCAAACTTTGGTCCCTAAATTGGTA
14327321 AGTGACTTTAAGTCTGTTTATTGTAATTTTTATAGTTCTGAGGTCCC-GAAAGCTTGATTTAACT
261 AGTGACTTTAAGTCTGTTTATTGTAATTTTTATAGTTCTGAGGTCCCAG-AAGCTTGATTTAACT
14327385 AACTTGTATACCAATTTGTGT
325 AACTTGTATACCAATTTGTGT
14327406 ACCACTTGATCAATTAAACCCTTTTTAATATAGTGAACGGTGGTGATGGACAACTACCATCCACC
1 ACCACTTGATCAATTAAACCCTTTTTAATATAGTGAACGGTGGTGATGGACAACTACCATCCACC
14327471 TAATTGGCTAATTAAGGTTAAAATTAGTTAAATATTAATTAATTAATTAA-TTAATTTAATTATA
66 TAATTGGCTAATTAAGGTTAAAATTAGTT--A-ATT-ATTAATTAATTAAGTTAA-TT-A--A-A
*
14327535 ATTAATTAAAGTTTAATCTTAGTATAAAAGATAAGTTAAAACAAAAAAAACAGTTACTTTTCATG
122 ATTAATTAAAATTTAATCTTAGTATAAAAGATAAGTT-AAA-AAAAAAAACAGTTACTTTTCATG
*
14327600 TTCATCTTCTCCCCATCGTATCTAAGAAGAAGAAAATGGGTTTCAAAGCTTTCAAACTTTGGTCC
185 TTCATCTTCTCCCCATCGTATCTAAGAAGAAGAAAAAGGGTTTCAAAGCTTTCAAACTTTGGTCC
* *
14327665 CTAAATTGGTAAGTGACTTTAAGTCTGTTTGTTGTAATTTTTATATTTCTGAGGTCCCAGAAGCT
250 CTAAATTGGTAAGTGACTTTAAGTCTGTTTATTGTAATTTTTATAGTTCTGAGGTCCCAGAAGCT
* * *
14327730 TGATTTAGCTAATTTGTGTACCAATTTGT
315 TGATTTAACTAACTTGTATACCAATTTGT
14327759 AAAACCTTTA
Statistics
Matches: 325, Mismatches: 16, Indels: 14
0.92 0.05 0.04
Matches are distributed among these distances:
345 89 0.27
347 1 0.00
348 7 0.02
349 15 0.05
350 1 0.00
352 1 0.00
353 37 0.11
354 3 0.01
355 170 0.52
356 1 0.00
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.38
Consensus pattern (345 bp):
ACCACTTGATCAATTAAACCCTTTTTAATATAGTGAACGGTGGTGATGGACAACTACCATCCACC
TAATTGGCTAATTAAGGTTAAAATTAGTTAATTATTAATTAATTAAGTTAATTAAAATTAATTAA
AATTTAATCTTAGTATAAAAGATAAGTTAAAAAAAAAAACAGTTACTTTTCATGTTCATCTTCTC
CCCATCGTATCTAAGAAGAAGAAAAAGGGTTTCAAAGCTTTCAAACTTTGGTCCCTAAATTGGTA
AGTGACTTTAAGTCTGTTTATTGTAATTTTTATAGTTCTGAGGTCCCAGAAGCTTGATTTAACTA
ACTTGTATACCAATTTGTGT
Found at i:14328709 original size:49 final size:49
Alignment explanation
Indices: 14328600--14328734 Score: 144
Period size: 49 Copynumber: 2.8 Consensus size: 49
14328590 GAACTTGTAC
* ** * **
14328600 ATTCTACCATCCCGGGTGGCCCAACAATGATGACTTTCACTATTTGCAT
1 ATTCTACCATCTCAAGTGGCCCGACAATGATGGTTTTCACTATTTGCAT
* * *
14328649 ATTCTACCATCTCAAGTGGCCCGACAATGACGGTTTTTACTCTTTGCAT
1 ATTCTACCATCTCAAGTGGCCCGACAATGATGGTTTTCACTATTTGCAT
* ** * *
14328698 ATTCTATCATCTTGATTGGCCAGACAATGATGGTTTT
1 ATTCTACCATCTCAAGTGGCCCGACAATGATGGTTTT
14328735 AAATCATTAT
Statistics
Matches: 71, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
49 71 1.00
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (49 bp):
ATTCTACCATCTCAAGTGGCCCGACAATGATGGTTTTCACTATTTGCAT
Found at i:14331145 original size:27 final size:27
Alignment explanation
Indices: 14331093--14331149 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
14331083 CAAAATAATC
* *
14331093 CCAAAAACTAAACAGAACATAAAATGT
1 CCAAAAACTAAACAAAACACAAAATGT
*
14331120 CCAAAAA-TAAACAAAACCCAAGAATGT
1 CCAAAAACTAAACAAAACACAA-AATGT
14331147 CCA
1 CCA
14331150 TAATGTCCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 11 0.42
27 15 0.58
ACGTcount: A:0.58, C:0.23, G:0.07, T:0.12
Consensus pattern (27 bp):
CCAAAAACTAAACAAAACACAAAATGT
Found at i:14333593 original size:12 final size:12
Alignment explanation
Indices: 14333578--14333611 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
14333568 AAATAAAAAC
*
14333578 CAAAATCTAAGT
1 CAAAGTCTAAGT
*
14333590 CAAAGTCAAAGT
1 CAAAGTCTAAGT
14333602 CAAAGTCTAA
1 CAAAGTCTAA
14333612 TTTAATCTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.50, C:0.18, G:0.12, T:0.21
Consensus pattern (12 bp):
CAAAGTCTAAGT
Found at i:14334797 original size:18 final size:18
Alignment explanation
Indices: 14334755--14334799 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
14334745 TTTTACCAAT
14334755 ATCTTGTAATCTTAGAAG
1 ATCTTGTAATCTTAGAAG
*
14334773 ATTTTGTAATCTTAGGAA-
1 ATCTTGTAATCTTA-GAAG
14334791 ATCTTGTAA
1 ATCTTGTAA
14334800 ATCCCTTGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 21 0.88
19 3 0.12
ACGTcount: A:0.33, C:0.09, G:0.16, T:0.42
Consensus pattern (18 bp):
ATCTTGTAATCTTAGAAG
Found at i:14335350 original size:79 final size:80
Alignment explanation
Indices: 14335255--14335415 Score: 315
Period size: 79 Copynumber: 2.0 Consensus size: 80
14335245 TTTAGACGTT
14335255 TTATAAAATGTAAATTAAAAATTACAGTTACTCGAAATTGAACTAAATTCTATTTTTTATTTACT
1 TTATAAAATGTAAATTAAAAATTACAGTTACTCGAAATTGAACTAAATTCTATTTTTTATTTACT
14335320 TTTAA-TAATTTTAA
66 TTTAATTAATTTTAA
14335334 TTATAAAATGTAAATTAAAAATTACAGTTACTCGAAATTGAACTAAATTCTATTTTTTATTTACT
1 TTATAAAATGTAAATTAAAAATTACAGTTACTCGAAATTGAACTAAATTCTATTTTTTATTTACT
14335399 TTTAATTAATTTTAA
66 TTTAATTAATTTTAA
14335414 TT
1 TT
14335416 TTTATGATAA
Statistics
Matches: 81, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
79 70 0.86
80 11 0.14
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.47
Consensus pattern (80 bp):
TTATAAAATGTAAATTAAAAATTACAGTTACTCGAAATTGAACTAAATTCTATTTTTTATTTACT
TTTAATTAATTTTAA
Found at i:14335596 original size:26 final size:27
Alignment explanation
Indices: 14335567--14335617 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
14335557 TAATTTTGTC
* *
14335567 AAAA-TAAAATTAAAAATTTAAAACAA
1 AAAATTAAAATAAAAAATTAAAAACAA
*
14335593 AAAATTAATATAAAAAATTAAAAAC
1 AAAATTAAAATAAAAAATTAAAAAC
14335618 CGAATCAAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 4 0.19
27 17 0.81
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.24
Consensus pattern (27 bp):
AAAATTAAAATAAAAAATTAAAAACAA
Found at i:14342091 original size:35 final size:36
Alignment explanation
Indices: 14342050--14342137 Score: 92
Period size: 35 Copynumber: 2.4 Consensus size: 36
14342040 AAAACCAAAA
14342050 ATTTAAAATCTAAAAA-AT-AAGTAAATCTAAGGAAT
1 ATTTAAAATCTAAAAACATAAAGTAAATCTAAGG-AT
* *
14342085 ATTTAAAATTTATATCAAACATAAATTAAATCTAAGGAT
1 ATTTAAAATCTA-A--AAACATAAAGTAAATCTAAGGAT
*
14342124 A-TTAAAGTCTAAAA
1 ATTTAAAATCTAAAA
14342138 TAAAAAATTA
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
35 13 0.30
36 1 0.02
37 1 0.02
38 11 0.25
39 5 0.11
40 13 0.30
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.32
Consensus pattern (36 bp):
ATTTAAAATCTAAAAACATAAAGTAAATCTAAGGAT
Found at i:14343612 original size:27 final size:27
Alignment explanation
Indices: 14343567--14343628 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
14343557 GGAGGGATTT
* *
14343567 TGATTGGCGGCACCGATGGTGCCATAC
1 TGATTGGCAGCACCAATGGTGCCATAC
*
14343594 TGCTTGGCAGCACCAATGGTGCCATAC
1 TGATTGGCAGCACCAATGGTGCCATAC
14343621 TGATTGGC
1 TGATTGGC
14343629 GGGACTACTC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.19, C:0.26, G:0.31, T:0.24
Consensus pattern (27 bp):
TGATTGGCAGCACCAATGGTGCCATAC
Found at i:14343745 original size:21 final size:20
Alignment explanation
Indices: 14343715--14343753 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
14343705 AGGTGCTGCG
14343715 GAAAAAAAGAGAAAAAGAGA
1 GAAAAAAAGAGAAAAAGAGA
14343735 GAAAAAGAAGAGAAAAAGA
1 GAAAAA-AAGAGAAAAAGA
14343754 ACGTATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (20 bp):
GAAAAAAAGAGAAAAAGAGA
Found at i:14343752 original size:11 final size:11
Alignment explanation
Indices: 14343715--14343754 Score: 66
Period size: 10 Copynumber: 3.8 Consensus size: 11
14343705 AGGTGCTGCG
14343715 GAAAAA-AAGA
1 GAAAAAGAAGA
14343725 GAAAAAG-AGA
1 GAAAAAGAAGA
14343735 GAAAAAGAAGA
1 GAAAAAGAAGA
14343746 GAAAAAGAA
1 GAAAAAGAA
14343755 CGTATTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 16 0.57
11 12 0.43
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (11 bp):
GAAAAAGAAGA
Found at i:14344502 original size:18 final size:18
Alignment explanation
Indices: 14344479--14344523 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
14344469 TTGATATGGT
*
14344479 TGGTGGTGAAGAAGAAGG
1 TGGTGGCGAAGAAGAAGG
14344497 TGGTGGCGAAGAAGAAGG
1 TGGTGGCGAAGAAGAAGG
*
14344515 TGGCGGCGA
1 TGGTGGCGA
14344524 TCATTGGGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.29, C:0.07, G:0.51, T:0.13
Consensus pattern (18 bp):
TGGTGGCGAAGAAGAAGG
Found at i:14349848 original size:10 final size:10
Alignment explanation
Indices: 14349833--14350010 Score: 107
Period size: 10 Copynumber: 18.6 Consensus size: 10
14349823 TTCTCTTCTC
14349833 CTTTCCTTTT
1 CTTTCCTTTT
14349843 CTTTCCTTCTT
1 CTTTCCTT-TT
14349854 -TTT-C-TTT
1 CTTTCCTTTT
*
14349861 CTTT-TTTCTT
1 CTTTCCTT-TT
*
14349871 CTTCTCCTTTC
1 CTT-TCCTTTT
*
14349882 CTTTTC-TTT
1 CTTTCCTTTT
* *
14349891 CCTTCTTTTT
1 CTTTCCTTTT
14349901 CTTT-CTTTT
1 CTTTCCTTTT
* *
14349910 -TTCTTCTTCTC
1 CTT-TCCTT-TT
14349921 CTTTCCTTTT
1 CTTTCCTTTT
14349931 CTTTCCTTCTT
1 CTTTCCTT-TT
14349942 -TTT-C-TTT
1 CTTTCCTTTT
* *
14349949 CTTTCCTCTC
1 CTTTCCTTTT
14349959 CTTTCCTTTT
1 CTTTCCTTTT
14349969 CTTTCCTTTT
1 CTTTCCTTTT
14349979 CTTT-C-TTT
1 CTTTCCTTTT
14349987 CTTT-C-TTT
1 CTTTCCTTTT
14349995 CTTT-CTTCTT
1 CTTTCCTT-TT
14350005 CTTTCC
1 CTTTCC
14350011 CTCTCCTTCT
Statistics
Matches: 133, Mismatches: 17, Indels: 35
0.72 0.09 0.19
Matches are distributed among these distances:
7 4 0.03
8 26 0.20
9 16 0.12
10 68 0.51
11 15 0.11
12 4 0.03
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (10 bp):
CTTTCCTTTT
Found at i:14349881 original size:44 final size:44
Alignment explanation
Indices: 14349805--14350010 Score: 302
Period size: 44 Copynumber: 4.8 Consensus size: 44
14349795 TTCCTTCCCT
* *
14349805 CTTCTTCTTCTTTTTTTTTTC-TCTTCTCCTTTCCTTTTCTTTC
1 CTTCTTTTTCTTTCTTTTTTCTTCTTCTCCTTTCCTTTTCTTTC
14349848 CTTCTTTTTCTTTCTTTTTTCTTCTTCTCCTTTCCTTTTCTTTC
1 CTTCTTTTTCTTTCTTTTTTCTTCTTCTCCTTTCCTTTTCTTTC
14349892 CTTCTTTTTCTTTCTTTTTTCTTCTTCTCCTTTCCTTTTCTTTC
1 CTTCTTTTTCTTTCTTTTTTCTTCTTCTCCTTTCCTTTTCTTTC
14349936 CTTCTTTTTCTTTC---TTTC--C-TCTCCTTTCCTTTTCTTTC
1 CTTCTTTTTCTTTCTTTTTTCTTCTTCTCCTTTCCTTTTCTTTC
*
14349974 CTT-TTCTTTCTTTCTTTCTTTCTTTCTTCTTCTTTCC
1 CTTCTT-TTTCTTTCTTT-TTTC-TTCTTCTCCTTTCC
14350011 CTCTCCTTCT
Statistics
Matches: 150, Mismatches: 3, Indels: 17
0.88 0.02 0.10
Matches are distributed among these distances:
37 2 0.01
38 30 0.20
39 1 0.01
41 4 0.03
42 4 0.03
43 19 0.13
44 80 0.53
45 1 0.01
46 9 0.06
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (44 bp):
CTTCTTTTTCTTTCTTTTTTCTTCTTCTCCTTTCCTTTTCTTTC
Found at i:14349940 original size:88 final size:82
Alignment explanation
Indices: 14349855--14350010 Score: 235
Period size: 82 Copynumber: 1.9 Consensus size: 82
14349845 TTCCTTCTTT
* *
14349855 TTCTTTCTTTTTTC-TTCTTCTCCTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTTTTCTTCTTC
1 TTCTTT-TTCTTTCTTTCCTCTCCTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTTTTCTTCTTC
14349919 TCCTTTCCTTTTCTTTCC
65 TCCTTTCCTTTTCTTTCC
14349937 TTCTTTTTCTTTCTTTCCTCTCCTTTCCTTTTCTTTCCTT-TTCTTTCTTTCTTTCTTTCTTTCT
1 TTCTTTTTCTTTCTTTCCTCTCCTTTCCTTTTCTTTCCTTCTT-TTTCTTTCTTT-TTTC-TTCT
*
14350001 TCTTCTTTCC
63 TCTCCTTTCC
14350011 CTCTCCTTCT
Statistics
Matches: 67, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
81 8 0.12
82 42 0.63
83 4 0.06
84 13 0.19
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (82 bp):
TTCTTTTTCTTTCTTTCCTCTCCTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTTTTCTTCTTCT
CCTTTCCTTTTCTTTCC
Found at i:14350092 original size:27 final size:27
Alignment explanation
Indices: 14350054--14350118 Score: 130
Period size: 27 Copynumber: 2.4 Consensus size: 27
14350044 TTATAAGGTT
14350054 GGTGCCGCCAACCAGTATGGCACCATC
1 GGTGCCGCCAACCAGTATGGCACCATC
14350081 GGTGCCGCCAACCAGTATGGCACCATC
1 GGTGCCGCCAACCAGTATGGCACCATC
14350108 GGTGCCGCCAA
1 GGTGCCGCCAA
14350119 TCGAAAACCC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.22, C:0.37, G:0.28, T:0.14
Consensus pattern (27 bp):
GGTGCCGCCAACCAGTATGGCACCATC
Found at i:14351211 original size:26 final size:25
Alignment explanation
Indices: 14351166--14351220 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
14351156 TCGTAATTTT
* *
14351166 TTTAAAAAATGTCTATTTTTGTAATA
1 TTTAAAAAATGACTATTTTTG-AAAA
14351192 TTTAAAAAATGAC-ATTTTTTGAAAA
1 TTTAAAAAATGACTA-TTTTTGAAAA
14351217 TTTA
1 TTTA
14351221 GTCTGAACAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 8 0.31
26 18 0.69
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.47
Consensus pattern (25 bp):
TTTAAAAAATGACTATTTTTGAAAA
Found at i:14351219 original size:25 final size:26
Alignment explanation
Indices: 14351166--14351220 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
14351156 TCGTAATTTT
* *
14351166 TTTAAAAAATGTCTATTTTTGTAATA
1 TTTAAAAAATGACTATTTTTGTAAAA
14351192 TTTAAAAAATGAC-ATTTTT-TGAAAA
1 TTTAAAAAATGACTATTTTTGT-AAAA
14351217 TTTA
1 TTTA
14351221 GTCTGAACAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 1 0.04
25 13 0.50
26 12 0.46
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.47
Consensus pattern (26 bp):
TTTAAAAAATGACTATTTTTGTAAAA
Found at i:14352609 original size:18 final size:20
Alignment explanation
Indices: 14352588--14352624 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
14352578 TCTAAAATGC
14352588 TTGT-ATTT-AAAAAAAAAT
1 TTGTGATTTCAAAAAAAAAT
*
14352606 TTGTGTTTTCAAAAAAAAA
1 TTGTGATTTCAAAAAAAAA
14352625 AGAAAAAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 4 0.25
19 3 0.19
20 9 0.56
ACGTcount: A:0.51, C:0.03, G:0.08, T:0.38
Consensus pattern (20 bp):
TTGTGATTTCAAAAAAAAAT
Found at i:14366525 original size:20 final size:20
Alignment explanation
Indices: 14366479--14366530 Score: 72
Period size: 18 Copynumber: 2.6 Consensus size: 20
14366469 AAAAGAAAGT
*
14366479 TAAGAGAAGAAGAAGAGAGAA
1 TAAGA-AAGAAAAAGAGAGAA
14366500 -AA-AAAGAAAAAGAGAGAA
1 TAAGAAAGAAAAAGAGAGAA
14366518 TAAGAAAGAAAAA
1 TAAGAAAGAAAAA
14366531 ATAAAAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 14 0.50
19 3 0.11
20 11 0.39
ACGTcount: A:0.71, C:0.00, G:0.25, T:0.04
Consensus pattern (20 bp):
TAAGAAAGAAAAAGAGAGAA
Found at i:14366537 original size:28 final size:29
Alignment explanation
Indices: 14366464--14366531 Score: 84
Period size: 28 Copynumber: 2.3 Consensus size: 29
14366454 CTGCCGAAGG
*
14366464 AGAAAAAAAGAAAGTTAAGAGAAGAAGAAGAG
1 AGAAAAAAAGAAA---AAGAGAAGAAGAAGAA
*
14366496 AGAAAAAAAGAAAAAGAG-AGAATAAGAA
1 AGAAAAAAAGAAAAAGAGAAGAAGAAGAA
14366524 AGAAAAAA
1 AGAAAAAA
14366532 TAAAAATAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
28 16 0.47
29 5 0.15
32 13 0.38
ACGTcount: A:0.72, C:0.00, G:0.24, T:0.04
Consensus pattern (29 bp):
AGAAAAAAAGAAAAAGAGAAGAAGAAGAA
Found at i:14366756 original size:14 final size:14
Alignment explanation
Indices: 14366711--14366747 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
14366701 GTGCAGTAGT
14366711 CCAGCAGCTACAGC
1 CCAGCAGCTACAGC
*
14366725 CCAGCAGCTCCAGC
1 CCAGCAGCTACAGC
14366739 CCAGCAGCT
1 CCAGCAGCT
14366748 TCGGCCCAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.24, C:0.46, G:0.22, T:0.08
Consensus pattern (14 bp):
CCAGCAGCTACAGC
Found at i:14367358 original size:18 final size:18
Alignment explanation
Indices: 14367308--14367518 Score: 127
Period size: 18 Copynumber: 11.8 Consensus size: 18
14367298 ATAAAATCTC
*
14367308 CCGTGTTTTCAAAAAAAATT
1 CCGTGTTTTC--AAAAATTT
*
14367328 -CATGTTTTC-AAAATTT
1 CCGTGTTTTCAAAAATTT
14367344 CCGTGTTTTCAAAAAATCTT
1 CCGTGTTTTC-AAAAAT-TT
14367364 -CGTG-TTTCAAAAA-TT
1 CCGTGTTTTCAAAAATTT
** *
14367379 CTCGTG-AATAAAAAATTT
1 C-CGTGTTTTCAAAAATTT
* * *
14367397 CCTTGTTTTTCAAAAGTCT
1 CCGTG-TTTTCAAAAATTT
*
14367416 -CGT-ATTTCAAAAATTT
1 CCGTGTTTTCAAAAATTT
* * * *
14367432 TCTTGTTTACAACAAAATT
1 CCGTGTTTTCAA-AAATTT
*
14367451 CCGTG-TTTCATAAATTT
1 CCGTGTTTTCAAAAATTT
*
14367468 CCGTGTTTTCAAAAATATC
1 CCGTGTTTTCAAAAAT-TT
*
14367487 CCGT-CTTTCAAAAATTT
1 CCGTGTTTTCAAAAATTT
*
14367504 TCGTGTTTTCAAAAA
1 CCGTGTTTTCAAAAA
14367519 AATTGACCAT
Statistics
Matches: 145, Mismatches: 31, Indels: 32
0.70 0.15 0.15
Matches are distributed among these distances:
15 2 0.01
16 16 0.11
17 42 0.29
18 46 0.32
19 37 0.26
20 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.09, T:0.41
Consensus pattern (18 bp):
CCGTGTTTTCAAAAATTT
Found at i:14367370 original size:36 final size:33
Alignment explanation
Indices: 14367320--14367555 Score: 145
Period size: 36 Copynumber: 6.7 Consensus size: 33
14367310 GTGTTTTCAA
* * *
14367320 AAAAAATTCATGTTTTCAAAATTTCCGTGTTTTC
1 AAAAATTTCGTGTTTTCAAAAATTCCGTG-TTTC
** *
14367354 AAAAAATCTTCGTG-TTTCAAAAATTCTCGTGAATA
1 -AAAAAT-TTCGTGTTTTCAAAAATTC-CGTGTTTC
* * *
14367389 AAAAATTTCCTTGTTTTTC-AAAAGTCTCGTATTTC
1 AAAAATTT-CGTG-TTTTCAAAAATTC-CGTGTTTC
* *
14367424 AAAAATTTTCTTGTTTACAACAAAATTCCGTGTTTC
1 AAAAA-TTTCGTGTTTTC-A-AAAATTCCGTGTTTC
* *
14367460 ATAAATTTCCGTGTTTTCAAAAATATCCCGTCTTTC
1 AAAAATTT-CGTGTTTTCAAAAAT-T-CCGTGTTTC
*
14367496 AAAAATTTTCGTGTTTTCAAAAAAATTGACCATGTTTC
1 AAAAA-TTTCGTGTTTTC--AAAAATT--CCGTGTTTC
*
14367534 ATAAATTTTCGTG-TTTCAAAAA
1 A-AAAATTTCGTGTTTTCAAAAA
14367556 AAATTTTCGT
Statistics
Matches: 160, Mismatches: 24, Indels: 34
0.73 0.11 0.16
Matches are distributed among these distances:
33 2 0.01
34 18 0.11
35 47 0.29
36 55 0.34
37 14 0.09
38 21 0.13
39 3 0.02
ACGTcount: A:0.34, C:0.16, G:0.09, T:0.41
Consensus pattern (33 bp):
AAAAATTTCGTGTTTTCAAAAATTCCGTGTTTC
Found at i:14367521 original size:20 final size:19
Alignment explanation
Indices: 14367424--14367577 Score: 90
Period size: 20 Copynumber: 8.3 Consensus size: 19
14367414 CTCGTATTTC
*
14367424 AAAAATTTTCTTGTTTACAA
1 AAAAATTTTCGTGTTT-CAA
* *
14367444 CAAAA-TTCCGTGTTTC--
1 AAAAATTTTCGTGTTTCAA
* *
14367460 ATAAATTTCCGTGTTTTCAA
1 AAAAATTTTCGTG-TTTCAA
* ** *
14367480 AAATA-TCCCGTCTTTC--
1 AAAAATTTTCGTGTTTCAA
14367496 AAAAATTTTCGTGTTTTCAA
1 AAAAATTTTCGTG-TTTCAA
** *
14367516 AAAAATTGACCATGTTTC--
1 AAAAATT-TTCGTGTTTCAA
*
14367534 ATAAATTTTCGTGTTTCAAA
1 AAAAATTTTCGTGTTTC-AA
14367554 AAAAATTTTCGTGTTTCAA
1 AAAAATTTTCGTGTTTCAA
14367573 AAAAA
1 AAAAA
14367578 AACTCTCGTG
Statistics
Matches: 101, Mismatches: 21, Indels: 25
0.69 0.14 0.17
Matches are distributed among these distances:
16 7 0.07
17 18 0.18
18 19 0.19
19 20 0.20
20 34 0.34
21 3 0.03
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (19 bp):
AAAAATTTTCGTGTTTCAA
Found at i:14367558 original size:38 final size:36
Alignment explanation
Indices: 14367420--14367575 Score: 170
Period size: 36 Copynumber: 4.2 Consensus size: 36
14367410 AAGTCTCGTA
* * *
14367420 TTTCAAAAATTTTCTTGTTTACAACAAAATTCCGTG
1 TTTCAAAAATTTTCGTGTTTTCAAAAAAATTCCGTG
* * * * *
14367456 TTTCATAAATTTCCGTGTTTTCAAAAATATCCCGTC
1 TTTCAAAAATTTTCGTGTTTTCAAAAAAATTCCGTG
*
14367492 TTTCAAAAATTTTCGTGTTTTCAAAAAAATTGACCATG
1 TTTCAAAAATTTTCGTGTTTTCAAAAAAATT--CCGTG
* *
14367530 TTTCATAAATTTTCGTG-TTTCAAAAAAAATTTTCGTG
1 TTTCAAAAATTTTCGTGTTTTC-AAAAAAA-TTCCGTG
14367567 TTTCAAAAA
1 TTTCAAAAA
14367576 AAAACTCTCG
Statistics
Matches: 98, Mismatches: 18, Indels: 7
0.80 0.15 0.06
Matches are distributed among these distances:
36 55 0.56
37 15 0.15
38 26 0.27
39 2 0.02
ACGTcount: A:0.34, C:0.15, G:0.09, T:0.42
Consensus pattern (36 bp):
TTTCAAAAATTTTCGTGTTTTCAAAAAAATTCCGTG
Found at i:14367576 original size:18 final size:17
Alignment explanation
Indices: 14367333--14367575 Score: 130
Period size: 17 Copynumber: 13.5 Consensus size: 17
14367323 AAATTCATGT
*
14367333 TTTC-AAAATTTCCGTG
1 TTTCAAAAATTTTCGTG
*
14367349 TTTTCAAAAAATCTTCGTG
1 -TTTC-AAAAATTTTCGTG
*
14367368 TTTCAAAAATTCTCGTG
1 TTTCAAAAATTTTCGTG
** * * *
14367385 AATAAAAAATTTCCTTGTT
1 TTTCAAAAATTT--TCGTG
* * *
14367404 TTTC-AAAAGTCTCGTA
1 TTTCAAAAATTTTCGTG
*
14367420 TTTCAAAAATTTTCTTG
1 TTTCAAAAATTTTCGTG
* *
14367437 TTTACAACAAAATTCCGTG
1 TTT-CAA-AAATTTTCGTG
* *
14367456 TTTCATAAATTTCCGTG
1 TTTCAAAAATTTTCGTG
** *
14367473 TTTTCAAAAATATCCCGTC
1 -TTTCAAAAAT-TTTCGTG
14367492 TTTCAAAAATTTTCGTG
1 TTTCAAAAATTTTCGTG
** *
14367509 TTTTCAAAAAAATTGACCATG
1 -TTTC--AAAAATT-TTCGTG
*
14367530 TTTCATAAATTTTCGTG
1 TTTCAAAAATTTTCGTG
14367547 TTTCAAAAAAAATTTTCGTG
1 TTTC---AAAAATTTTCGTG
14367567 TTTCAAAAA
1 TTTCAAAAA
14367576 AAAACTCTCG
Statistics
Matches: 170, Mismatches: 40, Indels: 32
0.70 0.17 0.13
Matches are distributed among these distances:
16 7 0.04
17 60 0.35
18 43 0.25
19 30 0.18
20 27 0.16
21 3 0.02
ACGTcount: A:0.33, C:0.16, G:0.09, T:0.42
Consensus pattern (17 bp):
TTTCAAAAATTTTCGTG
Found at i:14367685 original size:17 final size:17
Alignment explanation
Indices: 14367653--14367883 Score: 149
Period size: 17 Copynumber: 12.8 Consensus size: 17
14367643 TTCATGTTTC
14367653 CGTGTTTTCAAAAAATTTT
1 CGTG-TTTC-AAAAATTTT
*
14367672 CGTGTTTCAAAAATCTT
1 CGTGTTTCAAAAATTTT
*
14367689 CGTGTTTCAAAAATTGT
1 CGTGTTTCAAAAATTTT
14367706 CGTGTTTTCAAAAAATTTT
1 CGTG-TTTC-AAAAATTTT
* ** *
14367725 CCTTGTTTTC-AAAGGTCT
1 -CGTG-TTTCAAAAATTTT
* *
14367743 CGTATTTCGAAAATTTT
1 CGTGTTTCAAAAATTTT
* *
14367760 CTTGTTTTCAAAAAATATT
1 CGTG-TTTC-AAAAATTTT
* *
14367779 CTGTGTTTCATAAATTTC
1 C-GTGTTTCAAAAATTTT
* **
14367797 CGTGTTTTCAAAAAAATCC
1 CGTG-TTTC-AAAAATTTT
*
14367816 CGTCTTTCAAAAATTTT
1 CGTGTTTCAAAAATTTT
**
14367833 CGTGTTTTCAAAAAAATTGAC
1 CGTG-TTTC--AAAAATT-TT
*
14367854 CGTGTTTCATAAATTTT
1 CGTGTTTCAAAAATTTT
14367871 CGTGTTTCAAAAA
1 CGTGTTTCAAAAA
14367884 AAAATCCTCG
Statistics
Matches: 164, Mismatches: 35, Indels: 28
0.72 0.15 0.12
Matches are distributed among these distances:
16 4 0.02
17 60 0.37
18 42 0.26
19 33 0.20
20 21 0.13
21 4 0.02
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.43
Consensus pattern (17 bp):
CGTGTTTCAAAAATTTT
Found at i:14367693 original size:36 final size:36
Alignment explanation
Indices: 14367653--14367884 Score: 208
Period size: 36 Copynumber: 6.4 Consensus size: 36
14367643 TTCATGTTTC
* *
14367653 CGTGTTTTCAAAAAATTTTCGTGTTTCAAAAATCTT
1 CGTGTTTTCAAAAAATTCTCGTGTTTCAAAAATTTT
*
14367689 CGTG-TTTC-AAAAATTGTCGTGTTTTCAAAAAATTTT
1 CGTGTTTTCAAAAAATTCTCGTG-TTTC-AAAAATTTT
* ** * *
14367725 CCTTGTTTTC--AAAGGTCTCGTATTTCGAAAATTTT
1 -CGTGTTTTCAAAAAATTCTCGTGTTTCAAAAATTTT
* * *
14367760 CTTGTTTTCAAAAAATAT-TCTGTGTTTCATAAATTTC
1 CGTGTTTTCAAAAAAT-TCTC-GTGTTTCAAAAATTTT
* * *
14367797 CGTGTTTTCAAAAAAATCCCGTCTTTCAAAAATTTT
1 CGTGTTTTCAAAAAATTCTCGTGTTTCAAAAATTTT
*
14367833 CGTGTTTTCAAAAAAATTGAC-CGTGTTTCATAAATTTT
1 CGTGTTTTC-AAAAAATT--CTCGTGTTTCAAAAATTTT
14367871 CGTG-TTTCAAAAAA
1 CGTGTTTTCAAAAAA
14367885 AAATCCTCGT
Statistics
Matches: 161, Mismatches: 23, Indels: 24
0.77 0.11 0.12
Matches are distributed among these distances:
34 21 0.13
35 16 0.10
36 50 0.31
37 50 0.31
38 23 0.14
39 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.43
Consensus pattern (36 bp):
CGTGTTTTCAAAAAATTCTCGTGTTTCAAAAATTTT
Found at i:14367757 original size:54 final size:53
Alignment explanation
Indices: 14367653--14367846 Score: 171
Period size: 54 Copynumber: 3.6 Consensus size: 53
14367643 TTCATGTTTC
*
14367653 CGTGTTTTCAAAAAATTTTCGTGTTTCAAAAATCTTCGTGTTTCAAAAATTGT
1 CGTGTTTTCAAAAAATTTTCGTGTTTCAAAAATCTTCGTATTTCAAAAATTGT
* ** * *
14367706 CGTGTTTTCAAAAAATTTTCCTTGTTTTCAAAGGTC-TCGTATTTCGAAAATTTT
1 CGTGTTTTCAAAAAATTTT-CGTG-TTTCAAAAATCTTCGTATTTCAAAAATTGT
* * * * * **
14367760 CTTGTTTTCAAAAAATATTCTGTGTTTCATAAAT-TTCCGTGTTTTCAAAAAAATCC
1 CGTGTTTTCAAAAAATTTTC-GTGTTTCAAAAATCTT-CGT-ATTTC-AAAAATTGT
*
14367816 CGT-CTTTC-AAAAATTTTCGTGTTTTCAAAAA
1 CGTGTTTTCAAAAAATTTTCGTG-TTTCAAAAA
14367847 AATTGACCGT
Statistics
Matches: 112, Mismatches: 21, Indels: 15
0.76 0.14 0.10
Matches are distributed among these distances:
53 31 0.28
54 57 0.51
55 17 0.15
56 7 0.06
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.44
Consensus pattern (53 bp):
CGTGTTTTCAAAAAATTTTCGTGTTTCAAAAATCTTCGTATTTCAAAAATTGT
Found at i:14367847 original size:73 final size:72
Alignment explanation
Indices: 14367649--14367885 Score: 236
Period size: 73 Copynumber: 3.3 Consensus size: 72
14367639 AATTTTCATG
* * * *
14367649 TTTCCGTGTTTTCAAAAAATTTTCGTGTTTCAAAAATCTTCGTG-TTTC-AAAAAT-TGTCGTGT
1 TTTCCGTGTTTTCAAAAAAATCTCGTATTTCAAAAATTTTCGTGTTTTCAAAAAATAT-TCGTG-
*
14367711 TTTCAAAAAA
64 TTTC-ATAAA
* ** * *
14367721 TTTTCCTTGTTTTC--AAAGGTCTCGTATTTCGAAAATTTTCTTGTTTTCAAAAAATATTCTGTG
1 -TTTCCGTGTTTTCAAAAAAATCTCGTATTTCAAAAATTTTCGTGTTTTCAAAAAATATTC-GTG
14367784 TTTCATAAA
64 TTTCATAAA
* *
14367793 TTTCCGTGTTTTCAAAAAAATCCCGTCTTTCAAAAATTTTCGTGTTTTCAAAAAA-ATTGACCGT
1 TTTCCGTGTTTTCAAAAAAATCTCGTATTTCAAAAATTTTCGTGTTTTCAAAAAATATT---CGT
14367857 GTTTCATAAA
63 GTTTCATAAA
*
14367867 TTTTCGTG-TTTCAAAAAAA
1 TTTCCGTGTTTTCAAAAAAA
14367886 AATCCTCGTG
Statistics
Matches: 138, Mismatches: 17, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
71 34 0.25
72 11 0.08
73 69 0.50
74 23 0.17
75 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.43
Consensus pattern (72 bp):
TTTCCGTGTTTTCAAAAAAATCTCGTATTTCAAAAATTTTCGTGTTTTCAAAAAATATTCGTGTT
TCATAAA
Found at i:14367848 original size:38 final size:37
Alignment explanation
Indices: 14367653--14367900 Score: 172
Period size: 37 Copynumber: 6.8 Consensus size: 37
14367643 TTCATGTTTC
* ** *
14367653 CGTGTTTTC-AAAAAATTTTCGTGTTTCAAAAATCTT
1 CGTGTTTTCAAAAAAAATCCCGTGTTTCAAAAATTTT
* **
14367689 CGTG-TTTC--AAAAATTGTCGTGTTTTCAAAAAATTTT
1 CGTGTTTTCAAAAAAAATCCCGTG-TTTC-AAAAATTTT
* ** * * *
14367725 CCTTGTTTTC---AAAGGTCTCGTATTTCGAAAATTTT
1 -CGTGTTTTCAAAAAAAATCCCGTGTTTCAAAAATTTT
* * * * * *
14367760 CTTGTTTTCAAAAAATATTCTGTGTTTCATAAATTTC
1 CGTGTTTTCAAAAAAAATCCCGTGTTTCAAAAATTTT
*
14367797 CGTGTTTTC-AAAAAAATCCCGTCTTTCAAAAATTTT
1 CGTGTTTTCAAAAAAAATCCCGTGTTTCAAAAATTTT
* * *
14367833 CGTGTTTTCAAAAAAATTGACCGTGTTTCATAAATTTT
1 CGTGTTTTCAAAAAAAAT-CCCGTGTTTCAAAAATTTT
14367871 CGTG-TTTCAAAAAAAAATCCTCGTGTTTCA
1 CGTGTTTTC-AAAAAAAATCC-CGTGTTTCA
14367901 TATTTTATCA
Statistics
Matches: 171, Mismatches: 30, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
34 21 0.12
35 16 0.09
36 46 0.27
37 47 0.27
38 41 0.24
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.43
Consensus pattern (37 bp):
CGTGTTTTCAAAAAAAATCCCGTGTTTCAAAAATTTT
Found at i:14367901 original size:38 final size:37
Alignment explanation
Indices: 14367753--14367902 Score: 178
Period size: 38 Copynumber: 4.0 Consensus size: 37
14367743 CGTATTTCGA
* * * *
14367753 AAATTTTCTTGTTTTCAAAAAATATTCTGTGTTTCAT
1 AAATTTTCGTGTTTTCAAAAAAAATCCCGTGTTTCAT
* * *
14367790 AAATTTCCGTGTTTTC-AAAAAAATCCCGTCTTTCAA
1 AAATTTTCGTGTTTTCAAAAAAAATCCCGTGTTTCAT
* *
14367826 AAATTTTCGTGTTTTCAAAAAAATTGACCGTGTTTCAT
1 AAATTTTCGTGTTTTCAAAAAAAAT-CCCGTGTTTCAT
14367864 AAATTTTCGTG-TTTCAAAAAAAAATCCTCGTGTTTCAT
1 AAATTTTCGTGTTTTC-AAAAAAAATCC-CGTGTTTCAT
14367902 A
1 A
14367903 TTTTATCAAA
Statistics
Matches: 95, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
36 30 0.32
37 26 0.27
38 39 0.41
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (37 bp):
AAATTTTCGTGTTTTCAAAAAAAATCCCGTGTTTCAT
Found at i:14367930 original size:17 final size:18
Alignment explanation
Indices: 14367908--14367967 Score: 70
Period size: 17 Copynumber: 3.4 Consensus size: 18
14367898 TCATATTTTA
*
14367908 TCAAAAATATTATGT-TT
1 TCAAAAATATTTTGTGTT
*
14367925 TCAAAAAAAATTTTGTGTT
1 TC-AAAAATATTTTGTGTT
*
14367944 TTAAAAAT-TTTTGTGTT
1 TCAAAAATATTTTGTGTT
14367961 TCAAAAA
1 TCAAAAA
14367968 GAAAATTTGT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
17 17 0.47
18 16 0.44
19 3 0.08
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.45
Consensus pattern (18 bp):
TCAAAAATATTTTGTGTT
Found at i:14367977 original size:37 final size:36
Alignment explanation
Indices: 14367910--14367981 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
14367900 ATATTTTATC
*
14367910 AAAAATATTATGTTTTCAAAAAAAATTTTGTGTTTT
1 AAAAATATTATGTTTTCAAAAAAAAATTTGTGTTTT
*
14367946 AAAAAT-TTTTGTGTTTCAAAAAGAAAATTTGTGTTT
1 AAAAATATTATGT-TTTCAAAAA-AAAATTTGTGTTT
14367982 CCTAAAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
35 5 0.16
36 15 0.47
37 12 0.38
ACGTcount: A:0.40, C:0.03, G:0.11, T:0.46
Consensus pattern (36 bp):
AAAAATATTATGTTTTCAAAAAAAAATTTGTGTTTT
Found at i:14367978 original size:20 final size:19
Alignment explanation
Indices: 14367910--14368006 Score: 74
Period size: 20 Copynumber: 5.1 Consensus size: 19
14367900 ATATTTTATC
*
14367910 AAAAATATTATGT-TTTCAA
1 AAAAAAATT-TGTGTTTCAA
* *
14367929 AAAAAATTTTGTGTTT--T
1 AAAAAAATTTGTGTTTCAA
**
14367946 AAAAATTTTTGTGTTTCAA
1 AAAAAAATTTGTGTTTCAA
**
14367965 AAAGAAAATTTGTGTTTCCT
1 AAA-AAAATTTGTGTTTCAA
*
14367985 AAAAAAATCTCGTGTTTCAA
1 AAAAAAAT-TTGTGTTTCAA
14368005 AA
1 AA
14368007 TTTTCGTTTT
Statistics
Matches: 61, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
17 15 0.25
18 3 0.05
19 18 0.30
20 25 0.41
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.41
Consensus pattern (19 bp):
AAAAAAATTTGTGTTTCAA
Found at i:14380643 original size:18 final size:17
Alignment explanation
Indices: 14380615--14380649 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
14380605 NNNNNNNAGA
*
14380615 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
14380632 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
14380650 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:14380906 original size:16 final size:16
Alignment explanation
Indices: 14380885--14380920 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
14380875 GATTTGCTAT
14380885 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
14380901 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
14380917 TACA
1 TACA
14380921 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:14382688 original size:13 final size:13
Alignment explanation
Indices: 14382670--14382707 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
14382660 AGTTCTTCAT
14382670 TGCTTTTGAAAAC
1 TGCTTTTGAAAAC
*
14382683 TGCTTTTGAGAAC
1 TGCTTTTGAAAAC
14382696 TGCTTTTGAAAA
1 TGCTTTTGAAAA
14382708 GTTTGGTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.39
Consensus pattern (13 bp):
TGCTTTTGAAAAC
Found at i:14387784 original size:25 final size:25
Alignment explanation
Indices: 14387732--14387788 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
14387722 CTCTCTCTTA
* * **
14387732 AGCCATATAATGAGAAGCTCATGTG
1 AGCCATATAACGAGAAGCTAATAAG
14387757 AGCCATATAACGAGAAGCTAATAAG
1 AGCCATATAACGAGAAGCTAATAAG
14387782 AGCCATA
1 AGCCATA
14387789 ATAAAAAAGC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.42, C:0.18, G:0.21, T:0.19
Consensus pattern (25 bp):
AGCCATATAACGAGAAGCTAATAAG
Found at i:14388933 original size:29 final size:31
Alignment explanation
Indices: 14388871--14388934 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
14388861 CTTATTTAAT
*
14388871 TAATTTATCATCTTTTATTATTTCATCTTTC
1 TAATTTATCATCTTTTATTATTTAATCTTTC
14388902 TAATTTAGTCAT-TTTT-TTATTTAAT-TTTC
1 TAATTTA-TCATCTTTTATTATTTAATCTTTC
14388931 TAAT
1 TAAT
14388935 GATGACTAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 8 0.26
30 8 0.26
31 11 0.35
32 4 0.13
ACGTcount: A:0.25, C:0.11, G:0.02, T:0.62
Consensus pattern (31 bp):
TAATTTATCATCTTTTATTATTTAATCTTTC
Found at i:14391098 original size:29 final size:29
Alignment explanation
Indices: 14391047--14391194 Score: 174
Period size: 29 Copynumber: 5.0 Consensus size: 29
14391037 AATTTTTTTG
* *
14391047 CATTTTTACCCTTAAACTTTTCTAAAATTA
1 CATTTTGACCCCTAAAC-TTTCTAAAATTA
14391077 CATTTTGACCCCTAAACTTTCTCAAAATTA
1 CATTTTGACCCCTAAACTTTCT-AAAATTA
* ** * *
14391107 CAGTTCAACCCCTAAAAATTT-TTAAATTA
1 CATTTTGACCCCT-AAACTTTCTAAAATTA
14391136 CATTTTGACCCCTAAACTTT-TAAAAATTA
1 CATTTTGACCCCTAAACTTTCT-AAAATTA
14391165 CATTTTGACCCCTAAACTTTCTTAAAATTA
1 CATTTTGACCCCTAAACTTTC-TAAAATTA
14391195 TGTTTTGGCC
Statistics
Matches: 101, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
28 7 0.07
29 47 0.47
30 40 0.40
31 7 0.07
ACGTcount: A:0.36, C:0.22, G:0.03, T:0.39
Consensus pattern (29 bp):
CATTTTGACCCCTAAACTTTCTAAAATTA
Found at i:14391201 original size:30 final size:29
Alignment explanation
Indices: 14391047--14391194 Score: 181
Period size: 30 Copynumber: 5.0 Consensus size: 29
14391037 AATTTTTTTG
* *
14391047 CATTTTTACCCTTAAACTTTTCTAAAATTA
1 CATTTTGACCCCTAAACTTTT-TAAAATTA
*
14391077 CATTTTGACCCCTAAACTTTCTCAAAATTA
1 CATTTTGACCCCTAAACTTT-TTAAAATTA
* ** *
14391107 CAGTTCAACCCCTAAAAATTTTT-AAATTA
1 CATTTTGACCCCT-AAACTTTTTAAAATTA
*
14391136 CATTTTGACCCCTAAACTTTTAAAAATTA
1 CATTTTGACCCCTAAACTTTTTAAAATTA
14391165 CATTTTGACCCCTAAACTTTCTTAAAATTA
1 CATTTTGACCCCTAAACTTT-TTAAAATTA
14391195 TGTTTTGGCC
Statistics
Matches: 100, Mismatches: 14, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
28 7 0.07
29 42 0.42
30 44 0.44
31 7 0.07
ACGTcount: A:0.36, C:0.22, G:0.03, T:0.39
Consensus pattern (29 bp):
CATTTTGACCCCTAAACTTTTTAAAATTA
Found at i:14391201 original size:59 final size:58
Alignment explanation
Indices: 14391047--14391194 Score: 190
Period size: 59 Copynumber: 2.5 Consensus size: 58
14391037 AATTTTTTTG
* * *
14391047 CATTTTTACCCTTAAACTTTTCTAAAATTACATTTTGACCCCTAAACTTTCTCAAAATTA
1 CATTTTAACCCCTAAACTTTT-TAAAATTACATTTTGACCCCTAAACTTT-TAAAAATTA
* * *
14391107 CAGTTCAACCCCTAAAAATTTTT-AAATTACATTTTGACCCCTAAACTTTTAAAAATTA
1 CATTTTAACCCCT-AAACTTTTTAAAATTACATTTTGACCCCTAAACTTTTAAAAATTA
*
14391165 CATTTTGACCCCTAAACTTTCTTAAAATTA
1 CATTTTAACCCCTAAACTTT-TTAAAATTA
14391195 TGTTTTGGCC
Statistics
Matches: 75, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
57 6 0.08
58 20 0.27
59 32 0.43
60 10 0.13
61 7 0.09
ACGTcount: A:0.36, C:0.22, G:0.03, T:0.39
Consensus pattern (58 bp):
CATTTTAACCCCTAAACTTTTTAAAATTACATTTTGACCCCTAAACTTTTAAAAATTA
Found at i:14391321 original size:10 final size:10
Alignment explanation
Indices: 14391306--14391338 Score: 52
Period size: 9 Copynumber: 3.5 Consensus size: 10
14391296 TAGCCCAGCA
14391306 AAAAAAAGAG
1 AAAAAAAGAG
14391316 AAAAAAAGA-
1 AAAAAAAGAG
14391325 AAAAAAAG-G
1 AAAAAAAGAG
14391334 AAAAA
1 AAAAA
14391339 CACACAAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 13 0.59
10 9 0.41
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAG
Found at i:14391337 original size:8 final size:9
Alignment explanation
Indices: 14391305--14391338 Score: 50
Period size: 10 Copynumber: 3.6 Consensus size: 9
14391295 CTAGCCCAGC
14391305 AAAAAAAAG
1 AAAAAAAAG
14391314 AGAAAAAAAG
1 A-AAAAAAAG
14391324 AAAAAAAAGG
1 AAAAAAAA-G
14391334 AAAAA
1 AAAAA
14391339 CACACAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 8 0.35
10 15 0.65
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:14391527 original size:24 final size:23
Alignment explanation
Indices: 14391491--14391541 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 23
14391481 AGAAATCATC
*
14391491 AAAAAAAATTTCGAAAAAAAGAAG
1 AAAAAAAACTTCGAAAAAAAG-AG
* *
14391515 AAAAAAAGCTTCGAAAATAAGAG
1 AAAAAAAACTTCGAAAAAAAGAG
14391538 AAAA
1 AAAA
14391542 GAGGAGAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 6 0.25
24 18 0.75
ACGTcount: A:0.69, C:0.06, G:0.14, T:0.12
Consensus pattern (23 bp):
AAAAAAAACTTCGAAAAAAAGAG
Found at i:14391632 original size:3 final size:3
Alignment explanation
Indices: 14391624--14391658 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
14391614 GCTCGGTGTT
14391624 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA G-AA GAA G
14391659 GAAAAAAGGA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:14391836 original size:14 final size:15
Alignment explanation
Indices: 14391817--14391850 Score: 61
Period size: 14 Copynumber: 2.3 Consensus size: 15
14391807 AAAAAAAGAT
14391817 AAAAAGAGCAGCA-A
1 AAAAAGAGCAGCAGA
14391831 AAAAAGAGCAGCAGA
1 AAAAAGAGCAGCAGA
14391846 AAAAA
1 AAAAA
14391851 AAATAGCCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.68, C:0.12, G:0.21, T:0.00
Consensus pattern (15 bp):
AAAAAGAGCAGCAGA
Found at i:14392436 original size:16 final size:16
Alignment explanation
Indices: 14392417--14392466 Score: 64
Period size: 16 Copynumber: 3.0 Consensus size: 16
14392407 AAAAAATTCC
14392417 CGTGTTTTAAAAATTT
1 CGTGTTTTAAAAATTT
*
14392433 CGTGTTTTCAAAAGTTTT
1 CGTGTTTT-AAAA-ATTT
*
14392451 CGTGTTTTCAAAATTT
1 CGTGTTTTAAAAATTT
14392467 TTCTTATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 11 0.38
17 7 0.24
18 11 0.38
ACGTcount: A:0.26, C:0.10, G:0.14, T:0.50
Consensus pattern (16 bp):
CGTGTTTTAAAAATTT
Found at i:14392469 original size:18 final size:17
Alignment explanation
Indices: 14392417--14392467 Score: 77
Period size: 18 Copynumber: 3.0 Consensus size: 17
14392407 AAAAAATTCC
*
14392417 CGTGTTTT-AAAAATTT
1 CGTGTTTTCAAAATTTT
14392433 CGTGTTTTCAAAAGTTTT
1 CGTGTTTTCAAAA-TTTT
14392451 CGTGTTTTCAAAATTTT
1 CGTGTTTTCAAAATTTT
14392468 TCTTATTTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
16 8 0.25
17 8 0.25
18 16 0.50
ACGTcount: A:0.25, C:0.10, G:0.14, T:0.51
Consensus pattern (17 bp):
CGTGTTTTCAAAATTTT
Found at i:14392476 original size:18 final size:18
Alignment explanation
Indices: 14392430--14392479 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
14392420 GTTTTAAAAA
*
14392430 TTTCGTGTTTTCAAAAGT
1 TTTCGTATTTTCAAAAGT
* *
14392448 TTTCGTGTTTTCAAAATT
1 TTTCGTATTTTCAAAAGT
*
14392466 TTTCTTATTTTCAA
1 TTTCGTATTTTCAA
14392480 CAAATCCTCG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.22, C:0.12, G:0.10, T:0.56
Consensus pattern (18 bp):
TTTCGTATTTTCAAAAGT
Found at i:14392535 original size:17 final size:17
Alignment explanation
Indices: 14392498--14392555 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 17
14392488 CGTGTTTTAA
14392498 AAAAAAATTTCGTGCTTTC
1 AAAAAAA-TTCGTG-TTTC
* *
14392517 AACAATATTCGTGTTTC
1 AAAAAAATTCGTGTTTC
14392534 AAAAAAAATTCGTGTTTC
1 -AAAAAAATTCGTGTTTC
14392552 AAAA
1 AAAA
14392556 CTCCTTGTGT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
17 8 0.24
18 21 0.62
19 5 0.15
ACGTcount: A:0.41, C:0.14, G:0.10, T:0.34
Consensus pattern (17 bp):
AAAAAAATTCGTGTTTC
Found at i:14392538 original size:38 final size:35
Alignment explanation
Indices: 14392474--14392553 Score: 99
Period size: 37 Copynumber: 2.2 Consensus size: 35
14392464 TTTTTCTTAT
*
14392474 TTTCAACAAATCCTCGTGTTTTAAAAAAAAATTTCGTG
1 TTTCAACAAAT-CTCGTG-TTTCAAAAAAAA-TTCGTG
14392512 CTTTCAACAATAT-TCGTGTTTCAAAAAAAATTCGTG
1 -TTTCAACAA-ATCTCGTGTTTCAAAAAAAATTCGTG
14392548 TTTCAA
1 TTTCAA
14392554 AACTCCTTGT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
35 6 0.15
36 6 0.15
37 11 0.28
38 5 0.13
39 9 0.23
40 2 0.05
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (35 bp):
TTTCAACAAATCTCGTGTTTCAAAAAAAATTCGTG
Found at i:14392570 original size:36 final size:38
Alignment explanation
Indices: 14392474--14392574 Score: 113
Period size: 36 Copynumber: 2.7 Consensus size: 38
14392464 TTTTTCTTAT
* *
14392474 TTTCAACAAATCCTCGTGTTTTAAAAAAAAATTTCGTGC
1 TTTCAAC-AATCCTTGTGTTTTCAAAAAAAATTTCGTGC
*
14392513 TTTCAACAAT-ATTCGTG-TTTCAAAAAAAA-TTCGTG-
1 TTTCAACAATCCTT-GTGTTTTCAAAAAAAATTTCGTGC
14392548 TTTCAA-AACTCCTTGTGTTTTCAAAAA
1 TTTCAACAA-TCCTTGTGTTTTCAAAAA
14392575 TTCTGGTGAT
Statistics
Matches: 54, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
34 2 0.04
35 10 0.19
36 17 0.31
37 12 0.22
38 6 0.11
39 7 0.13
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.38
Consensus pattern (38 bp):
TTTCAACAATCCTTGTGTTTTCAAAAAAAATTTCGTGC
Found at i:14392649 original size:18 final size:17
Alignment explanation
Indices: 14392597--14392696 Score: 62
Period size: 18 Copynumber: 5.6 Consensus size: 17
14392587 AATTTTTTTC
14392597 TTTCGTGTTTTCAAAAAAA
1 TTTCGTGTTTTC--AAAAA
* *
14392616 TTCACATG-TTTC-AAAA
1 TT-TCGTGTTTTCAAAAA
14392632 TTGTCGTGTTTTCAAAAAA
1 TT-TCGTGTTTTC-AAAAA
* * *
14392651 TTTCGTTTTTTTAATAAT
1 TTTCGTGTTTTCAA-AAA
*
14392669 TTTCGTG-TTTCTAAAA
1 TTTCGTGTTTTCAAAAA
14392685 TTCTCGTGTTTT
1 TT-TCGTGTTTT
14392697 AAATTTTTTT
Statistics
Matches: 62, Mismatches: 12, Indels: 15
0.70 0.13 0.17
Matches are distributed among these distances:
16 13 0.21
17 15 0.24
18 19 0.31
19 12 0.19
20 3 0.05
ACGTcount: A:0.27, C:0.12, G:0.11, T:0.50
Consensus pattern (17 bp):
TTTCGTGTTTTCAAAAA
Found at i:14392675 original size:36 final size:36
Alignment explanation
Indices: 14392597--14392721 Score: 103
Period size: 36 Copynumber: 3.5 Consensus size: 36
14392587 AATTTTTTTC
* ** * *
14392597 TTTCGTGTTTTCAAAAAAATTCACATGTTTCAA-AAT
1 TTTCGTGTTTTCAAAAAATTTC-GTTTTTTAAATAAT
* *
14392633 TGTCGTGTTTTCAAAAAATTTCGTTTTTTTAATAAT
1 TTTCGTGTTTTCAAAAAATTTCGTTTTTTAAATAAT
* * **
14392669 TTTCGTG-TTTC-TAAAATTCTCGTGTTTTAAATTTT
1 TTTCGTGTTTTCAAAAAATT-TCGTTTTTTAAATAAT
*
14392704 TTTCGTGTTCTCAAAAAA
1 TTTCGTGTTTTCAAAAAA
14392722 ATAATTGTTT
Statistics
Matches: 71, Mismatches: 14, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
34 6 0.08
35 29 0.41
36 32 0.45
37 4 0.06
ACGTcount: A:0.29, C:0.12, G:0.10, T:0.49
Consensus pattern (36 bp):
TTTCGTGTTTTCAAAAAATTTCGTTTTTTAAATAAT
Found at i:14396923 original size:17 final size:16
Alignment explanation
Indices: 14396898--14396940 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
14396888 TACTGAACAT
14396898 AATTATTCTCAAACAAC
1 AATTATTCT-AAACAAC
* *
14396915 AATTGTTCTGAACAAC
1 AATTATTCTAAACAAC
*
14396931 AACTATTCTA
1 AATTATTCTA
14396941 TATAAGAGTT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.33
Consensus pattern (16 bp):
AATTATTCTAAACAAC
Found at i:14397490 original size:113 final size:114
Alignment explanation
Indices: 14397357--14397583 Score: 447
Period size: 113 Copynumber: 2.0 Consensus size: 114
14397347 TTGGTGTTAA
14397357 CAAATATTTAACTGAGATTATTGTATAAACATAATAAAATAATTTAAGGTAACCGATTTATAATA
1 CAAATATTTAACTGAGATTATTGTATAAACATAATAAAATAATTTAAGGTAACCGATTTATAATA
14397422 TTGTGATATATGAAATATAAATTTAAATAATTAATAT-ATTTATTAATT
66 TTGTGATATATGAAATATAAATTTAAATAATTAATATAATTTATTAATT
14397470 CAAATATTTAACTGAGATTATTGTATAAACATAATAAAATAATTTAAGGTAACCGATTTATAATA
1 CAAATATTTAACTGAGATTATTGTATAAACATAATAAAATAATTTAAGGTAACCGATTTATAATA
14397535 TTGTGATATATGAAATATAAATTTAAATAATTAATATAATTTATTAATT
66 TTGTGATATATGAAATATAAATTTAAATAATTAATATAATTTATTAATT
14397584 ATTTGTAAAA
Statistics
Matches: 113, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
113 102 0.90
114 11 0.10
ACGTcount: A:0.47, C:0.04, G:0.08, T:0.41
Consensus pattern (114 bp):
CAAATATTTAACTGAGATTATTGTATAAACATAATAAAATAATTTAAGGTAACCGATTTATAATA
TTGTGATATATGAAATATAAATTTAAATAATTAATATAATTTATTAATT
Found at i:14399039 original size:14 final size:16
Alignment explanation
Indices: 14398999--14399039 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
14398989 ACATAAATTG
14398999 TGATTATATTTTAATC
1 TGATTATATTTTAATC
*
14399015 TGGTTAT-TTTTAAT-
1 TGATTATATTTTAATC
14399029 T-ATTATATTTT
1 TGATTATATTTT
14399040 TCGAGTTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 4 0.18
14 5 0.23
15 7 0.32
16 6 0.27
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.63
Consensus pattern (16 bp):
TGATTATATTTTAATC
Found at i:14417440 original size:15 final size:15
Alignment explanation
Indices: 14417416--14417448 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
14417406 TGTATACTTG
14417416 TATATATGTGTTAGA
1 TATATATGTGTTAGA
*
14417431 TATATGTGTGTTAGA
1 TATATATGTGTTAGA
14417446 TAT
1 TAT
14417449 GTTTGCAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.21, T:0.48
Consensus pattern (15 bp):
TATATATGTGTTAGA
Found at i:14418549 original size:20 final size:20
Alignment explanation
Indices: 14418524--14418564 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
14418514 TCATAAAAAT
14418524 AAAAATAATATAATATAAAC
1 AAAAATAATATAATATAAAC
* **
14418544 AAAAATATTATTTTATAAAC
1 AAAAATAATATAATATAAAC
14418564 A
1 A
14418565 GTAAAAAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (20 bp):
AAAAATAATATAATATAAAC
Found at i:14419273 original size:11 final size:11
Alignment explanation
Indices: 14419237--14419317 Score: 94
Period size: 11 Copynumber: 7.4 Consensus size: 11
14419227 TAAATCCTTT
*
14419237 CTCTC-AATTT
1 CTCTCAAATTC
14419247 CTCTCCAATATT-
1 CTCT-CAA-ATTC
14419259 CTCTCAAATTC
1 CTCTCAAATTC
14419270 CTCTCAAATTC
1 CTCTCAAATTC
14419281 CTCTCAAATTC
1 CTCTCAAATTC
* *
14419292 CTTTCAATTTC
1 CTCTCAAATTC
*
14419303 CTCTCAATTTC
1 CTCTCAAATTC
14419314 CTCT
1 CTCT
14419318 TAAAAAAGCT
Statistics
Matches: 64, Mismatches: 3, Indels: 7
0.86 0.04 0.09
Matches are distributed among these distances:
10 7 0.11
11 49 0.77
12 5 0.08
13 3 0.05
ACGTcount: A:0.22, C:0.35, G:0.00, T:0.43
Consensus pattern (11 bp):
CTCTCAAATTC
Found at i:14421451 original size:21 final size:21
Alignment explanation
Indices: 14421427--14421466 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
14421417 CAACTAGAGG
* * *
14421427 AACCAGAATCCTCGCCGGAGC
1 AACCACAACCCTCACCGGAGC
14421448 AACCACAACCCTCACCGGA
1 AACCACAACCCTCACCGGA
14421467 AGCTGGACAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.42, G:0.17, T:0.07
Consensus pattern (21 bp):
AACCACAACCCTCACCGGAGC
Found at i:14425026 original size:126 final size:126
Alignment explanation
Indices: 14424801--14425587 Score: 1376
Period size: 126 Copynumber: 6.2 Consensus size: 126
14424791 GGCCAAACAG
* * *
14424801 GAGCTACTGTAGCAAAAGCGCATCCACGTGGGAGCTTCTTTCAGTACTTTTACTGACAAAGCATC
1 GAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGTTTCTTTCAGTACTTTTGCTGACAAAGCATC
* *
14424866 CTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAATATCTACTCGATATTATTTTTTCAA
66 CTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACATCTACTCGAAATTATTTTTTCAA
14424927 GAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGTTTCTTTCAGTACTTTTGCTGACAAAGCATC
1 GAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGTTTCTTTCAGTACTTTTGCTGACAAAGCATC
* *
14424992 CTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAATATCTACTCGATATTATTTTTTCAA
66 CTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACATCTACTCGAAATTATTTTTTCAA
14425053 GAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGTTTCTTTCAGTACTTTTGCTGACAAAGCATC
1 GAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGTTTCTTTCAGTACTTTTGCTGACAAAGCATC
* * *
14425118 CTGCTTAAAGCGTTTTTTACACTATTTACTCAGAAACGTCTACTCGAAATTATTTTTTCAA
66 CTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACATCTACTCGAAATTATTTTTTCAA
14425179 GAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGTTTCTTTCAGTACTTTTGCTGACAAAGCATC
1 GAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGTTTCTTTCAGTACTTTTGCTGACAAAGCATC
* *
14425244 CTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAATATCTACTCGATATTATTTTTTCAA
66 CTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACATCTACTCGAAATTATTTTTTCAA
14425305 GAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGTTTCTTTCAGTACTTTTGCTGACAAAGCATC
1 GAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGTTTCTTTCAGTACTTTTGCTGACAAAGCATC
* * *
14425370 CTGCTTAAAGCGTTTTTTACACTATTTACTCAGAAACGTCTACTCGAAATTATTTTTTCAA
66 CTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACATCTACTCGAAATTATTTTTTCAA
*
14425431 GAGCTACTGTAGCAAAAGCACGTCCACGTGGGAGTTTCTTTCAGTACTTTTGCTGACAAAGCATC
1 GAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGTTTCTTTCAGTACTTTTGCTGACAAAGCATC
* * **
14425496 CTGCTTAAAGCGTTTTTTGACACTATTTGCTCAGAAACGTCTTCTCGAAATTATTTTTTCTG
66 CTGCTTAAAGCG-TTTTTGACACTATTTGCTCAGAAACATCTACTCGAAATTATTTTTTCAA
*
14425558 GAGTTACTGTAGCAAAAGCGCGTCCACGTG
1 GAGCTACTGTAGCAAAAGCGCGTCCACGTG
14425588 AGAGCTTTTT
Statistics
Matches: 634, Mismatches: 26, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
126 562 0.89
127 72 0.11
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.34
Consensus pattern (126 bp):
GAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGTTTCTTTCAGTACTTTTGCTGACAAAGCATC
CTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACATCTACTCGAAATTATTTTTTCAA
Found at i:14428007 original size:30 final size:31
Alignment explanation
Indices: 14427952--14428019 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
14427942 CACCCTTAAA
** * **
14427952 TATTTACACTATTGGTCCTTCAAATTTTTTG
1 TATTTACACTATTAATCCCTCAAATTTTGAG
14427983 TATTTACACT-TTAATCCCTCAAATTTTGAG
1 TATTTACACTATTAATCCCTCAAATTTTGAG
14428013 TATTTAC
1 TATTTAC
14428020 TCTTGGGCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 22 0.69
31 10 0.31
ACGTcount: A:0.26, C:0.18, G:0.07, T:0.49
Consensus pattern (31 bp):
TATTTACACTATTAATCCCTCAAATTTTGAG
Found at i:14428595 original size:262 final size:263
Alignment explanation
Indices: 14428150--14428675 Score: 1045
Period size: 262 Copynumber: 2.0 Consensus size: 263
14428140 TATTTTACTA
14428150 TCAAGGATACCTATTTTCTTACTGTAGTAATTTTCGGGGTATTACATTTAATAATTTTGAAAAAA
1 TCAAGGATACCTATTTTCTTACTGTAGTAATTTTCGGGGTATTACATTTAATAATTTTGAAAAAA
14428215 TTTAAATGAACAAAAATTTCTAAAAGAAATTCCAATTTTCACTTAAATGAATTTTTTATTTAATT
66 TTTAAATGAACAAAAATTTCTAAAAGAAATTCCAATTTTCACTTAAATGAATTTTTTATTTAATT
14428280 AAAGTACAATAAAAATATATTTAATTTAAATTTTTAATTAATAAATTGTAATGTGTTTTAATATA
131 AAAGTACAATAAAAATATATTTAATTTAAATTTTTAATTAATAAATTGTAATGTGTTTTAATATA
14428345 TTTTACTATTTTTTAAGTAAACTTATAAAATTTGAAAAATTAAACAATTTATTTT-AAACAGACA
196 TTTTACTATTTTTTAAGTAAACTTATAAAATTTGAAAAATTAAACAATTTATTTTAAAACAGACA
14428409 TTT
261 TTT
14428412 TCAAGGATACCTATTTTCTTACTGTAGTAATTTTCGGGGTATTACATTTAATAATTTTGAAAAAA
1 TCAAGGATACCTATTTTCTTACTGTAGTAATTTTCGGGGTATTACATTTAATAATTTTGAAAAAA
14428477 TTTAAATGAACAAAAATTTCTAAAAGAAATTCCAATTTTCACTTAAATGAATTTTTTATTTAATT
66 TTTAAATGAACAAAAATTTCTAAAAGAAATTCCAATTTTCACTTAAATGAATTTTTTATTTAATT
14428542 AAAGTACAATAAAAATATATTTAATTTAAATTTTTAATTAATAAATTGTAATGTGTTTTAATATA
131 AAAGTACAATAAAAATATATTTAATTTAAATTTTTAATTAATAAATTGTAATGTGTTTTAATATA
14428607 TTTTACTATTTTTTAAGTAAACTTATAAAATTTGAAAAATTAAACAATTTATTTTAAAACAGACA
196 TTTTACTATTTTTTAAGTAAACTTATAAAATTTGAAAAATTAAACAATTTATTTTAAAACAGACA
14428672 TTT
261 TTT
14428675 T
1 T
14428676 AAACAGTTTT
Statistics
Matches: 263, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
262 250 0.95
263 13 0.05
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.44
Consensus pattern (263 bp):
TCAAGGATACCTATTTTCTTACTGTAGTAATTTTCGGGGTATTACATTTAATAATTTTGAAAAAA
TTTAAATGAACAAAAATTTCTAAAAGAAATTCCAATTTTCACTTAAATGAATTTTTTATTTAATT
AAAGTACAATAAAAATATATTTAATTTAAATTTTTAATTAATAAATTGTAATGTGTTTTAATATA
TTTTACTATTTTTTAAGTAAACTTATAAAATTTGAAAAATTAAACAATTTATTTTAAAACAGACA
TTT
Found at i:14429360 original size:2 final size:2
Alignment explanation
Indices: 14429353--14429387 Score: 61
Period size: 2 Copynumber: 17.0 Consensus size: 2
14429343 CTAACCCGAA
14429353 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
14429388 CTTTCCAAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 30 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14441359 original size:9 final size:9
Alignment explanation
Indices: 14441345--14441378 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
14441335 GAGATTTAGG
14441345 TAATGAAAA
1 TAATGAAAA
14441354 TAATGAAAA
1 TAATGAAAA
14441363 TAATGAAAA
1 TAATGAAAA
14441372 TAA-GAAA
1 TAATGAAA
14441379 TCTCGATAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 4 0.16
9 21 0.84
ACGTcount: A:0.68, C:0.00, G:0.12, T:0.21
Consensus pattern (9 bp):
TAATGAAAA
Found at i:14443683 original size:18 final size:18
Alignment explanation
Indices: 14443660--14443695 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
14443650 TAATGATTTT
*
14443660 CCAAAGTCAGAACAGGGG
1 CCAAAGACAGAACAGGGG
14443678 CCAAAGACAGAACAGGGG
1 CCAAAGACAGAACAGGGG
14443696 ATTCCGAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.22, G:0.33, T:0.03
Consensus pattern (18 bp):
CCAAAGACAGAACAGGGG
Found at i:14445682 original size:15 final size:15
Alignment explanation
Indices: 14445662--14445693 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
14445652 GGGTTTCAGA
*
14445662 TCTTCATCTTTATCT
1 TCTTCATCTTCATCT
14445677 TCTTCATCTTCATCT
1 TCTTCATCTTCATCT
14445692 TC
1 TC
14445694 AGCTCGAGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.12, C:0.31, G:0.00, T:0.56
Consensus pattern (15 bp):
TCTTCATCTTCATCT
Found at i:14450714 original size:23 final size:24
Alignment explanation
Indices: 14450672--14450716 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
14450662 AAGACTGGAC
**
14450672 TTTCCATGTTTGTTTCCAATGAGA
1 TTTCCATGTTTGTTAACAATGAGA
14450696 TTTCC-TGTTTGTTAACAATGA
1 TTTCCATGTTTGTTAACAATGA
14450717 TTTCCTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.22, C:0.16, G:0.16, T:0.47
Consensus pattern (24 bp):
TTTCCATGTTTGTTAACAATGAGA
Found at i:14453745 original size:15 final size:15
Alignment explanation
Indices: 14453725--14453754 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14453715 AACTAATAGC
*
14453725 ATCATCTTGATCATG
1 ATCATCTTCATCATG
14453740 ATCATCTTCATCATG
1 ATCATCTTCATCATG
14453755 GAACATAGCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (15 bp):
ATCATCTTCATCATG
Found at i:14467019 original size:17 final size:17
Alignment explanation
Indices: 14466984--14467022 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
14466974 TTGGACTTGG
*
14466984 ATTTAATACAAAATCTA
1 ATTTAATACAAAATATA
14467001 ATTTAATA-AAAATAATA
1 ATTTAATACAAAAT-ATA
14467018 ATTTA
1 ATTTA
14467023 TTAAGATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (17 bp):
ATTTAATACAAAATATA
Found at i:14471228 original size:22 final size:22
Alignment explanation
Indices: 14471184--14471228 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
14471174 ATAGTAAAAA
* *
14471184 TTATATATTTGTAATTCATATT
1 TTATATATTTATAATTCAAATT
14471206 TTATATATTTTATAATT-AAATT
1 TTATATA-TTTATAATTCAAATT
14471228 T
1 T
14471229 AAATTTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (22 bp):
TTATATATTTATAATTCAAATT
Found at i:14472737 original size:3 final size:3
Alignment explanation
Indices: 14472729--14472754 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
14472719 TTCGGAATTT
14472729 GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GA
14472755 TGAGTCGGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:14477931 original size:28 final size:28
Alignment explanation
Indices: 14477867--14477931 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 28
14477857 ATTAACCTAT
14477867 AATATATATAACTAAGTCCAAAAAGGAA
1 AATATATATAACTAAGTCCAAAAAGGAA
* *
14477895 AATCA-ATATAGAC-AAGTTCAAAAAGTAA
1 AAT-ATATATA-ACTAAGTCCAAAAAGGAA
14477923 AATATATAT
1 AATATATAT
14477932 TAGTTTTATC
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
27 1 0.03
28 28 0.88
29 3 0.09
ACGTcount: A:0.57, C:0.09, G:0.09, T:0.25
Consensus pattern (28 bp):
AATATATATAACTAAGTCCAAAAAGGAA
Found at i:14496414 original size:125 final size:125
Alignment explanation
Indices: 14496198--14496481 Score: 410
Period size: 125 Copynumber: 2.3 Consensus size: 125
14496188 ATTTTTGCAG
* * * **
14496198 TCGCGCCCACGTGTACGTGCTTTTGCTACAGTAGGTCCTGGAAAAATAATTTTGAGTTGGCGTTT
1 TCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAAAATAATTTCGAGTTGAAGTTT
* *
14496263 CTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTATATGCGAAGAATTTGTGAAA
66 CTGAGCAAATAGTATAAAAAACGCTTCAACCAGGATGCTATATGAGAAGAATTTGTGAAA
** *
14496323 TCGCGTCCTTC-TGGACGCGCTTTTGCTACAGTTGGTCCTGGAAGAAATAATTTCGAGTTGAAGT
1 TCGCG-CCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAA-AAATAATTTCGAGTTGAAGT
* * * *
14496387 TTCTGAGCAAATAGTATAAAATA-GCTTCTACCATGATGCTTTATGAGAAGAATTTGTGAAA
64 TTCTGAGCAAATAGTATAAAAAACGCTTCAACCAGGATGCTATATGAGAAGAATTTGTGAAA
14496448 TCGCGCCCACGTGGACGCGCTTTTGCTACAGTAG
1 TCGCGCCCACGTGGACGCGCTTTTGCTACAGTAG
14496482 TATGTTTGGG
Statistics
Matches: 139, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
124 3 0.02
125 94 0.68
126 42 0.30
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (125 bp):
TCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAAAATAATTTCGAGTTGAAGTTT
CTGAGCAAATAGTATAAAAAACGCTTCAACCAGGATGCTATATGAGAAGAATTTGTGAAA
Found at i:14499518 original size:22 final size:21
Alignment explanation
Indices: 14499493--14500746 Score: 393
Period size: 22 Copynumber: 59.4 Consensus size: 21
14499483 AAGTTAAGGA
14499493 TTTAGGGTTTAGTGTTTTTAAG
1 TTTAGGGTTTAG-GTTTTTAAG
* *
14499515 TTTATGGTTTATGATTTTT-AG
1 TTTAGGGTTTA-GGTTTTTAAG
* *
14499536 GTTAGGGTTTGTGGTTTTTAAG
1 TTTAGGGTTT-AGGTTTTTAAG
* *
14499558 TTTAGGGTATAAGG-TTTTAGG
1 TTTAGGGT-TTAGGTTTTTAAG
14499579 TTTAGGGTTT-GGTATTTTAAG
1 TTTAGGGTTTAGGT-TTTTAAG
* * *
14499600 TTAAAGG-TTAGGGTTTTTAGG
1 TTTAGGGTTTA-GGTTTTTAAG
* *
14499621 TTTAGGGTTTAGG-GTTTAGGG
1 TTTAGGGTTTAGGTTTTTA-AG
* *
14499642 TTTTTA-AGTTTAAGG-TTTAAAG
1 --TTTAGGGTTT-AGGTTTTTAAG
14499664 TTTTTA-GGTTTAGAGTTTTTAAG
1 --TTTAGGGTTTAG-GTTTTTAAG
*
14499687 TTTAGGGTTTAGGGTTTTTAGG
1 TTTAGGGTTTA-GGTTTTTAAG
*
14499709 TTTAAGGTTTAGGGTTTTTAAG
1 TTTAGGGTTTA-GGTTTTTAAG
* * * *
14499731 TTAAGAG-TTAGG--ATTAGG
1 TTTAGGGTTTAGGTTTTTAAG
* * *
14499749 GTTAGGATTTTAAAG---TTAAGG
1 TTTAGG-GTTT-AGGTTTTTAA-G
*
14499770 TTTTAGAGTTTAGGGTTTTTAAG
1 -TTTAGGGTTTA-GGTTTTTAAG
*
14499793 TTTAAGGTTTATGGTTTTTAAG
1 TTTAGGGTTTA-GGTTTTTAAG
* *
14499815 -TTAGAGTTTAGG-GTTTAAGG
1 TTTAGGGTTTAGGTTTTTAA-G
* ** *
14499835 TTTA------AAG-TTAAATG
1 TTTAGGGTTTAGGTTTTTAAG
* * *
14499849 TTTAAGGTTTATGTTTTTTAAC
1 TTTAGGGTTTA-GGTTTTTAAG
* *
14499871 TTTAGGGTTTATGATTTTAAG
1 TTTAGGGTTTAGGTTTTTAAG
* *
14499892 TTTAGGGTTTAGGGTTTTCAGG
1 TTTAGGGTTTA-GGTTTTTAAG
* *
14499914 TTTAAGGTTTGAGGGTTTTAAG
1 TTTAGGGTTT-AGGTTTTTAAG
* * * *
14499936 TTAAGAGTTAAGGTTTTTAGG
1 TTTAGGGTTTAGGTTTTTAAG
* *
14499957 TTTAGGGTTTTAAGATTTTAAG
1 TTTAGGG-TTTAGGTTTTTAAG
* * *
14499979 TTTAGGGTTCAAGGTTCTTAGG
1 TTTAGGGTT-TAGGTTTTTAAG
*
14500001 TTTAGTGTTTAGGGTTTTTAAG
1 TTTAGGGTTTA-GGTTTTTAAG
* *
14500023 TTTAGGGTTTATAGTTTAT-AG
1 TTTAGGGTTTA-GGTTTTTAAG
*
14500044 TTTTAAGGTTTAGGGTTTTTAAG
1 -TTTAGGGTTTA-GGTTTTTAAG
* *
14500067 TTAAGGG-TTAGTATTTTTAA-
1 TTTAGGGTTTAG-GTTTTTAAG
*
14500087 TTTAAGGG-CTAGGGTTTTTAAG
1 TTT-AGGGTTTA-GGTTTTTAAG
* *
14500109 TTAAGGG-TTAGG--GTTAGAG
1 TTTAGGGTTTAGGTTTTTA-AG
** *
14500128 TTGTAAAGTTAAGG-TTTTAGAG
1 TT-TAGGGTTTAGGTTTTTA-AG
*
14500150 TTTAGGGTTTTAAG---TTAAGGG
1 TTTAGGG-TTTAGGTTTTTAA--G
* *
14500171 TTTAGGGTTTAGGGTTTAAAG
1 TTTAGGGTTTAGGTTTTTAAG
* * *
14500192 TTTTATGATTTAAGGTTTTTAGG
1 -TTTAGGGTTT-AGGTTTTTAAG
* *
14500215 TTTAGTGTTTGTGGTTTTTAAG
1 TTTAGGGTTT-AGGTTTTTAAG
* * *
14500237 TTTAAGGTTTGGGGTTTTTAGG
1 TTTAGGGTTT-AGGTTTTTAAG
*
14500259 TTTAAGGTTTAGAGTTTTTAAG
1 TTTAGGGTTTAG-GTTTTTAAG
* *
14500281 TTAAGGG-TTAGGGTTTTTAGG
1 TTTAGGGTTTA-GGTTTTTAAG
* *
14500302 TTTGGGGTTTGGGGTTTTTAAG
1 TTTAGGGTTT-AGGTTTTTAAG
14500324 TTTAGGGTTTAAGGTTTTT-AG
1 TTTAGGGTTT-AGGTTTTTAAG
* * * *
14500345 ATTTAGAGATTGGGGTTTTAAG
1 -TTTAGGGTTTAGGTTTTTAAG
* * *
14500367 TTTAGTGTTTGGGGTTTTTAGG
1 TTTAGGGTTT-AGGTTTTTAAG
*
14500389 TTTAAGGTTTAGGGTTTTTAAG
1 TTTAGGGTTTA-GGTTTTTAAG
* ** *
14500411 TCTAAGTTTTTAGG--TTTAGGG
1 T-TTAGGGTTTAGGTTTTTA-AG
14500432 TTT-GGG---A--TTTTTAAG
1 TTTAGGGTTTAGGTTTTTAAG
* * * *
14500447 TTAAGGG-TTAAG--ATTAGG
1 TTTAGGGTTTAGGTTTTTAAG
* * *
14500465 GTTAGGATTTAAAG---TTAAGG
1 TTTAGGGTTT-AGGTTTTTAA-G
*
14500485 TTTTAGGGTTTATGATTTTTAAG
1 -TTTAGGGTTTA-GGTTTTTAAG
*
14500508 TTTAGGGCTTATA-GTTTTTAGG
1 TTTAGGG-TT-TAGGTTTTTAAG
14500530 TTTAGGGTTTTAAGG--TTT-AG
1 TTTAGGG-TTT-AGGTTTTTAAG
*
14500550 TGTT----TAT-GGTTTTTAAG
1 T-TTAGGGTTTAGGTTTTTAAG
*
14500567 TTTAGGGTTTAGGGTTTTTAGG
1 TTTAGGGTTTA-GGTTTTTAAG
** * *
14500589 TTTATAGTTTGGGGTTTTAAG
1 TTTAGGGTTTAGGTTTTTAAG
* ** *
14500610 TTAATAG-TTAGGGTTTTTAGG
1 TTTAGGGTTTA-GGTTTTTAAG
*
14500631 TTTGGGGTTT-GGTGTTTTAAG
1 TTTAGGGTTTAGGT-TTTTAAG
* * *
14500652 TTTAGAGTCTAAGGTTTTTAGG
1 TTTAGGGT-TTAGGTTTTTAAG
*
14500674 TTTAGGGTTTGAGGTTTTAAAG
1 TTTAGGGTTT-AGGTTTTTAAG
** *
14500696 TTTAACG-TTAGTGTTTTTAGG
1 TTTAGGGTTTAG-GTTTTTAAG
*
14500717 TTTAGGG-TTAGTGTTTTTAAA
1 TTTAGGGTTTAG-GTTTTTAAG
*
14500738 TTAAGGGTT
1 TTTAGGGTT
14500747 AGGATTAGGG
Statistics
Matches: 908, Mismatches: 218, Indels: 212
0.68 0.16 0.16
Matches are distributed among these distances:
14 7 0.01
15 7 0.01
16 15 0.02
17 3 0.00
18 19 0.02
19 18 0.02
20 55 0.06
21 283 0.31
22 444 0.49
23 47 0.05
24 10 0.01
ACGTcount: A:0.22, C:0.01, G:0.29, T:0.48
Consensus pattern (21 bp):
TTTAGGGTTTAGGTTTTTAAG
Found at i:14499544 original size:21 final size:21
Alignment explanation
Indices: 14499494--14499588 Score: 77
Period size: 21 Copynumber: 4.4 Consensus size: 21
14499484 AGTTAAGGAT
*
14499494 TTAGGGTTTAGTGTTTTTAAGT
1 TTAGGGTTTA-TGTTTTTAAGG
*
14499516 TTATGGTTTATGATTTTT-AGG
1 TTAGGGTTTATG-TTTTTAAGG
* *
14499537 TTAGGGTTTGTGGTTTTTAAGT
1 TTAGGGTTTAT-GTTTTTAAGG
* * *
14499559 TTAGGGTATAAGGTTTT-AGG
1 TTAGGGTTTATGTTTTTAAGG
14499579 TTTAGGGTTT
1 -TTAGGGTTT
14499589 GGTATTTTAA
Statistics
Matches: 58, Mismatches: 11, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
20 2 0.03
21 31 0.53
22 25 0.43
ACGTcount: A:0.18, C:0.00, G:0.29, T:0.53
Consensus pattern (21 bp):
TTAGGGTTTATGTTTTTAAGG
Found at i:14499659 original size:7 final size:7
Alignment explanation
Indices: 14499618--14500061 Score: 77
Period size: 7 Copynumber: 61.9 Consensus size: 7
14499608 TAGGGTTTTT
14499618 AGGTTTA
1 AGGTTTA
*
14499625 GGGTTTA
1 AGGTTTA
*
14499632 GGGTTTA
1 AGGTTTA
*
14499639 GGGTTTTTA
1 AGG--TTTA
14499648 A-GTTTA
1 AGGTTTA
14499654 AGGTTTAA
1 AGGTTT-A
* *
14499662 AGTTTTT
1 AGGTTTA
14499669 AGGTTTA
1 AGGTTTA
*
14499676 GAGTTTTTA
1 -AG-GTTTA
14499685 A-GTTTA
1 AGGTTTA
*
14499691 GGGTTTA
1 AGGTTTA
* *
14499698 GGGTTTTT
1 AGG-TTTA
14499706 AGGTTTA
1 AGGTTTA
14499713 AGGTTTA
1 AGGTTTA
*
14499720 GGGTTTTTA
1 AGG--TTTA
14499729 A-G-TTA
1 AGGTTTA
14499734 AGAG-TT-
1 AG-GTTTA
*
14499740 AGGATT-
1 AGGTTTA
*
14499746 AGGGTT-
1 AGGTTTA
14499752 AGGATTTTA
1 AGG--TTTA
*
14499761 AAG-TTA
1 AGGTTTA
*
14499767 AGGTTTT
1 AGGTTTA
14499774 AGAGTTTA
1 AG-GTTTA
*
14499782 GGGTTTTTA
1 AGG--TTTA
14499791 A-GTTTA
1 AGGTTTA
14499797 AGGTTTA
1 AGGTTTA
*
14499804 TGGTTTTTA
1 AGG--TTTA
14499813 A-G-TT-
1 AGGTTTA
14499817 AGAGTTTA
1 AG-GTTTA
*
14499825 GGGTTTA
1 AGGTTTA
14499832 AGGTTTA
1 AGGTTTA
* *
14499839 AAGTTAA
1 AGGTTTA
*
14499846 ATGTTTA
1 AGGTTTA
14499853 AGGTTTA
1 AGGTTTA
* *
14499860 TGTTTTTTA
1 AG--GTTTA
*
14499869 A-CTTTA
1 AGGTTTA
*
14499875 GGGTTTA
1 AGGTTTA
* *
14499882 TGATTTTA
1 AG-GTTTA
14499890 A-GTTTA
1 AGGTTTA
*
14499896 GGGTTTA
1 AGGTTTA
* *
14499903 GGGTTTTC
1 AGG-TTTA
14499911 AGGTTTA
1 AGGTTTA
14499918 AGGTTTGA
1 AGGTTT-A
*
14499926 GGGTTTTA
1 AGG-TTTA
14499934 A-G-TTA
1 AGGTTTA
14499939 AGAG-TTA
1 AG-GTTTA
*
14499946 AGGTTTTT
1 AGG-TTTA
14499954 AGGTTTA
1 AGGTTTA
*
14499961 GGGTTTTA
1 AGG-TTTA
*
14499969 AGATTTTA
1 AG-GTTTA
14499977 A-GTTTA
1 AGGTTTA
* *
14499983 GGGTTCA
1 AGGTTTA
*
14499990 AGGTTCTT
1 AGGTT-TA
14499998 AGGTTT-
1 AGGTTTA
14500004 AGTGTTTA
1 AG-GTTTA
*
14500012 GGGTTTTTA
1 AGG--TTTA
14500021 A-GTTTA
1 AGGTTTA
*
14500027 GGGTTTA
1 AGGTTTA
14500034 TA-GTTTA
1 -AGGTTTA
*
14500041 TAGTTTTA
1 -AGGTTTA
14500049 AGGTTTA
1 AGGTTTA
*
14500056 GGGTTT
1 AGGTTT
14500062 TTAAGTTAAG
Statistics
Matches: 322, Mismatches: 65, Indels: 100
0.66 0.13 0.21
Matches are distributed among these distances:
4 1 0.00
5 11 0.03
6 51 0.16
7 161 0.50
8 65 0.20
9 33 0.10
ACGTcount: A:0.23, C:0.01, G:0.28, T:0.48
Consensus pattern (7 bp):
AGGTTTA
Found at i:14499676 original size:37 final size:37
Alignment explanation
Indices: 14499628--14499718 Score: 128
Period size: 37 Copynumber: 2.4 Consensus size: 37
14499618 AGGTTTAGGG
14499628 TTTAGGGTTTAGGGTTTTTAAGTTTAAGGTTTAAAGTT
1 TTTA-GGTTTAGGGTTTTTAAGTTTAAGGTTTAAAGTT
* * **
14499666 TTTAGGTTTAGAGTTTTTAAGTTTAGGGTTTAGGGTT
1 TTTAGGTTTAGGGTTTTTAAGTTTAAGGTTTAAAGTT
*
14499703 TTTAGGTTTAAGGTTT
1 TTTAGGTTTAGGGTTT
14499719 AGGGTTTTTA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
37 43 0.91
38 4 0.09
ACGTcount: A:0.21, C:0.00, G:0.27, T:0.52
Consensus pattern (37 bp):
TTTAGGTTTAGGGTTTTTAAGTTTAAGGTTTAAAGTT
Found at i:14499712 original size:15 final size:15
Alignment explanation
Indices: 14499607--14499696 Score: 67
Period size: 15 Copynumber: 5.6 Consensus size: 15
14499597 AAGTTAAAGG
14499607 TTAGGGTTTTTAGGT
1 TTAGGGTTTTTAGGT
14499622 TTAGGG--TTTAGGGT
1 TTAGGGTTTTTA-GGT
*
14499636 TTAGGGTTTTTAAGT
1 TTAGGGTTTTTAGGT
14499651 TTAAGGTTTAAAGTTTTTAGGT
1 TT-AGG------GTTTTTAGGT
* *
14499673 TTAGAGTTTTTAAGT
1 TTAGGGTTTTTAGGT
14499688 TTAGGGTTT
1 TTAGGGTTT
14499697 AGGGTTTTTA
Statistics
Matches: 60, Mismatches: 5, Indels: 20
0.71 0.06 0.24
Matches are distributed among these distances:
13 4 0.07
14 9 0.15
15 27 0.45
16 7 0.12
21 2 0.03
22 11 0.18
ACGTcount: A:0.20, C:0.00, G:0.29, T:0.51
Consensus pattern (15 bp):
TTAGGGTTTTTAGGT
Found at i:14499717 original size:15 final size:15
Alignment explanation
Indices: 14499611--14499718 Score: 55
Period size: 15 Copynumber: 7.3 Consensus size: 15
14499601 TAAAGGTTAG
14499611 GGTTTTTAGGTTT-A
1 GGTTTTTAGGTTTAA
* *
14499625 GG-GTTTAGGGTTTAG
1 GGTTTTTA-GGTTTAA
*
14499640 GGTTTTTAAGTTTAA
1 GGTTTTTAGGTTTAA
** * *
14499655 GGTTTAAAGTTTTTA
1 GGTTTTTAGGTTTAA
** *
14499670 GGTTTAGAGTTTTTAA
1 GGTTTTTAG-GTTTAA
*
14499686 -G--TTTAGGGTTTAG
1 GGTTTTTA-GGTTTAA
14499699 GGTTTTTAGGTTTAA
1 GGTTTTTAGGTTTAA
14499714 GGTTT
1 GGTTT
14499719 AGGGTTTTTA
Statistics
Matches: 69, Mismatches: 17, Indels: 15
0.68 0.17 0.15
Matches are distributed among these distances:
13 10 0.14
14 9 0.13
15 37 0.54
16 13 0.19
ACGTcount: A:0.19, C:0.00, G:0.30, T:0.51
Consensus pattern (15 bp):
GGTTTTTAGGTTTAA
Found at i:14499773 original size:14 final size:15
Alignment explanation
Indices: 14499756--14499802 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
14499746 AGGGTTAGGA
14499756 TTTTAAAG-TTAAGG
1 TTTTAAAGTTTAAGG
* *
14499770 TTTTAGAGTTTAGGG
1 TTTTAAAGTTTAAGG
*
14499785 TTTTTAAGTTTAAGG
1 TTTTAAAGTTTAAGG
14499800 TTT
1 TTT
14499803 ATGGTTTTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 7 0.26
15 20 0.74
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (15 bp):
TTTTAAAGTTTAAGG
Found at i:14499829 original size:28 final size:26
Alignment explanation
Indices: 14499791--14499908 Score: 91
Period size: 28 Copynumber: 4.5 Consensus size: 26
14499781 AGGGTTTTTA
*
14499791 AGTTTAAGGTTTATGGTTTTTAAGTTAG
1 AGTTTAGGGTTTAT-G-TTTTAAGTTAG
* * *
14499819 AGTTTAGGGTTTAAGGTTTAAAGTTAA
1 AGTTTAGGGTTT-ATGTTTTAAGTTAG
*
14499846 ATGTTTAAGGTTTATGTTTT---TTA-
1 A-GTTTAGGGTTTATGTTTTAAGTTAG
*
14499869 ACTTTAGGGTTTATGATTTTAAGTTTAG
1 AGTTTAGGGTTTATG-TTTTAAG-TTAG
*
14499897 GGTTTAGGGTTT
1 AGTTTAGGGTTT
14499909 TCAGGTTTAA
Statistics
Matches: 71, Mismatches: 11, Indels: 16
0.72 0.11 0.16
Matches are distributed among these distances:
22 12 0.17
23 5 0.07
24 3 0.04
27 18 0.25
28 32 0.45
29 1 0.01
ACGTcount: A:0.25, C:0.01, G:0.25, T:0.50
Consensus pattern (26 bp):
AGTTTAGGGTTTATGTTTTAAGTTAG
Found at i:14499846 original size:84 final size:85
Alignment explanation
Indices: 14499687--14499858 Score: 217
Period size: 84 Copynumber: 2.0 Consensus size: 85
14499677 AGTTTTTAAG
* *
14499687 TTTAGGGTTTAGGGTTTTTAGGTTTAAGGTTTAGGGTTTTTAAGTTAAGAGTTAGGATTAGGGTT
1 TTTAGAGTTTAGGGTTTTTAAGTTTAAGGTTTAGGGTTTTTAAGTTAAGAGTTAGGATTAGGGTT
**
14499752 AGGATTTTAAA-G-TTAAGGT
66 A-GAAGTTAAATGTTTAAGGT
* *
14499771 TTTAGAGTTTAGGGTTTTTAAGTTTAAGGTTTATGGTTTTTAAGTT-AGAGTTTAGGGTTTAAGG
1 TTTAGAGTTTAGGGTTTTTAAGTTTAAGGTTTAGGGTTTTTAAGTTAAGAG-TTA-GGATT-AGG
*
14499835 TTTA-AAGTTAAATGTTTAAGGT
63 GTTAGAAGTTAAATGTTTAAGGT
14499857 TT
1 TT
14499859 ATGTTTTTTA
Statistics
Matches: 76, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
83 4 0.05
84 52 0.68
85 5 0.07
86 15 0.20
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.47
Consensus pattern (85 bp):
TTTAGAGTTTAGGGTTTTTAAGTTTAAGGTTTAGGGTTTTTAAGTTAAGAGTTAGGATTAGGGTT
AGAAGTTAAATGTTTAAGGT
Found at i:14499859 original size:78 final size:79
Alignment explanation
Indices: 14499757--14499918 Score: 204
Period size: 78 Copynumber: 2.1 Consensus size: 79
14499747 GGGTTAGGAT
* * *
14499757 TTTAAAGTTAAGGTTTTAGAGTTTAGGGTTTTTAAGTTTAAGGTTTATGGTTTTTAAG-TTAGAG
1 TTTAAAGTTAAGGTTTAAGAGTTTAGGGTTTTTAACTTTAAGGTTTAT-GATTTTAAGTTTAGAG
14499821 TTTAGGG-TTTAAGG
65 TTTAGGGTTTTAAGG
* * * * *
14499835 TTTAAAGTTAAATGTTTAAG-GTTTATGTTTTTTAACTTTAGGGTTTATGATTTTAAGTTTAGGG
1 TTTAAAGTT-AAGGTTTAAGAGTTTAGGGTTTTTAACTTTAAGGTTTATGATTTTAAGTTTAGAG
*
14499899 TTTAGGGTTTTCAGG
65 TTTAGGGTTTTAAGG
14499914 TTTAA
1 TTTAA
14499919 GGTTTGAGGG
Statistics
Matches: 72, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
77 8 0.11
78 45 0.62
79 19 0.26
ACGTcount: A:0.25, C:0.01, G:0.24, T:0.49
Consensus pattern (79 bp):
TTTAAAGTTAAGGTTTAAGAGTTTAGGGTTTTTAACTTTAAGGTTTATGATTTTAAGTTTAGAGT
TTAGGGTTTTAAGG
Found at i:14499930 original size:15 final size:14
Alignment explanation
Indices: 14499886--14500061 Score: 66
Period size: 15 Copynumber: 12.2 Consensus size: 14
14499876 GGTTTATGAT
14499886 TTTAA-GTTTAGGG
1 TTTAAGGTTTAGGG
*
14499899 TTTAGGGTTTTCA-GG
1 TTTAAGG-TTT-AGGG
14499914 TTTAAGGTTTGAGGG
1 TTTAAGGTTT-AGGG
* *
14499929 TTTTAA-GTTAAGAG
1 -TTTAAGGTTTAGGG
14499943 -TTAAGGTTTTTA-GG
1 TTTAAGG--TTTAGGG
* **
14499957 TTTAGGGTTTTAAGAT
1 TTTAAGG-TTT-AGGG
14499973 TTTAA-GTTTAGGG
1 TTTAAGGTTTAGGG
*
14499986 TTCAAGGTTCTTA-GG
1 TTTAAGG-T-TTAGGG
14500001 TTT-AGTGTTTAGGG
1 TTTAAG-GTTTAGGG
14500015 TTTTTAA-GTTTAGGG
1 --TTTAAGGTTTAGGG
* *
14500030 TTTATA-GTTTATAGT
1 TTTA-AGGTTTA-GGG
14500045 TTTAAGGTTTAGGG
1 TTTAAGGTTTAGGG
14500059 TTT
1 TTT
14500062 TTAAGTTAAG
Statistics
Matches: 122, Mismatches: 19, Indels: 43
0.66 0.10 0.23
Matches are distributed among these distances:
12 4 0.03
13 18 0.15
14 33 0.27
15 50 0.41
16 16 0.13
17 1 0.01
ACGTcount: A:0.22, C:0.02, G:0.28, T:0.48
Consensus pattern (14 bp):
TTTAAGGTTTAGGG
Found at i:14500040 original size:14 final size:15
Alignment explanation
Indices: 14500007--14500075 Score: 70
Period size: 15 Copynumber: 4.7 Consensus size: 15
14499997 TAGGTTTAGT
*
14500007 GTTTAGGGTTTTTAA
1 GTTTAGGGTTTATAA
14500022 GTTTAGGGTTTAT-A
1 GTTTAGGGTTTATAA
**
14500036 GTTTATAGTTT-TAA
1 GTTTAGGGTTTATAA
*
14500050 GGTTTAGGGTTTTTAA
1 -GTTTAGGGTTTATAA
*
14500066 GTTAAGGGTT
1 GTTTAGGGTT
14500076 AGTATTTTTA
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
13 1 0.02
14 11 0.24
15 30 0.67
16 3 0.07
ACGTcount: A:0.22, C:0.00, G:0.28, T:0.51
Consensus pattern (15 bp):
GTTTAGGGTTTATAA
Found at i:14500151 original size:14 final size:14
Alignment explanation
Indices: 14500134--14500175 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 14
14500124 AGAGTTGTAA
14500134 AGTTAAGGTTTTAG
1 AGTTAAGGTTTTAG
*
14500148 AGTTTAGGGTTTTA-
1 AG-TTAAGGTTTTAG
*
14500162 AGTTAAGGGTTTAG
1 AGTTAAGGTTTTAG
14500176 GGTTTAGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
13 9 0.39
14 4 0.17
15 10 0.43
ACGTcount: A:0.26, C:0.00, G:0.31, T:0.43
Consensus pattern (14 bp):
AGTTAAGGTTTTAG
Found at i:14500165 original size:28 final size:26
Alignment explanation
Indices: 14500096--14500193 Score: 97
Period size: 28 Copynumber: 3.5 Consensus size: 26
14500086 ATTTAAGGGC
* * *
14500096 TAGGGTTTTTAAGTTAAGGGTTAGGGT
1 TAGGG-TTTAAAGTTAAGGTTTAGGTT
*
14500123 TAGAGTTGTAAAGTTAAGGTTTTAGAGTT
1 TAGGGTT-TAAAGTTAAGG-TTTAG-GTT
*
14500152 TAGGGTTTTAAGTTAAGGGTTTAGGGTT
1 TAGGGTTTAAAGTTAA-GGTTTA-GGTT
14500180 TAGGGTTTAAAGTT
1 TAGGGTTTAAAGTT
14500194 TTATGATTTA
Statistics
Matches: 59, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
26 2 0.03
27 14 0.24
28 32 0.54
29 11 0.19
ACGTcount: A:0.26, C:0.00, G:0.33, T:0.42
Consensus pattern (26 bp):
TAGGGTTTAAAGTTAAGGTTTAGGTT
Found at i:14500184 original size:14 final size:14
Alignment explanation
Indices: 14500143--14500194 Score: 61
Period size: 14 Copynumber: 3.7 Consensus size: 14
14500133 AAGTTAAGGT
14500143 TTTAGAGTTTAGGG
1 TTTAGAGTTTAGGG
*
14500157 TTTTA-AGTTAAGGG
1 -TTTAGAGTTTAGGG
*
14500171 TTTAGGGTTTAGGG
1 TTTAGAGTTTAGGG
*
14500185 TTTAAAGTTT
1 TTTAGAGTTT
14500195 TATGATTTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
13 4 0.13
14 23 0.74
15 4 0.13
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (14 bp):
TTTAGAGTTTAGGG
Found at i:14500420 original size:36 final size:35
Alignment explanation
Indices: 14500380--14500451 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 35
14500370 AGTGTTTGGG
14500380 GTTTTTAGGTTTAAGGTTTAGGG-TTTTTAAGTCTAA
1 GTTTTTAGGTTTAAGGTTT-GGGATTTTTAAGT-TAA
*
14500416 GTTTTTAGGTTTAGGGTTTGGGATTTTTAAGTTAA
1 GTTTTTAGGTTTAAGGTTTGGGATTTTTAAGTTAA
14500451 G
1 G
14500452 GGTTAAGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
35 7 0.21
36 27 0.79
ACGTcount: A:0.21, C:0.01, G:0.28, T:0.50
Consensus pattern (35 bp):
GTTTTTAGGTTTAAGGTTTGGGATTTTTAAGTTAA
Found at i:14500426 original size:87 final size:85
Alignment explanation
Indices: 14499885--14500427 Score: 274
Period size: 87 Copynumber: 6.3 Consensus size: 85
14499875 GGGTTTATGA
* * * * * * *
14499885 TTTTAAGTTTAGGGTTTAGGGTTTTCAGGTTTAAGG-TTTGAGGGTTTTAAGTTAAGAGTTAAGG
1 TTTTAAGTTTAAGGTTTAAGGTTTTTAGATTTAAGGATTAGA-GGTTTTAAGTTAAGGGTTAGGG
** *
14499949 TTTTTAGGTTTAGGGTTTTAAGA
65 TTTTTAGGTTTA-GG-TTTGGGT
* * * * * * *
14499972 TTTTAAGTTTAGGGTTCAAGGTTCTTAGGTTT-AGTGTTTAG-GGTTTTTAAGTTTAGGGTTTAT
1 TTTTAAGTTTAAGGTTTAAGGTTTTTAGATTTAAG-GATTAGAGG-TTTTAAGTTAAGGG-TTAG
* * *
14500035 AGTTTATAGTTTTAAGGTTTAGGGT
63 GGTTTTTAGGTTT-AGGTTT-GGGT
* * **
14500060 TTTTAAG-TTAAGGGTT-AGTATTTTTA-ATTTAAGGGCTAG-GGTTTTTAAGTTAAGGGTTAGG
1 TTTTAAGTTTAAGGTTTAAG-GTTTTTAGATTTAAGGATTAGAGG-TTTTAAGTTAAGGGTTAGG
* **
14500121 G---TTAGAGTTGTAAAGTTAAGG-
64 GTTTTTAG-GTT-T-AGGTTTGGGT
* * * * * * * **
14500142 TTTTAGAGTTTAGGGTTTTAA-G--TTAAGGGTTTAGGGTTTAG-GGTTTAAAGTTTTATGATTT
1 TTTTA-AGTTTAAGG-TTTAAGGTTTTTA-GATTTAAGGATTAGAGGTTTTAAG--TTAAGGGTT
*
14500203 AAGGTTTTTAGGTTTAGTGTTTGTGGT
61 AGGGTTTTTAGGTTTAG-GTTTG-GGT
** * * *
14500230 TTTTAAGTTTAAGGTTTGGGGTTTTTAGGTTTAAGGTTTAGAGTTTTTAAGTTAAGGGTTAGGGT
1 TTTTAAGTTTAAGGTTTAAGGTTTTTAGATTTAAGGATTAGAGGTTTTAAGTTAAGGGTTAGGGT
*
14500295 TTTTAGGTTTGGGGTTTGGGGT
66 TTTTAGGTTT-AGGTTT-GGGT
* * * * *
14500317 TTTTAAGTTTAGGGTTTAAGGTTTTTAGATTT-AGAGATT-GGGGTTTTAAGTTTAGTGTTTGGG
1 TTTTAAGTTTAAGGTTTAAGGTTTTTAGATTTAAG-GATTAGAGGTTTTAAGTTAAG-GGTTAGG
14500380 GTTTTTAGGTTTAAGGTTTAGGGT
64 GTTTTTAGGTTT-AGGTTT-GGGT
* * *
14500404 TTTTAAGTCTAAGTTTTTAGGTTT
1 TTTTAAGTTTAAGGTTTAAGGTTT
14500428 AGGGTTTGGG
Statistics
Matches: 349, Mismatches: 75, Indels: 64
0.72 0.15 0.13
Matches are distributed among these distances:
82 11 0.03
83 12 0.03
84 22 0.06
85 16 0.05
86 52 0.15
87 175 0.50
88 50 0.14
89 11 0.03
ACGTcount: A:0.21, C:0.01, G:0.30, T:0.48
Consensus pattern (85 bp):
TTTTAAGTTTAAGGTTTAAGGTTTTTAGATTTAAGGATTAGAGGTTTTAAGTTAAGGGTTAGGGT
TTTTAGGTTTAGGTTTGGGT
Found at i:14500532 original size:37 final size:37
Alignment explanation
Indices: 14500485--14500576 Score: 96
Period size: 37 Copynumber: 2.5 Consensus size: 37
14500475 AAAGTTAAGG
*
14500485 TTTTAGGGTTTATGATTTTTAA-GTTTAGGGCTTATAGT
1 TTTTA-GGTTTA-GAGTTTTAAGGTTTAGGGCTTATAGT
* * * *
14500523 TTTTAGGTTTAGGGTTTTAAGGTTTAGTGTTTATGGT
1 TTTTAGGTTTAGAGTTTTAAGGTTTAGGGCTTATAGT
* *
14500560 TTTTAAGTTTAGGGTTT
1 TTTTAGGTTTAGAGTTT
14500577 AGGGTTTTTA
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
36 7 0.15
37 35 0.74
38 5 0.11
ACGTcount: A:0.18, C:0.01, G:0.26, T:0.54
Consensus pattern (37 bp):
TTTTAGGTTTAGAGTTTTAAGGTTTAGGGCTTATAGT
Found at i:14500545 original size:15 final size:15
Alignment explanation
Indices: 14500521--14500592 Score: 51
Period size: 15 Copynumber: 4.9 Consensus size: 15
14500511 AGGGCTTATA
*
14500521 GTTTTTAGGTTTAGG
1 GTTTTAAGGTTTAGG
*
14500536 GTTTTAAGGTTTAGT
1 GTTTTAAGGTTTAGG
* *
14500551 G-TTTATGGTTTTTA-A
1 GTTTTAAGG--TTTAGG
*
14500566 G-TTTAGGGTTTAGG
1 GTTTTAAGGTTTAGG
*
14500580 GTTTTTAGGTTTA
1 GTTTTAAGGTTTA
14500593 TAGTTTGGGG
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
13 4 0.09
14 7 0.16
15 30 0.67
16 4 0.09
ACGTcount: A:0.17, C:0.00, G:0.29, T:0.54
Consensus pattern (15 bp):
GTTTTAAGGTTTAGG
Found at i:14500607 original size:43 final size:43
Alignment explanation
Indices: 14500524--14500725 Score: 214
Period size: 43 Copynumber: 4.7 Consensus size: 43
14500514 GCTTATAGTT
* * * *
14500524 TTTAG-GTTTAGGGTTTTAAGGTTTAGTGTTTATGGTTTTTAAG
1 TTTAGAGTTTAGGGTTTTTAGGTTTAGGGTTT-GGGGTTTTAAG
* **
14500567 TTTAGGGTTTAGGGTTTTTAGGTTTATAGTTTGGGGTTTTAAG
1 TTTAGAGTTTAGGGTTTTTAGGTTTAGGGTTTGGGGTTTTAAG
* * * *
14500610 TTAATAG-TTAGGGTTTTTAGGTTTGGGGTTTGGTGTTTTAAG
1 TTTAGAGTTTAGGGTTTTTAGGTTTAGGGTTTGGGGTTTTAAG
* * *
14500652 TTTAGAGTCTAAGGTTTTTAGGTTTAGGGTTTGAGGTTTTAAAG
1 TTTAGAGTTTAGGGTTTTTAGGTTTAGGGTTTGGGGTTTT-AAG
*
14500696 TTTA-ACG-TTAGTGTTTTTAGGTTTAGGGTT
1 TTTAGA-GTTTAGGGTTTTTAGGTTTAGGGTT
14500726 AGTGTTTTTA
Statistics
Matches: 133, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
42 36 0.27
43 66 0.50
44 31 0.23
ACGTcount: A:0.18, C:0.01, G:0.30, T:0.50
Consensus pattern (43 bp):
TTTAGAGTTTAGGGTTTTTAGGTTTAGGGTTTGGGGTTTTAAG
Found at i:14500744 original size:21 final size:21
Alignment explanation
Indices: 14500702--14500748 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
14500692 AAAGTTTAAC
** *
14500702 GTTAGTGTTTTTAGGTTTAGG
1 GTTAGTGTTTTTAAATTAAGG
14500723 GTTAGTGTTTTTAAATTAAGG
1 GTTAGTGTTTTTAAATTAAGG
14500744 GTTAG
1 GTTAG
14500749 GATTAGGGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.49
Consensus pattern (21 bp):
GTTAGTGTTTTTAAATTAAGG
Found at i:14500755 original size:33 final size:33
Alignment explanation
Indices: 14500712--14500774 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
14500702 GTTAGTGTTT
* *
14500712 TTAGGTTTAGGGTTAGTGTTTTTAAA-TTAAGGG
1 TTAGGATTAGGGTTAATG-TTTTAAAGTTAAGGG
14500745 TTAGGATTAGGGTTAATGTTTTAAAGTTAA
1 TTAGGATTAGGGTTAATGTTTTAAAGTTAA
14500775 TGTTTTAGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
32 7 0.26
33 20 0.74
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (33 bp):
TTAGGATTAGGGTTAATGTTTTAAAGTTAAGGG
Found at i:14500803 original size:22 final size:22
Alignment explanation
Indices: 14500778--14500845 Score: 82
Period size: 22 Copynumber: 3.1 Consensus size: 22
14500768 AAGTTAATGT
*
14500778 TTTAGGGTTTATGGTTTTTAAG
1 TTTAAGGTTTATGGTTTTTAAG
* *
14500800 TTTAAGGTTTATAGTTTTTATG
1 TTTAAGGTTTATGGTTTTTAAG
* **
14500822 TTTAAGATTTGGGGTTTTTAAG
1 TTTAAGGTTTATGGTTTTTAAG
14500844 TT
1 TT
14500846 AATAGTTAGG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.21, C:0.00, G:0.24, T:0.56
Consensus pattern (22 bp):
TTTAAGGTTTATGGTTTTTAAG
Found at i:14500810 original size:29 final size:28
Alignment explanation
Indices: 14500751--14500810 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
14500741 AGGGTTAGGA
*
14500751 TTAGGGTTAATGTTTTAAAGTTAATGTT
1 TTAGGGTTAATGTTTTAAAGTTAATGGT
* *
14500779 TTAGGGTTTATGGTTTTTAAGTTTAA-GGT
1 TTAGGGTTAAT-GTTTTAAAG-TTAATGGT
14500808 TTA
1 TTA
14500811 TAGTTTTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 10 0.37
29 13 0.48
30 4 0.15
ACGTcount: A:0.25, C:0.00, G:0.23, T:0.52
Consensus pattern (28 bp):
TTAGGGTTAATGTTTTAAAGTTAATGGT
Found at i:14501061 original size:21 final size:21
Alignment explanation
Indices: 14501037--14501083 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
14501027 TTGTCCAGGT
* *
14501037 TCCGGCGGCGGTTGTGGTTCC
1 TCCGGCGGAGATTGTGGTTCC
* *
14501058 TCCGGCGGAGATTTTGGTTCT
1 TCCGGCGGAGATTGTGGTTCC
14501079 TCCGG
1 TCCGG
14501084 TAGGACATCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.04, C:0.26, G:0.38, T:0.32
Consensus pattern (21 bp):
TCCGGCGGAGATTGTGGTTCC
Found at i:14501362 original size:18 final size:18
Alignment explanation
Indices: 14501339--14501378 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
14501329 TACTCGGAAA
* *
14501339 AGGATACATATAAGGGTT
1 AGGATACATAAAAGGGCT
14501357 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
14501375 AGGA
1 AGGA
14501379 AACGCACCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.07, G:0.30, T:0.20
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:14503100 original size:12 final size:12
Alignment explanation
Indices: 14503049--14503093 Score: 51
Period size: 11 Copynumber: 3.9 Consensus size: 12
14503039 ATTAAATATG
14503049 AATTTGAGAG-A
1 AATTTGAGAGAA
*
14503060 AATTTG-GAAGGA
1 AATTTGAG-AGAA
14503072 AA-TTGAGAGAA
1 AATTTGAGAGAA
14503083 AATTTGAGAGA
1 AATTTGAGAGA
14503094 GGATTTGTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
10 1 0.03
11 16 0.55
12 12 0.41
ACGTcount: A:0.47, C:0.00, G:0.29, T:0.24
Consensus pattern (12 bp):
AATTTGAGAGAA
Done.