Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005849.1 Hibiscus syriacus cultivar Beakdansim tig00013724_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 152547
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.34
Found at i:13333 original size:21 final size:21
Alignment explanation
Indices: 13309--13350 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
13299 AGTTTATTTT
13309 TAAACTTTATTTCAATTATCG
1 TAAACTTTATTTCAATTATCG
*
13330 TAAACTTTGTTTCAATTATCG
1 TAAACTTTATTTCAATTATCG
13351 AACTTGGAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.14, G:0.07, T:0.48
Consensus pattern (21 bp):
TAAACTTTATTTCAATTATCG
Found at i:13387 original size:33 final size:32
Alignment explanation
Indices: 13339--13415 Score: 127
Period size: 33 Copynumber: 2.4 Consensus size: 32
13329 GTAAACTTTG
*
13339 TTTCAATTATCGAACTTGGAAGTTTTTAAGTA
1 TTTCAATTATCGAACTTGGAAGTATTTAAGTA
*
13371 TTTGAATTTATCGAACTTGGAAGTATTTAAGTA
1 TTTCAA-TTATCGAACTTGGAAGTATTTAAGTA
13404 TTTCAATTATCG
1 TTTCAATTATCG
13416 TAAACTTTGT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
32 11 0.27
33 30 0.73
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.44
Consensus pattern (32 bp):
TTTCAATTATCGAACTTGGAAGTATTTAAGTA
Found at i:13597 original size:15 final size:17
Alignment explanation
Indices: 13571--13602 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
13561 GTCTATGAAA
13571 AAAAACCGGAT-CGGAT
1 AAAAACCGGATCCGGAT
13587 AAAAACC-GATCCGGAT
1 AAAAACCGGATCCGGAT
13603 CGAATTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.20
16 12 0.80
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (17 bp):
AAAAACCGGATCCGGAT
Found at i:30099 original size:19 final size:19
Alignment explanation
Indices: 30077--30119 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
30067 ATAGAGAAAA
30077 CCAAAGCAATCACATTGAG
1 CCAAAGCAATCACATTGAG
30096 CCAAAGCAATCACATTGAG
1 CCAAAGCAATCACATTGAG
30115 CCAAA
1 CCAAA
30120 ATCAAAGTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.44, C:0.28, G:0.14, T:0.14
Consensus pattern (19 bp):
CCAAAGCAATCACATTGAG
Found at i:31487 original size:58 final size:58
Alignment explanation
Indices: 31362--31474 Score: 174
Period size: 58 Copynumber: 1.9 Consensus size: 58
31352 AGTGAGGAAG
* * * *
31362 AAGATGAA-AAAGTGACAATGTTTGCCAAAATATTTAGAAGATTCATGAAGTCCAAAAA
1 AAGATGAAGAAA-TGAAAATGTTTGCCAAAATATTTAGAAGATTAATAAAATCCAAAAA
31420 AAGATGAAGAAATGAAAATGTTTGCCAAAATATTTAGAAGATTAATAAAATCCAA
1 AAGATGAAGAAATGAAAATGTTTGCCAAAATATTTAGAAGATTAATAAAATCCAA
31475 CAAAGAAAGA
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
58 47 0.94
59 3 0.06
ACGTcount: A:0.50, C:0.09, G:0.16, T:0.25
Consensus pattern (58 bp):
AAGATGAAGAAATGAAAATGTTTGCCAAAATATTTAGAAGATTAATAAAATCCAAAAA
Found at i:39567 original size:21 final size:21
Alignment explanation
Indices: 39514--39567 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
39504 GACCCAGATT
39514 TTAATATCGATACGTAAAGGC
1 TTAATATCGATACGTAAAGGC
* *
39535 -TAGTATCAATAC-TAAAGAGC
1 TTAATATCGATACGTAAAG-GC
39555 TTAATATCGATAC
1 TTAATATCGATAC
39568 CTACGAACAG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
19 5 0.19
20 12 0.44
21 10 0.37
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (21 bp):
TTAATATCGATACGTAAAGGC
Found at i:42223 original size:19 final size:19
Alignment explanation
Indices: 42199--42250 Score: 104
Period size: 19 Copynumber: 2.7 Consensus size: 19
42189 ATTATTTAGT
42199 GTGTATCGATGCACATGGA
1 GTGTATCGATGCACATGGA
42218 GTGTATCGATGCACATGGA
1 GTGTATCGATGCACATGGA
42237 GTGTATCGATGCAC
1 GTGTATCGATGCAC
42251 CCCTTAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.27
Consensus pattern (19 bp):
GTGTATCGATGCACATGGA
Found at i:43388 original size:32 final size:32
Alignment explanation
Indices: 43347--43505 Score: 193
Period size: 32 Copynumber: 5.1 Consensus size: 32
43337 AGTCAAGGGT
43347 TTACCTATGTCTTTCGGGACATATGAACAGTA
1 TTACCTATGTCTTTCGGGACATATGAACAGTA
* * *
43379 TTACCTATGTCTTTCGAGACATATGGACGGTA
1 TTACCTATGTCTTTCGGGACATATGAACAGTA
* *
43411 TTACCTATGTCTTTTGGGACATAT-AGACAATA
1 TTACCTATGTCTTTCGGGACATATGA-ACAGTA
* * **
43443 TTACC--TGTCTTTCGAGATATATGATTAGT-
1 TTACCTATGTCTTTCGGGACATATGAACAGTA
43472 TTACCTATGTCTTTCGGGACATATGAACA-TA
1 TTACCTATGTCTTTCGGGACATATGAACAGTA
43503 TTA
1 TTA
43506 TTATACGAGT
Statistics
Matches: 104, Mismatches: 18, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
29 5 0.05
30 17 0.16
31 22 0.21
32 60 0.58
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.38
Consensus pattern (32 bp):
TTACCTATGTCTTTCGGGACATATGAACAGTA
Found at i:44126 original size:21 final size:21
Alignment explanation
Indices: 44100--44163 Score: 110
Period size: 21 Copynumber: 3.0 Consensus size: 21
44090 TTGTAGTAGT
*
44100 ATTGTAGCAGTGCATCGGTAC
1 ATTGTAGCAGTGCATCGATAC
44121 ATTGTAGCAGTGCATCGATAC
1 ATTGTAGCAGTGCATCGATAC
*
44142 ATTGTAGCAGTGTATCGATAC
1 ATTGTAGCAGTGCATCGATAC
44163 A
1 A
44164 CAATTTATAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (21 bp):
ATTGTAGCAGTGCATCGATAC
Found at i:46784 original size:19 final size:19
Alignment explanation
Indices: 46760--46805 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
46750 TCTAGTGAAG
*
46760 GTGGGTTGTTAGTTGAGTT
1 GTGGGTTGTTAGTCGAGTT
46779 GTGGGTTGTTAGTCGAGTT
1 GTGGGTTGTTAGTCGAGTT
*
46798 GTGAGTTG
1 GTGGGTTG
46806 AGCCTGAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.11, C:0.02, G:0.43, T:0.43
Consensus pattern (19 bp):
GTGGGTTGTTAGTCGAGTT
Found at i:51229 original size:2 final size:2
Alignment explanation
Indices: 51222--51251 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
51212 TTAGTGACCA
51222 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
51252 CTTTTATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:55119 original size:31 final size:31
Alignment explanation
Indices: 55083--55143 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
55073 CAAGAGTTTA
55083 GGAGTTCCTAATGAGAAGGACATATTGAATG
1 GGAGTTCCTAATGAGAAGGACATATTGAATG
*
55114 GGAGTTCCTAGTGAGAAGGACATATTGAAT
1 GGAGTTCCTAATGAGAAGGACATATTGAAT
55144 TCACCGAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.34, C:0.10, G:0.30, T:0.26
Consensus pattern (31 bp):
GGAGTTCCTAATGAGAAGGACATATTGAATG
Found at i:57452 original size:2 final size:2
Alignment explanation
Indices: 57445--57475 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
57435 GCTCAACGAT
57445 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
57476 GAATATGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:62828 original size:52 final size:52
Alignment explanation
Indices: 62764--62863 Score: 182
Period size: 52 Copynumber: 1.9 Consensus size: 52
62754 ATTACTCAAA
*
62764 TACTGAACATCAACCGACAGCTGTTGTGCTCCATGATCTGTTATATAGCAAG
1 TACTGAACATCAACCGACAGCTGTTGTGCTACATGATCTGTTATATAGCAAG
*
62816 TACTGAATATCAACCGACAGCTGTTGTGCTACATGATCTGTTATATAG
1 TACTGAACATCAACCGACAGCTGTTGTGCTACATGATCTGTTATATAG
62864 TGGATCCCAC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (52 bp):
TACTGAACATCAACCGACAGCTGTTGTGCTACATGATCTGTTATATAGCAAG
Found at i:63153 original size:18 final size:18
Alignment explanation
Indices: 63132--63173 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
63122 GTTTTCTATT
63132 GTGGCCTTCACCTCTACA
1 GTGGCCTTCACCTCTACA
63150 GTGGCCTTCACCTCTACA
1 GTGGCCTTCACCTCTACA
63168 GTGGCC
1 GTGGCC
63174 ACATAGCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.14, C:0.38, G:0.21, T:0.26
Consensus pattern (18 bp):
GTGGCCTTCACCTCTACA
Found at i:66531 original size:2 final size:2
Alignment explanation
Indices: 66524--66561 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
66514 AATTTAATGA
66524 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
66562 TGTCAAGTCC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:71464 original size:20 final size:21
Alignment explanation
Indices: 71431--71469 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
71421 TTTTGAATTC
71431 AAAATAAAAGATAA-AAAAGT
1 AAAATAAAAGATAATAAAAGT
71451 AAAATAATAA-ATAATAAAA
1 AAAATAA-AAGATAATAAAA
71470 AGACTTATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (21 bp):
AAAATAAAAGATAATAAAAGT
Found at i:72540 original size:31 final size:31
Alignment explanation
Indices: 72505--72586 Score: 116
Period size: 30 Copynumber: 2.7 Consensus size: 31
72495 AAATGAAATG
72505 CTCTC-ACCTCGTAAACATTCACACAACAATC
1 CTCTCAACCTCGTAAACA-TCACACAACAATC
*
72536 CTCTCAACCT-GAAAACATCACACAACAATC
1 CTCTCAACCTCGTAAACATCACACAACAATC
*
72566 CTCTCAACC-CGTAAATATCAC
1 CTCTCAACCTCGTAAACATCAC
72587 CCCGCAATCC
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
30 31 0.67
31 11 0.24
32 4 0.09
ACGTcount: A:0.38, C:0.38, G:0.04, T:0.21
Consensus pattern (31 bp):
CTCTCAACCTCGTAAACATCACACAACAATC
Found at i:76485 original size:12 final size:12
Alignment explanation
Indices: 76465--76500 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
76455 TTCTGACTCC
*
76465 TCACTGTCATCA
1 TCACCGTCATCA
76477 TCACCGTCATCA
1 TCACCGTCATCA
*
76489 TCATCGTCATCA
1 TCACCGTCATCA
76501 GGAGCATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.25, C:0.36, G:0.08, T:0.31
Consensus pattern (12 bp):
TCACCGTCATCA
Found at i:78373 original size:13 final size:13
Alignment explanation
Indices: 78355--78406 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
78345 AACTGCAAAA
78355 AAATAAAATAATT
1 AAATAAAATAATT
**
78368 AAATAAAATACTAAA
1 AAATAAAATA--ATT
*
78383 AAATTTAAATAATT
1 AAA-TAAAATAATT
78397 AAATAAAATA
1 AAATAAAATA
78407 CTAACAAAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
13 16 0.53
14 4 0.13
15 4 0.13
16 6 0.20
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (13 bp):
AAATAAAATAATT
Found at i:78392 original size:29 final size:29
Alignment explanation
Indices: 78351--78424 Score: 112
Period size: 29 Copynumber: 2.5 Consensus size: 29
78341 TTATAACTGC
* *
78351 AAAAAAATAAAATAATTAAATAAAATACT
1 AAAAAATTTAAATAATTAAATAAAATACT
78380 AAAAAATTTAAATAATTAAATAAAATACT
1 AAAAAATTTAAATAATTAAATAAAATACT
78409 AACAAAATATTAAATA
1 AA-AAAAT-TTAAATA
78425 GAATAAAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
29 29 0.71
30 5 0.12
31 7 0.17
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (29 bp):
AAAAAATTTAAATAATTAAATAAAATACT
Found at i:78403 original size:21 final size:19
Alignment explanation
Indices: 78353--78406 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 19
78343 ATAACTGCAA
78353 AAAAATAAAATAATTAAAT
1 AAAAATAAAATAATTAAAT
78372 AAAATACTAAAA-AATTTAAAT
1 AAAA-A-TAAAATAA-TTAAAT
78393 AATTAAATAAAATA
1 AA--AAATAAAATA
78407 CTAACAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
19 4 0.14
20 3 0.10
21 18 0.62
22 2 0.07
23 2 0.07
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (19 bp):
AAAAATAAAATAATTAAAT
Found at i:81401 original size:34 final size:34
Alignment explanation
Indices: 81317--81404 Score: 108
Period size: 34 Copynumber: 2.6 Consensus size: 34
81307 AAATACTTAC
*
81317 TTTATTTTGTTAATTTGGTTGGATATTTTTAAAA
1 TTTATTTTGTTAATTTTGTTGGATATTTTTAAAA
* *
81351 TTTATTTTGTTTATTTTGTTGGACT-TTTTGT-TAA
1 TTTATTTTGTTAATTTTGTTGGA-TATTTT-TAAAA
*
81385 TTTATTTTGATAATTTTGTT
1 TTTATTTTGTTAATTTTGTT
81405 TATTACCATT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
34 45 0.96
35 2 0.04
ACGTcount: A:0.20, C:0.01, G:0.14, T:0.65
Consensus pattern (34 bp):
TTTATTTTGTTAATTTTGTTGGATATTTTTAAAA
Found at i:85440 original size:68 final size:69
Alignment explanation
Indices: 85361--85498 Score: 221
Period size: 68 Copynumber: 2.0 Consensus size: 69
85351 TTCCATTTTA
85361 GTTATATAAAAAAAAAGAACATATGGAAAA-GGG-GGTTCTGC-G-GCGGCGCCTAAAAAACGCT
1 GTTATATAAAAAAAAAGAAC--ATGGAAAAGGGGTGGTTCTGCGGTGCGGCGCCTAAAAAACGCT
85422 AATATAC
64 -ATATAC
85429 GTTATATAAAAAAAAAGAACATGGAAAAGGGGTGGTTCTGCGGTGCGGCGCCTAAAAAACGCTAT
1 GTTATATAAAAAAAAAGAACATGGAAAAGGGGTGGTTCTGCGGTGCGGCGCCTAAAAAACGCTAT
85494 ATAC
66 ATAC
85498 G
1 G
85499 GCGCGTGACC
Statistics
Matches: 66, Mismatches: 0, Indels: 7
0.90 0.00 0.10
Matches are distributed among these distances:
66 8 0.12
67 3 0.05
68 28 0.42
69 8 0.12
70 19 0.29
ACGTcount: A:0.41, C:0.14, G:0.25, T:0.20
Consensus pattern (69 bp):
GTTATATAAAAAAAAAGAACATGGAAAAGGGGTGGTTCTGCGGTGCGGCGCCTAAAAAACGCTAT
ATAC
Found at i:85607 original size:23 final size:23
Alignment explanation
Indices: 85581--85628 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
85571 ATAAAGTACA
*
85581 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
85604 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
85627 AT
1 AT
85629 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:86029 original size:21 final size:22
Alignment explanation
Indices: 86004--86055 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
85994 ACACTTTACA
*
86004 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
86027 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
86050 ATATAA
1 ATATAA
86056 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:86040 original size:23 final size:23
Alignment explanation
Indices: 86014--86076 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
86004 ATATAACCAC
86014 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
86037 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
86060 TACCTATTACATCATAT
1 TACCTATTACATTATAT
86077 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:86522 original size:39 final size:39
Alignment explanation
Indices: 86468--86554 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
86458 TCAAGTTGTA
*
86468 GATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
*
86507 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
86546 GATTTTGAT
1 GATTTTGAT
86555 GAGCATCGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.17, C:0.14, G:0.21, T:0.48
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
Found at i:86824 original size:18 final size:18
Alignment explanation
Indices: 86801--86838 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
86791 GCCGAAATAT
86801 AATTGAAATTCAAACTCA
1 AATTGAAATTCAAACTCA
* *
86819 AATTGAAATTTAAATTCA
1 AATTGAAATTCAAACTCA
86837 AA
1 AA
86839 CTCCAATTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.53, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
AATTGAAATTCAAACTCA
Found at i:86857 original size:24 final size:24
Alignment explanation
Indices: 86801--86846 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
86791 GCCGAAATAT
86801 AATTGAAATTCAAACTCAAATTGA
1 AATTGAAATTCAAACTCAAATTGA
* *
86825 AATTTAAATTCAAACTCCAATT
1 AATTGAAATTCAAACTCAAATT
86847 ACATATGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.48, C:0.15, G:0.04, T:0.33
Consensus pattern (24 bp):
AATTGAAATTCAAACTCAAATTGA
Found at i:87427 original size:23 final size:23
Alignment explanation
Indices: 87399--87470 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
87389 GACACTTTAC
*
87399 ATATAACCACTACCTATTACATT
1 ATATAACGACTACCTATTACATT
87422 ATATAACGA-TACCTATTACATT
1 ATATAACGACTACCTATTACATT
* * *
87444 ATATAAGGGCTACCTATTACATC
1 ATATAACGACTACCTATTACATT
87467 ATAT
1 ATAT
87471 GTTTACCTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
22 20 0.45
23 24 0.55
ACGTcount: A:0.39, C:0.21, G:0.06, T:0.35
Consensus pattern (23 bp):
ATATAACGACTACCTATTACATT
Found at i:87805 original size:20 final size:20
Alignment explanation
Indices: 87780--87818 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
87770 TTCCACAGTG
* *
87780 AAAAAGTATGGACACTTTAT
1 AAAAAGGATAGACACTTTAT
87800 AAAAAGGATAGACACTTTA
1 AAAAAGGATAGACACTTTA
87819 CAATAAACCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.10, G:0.15, T:0.26
Consensus pattern (20 bp):
AAAAAGGATAGACACTTTAT
Found at i:87858 original size:23 final size:23
Alignment explanation
Indices: 87821--87892 Score: 90
Period size: 23 Copynumber: 3.1 Consensus size: 23
87811 ACACTTTACA
*
87821 ATAAACCACTACCTATTACATTAT
1 ATAAACGA-TACCTATTACATTAT
87845 ATAAACGATACCTATTACATTAT
1 ATAAACGATACCTATTACATTAT
** * *
87868 ATAAGGGCTACCTATTACATCAT
1 ATAAACGATACCTATTACATTAT
87891 AT
1 AT
87893 GTTTACCTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
23 36 0.84
24 7 0.16
ACGTcount: A:0.40, C:0.21, G:0.06, T:0.33
Consensus pattern (23 bp):
ATAAACGATACCTATTACATTAT
Found at i:88181 original size:123 final size:122
Alignment explanation
Indices: 87961--88206 Score: 483
Period size: 123 Copynumber: 2.0 Consensus size: 122
87951 TAAAACTTAT
87961 GTAATTTATGTTTCAATTTTTTTAACAGTGTACTGCGAAATTAAAATGATAAATACTTGTAGTTA
1 GTAATTTATGTTTCAATTTTTTTAACAGTGTACTGCGAAATTAAAATGATAAATACTTGTAGTTA
88026 TTGTACATACCTAAATATGTACTGCGAATTTAATGTTGTACCCACCCTTTAACTACA
66 TTGTACATACCTAAATATGTACTGCGAATTTAATGTTGTACCCACCCTTTAACTACA
88083 GTAATTTATGTTTCAATTTTTTTAACAGTGTACTGCGAAATTAAAATGATAATATACTTGTAGTT
1 GTAATTTATGTTTCAATTTTTTTAACAGTGTACTGCGAAATTAAAATGATAA-ATACTTGTAGTT
88148 ATTGTACATACCTAAATATGTACTGCGAATTTAATGTTGTACCCACCCTTTAACTACA
65 ATTGTACATACCTAAATATGTACTGCGAATTTAATGTTGTACCCACCCTTTAACTACA
88206 G
1 G
88207 AAACATGTTC
Statistics
Matches: 123, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
122 52 0.42
123 71 0.58
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (122 bp):
GTAATTTATGTTTCAATTTTTTTAACAGTGTACTGCGAAATTAAAATGATAAATACTTGTAGTTA
TTGTACATACCTAAATATGTACTGCGAATTTAATGTTGTACCCACCCTTTAACTACA
Found at i:89789 original size:193 final size:196
Alignment explanation
Indices: 89445--91939 Score: 4037
Period size: 193 Copynumber: 12.9 Consensus size: 196
89435 TTTAAATTAG
89445 TATCGACACAAACTATATTAGTGTCGACACATTA-TTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
89509 ATTGTACCGGTTAGATTGAAAAATTACATA-TACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTG-AAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
89573 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCT-G-AAA
130 CGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGAAAA
*
89636 GAA
194 AAA
89639 TATCGACAC-AACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
89703 ATTGTACCGGTTAGATTGAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
66 ATTGTACCGGTTAGATTGAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
* *
89768 GACACTTTTATATATGGATCGACACTTTATGGGTGCACCTTATTTT-TATTCATTCTGGAAAAAA
131 GACACTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGAAAAAA
89832 A
196 A
*
89833 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
89898 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATT-GAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
89963 CGACACTTTT-TATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAAA
130 CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCT-GGAAAA
90027 AAA
194 AAA
90030 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
90095 ATTGTACCGGTTAGATTG-AAATTACATATTACATTAT-CTTTTGGGTTCGATGATTTT-GGATC
66 ATTGTACCGGTTAGATTGAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
* **
90157 G-CACTTTTTTATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAAAA
131 GACACTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGG-AAAAA
90221 AA
195 AA
90223 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
90288 ATTGTACCGGTTAGA-TGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT-GGAT
66 ATTGTACCGGTTAGATTG-AAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
**
90351 CGACACTTTTTATATATGGATCGACACTTTAT-GGTGCACCTTGTTTTTAATTCATTCTGGAAAA
130 CGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGG-AAA
90415 AAAA
193 AAAA
*
90419 TATCGACACAAAC--TATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
90482 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATT-GAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
90547 CG--ACTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGAAAAG
130 CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGAAAAA
90610 AA
195 AA
90612 TATCGACAC-AACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCAT-AAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
90675 ATTGTA-CGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTG-AAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
**
90739 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
130 CGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGG-AAA
90804 AAAA
193 AAAA
*
90808 TATCGACAC-AACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* *
90872 ATTGTACCTGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATT-GAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
**
90937 CGACAC-TTT-TATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGGAAA
130 CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGAAAAA
91000 AA
195 AA
91002 TATCGACACAAACTATATTA--GTCGACACATTATTTAGACATA-TCTCTCATAAAAACCGGTAT
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCAT-AAAACCGGTAT
91064 AATTGTACCGGTTAGATTGAAAATTACATA-TACATTATACTTTTGGGTTCGATGATTTTGGGAT
65 AATTGTACCGGTTAGATTGAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
91128 CGAC-CTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCA-T--TTCTGGGAAA
130 CGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCT-GG-AA
91189 AAAAA
192 AAAAA
91194 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCAT-AAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
91258 ATTGTACC-GTTAGATTGAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
66 ATTGTACCGGTTAGATTGAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
* *
91322 GACACTTTTATATATGGATCGACACTTTATGGGTGCACCCGTGTTTTCCATTCATTCTGGAAAAG
131 GACACTTTTATATATGGATCGACACTTTATGGGTGCA-CCTTGTTTTCCATTCATTCTGGAAAAA
91387 AA
195 AA
91389 TATCGACACAAACTATATTAGTGTCGACACA-TATTTAGACATATTCTCTCATAAAACC-GTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
91452 ATTGTACCGGTTAGATTGAAAAATTAC-TATTAC-TTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTG-AAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
91515 CG--ACTTTTTTATAT-GATCGACACTTTAT---T-----TT-TTTT-AATTCATTCTGGAAAAA
130 CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGAAAAA
91567 AA
195 AA
*
91569 TATCGACAC--ACTATATTAGTGTCGACACATTATTTAGACTTATT-TCTCCATAAAACC-GTAT
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCT-CATAAAACCGGTAT
*
91630 AATTGTACCGGTTAGATTAAAAAATTACATATTACATTATAC-TTTGGGTTCGATGATTTTGGTT
65 AATTGTACCGGTTAGATT-GAAAATTACATATTACATTATACTTTTGGGTTCGATGA--TT--TT
* **
91694 GGGATCG-CACTTTT-TATATAGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGG
125 GGGATCGACACTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGG
91757 AAAAAAA
190 AAAAAAA
91764 TATCGACACAAACTATATTAGTGTCGACACATTATTT-GACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
91828 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATT-GAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
91893 CGACACTTTTTTATATATGGATCGACACTTTATGTGTGCACCCTGTT
130 CGACAC--TTTTATATATGGATCGACACTTTATGGGTGCACCTTGTT
91940 GGCCATATTG
Statistics
Matches: 2177, Mismatches: 46, Indels: 152
0.92 0.02 0.06
Matches are distributed among these distances:
178 23 0.01
179 52 0.02
180 46 0.02
181 10 0.00
182 3 0.00
184 14 0.01
185 20 0.01
188 2 0.00
190 5 0.00
191 54 0.02
192 160 0.07
193 450 0.21
194 408 0.19
195 399 0.18
196 211 0.10
197 214 0.10
198 106 0.05
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.38
Consensus pattern (196 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
GACACTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGAAAAAA
A
Found at i:90256 original size:390 final size:394
Alignment explanation
Indices: 89445--91939 Score: 4122
Period size: 390 Copynumber: 6.4 Consensus size: 394
89435 TTTAAATTAG
89445 TATCGACACAAACTATATTAGTGTCGACACATTA-TTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
89509 ATTGTACCGGTTAGATTGAAAAATTACATA-TACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
89573 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCT--G-AA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCAATTCATTCTGGGAAA
*
89635 AGAATATCGACACAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGT
196 AAAATATCGACACAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGT
*
89700 ATAATTGTACCGGTTAGATTGAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
261 ATAATTGTACCGGTTAGATTAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
* *
89765 ATCGACACTTTTATATATGGATCGACACTTTATGGGTGCACCTTATTTT-TATTCATTCTGGAAA
326 ATCGACACTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGAAA
89829 AAAA
391 AAAA
*
89833 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
89898 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
89963 CGACAC-TTTT-TATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCAATTCATTCTGGGAAA
90026 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
196 AAAATATCGACAC-AACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
*
90091 TATAATTGTACCGGTTAGATT-GAAATTACATATTACATTAT-CTTTTGGGTTCGATGATTTT-G
260 TATAATTGTACCGGTTAGATTAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
* **
90153 GATCG-CACTTTTTTATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAA
325 GATCGACACTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGG-A
90217 AAAAAA
389 AAAAAA
90223 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
90288 ATTGTACCGGTTAGA-TGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT-GGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
90351 CGACACTTTTTATATATGGATCGACACTTTAT-GGTGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCAATTCATTCTGGGAAA
*
90415 AAAATATCGACACAA--ACTATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGG
196 AAAATATCGACACAACTA-TATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
90478 TATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
260 TATAATTGTACCGGTTAGATT-AAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
90543 GGATCG--ACTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGA
324 GGATCGACACTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGA
*
90606 AAAGAA
389 AAAAAA
90612 TATCGACAC-AACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCAT-AAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
90675 ATTGTA-CGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
90739 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCAATTCATTCTGGGAAA
*
90804 AAAATATCGACACAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGT
196 AAAATATCGACACAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGT
*
90869 ATAATTGTACCTGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
261 ATAATTGTACCGGTTAGATT-AAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
**
90934 GATCGACAC-TTT-TATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGG
325 GATCGACACTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGAA
90997 AAAAA
390 AAAAA
91002 TATCGACACAAACTATATTA--GTCGACACATTATTTAGACATA-TCTCTCATAAAAACCGGTAT
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCAT-AAAACCGGTAT
91064 AATTGTACCGGTTAGATTG-AAAATTACATA-TACATTATACTTTTGGGTTCGATGATTTTGGGA
65 AATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
*
91127 TCGAC-CTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCA-T--TTCTGGGAA
130 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCAATTCATTCTGGG-A
91188 AAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCAT-AAACC
194 AAAAAATATCGACAC-AACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACC
*
91252 GGTATAATTGTACC-GTTAGATTGAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
258 GGTATAATTGTACCGGTTAGATTAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
*
91316 GGGATCGACACTTTTATATATGGATCGACACTTTATGGGTGCACCCGTGTTTTCCATTCATTCTG
323 GGGATCGACACTTTTATATATGGATCGACACTTTATGGGTGCA-CCTTGTTTTCCATTCATTCTG
*
91381 GAAAAGAA
387 GAAAAAAA
91389 TATCGACACAAACTATATTAGTGTCGACACA-TATTTAGACATATTCTCTCATAAAACC-GTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
91452 ATTGTACCGGTTAGATTGAAAAATTAC-TATTAC-TTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
91515 CG--ACTTTTT-TATAT-GATCGACACTTTAT---T-----TT-TTTT-AATTCATTCT-GGAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCAATTCATTCTGGGAAA
*
91565 AAAATATCGACAC-ACTATATTAGTGTCGACACATTATTTAGACTTATT-TCTCCATAAAACC-G
196 AAAATATCGACACAACTATATTAGTGTCGACACATTATTTAGACATATTCTCT-CATAAAACCGG
91627 TATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATAC-TTTGGGTTCGATGATTTTG
260 TATAATTGTACCGGTTAGATT-AAAAATTACATATTACATTATACTTTTGGGTTCGATGA--TT-
* **
91691 GTTGGGATCG-CACTTTT-TATATAGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTC
321 -TTGGGATCGACACTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTC
91754 TGGAAAAAAA
385 TGGAAAAAAA
91764 TATCGACACAAACTATATTAGTGTCGACACATTATTT-GACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
91828 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
91893 CGACACTTTTTTATATATGGATCGACACTTTATGTGTGCACCCTGTT
131 CGACAC-TTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTT
91940 GGCCATATTG
Statistics
Matches: 2000, Mismatches: 41, Indels: 128
0.92 0.02 0.06
Matches are distributed among these distances:
372 3 0.00
373 50 0.03
374 28 0.01
375 120 0.06
376 68 0.03
377 17 0.01
378 41 0.02
380 2 0.00
381 6 0.00
382 5 0.00
383 14 0.01
384 66 0.03
385 22 0.01
386 78 0.04
387 272 0.14
388 295 0.15
389 326 0.16
390 446 0.22
391 65 0.03
392 76 0.04
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.38
Consensus pattern (394 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCAATTCATTCTGGGAAA
AAAATATCGACACAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGT
ATAATTGTACCGGTTAGATTAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
ATCGACACTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGAAA
AAAA
Found at i:91627 original size:179 final size:186
Alignment explanation
Indices: 89445--91925 Score: 3041
Period size: 194 Copynumber: 12.8 Consensus size: 186
89435 TTTAAATTAG
89445 TATCGACACAAACTATATTAGTGTCGACACATTA-TTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACAC-AACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACC-GTATA
*
89509 ATTGTACCGGTTAGATTGAAAAATTACATA-TACATTATACTTTTGGGTTCGATGATTTTGGGAT
64 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* **
89573 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCT-G-AAA
129 CG-CACTTTTT-TATATAGATCGACACTTTA----T----CTTGTTTTTAATTCATTCTGGAAAA
*
89636 GAA
184 AAA
89639 TATCGACACAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAA
1 TATCGACACAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACC-GTATAA
*
89704 TTGTACCGGTTAGATT-GAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
65 TTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
* * *
89768 GACACTTTTATATATGGATCGACACTTTATGGGTGCACCTTATTTTT-ATTCATTCTGGAAAAAA
130 G-CACTTTTTTATATAGATCGACACTTTA----T----CTTGTTTTTAATTCATTCTGGAAAAAA
89832 A
186 A
*
89833 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACAC-AACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACC-GTATA
89898 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
64 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* **
89963 CGACAC-TTTTTATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAAA
129 CG-CACTTTTTTATATAGATCGACACTTTA----T----CTTGTTTTTAATTCATTCT-GGAAAA
90027 AAA
184 AAA
90030 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACAC-AACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACC-GTATA
*
90095 ATTGTACCGGTTAGATT--GAAATTACATATTACATTAT-CTTTTGGGTTCGATGATTTT-GGAT
64 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
90156 CGCACTTTTTTATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAAAA
129 CGCACTTTTTTATATAGATCGACACTTTA----T----CTTGTTTTTAATTCATTCTGG-AAAAA
90221 AA
185 AA
90223 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACAC-AACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACC-GTATA
*
90288 ATTGTACCGGTTAGA-TGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT-GGAT
64 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
90351 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCTTGTTTTTAATTCATTCTGGAAAAA
129 CG-CACTTTTT-TATATAGATCGACACTTTA---T----CTTGTTTTTAATTCATTCTGG-AAAA
90416 AAA
184 AAA
*
90419 TATCGACACAA--ACTATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAACTA-TATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACC-GTATA
90482 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
64 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* * ** *
90547 CG-ACTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGAAAAGA
129 CGCACTTTTTTATATAGATCGACACTTTA----T----CTTGTTTTTAATTCATTCTGGAAAAAA
90611 A
186 A
90612 TATCGACACAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCAT-AAACCGGTATAA
1 TATCGACACAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACC-GTATAA
*
90676 TTGTA-CGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
65 TTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
*
90740 GACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAAA
130 G-CACTTTTT-TATATAGATCGACACTTTA----T----CTTGTTTTTAATTCATTCTGG-AAAA
90805 AAA
184 AAA
*
90808 TATCGACACAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAA
1 TATCGACACAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACC-GTATAA
*
90873 TTGTACCTGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
65 TTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
* ** **
90938 GACAC--TTTTATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGGAAAA
130 G-CACTTTTTTATATAGATCGACACTTTA----T----CTTGTTTTTAATTCATTCTGGAAAAAA
91001 A
186 A
91002 TATCGACACAAACTATATTA--GTCGACACATTATTTAGACATA-TCTCTCATAAAAACCGGTAT
1 TATCGACAC-AACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCAT-AAAACC-GTAT
*
91064 AATTGTACCGGTTAGATT-GAAAATTACATA-TACATTATACTTTTGGGTTCGATGATTTTGGGA
63 AATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
* ** *
91127 TCG-ACCTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTT--TCCATTTCTGGGAAA
128 TCGCA-CTTTTT-TATATAGATCGACACTTTAT-CTTG----TT-TTTAATTCA-TTCT-GG-AA
91189 AAAAA
182 AAAAA
91194 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCAT-AAACCGGTATA
1 TATCGACAC-AACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACC-GTATA
*
91258 ATTGTACC-GTTAGATT-GAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
64 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* * * **
91321 CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCCGTGTTTTCCATTCATTCTGGAAAA
129 CG-CACTTTTTTATATAGATCGACACTTTA----T-----CTTGTTTTTAATTCATTCTGGAAAA
*
91386 GAA
184 AAA
91389 TATCGACACAAACTATATTAGTGTCGACACA-TATTTAGACATATTCTCTCATAAAACCGTATAA
1 TATCGACAC-AACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGTATAA
*
91453 TTGTACCGGTTAGATTGAAAAATTAC-TATTAC-TTATACTTTTGGGTTCGATGATTTTGGGATC
65 TTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
91516 G-ACTTTTTTATAT-GATCGACACTTTAT-TT-TTTTTAATTCATTCTGGAAAAAAA
130 GCACTTTTTTATATAGATCGACACTTTATCTTGTTTTTAATTCATTCTGGAAAAAAA
*
91569 TATCGACAC-ACTATATTAGTGTCGACACATTATTTAGACTTATT-TCTCCATAAAACCGTATAA
1 TATCGACACAACTATATTAGTGTCGACACATTATTTAGACATATTCTCT-CATAAAACCGTATAA
91632 TTGTACCGGTTAGATTAAAAAATTACATATTACATTATAC-TTTGGGTTCGATGATTTTGGTTGG
65 TTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGA--TT--TTGG
91696 GATCGCAC-TTTTTATATAGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAA
126 GATCGCACTTTTTTATATAGATCGACACTTTA----T----CTTGTTTTTAATTCATTCTGGAAA
91760 AAAA
183 AAAA
91764 TATCGACACAAACTATATTAGTGTCGACACATTATTT-GACATATTCTCTCATAAAACCGGTATA
1 TATCGACAC-AACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACC-GTATA
91828 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
64 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
91893 CGACACTTTTTTATATATGGATCGACACTTTAT
129 CG-CACTTTTTTATATA--GATCGACACTTTAT
91926 GTGTGCACCC
Statistics
Matches: 2137, Mismatches: 61, Indels: 178
0.90 0.03 0.07
Matches are distributed among these distances:
178 23 0.01
179 53 0.02
180 50 0.02
181 7 0.00
182 2 0.00
184 18 0.01
185 15 0.01
186 2 0.00
187 1 0.00
189 6 0.00
190 7 0.00
191 53 0.02
192 152 0.07
193 409 0.19
194 411 0.19
195 405 0.19
196 220 0.10
197 208 0.10
198 92 0.04
201 3 0.00
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (186 bp):
TATCGACACAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGTATAAT
TGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCG
CACTTTTTTATATAGATCGACACTTTATCTTGTTTTTAATTCATTCTGGAAAAAAA
Found at i:92089 original size:18 final size:18
Alignment explanation
Indices: 92058--92101 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
92048 TTATATTCAC
92058 ATACAAAA-TATAATCGT
1 ATACAAAATTATAATCGT
*
92075 ATACAAAATTATAATCTT
1 ATACAAAATTATAATCGT
92093 ATACAAAAT
1 ATACAAAAT
92102 ACTCGACATT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 8 0.32
18 17 0.68
ACGTcount: A:0.55, C:0.11, G:0.02, T:0.32
Consensus pattern (18 bp):
ATACAAAATTATAATCGT
Found at i:92454 original size:144 final size:141
Alignment explanation
Indices: 92197--92481 Score: 527
Period size: 144 Copynumber: 2.0 Consensus size: 141
92187 CTTACGAGAT
92197 CGTTTAATACTCGCGATCGATCCCAGTCTCCAACAACCATATTCAATTGTCAGAACGTTAGTATT
1 CGTTTAATACTCGCGATCGATCCCAGTCTCCAACAACCATATTCAATTGTCAGAACGTTAGTATT
92262 GTCAACTACATCATTCAATCTACGACTTTTAACAATTTGACCACAAACAA-TTTTTCTATCCACT
66 GTCAACTACATCATTCAATCTACGACTTTTAACAATTTGACCACAAACAATTTTTTCTATCCACT
92326 TACAAAATCACC
131 TAC-AAATCACC
92338 CGTTTAATACTCGCGATCGATCCCAGTCTCCAACAACCTATATTCAAATTGTCAGAACGTTAAGT
1 CGTTTAATACTCGCGATCGATCCCAGTCTCCAACAACC-ATATTC-AATTGTCAGAACGTT-AGT
92403 ATTGTCAACTACATCATTCAATCTACGACTTTTAACAATTTGACCACAAACAATTTTTTCTATCC
63 ATTGTCAACTACATCATTCAATCTACGACTTTTAACAATTTGACCACAAACAATTTTTTCTATCC
92468 ACTTACAAATCACC
128 ACTTACAAATCACC
92482 AGTTGCCCCT
Statistics
Matches: 140, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
141 38 0.27
142 6 0.04
143 15 0.11
144 64 0.46
145 17 0.12
ACGTcount: A:0.33, C:0.27, G:0.08, T:0.32
Consensus pattern (141 bp):
CGTTTAATACTCGCGATCGATCCCAGTCTCCAACAACCATATTCAATTGTCAGAACGTTAGTATT
GTCAACTACATCATTCAATCTACGACTTTTAACAATTTGACCACAAACAATTTTTTCTATCCACT
TACAAATCACC
Found at i:93999 original size:32 final size:33
Alignment explanation
Indices: 93963--94027 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
93953 CATCTTAATA
*
93963 TCACCCCTTAACA-CGAAACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
***
93995 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
94028 CCATCTATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.25, C:0.45, G:0.02, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCGAAACTTCTTTCACCACT
Found at i:96508 original size:20 final size:20
Alignment explanation
Indices: 96483--96521 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
96473 ACTTTTAAAT
96483 TTACCGGTTTTATCATTTTG
1 TTACCGGTTTTATCATTTTG
96503 TTACCGGTTTTATCATTTT
1 TTACCGGTTTTATCATTTT
96522 TACCTGGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.15, C:0.15, G:0.13, T:0.56
Consensus pattern (20 bp):
TTACCGGTTTTATCATTTTG
Found at i:98625 original size:17 final size:18
Alignment explanation
Indices: 98603--98638 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
98593 AGATAAAAAT
98603 ATTT-AAATTATATGAAA
1 ATTTAAAATTATATGAAA
*
98620 ATTTAAAATTATTTGAAA
1 ATTTAAAATTATATGAAA
98638 A
1 A
98639 ACAATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.42
Consensus pattern (18 bp):
ATTTAAAATTATATGAAA
Found at i:105293 original size:16 final size:15
Alignment explanation
Indices: 105258--105286 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
105248 TATTTAAAAT
105258 TTAAAAAATTAATTA
1 TTAAAAAATTAATTA
105273 TTAAAAAA-TAATTA
1 TTAAAAAATTAATTA
105287 AATTAAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
TTAAAAAATTAATTA
Found at i:106059 original size:6 final size:6
Alignment explanation
Indices: 106048--106086 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
106038 AGGTGTATTG
* * *
106048 ATTATA ATTATA ATTATA ATTATA AATGTA TTTATA ATT
1 ATTATA ATTATA ATTATA ATTATA ATTATA ATTATA ATT
106087 TTAAGTGAAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (6 bp):
ATTATA
Found at i:106739 original size:23 final size:23
Alignment explanation
Indices: 106700--106757 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
106690 CGCCACTGTG
*
106700 TTTAATATCCATGAACAAATTTA
1 TTTAATATGCATGAACAAATTTA
**
106723 TTTGGTATGCATGAACAAATTTA
1 TTTAATATGCATGAACAAATTTA
106746 TTTAATATGCAT
1 TTTAATATGCAT
106758 AAAAGTTAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.41
Consensus pattern (23 bp):
TTTAATATGCATGAACAAATTTA
Found at i:116361 original size:20 final size:20
Alignment explanation
Indices: 116336--116377 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
116326 GCTTTATAAG
*
116336 CAATTATGCCATTACATAGT
1 CAATTATACCATTACATAGT
116356 CAATTATACCATTACATAGT
1 CAATTATACCATTACATAGT
116376 CA
1 CA
116378 GGTCATACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.38, C:0.21, G:0.07, T:0.33
Consensus pattern (20 bp):
CAATTATACCATTACATAGT
Found at i:116614 original size:29 final size:28
Alignment explanation
Indices: 116571--116642 Score: 83
Period size: 28 Copynumber: 2.5 Consensus size: 28
116561 GGTGGATTAC
* *
116571 TTATTTTGGTTAAAAAAT-ATTTTATGTAT
1 TTATTTT-GATAAAAAATAACTTTA-GTAT
*
116600 TTATTTTGATAAAAATTAACTTTAGTAT
1 TTATTTTGATAAAAAATAACTTTAGTAT
116628 TTATTTTGACTAAAA
1 TTATTTTGA-TAAAA
116643 GTTACATTAG
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 21 0.55
29 17 0.45
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.51
Consensus pattern (28 bp):
TTATTTTGATAAAAAATAACTTTAGTAT
Found at i:116652 original size:28 final size:28
Alignment explanation
Indices: 116596--116652 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
116586 AATATTTTAT
*
116596 GTATTTATTTTGATAAAAATTAACTTTA
1 GTATTTATTTTGATAAAAATTAACATTA
*
116624 GTATTTATTTTGACTAAAAGTT-ACATTA
1 GTATTTATTTTGA-TAAAAATTAACATTA
116652 G
1 G
116653 GTAAACTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 19 0.73
29 7 0.27
ACGTcount: A:0.37, C:0.05, G:0.11, T:0.47
Consensus pattern (28 bp):
GTATTTATTTTGATAAAAATTAACATTA
Found at i:117705 original size:20 final size:20
Alignment explanation
Indices: 117680--117828 Score: 111
Period size: 20 Copynumber: 7.3 Consensus size: 20
117670 ATAACCTCAG
*
117680 TGCGATTTTTCAGTTCGCGT
1 TGCGATTTTTCAATTCGCGT
* ** *
117700 TGCGATAGTTGAAAATCGCGT
1 TGCGAT-TTTTCAATTCGCGT
*
117721 TGCGATTTTTCAGTTCGCGT
1 TGCGATTTTTCAATTCGCGT
* ** *
117741 TGCGATAGTTGAAAATCGCGT
1 TGCGAT-TTTTCAATTCGCGT
*
117762 TGCGATTTTTCATTTCGCGT
1 TGCGATTTTTCAATTCGCGT
* ** * *
117782 TGCGATAGTTGAAAATCACGT
1 TGCGAT-TTTTCAATTCGCGT
117803 TGCGA-TTTTCTAATTCGCGT
1 TGCGATTTTTC-AATTCGCGT
117823 TGCGAT
1 TGCGAT
117829 AGTTGAAAAT
Statistics
Matches: 93, Mismatches: 31, Indels: 9
0.70 0.23 0.07
Matches are distributed among these distances:
19 2 0.02
20 48 0.52
21 43 0.46
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.38
Consensus pattern (20 bp):
TGCGATTTTTCAATTCGCGT
Found at i:117720 original size:21 final size:21
Alignment explanation
Indices: 117694--117854 Score: 166
Period size: 21 Copynumber: 7.8 Consensus size: 21
117684 ATTTTTCAGT
117694 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* ** **
117715 TCGCGTTGCGAT-TTTTCAGT
1 TCGCGTTGCGATAGTTGAAAA
117735 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* ** **
117756 TCGCGTTGCGAT-TTTTCATT
1 TCGCGTTGCGATAGTTGAAAA
117776 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* * ** *
117797 TCACGTTGCGAT-TTTCTAAT
1 TCGCGTTGCGATAGTTGAAAA
117817 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
117838 TCGCGTTGCGATAGTTG
1 TCGCGTTGCGATAGTTG
117855 CGATTTTTCA
Statistics
Matches: 107, Mismatches: 30, Indels: 6
0.75 0.21 0.04
Matches are distributed among these distances:
20 45 0.42
21 62 0.58
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.36
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:117726 original size:41 final size:41
Alignment explanation
Indices: 117680--117849 Score: 297
Period size: 41 Copynumber: 4.1 Consensus size: 41
117670 ATAACCTCAG
117680 TGCGATTTTTCAGTTCGCGTTGCGATAGTTGAAAATCGCGT
1 TGCGATTTTTCAGTTCGCGTTGCGATAGTTGAAAATCGCGT
117721 TGCGATTTTTCAGTTCGCGTTGCGATAGTTGAAAATCGCGT
1 TGCGATTTTTCAGTTCGCGTTGCGATAGTTGAAAATCGCGT
* *
117762 TGCGATTTTTCATTTCGCGTTGCGATAGTTGAAAATCACGT
1 TGCGATTTTTCAGTTCGCGTTGCGATAGTTGAAAATCGCGT
*
117803 TGCGA-TTTTCTAATTCGCGTTGCGATAGTTGAAAATCGCGT
1 TGCGATTTTTC-AGTTCGCGTTGCGATAGTTGAAAATCGCGT
117844 TGCGAT
1 TGCGAT
117850 AGTTGCGATT
Statistics
Matches: 123, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
40 5 0.04
41 118 0.96
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.37
Consensus pattern (41 bp):
TGCGATTTTTCAGTTCGCGTTGCGATAGTTGAAAATCGCGT
Found at i:118012 original size:6 final size:6
Alignment explanation
Indices: 118001--118049 Score: 80
Period size: 6 Copynumber: 8.2 Consensus size: 6
117991 GACACGTACT
* *
118001 ACCACG ACCACG ACCACT ACCACG ACCACG ACCACG ACCACG ACAACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
118049 A
1 A
118050 GACGAGACGA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.37, C:0.47, G:0.14, T:0.02
Consensus pattern (6 bp):
ACCACG
Found at i:118691 original size:22 final size:22
Alignment explanation
Indices: 118662--118714 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
118652 AATTTGGAAA
118662 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
* *
118684 GTCGCAACAACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
118706 ATCGCAACG
1 ATCGCAACG
118715 CGAATTTCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.36, C:0.28, G:0.19, T:0.17
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:118729 original size:21 final size:21
Alignment explanation
Indices: 118703--118777 Score: 89
Period size: 21 Copynumber: 3.6 Consensus size: 21
118693 ACAACTGTAG
118703 ACTATCGCAACGCGAATTTCA
1 ACTATCGCAACGCGAATTTCA
* **
118724 ACTATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGAATTTCA
* * *
118745 A-AATCGCAACTCGATTTTCA
1 ACTATCGCAACGCGAATTTCA
118765 ACTATCGCAACGC
1 ACTATCGCAACGC
118778 CAAATGCAAC
Statistics
Matches: 42, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
20 14 0.33
21 28 0.67
ACGTcount: A:0.35, C:0.28, G:0.16, T:0.21
Consensus pattern (21 bp):
ACTATCGCAACGCGAATTTCA
Found at i:118764 original size:41 final size:41
Alignment explanation
Indices: 118706--118783 Score: 129
Period size: 41 Copynumber: 1.9 Consensus size: 41
118696 ACTGTAGACT
*
118706 ATCGCAACGCGAATTTCAACTATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAATTTCAACTATCGCAACGCCAAATGGAAA
* *
118747 ATCGCAACTCGATTTTCAACTATCGCAACGCCAAATG
1 ATCGCAACGCGAATTTCAACTATCGCAACGCCAAATG
118784 CAACGCGAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.36, C:0.27, G:0.17, T:0.21
Consensus pattern (41 bp):
ATCGCAACGCGAATTTCAACTATCGCAACGCCAAATGGAAA
Found at i:118787 original size:21 final size:21
Alignment explanation
Indices: 118703--118787 Score: 82
Period size: 21 Copynumber: 4.1 Consensus size: 21
118693 ACAACTGTAG
* *
118703 ACTATCGCAACGCGAATTTCA
1 ACTATCGCAACGCGAAATGCA
*
118724 ACTATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGAAATGCA
* * ** *
118745 A-AATCGCAACTCGATTTTCA
1 ACTATCGCAACGCGAAATGCA
*
118765 ACTATCGCAACGCCAAATGCA
1 ACTATCGCAACGCGAAATGCA
118786 AC
1 AC
118788 GCGAATTTAC
Statistics
Matches: 48, Mismatches: 15, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
20 14 0.29
21 34 0.71
ACGTcount: A:0.36, C:0.28, G:0.15, T:0.20
Consensus pattern (21 bp):
ACTATCGCAACGCGAAATGCA
Found at i:129537 original size:18 final size:18
Alignment explanation
Indices: 129514--129579 Score: 105
Period size: 18 Copynumber: 3.7 Consensus size: 18
129504 ATATTTATCT
129514 CGAAGGACCACTATGTCC
1 CGAAGGACCACTATGTCC
* *
129532 CGAAGGACCATTATGTTC
1 CGAAGGACCACTATGTCC
*
129550 TGAAGGACCACTATGTCC
1 CGAAGGACCACTATGTCC
129568 CGAAGGACCACT
1 CGAAGGACCACT
129580 GATAATCCCT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 42 1.00
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.20
Consensus pattern (18 bp):
CGAAGGACCACTATGTCC
Found at i:130503 original size:21 final size:22
Alignment explanation
Indices: 130464--130504 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
130454 CATACTCAAT
*
130464 TTCTAACATGTTCTAATTCTCA
1 TTCTAACATCTTCTAATTCTCA
*
130486 TTCTAACA-CTTCTTATTCT
1 TTCTAACATCTTCTAATTCT
130505 TTAATTCCAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.24, C:0.24, G:0.02, T:0.49
Consensus pattern (22 bp):
TTCTAACATCTTCTAATTCTCA
Found at i:130818 original size:2 final size:2
Alignment explanation
Indices: 130811--130844 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
130801 CGTGTAGCTA
130811 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
130845 CCATTCTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:132003 original size:23 final size:22
Alignment explanation
Indices: 131971--132015 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
131961 CTTACCACAT
131971 ATCATATATCACATATACATATA
1 ATCATATATCACATAT-CATATA
* *
131994 ATCATCTATCTCATATCATATA
1 ATCATATATCACATATCATATA
132016 GCTTATGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.42, C:0.20, G:0.00, T:0.38
Consensus pattern (22 bp):
ATCATATATCACATATCATATA
Found at i:135570 original size:13 final size:13
Alignment explanation
Indices: 135554--135582 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
135544 AACCACCGAT
135554 GCTCGCCACAGAA
1 GCTCGCCACAGAA
135567 GCTCGCCACAGAA
1 GCTCGCCACAGAA
135580 GCT
1 GCT
135583 GATGCCAAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.38, G:0.24, T:0.10
Consensus pattern (13 bp):
GCTCGCCACAGAA
Found at i:137824 original size:21 final size:20
Alignment explanation
Indices: 137798--137876 Score: 72
Period size: 21 Copynumber: 3.9 Consensus size: 20
137788 AAAATACCTC
137798 GTATCGATACTCATATAGGGA
1 GTATCGATACTCATATA-GGA
* *
137819 GTATCGATACTC-TACCCATGA
1 GTATCGATACTCATA--TAGGA
*
137840 -TATCGATACTCATTAAAGGA
1 GTATCGATACTCA-TATAGGA
*
137860 GTATCGATACTCTTATA
1 GTATCGATACTCATATA
137877 CTCATTAAAG
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
20 19 0.40
21 25 0.53
22 3 0.06
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (20 bp):
GTATCGATACTCATATAGGA
Found at i:137878 original size:29 final size:29
Alignment explanation
Indices: 137845--137907 Score: 126
Period size: 29 Copynumber: 2.2 Consensus size: 29
137835 CATGATATCG
137845 ATACTCATTAAAGGAGTATCGATACTCTT
1 ATACTCATTAAAGGAGTATCGATACTCTT
137874 ATACTCATTAAAGGAGTATCGATACTCTT
1 ATACTCATTAAAGGAGTATCGATACTCTT
137903 ATACT
1 ATACT
137908 AAATTTCTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (29 bp):
ATACTCATTAAAGGAGTATCGATACTCTT
Found at i:139605 original size:18 final size:18
Alignment explanation
Indices: 139582--139622 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
139572 TCATCTAATT
139582 AAAATAAAAATAAAATAA
1 AAAATAAAAATAAAATAA
* *
139600 AAAATAATAATTAAATAA
1 AAAATAAAAATAAAATAA
*
139618 TAAAT
1 AAAAT
139623 TTAAAATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (18 bp):
AAAATAAAAATAAAATAA
Found at i:140953 original size:3 final size:3
Alignment explanation
Indices: 140947--140977 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
140937 AATTATTATT
140947 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
140978 GTATATGACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:143208 original size:21 final size:22
Alignment explanation
Indices: 143157--143209 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
143147 ATTATGACTA
143157 TCGC-AATGCGATTTTCCAATT
1 TCGCGAATGCGATTTTCCAATT
*
143178 TCGCG-TTGCGATTTTCCCAA-T
1 TCGCGAATGCGATTTT-CCAATT
143199 TCG-GAATGCGA
1 TCGCGAATGCGA
143210 ATAAGTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
20 1 0.04
21 22 0.81
22 4 0.15
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.34
Consensus pattern (22 bp):
TCGCGAATGCGATTTTCCAATT
Found at i:143246 original size:21 final size:21
Alignment explanation
Indices: 143216--143262 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
143206 GCGAATAAGT
*
143216 AAATCGCAATGCGAATTTGGA
1 AAATCACAATGCGAATTTGGA
143237 AAATCACAATGCGAATTTGGA
1 AAATCACAATGCGAATTTGGA
143258 AAATC
1 AAATC
143263 GCAACGCGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.43, C:0.15, G:0.19, T:0.23
Consensus pattern (21 bp):
AAATCACAATGCGAATTTGGA
Found at i:143285 original size:20 final size:20
Alignment explanation
Indices: 143260--143320 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
143250 AATTTGGAAA
143260 ATCGCAACGCGGTACTGACT
1 ATCGCAACGCGGTACTGACT
* * *
143280 ATCGCAACGCGATAAT-ACAAA
1 ATCGCAACGCGGTACTGAC--T
143301 ATCGCAACGCGGTACTGACT
1 ATCGCAACGCGGTACTGACT
143321 TTTGCAACTC
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
19 2 0.06
20 14 0.44
21 14 0.44
22 2 0.06
ACGTcount: A:0.33, C:0.28, G:0.21, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGGTACTGACT
Found at i:143336 original size:20 final size:20
Alignment explanation
Indices: 143313--143368 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
143303 CGCAACGCGG
143313 TACTGACTTTTGCAACTCAA
1 TACTGACTTTTGCAACTCAA
* *
143333 TACTTAATTTTGCAACTCAA
1 TACTGACTTTTGCAACTCAA
* *
143353 TATTGACTTTCGCAAC
1 TACTGACTTTTGCAAC
143369 GAGATAATAC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.38
Consensus pattern (20 bp):
TACTGACTTTTGCAACTCAA
Found at i:143589 original size:22 final size:22
Alignment explanation
Indices: 143561--143604 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
143551 CACTCTCTCA
143561 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
* *
143583 CCCATCTCTGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
143605 TATCTCCATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.43, G:0.16, T:0.20
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:143916 original size:20 final size:20
Alignment explanation
Indices: 143867--143925 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
143857 TTTATTCTCT
* **
143867 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATTGTCATTTTCG
143887 CGTTGCGATTGTCATTTTCG
1 CGTTGCGATTGTCATTTTCG
* *
143907 TGTTGCGATTTTCATTTTC
1 CGTTGCGATTGTCATTTTC
143926 AGAAACTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.15, C:0.19, G:0.22, T:0.44
Consensus pattern (20 bp):
CGTTGCGATTGTCATTTTCG
Found at i:144116 original size:25 final size:24
Alignment explanation
Indices: 144062--144116 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
144052 TGTTTATTAT
* *
144062 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
144086 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
144112 TGTTT
1 TGTTT
144117 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:145265 original size:18 final size:18
Alignment explanation
Indices: 145244--145289 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
145234 TCCACTTCGG
*
145244 GAGCCATCACCTTACCCA
1 GAGCCATCACCTCACCCA
*
145262 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
145280 GAGCCATCAC
1 GAGCCATCAC
145290 TTGATCGACC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.28, C:0.43, G:0.13, T:0.15
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:145861 original size:20 final size:19
Alignment explanation
Indices: 145822--145887 Score: 69
Period size: 19 Copynumber: 3.4 Consensus size: 19
145812 AAGTTTACTT
* *
145822 TCGCAACACAAAATGACTA
1 TCGCAACGCGAAATGACTA
*
145841 TCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGACTA
* **
145861 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGACTA
145880 TCGCAACG
1 TCGCAACG
145888 ACAAAATCGC
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
19 22 0.58
20 16 0.42
ACGTcount: A:0.39, C:0.24, G:0.21, T:0.15
Consensus pattern (19 bp):
TCGCAACGCGAAATGACTA
Found at i:145895 original size:14 final size:14
Alignment explanation
Indices: 145876--145934 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
145866 ATGCGAAATG
145876 AAAATCGCAACGAC
1 AAAATCGCAACGAC
* *
145890 AAAATCGCAATGTGAAATG
1 AAAATCGCAA--CG--A-C
145909 AAAATCGCAACGAC
1 AAAATCGCAACGAC
145923 AAAATCGCAACG
1 AAAATCGCAACG
145935 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
14 22 0.61
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 10 0.28
ACGTcount: A:0.49, C:0.22, G:0.17, T:0.12
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:145907 original size:33 final size:33
Alignment explanation
Indices: 145860--145951 Score: 166
Period size: 33 Copynumber: 2.8 Consensus size: 33
145850 GGAAATGGCT
145860 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
145893 ATCGCAATGTGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
145926 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
145952 TGCGATTTGT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.48, C:0.21, G:0.18, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:145947 original size:19 final size:19
Alignment explanation
Indices: 145860--145956 Score: 88
Period size: 19 Copynumber: 5.6 Consensus size: 19
145850 GGAAATGGCT
145860 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
145879 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
*
145893 ATCGCAATGTGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
145912 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
*
145926 ATCGCAACGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
145945 ATCGCAATGCGA
1 ATCGCAATGCGA
145957 TTTGTGTTTC
Statistics
Matches: 61, Mismatches: 7, Indels: 20
0.69 0.08 0.23
Matches are distributed among these distances:
14 20 0.33
15 2 0.03
16 3 0.05
17 3 0.05
18 2 0.03
19 31 0.51
ACGTcount: A:0.46, C:0.21, G:0.20, T:0.13
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:146000 original size:33 final size:33
Alignment explanation
Indices: 145963--146075 Score: 190
Period size: 33 Copynumber: 3.4 Consensus size: 33
145953 GCGATTTGTG
* *
145963 TTTCGCGTTGTGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
*
145996 TTTCGCATTACGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
*
146029 TTTCGCATTGCGATTTTGTCATTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
146062 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
146076 AGCCATTTCC
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 75 1.00
ACGTcount: A:0.13, C:0.18, G:0.20, T:0.49
Consensus pattern (33 bp):
TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
Found at i:146011 original size:19 final size:19
Alignment explanation
Indices: 145984--146075 Score: 87
Period size: 19 Copynumber: 5.4 Consensus size: 19
145974 GATTTTGTCG
145984 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
* *
146003 TTACGA-TTT--TGTCG--
1 TTGCGATTTTCATTTCGCA
146017 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
146036 TTGCGA-TTT--TGT--CA
1 TTGCGATTTTCATTTCGCA
146050 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
146069 TTGCGAT
1 TTGCGAT
146076 AGCCATTTCC
Statistics
Matches: 57, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
14 13 0.23
15 6 0.11
16 6 0.11
17 6 0.11
18 6 0.11
19 20 0.35
ACGTcount: A:0.15, C:0.18, G:0.18, T:0.48
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:146094 original size:20 final size:20
Alignment explanation
Indices: 146060--146114 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
146050 TTGCGATTTT
*
146060 CATTT-CGCATTGCGATAGC
1 CATTTCCGCGTTGCGATAGC
*
146079 CATTTCCGCGTTGCGATAGT
1 CATTTCCGCGTTGCGATAGC
146099 CATTTCCGCGTTGCGA
1 CATTTCCGCGTTGCGA
146115 AAGTAAGTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
19 5 0.15
20 28 0.85
ACGTcount: A:0.16, C:0.27, G:0.24, T:0.33
Consensus pattern (20 bp):
CATTTCCGCGTTGCGATAGC
Found at i:146513 original size:21 final size:21
Alignment explanation
Indices: 146485--146546 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
146475 ACCTGTCATT
146485 CCTCAAGAGTCCCCTCCAATC
1 CCTCAAGAGTCCCCTCCAATC
** * *
146506 GTTCAAGAGGCCCCTATC-ATC
1 CCTCAAGAGTCCCCT-CCAATC
*
146527 CCTCAAGAGTCCCCCCCAAT
1 CCTCAAGAGTCCCCTCCAAT
146547 TCAAGAGGCC
Statistics
Matches: 30, Mismatches: 9, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
20 1 0.03
21 28 0.93
22 1 0.03
ACGTcount: A:0.24, C:0.44, G:0.13, T:0.19
Consensus pattern (21 bp):
CCTCAAGAGTCCCCTCCAATC
Found at i:146565 original size:39 final size:40
Alignment explanation
Indices: 146477--146565 Score: 117
Period size: 42 Copynumber: 2.2 Consensus size: 40
146467 CCCGACTCAC
* * *
146477 CTGTCATTCCTCAAGAGTCCCCTCCAATCGTTCAAGAGGCCC
1 CTGTCATCCCTCAAGAGTCCCCCCCAA-C-TTCAAGAGGCCA
*
146519 CTATCATCCCTCAAGAGTCCCCCCCAA-TTCAAGAGGCCA
1 CTGTCATCCCTCAAGAGTCCCCCCCAACTTCAAGAGGCCA
146558 CTGTCATC
1 CTGTCATC
146566 GTTGAAGAGG
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
39 18 0.43
42 24 0.57
ACGTcount: A:0.24, C:0.39, G:0.15, T:0.22
Consensus pattern (40 bp):
CTGTCATCCCTCAAGAGTCCCCCCCAACTTCAAGAGGCCA
Found at i:148008 original size:14 final size:14
Alignment explanation
Indices: 147974--148012 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
147964 TTGATTGTTT
147974 AATTGATTTGTAAA
1 AATTGATTTGTAAA
*
147988 AAATGATTTGTAAA
1 AATTGATTTGTAAA
**
148002 TGTTGATTTGT
1 AATTGATTTGT
148013 TTAATTGGTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:148158 original size:14 final size:14
Alignment explanation
Indices: 148139--148192 Score: 63
Period size: 14 Copynumber: 3.5 Consensus size: 14
148129 GAAACTGACT
148139 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
148153 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAAA
148172 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
148186 ATCGCAA
1 ATCGCAA
148193 TGCGATTTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 18 0.51
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 11 0.31
ACGTcount: A:0.48, C:0.20, G:0.20, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAAA
Found at i:148241 original size:20 final size:20
Alignment explanation
Indices: 148216--148292 Score: 75
Period size: 20 Copynumber: 3.9 Consensus size: 20
148206 TCGCATTGCG
*
148216 ATTTTCTAGTTGCGATAGCC
1 ATTTTCGAGTTGCGATAGCC
* * ***
148236 ATTTTCGCGTTTCGATTTTC
1 ATTTTCGAGTTGCGATAGCC
*
148256 A-TTTCGAATTGCGATAGCC
1 ATTTTCGAGTTGCGATAGCC
*
148275 ATTTTCGCGTTGCGATAG
1 ATTTTCGAGTTGCGATAG
148293 TCAAATGAAT
Statistics
Matches: 42, Mismatches: 14, Indels: 2
0.72 0.24 0.03
Matches are distributed among these distances:
19 13 0.31
20 29 0.69
ACGTcount: A:0.18, C:0.19, G:0.21, T:0.42
Consensus pattern (20 bp):
ATTTTCGAGTTGCGATAGCC
Found at i:148515 original size:20 final size:20
Alignment explanation
Indices: 148490--148539 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
148480 TTGAAGATGA
148490 TTGCGATTTTCAAAATCTCG
1 TTGCGATTTTCAAAATCTCG
*** *
148510 TTGCGAAAGTCAGAATCTCG
1 TTGCGATTTTCAAAATCTCG
148530 TTGCGATTTT
1 TTGCGATTTT
148540 GTATTATCTC
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (20 bp):
TTGCGATTTTCAAAATCTCG
Found at i:148610 original size:20 final size:21
Alignment explanation
Indices: 148566--148617 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
148556 ATAGTCAGTA
*
148566 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTACAAAT
**
148587 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACAAAT
148607 TCGCATTGCGA
1 TCGCATTGCGA
148618 ATTAGGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTACAAAT
Found at i:149644 original size:12 final size:12
Alignment explanation
Indices: 149613--149659 Score: 71
Period size: 12 Copynumber: 4.1 Consensus size: 12
149603 TCATAATCCT
149613 GAAGAAG-AAAA
1 GAAGAAGAAAAA
149624 -AAGAAGAAAAA
1 GAAGAAGAAAAA
*
149635 GAATAAGAAAAA
1 GAAGAAGAAAAA
149647 GAAGAAGAAAAA
1 GAAGAAGAAAAA
149659 G
1 G
149660 TCCCCGAAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
10 6 0.19
11 4 0.12
12 22 0.69
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.02
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:152035 original size:32 final size:32
Alignment explanation
Indices: 151934--152042 Score: 159
Period size: 32 Copynumber: 3.4 Consensus size: 32
151924 CGGAAATACT
151934 ATCGCAATGCGAAATGAAA-CGCAACGAGAGA
1 ATCGCAATGCGAAATGAAATCGCAACGAGAGA
*
151965 ATCGCAATGCGAAATGAAAATCGCAACGCGA-A
1 ATCGCAATGCGAAATG-AAATCGCAACGAGAGA
* *
151997 TTTCGCAATGCGAAATGAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAATCGCAACGAGAGA
152030 ATCGCAATGCGAA
1 ATCGCAATGCGAA
152043 TTTAGTTTCG
Statistics
Matches: 69, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
31 16 0.23
32 28 0.41
33 25 0.36
ACGTcount: A:0.41, C:0.20, G:0.25, T:0.14
Consensus pattern (32 bp):
ATCGCAATGCGAAATGAAATCGCAACGAGAGA
Found at i:152059 original size:19 final size:19
Alignment explanation
Indices: 152048--152118 Score: 99
Period size: 19 Copynumber: 3.7 Consensus size: 19
152038 GCGAATTTAG
152048 TTTCGCGTTGCGATTTT-A
1 TTTCGCGTTGCGATTTTCA
**
152066 GTTTCGTTTTGCGATTTTCA
1 -TTTCGCGTTGCGATTTTCA
152086 TTTCGCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCA
*
152105 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
152119 AGTACTTTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
19 45 0.98
20 1 0.02
ACGTcount: A:0.11, C:0.18, G:0.21, T:0.49
Consensus pattern (19 bp):
TTTCGCGTTGCGATTTTCA
Done.