Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 96 of 163
Found at i:30838428 original size:14 final size:15
Alignment explanation
Indices: 30838403--30838431 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
30838393 TTGCAAGCAC
30838403 TAATACTTTTTATTG
1 TAATACTTTTTATTG
30838418 TAATA-TTTTTATTG
1 TAATACTTTTTATTG
30838432 GGTAAACAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.28, C:0.03, G:0.07, T:0.62
Consensus pattern (15 bp):
TAATACTTTTTATTG
Found at i:30838666 original size:23 final size:23
Alignment explanation
Indices: 30838622--30838666 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
30838612 TAATAATGAG
* *
30838622 TTATAATAAATTATATTTATATT
1 TTATAATAAATTAAATTGATATT
* *
30838645 TTATTATAATTTAAATTGATAT
1 TTATAATAAATTAAATTGATAT
30838667 ATTTCATATG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
TTATAATAAATTAAATTGATATT
Found at i:30843523 original size:133 final size:135
Alignment explanation
Indices: 30843277--30843711 Score: 563
Period size: 133 Copynumber: 3.2 Consensus size: 135
30843267 GATAAGTGTA
**
30843277 CTCATACCTTAAATATGAAAAA-CTGATATAACTTAAATACGAAATAATAAATTAATAAATTAAT
1 CTCATACCTTAAATACAAAAAATC-GATATAACTTAAATACGAAATAAT--A--AAT-AA-TAAT
*
30843341 ATAACATATCAATTATATTAATAAACACAATTCCCTAAACATTAAATAAACTCAAATAACCAATT
59 ATAACATATCAATTATATTAATAAACACAATTCCCAAAACATTAAATAAACTCAAATAACCAATT
30843406 ATAAAAAATATG
124 ATAAAAAATATG
30843418 CTCATACCTTAAATACAAAAAATCGATATAACTTAAATACGAAATAATAAAT-A-AATATAACAT
1 CTCATACCTTAAATACAAAAAATCGATATAACTTAAATACGAAATAATAAATAATAATATAACAT
* * *
30843481 GTCAATTATATTAATAAATACAATTCCCAAAACATTAAATAAACTCAAACAACCAATTATAAAAA
66 ATCAATTATATTAATAAACACAATTCCCAAAACATTAAATAAACTCAAATAACCAATTAT--AAA
30843546 AAATATG
129 AAATATG
* * * * **
30843553 CTTATATCTTAAAAACGAAAAATAAATATAACTTAAATACGAAATAATAAATAAATTAATATAAC
1 CTCATACCTTAAATACAAAAAATCGATATAACTTAAATACGAAATAATAAAT-AA-TAATATAAC
* * * * * *
30843618 ATATGAATTATATCAATAAACA-AACTCCCCAAACATGAAATAAACTCAAATAACCAATAATAAA
64 ATATCAATTATATTAATAAACACAATTCCCAAAACATTAAATAAACTCAAATAACCAATTATAAA
*
30843682 AAATATA
129 AAATATG
*
30843689 TTCATACCTTAAATACAAAAAAT
1 CTCATACCTTAAATACAAAAAAT
30843712 ATTGTGGAAT
Statistics
Matches: 260, Mismatches: 27, Indels: 19
0.85 0.09 0.06
Matches are distributed among these distances:
133 66 0.25
135 57 0.22
136 27 0.10
137 4 0.02
138 34 0.13
139 27 0.10
141 44 0.17
142 1 0.00
ACGTcount: A:0.56, C:0.14, G:0.03, T:0.28
Consensus pattern (135 bp):
CTCATACCTTAAATACAAAAAATCGATATAACTTAAATACGAAATAATAAATAATAATATAACAT
ATCAATTATATTAATAAACACAATTCCCAAAACATTAAATAAACTCAAATAACCAATTATAAAAA
ATATG
Found at i:30843587 original size:24 final size:25
Alignment explanation
Indices: 30843555--30843605 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
30843545 AAAATATGCT
*
30843555 TATATCTTAAAAACGAAA-AATAAA
1 TATAACTTAAAAACGAAATAATAAA
*
30843579 TATAACTTAAATACGAAATAATAAA
1 TATAACTTAAAAACGAAATAATAAA
30843604 TA
1 TA
30843606 AATTAATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 16 0.67
25 8 0.33
ACGTcount: A:0.61, C:0.08, G:0.04, T:0.27
Consensus pattern (25 bp):
TATAACTTAAAAACGAAATAATAAA
Found at i:30843863 original size:115 final size:116
Alignment explanation
Indices: 30843733--30844023 Score: 329
Period size: 115 Copynumber: 2.5 Consensus size: 116
30843723 TAACATTCTT
* * * * *
30843733 CAAAAACATTAATAAAAAAAATTAATCAAAC-CTAAATACTAACTTAAAGCTAATAAAACACAAC
1 CAAAAACATTAATAAAACAAATTAATCATACATTAAATACAAACTTAAAACTAATAAAACAC-AC
* * *
30843797 AACAAAAAAACAACATTTCAAGTAAATACG-AAAAACTAATATAAGATACCA
65 AACAAAAAAACAACATTCCAAGTAAATACGAAAAAAATAATATAAGATACAA
* * *
30843848 CAAAAACATTAATAAAACAAATTAATCATACTTTCAATACAAACCTAAAACT-A-AAAACACACA
1 CAAAAACATTAATAAAACAAATTAATCATACATTAAATACAAACTTAAAACTAATAAAACACACA
* * * *** *
30843911 ACAAAAAAATATCCTTCCCCTTAAATACGAAAAAAAATTATATAAGATACAA
66 ACAAAAAAACAACATTCCAAGTAAATACG-AAAAAAATAATATAAGATACAA
* * * * *
30843963 CAATAACATTAATAAAACAAACTAATCATACATTTAATACAAATTTAAATCTAATAAAACA
1 CAAAAACATTAATAAAACAAATTAATCATACATTAAATACAAACTTAAAACTAATAAAACA
30844024 TATAAAAAAT
Statistics
Matches: 147, Mismatches: 24, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
113 25 0.17
114 7 0.05
115 93 0.63
116 16 0.11
117 6 0.04
ACGTcount: A:0.59, C:0.17, G:0.02, T:0.22
Consensus pattern (116 bp):
CAAAAACATTAATAAAACAAATTAATCATACATTAAATACAAACTTAAAACTAATAAAACACACA
ACAAAAAAACAACATTCCAAGTAAATACGAAAAAAATAATATAAGATACAA
Found at i:30844056 original size:34 final size:36
Alignment explanation
Indices: 30844006--30844072 Score: 93
Period size: 34 Copynumber: 1.9 Consensus size: 36
30843996 TTAATACAAA
* *
30844006 TTTAAATCTAATAAAAC-A-TATAAAAAATCATTCT
1 TTTAAATATAAAAAAACTATTATAAAAAATCATTCT
*
30844040 TTTAAATATAAAAAAACTATTATAAAATATCAT
1 TTTAAATATAAAAAAACTATTATAAAAAATCAT
30844073 ACAAACAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 15 0.54
35 1 0.04
36 12 0.43
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (36 bp):
TTTAAATATAAAAAAACTATTATAAAAAATCATTCT
Found at i:30844522 original size:23 final size:23
Alignment explanation
Indices: 30844496--30844541 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
30844486 GTCAGTGCAC
30844496 GCGCCAGGACATCGCGTCCACGT
1 GCGCCAGGACATCGCGTCCACGT
30844519 GCGCCAGGACATCGCGTCCACGT
1 GCGCCAGGACATCGCGTCCACGT
30844542 CAGTGCGAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.17, C:0.39, G:0.30, T:0.13
Consensus pattern (23 bp):
GCGCCAGGACATCGCGTCCACGT
Found at i:30844718 original size:11 final size:11
Alignment explanation
Indices: 30844685--30844752 Score: 77
Period size: 11 Copynumber: 6.2 Consensus size: 11
30844675 AACAAATCCT
30844685 CTCTCATATTTC
1 CTCTCA-ATTTC
*
30844697 CTCTCTA-TTC
1 CTCTCAATTTC
30844707 CTCTCAATTTC
1 CTCTCAATTTC
* *
30844718 CTTCTAAAATT-
1 C-TCTCAATTTC
30844729 CTCTCAATTTC
1 CTCTCAATTTC
30844740 CTCTCAATTTC
1 CTCTCAATTTC
30844751 CT
1 CT
30844753 TAAAAAATTC
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
10 16 0.34
11 19 0.40
12 12 0.26
ACGTcount: A:0.19, C:0.34, G:0.00, T:0.47
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:30844741 original size:33 final size:33
Alignment explanation
Indices: 30844704--30844768 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
30844694 TTCCTCTCTA
**
30844704 TTCCTCTCAATTTCCTTCTAAAATTCTCTCAAT
1 TTCCTCTCAATTTCCTTAAAAAATTCTCTCAAT
30844737 TTCCTCTCAATTTCCTTAAAAAATTCTCTCAA
1 TTCCTCTCAATTTCCTTAAAAAATTCTCTCAA
30844769 ATCCATATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.28, C:0.29, G:0.00, T:0.43
Consensus pattern (33 bp):
TTCCTCTCAATTTCCTTAAAAAATTCTCTCAAT
Found at i:30846630 original size:18 final size:18
Alignment explanation
Indices: 30846604--30846638 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
30846594 AGGTGCGTTT
*
30846604 CCTAGCCCTTATATGTAC
1 CCTAACCCTTATATGTAC
30846622 CCTAACCCTTATATGTA
1 CCTAACCCTTATATGTA
30846639 TCCTTTTTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (18 bp):
CCTAACCCTTATATGTAC
Found at i:30847114 original size:44 final size:45
Alignment explanation
Indices: 30847065--30847151 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 45
30847055 ATATTTTGAA
*
30847065 TATTTTGATATTATTTTATGTAAAAAAATAGAAATTT-TTTGAGT
1 TATTTTGATATTATTTGATGTAAAAAAATAGAAATTTATTTGAGT
* *
30847109 TATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGA
1 TATTTTGATATTATTTGATGTAAAAAAATAGAAATTTATTTGA
30847152 TGTAATAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 34 0.87
45 5 0.13
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (45 bp):
TATTTTGATATTATTTGATGTAAAAAAATAGAAATTTATTTGAGT
Found at i:30847240 original size:53 final size:53
Alignment explanation
Indices: 30847166--30847270 Score: 131
Period size: 53 Copynumber: 2.0 Consensus size: 53
30847156 ATAAAAACTC
* *
30847166 TAACCTAATTTAACCCTAAACCCTAACCTAAAATAATTAAAAATCCAAAACCA
1 TAACCTAATTTAACACTAAACCCTAACCTAAAATAATTAAAAACCCAAAACCA
* * ** *
30847219 TAACCTAATTTAATTAC-AAACCCTAGCCTAATTTAATTAAAAACCCTAAACC
1 TAACCTAATTTAA-CACTAAACCCTAACCTAAAATAATTAAAAACCCAAAACC
30847271 TTTAATTAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
53 43 0.98
54 1 0.02
ACGTcount: A:0.48, C:0.26, G:0.01, T:0.26
Consensus pattern (53 bp):
TAACCTAATTTAACACTAAACCCTAACCTAAAATAATTAAAAACCCAAAACCA
Found at i:30847248 original size:23 final size:23
Alignment explanation
Indices: 30847212--30847593 Score: 428
Period size: 23 Copynumber: 16.4 Consensus size: 23
30847202 TTAAAAATCC
*
30847212 AAAACCATAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
* *
30847235 CAAACCCTAGCCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
30847258 AAAACCCTAAACC---TTTAATTA
1 AAAACCCT-AACCTAATTTAATTA
30847279 AAAACCCTAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
*
30847302 AAAACCCTAGCCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
*
30847325 AAAACCCTAAACCTAATTT-GTTA
1 AAAACCCT-AACCTAATTTAATTA
*
30847348 AAAGCCCTAACCTAATTTAATT-
1 AAAACCCTAACCTAATTTAATTA
*
30847370 AAATCCCTAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
30847393 AAAACCCTAAACCCTTAA-TTAA--A
1 AAAACCCT-AA-CC-TAATTTAATTA
30847416 AACCCTAACCCTAACCTAATTTAATTA
1 AA----AACCCTAACCTAATTTAATTA
* *
30847443 AAAATCCTAGCCTAATTTAATT-
1 AAAACCCTAACCTAATTTAATTA
30847465 AAAACCCTAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
30847488 AAAACCCTAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
* *
30847511 AAACCCCTAA---AACATTAATTAA
1 AAAACCCTAACCTAA-TTTAATT-A
30847533 AAGCCCTAACCCTAACCTAATTTAATTA
1 AA-----AACCCTAACCTAATTTAATTA
*
30847561 AAAACCCTAGCCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
30847584 AAAACCCTAA
1 AAAACCCTAA
30847594 ACCNNNNNNN
Statistics
Matches: 309, Mismatches: 22, Indels: 56
0.80 0.06 0.14
Matches are distributed among these distances:
20 6 0.02
21 22 0.07
22 54 0.17
23 166 0.54
24 17 0.06
25 12 0.04
26 5 0.02
27 16 0.05
28 3 0.01
29 6 0.02
30 2 0.01
ACGTcount: A:0.46, C:0.23, G:0.02, T:0.29
Consensus pattern (23 bp):
AAAACCCTAACCTAATTTAATTA
Found at i:30847290 original size:67 final size:66
Alignment explanation
Indices: 30847212--30847516 Score: 398
Period size: 67 Copynumber: 4.4 Consensus size: 66
30847202 TTAAAAATCC
*
30847212 AAAACCATAACCTAATTTAATTACAAACCCTAGCCTAATTTAATTAAAAACCCTAAACCTTTAAT
1 AAAACCCTAACCTAATTTAATTA-AAACCCTAGCCTAATTTAATTAAAAACCCTAAACCTTTAAT
30847277 TA
65 TA
*
30847279 AAAACCCTAACCTAATTTAATTAAAAACCCTAGCCTAATTTAATTAAAAACCCTAAACCTAATTT
1 AAAACCCTAACCTAATTTAATT-AAAACCCTAGCCTAATTTAATTAAAAACCCTAAACCT--TTA
*
30847344 GTTA
63 ATTA
* * * *
30847348 AAAGCCCTAACCTAATTTAATTAAATCCCTAACCTAATTTAATTAAAAACCCTAAACCCTTAATT
1 AAAACCCTAACCTAATTTAATTAAAACCCTAGCCTAATTTAATTAAAAACCCTAAACCTTTAATT
30847413 AAA
66 --A
*
30847416 AACCCTAACCCTAACCTAATTTAATTAAAAATCCTAGCCTAATTTAATT-AAAACCCT-AACCTA
1 AA----AACCCTAACCTAATTTAATT-AAAACCCTAGCCTAATTTAATTAAAAACCCTAAACC--
30847479 ATTTAATTA
59 -TTTAATTA
30847488 AAAACCCTAACCTAATTTAATTAAAACCC
1 AAAACCCTAACCTAATTTAATTAAAACCC
30847517 CTAAAACATT
Statistics
Matches: 210, Mismatches: 15, Indels: 26
0.84 0.06 0.10
Matches are distributed among these distances:
66 4 0.02
67 63 0.30
68 58 0.28
69 26 0.12
71 4 0.02
72 30 0.14
73 19 0.09
74 6 0.03
ACGTcount: A:0.45, C:0.23, G:0.02, T:0.30
Consensus pattern (66 bp):
AAAACCCTAACCTAATTTAATTAAAACCCTAGCCTAATTTAATTAAAAACCCTAAACCTTTAATT
A
Found at i:30847466 original size:95 final size:96
Alignment explanation
Indices: 30847237--30847596 Score: 365
Period size: 95 Copynumber: 3.8 Consensus size: 96
30847227 TTTAATTACA
*
30847237 AACCCTAGCCTAATTTAATTAAAAACCCTAAACC---TTTAATTAAAAACCCTAACCTAATTTAA
1 AACCCTAACCTAATTTAATTAAAAACCCT-AACCTAATTTAATT-AAAACCCTAACCTAATTTAA
* *
30847299 TTAAAAACCCT-AGCCTAATTTAATTAAAAACCCT
64 TTAAAAACCCTAAACC--ACTTAATTAAAAACCCT
* * *
30847333 -A----AACCTAATTT-GTTAAAAGCCCTAACCTAATTTAATTAAATCCCTAACCTAATTTAATT
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAACCCTAACCTAATTTAATT
30847392 AAAAACCCTAAACC-CTTAATTAAAAACCCT
66 AAAAACCCTAAACCACTTAATTAAAAACCCT
* *
30847422 AACCCTAACCTAATTTAATTAAAAATCCTAGCCTAATTTAATTAAAACCCTAACCTAATTTAATT
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAACCCTAACCTAATTTAATT
* *
30847487 AAAAACCCT-AACCTAATTTAATTAAAACCCCT
66 AAAAACCCTAAACC--ACTTAATTAAAAACCCT
* * ***** *
30847519 AA----AACATTAATTAAAAGCCCTAACCCTAACCTAATTTAATTAAAAACCCTAGCCTAATTTA
1 AACCCTAAC-CTAATT-TAATTAAAAACCCTAACCTAATTTAATT-AAAACCCTAACCTAATTTA
30847580 ATTAAAAACCCTAAACC
63 ATTAAAAACCCTAAACC
30847597 NNNNNNNNNN
Statistics
Matches: 224, Mismatches: 23, Indels: 33
0.80 0.08 0.12
Matches are distributed among these distances:
89 19 0.08
90 11 0.05
91 39 0.17
92 10 0.04
93 3 0.01
94 19 0.08
95 73 0.33
96 30 0.13
97 20 0.09
ACGTcount: A:0.45, C:0.24, G:0.02, T:0.29
Consensus pattern (96 bp):
AACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAACCCTAACCTAATTTAATT
AAAAACCCTAAACCACTTAATTAAAAACCCT
Found at i:30847467 original size:118 final size:117
Alignment explanation
Indices: 30847212--30847593 Score: 498
Period size: 118 Copynumber: 3.3 Consensus size: 117
30847202 TTAAAAATCC
* * *
30847212 AAAACCATAACCTAATTTAATTACAAACCCTAGCCTAATTTAATTAAAAACCCTAAACC---TTT
1 AAAACCCTAGCCTAATTTAATTA-AAACCCTAACCTAATTTAATTAAAAACCCT-AACCTAATTT
*
30847274 AATTAAAAACCCT-AACC-TAATTTAATTAAA----AACCCTAGCCTAATTTAATTA
64 AATTAAAAACCCTAAACCTTAA-TTAA--AAACCCTAACCCTAACCTAATTTAATTA
* * *
30847325 AAAACCCTAAACCTAATTT-GTTAAAAGCCCTAACCTAATTTAATT-AAATCCCTAACCTAATTT
1 AAAACCCT-AGCCTAATTTAATTAAAA-CCCTAACCTAATTTAATTAAAAACCCTAACCTAATTT
30847388 AATTAAAAACCCTAAACCCTTAATTAAAAACCCTAACCCTAACCTAATTTAATTA
64 AATTAAAAACCCTAAA-CCTTAATTAAAAACCCTAACCCTAACCTAATTTAATTA
*
30847443 AAAATCCTAGCCTAATTTAATTAAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAA
1 AAAACCCTAGCCTAATTTAATTAAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAA
* * *
30847508 TTAAAACCCCTAAAACATTAATTAAAAGCCCTAACCCTAACCTAATTTAATTA
66 TTAAAAACCCT-AAACCTTAATTAAAAACCCTAACCCTAACCTAATTTAATTA
30847561 AAAACCCTAGCCTAATTTAATTAAAAACCCTAA
1 AAAACCCTAGCCTAATTTAATT-AAAACCCTAA
30847594 ACCNNNNNNN
Statistics
Matches: 240, Mismatches: 13, Indels: 26
0.86 0.05 0.09
Matches are distributed among these distances:
111 4 0.02
112 10 0.04
113 27 0.11
114 29 0.12
115 2 0.01
116 6 0.03
117 30 0.12
118 119 0.50
119 13 0.05
ACGTcount: A:0.46, C:0.23, G:0.02, T:0.29
Consensus pattern (117 bp):
AAAACCCTAGCCTAATTTAATTAAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAA
TTAAAAACCCTAAACCTTAATTAAAAACCCTAACCCTAACCTAATTTAATTA
Found at i:30850594 original size:124 final size:125
Alignment explanation
Indices: 30850421--30850772 Score: 489
Period size: 126 Copynumber: 2.8 Consensus size: 125
30850411 CCCAAACATG
*
30850421 CTACTGTAGCAAAAGCGCGTCCACAAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
30850486 TAGAAGCGATTTTATATTATTTACTCAGAAA-TGT-AAA-AAAAAATCATTTCTTACATGAC
66 TAGAAGCGATTTTATATTATTT-CTCAGAAACT-TCAAACAAAAAATCATTTCTTACATGAC
* * * *
30850545 CTACTGTAGCAAAAGCGCG-CTGACGAGGCCGCAATTTCACAAATTCTTCTCACATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTC-CACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTG
* * * * * *
30850609 CTAAAAGCGATTTTATACTATTTGCTCAGAAACTTCAAACAAATAATTATTTCTTCCGTGAC
65 CTAGAAGCGATTTTATATTATTT-CTCAGAAACTTCAAACAAAAAATCATTTCTTACATGAC
* *
30850671 CTACTATAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAAATT-TTCTCAAATACCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCAC-AAATTCTTCTCAAATAGCATCCTG
*
30850735 CTAGAAGCGATTTTATATTATTTCATCAGAAACGTCAA
65 CTAGAAGCGATTTTATATTATTTC-TCAGAAACTTCAA
30850773 CTCGAAATTA
Statistics
Matches: 200, Mismatches: 21, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
123 1 0.00
124 87 0.44
125 5 0.03
126 101 0.50
127 6 0.03
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.29
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATATTATTTCTCAGAAACTTCAAACAAAAAATCATTTCTTACATGAC
Found at i:30864763 original size:125 final size:126
Alignment explanation
Indices: 30864530--30864832 Score: 339
Period size: 125 Copynumber: 2.4 Consensus size: 126
30864520 GTGTTTCGTG
* * * *
30864530 AATTCGAGGAATTGTACCCTAACTTACGGGGTTTCAATTTTCTCACTAAATCGAAACCACGAAGT
1 AATTCGAGGAATCGTACCCTAACTTACGGGGTTTCGATTTTCTCACTAAACCGAAACCACAAAGT
* * * * * *
30864595 ATCCTTTTAAGATTTCAAAAACGAAAGGAATCTCGACGAGGCAATATTTTGCATTTT-GGT
66 ACCCTTTTAAGACTTCAAAAACGAAAGAAATCTCGAAGAGGCAACATTTCGCATTTTGGGT
* * *
30864655 AATTCGAGGAATCGTACCCTAACTTACGGGGTTTCGATTTTCTC-GTCAAACCTAAA-TAGCAAA
1 AATTCGAGGAATCGTACCCTAACTTACGGGGTTTCGATTTTCTCACT-AAACCGAAACCA-CAAA
* * * *
30864718 GTACCCTTTTAAG-CTTCAAAATC-AAAGAAATTTCGATATACGGCAACATTTCGCGTTTTGGGT
64 GTACCCTTTTAAGACTTCAAAAACGAAAGAAATCTCGA-AGA-GGCAACATTTCGCATTTTGGGT
* *
30864781 AATTCGA-GAAGTCGTACCCTAACTCACGGGGTTTCGATCTTTCTCATTAAAC
1 AATTCGAGGAA-TCGTACCCTAACTTACGGGGTTTCGAT-TTTCTCACTAAAC
30864833 TTGAATGATG
Statistics
Matches: 151, Mismatches: 19, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
123 11 0.07
124 11 0.07
125 82 0.54
126 36 0.24
127 10 0.07
128 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.31
Consensus pattern (126 bp):
AATTCGAGGAATCGTACCCTAACTTACGGGGTTTCGATTTTCTCACTAAACCGAAACCACAAAGT
ACCCTTTTAAGACTTCAAAAACGAAAGAAATCTCGAAGAGGCAACATTTCGCATTTTGGGT
Found at i:30871722 original size:21 final size:22
Alignment explanation
Indices: 30871696--30871737 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
30871686 AAAAAAATCA
*
30871696 AATTAAAATAAT-CTTAAAAAT
1 AATTAAAACAATCCTTAAAAAT
*
30871717 AATTAATACAATCCTTAAAAA
1 AATTAAAACAATCCTTAAAAA
30871738 CATTAAAGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.31
Consensus pattern (22 bp):
AATTAAAACAATCCTTAAAAAT
Found at i:30885919 original size:60 final size:57
Alignment explanation
Indices: 30885837--30885952 Score: 178
Period size: 58 Copynumber: 2.0 Consensus size: 57
30885827 TAAAAAAATC
*
30885837 CCGCCTAGTTATTCTTAAATTTAATTTAATTATGACAACTTTTTTTAATTTCAGAATAG
1 CCGCCTAATTATTCTTAAATTTAATTTAATTAT--CAACTTTTTTTAATTTCAGAATAG
* *
30885896 CCGCCTAATTATTTCTTAAATTTAGTTTAATTATCAATTTTTTTTAATTTCAGAATA
1 CCGCCTAATTA-TTCTTAAATTTAATTTAATTATCAACTTTTTTTAATTTCAGAATA
30885953 TAGTTGCAAC
Statistics
Matches: 53, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
58 22 0.42
59 10 0.19
60 21 0.40
ACGTcount: A:0.32, C:0.13, G:0.07, T:0.48
Consensus pattern (57 bp):
CCGCCTAATTATTCTTAAATTTAATTTAATTATCAACTTTTTTTAATTTCAGAATAG
Found at i:30888321 original size:58 final size:58
Alignment explanation
Indices: 30888235--30888395 Score: 162
Period size: 58 Copynumber: 2.8 Consensus size: 58
30888225 TATGAAGATT
* * * * * **
30888235 ATATGTCTCACCTCTGCCGAAAGTCCAAAGGGTTCACAAAGGGGCTTCAATGTTGAAG
1 ATATGCCTCACCTCTACTGAGAGCCCAAAGGGTTCACAAAGGGGCTTCAATAATGAAG
* * *
30888293 ATATGCCTCACCTCTACTGAGAGCCCAAAGGGTTCACAGAGGGGATTGAATAATGAAG
1 ATATGCCTCACCTCTACTGAGAGCCCAAAGGGTTCACAAAGGGGCTTCAATAATGAAG
* * * * **
30888351 ATATACCTCACCT-TAGTTAAGAGCCCAAAGGATTCATGAAGGGGC
1 ATATGCCTCACCTCTA-CTGAGAGCCCAAAGGGTTCACAAAGGGGC
30888396 CCAAATGTTG
Statistics
Matches: 84, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
57 2 0.02
58 82 0.98
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.22
Consensus pattern (58 bp):
ATATGCCTCACCTCTACTGAGAGCCCAAAGGGTTCACAAAGGGGCTTCAATAATGAAG
Found at i:30891624 original size:30 final size:30
Alignment explanation
Indices: 30891590--30891651 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
30891580 TCAAGTCCCA
* *
30891590 TAAAATTTATG-AAATTTTTATTAAATCTCT
1 TAAAATTTATGAAAATATTAATTAAAT-TCT
*
30891620 TAAAATTTTTGAAAATATTAATTAAATTCT
1 TAAAATTTATGAAAATATTAATTAAATTCT
30891650 TA
1 TA
30891652 TTTTTACTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 15 0.54
31 13 0.46
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.48
Consensus pattern (30 bp):
TAAAATTTATGAAAATATTAATTAAATTCT
Found at i:30894394 original size:3 final size:3
Alignment explanation
Indices: 30894386--30894430 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
30894376 GATCTGGAAT
30894386 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
30894431 GTGAAATCAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:30894804 original size:13 final size:13
Alignment explanation
Indices: 30894752--30894804 Score: 79
Period size: 13 Copynumber: 4.1 Consensus size: 13
30894742 AGTTTGTCAA
*
30894752 TGCTTTTGAAATG
1 TGCTTTTGAAAAG
30894765 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
30894778 TGTTTTTGAGAAG
1 TGCTTTTGAAAAG
30894791 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
30894804 T
1 T
30894805 TTGGTTTAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 35 1.00
ACGTcount: A:0.26, C:0.06, G:0.25, T:0.43
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:30906388 original size:53 final size:53
Alignment explanation
Indices: 30906328--30906433 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
30906318 TCTCTTCCCA
*
30906328 AAAGTCTGACGTTAGTTTTCTTTTTTCTCTGCCATATTTTTTTCTCTTCTTTT
1 AAAGTCTGACGTTAGTTTTCTTTTTTCTCTGCCACATTTTTTTCTCTTCTTTT
30906381 AAAGTCTGACGTTAGTTTTCTTTTTTCTCTGCCACATTTTTTTCTCTTCTTTT
1 AAAGTCTGACGTTAGTTTTCTTTTTTCTCTGCCACATTTTTTTCTCTTCTTTT
30906434 TCCTGTAATT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.13, C:0.20, G:0.09, T:0.58
Consensus pattern (53 bp):
AAAGTCTGACGTTAGTTTTCTTTTTTCTCTGCCACATTTTTTTCTCTTCTTTT
Found at i:30907867 original size:22 final size:22
Alignment explanation
Indices: 30907826--30907867 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
30907816 CTCTCTGGGC
* *
30907826 TTTTTGGATTGTTTGGTTTAAA
1 TTTTTGGATTGGTTGCTTTAAA
*
30907848 TTTTTGGTTTGGTTGCTTTA
1 TTTTTGGATTGGTTGCTTTA
30907868 TGATTTCTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.12, C:0.02, G:0.24, T:0.62
Consensus pattern (22 bp):
TTTTTGGATTGGTTGCTTTAAA
Found at i:30917199 original size:51 final size:52
Alignment explanation
Indices: 30917135--30917472 Score: 340
Period size: 51 Copynumber: 6.7 Consensus size: 52
30917125 TATCGATGAA
* * * *
30917135 CACGTGTGTAGTACTGTGTAAAGGCTACTACGTGTATCGATAAATA-ATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATATTTGGT
* * *
30917186 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGA-AAAGT-TTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAA-TATTTGGT
* **
30917237 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTACCGATAAATGA--TGAA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAAT-ATTTGGT
* * * * *
30917288 CAC--GTGTAGTACTAAGTGATGGCTACTATGTGTACC-AAAAAGATTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATATTTGGT
* * * *
30917337 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGAATCG-TAAA-ATTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATATTTGGT
* * * * *
30917387 CACGTGTGTAGTACTATGTGACGGCTACTTCGTGAACCG-TAAA-ACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATATTTGGT
* *
30917437 CACGTGTGTAGTACTATATGAAGGCTACTAAGTGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
30917473 TCGAATGATA
Statistics
Matches: 240, Mismatches: 37, Indels: 21
0.81 0.12 0.07
Matches are distributed among these distances:
47 1 0.00
48 4 0.02
49 34 0.14
50 85 0.35
51 113 0.47
52 3 0.01
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (52 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATATTTGGT
Found at i:30917336 original size:100 final size:99
Alignment explanation
Indices: 30917135--30917476 Score: 402
Period size: 100 Copynumber: 3.4 Consensus size: 99
30917125 TATCGATGAA
* * * *
30917135 CACGTGTGTAGTACTGTGTAAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAAT-AT-G-AACACGTGTAGTAC
*
30917200 TAAGTGAAGGCTACTATGTGTACCGAAAAGTTTTGGT
63 TAAGTGAAGGCTACTATGTGTACCGAAAAGATTTGGT
* *
30917237 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTACCGATAAATGATGAACACGTGTAGTACTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAAT-ATGAACACGTGTAGTACTA
* *
30917302 AGTGATGGCTACTATGTGTACCAAAAAGATTTGGT
65 AGTGAAGGCTACTATGTGTACCGAAAAGATTTGGT
* * * *
30917337 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGAATCG-TAAAATTTGATCACGTGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAT-AAATATGAACAC--GTGTAGTAC
* * * * * *
30917401 TATGTGACGGCTACT-TCGTGAACCGTAAA-ACTTGAT
63 TAAGTGAAGGCTACTAT-GTGTACCGAAAAGATTTGGT
* *
30917437 CACGTGTGTAGTACTATATGAAGGCTACTAAGTGTATCGA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
30917477 ATGATAAAAG
Statistics
Matches: 211, Mismatches: 24, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
99 7 0.03
100 127 0.60
101 32 0.15
102 45 0.21
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (99 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATATGAACACGTGTAGTACTAA
GTGAAGGCTACTATGTGTACCGAAAAGATTTGGT
Found at i:30917509 original size:151 final size:152
Alignment explanation
Indices: 30917130--30917483 Score: 398
Period size: 151 Copynumber: 2.3 Consensus size: 152
30917120 TAAGGTATCG
* * * * *
30917130 ATGAACACGTGTGTAGTACTGTGTAAAGGCTACTACGTGTATCG-ATAAATAATGGTCACATGTG
1 ATGAACACGTGTGTAGTACTATATGAAGGCTACTAAGTGTATCGAAT-GATAATGGTCACATGTG
* * * *
30917194 TAGTACTAAGTGAAGGCTACTATGTGTACCGAAAAGTTTTGGTCACGTGTGTAGTACTGTGTGAA
65 TAGTACTATGTGAAGGCTACTATGTGAACCGAAAAG-TTTGATCACGTGTGTAGTACTATGTGAA
* **
30917259 GGCTACTACGTGTACCGATAAATG
129 GGCTACTACGTGAACCGATAAAAC
* * * * * * *
30917283 ATGAACAC--GTGTAGTACTA-AGTGATGGCTACTATGTGTACCAAAAAGAT-TTGGTCACGTGT
1 ATGAACACGTGTGTAGTACTATA-TGAAGGCTACTAAGTGTATC-GAATGATAATGGTCACATGT
*
30917344 GTAGTACTATGTGAAGGCTACTATGTGAATCGTAAAA-TTTGATCACGTGTGTAGTACTATGTGA
64 GTAGTACTATGTGAAGGCTACTATGTGAACCG-AAAAGTTTGATCACGTGTGTAGTACTATGTGA
* *
30917408 CGGCTACTTCGTGAACCG-TAAAAC
128 AGGCTACTACGTGAACCGATAAAAC
* *
30917432 TTGATCACGTGTGTAGTACTATATGAAGGCTACTAAGTGTATCGAATGATAA
1 ATGAACACGTGTGTAGTACTATATGAAGGCTACTAAGTGTATCGAATGATAA
30917484 AAGTAACATG
Statistics
Matches: 164, Mismatches: 29, Indels: 18
0.78 0.14 0.09
Matches are distributed among these distances:
149 10 0.06
150 45 0.27
151 93 0.57
152 7 0.04
153 9 0.05
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (152 bp):
ATGAACACGTGTGTAGTACTATATGAAGGCTACTAAGTGTATCGAATGATAATGGTCACATGTGT
AGTACTATGTGAAGGCTACTATGTGAACCGAAAAGTTTGATCACGTGTGTAGTACTATGTGAAGG
CTACTACGTGAACCGATAAAAC
Found at i:30919911 original size:25 final size:25
Alignment explanation
Indices: 30919833--30919962 Score: 84
Period size: 25 Copynumber: 5.2 Consensus size: 25
30919823 TTAGCTCTTT
* *
30919833 TGAGCATCCCGTTATATGGCTCTCA
1 TGAGCTTCCCGTTATATGGCTCGCA
* *** * *
30919858 CGAGCTTCCAAATAGT-TGGCTCTCT
1 TGAGCTTCCCGTTA-TATGGCTCGCA
*
30919883 TGAGCTTCCCGTTATATGGCTCACA
1 TGAGCTTCCCGTTATATGGCTCGCA
* * ** * *
30919908 TGAGCATCCTGTTCCATAGCTCGGA
1 TGAGCTTCCCGTTATATGGCTCGCA
*
30919933 AGAGCTTCCCGTTTATAT-GCTCGCA
1 TGAGCTTCCCG-TTATATGGCTCGCA
30919958 TGAGC
1 TGAGC
30919963 ATACCTGTAT
Statistics
Matches: 76, Mismatches: 26, Indels: 6
0.70 0.24 0.06
Matches are distributed among these distances:
24 1 0.01
25 70 0.92
26 5 0.07
ACGTcount: A:0.20, C:0.28, G:0.22, T:0.31
Consensus pattern (25 bp):
TGAGCTTCCCGTTATATGGCTCGCA
Found at i:30921503 original size:40 final size:41
Alignment explanation
Indices: 30921459--30921659 Score: 162
Period size: 41 Copynumber: 4.9 Consensus size: 41
30921449 GAAATTCAAG
* * * *
30921459 ATAGCTTTGGTTATTAATGGCACTTAGTGTGTG-ATTTGGA
1 ATAGCTTTGGCTATTAATGGCACTTAGTGTGCGAAATTAGA
*
30921499 ATAGCTTTGGCTA-TATATGGCACTTAGTGTGCGAAATTATA
1 ATAGCTTTGGCTATTA-ATGGCACTTAGTGTGCGAAATTAGA
* * *
30921540 ATAGCTTCGGCTATGTAA-GGCACTTAGTGTAC-AGAATTATA
1 ATAGCTTTGGCTAT-TAATGGCACTTAGTGTGCGA-AATTAGA
* * *
30921581 ATAGCTTCGGCTAGGTAA-GGCACTTAGTGTGC-AGAATTATA
1 ATAGCTTTGGCTA-TTAATGGCACTTAGTGTGCGA-AATTAGA
* * * *
30921622 ATAGCTTTAGCTATATGATTGGCAATTAGTGTGTGAAA
1 ATAGCTTTGGCTAT-T-AATGGCACTTAGTGTGCGAAA
30921660 CATTGATTGT
Statistics
Matches: 136, Mismatches: 15, Indels: 17
0.81 0.09 0.10
Matches are distributed among these distances:
39 2 0.01
40 29 0.21
41 86 0.63
42 2 0.01
43 16 0.12
44 1 0.01
ACGTcount: A:0.29, C:0.11, G:0.24, T:0.35
Consensus pattern (41 bp):
ATAGCTTTGGCTATTAATGGCACTTAGTGTGCGAAATTAGA
Found at i:30921562 original size:41 final size:41
Alignment explanation
Indices: 30921459--30921628 Score: 202
Period size: 41 Copynumber: 4.2 Consensus size: 41
30921449 GAAATTCAAG
* * * * **
30921459 ATAGCTTTGGTTAT-TAATGGCACTTAGTGTG-TGATTTGGA
1 ATAGCTTCGGCTATGTAA-GGCACTTAGTGTGCAGAATTATA
* * *
30921499 ATAGCTTTGGCTATATATGGCACTTAGTGTGC-GAAATTATA
1 ATAGCTTCGGCTATGTAAGGCACTTAGTGTGCAG-AATTATA
*
30921540 ATAGCTTCGGCTATGTAAGGCACTTAGTGTACAGAATTATA
1 ATAGCTTCGGCTATGTAAGGCACTTAGTGTGCAGAATTATA
*
30921581 ATAGCTTCGGCTAGGTAAGGCACTTAGTGTGCAGAATTATA
1 ATAGCTTCGGCTATGTAAGGCACTTAGTGTGCAGAATTATA
30921622 ATAGCTT
1 ATAGCTT
30921629 TAGCTATATG
Statistics
Matches: 115, Mismatches: 11, Indels: 7
0.86 0.08 0.05
Matches are distributed among these distances:
40 27 0.23
41 87 0.76
42 1 0.01
ACGTcount: A:0.28, C:0.12, G:0.24, T:0.35
Consensus pattern (41 bp):
ATAGCTTCGGCTATGTAAGGCACTTAGTGTGCAGAATTATA
Found at i:30929556 original size:25 final size:25
Alignment explanation
Indices: 30929478--30929569 Score: 105
Period size: 25 Copynumber: 3.7 Consensus size: 25
30929468 TTCTGTTGTA
*
30929478 TGGCTCTCACGAGCTTTCCGATAAT
1 TGGCTCTCACGAGCTTCCCGATAAT
*
30929503 TGGCTCTCACGAGCTTCCCAATAAT
1 TGGCTCTCACGAGCTTCCCGATAAT
** *
30929528 TGGCTCTCTTGAGCTTCCCG-TTAT
1 TGGCTCTCACGAGCTTCCCGATAAT
* *
30929552 ATGGCTCACATGAGCTTC
1 -TGGCTCTCACGAGCTTC
30929570 ATGTTCCATG
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
24 3 0.05
25 55 0.95
ACGTcount: A:0.18, C:0.29, G:0.20, T:0.33
Consensus pattern (25 bp):
TGGCTCTCACGAGCTTCCCGATAAT
Found at i:30929797 original size:23 final size:23
Alignment explanation
Indices: 30929767--30929816 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
30929757 ATAATTGAAA
30929767 TACATGGATATGGTTGTACTTAT
1 TACATGGATATGGTTGTACTTAT
30929790 TACATGGATATGGTTGTACTTAT
1 TACATGGATATGGTTGTACTTAT
30929813 TACA
1 TACA
30929817 AGGACACATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.42
Consensus pattern (23 bp):
TACATGGATATGGTTGTACTTAT
Found at i:30945328 original size:132 final size:132
Alignment explanation
Indices: 30945091--30945641 Score: 838
Period size: 132 Copynumber: 4.2 Consensus size: 132
30945081 NNNNNNNNNN
*
30945091 AAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCC
1 AAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGATGGCGGATTTTACCTCC
*
30945156 CTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTAGG-CAACAGTGGAATAGA
66 CTATGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCT-GGACAACAGTGGAATAGA
30945220 TTG
130 TTG
* *
30945223 AAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATTGAAAATGGCGGATTTTACCTCC
1 AAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGATGGCGGATTTTACCTCC
* * *
30945288 CAATGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCTTGGACAACAGTGGAATAGGT
66 CTATGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGTGGAATAGAT
30945353 TG
131 TG
* *
30945355 AAGATTTTAGATCTTGTCTCCCTAAGCAGTAGTGGAACAGATCGAAGATGGCGGATTTTACCTCC
1 AAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGATGGCGGATTTTACCTCC
* * *
30945420 CTATGGTTATAATGGAGTACATTGAAGCCAGTAATTCTACTTCCTTGGGCAACAGTGGAATAGAT
66 CTATGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGTGGAATAGAT
30945485 TG
131 TG
* * * * *
30945487 TAGATTTTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATAGCAGATTTTACCTCC
1 AAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGATGGCGGATTTTACCTCC
* * * * * *
30945552 CTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATCCTA-TCTCCCTGGTCAGCAGTGGAATAGG
66 CTATGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACT-TCCCTGGACAACAGTGGAATAGA
30945616 TTG
130 TTG
*
30945619 AAGATTGTAAG-TCTTATCTCCCT
1 AAGATT-TCAGATCTTATCTCCCT
30945642 GAAGTTGCAG
Statistics
Matches: 386, Mismatches: 30, Indels: 6
0.91 0.07 0.01
Matches are distributed among these distances:
131 3 0.01
132 380 0.98
133 3 0.01
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (132 bp):
AAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGATGGCGGATTTTACCTCC
CTATGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGTGGAATAGAT
TG
Found at i:30948178 original size:75 final size:75
Alignment explanation
Indices: 30948093--30948242 Score: 282
Period size: 75 Copynumber: 2.0 Consensus size: 75
30948083 CCAAGTCTGG
*
30948093 GATTCTGAAGGAATTGTGCCCTAACGTATTGGGCCACGATTTCTTAAATCTTGAATAAATGGATA
1 GATTCTGAAGGAATTGTGCCCTAACGTATTGGGCCACGATTTCTTAAATCCTGAATAAATGGATA
30948158 TTCTTTTAAA
66 TTCTTTTAAA
*
30948168 GATTCTGAAGGAATTGTGCCCTAACGTATTGGGCCGCGATTTCTTAAATCCTGAATAAATGGATA
1 GATTCTGAAGGAATTGTGCCCTAACGTATTGGGCCACGATTTCTTAAATCCTGAATAAATGGATA
30948233 TTCTTTTAAA
66 TTCTTTTAAA
30948243 TTTTTATTAC
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 73 1.00
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.35
Consensus pattern (75 bp):
GATTCTGAAGGAATTGTGCCCTAACGTATTGGGCCACGATTTCTTAAATCCTGAATAAATGGATA
TTCTTTTAAA
Found at i:30949444 original size:95 final size:95
Alignment explanation
Indices: 30949330--30949509 Score: 315
Period size: 95 Copynumber: 1.9 Consensus size: 95
30949320 AAAAATATTT
* * *
30949330 ATATTATCAGCCGGCATCCCATGGGTAAAAGAAACTAGAATATTTTATTACAAGGTTGTTTAAAA
1 ATATGATCAGCCGACATCCCATGGGTAAAAGAAACTAGAATATTTTATTACAAGGCTGTTTAAAA
30949395 ATGAAAATAAAAAATCATGTGGCATTTCGC
66 ATGAAAATAAAAAATCATGTGGCATTTCGC
* *
30949425 ATATGATCAGCCGATATCCCATGGGTAAAATAAACTAGAATATTTTATTACAAGGCTGTTTAAAA
1 ATATGATCAGCCGACATCCCATGGGTAAAAGAAACTAGAATATTTTATTACAAGGCTGTTTAAAA
30949490 ATGAAAATAAAAAATCATGT
66 ATGAAAATAAAAAATCATGT
30949510 TCACACTCTA
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
95 80 1.00
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (95 bp):
ATATGATCAGCCGACATCCCATGGGTAAAAGAAACTAGAATATTTTATTACAAGGCTGTTTAAAA
ATGAAAATAAAAAATCATGTGGCATTTCGC
Found at i:30950569 original size:95 final size:95
Alignment explanation
Indices: 30950455--30950634 Score: 315
Period size: 95 Copynumber: 1.9 Consensus size: 95
30950445 AAAAATATTT
* * *
30950455 ATATTATCAGCCGGCATCCCATGGGTAAAAGAAACTAGAATATTTTATTACAAGGTTGTTTAAAA
1 ATATGATCAGCCGACATCCCATGGGTAAAAGAAACTAGAATATTTTATTACAAGGCTGTTTAAAA
30950520 ATGAAAATAAAAAATCATGTGGCATTTCGC
66 ATGAAAATAAAAAATCATGTGGCATTTCGC
* *
30950550 ATATGATCAGCCGATATCCCATGGGTAAAATAAACTAGAATATTTTATTACAAGGCTGTTTAAAA
1 ATATGATCAGCCGACATCCCATGGGTAAAAGAAACTAGAATATTTTATTACAAGGCTGTTTAAAA
30950615 ATGAAAATAAAAAATCATGT
66 ATGAAAATAAAAAATCATGT
30950635 TCACACTCTA
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
95 80 1.00
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (95 bp):
ATATGATCAGCCGACATCCCATGGGTAAAAGAAACTAGAATATTTTATTACAAGGCTGTTTAAAA
ATGAAAATAAAAAATCATGTGGCATTTCGC
Found at i:30955347 original size:31 final size:31
Alignment explanation
Indices: 30955312--30955375 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
30955302 AATTAAGTCA
30955312 TTTTAATGATTGATATAAATTTGATAAATTT
1 TTTTAATGATTGATATAAATTTGATAAATTT
30955343 TTTTAATGATTGATATAAATTTGATAAATTT
1 TTTTAATGATTGATATAAATTTGATAAATTT
30955374 TT
1 TT
30955376 ACACGCATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (31 bp):
TTTTAATGATTGATATAAATTTGATAAATTT
Found at i:30966612 original size:12 final size:12
Alignment explanation
Indices: 30966595--30966629 Score: 63
Period size: 11 Copynumber: 3.0 Consensus size: 12
30966585 AAAAAACCAT
30966595 AAAATTATAAAA
1 AAAATTATAAAA
30966607 AAAATTAT-AAA
1 AAAATTATAAAA
30966618 AAAATTATAAAA
1 AAAATTATAAAA
30966630 TTTTTATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (12 bp):
AAAATTATAAAA
Found at i:30966787 original size:21 final size:19
Alignment explanation
Indices: 30966762--30966822 Score: 68
Period size: 21 Copynumber: 3.1 Consensus size: 19
30966752 AATTTTACAA
30966762 TTTTATAATTTTTCAAATTT
1 TTTTATAATTTTT-AAATTT
* *
30966782 TGTTTACAATTTTTATGATTT
1 T-TTTATAATTTTTA-AATTT
*
30966803 TTTAATAATTTTTAAATTT
1 TTTTATAATTTTTAAATTT
30966822 T
1 T
30966823 AAAAGGGCTT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
19 5 0.15
20 13 0.38
21 16 0.47
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (19 bp):
TTTTATAATTTTTAAATTT
Found at i:30987549 original size:17 final size:18
Alignment explanation
Indices: 30987519--30987552 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
30987509 GTGATGTATC
30987519 TTATGAAATCAACTTATG
1 TTATGAAATCAACTTATG
*
30987537 TTAT-AAATGAACTTAT
1 TTATGAAATCAACTTAT
30987553 ACGAGATGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (18 bp):
TTATGAAATCAACTTATG
Found at i:30989174 original size:27 final size:26
Alignment explanation
Indices: 30989125--30989196 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 26
30989115 TTTGGGTTCA
*
30989125 AGTTTGGGTTCGAGGTTCGGGGTTTG
1 AGTTTGGGTTCGAGGTTCAGGGTTTG
*
30989151 AGTTTGGGATTCGAGG-TCTAGGGTTTA
1 AGTTTGGG-TTCGAGGTTC-AGGGTTTG
*
30989178 ATGTTTAGGGTTCAAGGTT
1 A-GTTT-GGGTTCGAGGTT
30989197 TGAGGTTTAG
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
26 10 0.26
27 14 0.37
28 10 0.26
29 4 0.11
ACGTcount: A:0.15, C:0.07, G:0.39, T:0.39
Consensus pattern (26 bp):
AGTTTGGGTTCGAGGTTCAGGGTTTG
Found at i:31000988 original size:44 final size:44
Alignment explanation
Indices: 31000925--31001100 Score: 352
Period size: 44 Copynumber: 4.0 Consensus size: 44
31000915 ACCAAAAACA
31000925 AATATAGGTGAAGTTGATTATACGCATGTCTTTTTAAATTTAAG
1 AATATAGGTGAAGTTGATTATACGCATGTCTTTTTAAATTTAAG
31000969 AATATAGGTGAAGTTGATTATACGCATGTCTTTTTAAATTTAAG
1 AATATAGGTGAAGTTGATTATACGCATGTCTTTTTAAATTTAAG
31001013 AATATAGGTGAAGTTGATTATACGCATGTCTTTTTAAATTTAAG
1 AATATAGGTGAAGTTGATTATACGCATGTCTTTTTAAATTTAAG
31001057 AATATAGGTGAAGTTGATTATACGCATGTCTTTTTAAATTTAAG
1 AATATAGGTGAAGTTGATTATACGCATGTCTTTTTAAATTTAAG
31001101 GCCAAAGATT
Statistics
Matches: 132, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 132 1.00
ACGTcount: A:0.34, C:0.07, G:0.18, T:0.41
Consensus pattern (44 bp):
AATATAGGTGAAGTTGATTATACGCATGTCTTTTTAAATTTAAG
Found at i:31002815 original size:16 final size:16
Alignment explanation
Indices: 31002786--31002839 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
31002776 TTTGGTTCAC
* *
31002786 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
*
31002802 CGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
31002818 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
31002834 TGTAAT
1 TGTAAT
31002840 AAGAAATCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.33, C:0.02, G:0.35, T:0.30
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:31002884 original size:45 final size:44
Alignment explanation
Indices: 31002818--31002908 Score: 110
Period size: 44 Copynumber: 2.0 Consensus size: 44
31002808 GGAATAGAGG
**
31002818 TGTAATGGAATAGAGGTGTAATAAGAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGCCGTAAT-AGAAATCAACTGTTTGGTTGAA
* * ***
31002863 TGTAATGGAATTGAGCCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGCCGTAATAGAAATCAACTGTTTGGTTGAA
31002907 TG
1 TG
31002909 AAATAGAGGT
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 20 0.51
45 19 0.49
ACGTcount: A:0.32, C:0.05, G:0.27, T:0.35
Consensus pattern (44 bp):
TGTAATGGAATAGAGCCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:31003094 original size:18 final size:17
Alignment explanation
Indices: 31003073--31003107 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
31003063 TTATTATTAA
*
31003073 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
31003091 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
31003108 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:31009002 original size:69 final size:69
Alignment explanation
Indices: 31008892--31009020 Score: 195
Period size: 69 Copynumber: 1.9 Consensus size: 69
31008882 AATCAAGTTC
**
31008892 CAGTTTCATATTCTACTGGCTAACAAATCAAGAACAATTTCCAGCAGACAATCAAAACAACTGCC
1 CAGTTTCATATTCTACTCACTAACAAATCAAGAACAATTTCCAGCAGACAATCAAAACAACTGCC
31008957 GGAA
66 GGAA
* * * * *
31008961 CAGTTTCATCTTCTACTCACTAACAAATTAATAACATTTTCCAGCAGACTATCAAAACAA
1 CAGTTTCATATTCTACTCACTAACAAATCAAGAACAATTTCCAGCAGACAATCAAAACAA
31009021 TTTCCAGAAC
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
69 53 1.00
ACGTcount: A:0.40, C:0.25, G:0.09, T:0.26
Consensus pattern (69 bp):
CAGTTTCATATTCTACTCACTAACAAATCAAGAACAATTTCCAGCAGACAATCAAAACAACTGCC
GGAA
Found at i:31009872 original size:22 final size:23
Alignment explanation
Indices: 31009837--31009882 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
31009827 AAGCCTAACC
31009837 AACAACACAAAACA-CATCAACA
1 AACAACACAAAACAGCATCAACA
* * *
31009859 AACAACAGACAACAGTATCAACA
1 AACAACACAAAACAGCATCAACA
31009882 A
1 A
31009883 TATGCATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.61, C:0.28, G:0.04, T:0.07
Consensus pattern (23 bp):
AACAACACAAAACAGCATCAACA
Found at i:31010456 original size:36 final size:37
Alignment explanation
Indices: 31010372--31010479 Score: 137
Period size: 36 Copynumber: 2.9 Consensus size: 37
31010362 GGTAGAAACT
*
31010372 GAGCAAATCGGCCGAAAAAGAAAAGAAAAGAAACGGGGG
1 GAGCAAATCGGCAG-AAAAGAAAAGAAAAGAAAC-GGGG
* * * *
31010411 GAGCAAATCGGAAGAAAAGAAAATAAAATAAAC-TGG
1 GAGCAAATCGGCAGAAAAGAAAAGAAAAGAAACGGGG
*
31010447 GAGCAAATCGGCAGAAAAGAAAAGCAAAGAAAC
1 GAGCAAATCGGCAGAAAAGAAAAGAAAAGAAAC
31010480 AAGGAAGCAG
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
36 31 0.52
38 17 0.28
39 12 0.20
ACGTcount: A:0.56, C:0.12, G:0.27, T:0.06
Consensus pattern (37 bp):
GAGCAAATCGGCAGAAAAGAAAAGAAAAGAAACGGGG
Found at i:31017500 original size:79 final size:79
Alignment explanation
Indices: 31017402--31017560 Score: 207
Period size: 79 Copynumber: 2.0 Consensus size: 79
31017392 TTGTTAACAG
* ** *
31017402 AAATCGAATAAATTTTGTTGAACGA-CAAGAAT-AGAATTCTGAAACAGAATTGTTCAATTGATT
1 AAATCGAACAAATCCTGTTGAA-GAGCAAGAATAAG-ATCCTGAAACAGAATTGTTCAATTGATT
31017465 TCTGTTTGA-AAATAGA
64 TCTGTTT-ACAAATAGA
* * *
31017481 AAATCGAACAAATCCTGTTGAATAGTAGGAATAAGATCCTGAAACAGAATTGTTCAATTGATTTC
1 AAATCGAACAAATCCTGTTGAAGAGCAAGAATAAGATCCTGAAACAGAATTGTTCAATTGATTTC
31017546 TGTTTACAAATAGA
66 TGTTTACAAATAGA
31017560 A
1 A
31017561 TACAATTTCA
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
78 2 0.03
79 66 0.94
80 2 0.03
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.31
Consensus pattern (79 bp):
AAATCGAACAAATCCTGTTGAAGAGCAAGAATAAGATCCTGAAACAGAATTGTTCAATTGATTTC
TGTTTACAAATAGA
Found at i:31019539 original size:25 final size:25
Alignment explanation
Indices: 31019511--31019560 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
31019501 TATAATATAA
*
31019511 TAAA-AATAATAACATTAAAAAAAAT
1 TAAATAATAA-AACAGTAAAAAAAAT
*
31019536 TAAATAGTAAAACAGTAAAAAAAAT
1 TAAATAATAAAACAGTAAAAAAAAT
31019561 GGACTAGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.22
Consensus pattern (25 bp):
TAAATAATAAAACAGTAAAAAAAAT
Found at i:31023261 original size:23 final size:23
Alignment explanation
Indices: 31023233--31023284 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
31023223 TAGATTTTTC
*
31023233 CTAAATATTGTCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
*
31023256 TTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
31023279 CTAAAT
1 CTAAAT
31023285 TTAAAATCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.46, C:0.12, G:0.02, T:0.40
Consensus pattern (23 bp):
CTAAATATTATCACTAAATAATT
Found at i:31024265 original size:116 final size:114
Alignment explanation
Indices: 31023922--31024291 Score: 444
Period size: 114 Copynumber: 3.2 Consensus size: 114
31023912 GAAATAAGAA
** * *
31023922 TTAGCAGCGTTTTCCAGAAAGCGCCGC-AAAAAACCTAAGCACAACGACGCCGTTTACCGAGCTT
1 TTAGCAGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCACAACGACGCCGTTTTCTGAGCTT
* *
31023986 TT-GGGGATTTTGAGGCGTTTTTAAGAAAGCGCCGCTAAT-TCTCAGGGCT
66 TTCGGGG-TTTAGAGGCGTTTTTAAGAAAGCGCCTCTAATGT-TCAGGGCT
* * * *
31024035 TTAACGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGGCGCCGTTTTCTGAGC-T
1 TTAGCAGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCACAACGACGCCGTTTTCTGAGCTT
* * * * * *
31024099 TTCGTGGGTTTAGCGACGTTTTTAAGGAAGTG-TTGCTAATGCTCAGGGCT
66 TTCG-GGGTTTAGAGGCGTTTTTAAGAAAGCGCCT-CTAATGTTCAGGGCT
* * * * *
31024149 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAAACCTAAGCTCTACGACGTCGTTTTTTGAGCT
1 TTAGCAGCGTTTTTGAGAAAGCGCCGC-AAAAAAACCTAAGCACAACGACGCCGTTTTCTGAGCT
*
31024214 TTTCGGGTGTTTAGTGGCGTTTTTAAGAAAGCGCCTCTAATGTTCAGGGCT
65 TTTCGGG-GTTTAGAGGCGTTTTTAAGAAAGCGCCTCTAATGTTCAGGGCT
*
31024265 TTAGCAGCATTTTTGAGAAAGCGCCGC
1 TTAGCAGCGTTTTTGAGAAAGCGCCGC
31024292 TAATGCTCAT
Statistics
Matches: 218, Mismatches: 30, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
113 26 0.12
114 90 0.41
115 36 0.17
116 65 0.30
117 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (114 bp):
TTAGCAGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCACAACGACGCCGTTTTCTGAGCTT
TTCGGGGTTTAGAGGCGTTTTTAAGAAAGCGCCTCTAATGTTCAGGGCT
Found at i:31024284 original size:41 final size:41
Alignment explanation
Indices: 31024233--31024332 Score: 128
Period size: 41 Copynumber: 2.4 Consensus size: 41
31024223 TTTAGTGGCG
* * *
31024233 TTTTTAAGAAAGCGCCTCTAATGTTCAGGGCTTTAGCAGCA
1 TTTTTGAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCAGCA
* * *
31024274 TTTTTGAGAAAGCGCCGCTAATGCTCATGGCTTTAGCGGCG
1 TTTTTGAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCAGCA
* *
31024315 TTTTTGGGGAAGCGCCGC
1 TTTTTGAGAAAGCGCCGC
31024333 AAAAAAACCT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (41 bp):
TTTTTGAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCAGCA
Found at i:31024401 original size:114 final size:113
Alignment explanation
Indices: 31024265--31024536 Score: 368
Period size: 114 Copynumber: 2.4 Consensus size: 113
31024255 GTTCAGGGCT
* * * * *
31024265 TTAGCAGCATTTTTGAGAAAGCGCCGCTAATGCTCATGGCTTTAGCGGCGTTTTTGGGGAAGCGC
1 TTAGCGGCGTTTTT-AGAAAGCGCCGCTAATGCTCAGGGATTTAGCGGCGTTTTTGGGAAAGCGC
* *
31024330 CGCAA-AAAAACCTAAGCCCAACGACGCCGTTTCCT-TAGCTTTCGGGGAA
65 CGCAAGAAAAA-CTAAGCCAAACGACGCCGTTTCCTGT-GCTTTCGAGGAA
31024379 TTAGCGGCGTTTTTCAGAAAGCGCCGCTAATGCTCAGGGATTTAGCGGCGTTTTTGGGAAAGCGC
1 TTAGCGGCGTTTTT-AGAAAGCGCCGCTAATGCTCAGGGATTTAGCGGCGTTTTTGGGAAAGCGC
* ** * *
31024444 CGCAAGAAAAACTAAGCTAAACGGTGCCGTTTTCTGTGCTTTCGAGGAT
65 CGCAAGAAAAACTAAGCCAAACGACGCCGTTTCCTGTGCTTTCGAGGAA
*
31024493 TTAGCGGCGTTTTTATGAAAGCGCCGCTAATGCTTAGGGATTTA
1 TTAGCGGCGTTTTTA-GAAAGCGCCGCTAATGCTCAGGGATTTA
31024537 AAATAATTTA
Statistics
Matches: 141, Mismatches: 14, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
113 1 0.01
114 134 0.95
115 6 0.04
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (113 bp):
TTAGCGGCGTTTTTAGAAAGCGCCGCTAATGCTCAGGGATTTAGCGGCGTTTTTGGGAAAGCGCC
GCAAGAAAAACTAAGCCAAACGACGCCGTTTCCTGTGCTTTCGAGGAA
Found at i:31024433 original size:155 final size:157
Alignment explanation
Indices: 31024133--31024446 Score: 438
Period size: 155 Copynumber: 2.0 Consensus size: 157
31024123 AGGAAGTGTT
* *
31024133 GCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAAACCTAAGCTCTACGA
1 GCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAAACCTAAGCCCAACGA
* * * * * *
31024198 CGTCGTTTTTTGAGCTTTTCGGGTGTTTAGTGGCGTTTTTAAGAAAGCGCCTCTAATGTTCAGGG
66 CGCCGTTTCTTGAGCTTTTCGGGTGATTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGG
*
31024263 CTTTAGCAGCATTTTTGAGAAAGCGCC
131 ATTTAGCAGCATTTTTGAGAAAGCGCC
* * *
31024290 GCTAATGCTCATGGCTTTAGCGGCGTTTTTGGGGAAGCGCCGC-AAAAAAACCTAAGCCCAACGA
1 GCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAAACCTAAGCCCAACGA
*
31024354 CGCCGTTTCCTT-AGC-TTTCGGG-GAATTAGCGGCGTTTTTCAGAAAGCGCCGCTAATGCTCAG
66 CGCCGTTT-CTTGAGCTTTTCGGGTG-ATTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAG
* * *
31024416 GGATTTAGCGGCGTTTTTGGGAAAGCGCC
129 GGATTTAGCAGCATTTTTGAGAAAGCGCC
31024445 GC
1 GC
31024447 AAGAAAAACT
Statistics
Matches: 139, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
154 1 0.01
155 67 0.48
156 29 0.21
157 42 0.30
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.28
Consensus pattern (157 bp):
GCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAAACCTAAGCCCAACGA
CGCCGTTTCTTGAGCTTTTCGGGTGATTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGG
ATTTAGCAGCATTTTTGAGAAAGCGCC
Found at i:31024826 original size:15 final size:15
Alignment explanation
Indices: 31024748--31024843 Score: 72
Period size: 15 Copynumber: 6.5 Consensus size: 15
31024738 GCTGGGGTAT
*
31024748 GGATTTA-GGGTTTG
1 GGATTTAGGGGTTAG
* *
31024762 GGATTTAAGGTTTAG
1 GGATTTAGGGGTTAG
* *
31024777 GG-GTTAGGTGTTA-
1 GGATTTAGGGGTTAG
* *
31024790 TGCTTTAGGGGTTAGGG
1 GGATTTAGGGGTTA--G
*
31024807 GGATTTGGGGGTTAG
1 GGATTTAGGGGTTAG
31024822 GGATTTAGGGGTTAG
1 GGATTTAGGGGTTAG
*
31024837 GGTTTTA
1 GGATTTA
31024844 ACTGTTAGGT
Statistics
Matches: 63, Mismatches: 14, Indels: 9
0.73 0.16 0.10
Matches are distributed among these distances:
13 1 0.02
14 23 0.37
15 28 0.44
17 11 0.17
ACGTcount: A:0.17, C:0.01, G:0.44, T:0.39
Consensus pattern (15 bp):
GGATTTAGGGGTTAG
Found at i:31025439 original size:109 final size:109
Alignment explanation
Indices: 31025321--31025556 Score: 427
Period size: 109 Copynumber: 2.2 Consensus size: 109
31025311 CTTTTCCGGT
*
31025321 GTTTTTCGTAAAAACGCCACAAAATATCATTTCATTTTGAACAAAACGACGTCGTTTTGTTATGC
1 GTTTTTCGTAAAAACGCCACAAAAAATCATTTCATTTTGAACAAAACGACGTCGTTTTGTTATGC
*
31025386 TAAAAATCATTTATTTTATCTACTAAAAATTATTAGTTTGCGGC
66 TAAAAATCATTTATTTTATCTACTAAAAATCATTAGTTTGCGGC
31025430 GTTTTTCGTAAAAACGCCACAAAAAATCATTTCATTTTGAACAAAACGACGTCGTTTTGTTATGC
1 GTTTTTCGTAAAAACGCCACAAAAAATCATTTCATTTTGAACAAAACGACGTCGTTTTGTTATGC
* * *
31025495 TAAAAATCTTTTATTTTATCTGCTAAAAATCATTAGTTTGTGGC
66 TAAAAATCATTTATTTTATCTACTAAAAATCATTAGTTTGCGGC
31025539 GTTTTTCGTAAAAACGCC
1 GTTTTTCGTAAAAACGCC
31025557 GCTATTGCTT
Statistics
Matches: 122, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
109 122 1.00
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (109 bp):
GTTTTTCGTAAAAACGCCACAAAAAATCATTTCATTTTGAACAAAACGACGTCGTTTTGTTATGC
TAAAAATCATTTATTTTATCTACTAAAAATCATTAGTTTGCGGC
Found at i:31025693 original size:149 final size:149
Alignment explanation
Indices: 31025422--31025705 Score: 505
Period size: 149 Copynumber: 1.9 Consensus size: 149
31025412 AAATTATTAG
*
31025422 TTTGCGGCGTTTTTCGTAAAAACGCCACAAAAAATCATTTCATTTTGAACAAAACGACGTCGTTT
1 TTTGCGGCGTTTTTCATAAAAACGCCACAAAAAATCATTTCATTTTGAACAAAACGACGTCGTTT
* * * *
31025487 TGTTATGCTAAAAATCTTTTATTTTATCTGCTAAAAATCATTAGTTTGTGGCGTTTTTCGTAAAA
66 TGTTATGCTAAAAAACCTTTATTTTATCTGCTAAAAATCATTAGTTTGCGGCCTTTTTCGTAAAA
31025552 ACGCCGCTATTGCTTACCT
131 ACGCCGCTATTGCTTACCT
*
31025571 TTTGCGGCGTTTTTCATAAAAACGCCACAAAAAATCATTTCATTTTGAACAAAACGATGTCGTTT
1 TTTGCGGCGTTTTTCATAAAAACGCCACAAAAAATCATTTCATTTTGAACAAAACGACGTCGTTT
*
31025636 TGTTATGCTAAAAAACCTTTATTTTATCTGCTAAAAATTATTAGTTTGCGGCCTTTTTCGTAAAA
66 TGTTATGCTAAAAAACCTTTATTTTATCTGCTAAAAATCATTAGTTTGCGGCCTTTTTCGTAAAA
31025701 ACGCC
131 ACGCC
31025706 ACAAAAATTC
Statistics
Matches: 128, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
149 128 1.00
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (149 bp):
TTTGCGGCGTTTTTCATAAAAACGCCACAAAAAATCATTTCATTTTGAACAAAACGACGTCGTTT
TGTTATGCTAAAAAACCTTTATTTTATCTGCTAAAAATCATTAGTTTGCGGCCTTTTTCGTAAAA
ACGCCGCTATTGCTTACCT
Found at i:31025702 original size:109 final size:109
Alignment explanation
Indices: 31025571--31026031 Score: 825
Period size: 109 Copynumber: 4.2 Consensus size: 109
31025561 TTGCTTACCT
* *
31025571 TTTGCGGCGTTTTTCATAAAAACGCCACAAAAAATCATTTCATTTTGAACAAAACGATGTCGTTT
1 TTTGCGGCGTTTTTCGTAAAAACGCCACAAAAAATCATTTCATTTTGAACAAAACGACGTCGTTT
*
31025636 TGTTATGCTAAAAAACCTTTATTTTATCTGCTAAAAATTATTAG
66 TGTTATGCTAAAAATCCTTTATTTTATCTGCTAAAAATTATTAG
* *
31025680 TTTGCGGCCTTTTTCGTAAAAACGCCACAAAAATTCATTTCATTTTGAACAAAACGACGTCGTTT
1 TTTGCGGCGTTTTTCGTAAAAACGCCACAAAAAATCATTTCATTTTGAACAAAACGACGTCGTTT
*
31025745 TGTTATGCTAAAAAGCCTTTATTTTATCTGCTAAAAATTATTAG
66 TGTTATGCTAAAAATCCTTTATTTTATCTGCTAAAAATTATTAG
31025789 TTTGCGGCGTTTTTCGTAAAAACGCCACAAAAAATCATTTCATTTTGAACAAAACGACGTCGTTT
1 TTTGCGGCGTTTTTCGTAAAAACGCCACAAAAAATCATTTCATTTTGAACAAAACGACGTCGTTT
* *
31025854 TGTTATGCTAAAAATCATTTATTTTATATGCTAAAAATTATTAG
66 TGTTATGCTAAAAATCCTTTATTTTATCTGCTAAAAATTATTAG
* *
31025898 TTTGCGGCGTTTTTCGTAAAAAAGCCACAAAAAATCATTTCATTTTGAACAAAATGACGTCGTTT
1 TTTGCGGCGTTTTTCGTAAAAACGCCACAAAAAATCATTTCATTTTGAACAAAACGACGTCGTTT
31025963 TGTTATGCTAAAAATCCTTTATTTTATCTGCTAAAAATTATTAG
66 TGTTATGCTAAAAATCCTTTATTTTATCTGCTAAAAATTATTAG
31026007 -TTGCGGCGTTTTTCGTAAAAACGCC
1 TTTGCGGCGTTTTTCGTAAAAACGCC
31026032 GCTATTGCTT
Statistics
Matches: 337, Mismatches: 15, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
108 24 0.07
109 313 0.93
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (109 bp):
TTTGCGGCGTTTTTCGTAAAAACGCCACAAAAAATCATTTCATTTTGAACAAAACGACGTCGTTT
TGTTATGCTAAAAATCCTTTATTTTATCTGCTAAAAATTATTAG
Found at i:31025755 original size:258 final size:258
Alignment explanation
Indices: 31025298--31025814 Score: 899
Period size: 258 Copynumber: 2.0 Consensus size: 258
31025288 AAAAACGGGA
* * *
31025298 CGCTATTACTTACCTTTTCCGGTGTTTTTCGTAAAAACGCCACAAAATATCATTTCATTTTGAAC
1 CGCTATTACTTACCTTTTCCGGCGTTTTTCATAAAAACGCCACAAAAAATCATTTCATTTTGAAC
*
31025363 AAAACGACGTCGTTTTGTTATGCTAAAAATCATTTATTTTATCTACTAAAAATTATTAGTTTGCG
66 AAAACGACGTCGTTTTGTTATGCTAAAAAACATTTATTTTATCTACTAAAAATTATTAGTTTGCG
*
31025428 GCGTTTTTCGTAAAAACGCCACAAAAAATCATTTCATTTTGAACAAAACGACGTCGTTTTGTTAT
131 GCCTTTTTCGTAAAAACGCCACAAAAAATCATTTCATTTTGAACAAAACGACGTCGTTTTGTTAT
* * *
31025493 GCTAAAAATCTTTTATTTTATCTGCTAAAAATCATTAGTTTGTGGCGTTTTTCGTAAAAACGC
196 GCTAAAAAGCCTTTATTTTATCTGCTAAAAATCATTAGTTTGCGGCGTTTTTCGTAAAAACGC
* *
31025556 CGCTATTGCTTACCTTTTGCGGCGTTTTTCATAAAAACGCCACAAAAAATCATTTCATTTTGAAC
1 CGCTATTACTTACCTTTTCCGGCGTTTTTCATAAAAACGCCACAAAAAATCATTTCATTTTGAAC
* * *
31025621 AAAACGATGTCGTTTTGTTATGCTAAAAAACCTTTATTTTATCTGCTAAAAATTATTAGTTTGCG
66 AAAACGACGTCGTTTTGTTATGCTAAAAAACATTTATTTTATCTACTAAAAATTATTAGTTTGCG
*
31025686 GCCTTTTTCGTAAAAACGCCACAAAAATTCATTTCATTTTGAACAAAACGACGTCGTTTTGTTAT
131 GCCTTTTTCGTAAAAACGCCACAAAAAATCATTTCATTTTGAACAAAACGACGTCGTTTTGTTAT
*
31025751 GCTAAAAAGCCTTTATTTTATCTGCTAAAAATTATTAGTTTGCGGCGTTTTTCGTAAAAACGC
196 GCTAAAAAGCCTTTATTTTATCTGCTAAAAATCATTAGTTTGCGGCGTTTTTCGTAAAAACGC
31025814 C
1 C
31025815 ACAAAAAATC
Statistics
Matches: 244, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
258 244 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (258 bp):
CGCTATTACTTACCTTTTCCGGCGTTTTTCATAAAAACGCCACAAAAAATCATTTCATTTTGAAC
AAAACGACGTCGTTTTGTTATGCTAAAAAACATTTATTTTATCTACTAAAAATTATTAGTTTGCG
GCCTTTTTCGTAAAAACGCCACAAAAAATCATTTCATTTTGAACAAAACGACGTCGTTTTGTTAT
GCTAAAAAGCCTTTATTTTATCTGCTAAAAATCATTAGTTTGCGGCGTTTTTCGTAAAAACGC
Found at i:31028489 original size:2 final size:2
Alignment explanation
Indices: 31028482--31028517 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
31028472 GATTGTCATA
31028482 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
31028518 GTTTTCTTGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:31029081 original size:42 final size:42
Alignment explanation
Indices: 31029024--31029339 Score: 436
Period size: 42 Copynumber: 7.7 Consensus size: 42
31029014 ATTTACAAAC
*
31029024 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
* *
31029066 AAAAAAGCCGCT--A-A--A-GTTCTTTAGCGGCGCTTTGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
* * *
31029102 AAAAACGCCGTTAAAGAACATGTTCTTTAGCGGTGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
* *
31029144 AAAAAGGCCTCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
*
31029186 AAAAACGCCGCTAAAGACAATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
** *
31029228 AAAAA---AACTAAAGACCATGTTCTTTAGCGGCGCTTAGGGA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTA-GAA
31029268 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAG-A
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
*
31029309 AAAAACGCCGCTAAAGATCATGTTCTTTAGC
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGC
31029340 AGCGTTTATT
Statistics
Matches: 243, Mismatches: 21, Indels: 21
0.85 0.07 0.07
Matches are distributed among these distances:
36 30 0.12
37 1 0.00
38 1 0.00
39 30 0.12
40 8 0.03
41 32 0.13
42 112 0.46
43 29 0.12
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
Found at i:31029322 original size:123 final size:125
Alignment explanation
Indices: 31029024--31029339 Score: 445
Period size: 123 Copynumber: 2.6 Consensus size: 125
31029014 ATTTACAAAC
* *
31029024 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAAAGCCGCT----A-AA-GT
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACAATGT
* ** *
31029083 TCTTTAGCGGCGCTTTGAAAAAAACGCCGTTAAAGAACATGTTCTTTAGCGGTGCTTAGAA
66 TCTTTAGCGGCGCTTAGAAAAAAACAACG-TAAAGAACATGTTCTTTAGCGGCGCTTAGAA
* *
31029144 AAAAAGGCCTCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACAATGT
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACAATGT
* *
31029209 TCTTTAGCGGCGCTTAGAAAAAAA-AAC-TAAAGACCATGTTCTTTAGCGGCGCTTAGGGA
66 TCTTTAGCGGCGCTTAGAAAAAAACAACGTAAAGAACATGTTCTTTAGCGGCGCTTA-GAA
31029268 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAG-AAAAAACGCCGCTAAAGATC-ATG
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGA-CAATG
31029331 TTCTTTAGC
65 TTCTTTAGC
31029340 AGCGTTTATT
Statistics
Matches: 176, Mismatches: 12, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
120 50 0.28
123 56 0.32
124 42 0.24
125 3 0.02
126 25 0.14
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (125 bp):
AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACAATGT
TCTTTAGCGGCGCTTAGAAAAAAACAACGTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
Found at i:31029367 original size:165 final size:162
Alignment explanation
Indices: 31029024--31029343 Score: 448
Period size: 165 Copynumber: 2.0 Consensus size: 162
31029014 ATTTACAAAC
* *
31029024 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAAAGCCGCTAAAGTTCTTTA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAAAACAGCTAAAGTTCTTTA
* * * * *
31029089 GCGGCGCTTTGAAAAAAACGCCGTTAAAGAACATGTTCTTTAGCGGTGCTTAGAAAAAAAGGCCT
66 GCGGCGCTTGGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCG
*
31029154 CTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
131 CTAAAGACCATGTTCTTTAGCAGCGCTTAGAA
* *
31029186 AAAAACGCCGCTAAAGA-CAATGTTCTTTAGCGGCGCTTAGAAAAAAAAACTAAAGAC-CATGTT
1 AAAAACGCCGCTAAAGATC-ATGTTCTTTAGCGGCGCTTAGAAAAAAAAAC---AG-CTAAAGTT
* *
31029249 CTTTAGCGGCGCTTAGGGAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAG-AAAAA
61 CTTTAGCGGCGCTT-GGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAAAAA
*
31029313 ACGCCGCTAAAGATCATGTTCTTTAGCAGCG
125 ACGCCGCTAAAGACCATGTTCTTTAGCAGCG
31029344 TTTATTCTTA
Statistics
Matches: 139, Mismatches: 13, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
161 1 0.01
162 47 0.34
165 51 0.37
166 40 0.29
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.23
Consensus pattern (162 bp):
AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAAAACAGCTAAAGTTCTTTA
GCGGCGCTTGGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCG
CTAAAGACCATGTTCTTTAGCAGCGCTTAGAA
Found at i:31030232 original size:28 final size:28
Alignment explanation
Indices: 31030178--31030235 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
31030168 CAAAAAAGCC
* * *
31030178 TTATTTGAAAATATTGACTGTATATATA
1 TTATTTGAAAATACTGACTATACATATA
* *
31030206 TTATTTGAAAATGCTGATTATACATATA
1 TTATTTGAAAATACTGACTATACATATA
31030234 TT
1 TT
31030236 TGAAACATAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.47
Consensus pattern (28 bp):
TTATTTGAAAATACTGACTATACATATA
Found at i:31033186 original size:24 final size:24
Alignment explanation
Indices: 31033141--31033187 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
31033131 TATATATATC
31033141 AATTCAATCAATATAAATTCAATA
1 AATTCAATCAATATAAATTCAATA
31033165 AATTC-ATCACATACTAAA-TCAAT
1 AATTCAATCA-ATA-TAAATTCAAT
31033188 CTATTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (24 bp):
AATTCAATCAATATAAATTCAATA
Found at i:31047816 original size:28 final size:28
Alignment explanation
Indices: 31047784--31047839 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
31047774 TCAAAATAAG
* *
31047784 CCAAAATAAGTGATTAAACTTAACACAC
1 CCAAAATAAGTGACTAAACTCAACACAC
31047812 CCAAAATAAGTGACTAAACTCAACACAC
1 CCAAAATAAGTGACTAAACTCAACACAC
31047840 TACATATAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.50, C:0.25, G:0.07, T:0.18
Consensus pattern (28 bp):
CCAAAATAAGTGACTAAACTCAACACAC
Found at i:31048800 original size:33 final size:32
Alignment explanation
Indices: 31048763--31048909 Score: 96
Period size: 33 Copynumber: 4.4 Consensus size: 32
31048753 ATAACTCAAT
31048763 TATGGTCTTATCATTAGAATGCCATAGCCCAGC
1 TATGGTCTTA-CATTAGAATGCCATAGCCCAGC
* * * * * *
31048796 TATGGTATTACATATAAACACTGTCATGGTCCAAC
1 TATGGTCTTACAT-TAGA-A-TGCCATAGCCCAGC
* * * * * * *
31048831 CATGGTCTTACGTTCATAGTGCCGTAACCCAGT
1 TATGGTCTTACATT-AGAATGCCATAGCCCAGC
* *
31048864 TATGGTCTTATCATCAGAATGTCATAGCCCAGC
1 TATGGTCTTA-CATTAGAATGCCATAGCCCAGC
*
31048897 TATGGTTTTACAT
1 TATGGTCTTACAT
31048910 ATAATCATCA
Statistics
Matches: 81, Mismatches: 28, Indels: 11
0.68 0.23 0.09
Matches are distributed among these distances:
32 6 0.07
33 49 0.60
34 4 0.05
35 22 0.27
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (32 bp):
TATGGTCTTACATTAGAATGCCATAGCCCAGC
Found at i:31053469 original size:24 final size:25
Alignment explanation
Indices: 31053428--31053474 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
31053418 AATATTAAAT
31053428 TTAATCTAATACTTAAGT-ATTATA
1 TTAATCTAATACTTAAGTGATTATA
*
31053452 TTAATTTAATA-TTAAAGTGATTA
1 TTAATCTAATACTT-AAGTGATTA
31053475 AGTTTGATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 2 0.10
24 14 0.70
25 4 0.20
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (25 bp):
TTAATCTAATACTTAAGTGATTATA
Found at i:31062022 original size:18 final size:18
Alignment explanation
Indices: 31061982--31062038 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
31061972 GAATTATATA
* *
31061982 TTAAATATATATTTTTATT
1 TTAAATAAATATATTT-TT
*
31062001 TTTAATCAAATATATTTTT
1 TTAAAT-AAATATATTTTT
*
31062020 TTAAATATATATATTTTT
1 TTAAATAAATATATTTTT
31062038 T
1 T
31062039 AGACTTTTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
18 12 0.38
19 12 0.38
20 8 0.25
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (18 bp):
TTAAATAAATATATTTTT
Found at i:31062025 original size:38 final size:38
Alignment explanation
Indices: 31061982--31062116 Score: 157
Period size: 38 Copynumber: 3.4 Consensus size: 38
31061972 GAATTATATA
31061982 TTAAATATATATTTTTATTTTTAATCAAATATATTTTT
1 TTAAATATATATTTTTATTTTTAATCAAATATATTTTT
* * * *
31062020 TTAAATATATATATTTTTTAGACTTTTAATCCGAAT-TA-TATA
1 TT-AA-ATATATA-TTTTT--ATTTTTAAT-CAAATATATTTTT
31062062 TTAAATATATATTTTTATTTTTAATCAAATATATTTTT
1 TTAAATATATATTTTTATTTTTAATCAAATATATTTTT
31062100 TTAAATATATATATTTT
1 TTAAATATATAT-TTTT
31062117 TTAGACTTTT
Statistics
Matches: 80, Mismatches: 8, Indels: 17
0.76 0.08 0.16
Matches are distributed among these distances:
36 4 0.05
37 10 0.12
38 16 0.20
39 11 0.14
40 14 0.17
41 7 0.09
42 4 0.05
43 10 0.12
44 4 0.05
ACGTcount: A:0.38, C:0.04, G:0.01, T:0.57
Consensus pattern (38 bp):
TTAAATATATATTTTTATTTTTAATCAAATATATTTTT
Found at i:31062066 original size:42 final size:40
Alignment explanation
Indices: 31061970--31062160 Score: 164
Period size: 42 Copynumber: 4.8 Consensus size: 40
31061960 CCGGGCCGGC
*
31061970 CCGAATTATATATT-AA-ATATATA-TTTTTATTTTTAAT
1 CCGAATTATATATTAAATATATATATTTTTTACTTTTAAT
* * *
31062007 -CAAATATATTTTTTTAAATATATATATTTTTTAGACTTTTAAT
1 CCGAAT-TA-TATATTAAATATATATATTTTTT--ACTTTTAAT
*
31062050 CCGAATTATATATT-AA-ATATATA-TTTTTATTTTTAAT
1 CCGAATTATATATTAAATATATATATTTTTTACTTTTAAT
* * *
31062087 -CAAATATATTTTTTTAAATATATATATTTTTTAGACTTTTAAT
1 CCGAAT-TA-TATATTAAATATATATATTTTTT--ACTTTTAAT
* *
31062130 CCGAATTATATATTAAATATTTTTATTTTTT
1 CCGAATTATATATTAAATATATATATTTTTT
31062161 TTATTTTTAA
Statistics
Matches: 121, Mismatches: 17, Indels: 27
0.73 0.10 0.16
Matches are distributed among these distances:
36 8 0.07
37 12 0.10
38 8 0.07
39 9 0.07
40 21 0.17
41 12 0.10
42 23 0.19
43 20 0.17
44 8 0.07
ACGTcount: A:0.37, C:0.05, G:0.03, T:0.55
Consensus pattern (40 bp):
CCGAATTATATATTAAATATATATATTTTTTACTTTTAAT
Found at i:31062084 original size:80 final size:80
Alignment explanation
Indices: 31061970--31062176 Score: 360
Period size: 80 Copynumber: 2.5 Consensus size: 80
31061960 CCGGGCCGGC
31061970 CCGAATTATATATTAAATATATATTTTTATTTTTAATCAAATATATTTTTTTAAATATATATATT
1 CCGAATTATATATTAAATATATATTTTTATTTTTAATCAAATATATTTTTTTAAATATATATATT
31062035 TTTTAGACTTTTAAT
66 TTTTAGACTTTTAAT
31062050 CCGAATTATATATTAAATATATATTTTTATTTTTAATCAAATATATTTTTTTAAATATATATATT
1 CCGAATTATATATTAAATATATATTTTTATTTTTAATCAAATATATTTTTTTAAATATATATATT
31062115 TTTTAGACTTTTAAT
66 TTTTAGACTTTTAAT
*
31062130 CCGAATTATATATTAAATATTTTTATTTTTTTTATTTTTAATCAAAT
1 CCGAATTATATATTAAATA----TA-TATTTTTATTTTTAATCAAAT
31062177 GTGGGCCGGG
Statistics
Matches: 121, Mismatches: 1, Indels: 5
0.95 0.01 0.04
Matches are distributed among these distances:
80 99 0.82
84 2 0.02
85 20 0.17
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (80 bp):
CCGAATTATATATTAAATATATATTTTTATTTTTAATCAAATATATTTTTTTAAATATATATATT
TTTTAGACTTTTAAT
Found at i:31062102 original size:18 final size:18
Alignment explanation
Indices: 31062062--31062118 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
31062052 GAATTATATA
* *
31062062 TTAAATATATATTTTTATT
1 TTAAATAAATATATTT-TT
*
31062081 TTTAATCAAATATATTTTT
1 TTAAAT-AAATATATTTTT
*
31062100 TTAAATATATATATTTTT
1 TTAAATAAATATATTTTT
31062118 T
1 T
31062119 AGACTTTTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
18 12 0.38
19 12 0.38
20 8 0.25
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (18 bp):
TTAAATAAATATATTTTT
Found at i:31062524 original size:15 final size:16
Alignment explanation
Indices: 31062504--31062542 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
31062494 CTATCAAGCT
*
31062504 TTTTAAATTAG-ATTA
1 TTTTAAATTAGAATCA
*
31062519 TTTTAAATTTGAATCA
1 TTTTAAATTAGAATCA
31062535 TTTTAAAT
1 TTTTAAAT
31062543 ATTTTTTTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (16 bp):
TTTTAAATTAGAATCA
Found at i:31063679 original size:21 final size:21
Alignment explanation
Indices: 31063655--31063694 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
31063645 GATAGACTTA
31063655 TCCAACAATCAGGCCGAGTAT
1 TCCAACAATCAGGCCGAGTAT
* *
31063676 TCCATCAATCAGGCTGAGT
1 TCCAACAATCAGGCCGAGT
31063695 TGAAGCCCGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.23
Consensus pattern (21 bp):
TCCAACAATCAGGCCGAGTAT
Found at i:31064640 original size:11 final size:11
Alignment explanation
Indices: 31064610--31064670 Score: 56
Period size: 10 Copynumber: 5.6 Consensus size: 11
31064600 TCTAACATGA
31064610 ATAAATTTTTT
1 ATAAATTTTTT
*
31064621 A-AAAGTTTTT
1 ATAAATTTTTT
*
31064631 ATTAATTTTTT
1 ATAAATTTTTT
31064642 -TAAAATTTTTTT
1 AT-AAA-TTTTTT
*
31064654 ATTAA-TTTTT
1 ATAAATTTTTT
31064664 ATAAATT
1 ATAAATT
31064671 ATACGTGGAC
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
10 19 0.49
11 11 0.28
12 8 0.21
13 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
ATAAATTTTTT
Found at i:31064641 original size:12 final size:12
Alignment explanation
Indices: 31064626--31064663 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
31064616 TTTTTAAAAG
31064626 TTTTTATTAATT
1 TTTTTATTAATT
*
31064638 TTTTTA-AAATT
1 TTTTTATTAATT
31064649 TTTTTATTAATT
1 TTTTTATTAATT
31064661 TTT
1 TTT
31064664 ATAAATTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 10 0.43
12 13 0.57
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTATTAATT
Found at i:31064643 original size:22 final size:23
Alignment explanation
Indices: 31064615--31064668 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
31064605 CATGAATAAA
31064615 TTTTTTAAAA-GTTTTTATTAAT
1 TTTTTTAAAATGTTTTTATTAAT
*
31064637 TTTTTTAAAATTTTTTTATTAAT
1 TTTTTTAAAATGTTTTTATTAAT
*
31064660 TTTTATAAA
1 TTTTTTAAA
31064669 TTATACGTGG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 10 0.34
23 19 0.66
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (23 bp):
TTTTTTAAAATGTTTTTATTAAT
Found at i:31064669 original size:22 final size:21
Alignment explanation
Indices: 31064613--31064670 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 21
31064603 AACATGAATA
**
31064613 AATTTTTTAAAAGTTTTTATT
1 AATTTTTTAAATTTTTTTATT
31064634 AATTTTTTTAAAATTTTTTTATT
1 AA-TTTTTT-AAATTTTTTTATT
31064657 AATTTTTATAAATT
1 AATTTTT-TAAATT
31064671 ATACGTGGAC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 2 0.06
22 16 0.50
23 14 0.44
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (21 bp):
AATTTTTTAAATTTTTTTATT
Found at i:31073868 original size:3 final size:3
Alignment explanation
Indices: 31073854--31073887 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
31073844 TTTATCCTAT
* *
31073854 TTA TTG TTA TTA TTA ATA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
31073888 ATACGCCTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:31074188 original size:16 final size:16
Alignment explanation
Indices: 31074167--31074198 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
31074157 TTTTCTAATT
*
31074167 CATATACATTTTTTTA
1 CATATACATGTTTTTA
31074183 CATATACATGTTTTTA
1 CATATACATGTTTTTA
31074199 GAAATTATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.12, G:0.03, T:0.53
Consensus pattern (16 bp):
CATATACATGTTTTTA
Found at i:31077953 original size:20 final size:20
Alignment explanation
Indices: 31077920--31077959 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
31077910 ATTATCTCAT
31077920 GCATCACATCATATGCATTA
1 GCATCACATCATATGCATTA
* *
31077940 GCATCGCATTATATGCATTA
1 GCATCACATCATATGCATTA
31077960 TAGACCTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.33
Consensus pattern (20 bp):
GCATCACATCATATGCATTA
Found at i:31086097 original size:45 final size:45
Alignment explanation
Indices: 31086047--31086453 Score: 306
Period size: 45 Copynumber: 9.1 Consensus size: 45
31086037 TAAAAAGCAG
*
31086047 CAGATCTTGTCTTCCCATACTGGTGGCGTAA-CAGATCGAAGAGAA
1 CAGATCTTGTCTTCCCATACTGGTGGCG-AAGCAGATCGAAGAAAA
*** * * * * * *
31086092 CAGATCTTGTCTTCATGTACTGG-AGTGAAGTAGATCAAAGATAC
1 CAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAA
*
31086136 CAGATCTTATCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAA
1 CAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAA
*** * * * * * *
31086181 CAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGATAC
1 CAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAA
* * *
31086225 CAGATCTTGTATTCCCAAACTGGTGGCGAACCAGATCGAAGAAAA
1 CAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAA
* *** * * * * *
31086270 CAAATCTTGTCTTCATGTACTGGCGTGC--AGTAGATCAAAGATAC
1 CAGATCTTGTCTTCCCATACTGGTG-GCGAAGCAGATCGAAGAAAA
31086314 CAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAA
1 CAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAA
* *** * * * * * *
31086359 CATATCTTGTCTTCATGTA-TCGG-CGTGAAGTAGATCAAATACAA
1 CAGATCTTGTCTTCCCATACT-GGTGGCGAAGCAGATCGAAGAAAA
* * * * * *
31086403 CAGATATTGTCTCCCCATACTGGTGGTGGAGTAGATCGAAGAAAG
1 CAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAA
31086448 CAGATC
1 CAGATC
31086454 GAAGATGGCG
Statistics
Matches: 268, Mismatches: 85, Indels: 18
0.72 0.23 0.05
Matches are distributed among these distances:
43 4 0.01
44 126 0.47
45 136 0.51
46 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (45 bp):
CAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAA
Found at i:31086142 original size:44 final size:44
Alignment explanation
Indices: 31086079--31086414 Score: 269
Period size: 44 Copynumber: 7.6 Consensus size: 44
31086069 GTGGCGTAAC
* * *
31086079 AGATCGAAGAGAACAGATCTTGTCTTCATGTACTGGAGTGAAGT
1 AGATCAAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGT
* * * *** * * *
31086123 AGATCAAAGATACCAGATCTTATCTTCCCATACTGGTGGCGAAGC
1 AGATCAAAGAAAACAGATCTTGTCTTCATGTACTGG-CGTGAAGT
*
31086168 AGATCGAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGT
1 AGATCAAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGT
* * * **** * * **
31086212 AGATCAAAGATACCAGATCTTGTATTCCCAAACTGGTGGCGAACC
1 AGATCAAAGAAAACAGATCTTGTCTTCATGTACTGG-CGTGAAGT
* * *
31086257 AGATCGAAGAAAACAAATCTTGTCTTCATGTACTGGCGTGCAGT
1 AGATCAAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGT
* * *** * * *
31086301 AGATCAAAGATACCAGATCTTGTCTTCCCATACTGGTGGCGAAGC
1 AGATCAAAGAAAACAGATCTTGTCTTCATGTACTGG-CGTGAAGT
* *
31086346 AGATCGAAGAAAACATATCTTGTCTTCATGTA-TCGGCGTGAAGT
1 AGATCAAAGAAAACAGATCTTGTCTTCATGTACT-GGCGTGAAGT
* * *
31086390 AGATCAAATACAACAGATATTGTCT
1 AGATCAAAGAAAACAGATCTTGTCT
31086415 CCCCATACTG
Statistics
Matches: 216, Mismatches: 72, Indels: 8
0.73 0.24 0.03
Matches are distributed among these distances:
44 120 0.56
45 96 0.44
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.26
Consensus pattern (44 bp):
AGATCAAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGT
Found at i:31086150 original size:89 final size:89
Alignment explanation
Indices: 31086047--31086453 Score: 620
Period size: 89 Copynumber: 4.6 Consensus size: 89
31086037 TAAAAAGCAG
*
31086047 CAGATCTTGTCTTCCCATACTGGTGGCGTAA-CAGATCGAAGAGAACAGATCTTGTCTTCATGTA
1 CAGATCTTGTCTTCCCATACTGGTGGCG-AAGCAGATCGAAGAAAACAGATCTTGTCTTCATGTA
*
31086111 CTGGAGTGAAGTAGATCAAAGATAC
65 CTGGCGTGAAGTAGATCAAAGATAC
*
31086136 CAGATCTTATCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAACAGATCTTGTCTTCATGTAC
1 CAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAACAGATCTTGTCTTCATGTAC
31086201 TGGCGTGAAGTAGATCAAAGATAC
66 TGGCGTGAAGTAGATCAAAGATAC
* * * *
31086225 CAGATCTTGTATTCCCAAACTGGTGGCGAACCAGATCGAAGAAAACAAATCTTGTCTTCATGTAC
1 CAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAACAGATCTTGTCTTCATGTAC
*
31086290 TGGCGTGCAGTAGATCAAAGATAC
66 TGGCGTGAAGTAGATCAAAGATAC
*
31086314 CAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAACATATCTTGTCTTCATGTA-
1 CAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAACAGATCTTGTCTTCATGTAC
* * *
31086378 TCGGCGTGAAGTAGATCAAATACAA
66 T-GGCGTGAAGTAGATCAAAGATAC
* * * * * *
31086403 CAGATATTGTCTCCCCATACTGGTGGTGGAGTAGATCGAAGAAAGCAGATC
1 CAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAACAGATC
31086454 GAAGATGGCG
Statistics
Matches: 292, Mismatches: 24, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
88 3 0.01
89 289 0.99
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (89 bp):
CAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAACAGATCTTGTCTTCATGTAC
TGGCGTGAAGTAGATCAAAGATAC
Found at i:31088094 original size:3 final size:3
Alignment explanation
Indices: 31088080--31088116 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
31088070 TTTATCCTAT
* *
31088080 TTA TTG TTA TTA TTA ATA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
31088117 ATACGCCTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:31088417 original size:16 final size:16
Alignment explanation
Indices: 31088396--31088427 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
31088386 TTTTCTAATT
*
31088396 CATATACATTTTTTTA
1 CATATACATGTTTTTA
31088412 CATATACATGTTTTTA
1 CATATACATGTTTTTA
31088428 GAAATTATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.12, G:0.03, T:0.53
Consensus pattern (16 bp):
CATATACATGTTTTTA
Found at i:31090996 original size:20 final size:20
Alignment explanation
Indices: 31090968--31091006 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
31090958 TAAAGGTCTA
*
31090968 TAATGCATATAATGCGATGC
1 TAATACATATAATGCGATGC
*
31090988 TAATACATATGATGCGATG
1 TAATACATATAATGCGATG
31091007 TATGAGATGA
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:0.36, C:0.13, G:0.21, T:0.31
Consensus pattern (20 bp):
TAATACATATAATGCGATGC
Found at i:31094349 original size:3 final size:3
Alignment explanation
Indices: 31094324--31094374 Score: 68
Period size: 3 Copynumber: 17.0 Consensus size: 3
31094314 GAATATACGT
* *
31094324 TAA TAA TAG TAA TGA TGAA -AA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA
31094369 TAA TAA
1 TAA TAA
31094375 CAGTAATAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 39 0.93
4 1 0.02
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:31095408 original size:44 final size:44
Alignment explanation
Indices: 31095347--31095506 Score: 187
Period size: 44 Copynumber: 3.6 Consensus size: 44
31095337 GACCGAACCC
*
31095347 AGATCGAAGA-AAGCAGATCTTGTCTTCATGTACTGGTGTGAAGT
1 AGATCAAAGATAA-CAGATCTTGTCTTCATGTACTGGTGTGAAGT
* *** **
31095391 AGATCAAAGATAACAGATCTTGTTTTCCCATACTGGTGGTGAAAC
1 AGATCAAAGATAACAGATCTTGTCTTCATGTACTGGT-GTGAAGT
* * * *
31095436 AGATCGAAGAAAATAGATCTTGTCTTCATGTACTGGCGTGAAGT
1 AGATCAAAGATAACAGATCTTGTCTTCATGTACTGGTGTGAAGT
*
31095480 AGATCAAAGGTAACAGATCTTGTCTTC
1 AGATCAAAGATAACAGATCTTGTCTTC
31095507 CCATACTGGT
Statistics
Matches: 93, Mismatches: 21, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
44 57 0.61
45 36 0.39
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (44 bp):
AGATCAAAGATAACAGATCTTGTCTTCATGTACTGGTGTGAAGT
Found at i:31095497 original size:89 final size:89
Alignment explanation
Indices: 31095346--31095526 Score: 308
Period size: 89 Copynumber: 2.0 Consensus size: 89
31095336 GGACCGAACC
* *
31095346 CAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGGTGTGAAGTAGATCAAAGATAACAGATCT
1 CAGATCGAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCT
* *
31095411 TGTTTTCCCATACTGGTGGTGAAA
66 TGTCTTCCCATACTGGTGGCGAAA
* *
31095435 CAGATCGAAGAAAATAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGGTAACAGATCT
1 CAGATCGAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCT
31095500 TGTCTTCCCATACTGGTGGCGAAA
66 TGTCTTCCCATACTGGTGGCGAAA
31095524 CAG
1 CAG
31095527 GGAATAGACG
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
89 86 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (89 bp):
CAGATCGAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCT
TGTCTTCCCATACTGGTGGCGAAA
Found at i:31096406 original size:89 final size:89
Alignment explanation
Indices: 31096255--31096750 Score: 805
Period size: 89 Copynumber: 5.6 Consensus size: 89
31096245 TGAAAAGCAG
* *
31096255 CAGATCTTGTCTTCCCATACTGTTGGCGAAGCAGATCGAAGAAAACAAATCTTGTCTTCATGTAC
1 CAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAACAGATCTTGTCTTCATGTAC
*
31096320 TGGCGTGAAGTAGATCAAAGATAC
66 TGGCGTGAAGTAGATCAAAAATAC
31096344 CAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAACAGATCTTGTCTTCATGTAC
1 CAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAACAGATCTTGTCTTCATGTAC
*
31096409 TGGCGTGAAGTAGATCAAAGATAC
66 TGGCGTGAAGTAGATCAAAAATAC
*
31096433 CAGATCTTGTCTTTCCATACTGGTGGCGAAGCAGATCGAAGAAAACAGATCTTGTCTTCATGTAC
1 CAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAACAGATCTTGTCTTCATGTAC
*
31096498 TGGCGAGAAGTAGATCAAAAATAC
66 TGGCGTGAAGTAGATCAAAAATAC
*
31096522 CAGATCTTATCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAACAGATCTTGTCTTCATGTAC
1 CAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAACAGATCTTGTCTTCATGTAC
*
31096587 TGGCGAGAAGTAGATCAAAAATAC
66 TGGCGTGAAGTAGATCAAAAATAC
*
31096611 CAGATCTTATCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAACAGATCTTGTCTTCATGTA-
1 CAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAACAGATCTTGTCTTCATGTAC
* * * *
31096675 TCGGTGTGAAGTAGATCAAATACAA
66 T-GGCGTGAAGTAGATCAAAAATAC
* * * * * *
31096700 CAGATATTGTCTCCCCATACTGGTGGTGGAGTAGATCGAAGAAAGCAGATC
1 CAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAACAGATC
31096751 GAAGATGGCG
Statistics
Matches: 387, Mismatches: 19, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
88 1 0.00
89 386 1.00
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.26
Consensus pattern (89 bp):
CAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAACAGATCTTGTCTTCATGTAC
TGGCGTGAAGTAGATCAAAAATAC
Found at i:31097781 original size:10 final size:10
Alignment explanation
Indices: 31097749--31097791 Score: 50
Period size: 10 Copynumber: 4.0 Consensus size: 10
31097739 GGTGATTTGC
31097749 GTTTTATTTT
1 GTTTTATTTT
31097759 GTCTGTCTATTTT
1 GT-T-T-TATTTT
31097772 GTTTTATTTT
1 GTTTTATTTT
*
31097782 ATTTTATTTT
1 GTTTTATTTT
31097792 ATCAAAAACA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
10 17 0.59
11 2 0.07
12 2 0.07
13 8 0.28
ACGTcount: A:0.12, C:0.05, G:0.09, T:0.74
Consensus pattern (10 bp):
GTTTTATTTT
Found at i:31098396 original size:3 final size:3
Alignment explanation
Indices: 31098382--31098418 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
31098372 TTTATCCTAT
* *
31098382 TTA TTG TTA TTA TTA ATA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
31098419 ATACGCCTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:31107062 original size:30 final size:30
Alignment explanation
Indices: 31107007--31107063 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
31106997 ATGGGCTAGC
* *
31107007 ACATGGGCGTGTGTCCAGACTGTGTGGCTT
1 ACATGGGCGTGTGCCCAGACAGTGTGGCTT
**
31107037 ACATGGGCGTGTGCCCATCCAGTGTGG
1 ACATGGGCGTGTGCCCAGACAGTGTGG
31107064 AAATGCCCAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.14, C:0.23, G:0.37, T:0.26
Consensus pattern (30 bp):
ACATGGGCGTGTGCCCAGACAGTGTGGCTT
Found at i:31113983 original size:16 final size:16
Alignment explanation
Indices: 31113952--31113992 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
31113942 CGAATTCAAC
*
31113952 TTTAAAGTTTAAATAAT
1 TTTAAA-TTCAAATAAT
31113969 TTTAAATTCAAATAAT
1 TTTAAATTCAAATAAT
*
31113985 TATAAATT
1 TTTAAATT
31113993 TAGATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 16 0.73
17 6 0.27
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (16 bp):
TTTAAATTCAAATAAT
Found at i:31115302 original size:20 final size:19
Alignment explanation
Indices: 31115259--31115307 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
31115249 GAAGAGAATG
*
31115259 GAAAATAAAAAGAAAAAAA
1 GAAAATTAAAAGAAAAAAA
*
31115278 GAAAAGTTAAAAGAACATAAA
1 GAAAA-TTAAAAGAA-AAAAA
31115299 -AAAATTAAA
1 GAAAATTAAA
31115308 TTGCTCAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 10 0.38
20 12 0.46
21 4 0.15
ACGTcount: A:0.76, C:0.02, G:0.10, T:0.12
Consensus pattern (19 bp):
GAAAATTAAAAGAAAAAAA
Found at i:31118884 original size:30 final size:30
Alignment explanation
Indices: 31118795--31118884 Score: 74
Period size: 30 Copynumber: 3.0 Consensus size: 30
31118785 AAGTTTGAGG
* * * *
31118795 ATCAAATTGATAGAATTTGTAAATATGAAT
1 ATCAAATTGATAAAATATGTAAGTATTAAT
* * * * *
31118825 AGTTAAATTTATTAAATTAT-TTAGAATTAAT
1 A-TCAAATTGA-TAAAATATGTAAGTATTAAT
31118856 ATCAAATTGATAAAATATGTAAGTATTAA
1 ATCAAATTGATAAAATATGTAAGTATTAA
31118885 GGACCAAATG
Statistics
Matches: 43, Mismatches: 14, Indels: 6
0.68 0.22 0.10
Matches are distributed among these distances:
29 7 0.16
30 16 0.37
31 15 0.35
32 5 0.12
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (30 bp):
ATCAAATTGATAAAATATGTAAGTATTAAT
Found at i:31120586 original size:12 final size:12
Alignment explanation
Indices: 31120571--31120611 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
31120561 TACTTTATGT
31120571 TTTTTTTTATAA
1 TTTTTTTTATAA
31120583 TTTTTTTTA-ATA
1 TTTTTTTTATA-A
*
31120595 TTTGTTTTATAA
1 TTTTTTTTATAA
31120607 TTTTT
1 TTTTT
31120612 AAATTATTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
11 1 0.04
12 23 0.92
13 1 0.04
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (12 bp):
TTTTTTTTATAA
Found at i:31120619 original size:23 final size:23
Alignment explanation
Indices: 31120575--31120622 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 23
31120565 TTATGTTTTT
*
31120575 TTTTATAATTTTTTTTAATATTTG
1 TTTTATAA-TTTTTTAAATATTTG
31120599 TTTTATAA-TTTTTAAATTATTTG
1 TTTTATAATTTTTTAAA-TATTTG
31120622 T
1 T
31120623 CGACGTGACA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 7 0.32
23 7 0.32
24 8 0.36
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (23 bp):
TTTTATAATTTTTTAAATATTTG
Found at i:31121146 original size:61 final size:61
Alignment explanation
Indices: 31121073--31121204 Score: 144
Period size: 60 Copynumber: 2.2 Consensus size: 61
31121063 CAATATGGTC
* * *
31121073 CTAAATCT-AAAAATTCAACAAATTCAGCCCTCAA-TGTTTATAAAATTTGTC-ATTTAATT
1 CTAATTCTAAAAAAATCAACAAATTCAGCCCTCAACT-TTTACAAAATTTGTCAATTTAATT
* * * * * *
31121132 CTAATTCTAAAAAAATCAATAAATTTAGCCTTGAACTTTTACAGAATTTTTCAATTTAATT
1 CTAATTCTAAAAAAATCAACAAATTCAGCCCTCAACTTTTACAAAATTTGTCAATTTAATT
*
31121193 CTAATTTTAAAA
1 CTAATTCTAAAA
31121205 GTAAAAAAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
59 7 0.12
60 33 0.55
61 20 0.33
ACGTcount: A:0.42, C:0.14, G:0.05, T:0.39
Consensus pattern (61 bp):
CTAATTCTAAAAAAATCAACAAATTCAGCCCTCAACTTTTACAAAATTTGTCAATTTAATT
Found at i:31127218 original size:13 final size:13
Alignment explanation
Indices: 31127200--31127225 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
31127190 GCAACAAGAC
31127200 AAATAATATCATA
1 AAATAATATCATA
31127213 AAATAATATCATA
1 AAATAATATCATA
31127226 CCCCTGCAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
AAATAATATCATA
Found at i:31142980 original size:13 final size:13
Alignment explanation
Indices: 31142962--31142986 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31142952 TAATTTATGT
31142962 GTGTGAAAATTTC
1 GTGTGAAAATTTC
31142975 GTGTGAAAATTT
1 GTGTGAAAATTT
31142987 TATCGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:31144155 original size:44 final size:43
Alignment explanation
Indices: 31144101--31144221 Score: 126
Period size: 44 Copynumber: 2.8 Consensus size: 43
31144091 CCGATATGTT
*
31144101 ATTT-CGTGTAAGACCACGTCTGGGACATTGGCATCGA-ATTGAG
1 ATTTACGTGTAAGACC-CGTCTGGGACAGTGGCATCGATATT-AG
* *
31144144 ATTTACGTGTAAGACCCTGTCTAGGACAGTGGCATCGATATTTG
1 ATTTACGTGTAAGACCC-GTCTGGGACAGTGGCATCGATATTAG
31144188 A-TTA-GATGTAAGACCTCGTCTGGGAC-GTAGGCAT
1 ATTTACG-TGTAAGACC-CGTCTGGGACAGT-GGCAT
31144222 TGTACAAGCT
Statistics
Matches: 68, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
42 3 0.04
43 30 0.44
44 32 0.47
45 3 0.04
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (43 bp):
ATTTACGTGTAAGACCCGTCTGGGACAGTGGCATCGATATTAG
Found at i:31147705 original size:21 final size:22
Alignment explanation
Indices: 31147667--31147722 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 22
31147657 CCGGCCCATT
* **
31147667 TTTTAATAAATATCAAAAATTTA
1 TTTTAA-AAATATAAAAAAAGTA
31147690 TTTTAAAAAT-TAAAAAAAGTA
1 TTTTAAAAATATAAAAAAAGTA
31147711 TTTTAAAAATAT
1 TTTTAAAAATAT
31147723 TTTTAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 18 0.62
22 5 0.17
23 6 0.21
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (22 bp):
TTTTAAAAATATAAAAAAAGTA
Found at i:31147759 original size:21 final size:22
Alignment explanation
Indices: 31147719--31147774 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 22
31147709 TATTTTAAAA
** *
31147719 ATATTTTTAAAATACTTTTTTT
1 ATATTTTTAAAATAAATTTTTG
31147741 A-ATTTTTAAAATAAATTTTTG
1 ATATTTTTAAAATAAATTTTTG
31147762 ATATTTATTAAAA
1 ATATTT-TTAAAA
31147775 AATGGGCCGG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 18 0.62
22 5 0.17
23 6 0.21
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (22 bp):
ATATTTTTAAAATAAATTTTTG
Found at i:31148432 original size:13 final size:13
Alignment explanation
Indices: 31148400--31148424 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31148390 AAATTTTGAA
31148400 AACAAATCTCTCC
1 AACAAATCTCTCC
31148413 AACAAATCTCTC
1 AACAAATCTCTC
31148425 AGTCAAATGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.36, G:0.00, T:0.24
Consensus pattern (13 bp):
AACAAATCTCTCC
Found at i:31154970 original size:12 final size:13
Alignment explanation
Indices: 31154953--31154986 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
31154943 CAATTACTTC
31154953 AAAAGAAAA-CTA
1 AAAAGAAAACCTA
31154965 AAAAGAAAACCTA
1 AAAAGAAAACCTA
*
31154978 AAAATAAAA
1 AAAAGAAAA
31154987 ATCAATGTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.76, C:0.09, G:0.06, T:0.09
Consensus pattern (13 bp):
AAAAGAAAACCTA
Found at i:31156966 original size:422 final size:422
Alignment explanation
Indices: 31156182--31157026 Score: 1690
Period size: 422 Copynumber: 2.0 Consensus size: 422
31156172 GTTAGATCGG
31156182 ATCAGACACATCACACTATCACAGATTTATATGGCATGTATTTCTAAACATTTTATACACTACGT
1 ATCAGACACATCACACTATCACAGATTTATATGGCATGTATTTCTAAACATTTTATACACTACGT
31156247 TCATTCCGAGAATTGACTAAACCGAAGCTCTAATACCAATAAATGTAGCACCCTAACCCAAATCC
66 TCATTCCGAGAATTGACTAAACCGAAGCTCTAATACCAATAAATGTAGCACCCTAACCCAAATCC
31156312 ATCGCTGGAACAGGGTTATGGAGTATTACCAGGGATTATGGAACAGATAATAGATATTTTATGAC
131 ATCGCTGGAACAGGGTTATGGAGTATTACCAGGGATTATGGAACAGATAATAGATATTTTATGAC
31156377 ATACAATGTTCATATCATAATTCAATTATTAAGTCCCTTATAAGAGCCCTCGAAGCTAAAAATAC
196 ATACAATGTTCATATCATAATTCAATTATTAAGTCCCTTATAAGAGCCCTCGAAGCTAAAAATAC
31156442 ACATTAGAATCGATTCGGGAATAAATCGGGAACTCAGAGAATTTTTCGAAAAATCTAAAAAAGTT
261 ACATTAGAATCGATTCGGGAATAAATCGGGAACTCAGAGAATTTTTCGAAAAATCTAAAAAAGTT
31156507 TCCAAGGTGTAGGGGACACATGCTCGTGTAGCCAGGCCGTATGTCGCACACGGTCGAGAGATACG
326 TCCAAGGTGTAGGGGACACATGCTCGTGTAGCCAGGCCGTATGTCGCACACGGTCGAGAGATACG
31156572 CCTTTGTCTCAGGCTGTGCAGGTATTCAAAGT
391 CCTTTGTCTCAGGCTGTGCAGGTATTCAAAGT
31156604 ATCAGACACATCACACTATCACAGATTTATATGGCATGTATTTCTAAACATTTTATACACTACGT
1 ATCAGACACATCACACTATCACAGATTTATATGGCATGTATTTCTAAACATTTTATACACTACGT
31156669 TCATTCCGAGAATTGACTAAACCGAAGCTCTAATACCAATAAATGTAGCACCCTAACCCAAATCC
66 TCATTCCGAGAATTGACTAAACCGAAGCTCTAATACCAATAAATGTAGCACCCTAACCCAAATCC
31156734 ATCGCTGGAACAGGGTTATGGAGTATTACCAGGGATTATGGAACAGATAATAGATATTTTATGAC
131 ATCGCTGGAACAGGGTTATGGAGTATTACCAGGGATTATGGAACAGATAATAGATATTTTATGAC
31156799 ATACAATGTTCATATCATAATTCAATTATTAAGTCCCTTATAAGAGCCCTCGAAGCTAAAAATAC
196 ATACAATGTTCATATCATAATTCAATTATTAAGTCCCTTATAAGAGCCCTCGAAGCTAAAAATAC
31156864 ACATTAGAATCGATTCGGGAATAAATCGGGAACTCAGAGAATTTTTCGAAAAATCTAAAAAAGTT
261 ACATTAGAATCGATTCGGGAATAAATCGGGAACTCAGAGAATTTTTCGAAAAATCTAAAAAAGTT
31156929 TCCAAGGTGTAGGGGACACATGCTCGTGTAGCCAGGCCGTATGTCGCACACGGTCGAGAGATACG
326 TCCAAGGTGTAGGGGACACATGCTCGTGTAGCCAGGCCGTATGTCGCACACGGTCGAGAGATACG
31156994 CCTTTGTCTCAGGCTGTGCAGGTATTCAAAGT
391 CCTTTGTCTCAGGCTGTGCAGGTATTCAAAGT
31157026 A
1 A
31157027 GGGACACACG
Statistics
Matches: 423, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
422 423 1.00
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.27
Consensus pattern (422 bp):
ATCAGACACATCACACTATCACAGATTTATATGGCATGTATTTCTAAACATTTTATACACTACGT
TCATTCCGAGAATTGACTAAACCGAAGCTCTAATACCAATAAATGTAGCACCCTAACCCAAATCC
ATCGCTGGAACAGGGTTATGGAGTATTACCAGGGATTATGGAACAGATAATAGATATTTTATGAC
ATACAATGTTCATATCATAATTCAATTATTAAGTCCCTTATAAGAGCCCTCGAAGCTAAAAATAC
ACATTAGAATCGATTCGGGAATAAATCGGGAACTCAGAGAATTTTTCGAAAAATCTAAAAAAGTT
TCCAAGGTGTAGGGGACACATGCTCGTGTAGCCAGGCCGTATGTCGCACACGGTCGAGAGATACG
CCTTTGTCTCAGGCTGTGCAGGTATTCAAAGT
Found at i:31158062 original size:42 final size:42
Alignment explanation
Indices: 31158006--31158102 Score: 104
Period size: 42 Copynumber: 2.3 Consensus size: 42
31157996 AGAAGCCCGG
* * *
31158006 AGGTTGCACAGAAGCACATAAGTGCTAAACAGAAACCCGTAA
1 AGGTTGAACAGAAGCACATAAGAGCTAAACAGAAACCCATAA
* * * * * *
31158048 GGGTTGAACGGAAGCTCATAGGAGCTGAACGGAAACCCATAA
1 AGGTTGAACAGAAGCACATAAGAGCTAAACAGAAACCCATAA
*
31158090 AGGTTAAACAGAA
1 AGGTTGAACAGAA
31158103 ACTCATATGA
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.41, C:0.19, G:0.26, T:0.14
Consensus pattern (42 bp):
AGGTTGAACAGAAGCACATAAGAGCTAAACAGAAACCCATAA
Found at i:31175637 original size:16 final size:16
Alignment explanation
Indices: 31175612--31175656 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
31175602 TACTTCACTA
* *
31175612 TAATGGAATAGGGTTG
1 TAATGAAATAGAGTTG
*
31175628 TAATGAAATACAGTTG
1 TAATGAAATAGAGTTG
*
31175644 TAATAAAATAGAG
1 TAATGAAATAGAG
31175657 CTATAATTAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.44, C:0.02, G:0.24, T:0.29
Consensus pattern (16 bp):
TAATGAAATAGAGTTG
Found at i:31176300 original size:14 final size:14
Alignment explanation
Indices: 31176281--31176310 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
31176271 ACGACTATAT
31176281 TGTAAAAGAATCTA
1 TGTAAAAGAATCTA
31176295 TGTAAAAGAATCTA
1 TGTAAAAGAATCTA
31176309 TG
1 TG
31176311 AGAGAATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.47, C:0.07, G:0.17, T:0.30
Consensus pattern (14 bp):
TGTAAAAGAATCTA
Found at i:31179821 original size:29 final size:30
Alignment explanation
Indices: 31179759--31179823 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
31179749 AGAAATTATT
* *
31179759 TTAAAATTTTAACAAAAACATTAAAAATGG
1 TTAAAATTATAACAAAAACATTAAAAATGA
* * *
31179789 TTAAAATTATAA-AAAAACCTTAAAATTTA
1 TTAAAATTATAACAAAAACATTAAAAATGA
31179818 TTAAAA
1 TTAAAA
31179824 ATTGTCAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 19 0.63
30 11 0.37
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.32
Consensus pattern (30 bp):
TTAAAATTATAACAAAAACATTAAAAATGA
Found at i:31182473 original size:4 final size:4
Alignment explanation
Indices: 31182464--31182489 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
31182454 TTGTATTCAT
31182464 ATAA ATAA ATAA ATAA ATAA ATAA AT
1 ATAA ATAA ATAA ATAA ATAA ATAA AT
31182490 GTGCGTACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
ATAA
Found at i:31193667 original size:18 final size:17
Alignment explanation
Indices: 31193639--31193673 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
31193629 NNNNNNNAGA
*
31193639 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
31193656 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
31193674 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:31193919 original size:45 final size:43
Alignment explanation
Indices: 31193819--31193928 Score: 120
Period size: 45 Copynumber: 2.6 Consensus size: 43
31193809 TTTTCCATTA
31193819 TGCTATTACACCTCTATTC----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCATTACATTCAACCAAACACAAGAT
* * ***
31193858 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATT-CATTACATTCAACCAAACACAAGA-T
31193903 TGCTATTACACCTCTATTACATTACA
1 TGCTATTACACCTCTATT-CATTACA
31193929 CCTCTAATCC
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 24 0.42
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.34
Consensus pattern (43 bp):
TGCTATTACACCTCTATTCATTACATTCAACCAAACACAAGAT
Found at i:31193953 original size:16 final size:16
Alignment explanation
Indices: 31193909--31193960 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
31193899 GATTTGCTAT
* * *
31193909 TACACCTCTATTACAT
1 TACACCTCTAATCCAA
31193925 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
31193941 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
31193957 TACA
1 TACA
31193961 GCGAACCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.37, C:0.35, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Done.