Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
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: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 108 of 206
Found at i:31940292 original size:23 final size:22
Alignment explanation
Indices: 31940248--31940292 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
31940238 ATAAAAAATC
*
31940248 TATTTAAAAAAAGGTCAAATTT
1 TATTTAAAAAAAGGTAAAATTT
31940270 TATTTAAAATAAAGG-AAATATTT
1 TATTTAAAA-AAAGGTAAA-ATTT
31940293 CCACTTTGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.38
Consensus pattern (22 bp):
TATTTAAAAAAAGGTAAAATTT
Found at i:31941126 original size:13 final size:13
Alignment explanation
Indices: 31941108--31941132 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31941098 AACATTCGGC
31941108 CGGTGGGAATAAT
1 CGGTGGGAATAAT
31941121 CGGTGGGAATAA
1 CGGTGGGAATAA
31941133 ACAAATAAAA
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:0.08, G:0.40, T:0.20
Consensus pattern (13 bp):
CGGTGGGAATAAT
Found at i:31942402 original size:6 final size:6
Alignment explanation
Indices: 31942385--31942433 Score: 66
Period size: 6 Copynumber: 8.3 Consensus size: 6
31942375 TAGTTTTTTC
*
31942385 ACAAAA AAAAAA ACAAAA ACAAAA ACAAAA AC-AAA ACAAGAA A-AAAA
1 ACAAAA ACAAAA ACAAAA ACAAAA ACAAAA ACAAAA ACAA-AA ACAAAA
31942432 AC
1 AC
31942434 TTTTGAATAG
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
5 8 0.21
6 27 0.71
7 3 0.08
ACGTcount: A:0.84, C:0.14, G:0.02, T:0.00
Consensus pattern (6 bp):
ACAAAA
Found at i:31942408 original size:18 final size:17
Alignment explanation
Indices: 31942385--31942433 Score: 71
Period size: 17 Copynumber: 2.8 Consensus size: 17
31942375 TAGTTTTTTC
31942385 ACAAAAAAAAAAACAAAA
1 ACAAAAAAAAAAAC-AAA
*
31942403 ACAAAAACAAAAACAAA
1 ACAAAAAAAAAAACAAA
*
31942420 ACAAGAAAAAAAAC
1 ACAAAAAAAAAAAC
31942434 TTTTGAATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
17 15 0.54
18 13 0.46
ACGTcount: A:0.84, C:0.14, G:0.02, T:0.00
Consensus pattern (17 bp):
ACAAAAAAAAAAACAAA
Found at i:31945060 original size:65 final size:65
Alignment explanation
Indices: 31944929--31945065 Score: 229
Period size: 65 Copynumber: 2.1 Consensus size: 65
31944919 TCTTTATTTC
* *
31944929 ACCACCTTTGAAGCCATATTTCTTCATTCCTTTTCCACTCCACCACCACACATGGAAACTACACA
1 ACCACCTTTGAAGCCATATTTATTCATTCCTTTTCCACTCCACCACCACACATGGAAACCACACA
* **
31944994 ACCACCTTTGAAGCCATATTTATTCATTCCTTTTCCACTCCACCACCACACATGGCAACCGTACA
1 ACCACCTTTGAAGCCATATTTATTCATTCCTTTTCCACTCCACCACCACACATGGAAACCACACA
31945059 ACCACCT
1 ACCACCT
31945066 CACCTCTACC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
65 67 1.00
ACGTcount: A:0.28, C:0.38, G:0.07, T:0.27
Consensus pattern (65 bp):
ACCACCTTTGAAGCCATATTTATTCATTCCTTTTCCACTCCACCACCACACATGGAAACCACACA
Found at i:31945662 original size:21 final size:21
Alignment explanation
Indices: 31945637--31945676 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
31945627 CATTCTTGAT
*
31945637 AATAATTAATAATATTGATTA
1 AATAATAAATAATATTGATTA
31945658 AATAATAAATAATATTGAT
1 AATAATAAATAATATTGAT
31945677 ATTTTAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (21 bp):
AATAATAAATAATATTGATTA
Found at i:31958389 original size:21 final size:21
Alignment explanation
Indices: 31958364--31958406 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
31958354 TTGTTGCTCC
31958364 TTAAAAATATA-AAATCAAATT
1 TTAAAAA-ATACAAATCAAATT
31958385 TTAAAAAATACAAATCAAATT
1 TTAAAAAATACAAATCAAATT
31958406 T
1 T
31958407 CCAATCAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (21 bp):
TTAAAAAATACAAATCAAATT
Found at i:31960825 original size:89 final size:89
Alignment explanation
Indices: 31960718--31960914 Score: 236
Period size: 90 Copynumber: 2.2 Consensus size: 89
31960708 TTTAACTGTA
* *
31960718 AACACTAGTGGTTTATCCA-AAAATTACTGGCAGC-ATTTATCTGCAAACCAGTTGTGTACTCAC
1 AACACTAGTGGTTTATCCATAAAATTACTGACAGCTA-TTATCTGCAAACCAGTTGTCTACTCAC
** * * *
31960781 AACTACTGGCAGTGTATTAACTTGC
65 AACTACTAACAGCGTAGTAACATGC
** * *
31960806 AAGCACTAGTGGTTTATCCATAAGTTTACTGACAGCTATTATCTGCAAACCTGTTGTCTATTCAC
1 AA-CACTAGTGGTTTATCCATAAAATTACTGACAGCTATTATCTGCAAACCAGTTGTCTACTCAC
*
31960871 AAGTACTAACAGCGTAGTAACATGC
65 AACTACTAACAGCGTAGTAACATGC
* *
31960896 AACACTGGTGGTTCATCCA
1 AACACTAGTGGTTTATCCA
31960915 CAAACTGGAG
Statistics
Matches: 92, Mismatches: 14, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
88 2 0.02
89 32 0.35
90 57 0.62
91 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.30
Consensus pattern (89 bp):
AACACTAGTGGTTTATCCATAAAATTACTGACAGCTATTATCTGCAAACCAGTTGTCTACTCACA
ACTACTAACAGCGTAGTAACATGC
Found at i:31962395 original size:21 final size:21
Alignment explanation
Indices: 31962369--31962416 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
31962359 TTCTTCTTCT
31962369 TTCTTTGAAAGTACTTTTTGA
1 TTCTTTGAAAGTACTTTTTGA
***
31962390 TTCTTTTTTAGTACTTTTTGA
1 TTCTTTGAAAGTACTTTTTGA
31962411 TTCTTT
1 TTCTTT
31962417 TTCTTAAATC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.17, C:0.10, G:0.10, T:0.62
Consensus pattern (21 bp):
TTCTTTGAAAGTACTTTTTGA
Found at i:31962417 original size:21 final size:21
Alignment explanation
Indices: 31962378--31962418 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
31962368 TTTCTTTGAA
31962378 AGTACTTTTTGATTCTTTTTT
1 AGTACTTTTTGATTCTTTTTT
31962399 AGTACTTTTTGATTCTTTTT
1 AGTACTTTTTGATTCTTTTT
31962419 CTTAAATCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.15, C:0.10, G:0.10, T:0.66
Consensus pattern (21 bp):
AGTACTTTTTGATTCTTTTTT
Found at i:31963393 original size:25 final size:25
Alignment explanation
Indices: 31963365--31963412 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
31963355 GCATATTTTG
* *
31963365 TATGACGCGTTTGTGGTGTATTCTA
1 TATGACGCCTTTGTGGCGTATTCTA
31963390 TATGACGCCTTTGTGGCGTATTC
1 TATGACGCCTTTGTGGCGTATTC
31963413 CATAAGTCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.15, C:0.17, G:0.27, T:0.42
Consensus pattern (25 bp):
TATGACGCCTTTGTGGCGTATTCTA
Found at i:31968126 original size:15 final size:15
Alignment explanation
Indices: 31968083--31968126 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
31968073 CAAATACCCA
31968083 CTAAACCCAATTAAC
1 CTAAACCCAATTAAC
*
31968098 CT-AGCCC-A--AAC
1 CTAAACCCAATTAAC
31968109 CTAAACCCAATTAAC
1 CTAAACCCAATTAAC
31968124 CTA
1 CTA
31968127 GCCCAGCTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 8
0.70 0.06 0.24
Matches are distributed among these distances:
11 5 0.22
12 4 0.17
13 2 0.09
14 4 0.17
15 8 0.35
ACGTcount: A:0.43, C:0.36, G:0.02, T:0.18
Consensus pattern (15 bp):
CTAAACCCAATTAAC
Found at i:31969992 original size:25 final size:25
Alignment explanation
Indices: 31969958--31970005 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
31969948 TTACTGAGTA
31969958 CAATACTTTATTTCTTGTGCGTTTG
1 CAATACTTTATTTCTTGTGCGTTTG
31969983 CAATACTTTATTTCTTGTGCGTT
1 CAATACTTTATTTCTTGTGCGTT
31970006 CATCACTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.17, C:0.17, G:0.15, T:0.52
Consensus pattern (25 bp):
CAATACTTTATTTCTTGTGCGTTTG
Found at i:31981514 original size:44 final size:43
Alignment explanation
Indices: 31981409--31982209 Score: 354
Period size: 44 Copynumber: 18.6 Consensus size: 43
31981399 AGATCTCATC
* * *
31981409 CAGTCCTATCTCCCTGAAATTGCAGTGGAGC-GA--ATTAAAAC
1 CAGTCCTATCTCCCTGAAGTTGCAGTGGAGCAGATCA-AAAAAT
* * *
31981450 CAATCTTATCTCCCTGAAGTTGCAGTGGAGAAGA-CACAAGAAAT
1 CAGTCCTATCTCCCTGAAGTTGCAGTGGAGCAGATCA-AA-AAAT
* * * * *
31981494 TAGTCCTATCTCCCTAAAGTTGCAGTGGAGCTGATTAAAACA-
1 CAGTCCTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAAAAT
* *
31981536 -AGTCTTATCTCCCTGAAGTTGCAATGGAGCAGA-CAAAAGAAAT
1 CAGTCCTATCTCCCTGAAGTTGCAGTGGAGCAGATC-AAA-AAAT
* * * * *
31981579 CAATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAACCA-
1 CAGTCCTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAA-AAT
* ** * * * * * *
31981622 CAGATCTTATCTCTATAAAGTTGTAATAGAGAAGATC---ACAT
1 CAG-TCCTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAAAAT
*
31981663 CCAGTCCTATCTCCCTAAAGTTGCAGTGGAGCAGA-CAAAAGAAAT
1 -CAGTCCTATCTCCCTGAAGTTGCAGTGGAGCAGATC-AAA-AAAT
** * *
31981708 CAGTCCTATCTCCCTGAAGTTGCAGTGGAGTGGAT--TAAAAG
1 CAGTCCTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAAAAT
* * * *
31981749 CAATCTTATCTCCCTGAAGTTGCAGCGGAGCA-AACAAAAGAAAT
1 CAGTCCTATCTCCCTGAAGTTGCAGTGGAGCAGATC-AAA-AAAT
* ** * * * *
31981793 CAATTATATATCCCTGAAGTTGCTGTGGAGCAGGTTAAAACCACAT
1 CAGTCCTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAA--A-AT
* * * **
31981839 -A-T-CTCATCTCTCTGAAGTTGCAGTAGAGCGGATC---GCAT
1 CAGTCCT-ATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAAAAT
*
31981877 CTAGT-CTCATCTCCCTGAAGTTGCAGTGCAGCAGA-CAAAAGAAAT
1 C-AGTCCT-ATCTCCCTGAAGTTGCAGTGGAGCAGATC-AAA-AAAT
* * * * *
31981922 CAATCTTATCCCCCTGAAGTTGTAGTGGAGTAGA-CAAAAGAAAT
1 CAGTCCTATCTCCCTGAAGTTGCAGTGGAGCAGATC-AAA-AAAT
* * * *
31981966 CAATCTTATCTCCCTGAAGTTGCAGCGGAGCA-AACAAAAGAAAT
1 CAGTCCTATCTCCCTGAAGTTGCAGTGGAGCAGATC-AAA-AAAT
* ** * * * * * *
31982010 CAATTATATATCCCTGAATTTGCTGTGGAGCAGGTTAAAACCA-
1 CAGTCCTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAA-AAT
* * * * ***
31982053 CAGAT-CTCATCTCTCTAAAGTTGCAGTAGAGCGGATC---GCGT
1 CAG-TCCT-ATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAAAAT
*
31982094 CTAGT-CTCATCTCCCTGAAGTTGCAGTGCAGCAGA-CAAAAGAAAT
1 C-AGTCCT-ATCTCCCTGAAGTTGCAGTGGAGCAGATC-AAA-AAAT
* * *
31982139 CAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGA-CAAAAGAAAT
1 CAGTCCTATCTCCCTGAAGTTGCAGTGGAGCAGATC-AAA-AAAT
* *
31982183 CAATCCTATCTCCCTGAAGTTACAGTG
1 CAGTCCTATCTCCCTGAAGTTGCAGTG
31982210 AAGCGGATTA
Statistics
Matches: 579, Mismatches: 131, Indels: 97
0.72 0.16 0.12
Matches are distributed among these distances:
38 2 0.00
40 8 0.01
41 168 0.29
42 10 0.02
43 15 0.03
44 361 0.62
45 13 0.02
46 2 0.00
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (43 bp):
CAGTCCTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAAAAT
Found at i:31981517 original size:85 final size:85
Alignment explanation
Indices: 31981412--31982267 Score: 453
Period size: 85 Copynumber: 9.9 Consensus size: 85
31981402 TCTCATCCAG
*
31981412 TCCTATCTCCCTGAAATTGCAGTGGAGCGAATTAAAACCAATCTTATCTCCCTGAAGTTGCAGTG
1 TCCTATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAACCAATCTTATCTCCCTGAAGTTGCAGTG
* * *
31981477 GAGAAGACACAAGAAATTAG
66 GAGAAGACAAAAGAAATCAA
* *
31981497 TCCTATCTCCCTAAAGTTGCAGTGGAGCTG-ATTAAAA-CAAGTCTTATCTCCCTGAAGTTGCAA
1 TCCTATCTCCCTGAAGTTGCAGTGGAGC-GAATTAAAACCAA-TCTTATCTCCCTGAAGTTGCAG
*
31981560 TGGAGCAGACAAAAGAAATCAA
64 TGGAGAAGACAAAAGAAATCAA
* * ** * *
31981582 TCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAACCACAGATCTTATCTCTATAAAGTTGTA
1 TCCTATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAA-C-CA-ATCTTATCTCCCTGAAGTTGCA
* * * *
31981647 ATAGAGAAGATC-----ACATCCAG
63 GTGGAGAAGA-CAAAAGAAAT-CAA
* ** * * *
31981667 TCCTATCTCCCTAAAGTTGCAGTGGAGCAGACAAAAGAAATCAGTCCTATCTCCCTGAAGTTGCA
1 TCCTATCTCCCTGAAGTTGCAGTGGAGC-GA-ATTA-AAACCAATCTTATCTCCCTGAAGTTGCA
** *
31981732 GTGGAGTGGATTAAAAG----CAA
63 GTGGAGAAGA-CAAAAGAAATCAA
* * ** ** *
31981752 TCTTATCTCCCTGAAGTTGCAGCGGAGC-AAACAAAAGAAATCAATTATATATCCCTGAAGTTGC
1 TCCTATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAACCAATC---T-TATCTCCCTGAAGTTGC
* * ** **
31981816 TGTGGAGCAGGTTAAAA-CCA-CATA
62 AGTGGAG-AAGACAAAAGAAATCA-A
* * * *** * * * *
31981840 T-CTCATCTCTCTGAAGTTGCAGTAGAGCGGATCGCATCTAGTCTCATCTCCCTGAAGTTGCAGT
1 TCCT-ATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAACCAATCTTATCTCCCTGAAGTTGCAGT
* *
31981904 GCAGCAGACAAAAGAAATCAA
65 GGAGAAGACAAAAGAAATCAA
* * * * ** *
31981925 TCTTATCCCCCTGAAGTTGTAGTGGAGTAGACAAAAGAAATCAATCTTATCTCCCTGAAGTTGCA
1 TCCTATCTCCCTGAAGTTGCAGTGGAG-CGA-ATTA-AAACCAATCTTATCTCCCTGAAGTTGCA
*
31981990 GCGGAGCAA-ACAAAAGAAATCAA
63 GTGGAG-AAGACAAAAGAAATCAA
** * * * * * * *
31982013 TTATATATCCCTGAATTTGCTGTGGAGC-AGGTTAAAACCACAGATCTCATCTCTCTAAAGTTGC
1 TCCTATCTCCCTGAAGTTGCAGTGGAGCGA-ATTAAAA-C-CA-ATCTTATCTCCCTGAAGTTGC
* ** ** *
31982077 AGT--AG-AG-CGGATCG-CGTCTAG
62 AGTGGAGAAGAC-AAAAGAAATC-AA
* ** * *
31982098 T-CTCATCTCCCTGAAGTTGCAGTGCAGCAGACAAAAGAAATCAATCTTATCTCCCTAAAGTTGC
1 TCCT-ATCTCCCTGAAGTTGCAGTGGAGC-GA-ATTA-AAACCAATCTTATCTCCCTGAAGTTGC
*
31982162 AGTGGAGCAGACAAAAGAAATCAA
62 AGTGGAGAAGACAAAAGAAATCAA
* * * * *
31982186 TCCTATCTCCCTGAAGTTACAGTGAAGCGGATTAAAACCACGGATGTTATCCCCCTGAAGTTGCA
1 TCCTATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAACCA---ATCTTATCTCCCTGAAGTTGCA
* *
31982251 GTGGAGTAGACTAAAGA
63 GTGGAGAAGACAAAAGA
31982268 TAACAAATTT
Statistics
Matches: 577, Mismatches: 140, Indels: 105
0.70 0.17 0.13
Matches are distributed among these distances:
81 6 0.01
82 3 0.01
83 1 0.00
84 17 0.03
85 306 0.53
86 19 0.03
87 13 0.02
88 198 0.34
89 14 0.02
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (85 bp):
TCCTATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAACCAATCTTATCTCCCTGAAGTTGCAGTG
GAGAAGACAAAAGAAATCAA
Found at i:31981634 original size:129 final size:127
Alignment explanation
Indices: 31981367--31981990 Score: 433
Period size: 129 Copynumber: 4.9 Consensus size: 127
31981357 ATAGATTCTA
* * * * ** * * * *
31981367 CAGATCTTATCTCTCTAAAGTTACAGTAGAGCAGATCTCATCCAGTCCTATCTCCCTGAAATTGC
1 CAGATCTTATCTCCCTAAAGTTGCAGTGGAGCAGAACAAAACAAGTCTTATCTCCCTGAAGTTGC
** * * * * * ** *
31981432 AGTGGAGC-GA-ATTA-AAACCAATCTTATCTCCCTGAAGTTGCAGTGGAGAAGACACAAGAAAT
66 AGTGGAGCAGACAAAAGAAATCAATCCTATCTCCCTGAAGTTGCAGTAGAG-CG-GATTA-AAAC
* * * **
31981494 TAG-TCCTATCTCCCTAAAGTTGCAGTGGAGCTGATTAAAACAAGTCTTATCTCCCTGAAGTTGC
1 CAGATCTTATCTCCCTAAAGTTGCAGTGGAGCAGAACAAAACAAGTCTTATCTCCCTGAAGTTGC
*
31981558 AATGGAGCAGACAAAAGAAATCAATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAACC
66 AGTGGAGCAGACAAAAGAAATCAATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAA-C
** * * * * * * * * * *
31981621 ACAGATCTTATCTCTATAAAGTTGTAATAGAGAAGATCACATCCAGTCCTATCTCCCTAAAGTTG
1 -CAGATCTTATCTCCCTAAAGTTGCAGTGGAGCAGAACAAAACAAGTCTTATCTCCCTGAAGTTG
* * * *
31981686 CAGTGGAGCAGACAAAAGAAATCAGTCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAAG
65 CAGTGGAGCAGACAAAAGAAATCAATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAAC
* * * * *
31981749 CA-ATCTTATCTCCCTGAAGTTGCAGCGGAGCA-AACAAAAGAAATCAATTATATATCCCTGAAG
1 CAGATCTTATCTCCCTAAAGTTGCAGTGGAGCAGAACAAAACAAGTC---T-TATCTCCCTGAAG
* ** ** * **
31981812 TTGCTGTGGAGCAGGTTAAAA-CCA-CATAT-CTCATCTCTCTGAAGTTGCAGTAGAGCGGATCG
62 TTGCAGTGGAGCA-GACAAAAGAAATCA-ATCCT-ATCTCCCTGAAGTTGCAGTAGAGCGGATTA
* *
31981874 CATC
124 AAAC
* * * * * *
31981878 TAG-TCTCATCTCCCTGAAGTTGCAGTGCAGCAGACAAAAGAAATCAA-TCTTATCCCCCTGAAG
1 CAGATCTTATCTCCCTAAAGTTGCAGTGGAGCAG--AACA-AAA-CAAGTCTTATCTCCCTGAAG
* * *
31981941 TTGTAGTGGAGTAGACAAAAGAAATCAATCTTATCTCCCTGAAGTTGCAG
62 TTGCAGTGGAGCAGACAAAAGAAATCAATCCTATCTCCCTGAAGTTGCAG
31981991 CGGAGCAAAC
Statistics
Matches: 383, Mismatches: 92, Indels: 42
0.74 0.18 0.08
Matches are distributed among these distances:
125 7 0.02
126 81 0.21
127 8 0.02
128 14 0.04
129 254 0.66
130 9 0.02
132 3 0.01
133 5 0.01
134 2 0.01
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.26
Consensus pattern (127 bp):
CAGATCTTATCTCCCTAAAGTTGCAGTGGAGCAGAACAAAACAAGTCTTATCTCCCTGAAGTTGC
AGTGGAGCAGACAAAAGAAATCAATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAAC
Found at i:31982244 original size:217 final size:216
Alignment explanation
Indices: 31981457--31982203 Score: 997
Period size: 214 Copynumber: 3.5 Consensus size: 216
31981447 AACCAATCTT
* * * * *
31981457 ATCTCCCTGAAGTTGCAGTGGAGAAGACACAAGAAATTAGTCCTATCTCCCTAAAGTTGCAGTGG
1 ATCTCCCTGAAGTTGCAGTGCAGCAGACAAAAGAAATCAATCCTATCTCCCTAAAGTTGCAGTGG
* ** ** * *
31981522 AGCTG--ATTA-AAACAAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACAAAAGAAATCAATC
66 AGCAGACAAAAGAAACAA-TCTTATCTCCCTGAAGTTGCAGCGGAGCAAACAAAAGAAATCAATT
* * * * * * *
31981584 CTATCTCCCTGAAGTTGCAGTAGAGC-GGATTAAAACCACAGATCTTATCTCTATAAAGTTGTAA
130 ATATATCCCTGAAGTTGCAGTGGAGCAGG-TTAAAACCACAGATCTCATCTCTCTAAAGTTGCAG
** * *
31981648 TAGAGAAGATCACATCCAGTC-C
194 TAGAGCGGATCGCATCTAGTCTC
* * * *
31981670 TATCTCCCTAAAGTTGCAGTGGAGCAGACAAAAGAAATCAGTCCTATCTCCCTGAAGTTGCAGTG
1 -ATCTCCCTGAAGTTGCAGTGCAGCAGACAAAAGAAATCAATCCTATCTCCCTAAAGTTGCAGTG
** *
31981735 GAGTGGATTAAAAG---CAATCTTATCTCCCTGAAGTTGCAGCGGAGCAAACAAAAGAAATCAAT
65 GAGCAGA-CAAAAGAAACAATCTTATCTCCCTGAAGTTGCAGCGGAGCAAACAAAAGAAATCAAT
* * *
31981797 TATATATCCCTGAAGTTGCTGTGGAGCAGGTTAAAACCACATATCTCATCTCTCTGAAGTTGCAG
129 TATATATCCCTGAAGTTGCAGTGGAGCAGGTTAAAACCACAGATCTCATCTCTCTAAAGTTGCAG
31981862 TAGAGCGGATCGCATCTAGTCTC
194 TAGAGCGGATCGCATCTAGTCTC
* * * *
31981885 ATCTCCCTGAAGTTGCAGTGCAGCAGACAAAAGAAATCAATCTTATCCCCCTGAAGTTGTAGTGG
1 ATCTCCCTGAAGTTGCAGTGCAGCAGACAAAAGAAATCAATCCTATCTCCCTAAAGTTGCAGTGG
*
31981950 AGTAGACAAAAGAAATCAATCTTATCTCCCTGAAGTTGCAGCGGAGCAAACAAAAGAAATCAATT
66 AGCAGACAAAAGAAA-CAATCTTATCTCCCTGAAGTTGCAGCGGAGCAAACAAAAGAAATCAATT
* *
31982015 ATATATCCCTGAATTTGCTGTGGAGCAGGTTAAAACCACAGATCTCATCTCTCTAAAGTTGCAGT
130 ATATATCCCTGAAGTTGCAGTGGAGCAGGTTAAAACCACAGATCTCATCTCTCTAAAGTTGCAGT
*
31982080 AGAGCGGATCGCGTCTAGTCTC
195 AGAGCGGATCGCATCTAGTCTC
*
31982102 ATCTCCCTGAAGTTGCAGTGCAGCAGACAAAAGAAATCAATCTTATCTCCCTAAAGTTGCAGTGG
1 ATCTCCCTGAAGTTGCAGTGCAGCAGACAAAAGAAATCAATCCTATCTCCCTAAAGTTGCAGTGG
*
31982167 AGCAGACAAAAGAAATCAATCCTATCTCCCTGAAGTT
66 AGCAGACAAAAGAAA-CAATCTTATCTCCCTGAAGTT
31982204 ACAGTGAAGC
Statistics
Matches: 479, Mismatches: 44, Indels: 17
0.89 0.08 0.03
Matches are distributed among these distances:
213 5 0.01
214 237 0.49
215 6 0.01
217 231 0.48
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (216 bp):
ATCTCCCTGAAGTTGCAGTGCAGCAGACAAAAGAAATCAATCCTATCTCCCTAAAGTTGCAGTGG
AGCAGACAAAAGAAACAATCTTATCTCCCTGAAGTTGCAGCGGAGCAAACAAAAGAAATCAATTA
TATATCCCTGAAGTTGCAGTGGAGCAGGTTAAAACCACAGATCTCATCTCTCTAAAGTTGCAGTA
GAGCGGATCGCATCTAGTCTC
Found at i:31982249 original size:173 final size:173
Alignment explanation
Indices: 31981933--31982252 Score: 453
Period size: 173 Copynumber: 1.8 Consensus size: 173
31981923 AATCTTATCC
* * * *
31981933 CCCTGAAGTTGTAGTGGAGTAGACAAAAGAAATCAATCTTATCTCCCTGAAGTTGCAGCGGAGCA
1 CCCTGAAGTTGCAGTGCAGCAGACAAAAGAAATCAATCTTATCTCCCTAAAGTTGCAGCGGAGCA
* * * * *
31981998 AACAAAAGAAATCAATTATATATCCCTGAATTTGCTGTGGAGCAGGTTAAAACCACAGATCTCAT
66 AACAAAAGAAATCAATCATATATCCCTGAAGTTACAGTGAAGCAGGTTAAAACCACAGATCTCAT
* *
31982063 CTCTCTAAAGTTGCAGTAGAGCGGATCGCGTCTAGTCTCATCT
131 CCCCCTAAAGTTGCAGTAGAGCGGATCGCGTCTAGTCTCATCT
*
31982106 CCCTGAAGTTGCAGTGCAGCAGACAAAAGAAATCAATCTTATCTCCCTAAAGTTGCAGTGGAGCA
1 CCCTGAAGTTGCAGTGCAGCAGACAAAAGAAATCAATCTTATCTCCCTAAAGTTGCAGCGGAGCA
* * * * * *
31982171 GACAAAAGAAATCAATCCTATCTCCCTGAAGTTACAGTGAAGC-GGATTAAAACCACGGATGTTA
66 AACAAAAGAAATCAATCATATATCCCTGAAGTTACAGTGAAGCAGG-TTAAAACCACAGATCTCA
*
31982235 TCCCCCTGAAGTTGCAGT
130 TCCCCCTAAAGTTGCAGT
31982253 GGAGTAGACT
Statistics
Matches: 127, Mismatches: 19, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
172 2 0.02
173 125 0.98
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (173 bp):
CCCTGAAGTTGCAGTGCAGCAGACAAAAGAAATCAATCTTATCTCCCTAAAGTTGCAGCGGAGCA
AACAAAAGAAATCAATCATATATCCCTGAAGTTACAGTGAAGCAGGTTAAAACCACAGATCTCAT
CCCCCTAAAGTTGCAGTAGAGCGGATCGCGTCTAGTCTCATCT
Found at i:31986650 original size:48 final size:48
Alignment explanation
Indices: 31986594--31986691 Score: 169
Period size: 48 Copynumber: 2.0 Consensus size: 48
31986584 TGATGAGCAC
*
31986594 CTTAGAAAGGTTCTACAAATCCTTTCAGAGAAGAAATTGTATGCAAAA
1 CTTAGAAAGGTTCTACAAATCCTTTAAGAGAAGAAATTGTATGCAAAA
* *
31986642 CTTAGAAAGGTTCTACAAATCGTTTAAGAGAAGAAATTGTATGCCAAA
1 CTTAGAAAGGTTCTACAAATCCTTTAAGAGAAGAAATTGTATGCAAAA
31986690 CT
1 CT
31986692 ATGTAAATGT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (48 bp):
CTTAGAAAGGTTCTACAAATCCTTTAAGAGAAGAAATTGTATGCAAAA
Found at i:31999246 original size:15 final size:15
Alignment explanation
Indices: 31999205--31999246 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
31999195 TTGTTAGATA
31999205 AAGTATTGAAAAAAC
1 AAGTATTGAAAAAAC
* * *
31999220 AAGTGTTAAAAAAAT
1 AAGTATTGAAAAAAC
31999235 AAGTATTGAAAA
1 AAGTATTGAAAA
31999247 TTTAAATACT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.60, C:0.02, G:0.14, T:0.24
Consensus pattern (15 bp):
AAGTATTGAAAAAAC
Found at i:32021081 original size:29 final size:31
Alignment explanation
Indices: 32021049--32021127 Score: 90
Period size: 31 Copynumber: 2.6 Consensus size: 31
32021039 TTTAGGGGTC
* **
32021049 TAATTAAAATTTT-TAATTTTTTA-AGAGAT
1 TAATTAAAATTTTCAAAAATTTTAGAGAGAT
* * *
32021078 TAATCAGAATTTTCAAAAATTTTAGAGAGCT
1 TAATTAAAATTTTCAAAAATTTTAGAGAGAT
32021109 TAATTAAAATTTTCAAAAA
1 TAATTAAAATTTTCAAAAA
32021128 AAAATAAAAG
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
29 11 0.28
30 7 0.17
31 22 0.55
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.42
Consensus pattern (31 bp):
TAATTAAAATTTTCAAAAATTTTAGAGAGAT
Found at i:32021448 original size:64 final size:64
Alignment explanation
Indices: 32021347--32021466 Score: 204
Period size: 64 Copynumber: 1.9 Consensus size: 64
32021337 CCTCTGCCTC
* * *
32021347 TGTTTCCTTTCTTTTTTCTTTTTAATAATAAAGCTTACATTACATCTTTAAGGAGAGAGGTAAG
1 TGTTTCCTTTCCTTTTTCTTTTTAATAATAAAACTTACATTACATCTTTAAAGAGAGAGGTAAG
*
32021411 TGTTTCCTTTCCTTTTTCTTTTTTATAATAAAACTTACATTACATCTTTAAAGAGA
1 TGTTTCCTTTCCTTTTTCTTTTTAATAATAAAACTTACATTACATCTTTAAAGAGA
32021467 AAGATAAATG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 52 1.00
ACGTcount: A:0.28, C:0.14, G:0.10, T:0.47
Consensus pattern (64 bp):
TGTTTCCTTTCCTTTTTCTTTTTAATAATAAAACTTACATTACATCTTTAAAGAGAGAGGTAAG
Found at i:32022172 original size:2 final size:2
Alignment explanation
Indices: 32022165--32022194 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
32022155 GATTTATTGA
32022165 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32022195 TACAAGCTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32022982 original size:30 final size:31
Alignment explanation
Indices: 32022946--32023012 Score: 95
Period size: 30 Copynumber: 2.2 Consensus size: 31
32022936 ATTTAAGTAT
*
32022946 AAATTAAAAATTAGA-GATTTATGT-GGATAC
1 AAATTAAAAATTAAAGGATTTAT-TAGGATAC
32022976 AAATT-AAAATTAAAGGATTTATTAGGATAC
1 AAATTAAAAATTAAAGGATTTATTAGGATAC
32023006 AAATTAA
1 AAATTAA
32023013 GCTTAAGAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
29 9 0.27
30 23 0.70
31 1 0.03
ACGTcount: A:0.51, C:0.03, G:0.13, T:0.33
Consensus pattern (31 bp):
AAATTAAAAATTAAAGGATTTATTAGGATAC
Found at i:32026471 original size:25 final size:25
Alignment explanation
Indices: 32026437--32026485 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
32026427 CCCTTGATTG
32026437 TCGTGATGAAACGCACTTAATAAGC
1 TCGTGATGAAACGCACTTAATAAGC
32026462 TCGTGATGAAACGCACTTAATAAG
1 TCGTGATGAAACGCACTTAATAAG
32026486 TTTTAAGTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.24
Consensus pattern (25 bp):
TCGTGATGAAACGCACTTAATAAGC
Found at i:32030218 original size:53 final size:53
Alignment explanation
Indices: 32030154--32030257 Score: 136
Period size: 53 Copynumber: 2.0 Consensus size: 53
32030144 TTTGAAATAG
* * * *
32030154 GGTCACACGGCCATGTTGCCAGGCCATGTAACTCTCTGTGACCATGTGGTTCA
1 GGTCAAACGGCCATGTCGCCAGACCATGTAACTCTCTATGACCATGTGGTTCA
* * * *
32030207 GGTCAAACGGCCATGTCGCCAGATCGTGTGACTCTCTATGACTATGTGGTT
1 GGTCAAACGGCCATGTCGCCAGACCATGTAACTCTCTATGACCATGTGGTT
32030258 AATCTTCCAC
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
53 43 1.00
ACGTcount: A:0.19, C:0.26, G:0.27, T:0.28
Consensus pattern (53 bp):
GGTCAAACGGCCATGTCGCCAGACCATGTAACTCTCTATGACCATGTGGTTCA
Found at i:32036965 original size:26 final size:26
Alignment explanation
Indices: 32036894--32036981 Score: 72
Period size: 26 Copynumber: 3.3 Consensus size: 26
32036884 ACCTTGACAG
*
32036894 AGAAGAATGGTAAGTATGAGAAACCCT
1 AGAAGAATGGTAAGTATGA-CAACCCT
* * * *
32036921 AGAAGAATGAT-AGTGATGACTAGCTT
1 AGAAGAATGGTAAGT-ATGACAACCCT
*
32036947 TGAAGAATGGTAAGTATGACAAGCCC-
1 AGAAGAATGGTAAGTATGACAA-CCCT
*
32036973 CGAAGAATG
1 AGAAGAATG
32036982 ACATTTGTGG
Statistics
Matches: 47, Mismatches: 11, Indels: 7
0.72 0.17 0.11
Matches are distributed among these distances:
26 29 0.62
27 18 0.38
ACGTcount: A:0.41, C:0.11, G:0.27, T:0.20
Consensus pattern (26 bp):
AGAAGAATGGTAAGTATGACAACCCT
Found at i:32037061 original size:27 final size:26
Alignment explanation
Indices: 32037031--32037137 Score: 90
Period size: 27 Copynumber: 4.0 Consensus size: 26
32037021 AACAGAAAAG
* * *
32037031 GAATAGTAAATATGGCGAACTCTAAA
1 GAATAGTACATATGGCAAACACTAAA
* *
32037057 TGAATAGTACGTATGACAAACACTGAAA
1 -GAATAGTACATATGGCAAACACT-AAA
* * *
32037085 GAATAATACACATGGCAAACTCTAAA
1 GAATAGTACATATGGCAAACACTAAA
*
32037111 GGAATAGTACGTATGG-AGAACACTAAA
1 -GAATAGTACATATGGCA-AACACTAAA
32037138 AGAAACAATT
Statistics
Matches: 63, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
26 4 0.06
27 56 0.89
28 3 0.05
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.21
Consensus pattern (26 bp):
GAATAGTACATATGGCAAACACTAAA
Found at i:32037471 original size:33 final size:33
Alignment explanation
Indices: 32037433--32037498 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
32037423 ACTCACAAAA
*
32037433 GTCAAGTCAAATAATGAAGATCAATGAGATGAT
1 GTCAAGTCAAAGAATGAAGATCAATGAGATGAT
*
32037466 GTCAAGTCAAAGAATGAAGATCAATGAGCTGAT
1 GTCAAGTCAAAGAATGAAGATCAATGAGATGAT
32037499 ATAGGTAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.44, C:0.11, G:0.23, T:0.23
Consensus pattern (33 bp):
GTCAAGTCAAAGAATGAAGATCAATGAGATGAT
Found at i:32037489 original size:19 final size:19
Alignment explanation
Indices: 32037434--32037489 Score: 50
Period size: 19 Copynumber: 3.2 Consensus size: 19
32037424 CTCACAAAAG
*
32037434 TCAAGTCAAATAATGAAGA
1 TCAAGTCAAAGAATGAAGA
* *
32037453 TCAA-T--GAG-ATGATG-
1 TCAAGTCAAAGAATGAAGA
32037467 TCAAGTCAAAGAATGAAGA
1 TCAAGTCAAAGAATGAAGA
32037486 TCAA
1 TCAA
32037490 TGAGCTGATA
Statistics
Matches: 27, Mismatches: 5, Indels: 10
0.64 0.12 0.24
Matches are distributed among these distances:
14 4 0.15
15 6 0.22
16 1 0.04
17 2 0.07
18 6 0.22
19 8 0.30
ACGTcount: A:0.48, C:0.11, G:0.20, T:0.21
Consensus pattern (19 bp):
TCAAGTCAAAGAATGAAGA
Found at i:32050340 original size:17 final size:17
Alignment explanation
Indices: 32050318--32050360 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
32050308 ATTATATGAC
**
32050318 TTATTTTTAGTTTTATT
1 TTATTTTTAGTCCTATT
*
32050335 TTATTTTAAGTCCTATT
1 TTATTTTTAGTCCTATT
*
32050352 ATATTTTTA
1 TTATTTTTA
32050361 ATAGAGTATT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.67
Consensus pattern (17 bp):
TTATTTTTAGTCCTATT
Found at i:32050836 original size:9 final size:9
Alignment explanation
Indices: 32050822--32050871 Score: 66
Period size: 9 Copynumber: 5.6 Consensus size: 9
32050812 TTTGGTTAAA
32050822 AATTAACCG
1 AATTAACCG
*
32050831 AATTAACTG
1 AATTAACCG
32050840 AATT-ACCAG
1 AATTAACC-G
32050849 AATTAACCG
1 AATTAACCG
*
32050858 AATTACCCG
1 AATTAACCG
32050867 AATTA
1 AATTA
32050872 TATGTTTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
8 2 0.06
9 31 0.86
10 3 0.08
ACGTcount: A:0.44, C:0.20, G:0.10, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:32050911 original size:12 final size:13
Alignment explanation
Indices: 32050880--32050929 Score: 57
Period size: 12 Copynumber: 3.8 Consensus size: 13
32050870 TATATGTTTT
*
32050880 TTTTATTTTTAGA
1 TTTTAGTTTTAGA
*
32050893 CTTTAGTTTTAG-
1 TTTTAGTTTTAGA
32050905 TTTTAGTTTTAGAA
1 TTTTAGTTTTAG-A
*
32050919 TTTTATTTTTA
1 TTTTAGTTTTA
32050930 TTTATTAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
12 11 0.35
13 10 0.32
14 10 0.32
ACGTcount: A:0.22, C:0.02, G:0.10, T:0.66
Consensus pattern (13 bp):
TTTTAGTTTTAGA
Found at i:32051552 original size:16 final size:16
Alignment explanation
Indices: 32051526--32051565 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
32051516 CGTTTGGTTC
*
32051526 ACTGTAGTGGAATA-A
1 ACTGTAATGGAATAGA
32051541 AGCTGTAATGGAATAGA
1 A-CTGTAATGGAATAGA
32051558 ACTGTAAT
1 ACTGTAAT
32051566 TAGTAATTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 19 0.86
17 2 0.09
ACGTcount: A:0.40, C:0.07, G:0.25, T:0.28
Consensus pattern (16 bp):
ACTGTAATGGAATAGA
Found at i:32051770 original size:23 final size:23
Alignment explanation
Indices: 32051744--32051798 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
32051734 AAAAATAAAA
* *
32051744 AATAA-ATAATTTAATCATATTTT
1 AATAATATAATTAAAT-ATAATTT
*
32051767 AATAATATTATTAAATATAATTT
1 AATAATATAATTAAATATAATTT
32051790 AATAATATA
1 AATAATATA
32051799 CAATTAATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 19 0.70
24 8 0.30
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (23 bp):
AATAATATAATTAAATATAATTT
Found at i:32053041 original size:13 final size:13
Alignment explanation
Indices: 32053023--32053049 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
32053013 GTCGAATAAC
32053023 CCATTTAGAGGTG
1 CCATTTAGAGGTG
32053036 CCATTTAGAGGTG
1 CCATTTAGAGGTG
32053049 C
1 C
32053050 GTGTGCGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.30
Consensus pattern (13 bp):
CCATTTAGAGGTG
Found at i:32056976 original size:27 final size:27
Alignment explanation
Indices: 32056938--32056992 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
32056928 CATGAAAGTT
* *
32056938 AAGAATAGCCTTTGTGGCAAACTCTGA
1 AAGAATAACCTTTATGGCAAACTCTGA
**
32056965 AAGAATAACCTTTATGGTGAACTCTGA
1 AAGAATAACCTTTATGGCAAACTCTGA
32056992 A
1 A
32056993 TGGATTGCCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.27
Consensus pattern (27 bp):
AAGAATAACCTTTATGGCAAACTCTGA
Found at i:32083902 original size:49 final size:50
Alignment explanation
Indices: 32083798--32083929 Score: 124
Period size: 49 Copynumber: 2.7 Consensus size: 50
32083788 TTATTATGGC
* ** *
32083798 TATGAGAGGTCTCACATAAGACCATGTCTGGGACATGGCATTAGCATCGA
1 TATGAGAGGTCCCACATAAGACCATGTCTGGGACATAACATGAGCATCGA
* * * *
32083848 GATGAGAGGTCCCCCA-AAGGCCATGTCTGGGACATAACATGGGC-TCCGA
1 TATGAGAGGTCCCACATAAGACCATGTCTGGGACATAACATGAGCAT-CGA
** ** *
32083897 TATGAGAACTCCCATGTAAGACCATATCTGGGA
1 TATGAGAGGTCCCACATAAGACCATGTCTGGGA
32083930 TATGGCATTG
Statistics
Matches: 64, Mismatches: 16, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
48 1 0.02
49 36 0.56
50 27 0.42
ACGTcount: A:0.30, C:0.23, G:0.27, T:0.21
Consensus pattern (50 bp):
TATGAGAGGTCCCACATAAGACCATGTCTGGGACATAACATGAGCATCGA
Found at i:32085492 original size:29 final size:29
Alignment explanation
Indices: 32085424--32085481 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
32085414 ATGACGTATC
*
32085424 GACACCCATCGAATATGAAAAGAGATGGT
1 GACAACCATCGAATATGAAAAGAGATGGT
*
32085453 GACAACCATCGAATATGAAAAGGGATGGT
1 GACAACCATCGAATATGAAAAGAGATGGT
32085482 TTCGAACATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.41, C:0.16, G:0.26, T:0.17
Consensus pattern (29 bp):
GACAACCATCGAATATGAAAAGAGATGGT
Found at i:32089332 original size:42 final size:42
Alignment explanation
Indices: 32089273--32089353 Score: 119
Period size: 42 Copynumber: 1.9 Consensus size: 42
32089263 GGGCTCACAC
* *
32089273 GGCCGTGTGACTTACACGACTGAGACACA-GGTCCGTGTCTTA
1 GGCCGTCTGACTCACACGACTGAGACACACGGT-CGTGTCTTA
*
32089315 GGCCGTCTGACTCACACGGCTGAGACACACGGTCGTGTC
1 GGCCGTCTGACTCACACGACTGAGACACACGGTCGTGTC
32089354 CCAACCCGTG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
42 32 0.91
43 3 0.09
ACGTcount: A:0.20, C:0.30, G:0.30, T:0.21
Consensus pattern (42 bp):
GGCCGTCTGACTCACACGACTGAGACACACGGTCGTGTCTTA
Found at i:32090456 original size:29 final size:29
Alignment explanation
Indices: 32090416--32090515 Score: 132
Period size: 29 Copynumber: 3.4 Consensus size: 29
32090406 GGTCGTCACC
*
32090416 ATCCCTTTTCATAATCAATAGTCAAAGCT
1 ATCCCTTTTCATAATCGATAGTCAAAGCT
* * *
32090445 A-CCCTTTTTCATAATCGATAGCCGAAGCC
1 ATCCC-TTTTCATAATCGATAGTCAAAGCT
32090474 ATCCCTTTTCATAATCGATAGTCGAAA-CT
1 ATCCCTTTTCATAATCGATAGTC-AAAGCT
32090503 ATCCCTTTTCATA
1 ATCCCTTTTCATA
32090516 GTTGATGATT
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
28 3 0.05
29 53 0.87
30 5 0.08
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.34
Consensus pattern (29 bp):
ATCCCTTTTCATAATCGATAGTCAAAGCT
Found at i:32105249 original size:20 final size:20
Alignment explanation
Indices: 32105214--32105262 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
32105204 ATCATGGTAT
*
32105214 TTGCTT-CTTCTTTACTTAC
1 TTGCTTACTTGTTTACTTAC
32105233 TCT-CTTACTTGTTTACTTAC
1 T-TGCTTACTTGTTTACTTAC
32105253 TTGCTTACTT
1 TTGCTTACTT
32105263 AAATAACTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.12, C:0.24, G:0.06, T:0.57
Consensus pattern (20 bp):
TTGCTTACTTGTTTACTTAC
Found at i:32109037 original size:63 final size:63
Alignment explanation
Indices: 32108910--32109050 Score: 165
Period size: 63 Copynumber: 2.2 Consensus size: 63
32108900 CCTAAATCGC
* * * * * *
32108910 AAACAATGAGTCACACGGCCTGGACACACGCCCGTGTCTCTGGCCCATGTGATCCTTAATGGT
1 AAACAGTGAGTCACACGACCTGGACACACGCCCGTGTCTCTAGCCCATCTGATCCCTAAAGGT
* * * * *
32108973 AAACAGTGAGTCACACGACTTGGACACATGCCCGTGTCTCTAGCTCGTCTGGTCCCTAAAGGT
1 AAACAGTGAGTCACACGACCTGGACACACGCCCGTGTCTCTAGCCCATCTGATCCCTAAAGGT
* *
32109036 AAATAGTAAGTCACA
1 AAACAGTGAGTCACA
32109051 TGGCCTAACA
Statistics
Matches: 65, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
63 65 1.00
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.23
Consensus pattern (63 bp):
AAACAGTGAGTCACACGACCTGGACACACGCCCGTGTCTCTAGCCCATCTGATCCCTAAAGGT
Found at i:32120870 original size:29 final size:29
Alignment explanation
Indices: 32120770--32120897 Score: 116
Period size: 29 Copynumber: 4.3 Consensus size: 29
32120760 GTCGAATCAC
* *
32120770 GATGGTCTTCACCATCCCTTTTCATAATC
1 GATGGTCGTCACCATCCCTTTTCATAATT
* * *
32120799 GATAGGT-G-AAGCTATCCCTTTTCAAAATTT
1 GAT-GGTCGTCA-CCATCCCTTTTCATAA-TT
* *
32120829 GATGGTCGCCACCATCCCTTTTCATAGTT
1 GATGGTCGTCACCATCCCTTTTCATAATT
* *
32120858 GATGGTCGTCACCATCCTTTTTCAAAATT
1 GATGGTCGTCACCATCCCTTTTCATAATT
*
32120887 GAGTGATCGTC
1 GA-TGGTCGTC
32120898 GATACGTCAT
Statistics
Matches: 79, Mismatches: 14, Indels: 11
0.76 0.13 0.11
Matches are distributed among these distances:
28 1 0.01
29 49 0.62
30 28 0.35
31 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (29 bp):
GATGGTCGTCACCATCCCTTTTCATAATT
Found at i:32122349 original size:15 final size:15
Alignment explanation
Indices: 32122331--32122361 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
32122321 TGGTTTAACT
32122331 TTATATATTATCATC
1 TTATATATTATCATC
*
32122346 TTATATATTATTATC
1 TTATATATTATCATC
32122361 T
1 T
32122362 ATGTAAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.58
Consensus pattern (15 bp):
TTATATATTATCATC
Found at i:32122662 original size:23 final size:23
Alignment explanation
Indices: 32122636--32122696 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
32122626 ACATACTTAT
*
32122636 ATATATTCTTTATATTCTCAAAA
1 ATATATTCTTTATATTCACAAAA
* * *
32122659 ATAT-TTTTTTATACTTCACATAC
1 ATATATTCTTTATA-TTCACAAAA
32122682 ATATATTC-TTATATT
1 ATATATTCTTTATATT
32122697 ATTACAATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
22 10 0.32
23 19 0.61
24 2 0.06
ACGTcount: A:0.34, C:0.13, G:0.00, T:0.52
Consensus pattern (23 bp):
ATATATTCTTTATATTCACAAAA
Found at i:32123307 original size:107 final size:107
Alignment explanation
Indices: 32123121--32123531 Score: 621
Period size: 107 Copynumber: 3.9 Consensus size: 107
32123111 AGGTTTTTCT
* * *
32123121 AAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCTTAACGTGCTAGATTTCGATT
1 AAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATT
32123186 TCTCGTTTGACCAAATAAG-CAAATATCCTTTTTAAACTTTTA
66 TCTCGTTTGACCAAAT-AGCCAAATATCCTTTTTAAACTTTTA
*
32123228 AAATAAGGCAATATTTTGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATT
1 AAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATT
*
32123293 TCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAACTTTTA
66 TCTCGTTTGACCAAATAGCCAAATATCCTTTTTAAACTTTTA
* * * *
32123335 AAATAAGGCAATATTTCGCGTTTGGAAAATCGAGGAAACGTACCCTAACGTGTTGGGTTTCGACT
1 AAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATT
**
32123400 TCTCGTTTGACCAAATAGCCAAATATCC-TTTTAAACTTTCG
66 TCTCGTTTGACCAAATAGCCAAATATCCTTTTTAAACTTTTA
* * * * * * * *
32123441 AAGTAAGGCAATATTT-GCGTATGGAAATTTGAGAGAATGTGCCCTAACGTGCTGGGTCTCAATT
1 AAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATT
32123505 TCTCGTTTGACCAAATAGCCAAATATC
66 TCTCGTTTGACCAAATAGCCAAATATC
32123532 TTCTTAACTT
Statistics
Matches: 278, Mismatches: 25, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
105 64 0.23
106 28 0.10
107 186 0.67
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.32
Consensus pattern (107 bp):
AAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATT
TCTCGTTTGACCAAATAGCCAAATATCCTTTTTAAACTTTTA
Found at i:32134268 original size:45 final size:45
Alignment explanation
Indices: 32134196--32134288 Score: 107
Period size: 45 Copynumber: 2.1 Consensus size: 45
32134186 CTATTTCCAT
* * * *
32134196 TTTATTCTTTTTTTTTATTTCGACAAAATACGCCATCTTGATTAA
1 TTTATTCTTATTTTGTATTTAGACAAAATACGCCACCTTGATTAA
** *
32134241 TTTATTCTTATTTTGTATTCTAG-CAAAATTGGCTACCTTGATTAA
1 TTTATTCTTATTTTGTATT-TAGACAAAATACGCCACCTTGATTAA
32134286 TTT
1 TTT
32134289 GTTCATTTAG
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
45 38 0.95
46 2 0.05
ACGTcount: A:0.26, C:0.14, G:0.09, T:0.52
Consensus pattern (45 bp):
TTTATTCTTATTTTGTATTTAGACAAAATACGCCACCTTGATTAA
Found at i:32134455 original size:108 final size:108
Alignment explanation
Indices: 32134262--32134456 Score: 273
Period size: 108 Copynumber: 1.8 Consensus size: 108
32134252 TTTGTATTCT
* * * *
32134262 AGCAAAATTGGCTACCTTGATTAATTTGTTCATTTAGAGCTTGGCTCTTAACAAATTTTCATCTT
1 AGCAAAATTGGCTACCTTAATTAATTTGTTCATTTAGAGCTTGGCTCTCAACAAAATTCCATCTT
*
32134327 ATCCATTGTGATAATGTTTTTCATCTTATTCATATCGTATCTC
66 ATCCATTGTGATAATATTTTTCATCTTATTCATATCGTATCTC
* * ** * *
32134370 AGCAAAATTTGCTACCTTAATTGATTTGTTTGTTTAGAGCTTTGCTCTCAACAAAATTCCATTTT
1 AGCAAAATTGGCTACCTTAATTAATTTGTTCATTTAGAGCTTGGCTCTCAACAAAATTCCATCTT
* *
32134435 GTCCATTTTGATAATATTTTTC
66 ATCCATTGTGATAATATTTTTC
32134457 GAGCATTTTT
Statistics
Matches: 74, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
108 74 1.00
ACGTcount: A:0.26, C:0.17, G:0.12, T:0.45
Consensus pattern (108 bp):
AGCAAAATTGGCTACCTTAATTAATTTGTTCATTTAGAGCTTGGCTCTCAACAAAATTCCATCTT
ATCCATTGTGATAATATTTTTCATCTTATTCATATCGTATCTC
Found at i:32135024 original size:44 final size:44
Alignment explanation
Indices: 32134951--32135208 Score: 238
Period size: 44 Copynumber: 5.9 Consensus size: 44
32134941 TCATTAAAGT
* * *
32134951 AGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGC
1 AGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGATAGC
* * * *
32134995 ATG-TCCTATCTTCCTATATTGGTAGGAAGTGGATCAAAGAT-GC
1 A-GATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGATAGC
* * * *
32135038 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGC
1 AGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGATAGC
* * * *
32135083 AGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAGGATAGC
1 AGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGATAGC
* * * *
32135127 AGGTCTTATCTTCCTATATTGGTAGGTAGTGGATCGAAGAT-GC
1 AGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGATAGC
* * * *
32135170 AGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAG
1 AGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAG
32135209 NNNNNNNNNN
Statistics
Matches: 169, Mismatches: 39, Indels: 13
0.76 0.18 0.06
Matches are distributed among these distances:
42 1 0.01
43 53 0.31
44 92 0.54
45 23 0.14
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (44 bp):
AGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGATAGC
Found at i:32137537 original size:23 final size:23
Alignment explanation
Indices: 32137511--32137572 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
32137501 ACATACTTAT
*
32137511 ATATATTCTTTATATTCTCAAAA
1 ATATATTCTTTATATTCACAAAA
* * * *
32137534 ATATTTTTTTTATACTTCACATAC
1 ATATATTCTTTATA-TTCACAAAA
32137558 ATATATTC-TTATATT
1 ATATATTCTTTATATT
32137573 ATTACAATTT
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
22 2 0.06
23 17 0.55
24 12 0.39
ACGTcount: A:0.34, C:0.13, G:0.00, T:0.53
Consensus pattern (23 bp):
ATATATTCTTTATATTCACAAAA
Found at i:32138295 original size:107 final size:105
Alignment explanation
Indices: 32138109--32138426 Score: 444
Period size: 107 Copynumber: 3.0 Consensus size: 105
32138099 NNNNNNNNNN
*
32138109 AAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATT
1 AAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAA-GTACCCTAACGTGCTGGGTTTCGATT
* *
32138174 TCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAACTTTTA
65 TCTCGTTTGACCAAATAGCCAAATATCC-TTTTAAACTTTCA
* *
32138216 AAATAAGGCAATATTTCGCGTTTGGAAAATCGAGGAAAAGTACCCTAACGTGTTGGGTTTCGACT
1 AAATAAGGCAATATTTCGCGTTTGGAAAATCGA-GAAAAGTACCCTAACGTGCTGGGTTTCGATT
* *
32138281 TCTCGTTTGACCAAATAGCCAAATATTCTTTTAAACTTTCG
65 TCTCGTTTGACCAAATAGCCAAATATCCTTTTAAACTTTCA
* * * * * * *
32138322 AAGTAAGGCAATATTT-GCGTTTGGAAATTTGAGAGAATGTACCCTAACATGCTGGGTCTCAATT
1 AAATAAGGCAATATTTCGCGTTTGGAAAATCGAGA-AAAGTACCCTAACGTGCTGGGTTTCGATT
32138386 TCTCGTTTGACCAAATAGCCAAATAT-CTTCTT-AACTTTCA
65 TCTCGTTTGACCAAATAGCCAAATATCCTT-TTAAACTTTCA
32138426 A
1 A
32138427 TCTATTATTC
Statistics
Matches: 191, Mismatches: 17, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
104 13 0.07
105 65 0.34
106 26 0.14
107 82 0.43
108 5 0.03
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (105 bp):
AAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAAGTACCCTAACGTGCTGGGTTTCGATTT
CTCGTTTGACCAAATAGCCAAATATCCTTTTAAACTTTCA
Found at i:32146736 original size:41 final size:41
Alignment explanation
Indices: 32146679--32146954 Score: 365
Period size: 41 Copynumber: 6.7 Consensus size: 41
32146669 ACCTTTTGGG
*
32146679 GCTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCGGT
1 GCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGT
* * *
32146720 GCTTTAGCAGTGTTTTTGAAAAACCGCCGCTAATGCTCGGT
1 GCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGT
* * * *
32146761 GCTTTAACGGCGTTTTTGGAAAAGCTCCGCTAATGCTTGGT
1 GCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGT
* *
32146802 GCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGT
1 GCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGT
* * * *
32146843 GCTGTAGCGGCATTTTTGAAGAAGCACCGCTAATGCTCGGT
1 GCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGT
* * *
32146884 GCTTTAGTGGCGTTTTT-ACAGAAGTGCCGCTAATGCTCGGT
1 GCTTTAGCGGCGTTTTTGA-AAAAGCGCCGCTAATGCTCGGT
* *
32146925 GCTTTAGCGGCATTTTTAAAAAAGCGCCGC
1 GCTTTAGCGGCGTTTTTGAAAAAGCGCCGC
32146955 AAAAAACATT
Statistics
Matches: 203, Mismatches: 30, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
40 1 0.00
41 201 0.99
42 1 0.00
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.30
Consensus pattern (41 bp):
GCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGT
Found at i:32147348 original size:21 final size:22
Alignment explanation
Indices: 32147324--32147371 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
32147314 TAGGGATTAT
* *
32147324 GGTTTATGGTTTAAGGGTT-GG
1 GGTTTAAGGTTTAAAGGTTAGG
32147345 GGTTTAAGGTTTAAAGGTTAGG
1 GGTTTAAGGTTTAAAGGTTAGG
32147367 GGTTT
1 GGTTT
32147372 CTGATTTATG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.19, C:0.00, G:0.40, T:0.42
Consensus pattern (22 bp):
GGTTTAAGGTTTAAAGGTTAGG
Found at i:32147570 original size:15 final size:15
Alignment explanation
Indices: 32147550--32147597 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
32147540 ACTATCTTAA
32147550 GGTTTATGGATTATG
1 GGTTTATGGATTATG
*
32147565 GGTTTAGGGATTAT-
1 GGTTTATGGATTATG
* *
32147579 GGTTTATGGTTTAAG
1 GGTTTATGGATTATG
32147594 GGTT
1 GGTT
32147598 GGGGTTTAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 11 0.39
15 17 0.61
ACGTcount: A:0.19, C:0.00, G:0.35, T:0.46
Consensus pattern (15 bp):
GGTTTATGGATTATG
Found at i:32150276 original size:42 final size:43
Alignment explanation
Indices: 32150070--32150299 Score: 347
Period size: 43 Copynumber: 5.3 Consensus size: 43
32150060 AAAACAGGTT
* * * *
32150070 TTTAGCGGCGCTTTTTAGCACAAATGCTGCAATAGACCATGACC
1 TTTAGCGGCGCTTTTCA-CACAAACGCCGCTATAGACCATGACC
**
32150114 TTTAGCGAAGCTTTTCACACAAACGCCGCTATAGACCATGACC
1 TTTAGCGGCGCTTTTCACACAAACGCCGCTATAGACCATGACC
32150157 TTTAGCGGCGCTTTTC-CAACAAACGCCGCTATAGACCATGACC
1 TTTAGCGGCGCTTTTCAC-ACAAACGCCGCTATAGACCATGACC
* *
32150200 TTTAGCGGCACTTTTCACACAAACGCCACTATAGACCATGACC
1 TTTAGCGGCGCTTTTCACACAAACGCCGCTATAGACCATGACC
*
32150243 TTTAGCGGCGC-TTTCCCACAAACGCCGCTATAGACCATGACC
1 TTTAGCGGCGCTTTTCACACAAACGCCGCTATAGACCATGACC
32150285 TTTAGCGGCGCTTTT
1 TTTAGCGGCGCTTTT
32150300 GTCACATGCT
Statistics
Matches: 170, Mismatches: 13, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
42 41 0.24
43 114 0.67
44 15 0.09
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.25
Consensus pattern (43 bp):
TTTAGCGGCGCTTTTCACACAAACGCCGCTATAGACCATGACC
Found at i:32152445 original size:14 final size:15
Alignment explanation
Indices: 32152419--32152447 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
32152409 TTTAACCCCT
32152419 AACCCCTAACCCTTA
1 AACCCCTAACCCTTA
32152434 AACCCC-AACCCTTA
1 AACCCCTAACCCTTA
32152448 TAACTGTCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.34, C:0.48, G:0.00, T:0.17
Consensus pattern (15 bp):
AACCCCTAACCCTTA
Found at i:32153358 original size:41 final size:41
Alignment explanation
Indices: 32153313--32153551 Score: 304
Period size: 41 Copynumber: 5.9 Consensus size: 41
32153303 TCTGAGTATC
* *
32153313 AGCGGCGCTTTTTAAAAAACGCCGCTAAAACCCTC-AGCATT
1 AGCGGCGCTTCTTCAAAAACGCCGCTAAAACCC-CGAGCATT
* * * * *
32153354 AGCGGTGCTTTTTCATAAACGCCGCCAAAGCCCCGAGCATT
1 AGCGGCGCTTCTTCAAAAACGCCGCTAAAACCCCGAGCATT
* * *
32153395 AGCGGCGCTTCTTCAAAAACGCTGCT-AAA-GCTGAGCATT
1 AGCGGCGCTTCTTCAAAAACGCCGCTAAAACCCCGAGCATT
* *
32153434 AGCGGCGCTTCTTCAAAAACGCCGCTAGAGCCCCGAGCATT
1 AGCGGCGCTTCTTCAAAAACGCCGCTAAAACCCCGAGCATT
* *
32153475 AGCGGCGCTTCTCCAAAAACGCTGCTAAAACCCCGAGCATT
1 AGCGGCGCTTCTTCAAAAACGCCGCTAAAACCCCGAGCATT
* *
32153516 AGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGA
1 AGCGGCGCTTCTTCAAAAACGCCGCTAAAACCCCGA
32153552 AAACTCAGAA
Statistics
Matches: 169, Mismatches: 26, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
39 33 0.20
40 4 0.02
41 132 0.78
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (41 bp):
AGCGGCGCTTCTTCAAAAACGCCGCTAAAACCCCGAGCATT
Found at i:32153466 original size:80 final size:82
Alignment explanation
Indices: 32153313--32153551 Score: 356
Period size: 80 Copynumber: 2.9 Consensus size: 82
32153303 TCTGAGTATC
* * * * * *
32153313 AGCGGCGCTTTTTAAAAAACGCCGCTAAAACCCTCAGCATTAGCGGTGCTTTTTCATAAACGCCG
1 AGCGGCGCTTCTTCAAAAACGCTGCTAAAACCCTGAGCATTAGCGGCGCTTTTTCAAAAACGCCG
*
32153378 CCAAAGCCCCGAGCATT
66 CTAAAGCCCCGAGCATT
* *
32153395 AGCGGCGCTTCTTCAAAAACGCTGCT-AAA-GCTGAGCATTAGCGGCGCTTCTTCAAAAACGCCG
1 AGCGGCGCTTCTTCAAAAACGCTGCTAAAACCCTGAGCATTAGCGGCGCTTTTTCAAAAACGCCG
*
32153458 CTAGAGCCCCGAGCATT
66 CTAAAGCCCCGAGCATT
* *
32153475 AGCGGCGCTTCTCCAAAAACGCTGCTAAAACCCCGAGCATTAGCGGCGCTTTTTCAAAAACGCCG
1 AGCGGCGCTTCTTCAAAAACGCTGCTAAAACCCTGAGCATTAGCGGCGCTTTTTCAAAAACGCCG
32153540 CTAAAGCCCCGA
66 CTAAAGCCCCGA
32153552 AAACTCAGAA
Statistics
Matches: 140, Mismatches: 15, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
80 69 0.49
81 6 0.04
82 65 0.46
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (82 bp):
AGCGGCGCTTCTTCAAAAACGCTGCTAAAACCCTGAGCATTAGCGGCGCTTTTTCAAAAACGCCG
CTAAAGCCCCGAGCATT
Found at i:32153518 original size:121 final size:121
Alignment explanation
Indices: 32153299--32153546 Score: 336
Period size: 121 Copynumber: 2.0 Consensus size: 121
32153289 TTTAATATGA
* * * *
32153299 TAAATCTGAGTATCAGCGGCGCTTTTTAAAAAACGCCGCTAAAACCCTCAGCATTAGCGGTGCTT
1 TAAAGCTGAGCATCAGCGGCGCTTCTTAAAAAACGCCGCTAAAACCCTCAGCATTAGCGGCGCTT
* * * * *
32153364 TTTCATAAACGCCGCCAAAGCCCCGAGCATTAGCGGCGCTTCTTCAAAAACGCTGC
66 CTCCAAAAACGCCGCCAAAACCCCGAGCATTAGCGGCGCTTCTTCAAAAACGCCGC
* * * *
32153420 TAAAGCTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGCTAGAGCCC-CGAGCATTAGCGGCGCT
1 TAAAGCTGAGCATCAGCGGCGCTTCTTAAAAAACGCCGCTAAAACCCTC-AGCATTAGCGGCGCT
* * *
32153484 TCTCCAAAAACGCTGCTAAAACCCCGAGCATTAGCGGCGCTTTTTCAAAAACGCCGC
65 TCTCCAAAAACGCCGCCAAAACCCCGAGCATTAGCGGCGCTTCTTCAAAAACGCCGC
32153541 TAAAGC
1 TAAAGC
32153547 CCCGAAAACT
Statistics
Matches: 110, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
120 1 0.01
121 109 0.99
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (121 bp):
TAAAGCTGAGCATCAGCGGCGCTTCTTAAAAAACGCCGCTAAAACCCTCAGCATTAGCGGCGCTT
CTCCAAAAACGCCGCCAAAACCCCGAGCATTAGCGGCGCTTCTTCAAAAACGCCGC
Found at i:32153664 original size:39 final size:40
Alignment explanation
Indices: 32153621--32153715 Score: 120
Period size: 40 Copynumber: 2.4 Consensus size: 40
32153611 ACTAATGTTC
32153621 ATTTTTAGCGG-GTTTTTTAAAAAGCACCGCTAATACTTG
1 ATTTTTAGCGGCGTTTTTTAAAAAGCACCGCTAATACTTG
* * * * ** *
32153660 ATTTTGAGTGGCATTTTTTTAAAAGCGTCGCTAATGCTTG
1 ATTTTTAGCGGCGTTTTTTAAAAAGCACCGCTAATACTTG
32153700 ATTTTTAGCGGCGTTT
1 ATTTTTAGCGGCGTTT
32153716 GTTATCCAAA
Statistics
Matches: 45, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
39 9 0.20
40 36 0.80
ACGTcount: A:0.23, C:0.14, G:0.21, T:0.42
Consensus pattern (40 bp):
ATTTTTAGCGGCGTTTTTTAAAAAGCACCGCTAATACTTG
Found at i:32154327 original size:86 final size:87
Alignment explanation
Indices: 32154176--32154421 Score: 259
Period size: 86 Copynumber: 2.8 Consensus size: 87
32154166 ATTGAAAATT
* * *
32154176 AAAAATTTAGTCTGGTTGTTTGTAAATGCATGAACTTGAACCATTTATTTTTGCTAATTTGTTGC
1 AAAAATTTAGTCTGATTGTTTGTAAATACATGAACTTGAACCATTGATTTTTGCTAATTTGTTGC
* *
32154241 ATATAAGTTGTTATAAATATTG
66 ATATAAATCGTTATAAATATTG
*
32154263 AAAAA-TTAGTCTGATT-TTTGGTAAATACATGAACTTGAACCATTGATTTTTGTTAATTTGTTG
1 AAAAATTTAGTCTGATTGTTT-GTAAATACATGAACTTGAACCATTGATTTTTGCTAATTTGTTG
*
32154326 CATATAAATCGTTATAGAA-ATAG
65 CATATAAATCGTTATA-AATATTG
* * *** * * **
32154349 -AAGATTTAGCCCT-ATTGCCGGTAAATATATGAACTACGAATAATTGATTTTTGCTAATTTGTT
1 AAAAATTTAG-TCTGATTGTTTGTAAATACATGAACT-TGAACCATTGATTTTTGCTAATTTGTT
* *
32154412 TCACATAAAT
64 GCATATAAAT
32154422 TGTTGTAAGA
Statistics
Matches: 134, Mismatches: 19, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
85 6 0.04
86 88 0.66
87 40 0.30
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.41
Consensus pattern (87 bp):
AAAAATTTAGTCTGATTGTTTGTAAATACATGAACTTGAACCATTGATTTTTGCTAATTTGTTGC
ATATAAATCGTTATAAATATTG
Found at i:32154497 original size:40 final size:40
Alignment explanation
Indices: 32154392--32154516 Score: 119
Period size: 40 Copynumber: 3.1 Consensus size: 40
32154382 CTACGAATAA
* * * * * *
32154392 TTGATTTTTGCTAATTTGTTTCACATAAATTGTTGTAA-G
1 TTGATTTTTGATAATTTCTTACATATAAATTATTGAAATG
* * *
32154431 ATTGATTTGTGTTAATTTCTTGCATATAAATTATTGAAATG
1 -TTGATTTTTGATAATTTCTTACATATAAATTATTGAAATG
* *
32154472 TTGATTTTTGATAATTCCTTACATATTAAA-TATTGAAGTG
1 TTGATTTTTGATAATTTCTTACATA-TAAATTATTGAAATG
32154512 TTGAT
1 TTGAT
32154517 ATTCAAGCTA
Statistics
Matches: 71, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
40 66 0.93
41 5 0.07
ACGTcount: A:0.30, C:0.06, G:0.14, T:0.50
Consensus pattern (40 bp):
TTGATTTTTGATAATTTCTTACATATAAATTATTGAAATG
Found at i:32155465 original size:9 final size:9
Alignment explanation
Indices: 32155451--32155475 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
32155441 ATAATAAAAA
32155451 ATATTTTTT
1 ATATTTTTT
32155460 ATATTTTTT
1 ATATTTTTT
32155469 ATATTTT
1 ATATTTT
32155476 AAAATATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
ATATTTTTT
Found at i:32155486 original size:11 final size:11
Alignment explanation
Indices: 32155472--32155512 Score: 73
Period size: 11 Copynumber: 3.7 Consensus size: 11
32155462 ATTTTTTATA
32155472 TTTTAAAATAT
1 TTTTAAAATAT
32155483 TTTTAAAATAT
1 TTTTAAAATAT
*
32155494 TTTTAAAATTT
1 TTTTAAAATAT
32155505 TTTTAAAA
1 TTTTAAAA
32155513 ATTGGTGTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:32157019 original size:28 final size:28
Alignment explanation
Indices: 32156981--32157039 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
32156971 TGTGATTAAA
*
32156981 GCGCCGTTAAAGATCATGCTCTTTAGCG
1 GCGCCGCTAAAGATCATGCTCTTTAGCG
*
32157009 GCGCCGCTAAAGATCATGTTCTTTAGCG
1 GCGCCGCTAAAGATCATGCTCTTTAGCG
32157037 GCG
1 GCG
32157040 TTTGTTGGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.20, C:0.25, G:0.27, T:0.27
Consensus pattern (28 bp):
GCGCCGCTAAAGATCATGCTCTTTAGCG
Found at i:32157220 original size:43 final size:43
Alignment explanation
Indices: 32157009--32157253 Score: 224
Period size: 43 Copynumber: 5.7 Consensus size: 43
32156999 CTCTTTAGCG
* * *
32157009 GCGCCGCT-AAAGATCATGTTCTTTAGCGGCGTTTGTTGGTAAAA
1 GCGCCGCTAAAAG-TCATGATCTATAGCGGCGTTTG-TGGGAAAA
* * * * * * *
32157053 -CGCCTCTAAAGGTCATGTTCTTTAGCAGTGTTTGTGGGTAAA
1 GCGCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAAAA
* * * ** *
32157095 GCACCGCTAAAACTCATGTTCTATAGCATCGTTTGTAGGAAAA
1 GCGCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAAAA
* *
32157138 CCGCCGCTAAAAGTCATGATCTATAGCGGCGTTTATGGGAAAA
1 GCGCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAAAA
* * *
32157181 GCGCTGCTAAAAGTCATGATCTATAGCGCCGTTTGTGGGAGAA
1 GCGCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAAAA
** * * *
32157224 GCGTTGCTAAAGGTCATGACCTTTAGCGGC
1 GCGCCGCTAAAAGTCATGATCTATAGCGGC
32157254 ATTTTTGTAC
Statistics
Matches: 166, Mismatches: 33, Indels: 5
0.81 0.16 0.02
Matches are distributed among these distances:
42 6 0.04
43 157 0.95
44 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.29
Consensus pattern (43 bp):
GCGCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAAAA
Found at i:32160278 original size:29 final size:29
Alignment explanation
Indices: 32160244--32160469 Score: 179
Period size: 29 Copynumber: 7.7 Consensus size: 29
32160234 TCACAATCTT
* *
32160244 TTTTCATAGTTGACGGTCGTCACCATCCC
1 TTTTCATAATTGATGGTCGTCACCATCCC
* * * *** *
32160273 CTTTCATAATCGATAG-CCAAAGCTATCCC
1 TTTTCATAATTGATGGTCGTCA-CCATCCC
*
32160302 TTTTCATAATTCGATGGCCGTCACCATCCC
1 TTTTCATAATT-GATGGTCGTCACCATCCC
* *
32160332 TTTTCATAGTTGATGGTCCTCACCATCCC
1 TTTTCATAATTGATGGTCGTCACCATCCC
* * * * * *
32160361 -TTTCATAATCGATAGCCG-AAGCTATCCT
1 TTTTCATAATTGATGGTCGTCA-CCATCCC
32160389 TTTTCATAATTCGATGGTCGTCACCATCCC
1 TTTTCATAATT-GATGGTCGTCACCATCCC
* * *
32160419 TTTTCATAGTTGATAGTCATCACCATCCC
1 TTTTCATAATTGATGGTCGTCACCATCCC
* *
32160448 ATTACATAATTGAGTGGTCGTC
1 TTTTCATAATTGA-TGGTCGTC
32160470 GATACGCCGT
Statistics
Matches: 148, Mismatches: 41, Indels: 15
0.73 0.20 0.07
Matches are distributed among these distances:
27 1 0.01
28 20 0.14
29 77 0.52
30 47 0.32
31 3 0.02
ACGTcount: A:0.23, C:0.28, G:0.14, T:0.35
Consensus pattern (29 bp):
TTTTCATAATTGATGGTCGTCACCATCCC
Found at i:32160386 original size:87 final size:87
Alignment explanation
Indices: 32160244--32160457 Score: 338
Period size: 87 Copynumber: 2.4 Consensus size: 87
32160234 TCACAATCTT
* *
32160244 TTTTCATAGTTGACGGTCGTCACCATCCCCTTTCATAATCGATAGCCAAAGCTATCCCTTTTCAT
1 TTTTCATAGTTGATGGTCATCACCAT-CCCTTTCATAATCGATAGCCAAAGCTATCCCTTTTCAT
32160309 AATTCGATGGCCGTCACCATCCC
65 AATTCGATGGCCGTCACCATCCC
* * *
32160332 TTTTCATAGTTGATGGTCCTCACCATCCCTTTCATAATCGATAGCCGAAGCTATCCTTTTTCATA
1 TTTTCATAGTTGATGGTCATCACCATCCCTTTCATAATCGATAGCCAAAGCTATCCCTTTTCATA
*
32160397 ATTCGATGGTCGTCACCATCCC
66 ATTCGATGGCCGTCACCATCCC
* *
32160419 TTTTCATAGTTGATAGTCATCACCATCCCATTACATAAT
1 TTTTCATAGTTGATGGTCATCACCATCCC-TTTCATAAT
32160458 TGAGTGGTCG
Statistics
Matches: 117, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
87 85 0.73
88 32 0.27
ACGTcount: A:0.24, C:0.29, G:0.13, T:0.35
Consensus pattern (87 bp):
TTTTCATAGTTGATGGTCATCACCATCCCTTTCATAATCGATAGCCAAAGCTATCCCTTTTCATA
ATTCGATGGCCGTCACCATCCC
Found at i:32160467 original size:59 final size:58
Alignment explanation
Indices: 32160297--32160469 Score: 181
Period size: 59 Copynumber: 2.9 Consensus size: 58
32160287 AGCCAAAGCT
* * * *
32160297 ATCCCTTTTCATAATTCGATGGCCGTCACCATCCCTTTTCATAGTTGATGGTCCTCACC
1 ATCCCTTTTCATAATT-GATAGCCATCACCATCCCTTTTCATAATTGATGGTCGTCACC
* * *
32160356 ATCCC-TTTCATAATCGATAGCCGA--AGCTATCCTTTTTCATAATTCGATGGTCGTCACC
1 ATCCCTTTTCATAATTGATAGCC-ATCA-CCATCCCTTTTCATAATT-GATGGTCGTCACC
* * * *
32160414 ATCCCTTTTCATAGTTGATAGTCATCACCATCCCATTACATAATTGAGTGGTCGTC
1 ATCCCTTTTCATAATTGATAGCCATCACCATCCCTTTTCATAATTGA-TGGTCGTC
32160470 GATACGCCGT
Statistics
Matches: 93, Mismatches: 14, Indels: 14
0.77 0.12 0.12
Matches are distributed among these distances:
56 1 0.01
57 21 0.23
58 29 0.31
59 41 0.44
60 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.14, T:0.35
Consensus pattern (58 bp):
ATCCCTTTTCATAATTGATAGCCATCACCATCCCTTTTCATAATTGATGGTCGTCACC
Found at i:32164801 original size:20 final size:20
Alignment explanation
Indices: 32164776--32164824 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
32164766 CTGCTTATAC
*
32164776 TAAGTAAATGGAATGGAAAG
1 TAAGTAAATGAAATGGAAAG
32164796 TAAGTAAATGAAATGGAAAG
1 TAAGTAAATGAAATGGAAAG
32164816 TAAGTAAAT
1 TAAGTAAAT
32164825 CGAGTGGTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.24, T:0.22
Consensus pattern (20 bp):
TAAGTAAATGAAATGGAAAG
Found at i:32165756 original size:42 final size:42
Alignment explanation
Indices: 32165710--32165807 Score: 142
Period size: 42 Copynumber: 2.3 Consensus size: 42
32165700 ACATGGCCTG
* *
32165710 GCACACGGGCGTGTAAGGCCATTTTGAGTGTTACACGACCTA
1 GCACACGGGCGTGTAAGGCCATTCTGAGTGTTACAAGACCTA
* * *
32165752 GCACAGGGGTGTGTAAGGCCATTCTGAGTGTTACAAGGCCTA
1 GCACACGGGCGTGTAAGGCCATTCTGAGTGTTACAAGACCTA
*
32165794 GCATACGGGCGTGT
1 GCACACGGGCGTGT
32165808 GGCTTCATCG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.22, C:0.21, G:0.33, T:0.23
Consensus pattern (42 bp):
GCACACGGGCGTGTAAGGCCATTCTGAGTGTTACAAGACCTA
Found at i:32167189 original size:21 final size:20
Alignment explanation
Indices: 32167165--32167204 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
32167155 AAAACACAAG
32167165 TTGAAATAAACGGATTTAATT
1 TTGAAA-AAACGGATTTAATT
* *
32167186 TTGAAAACACGTATTTAAT
1 TTGAAAAAACGGATTTAAT
32167205 ATTTCTTTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.42, C:0.07, G:0.12, T:0.38
Consensus pattern (20 bp):
TTGAAAAAACGGATTTAATT
Found at i:32168730 original size:30 final size:29
Alignment explanation
Indices: 32168656--32168770 Score: 106
Period size: 29 Copynumber: 3.9 Consensus size: 29
32168646 GGCTATCGAT
*
32168656 TATGAAAAGGGGTGGTGACGACCATCAAC
1 TATGAAAAGGGATGGTGACGACCATCAAC
* *
32168685 TATGTAAAGGGATGGTGACGACCATCAAT
1 TATGAAAAGGGATGGTGACGACCATCAAC
* ****
32168714 TAATGAAAAAGGATGGTTTTAACCATCGAA-
1 T-ATGAAAAGGGATGGTGACGACCATC-AAC
* * *
32168744 TATGAAAAGGGACGGTTACAACCATCA
1 TATGAAAAGGGATGGTGACGACCATCA
32168771 TTTAGCACGC
Statistics
Matches: 71, Mismatches: 13, Indels: 5
0.80 0.15 0.06
Matches are distributed among these distances:
28 1 0.01
29 48 0.68
30 20 0.28
31 2 0.03
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (29 bp):
TATGAAAAGGGATGGTGACGACCATCAAC
Found at i:32169958 original size:15 final size:16
Alignment explanation
Indices: 32169938--32169967 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32169928 TGGTGCCTAG
32169938 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
32169953 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
32169968 AGCATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:32172397 original size:31 final size:31
Alignment explanation
Indices: 32172350--32172697 Score: 321
Period size: 31 Copynumber: 11.3 Consensus size: 31
32172340 TAAGTTCCCG
* * *
32172350 AATTGATTCGTATATGGTTGTACATTGTTGA
1 AATTGATTTGTATATGGTTATACATTGCTGA
* *
32172381 AATTAATTTGTATATGGTTATACATTGTTGA
1 AATTGATTTGTATATGGTTATACATTGCTGA
* * * *
32172412 AATTGAATTGTATATGGATATA-AGTAGCCG-
1 AATTGATTTGTATATGGTTATACA-TTGCTGA
* *
32172442 AATTGATTTGTATATGATTATATATTGCTGA
1 AATTGATTTGTATATGGTTATACATTGCTGA
* * * *
32172473 AGTTAATTTGTACATGGTTATACATTGTTGA
1 AATTGATTTGTATATGGTTATACATTGCTGA
* * *
32172504 AATTGAATAGTATATGGATATA-AGTTGCTG-
1 AATTGATTTGTATATGGTTATACA-TTGCTGA
**
32172534 AATTGATTCATATATGGTTATACATTGCTGA
1 AATTGATTTGTATATGGTTATACATTGCTGA
* * *
32172565 ATTTAATTTGTATATGATTATACATTGCTGA
1 AATTGATTTGTATATGGTTATACATTGCTGA
* * * *
32172596 ACTTGATTCGTATATGGGTTGTACATTGCCG-
1 AATTGATTTGTATAT-GGTTATACATTGCTGA
* * *
32172627 AATTGATTTGTATATAGATATACATTGCAGA
1 AATTGATTTGTATATGGTTATACATTGCTGA
* ** *
32172658 AATTGGTTTGTATATGAATATATATTGCTG-
1 AATTGATTTGTATATGGTTATACATTGCTGA
32172688 AATTGATTTG
1 AATTGATTTG
32172698 AGCATTGGAT
Statistics
Matches: 255, Mismatches: 54, Indels: 17
0.78 0.17 0.05
Matches are distributed among these distances:
30 69 0.27
31 174 0.68
32 12 0.05
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.43
Consensus pattern (31 bp):
AATTGATTTGTATATGGTTATACATTGCTGA
Found at i:32172422 original size:92 final size:92
Alignment explanation
Indices: 32172312--32172673 Score: 449
Period size: 92 Copynumber: 3.9 Consensus size: 92
32172302 TTTTATGGAA
* * * *
32172312 ATTGTTGAAATTGCATTGTATATGAATATAAGTTCCCGAATTGATTCGTATATGGTTGTACATTG
1 ATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTCGTATATGGTTATACATTG
*
32172377 TTGAAATTAATTTGTATATGGTTATAC
66 CTGAAATTAATTTGTATATGGTTATAC
* * * *
32172404 ATTGTTGAAATTGAATTGTATATGGATATAAGTAGCCGAATTGATTTGTATATGATTATATATTG
1 ATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTCGTATATGGTTATACATTG
* *
32172469 CTGAAGTTAATTTGTACATGGTTATAC
66 CTGAAATTAATTTGTATATGGTTATAC
* * *
32172496 ATTGTTGAAATTGAATAGTATATGGATATAAGTTGCTGAATTGATTCATATATGGTTATACATTG
1 ATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTCGTATATGGTTATACATTG
* *
32172561 CTGAATTTAATTTGTATATGATTATAC
66 CTGAAATTAATTTGTATATGGTTATAC
* * * * * * *
32172588 ATTGCTGAACTTG-ATTCGTATATGGGTTGTACA-TTGCCGAATTGATTTGTATATAGATATACA
1 ATTGTTGAAATTGAATT-GTATAT-GGATATA-AGTTGCCGAATTGATTCGTATATGGTTATACA
* **
32172651 TTGCAGAAATTGGTTTGTATATG
63 TTGCTGAAATTAATTTGTATATG
32172674 AATATATATT
Statistics
Matches: 232, Mismatches: 35, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
91 2 0.01
92 180 0.78
93 49 0.21
94 1 0.00
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.43
Consensus pattern (92 bp):
ATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTCGTATATGGTTATACATTG
CTGAAATTAATTTGTATATGGTTATAC
Found at i:32172451 original size:61 final size:60
Alignment explanation
Indices: 32172350--32172697 Score: 306
Period size: 61 Copynumber: 5.7 Consensus size: 60
32172340 TAAGTTCCCG
* * * *
32172350 AATTGATTCGTATATGGTTGTACATTGTTGAAATTAATTTGTATATGGTTATACATTGTTGA
1 AATTGATT-GTATATGGTTATACATTGCTG-AATTGATTTGTATATGGTTATACATTGCTGA
* * * * *
32172412 AATTGAATTGTATATGGATATA-AGTAGCCGAATTGATTTGTATATGATTATATATTGCTGA
1 AATTG-ATTGTATATGGTTATACA-TTGCTGAATTGATTTGTATATGGTTATACATTGCTGA
* * * * * * *
32172473 AGTTAATTTGTACATGGTTATACATTGTTGAAATTGAATAGTATATGGATATA-AGTTGCTG-
1 AATTGA-TTGTATATGGTTATACATTGCTG-AATTGATTTGTATATGGTTATACA-TTGCTGA
* * *
32172534 AATTGATTCATATATGGTTATACATTGCTGAATTTAATTTGTATATGATTATACATTGCTGA
1 AATTGATT-GTATATGGTTATACATTGCTGAA-TTGATTTGTATATGGTTATACATTGCTGA
* * * * * *
32172596 ACTTGATTCGTATATGGGTTGTACATTGCCGAATTGATTTGTATATAGATATACATTGCAGA
1 AATTGATT-GTATAT-GGTTATACATTGCTGAATTGATTTGTATATGGTTATACATTGCTGA
* ** *
32172658 AATTGGTTTGTATATGAATATATATTGCTGAATTGATTTG
1 AATT-GATTGTATATGGTTATACATTGCTGAATTGATTTG
32172698 AGCATTGGAT
Statistics
Matches: 228, Mismatches: 46, Indels: 25
0.76 0.15 0.08
Matches are distributed among these distances:
60 5 0.02
61 111 0.49
62 91 0.40
63 21 0.09
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.43
Consensus pattern (60 bp):
AATTGATTGTATATGGTTATACATTGCTGAATTGATTTGTATATGGTTATACATTGCTGA
Found at i:32172501 original size:123 final size:122
Alignment explanation
Indices: 32172355--32172697 Score: 372
Period size: 123 Copynumber: 2.8 Consensus size: 122
32172345 TCCCGAATTG
* * *
32172355 ATTCGTATATGGTTGTACATTGTTGAAATTAATTTGTATATGGTTATACATTGTTGAAATTGAAT
1 ATTCGTACATGGTTGTACATTGTTGAAATTAATTTGTATATGGATATACATTGCTGAAATTG-AT
* * * *
32172420 TGTATATGGATATA-AGTAGCCGAATTGATTTGTATATGATTATATATTGCTGAAGTTA
65 TGTATATGGATATACA-TTGCTGAATTGATTTGTATATGATTATACATTGCTGAACTTA
* * *
32172478 ATTTGTACATGGTTATACATTGTTGAAATTGAA-TAGTATATGGATATA-AGTTGCTG-AATTGA
1 ATTCGTACATGGTTGTACATTGTTGAAATT-AATTTGTATATGGATATACA-TTGCTGAAATTGA
* * * *
32172540 TTCATATATGGTTATACATTGCTGAATTTAATTTGTATATGATTATACATTGCTGAACTTG
64 TT-GTATATGGATATACATTGCTGAA-TTGATTTGTATATGATTATACATTGCTGAACTTA
* ** * * * *
32172601 ATTCGTATATGGGTTGTACATTGCCG-AATTGATTTGTATATAGATATACATTGCAGAAATTGGT
1 ATTCGTACAT-GGTTGTACATTGTTGAAATTAATTTGTATATGGATATACATTGCTGAAATT-GA
* *
32172665 TTGTATATGAATATATATTGCTGAATTGATTTG
64 TTGTATATGGATATACATTGCTGAATTGATTTG
32172698 AGCATTGGAT
Statistics
Matches: 181, Mismatches: 29, Indels: 20
0.79 0.13 0.09
Matches are distributed among these distances:
121 3 0.02
122 24 0.13
123 113 0.62
124 38 0.21
125 3 0.02
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.43
Consensus pattern (122 bp):
ATTCGTACATGGTTGTACATTGTTGAAATTAATTTGTATATGGATATACATTGCTGAAATTGATT
GTATATGGATATACATTGCTGAATTGATTTGTATATGATTATACATTGCTGAACTTA
Found at i:32179122 original size:25 final size:25
Alignment explanation
Indices: 32179094--32179148 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
32179084 TAATTATAGA
*
32179094 TATAAATTGTCGAATTTG-ATTGTTT
1 TATAAATTGCCGAATTTGAATTG-TT
*
32179119 TATATATTGCCGAATTTGAATTGTT
1 TATAAATTGCCGAATTTGAATTGTT
32179144 TATAA
1 TATAA
32179149 TTATACATTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 22 0.85
26 4 0.15
ACGTcount: A:0.31, C:0.05, G:0.15, T:0.49
Consensus pattern (25 bp):
TATAAATTGCCGAATTTGAATTGTT
Found at i:32179248 original size:31 final size:31
Alignment explanation
Indices: 32179149--32179772 Score: 399
Period size: 31 Copynumber: 20.4 Consensus size: 31
32179139 TTGTTTATAA
* **
32179149 TTATACATTGCCT-AAATTGATTTGCGTATGG
1 TTATACATTG-CTGAAATTAATTTGTATATGG
* * * *
32179180 ATATA-AGTTGCCG-AATTGATTTGTATATGA
1 TTATACA-TTGCTGAAATTAATTTGTATATGG
* * **
32179210 TTGTACATTGCTGAAATTAATTTTTATATAT
1 TTATACATTGCTGAAATTAATTTGTATATGG
** *
32179241 TTATACATTATTAAAATTGAA-TTGTATATGG
1 TTATACATTGCTGAAATT-AATTTGTATATGG
* * *
32179272 ATATA-AGTTG-TCG-AATTGATTTGTATATGT
1 TTATACA-TTGCT-GAAATTAATTTGTATATGG
* *
32179302 TTATACGTTGCTGAAATTAATTTGTACATGG
1 TTATACATTGCTGAAATTAATTTGTATATGG
**
32179333 TTATACATTATTGAAATTGAA-TTGTATATGG
1 TTATACATTGCTGAAATT-AATTTGTATATGG
* * * * **
32179364 ATATA-AGTTGCCG-AATTGATTTATATATAA
1 TTATACA-TTGCTGAAATTAATTTGTATATGG
*
32179394 TTGTACATTGCTGAAATTAATTTGTATATGG
1 TTATACATTGCTGAAATTAATTTGTATATGG
* *
32179425 TTATACATTGTTGAAATTGAA-TTGCATATGG
1 TTATACATTGCTGAAATT-AATTTGTATATGG
* * * * * *
32179456 ATATA-AGTGGTCG-AATTGATTCGTATTTGG
1 TTATACATTGCT-GAAATTAATTTGTATATGG
* * *
32179486 TTGTACATTGCTTAAATTAATTTATATATGG
1 TTATACATTGCTGAAATTAATTTGTATATGG
* *
32179517 TTATACATTGTTAAAATTGAA-TTGTATATGG
1 TTATACATTGCTGAAATT-AATTTGTATATGG
* * * * * *
32179548 ATATAAATTGCCG-AATTGATTTGTACATGA
1 TTATACATTGCTGAAATTAATTTGTATATGG
* * *
32179578 TTATATATTGCTAAAATTAATTTGTACATGG
1 TTATACATTGCTGAAATTAATTTGTATATGG
* *
32179609 TTATACATTGTTGAAATTGAA-TAGTATATGG
1 TTATACATTGCTGAAATT-AATTTGTATATGG
* * * *
32179640 ATATA-AGTTGCCG-AATTTATTCGTATATGG
1 TTATACA-TTGCTGAAATTAATTTGTATATGG
*
32179670 TTATACATTGCTG-AATCTAATTTGTATATGA
1 TTATACATTGCTGAAAT-TAATTTGTATATGG
* * * *
32179701 TTATACATAGC-CAAACTTGATTCGTATATGG
1 TTATACATTGCTGAAA-TTAATTTGTATATGG
* *
32179732 TTGTACATTGCTG-AATTAATTTGTATATAG
1 TTATACATTGCTGAAATTAATTTGTATATGG
*
32179762 ATATACATTGC
1 TTATACATTGC
32179773 CAAATTTGGT
Statistics
Matches: 448, Mismatches: 113, Indels: 65
0.72 0.18 0.10
Matches are distributed among these distances:
29 5 0.01
30 153 0.34
31 279 0.62
32 11 0.02
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (31 bp):
TTATACATTGCTGAAATTAATTTGTATATGG
Found at i:32179248 original size:92 final size:92
Alignment explanation
Indices: 32179149--32179772 Score: 747
Period size: 92 Copynumber: 6.8 Consensus size: 92
32179139 TTGTTTATAA
* * ** *
32179149 TTATACATTGCCT-AAATTGATTTGCGTATGGATATAAGTTGCCGAATTGATTTGTATATGATTG
1 TTATACATTG-TTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGTATATGATTA
* **
32179213 TACATTGCTGAAATTAATTTTTATATAT
65 TACATTGCTGAAATTAATTTGTATATGG
* * * *
32179241 TTATACATTATTAAAATTGAATTGTATATGGATATAAGTTGTCGAATTGATTTGTATATGTTTAT
1 TTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGTATATGATTAT
* *
32179306 ACGTTGCTGAAATTAATTTGTACATGG
66 ACATTGCTGAAATTAATTTGTATATGG
* * * *
32179333 TTATACATTATTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTATATATAATTGT
1 TTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGTATATGATTAT
32179398 ACATTGCTGAAATTAATTTGTATATGG
66 ACATTGCTGAAATTAATTTGTATATGG
* * * * * * *
32179425 TTATACATTGTTGAAATTGAATTGCATATGGATATAAGTGGTCGAATTGATTCGTATTTGGTTGT
1 TTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGTATATGATTAT
* *
32179490 ACATTGCTTAAATTAATTTATATATGG
66 ACATTGCTGAAATTAATTTGTATATGG
* * *
32179517 TTATACATTGTTAAAATTGAATTGTATATGGATATAAATTGCCGAATTGATTTGTACATGATTAT
1 TTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGTATATGATTAT
* * *
32179582 ATATTGCTAAAATTAATTTGTACATGG
66 ACATTGCTGAAATTAATTTGTATATGG
* * * *
32179609 TTATACATTGTTGAAATTGAATAGTATATGGATATAAGTTGCCGAATTTATTCGTATATGGTTAT
1 TTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGTATATGATTAT
*
32179674 ACATTGCTG-AATCTAATTTGTATATGA
66 ACATTGCTGAAAT-TAATTTGTATATGG
* ** * * * *
32179701 TTATACATAG-CCAAACTTG-ATTCGTATATGGTTGTACA-TTGCTGAATTAATTTGTATATAGA
1 TTATACATTGTTGAAA-TTGAATT-GTATATGGATATA-AGTTGCCGAATTGATTTGTATAT-GA
32179763 -TATACATTGC
62 TTATACATTGC
32179773 CAAATTTGGT
Statistics
Matches: 459, Mismatches: 67, Indels: 12
0.85 0.12 0.02
Matches are distributed among these distances:
91 9 0.02
92 448 0.98
93 2 0.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (92 bp):
TTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGTATATGATTAT
ACATTGCTGAAATTAATTTGTATATGG
Found at i:32179566 original size:276 final size:276
Alignment explanation
Indices: 32179139--32179708 Score: 829
Period size: 276 Copynumber: 2.1 Consensus size: 276
32179129 CGAATTTGAA
* * * * * *
32179139 TTGTTTATAATTATACATTGCCTAAATTGATTTGCGTATGGATATAAGTTGCCGAATTGATTTGT
1 TTGTATATGATTATACATTGCCTAAATTGAATTGCATATGGATATAAGTGGCCGAATTGATTCGT
* *
32179204 ATATGATTGTACATTGCTGAAATTAATTTTTATATATTTATACATTATTAAAATTGAATTGTATA
66 ATATGATTGTACATTGCTGAAATTAATTTATATATAGTTATACATTATTAAAATTGAATTGTATA
* * * * * *
32179269 TGGATATAAGTTGTCGAATTGATTTGTATATGTTTATACGTTGCTGAAATTAATTTGTACATGGT
131 TGGATATAAATTGCCGAATTGATTTGTACATGATTATACATTGCTAAAATTAATTTGTACATGGT
* * *
32179334 TATACATTATTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTATATATAATTGTA
196 TATACATTATTGAAATTGAATAGTATATGGATATAAGTTGCCGAATTGATTCATATATAATTATA
32179399 CATTGCTGAAAT-TAAT
261 CATTGCTG-AATCTAAT
* * *
32179415 TTGTATATGGTTATACATTG-TTGAAATTGAATTGCATATGGATATAAGTGGTCGAATTGATTCG
1 TTGTATATGATTATACATTGCCT-AAATTGAATTGCATATGGATATAAGTGGCCGAATTGATTCG
* * * * *
32179479 TATTTGGTTGTACATTGCTTAAATTAATTTATATATGGTTATACATTGTTAAAATTGAATTGTAT
65 TATATGATTGTACATTGCTGAAATTAATTTATATATAGTTATACATTATTAAAATTGAATTGTAT
*
32179544 ATGGATATAAATTGCCGAATTGATTTGTACATGATTATATATTGCTAAAATTAATTTGTACATGG
130 ATGGATATAAATTGCCGAATTGATTTGTACATGATTATACATTGCTAAAATTAATTTGTACATGG
* * * **
32179609 TTATACATTGTTGAAATTGAATAGTATATGGATATAAGTTGCCGAATTTATTCGTATATGGTTAT
195 TTATACATTATTGAAATTGAATAGTATATGGATATAAGTTGCCGAATTGATTCATATATAATTAT
32179674 ACATTGCTGAATCTAAT
260 ACATTGCTGAATCTAAT
32179691 TTGTATATGATTATACAT
1 TTGTATATGATTATACAT
32179709 AGCCAAACTT
Statistics
Matches: 260, Mismatches: 32, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
275 4 0.02
276 256 0.98
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.44
Consensus pattern (276 bp):
TTGTATATGATTATACATTGCCTAAATTGAATTGCATATGGATATAAGTGGCCGAATTGATTCGT
ATATGATTGTACATTGCTGAAATTAATTTATATATAGTTATACATTATTAAAATTGAATTGTATA
TGGATATAAATTGCCGAATTGATTTGTACATGATTATACATTGCTAAAATTAATTTGTACATGGT
TATACATTATTGAAATTGAATAGTATATGGATATAAGTTGCCGAATTGATTCATATATAATTATA
CATTGCTGAATCTAAT
Found at i:32179730 original size:184 final size:182
Alignment explanation
Indices: 32179053--32179772 Score: 751
Period size: 184 Copynumber: 3.9 Consensus size: 182
32179043 TGAATGTAAA
* * * * *
32179053 TGTATATGTTTTATACATTGTTGAATTTG-ATT-AATTATAGATATAAATTGTCGAATTTGATT-
1 TGTATATG-GTTATACATTGTTGAAATTGAATTGTA-TATGGATATAAGTTGTCGAA-TTGATTC
* * * * * * *
32179115 G--T-T--TTATATATTGCCGAATTTGAA-TTGTTTATAATTATACATTGCCTAAATTGATTTGC
63 GTATATGGTTATACATTGCTGAA-TT-AATTTGTATATGATTATACATAGCC-AAATTGAATTGT
* *
32179174 GTATGGATATAAGTTGCCGAATTGATTTGTATATGATTGTACATTGCTGAAATTAATT
125 ATATGGATATAAATTGCCGAATTGATTTGTATATGATTGTACATTGCTGAAATTAATT
* ** * * *
32179232 TTTATATATTTATACATTATTAAAATTGAATTGTATATGGATATAAGTTGTCGAATTGATTTGTA
1 TGTATATGGTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGTCGAATTGATTCGTA
* * * * ***
32179297 TATGTTTATACGTTGCTGAAATTAATTTGTACATGGTTATACATTATTGAAATTGAATTGTATAT
66 TATGGTTATACATTGCTG-AATTAATTTGTATATGATTATACA-TAGCCAAATTGAATTGTATAT
* * *
32179362 GGATATAAGTTGCCGAATTGATTTATATATAATTGTACATTGCTGAAATTAATT
129 GGATATAAATTGCCGAATTGATTTGTATATGATTGTACATTGCTGAAATTAATT
* *
32179416 TGTATATGGTTATACATTGTTGAAATTGAATTGCATATGGATATAAGTGGTCGAATTGATTCGTA
1 TGTATATGGTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGTCGAATTGATTCGTA
* * * * * * **
32179481 TTTGGTTGTACATTGCTTAAATTAATTTATATATGGTTATACATTGTTAAAATTGAATTGTATAT
66 TATGGTTATACATTGC-TGAATTAATTTGTATATGATTATACATAG-CCAAATTGAATTGTATAT
* * * *
32179546 GGATATAAATTGCCGAATTGATTTGTACATGATTATATATTGCTAAAATTAATT
129 GGATATAAATTGCCGAATTGATTTGTATATGATTGTACATTGCTGAAATTAATT
* * * *
32179600 TGTACATGGTTATACATTGTTGAAATTGAATAGTATATGGATATAAGTTGCCGAATTTATTCGTA
1 TGTATATGGTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGTCGAATTGATTCGTA
32179665 TATGGTTATACATTGCTGAATCTAATTTGTATATGATTATACATAGCCAAACTTG-ATTCGTATA
66 TATGGTTATACATTGCTGAAT-TAATTTGTATATGATTATACATAGCCAAA-TTGAATT-GTATA
* * * * * *
32179729 TGGTTGTACATTGCTGAATTAATTTGTATATAGA-TATACATTGC
128 TGGATATAAATTGCCGAATTGATTTGTATAT-GATTGTACATTGC
32179773 CAAATTTGGT
Statistics
Matches: 454, Mismatches: 70, Indels: 29
0.82 0.13 0.05
Matches are distributed among these distances:
178 23 0.05
179 28 0.06
180 1 0.00
181 1 0.00
182 1 0.00
183 13 0.03
184 381 0.84
185 6 0.01
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.44
Consensus pattern (182 bp):
TGTATATGGTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGTCGAATTGATTCGTA
TATGGTTATACATTGCTGAATTAATTTGTATATGATTATACATAGCCAAATTGAATTGTATATGG
ATATAAATTGCCGAATTGATTTGTATATGATTGTACATTGCTGAAATTAATT
Found at i:32179786 original size:61 final size:60
Alignment explanation
Indices: 32179150--32179815 Score: 341
Period size: 61 Copynumber: 10.9 Consensus size: 60
32179140 TGTTTATAAT
* * ** * * *
32179150 TATACATTGCCTAAATTGATTTGCGTATGGATATA-AGTTGCCGAATTGATTTGTATATGA
1 TATACATTGCCAAAATTGATTCGTATATGGTTATACA-TTGCTGAATTAATTTGTATATGA
* ** * ** ** ** *
32179210 TTGTACATTGCTGAAATTAATTTTTATATATTTATACATTATTAAAATTGAA-TTGTATATGGA
1 -TATACATTGCCAAAATTGATTCGTATATGGTTATACATTGCT-GAATT-AATTTGTATAT-GA
* * * * * * *
32179273 TATA-AGTTGTC-GAATTGATTTGTATATGTTTATACGTTGCTGAAATTAATTTGTACATGGT
1 TATACA-TTGCCAAAATTGATTCGTATATGGTTATACATTGCTG-AATTAATTTGTATAT-GA
**** * * * * *
32179334 TATACATTATTGAAATTGAATT-GTATATGGATATA-AGTTGCCGAATTGATTTATATATAA
1 TATACATTGCCAAAATTG-ATTCGTATATGGTTATACA-TTGCTGAATTAATTTGTATATGA
* ** * * * *
32179394 TTGTACATTGCTGAAATTAATTTGTATATGGTTATACATTGTTGAAATTGAA-TTGCATATGGA
1 -TATACATTGCCAAAATTGATTCGTATATGGTTATACATTGCTG-AATT-AATTTGTATAT-GA
* * * * * * * *
32179457 TATA-AGTGGTC-GAATTGATTCGTATTTGGTTGTACATTGCTTAAATTAATTTATATATGGT
1 TATACA-TTGCCAAAATTGATTCGTATATGGTTATACATTGC-TGAATTAATTTGTATAT-GA
** * * * * *
32179518 TATACATTGTTAAAATTGAATT-GTATATGGATATAAATTGCCGAATTGATTTGTACATGA
1 TATACATTGCCAAAATTG-ATTCGTATATGGTTATACATTGCTGAATTAATTTGTATATGA
* * * * * * *
32179578 TTATATATTGCTAAAATTAATTTGTACATGGTTATACATTGTTGAAATTGAA-TAGTATATGGA
1 -TATACATTGCCAAAATTGATTCGTATATGGTTATACATTGCTG-AATT-AATTTGTATAT-GA
* *
32179641 TATA-AGTTGCC-GAATTTATTCGTATATGGTTATACATTGCTGAATCTAATTTGTATATGA
1 TATACA-TTGCCAAAATTGATTCGTATATGGTTATACATTGCTGAAT-TAATTTGTATATGA
* * *
32179701 TTATACATAGCCAAACTTGATTCGTATATGGTTGTACATTGCTGAATTAATTTGTATATAGA
1 -TATACATTGCCAAAATTGATTCGTATATGGTTATACATTGCTGAATTAATTTGTATAT-GA
* * ** * *
32179763 TATACATTGCCAAATTTGGTTCGTATATGAATATATATTGCTGAATTGATTTG
1 TATACATTGCCAAAATTGATTCGTATATGGTTATACATTGCTGAATTAATTTG
32179816 AGCATTGGAT
Statistics
Matches: 461, Mismatches: 109, Indels: 70
0.72 0.17 0.11
Matches are distributed among these distances:
60 18 0.04
61 299 0.65
62 130 0.28
63 14 0.03
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (60 bp):
TATACATTGCCAAAATTGATTCGTATATGGTTATACATTGCTGAATTAATTTGTATATGA
Found at i:32179797 original size:31 final size:31
Alignment explanation
Indices: 32179531--32179809 Score: 122
Period size: 31 Copynumber: 9.1 Consensus size: 31
32179521 ACATTGTTAA
* * *
32179531 AATTGAATT-GTATATGGATATAAATTGCCG
1 AATTTAATTCGTATATGAATATACATTGCCG
* * * * * **
32179561 AA-TTGATTTGTACATGATTATATATTGCTA
1 AATTTAATTCGTATATGAATATACATTGCCG
* * * ** **
32179591 AAATTAATTTGTACATGGTTATACATTGTTG
1 AATTTAATTCGTATATGAATATACATTGCCG
* * *
32179622 AAATTGAA-TAGTATATGGATATA-AGTTGCCG
1 -AATTTAATTCGTATATGAATATACA-TTGCCG
** *
32179653 AATTT-ATTCGTATATGGTTATACATTGCTG
1 AATTTAATTCGTATATGAATATACATTGCCG
* * * * *
32179683 AATCTAATTTGTATATGATTATACATAGCCA
1 AATTTAATTCGTATATGAATATACATTGCCG
* * ** * *
32179714 AACTTGATTCGTATATGGTTGTACATTGCTG
1 AATTTAATTCGTATATGAATATACATTGCCG
* *
32179745 AA-TTAATTTGTATAT-AGATATACATTGCCA
1 AATTTAATTCGTATATGA-ATATACATTGCCG
** * *
32179775 AATTTGGTTCGTATATGAATATATATTGCTG
1 AATTTAATTCGTATATGAATATACATTGCCG
32179806 AATT
1 AATT
32179810 GATTTGAGCA
Statistics
Matches: 187, Mismatches: 52, Indels: 19
0.72 0.20 0.07
Matches are distributed among these distances:
29 5 0.03
30 68 0.36
31 108 0.58
32 6 0.03
ACGTcount: A:0.33, C:0.09, G:0.16, T:0.42
Consensus pattern (31 bp):
AATTTAATTCGTATATGAATATACATTGCCG
Found at i:32180987 original size:26 final size:26
Alignment explanation
Indices: 32180938--32180987 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
32180928 GTGTTACAGT
* *
32180938 TAGTCTGGTTGATTAATTATTGGCAA
1 TAGTCTGGTTGATTAATCAATGGCAA
32180964 TAGTCTGGTTGATTAATCAATGGC
1 TAGTCTGGTTGATTAATCAATGGC
32180988 CAAAGTGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.26, C:0.10, G:0.24, T:0.40
Consensus pattern (26 bp):
TAGTCTGGTTGATTAATCAATGGCAA
Found at i:32182744 original size:22 final size:22
Alignment explanation
Indices: 32182719--32182772 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
32182709 TGTGGACATG
32182719 CTACCACT-AATTTGTAGATAAA
1 CTACCACTGAA-TTGTAGATAAA
*
32182741 CTACTACTGAATTGTAGATAAA
1 CTACCACTGAATTGTAGATAAA
*
32182763 CTGCCACTGA
1 CTACCACTGA
32182773 TAACACTGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 26 0.93
23 2 0.07
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.30
Consensus pattern (22 bp):
CTACCACTGAATTGTAGATAAA
Found at i:32187987 original size:14 final size:14
Alignment explanation
Indices: 32187968--32188001 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
32187958 AATTTAATCT
32187968 AAATGAAATGTATG
1 AAATGAAATGTATG
32187982 AAATGAAATGTATG
1 AAATGAAATGTATG
*
32187996 AGATGA
1 AAATGA
32188002 GTTTAGCAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.24, T:0.26
Consensus pattern (14 bp):
AAATGAAATGTATG
Found at i:32190311 original size:33 final size:33
Alignment explanation
Indices: 32190274--32190383 Score: 139
Period size: 33 Copynumber: 3.3 Consensus size: 33
32190264 TACTCTCTAT
32190274 TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
1 TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
* * *
32190307 TTGGTTTGTTGATTGGATTAGCTTTTATGAGCA
1 TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
* ** * *
32190340 TTGGTGTATTGGAGGGATTGGCTCTTGTGAGCA
1 TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
32190373 TCTGGTGTGTT
1 T-TGGTGTGTT
32190384 TGGTCAGACT
Statistics
Matches: 64, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
33 56 0.88
34 8 0.12
ACGTcount: A:0.15, C:0.08, G:0.34, T:0.44
Consensus pattern (33 bp):
TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
Found at i:32199054 original size:22 final size:24
Alignment explanation
Indices: 32199011--32199055 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
32199001 TTATGTAATT
*
32199011 ATTATTTTTACATTATATTTATAA
1 ATTATTTTAACATTATATTTATAA
32199035 ATTATTTTAAC-TT-TATTTATA
1 ATTATTTTAACATTATATTTATA
32199056 TTTCTATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 8 0.40
23 2 0.10
24 10 0.50
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (24 bp):
ATTATTTTAACATTATATTTATAA
Found at i:32213366 original size:3 final size:3
Alignment explanation
Indices: 32213358--32213460 Score: 197
Period size: 3 Copynumber: 34.3 Consensus size: 3
32213348 ATTCTACGGA
32213358 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
*
32213406 TAG TAG TAG TAG CAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
32213454 TAG TAG T
1 TAG TAG T
32213461 TCTAATAATT
Statistics
Matches: 98, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 98 1.00
ACGTcount: A:0.33, C:0.01, G:0.33, T:0.33
Consensus pattern (3 bp):
TAG
Found at i:32214633 original size:17 final size:18
Alignment explanation
Indices: 32214599--32214638 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
32214589 AAAATAAGAT
32214599 AAAAAATTCTGGTAAGAAG
1 AAAAAATTC-GGTAAGAAG
*
32214618 AAAAAATTC-GTTAGAAG
1 AAAAAATTCGGTAAGAAG
32214635 AAAA
1 AAAA
32214639 CTTATAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 11 0.55
19 9 0.45
ACGTcount: A:0.57, C:0.05, G:0.17, T:0.20
Consensus pattern (18 bp):
AAAAAATTCGGTAAGAAG
Found at i:32215096 original size:21 final size:20
Alignment explanation
Indices: 32215066--32215104 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
32215056 GTTTCTTTAA
32215066 TATTAATATAATATTTTAATT
1 TATTAATATAAT-TTTTAATT
*
32215087 TATTATTATAATTTTTAA
1 TATTAATATAATTTTTAA
32215105 AAATATTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TATTAATATAATTTTTAATT
Found at i:32215111 original size:21 final size:21
Alignment explanation
Indices: 32215064--32215111 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
32215054 CAGTTTCTTT
32215064 AATATTAATATAATATTTTAA
1 AATATTAATATAATATTTTAA
** *
32215085 TTTATTATTATAAT-TTTTAAA
1 AATATTAATATAATATTTT-AA
32215106 AATATT
1 AATATT
32215112 TATTTATTTT
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
AATATTAATATAATATTTTAA
Found at i:32215129 original size:17 final size:17
Alignment explanation
Indices: 32215107--32215152 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
32215097 ATTTTTAAAA
32215107 ATATTTATTTATTTTAT
1 ATATTTATTTATTTTAT
*
32215124 ATATTT-TTAAATTTTAT
1 ATATTTATT-TATTTTAT
*
32215141 A-ATTTATATATT
1 ATATTTATTTATT
32215153 ATGATTTCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
16 9 0.38
17 15 0.62
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
ATATTTATTTATTTTAT
Found at i:32215129 original size:29 final size:31
Alignment explanation
Indices: 32215075--32215159 Score: 92
Period size: 29 Copynumber: 2.8 Consensus size: 31
32215065 ATATTAATAT
32215075 AATATTTTAATTTATTATTATAATTTTTAAA
1 AATATTTTAATTTATTATTATAATTTTTAAA
32215106 AATA-TTT-ATTTATT-TTATATATTTTT--A
1 AATATTTTAATTTATTATTATA-ATTTTTAAA
*
32215133 AAT-TTTATAATTTATATATTATGATTT
1 AATATTT-TAATTTAT-TATTATAATTT
32215160 CTTGTCAATA
Statistics
Matches: 47, Mismatches: 1, Indels: 13
0.77 0.02 0.21
Matches are distributed among these distances:
27 6 0.13
28 6 0.13
29 19 0.40
30 8 0.17
31 8 0.17
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (31 bp):
AATATTTTAATTTATTATTATAATTTTTAAA
Found at i:32221880 original size:506 final size:506
Alignment explanation
Indices: 32220928--32221943 Score: 2014
Period size: 506 Copynumber: 2.0 Consensus size: 506
32220918 CAGTTTTACG
*
32220928 AATTAGAACTGTATGCATAATATTTCTTCATTGACACATGGTTAGTAAAGTTTTCTTGAGATCTG
1 AATTAGAACCGTATGCATAATATTTCTTCATTGACACATGGTTAGTAAAGTTTTCTTGAGATCTG
32220993 TTAGGCTTTCCTGTAATGGAGAAGCAACCTTGTCACATTTCACTAACATGTTGGTAAATTTGCAT
66 TTAGGCTTTCCTGTAATGGAGAAGCAACCTTGTCACATTTCACTAACATGTTGGTAAATTTGCAT
32221058 CTCAGATTACCCTTTCTGTAACTATGCATATTTCTGAACATTAGGTTGTTACCTAATTCTTTACT
131 CTCAGATTACCCTTTCTGTAACTATGCATATTTCTGAACATTAGGTTGTTACCTAATTCTTTACT
32221123 TGTTTAAAGTTGCCAGCAAGATATAGGTATTTGATGGCATTTCCTTGTTGGTCCTGTTCGTCATT
196 TGTTTAAAGTTGCCAGCAAGATATAGGTATTTGATGGCATTTCCTTGTTGGTCCTGTTCGTCATT
32221188 TTTCTCAAAATGCACGTCTGACACACATCCGGATCTGGGTACAGGGATGACTCTCTAAGGATCCT
261 TTTCTCAAAATGCACGTCTGACACACATCCGGATCTGGGTACAGGGATGACTCTCTAAGGATCCT
32221253 CCAAATACGTGAAAATCATAGAAAGATCTGAGCATACCTGTATCGAACACATTCCCACCCACATC
326 CCAAATACGTGAAAATCATAGAAAGATCTGAGCATACCTGTATCGAACACATTCCCACCCACATC
32221318 CAACACTCATGCCTGTGTTTGAGTACCATAGGGCATTTCTCCAAATGCTTCTTGATCATGTCTAA
391 CAACACTCATGCCTGTGTTTGAGTACCATAGGGCATTTCTCCAAATGCTTCTTGATCATGTCTAA
32221383 CTCTAAGCTTGGTTTGATAAAGTTTGAAAGATTTGTGACAGAAATATTTTT
456 CTCTAAGCTTGGTTTGATAAAGTTTGAAAGATTTGTGACAGAAATATTTTT
32221434 AATTAGAACCGTATGCATAATATTTCTTCATTGACACATGGTTAGTAAAGTTTTCTTGAGATCTG
1 AATTAGAACCGTATGCATAATATTTCTTCATTGACACATGGTTAGTAAAGTTTTCTTGAGATCTG
32221499 TTAGGCTTTCCTGTAATGGAGAAGCAACCTTGTCACATTTCACTAACATGTTGGTAAATTTGCAT
66 TTAGGCTTTCCTGTAATGGAGAAGCAACCTTGTCACATTTCACTAACATGTTGGTAAATTTGCAT
32221564 CTCAGATTACCCTTTCTGTAACTATGCATATTTCTGAACATTAGGTTGTTACCTAATTCTTTACT
131 CTCAGATTACCCTTTCTGTAACTATGCATATTTCTGAACATTAGGTTGTTACCTAATTCTTTACT
*
32221629 TGTTTAAAGTTGCCGGCAAGATATAGGTATTTGATGGCATTTCCTTGTTGGTCCTGTTCGTCATT
196 TGTTTAAAGTTGCCAGCAAGATATAGGTATTTGATGGCATTTCCTTGTTGGTCCTGTTCGTCATT
32221694 TTTCTCAAAATGCACGTCTGACACACATCCGGATCTGGGTACAGGGATGACTCTCTAAGGATCCT
261 TTTCTCAAAATGCACGTCTGACACACATCCGGATCTGGGTACAGGGATGACTCTCTAAGGATCCT
32221759 CCAAATACGTGAAAATCATAGAAAGATCTGAGCATACCTGTATCGAACACATTCCCACCCACATC
326 CCAAATACGTGAAAATCATAGAAAGATCTGAGCATACCTGTATCGAACACATTCCCACCCACATC
32221824 CAACACTCATGCCTGTGTTTGAGTACCATAGGGCATTTCTCCAAATGCTTCTTGATCATGTCTAA
391 CAACACTCATGCCTGTGTTTGAGTACCATAGGGCATTTCTCCAAATGCTTCTTGATCATGTCTAA
32221889 CTCTAAGCTTGGTTTGATAAAGTTTGAAAGATTTGTGACAGAAATATTTTT
456 CTCTAAGCTTGGTTTGATAAAGTTTGAAAGATTTGTGACAGAAATATTTTT
32221940 AATT
1 AATT
32221944 GTTCAGGTCA
Statistics
Matches: 508, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
506 508 1.00
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (506 bp):
AATTAGAACCGTATGCATAATATTTCTTCATTGACACATGGTTAGTAAAGTTTTCTTGAGATCTG
TTAGGCTTTCCTGTAATGGAGAAGCAACCTTGTCACATTTCACTAACATGTTGGTAAATTTGCAT
CTCAGATTACCCTTTCTGTAACTATGCATATTTCTGAACATTAGGTTGTTACCTAATTCTTTACT
TGTTTAAAGTTGCCAGCAAGATATAGGTATTTGATGGCATTTCCTTGTTGGTCCTGTTCGTCATT
TTTCTCAAAATGCACGTCTGACACACATCCGGATCTGGGTACAGGGATGACTCTCTAAGGATCCT
CCAAATACGTGAAAATCATAGAAAGATCTGAGCATACCTGTATCGAACACATTCCCACCCACATC
CAACACTCATGCCTGTGTTTGAGTACCATAGGGCATTTCTCCAAATGCTTCTTGATCATGTCTAA
CTCTAAGCTTGGTTTGATAAAGTTTGAAAGATTTGTGACAGAAATATTTTT
Found at i:32235193 original size:13 final size:13
Alignment explanation
Indices: 32235175--32235204 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
32235165 CATACGGGAG
32235175 TGTGGCTTGGCCA
1 TGTGGCTTGGCCA
*
32235188 TGTGGCTTGGCCG
1 TGTGGCTTGGCCA
32235201 TGTG
1 TGTG
32235205 ACCCAACTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.03, C:0.20, G:0.43, T:0.33
Consensus pattern (13 bp):
TGTGGCTTGGCCA
Found at i:32236821 original size:28 final size:28
Alignment explanation
Indices: 32236788--32236848 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 28
32236778 ATTTTTTAAT
*
32236788 AAATATTAAAAAATTATTTTAAAAATAA
1 AAATATTAAAAAAGTATTTTAAAAATAA
** *
32236816 AAATATTTTAAAAGTATTTTAAAATTAA
1 AAATATTAAAAAAGTATTTTAAAAATAA
32236844 AAATA
1 AAATA
32236849 AAAATAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (28 bp):
AAATATTAAAAAAGTATTTTAAAAATAA
Found at i:32237383 original size:2 final size:2
Alignment explanation
Indices: 32237378--32237403 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
32237368 AACTAGCAAG
32237378 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
32237404 GAGTGTTACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32238585 original size:24 final size:24
Alignment explanation
Indices: 32238558--32238606 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
32238548 ATAATATTCT
32238558 AGTTAAACTCTGTTTATTTATTTC
1 AGTTAAACTCTGTTTATTTATTTC
*
32238582 AGTTAAACTCTGTTTATTTGTTTC
1 AGTTAAACTCTGTTTATTTATTTC
32238606 A
1 A
32238607 ATCAAACTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.24, C:0.12, G:0.10, T:0.53
Consensus pattern (24 bp):
AGTTAAACTCTGTTTATTTATTTC
Found at i:32238613 original size:24 final size:24
Alignment explanation
Indices: 32238562--32238614 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
32238552 TATTCTAGTT
* *
32238562 AAACTCTGTTTATTTATTTCAGTT
1 AAACTCTGTTTATTTATTTCAATC
*
32238586 AAACTCTGTTTATTTGTTTCAATC
1 AAACTCTGTTTATTTATTTCAATC
32238610 AAACT
1 AAACT
32238615 TTGATTAGTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.28, C:0.15, G:0.08, T:0.49
Consensus pattern (24 bp):
AAACTCTGTTTATTTATTTCAATC
Found at i:32241190 original size:15 final size:15
Alignment explanation
Indices: 32241170--32241198 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
32241160 GTATTGTTAC
32241170 TTGATAACACGGTGA
1 TTGATAACACGGTGA
32241185 TTGATAACACGGTG
1 TTGATAACACGGTG
32241199 TGTGAGGCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (15 bp):
TTGATAACACGGTGA
Found at i:32242187 original size:49 final size:49
Alignment explanation
Indices: 32242119--32242225 Score: 144
Period size: 49 Copynumber: 2.2 Consensus size: 49
32242109 TGGCAACCAG
* * * ** *
32242119 GTGCCAAGCCCATAGGCTAACATCCTTCTGAAACACACTTAGGCACTGAA
1 GTGCCAAGCACATAAGCTAACATCCCTCCAAAACACACCTAGGCACT-AA
32242169 -TGCCAAGCACATAAGCTAACATCCCTCCAAAACACACCTAGGCACTAA
1 GTGCCAAGCACATAAGCTAACATCCCTCCAAAACACACCTAGGCACTAA
32242217 GTGCCAAGC
1 GTGCCAAGC
32242226 CCGAAGGCTT
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
48 2 0.04
49 48 0.96
ACGTcount: A:0.35, C:0.33, G:0.16, T:0.17
Consensus pattern (49 bp):
GTGCCAAGCACATAAGCTAACATCCCTCCAAAACACACCTAGGCACTAA
Found at i:32244343 original size:16 final size:17
Alignment explanation
Indices: 32244316--32244363 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
32244306 GTCCAAAATT
*
32244316 ATATGTATTAATTTATA
1 ATATATATTAATTTATA
32244333 ATATA-ATTAATTT-TA
1 ATATATATTAATTTATA
*
32244348 ATTTATATCTAATTTA
1 ATATATAT-TAATTTA
32244364 ATTTGGGTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 6 0.23
16 10 0.38
17 10 0.38
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (17 bp):
ATATATATTAATTTATA
Found at i:32244349 original size:22 final size:22
Alignment explanation
Indices: 32244323--32244367 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
32244313 ATTATATGTA
32244323 TTAATTTATAATATAA-TTAATT
1 TTAATTTAT-ATATAATTTAATT
*
32244345 TTAATTTATATCTAATTTAATT
1 TTAATTTATATATAATTTAATT
32244367 T
1 T
32244368 GGGTTAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (22 bp):
TTAATTTATATATAATTTAATT
Found at i:32249442 original size:31 final size:30
Alignment explanation
Indices: 32249422--32249573 Score: 119
Period size: 31 Copynumber: 5.0 Consensus size: 30
32249412 TACTATCTCG
* * *
32249422 ACGAACTATCTGTTCTATGTTTATTATCCT
1 ACGAACTATCTATTCTATGTTTATTGTCCA
*
32249452 A-GCACACTAT-TTTTCTATGTTTATTGTCTCA
1 ACG-A-ACTATCTATTCTATGTTTATTGTC-CA
* * * *
32249483 ACAAACTATTTACTCTGTGTTTATTGTCCCA
1 ACGAACTATCTATTCTATGTTTATTGT-CCA
* *
32249514 ACGGACTATCTATTCTATGTTTACTGTCCCA
1 ACGAACTATCTATTCTATGTTTATTGT-CCA
* * * *
32249545 GCGGACTACCTGTTCTATGTTTATTGTCC
1 ACGAACTATCTATTCTATGTTTATTGTCC
32249574 CAGCGGGACT
Statistics
Matches: 99, Mismatches: 17, Indels: 12
0.77 0.13 0.09
Matches are distributed among these distances:
29 1 0.01
30 25 0.25
31 72 0.73
32 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.43
Consensus pattern (30 bp):
ACGAACTATCTATTCTATGTTTATTGTCCA
Found at i:32249574 original size:31 final size:31
Alignment explanation
Indices: 32249464--32249584 Score: 125
Period size: 31 Copynumber: 3.9 Consensus size: 31
32249454 CACACTATTT
* * ** **
32249464 TTCTATGTTTATTGTCTCAACAAACTATTTA
1 TTCTATGTTTATTGTCCCAGCGGACTACCTA
* * * *
32249495 CTCTGTGTTTATTGTCCCAACGGACTATCTA
1 TTCTATGTTTATTGTCCCAGCGGACTACCTA
* *
32249526 TTCTATGTTTACTGTCCCAGCGGACTACCTG
1 TTCTATGTTTATTGTCCCAGCGGACTACCTA
32249557 TTCTATGTTTATTGTCCCAGCGGGACTA
1 TTCTATGTTTATTGTCCCAGC-GGACTA
32249585 TCTTTATGGA
Statistics
Matches: 76, Mismatches: 13, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
31 70 0.92
32 6 0.08
ACGTcount: A:0.21, C:0.23, G:0.16, T:0.40
Consensus pattern (31 bp):
TTCTATGTTTATTGTCCCAGCGGACTACCTA
Found at i:32253127 original size:2 final size:2
Alignment explanation
Indices: 32253120--32253156 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
32253110 GGAAGGGAAA
32253120 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
32253157 ACATGAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:32257923 original size:129 final size:128
Alignment explanation
Indices: 32257692--32257948 Score: 338
Period size: 129 Copynumber: 2.0 Consensus size: 128
32257682 TCTACTGTCT
* * *
32257692 GGTGAATGCCCAAACAATGCCTGGTATTCCAAAGCAACCTCCCCATTGACATCCTGTTTTTTTTC
1 GGTGAATGCCCAAACAATGCCTGCTATTCCAAAGCAACCT-CCCATTGACATCCTCTTTTTTATC
* * * * * *
32257757 GATTCCTTTAACCTGACACTCGGAGAAGCCATCTTGAATGCAGACTGAAGAATCTTTCCCATCA
65 AATTCCCTTAACCTGACACTCAGAGAAACCATCTTGAACGCAGACTGAAGAATCTCTCCCATCA
*
32257821 GGTGAATGTCCAAACAATGCCTCGCT-TTCCAAAGCAATGCCT-CCATTGACATCCTCTTTTTTA
1 GGTGAATGCCCAAACAATGCCT-GCTATTCCAAAGCAA--CCTCCCATTGACATCCTCTTTTTTA
* * * *
32257884 TCAATTCCCTTCACCTGACACTCAGAGAAACCATTTTGAACGCAGATTGAAGTATCTCTCCCATC
63 TCAATTCCCTTAACCTGACACTCAGAGAAACCATCTTGAACGCAGACTGAAGAATCTCTCCCATC
32257949 TGATTGTTGA
Statistics
Matches: 111, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
129 106 0.95
130 2 0.02
131 3 0.03
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (128 bp):
GGTGAATGCCCAAACAATGCCTGCTATTCCAAAGCAACCTCCCATTGACATCCTCTTTTTTATCA
ATTCCCTTAACCTGACACTCAGAGAAACCATCTTGAACGCAGACTGAAGAATCTCTCCCATCA
Found at i:32259320 original size:20 final size:19
Alignment explanation
Indices: 32259279--32259320 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
32259269 CTCTCGTTCT
*
32259279 TTTGTTCTTTTCCTCTCCC
1 TTTGTTCTTTTCCTCACCC
*
32259298 TTTGTTCTTCTTCCTCACGC
1 TTTGTTCTT-TTCCTCACCC
32259318 TTT
1 TTT
32259321 TCCTTCTCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.02, C:0.33, G:0.07, T:0.57
Consensus pattern (19 bp):
TTTGTTCTTTTCCTCACCC
Found at i:32265591 original size:264 final size:264
Alignment explanation
Indices: 32265115--32265596 Score: 619
Period size: 264 Copynumber: 1.8 Consensus size: 264
32265105 GACTTACCAC
* * *
32265115 ACCAACTTAGGGATTTTATTAATAATATAGATATACAATTAAAATGAGCATAATAAAATTAAAAT
1 ACCAACTTAGGGATTGTATTAATAATATAAATATACAATTAAAACGAGCATAATAAAATTAAAAT
* * ** *
32265180 GTATAAGTAAACCAAAATAAAGTATTGGTTAGATGGTAAATTTAAAGTTTTTTTAATATAATTAG
66 GTATAAGTAAACCAAAATAAAGTATTGGTTAAATGATAAATTTAAAACTTTTCTAATATAATTAG
* * * * * * *
32265245 CATTGGTTTAAATCCCACAATACACATTTTTATTCTTTTTTTATTAAAAATATTAAAGTCCCCCG
131 CATTGGTTCAAATCCCACAATACACATATTTATTATTTTTTAATTAAAAAGACTAAAGTCCCCCA
* *
32265310 AACAATGTAGCTTATTTTAAATTCAGAAGGTCATTTTTTGTTCGAGTTAGTGCTTGATTGACTCG
196 AACAATATAACTTATTTTAAATTCAGAAGGTCATTTTTTGTTCGAGTTAGTGCTTGATTGACTCG
32265375 TGAT
261 TGAT
* * * *
32265379 ACCAACTT-GGGAATTGTATTAATAGTATAAATATACCATTAAAACGTGCATAATGAAATTAAAA
1 ACCAACTTAGGG-ATTGTATTAATAATATAAATATACAATTAAAACGAGCATAATAAAATTAAAA
* * * *
32265443 TGTATAAGTAAGCCAAAATCAAGTCTTGGTTAAATGATAAATTTAAAACTTTTCTAATGTAATTA
65 TGTATAAGTAAACCAAAATAAAGTATTGGTTAAATGATAAATTTAAAACTTTTCTAATATAATTA
* * * * *
32265508 GCA-TGAGTTCAAATTCCACAATACACGTATTT-TTATTTTTTAATTAAAAGGACTAAAGTGTCT
130 GCATTG-GTTCAAATCCCACAATACACATATTTATTATTTTTTAATTAAAAAGACTAAAGT-CCC
* * *
32265571 TCAAATAATATAATTTATTTTAAATT
193 CCAAACAATATAACTTATTTTAAATT
32265597 TGTAAGGTCC
Statistics
Matches: 182, Mismatches: 33, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
263 27 0.15
264 155 0.85
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.38
Consensus pattern (264 bp):
ACCAACTTAGGGATTGTATTAATAATATAAATATACAATTAAAACGAGCATAATAAAATTAAAAT
GTATAAGTAAACCAAAATAAAGTATTGGTTAAATGATAAATTTAAAACTTTTCTAATATAATTAG
CATTGGTTCAAATCCCACAATACACATATTTATTATTTTTTAATTAAAAAGACTAAAGTCCCCCA
AACAATATAACTTATTTTAAATTCAGAAGGTCATTTTTTGTTCGAGTTAGTGCTTGATTGACTCG
TGAT
Found at i:32268818 original size:17 final size:17
Alignment explanation
Indices: 32268793--32268827 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
32268783 GTGAATTTCA
*
32268793 TCTTAGTTTTTTTTATT
1 TCTTAGTTTGTTTTATT
*
32268810 TCTTTGTTTGTTTTATT
1 TCTTAGTTTGTTTTATT
32268827 T
1 T
32268828 ATTTTCTGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.09, C:0.06, G:0.09, T:0.77
Consensus pattern (17 bp):
TCTTAGTTTGTTTTATT
Found at i:32269605 original size:23 final size:21
Alignment explanation
Indices: 32269579--32269630 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
32269569 AAACACACAT
*
32269579 ATTTTTATATATAATATATACGC
1 ATTTTT-TATA-AATATATACAC
* *
32269602 ATTTTTTTTAAATATATATAC
1 ATTTTTTATAAATATATACAC
32269623 ATTTTTTA
1 ATTTTTTA
32269631 AAGCTTTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 16 0.64
22 3 0.12
23 6 0.24
ACGTcount: A:0.37, C:0.06, G:0.02, T:0.56
Consensus pattern (21 bp):
ATTTTTTATAAATATATACAC
Found at i:32269608 original size:25 final size:24
Alignment explanation
Indices: 32269531--32269629 Score: 80
Period size: 23 Copynumber: 4.2 Consensus size: 24
32269521 GCATGCATGG
* *
32269531 TTTTTTACAATATATATATATGCAT
1 TTTTTTA-TATATATATATACGCAT
* * * *
32269556 TTTTTTATGTAT-TAAACACACAT
1 TTTTTTATATATATATATACGCAT
*
32269579 ATTTTTATATATAATATATACGCAT
1 TTTTTTATATAT-ATATATACGCAT
*
32269604 TTTTTT-TAAATATATATA--CAT
1 TTTTTTATATATATATATACGCAT
32269625 TTTTT
1 TTTTT
32269630 AAAGCTTTTA
Statistics
Matches: 59, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
21 8 0.14
23 24 0.41
24 7 0.12
25 20 0.34
ACGTcount: A:0.35, C:0.08, G:0.03, T:0.54
Consensus pattern (24 bp):
TTTTTTATATATATATATACGCAT
Found at i:32275843 original size:57 final size:58
Alignment explanation
Indices: 32275768--32275885 Score: 157
Period size: 57 Copynumber: 2.1 Consensus size: 58
32275758 CATTTTCAAA
* * *
32275768 TCATTTTCATTTTCGAGAAAACCACATTCATTTTCAAATGATT-CTATTTCTCTATTT
1 TCATTTTCATTTTCGAGAAAACCACAATAATTTTCAAATGATTCCTATTTCTCCATTT
* * * * *
32275825 TCATTTTTATTTTGGAGAAAACCATAATAATTTTCAAGTGTTTCCTATTTCTCCATTT
1 TCATTTTCATTTTCGAGAAAACCACAATAATTTTCAAATGATTCCTATTTCTCCATTT
32275883 TCA
1 TCA
32275886 CCATCTCTAT
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 36 0.69
58 16 0.31
ACGTcount: A:0.28, C:0.18, G:0.07, T:0.47
Consensus pattern (58 bp):
TCATTTTCATTTTCGAGAAAACCACAATAATTTTCAAATGATTCCTATTTCTCCATTT
Found at i:32279240 original size:42 final size:42
Alignment explanation
Indices: 32279175--32279265 Score: 119
Period size: 42 Copynumber: 2.2 Consensus size: 42
32279165 CAGGTTTATA
* *
32279175 CTTCGATTTATCCGATTACGCACTTACATGACAATATATTTG
1 CTTCGGTTTATCCGATGACGCACTTACATGACAATATATTTG
* * * *
32279217 CTTCGGTTTATCCGATGATGCACTTACGTGCCAGTATATTTG
1 CTTCGGTTTATCCGATGACGCACTTACATGACAATATATTTG
*
32279259 TTTCGGT
1 CTTCGGT
32279266 ACATCTGATA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.22, C:0.21, G:0.18, T:0.40
Consensus pattern (42 bp):
CTTCGGTTTATCCGATGACGCACTTACATGACAATATATTTG
Found at i:32279282 original size:42 final size:42
Alignment explanation
Indices: 32279184--32279303 Score: 116
Period size: 42 Copynumber: 2.9 Consensus size: 42
32279174 ACTTCGATTT
* * * * * **
32279184 ATCCGATTACGCACTTACATGACAATATATTTGCTTCGGTTT
1 ATCCGATAAGGCACTTACGTGCCAGTATATTTGCTTCGGTAC
* * *
32279226 ATCCGATGATGCACTTACGTGCCAGTATATTTGTTTCGGTAC
1 ATCCGATAAGGCACTTACGTGCCAGTATATTTGCTTCGGTAC
* *
32279268 ATCTGATAAGGCACTTACGTGCCGGTATGA-TTGCTT
1 ATCCGATAAGGCACTTACGTGCCAGTAT-ATTTGCTT
32279304 AAGTTTATTT
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 63 0.98
43 1 0.02
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (42 bp):
ATCCGATAAGGCACTTACGTGCCAGTATATTTGCTTCGGTAC
Found at i:32288430 original size:19 final size:19
Alignment explanation
Indices: 32288406--32288443 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
32288396 CACACATAGT
*
32288406 CTGTTTTGAAAGTATAAAC
1 CTGTTTTAAAAGTATAAAC
32288425 CTGTTTTAAAAGTATAAAC
1 CTGTTTTAAAAGTATAAAC
32288444 TATCGTTGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (19 bp):
CTGTTTTAAAAGTATAAAC
Done.