Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 321 of 345
Found at i:96175878 original size:17 final size:19
Alignment explanation
Indices: 96175856--96175893 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
96175846 TTTATAAACT
96175856 AACATAC-TC-ATATGATA
1 AACATACATCAATATGATA
96175873 AACATACATCAAATATGATA
1 AACATACATC-AATATGATA
96175893 A
1 A
96175894 GGCTAATTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
18 2 0.11
20 9 0.50
ACGTcount: A:0.53, C:0.16, G:0.05, T:0.26
Consensus pattern (19 bp):
AACATACATCAATATGATA
Found at i:96177205 original size:19 final size:19
Alignment explanation
Indices: 96177163--96177205 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
96177153 AATTTCATTC
*
96177163 TAATCA-ATTTAGTCAAAA
1 TAATCATATTTAGGCAAAA
*
96177181 -AATCATATTTTGGCAAAA
1 TAATCATATTTAGGCAAAA
96177199 TAATCAT
1 TAATCAT
96177206 TTTGCCCCTG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 5 0.24
18 10 0.48
19 6 0.29
ACGTcount: A:0.47, C:0.12, G:0.07, T:0.35
Consensus pattern (19 bp):
TAATCATATTTAGGCAAAA
Found at i:96186055 original size:17 final size:16
Alignment explanation
Indices: 96186021--96186060 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
96186011 TTGTCATAAC
*
96186021 TTTAAAAACTTATTTT
1 TTTATAAACTTATTTT
96186037 TTTATAAACTTATTTT
1 TTTATAAACTTATTTT
96186053 TTTATAAA
1 TTTATAAA
96186061 TAAATTATGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTATAAACTTATTTT
Found at i:96196926 original size:89 final size:89
Alignment explanation
Indices: 96196748--96196913 Score: 244
Period size: 89 Copynumber: 1.9 Consensus size: 89
96196738 CCATCACATT
* * * *
96196748 GCATTTCTTTACCATTTAATCAATTATTATATTATTAACCCTATTAACCAAACATAGACTCGATA
1 GCATTTCCTTACCACTTAATCAACTATTATATTATTAACCCTATTAACCAAACACAGACTCGATA
*
96196813 CGGATATACGGACCAGTCACCCCG
66 CGGATACACGGACCAGTCACCCCG
* * *
96196837 GCATTTCCTTATCACTTAATCAACTATTATATTATTAACCCTATTAACCAGACACGGACTC-AGT
1 GCATTTCCTTACCACTTAATCAACTATTATATTATTAACCCTATTAACCAAACACAGACTCGA-T
96196901 ACGGATACACGGA
65 ACGGATACACGGA
96196914 TTTATCACCC
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
88 1 0.01
89 67 0.99
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (89 bp):
GCATTTCCTTACCACTTAATCAACTATTATATTATTAACCCTATTAACCAAACACAGACTCGATA
CGGATACACGGACCAGTCACCCCG
Found at i:96199206 original size:39 final size:39
Alignment explanation
Indices: 96199154--96199281 Score: 184
Period size: 39 Copynumber: 3.3 Consensus size: 39
96199144 TATGAGATTG
*
96199154 AAAATATCCGGACATGAGGTCCGCATGCTATATGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* * *
96199193 AAAATATCTGGACATGAGATCCGCAGGCTATATGCTAGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* * * *
96199232 AATATATCCGGACTTGAGGTCTGCAGGCTATGTGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
96199271 AAAATATCCGG
1 AAAATATCCGG
96199282 GTTAAAGACC
Statistics
Matches: 77, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 77 1.00
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (39 bp):
AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
Found at i:96199295 original size:78 final size:76
Alignment explanation
Indices: 96199153--96199307 Score: 186
Period size: 78 Copynumber: 2.0 Consensus size: 76
96199143 GTATGAGATT
* * * *
96199153 GAAAATATCCGGACATGAGGTCCGCATGCTATATGCTGGAAAAATATCTGGACATGAGATCCGCA
1 GAAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGAAAAATATCGGGACATAAGACCCGCA
*
96199218 GGCTATATGCTA
66 GGCT-TACGCTA
* * * **
96199230 GAAATATATCCGGACTTGAGGTCTGCAGGCTATGTGCTGGAAAAATATCCGGGTTA-AAGACCCG
1 GAAA-ATATCCGGACATGAGGTCCGCAGGCTATATGCTGGAAAAATAT-CGGGACATAAGACCCG
96199294 CAGGCTTACGCTA
64 CAGGCTTACGCTA
96199307 G
1 G
96199308 TAATGTATTC
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
77 11 0.17
78 51 0.77
79 4 0.06
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.23
Consensus pattern (76 bp):
GAAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGAAAAATATCGGGACATAAGACCCGCA
GGCTTACGCTA
Found at i:96204465 original size:2 final size:2
Alignment explanation
Indices: 96204458--96204486 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
96204448 AACTAAAGTA
96204458 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
96204487 GAAATAGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:96209268 original size:107 final size:107
Alignment explanation
Indices: 96209072--96209284 Score: 336
Period size: 107 Copynumber: 2.0 Consensus size: 107
96209062 AGAGTGCTTG
* * *
96209072 TTGAACATAAAAGTGTGCTCTGAACTATGGATTCATATGTTATGAGGCCTCATGTAATGGAAATA
1 TTGAACATAAAAGTGTGCTCTGAAATATGGATTCATATGTTATGAGGCCCCATGCAATGGAAATA
* *
96209137 TGAAATTGCTCATATTTTCCCCCCTTAGTGAACCTTAGATGA
66 TGAAATTGCTAATATTTTCCCCCCTTAGTAAACCTTAGATGA
* * *
96209179 TTGAGCATGAAAGTTTGCTCTGAAATATGGATTCATATGTTATGAGGCCCCATGCAATGGAAATA
1 TTGAACATAAAAGTGTGCTCTGAAATATGGATTCATATGTTATGAGGCCCCATGCAATGGAAATA
**
96209244 TGAAATTGCTAATATTTTTTCCCCTTAGTAAACCTTAGATG
66 TGAAATTGCTAATATTTTCCCCCCTTAGTAAACCTTAGATG
96209285 TGTTATATGC
Statistics
Matches: 96, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
107 96 1.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (107 bp):
TTGAACATAAAAGTGTGCTCTGAAATATGGATTCATATGTTATGAGGCCCCATGCAATGGAAATA
TGAAATTGCTAATATTTTCCCCCCTTAGTAAACCTTAGATGA
Found at i:96216877 original size:59 final size:59
Alignment explanation
Indices: 96216785--96216985 Score: 219
Period size: 59 Copynumber: 3.4 Consensus size: 59
96216775 CCCTATATAG
* *
96216785 CACTTGTTCCCAAGTCCAAGCAACTC-GTACTCAAA-TCCTATGCATTCATTCTATTCTAA
1 CACTTGTTCCCAAGTCCAAGCAACACAG-ACTCAAACT-CTTTGCATTCATTCTATTCTAA
* * * * *
96216844 CACTTGTTCCCTAGTCCAAGCAACACAGGCTCAAACTCTTTGCACTCATTTTTTTCTAA
1 CACTTGTTCCCAAGTCCAAGCAACACAGACTCAAACTCTTTGCATTCATTCTATTCTAA
* * * * *
96216903 CACTTGTTCACAAGTCCTAGCAACACATACTCAAACTCTTTGCATTTGA-TCTATTCCAA
1 CACTTGTTCCCAAGTCCAAGCAACACAGACTCAAACTCTTTGCA-TTCATTCTATTCTAA
* * *
96216962 GACTTGTTCCTAAGGCCAAGCAAC
1 CACTTGTTCCCAAGTCCAAGCAAC
96216986 TAGAATGTCT
Statistics
Matches: 117, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
59 113 0.97
60 4 0.03
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.31
Consensus pattern (59 bp):
CACTTGTTCCCAAGTCCAAGCAACACAGACTCAAACTCTTTGCATTCATTCTATTCTAA
Found at i:96220135 original size:49 final size:50
Alignment explanation
Indices: 96220032--96220137 Score: 149
Period size: 55 Copynumber: 2.0 Consensus size: 50
96220022 AAAAATCAAA
**
96220032 TTTTTTTGGTGCTGGCCTGTCAATGGCTAGCACCAAAGTACGAGTTTTAATTTTT
1 TTTTTTTGGTGCTAACCTGTCAATGGCTAGCACCAAAGTACGAG---T--TTTTT
96220087 TTTTTTTGGTGCTAACCTGTCAATGGCTAGCACCAAAGTACGAGTTTTTT
1 TTTTTTTGGTGCTAACCTGTCAATGGCTAGCACCAAAGTACGAGTTTTTT
96220137 T
1 T
96220138 AAAAAAAATT
Statistics
Matches: 49, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
50 6 0.12
52 1 0.02
55 42 0.86
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.42
Consensus pattern (50 bp):
TTTTTTTGGTGCTAACCTGTCAATGGCTAGCACCAAAGTACGAGTTTTTT
Found at i:96220166 original size:55 final size:54
Alignment explanation
Indices: 96220036--96220168 Score: 135
Period size: 55 Copynumber: 2.4 Consensus size: 54
96220026 ATCAAATTTT
* ******
96220036 TTTGGTGCTGGCCTGTCAATGGCTAGCACCAAAGTACGAGTTTTAATTTTTTTTT
1 TTTGGTGCAGGCCTGTCAATGGCTAGCACCAAAGTACGAGTTTT-ATTTAAAAAA
*
96220091 TTTGGTGCTA-ACCTGTCAATGGCTAGCACCAAAGTACGAGTTTT-TTTAAAAAAAA
1 TTTGGTGC-AGGCCTGTCAATGGCTAGCACCAAAGTACGAGTTTTATTT--AAAAAA
*
96220146 TTTGGTGCAGGCCTGACAATGGC
1 TTTGGTGCAGGCCTGTCAATGGC
96220169 AGATACCAGA
Statistics
Matches: 64, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
53 3 0.05
54 1 0.02
55 60 0.94
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.35
Consensus pattern (54 bp):
TTTGGTGCAGGCCTGTCAATGGCTAGCACCAAAGTACGAGTTTTATTTAAAAAA
Found at i:96220351 original size:11 final size:11
Alignment explanation
Indices: 96220328--96220410 Score: 59
Period size: 11 Copynumber: 7.7 Consensus size: 11
96220318 CTTTTTCTTT
96220328 TTTCATTTT--
1 TTTCATTTTCA
96220337 TTTCATTTTCA
1 TTTCATTTTCA
*
96220348 TTTCATTTTAA
1 TTTCATTTTCA
*
96220359 TTTTA-TTTCA
1 TTTCATTTTCA
*
96220369 -TTCTAATTTCA
1 TTTC-ATTTTCA
**
96220380 TTTCCATTCCCA
1 TTT-CATTTTCA
96220392 TTTCCA-TTTCA
1 TTT-CATTTTCA
96220403 TTTCATTT
1 TTTCATTT
96220411 AAATTATATT
Statistics
Matches: 58, Mismatches: 9, Indels: 12
0.73 0.11 0.15
Matches are distributed among these distances:
9 11 0.19
10 7 0.12
11 27 0.47
12 12 0.21
13 1 0.02
ACGTcount: A:0.19, C:0.19, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTCATTTTCA
Found at i:96220353 original size:5 final size:5
Alignment explanation
Indices: 96220328--96220410 Score: 60
Period size: 5 Copynumber: 15.6 Consensus size: 5
96220318 CTTTTTCTTT
* * * *
96220328 TTTCA TTT-T TTTCA TTTTCA TTTCA TTTTAA TTTTA TTTCA TTCTAA
1 TTTCA TTTCA TTTCA -TTTCA TTTCA -TTTCA TTTCA TTTCA TT-TCA
*
96220375 TTTCA TTTCCA TTCCCA TTTCCA TTTCA TTTCA TTT
1 TTTCA TTT-CA TT-TCA TTT-CA TTTCA TTTCA TTT
96220411 AAATTATATT
Statistics
Matches: 62, Mismatches: 9, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
4 3 0.05
5 33 0.53
6 26 0.42
ACGTcount: A:0.19, C:0.19, G:0.00, T:0.61
Consensus pattern (5 bp):
TTTCA
Found at i:96220356 original size:27 final size:28
Alignment explanation
Indices: 96220321--96220382 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 28
96220311 AAGGTTTCTT
* * * *
96220321 TTTCTTTTTTCATTTT-TTTCATTTTCA
1 TTTCATTTTTAATTTTATTTCATTCTAA
96220348 TTTCA-TTTTAATTTTATTTCATTCTAA
1 TTTCATTTTTAATTTTATTTCATTCTAA
96220375 TTTCATTT
1 TTTCATTT
96220383 CCATTCCCAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 9 0.31
27 18 0.62
28 2 0.07
ACGTcount: A:0.18, C:0.13, G:0.00, T:0.69
Consensus pattern (28 bp):
TTTCATTTTTAATTTTATTTCATTCTAA
Found at i:96220368 original size:16 final size:16
Alignment explanation
Indices: 96220336--96220383 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
96220326 TTTTTCATTT
*
96220336 TTTTCATTTTCATTTCA
1 TTTTAATTTT-ATTTCA
96220353 TTTTAATTTTATTTCA
1 TTTTAATTTTATTTCA
* *
96220369 TTCTAATTTCATTTC
1 TTTTAATTTTATTTC
96220384 CATTCCCATT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
16 19 0.68
17 9 0.32
ACGTcount: A:0.21, C:0.15, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTTAATTTTATTTCA
Found at i:96220427 original size:21 final size:21
Alignment explanation
Indices: 96220403--96220468 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
96220393 TTCCATTTCA
96220403 TTTCATTTAAATTATATTTTT
1 TTTCATTTAAATTATATTTTT
96220424 TTTCAATTTAAATT-TATTTTT
1 TTTC-ATTTAAATTATATTTTT
* * * * *
96220445 TCTCAATTCATTTATATTATT
1 TTTCATTTAAATTATATTTTT
96220466 TTT
1 TTT
96220469 AAATTTAATT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
20 6 0.16
21 22 0.59
22 9 0.24
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTCATTTAAATTATATTTTT
Found at i:96220474 original size:42 final size:44
Alignment explanation
Indices: 96220414--96220502 Score: 137
Period size: 42 Copynumber: 2.1 Consensus size: 44
96220404 TTCATTTAAA
* *
96220414 TTATATTTTTTTTCAATTTAAATTT-ATTTTTT-CTCAATTCAT
1 TTATATTATTTTTAAATTTAAATTTAATTTTTTCCTCAATTCAT
*
96220456 TTATATTATTTTTAAATTTAATTTTAATTTTTTCCTCAATTCAT
1 TTATATTATTTTTAAATTTAAATTTAATTTTTTCCTCAATTCAT
96220500 TTA
1 TTA
96220503 AATTTTCTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
42 22 0.52
43 7 0.17
44 13 0.31
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.63
Consensus pattern (44 bp):
TTATATTATTTTTAAATTTAAATTTAATTTTTTCCTCAATTCAT
Found at i:96220488 original size:21 final size:20
Alignment explanation
Indices: 96220420--96220488 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 20
96220410 TAAATTATAT
96220420 TTTTTTTCAATTTAAATTT-A
1 TTTTTTTCAATTT-AATTTAA
*
96220440 TTTTTTCTCAA-TTCATTTATA
1 TTTTTT-TCAATTTAATTTA-A
*
96220461 TTATTTTTAAATTTAATTTTAA
1 TT-TTTTTCAATTTAA-TTTAA
96220483 TTTTTT
1 TTTTTT
96220489 CCTCAATTCA
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
19 4 0.10
20 8 0.20
21 14 0.35
22 10 0.25
23 4 0.10
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTTTTTCAATTTAATTTAA
Found at i:96220506 original size:22 final size:21
Alignment explanation
Indices: 96220439--96220508 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 21
96220429 ATTTAAATTT
*
96220439 ATTTTTTCTCAATTCATTTAT
1 ATTTTTTCTCAATTCATTTAA
* * *
96220460 ATTATTTT-TAAATTTAATTTTA
1 ATT-TTTTCTCAA-TTCATTTAA
96220482 ATTTTTTCCTCAATTCATTTAA
1 ATTTTTT-CTCAATTCATTTAA
96220504 ATTTT
1 ATTTT
96220509 CTATTTTTCA
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
21 10 0.26
22 25 0.66
23 3 0.08
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.61
Consensus pattern (21 bp):
ATTTTTTCTCAATTCATTTAA
Found at i:96221255 original size:43 final size:41
Alignment explanation
Indices: 96221201--96221302 Score: 123
Period size: 41 Copynumber: 2.4 Consensus size: 41
96221191 TGAAAAATAG
* * *
96221201 AAAATTTAAATGAAATGAGGAAAAAATTAAATTTAAATTTAAA
1 AAAATATAAATGAAATGA-GAAAAAAATAAATTT-AATTGAAA
* *
96221244 ATAATATAAATGAATTGAGAAAAAAATAAATTTAATTGAAA
1 AAAATATAAATGAAATGAGAAAAAAATAAATTTAATTGAAA
* *
96221285 AAAATATAATTTAAATGA
1 AAAATATAAATGAAATGA
96221303 AATGAAATGG
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
41 21 0.42
42 14 0.28
43 15 0.30
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (41 bp):
AAAATATAAATGAAATGAGAAAAAAATAAATTTAATTGAAA
Found at i:96221272 original size:20 final size:21
Alignment explanation
Indices: 96221221--96221293 Score: 71
Period size: 21 Copynumber: 3.5 Consensus size: 21
96221211 TGAAATGAGG
* *
96221221 AAAAAAT-TAAATTTAAATTTA
1 AAAAAATATAAA-TTGAATTGA
*
96221242 AAATAATATAAA-TGAATTGA
1 AAAAAATATAAATTGAATTGA
*
96221262 GAAAAAA-ATAAATTTAATTGA
1 -AAAAAATATAAATTGAATTGA
96221283 AAAAAATATAA
1 AAAAAATATAA
96221294 TTTAAATGAA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
20 17 0.40
21 22 0.51
22 4 0.09
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.30
Consensus pattern (21 bp):
AAAAAATATAAATTGAATTGA
Found at i:96221295 original size:20 final size:20
Alignment explanation
Indices: 96221220--96221304 Score: 75
Period size: 20 Copynumber: 4.2 Consensus size: 20
96221210 ATGAAATGAG
*
96221220 GAAAAAATTA-AATTTAAATT
1 GAAAAAAATATAATTT-AATT
* * * *
96221240 TAAAATAATATAAATGAATT
1 GAAAAAAATATAATTTAATT
96221260 GAGAAAAAA-ATAAATTTAATT
1 GA-AAAAAATAT-AATTTAATT
*
96221281 GAAAAAAATATAATTTAAAT
1 GAAAAAAATATAATTTAATT
96221301 GAAA
1 GAAA
96221305 TGAAATGGAA
Statistics
Matches: 51, Mismatches: 10, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
20 32 0.63
21 19 0.37
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (20 bp):
GAAAAAAATATAATTTAATT
Found at i:96221315 original size:11 final size:10
Alignment explanation
Indices: 96221297--96221380 Score: 69
Period size: 11 Copynumber: 7.8 Consensus size: 10
96221287 AATATAATTT
96221297 AAATGAAATG
1 AAATGAAATG
96221307 AAATGGAAATAG
1 AAAT-GAAAT-G
*
96221319 GAATGGAAATG
1 AAAT-GAAATG
*
96221330 AAATTAGAATG
1 AAATGA-AATG
96221341 AAATGAAATTG
1 AAATGAAA-TG
* *
96221352 GAATGAAATA
1 AAATGAAATG
*
96221362 AAATTAAAATG
1 AAA-TGAAATG
96221373 AAATGAAA
1 AAATGAAA
96221381 AAAAAAATCT
Statistics
Matches: 59, Mismatches: 10, Indels: 10
0.75 0.13 0.13
Matches are distributed among these distances:
10 14 0.24
11 35 0.59
12 10 0.17
ACGTcount: A:0.58, C:0.00, G:0.20, T:0.21
Consensus pattern (10 bp):
AAATGAAATG
Found at i:96221316 original size:16 final size:15
Alignment explanation
Indices: 96221297--96221380 Score: 69
Period size: 16 Copynumber: 5.2 Consensus size: 15
96221287 AATATAATTT
96221297 AAATGAAATGAAATGG
1 AAATGAAATGAAAT-G
*
96221313 AAATAGGAATGGAAATG
1 AAAT-GAAAT-GAAATG
*
96221330 AAATTAGAATGAAATG
1 AAATGA-AATGAAATG
* *
96221346 AAATTGGAATGAAATA
1 AAA-TGAAATGAAATG
*
96221362 AAATTAAAATGAAATG
1 AAA-TGAAATGAAATG
96221378 AAA
1 AAA
96221381 AAAAAAATCT
Statistics
Matches: 55, Mismatches: 9, Indels: 8
0.76 0.12 0.11
Matches are distributed among these distances:
16 37 0.67
17 13 0.24
18 5 0.09
ACGTcount: A:0.58, C:0.00, G:0.20, T:0.21
Consensus pattern (15 bp):
AAATGAAATGAAATG
Found at i:96221329 original size:6 final size:5
Alignment explanation
Indices: 96221297--96221380 Score: 69
Period size: 5 Copynumber: 15.6 Consensus size: 5
96221287 AATATAATTT
* *
96221297 AAATG AAATG AAATGG AAATAG GAATGG AAATG AAATT AGAATG AAATG
1 AAATG AAATG AAAT-G AAAT-G AAAT-G AAATG AAATG A-AATG AAATG
* * *
96221346 AAATTG GAATG AAATA AAATTA AAATG AAATG AAA
1 AAA-TG AAATG AAATG AAA-TG AAATG AAATG AAA
96221381 AAAAAAATCT
Statistics
Matches: 65, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
5 39 0.60
6 26 0.40
ACGTcount: A:0.58, C:0.00, G:0.20, T:0.21
Consensus pattern (5 bp):
AAATG
Found at i:96221365 original size:21 final size:21
Alignment explanation
Indices: 96221297--96221385 Score: 54
Period size: 21 Copynumber: 4.1 Consensus size: 21
96221287 AATATAATTT
*
96221297 AAATG-AAATGAAATGGAAATAG
1 AAATGAAAATGAAAT-GAAA-AA
* * * **
96221319 GAATGGAAATGAAATTAGAATG
1 AAATGAAAATGAAATGA-AAAA
* * *
96221341 AAATGAAATTGGAATGAAATA
1 AAATGAAAATGAAATGAAAAA
*
96221362 AAATTAAAATGAAATGAAAAA
1 AAATGAAAATGAAATGAAAAA
96221383 AAA
1 AAA
96221386 AATCTTGACA
Statistics
Matches: 52, Mismatches: 13, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
21 23 0.44
22 18 0.35
23 11 0.21
ACGTcount: A:0.61, C:0.00, G:0.19, T:0.20
Consensus pattern (21 bp):
AAATGAAAATGAAATGAAAAA
Found at i:96221727 original size:52 final size:52
Alignment explanation
Indices: 96221565--96221811 Score: 264
Period size: 52 Copynumber: 4.8 Consensus size: 52
96221555 TTTTTTTTAC
*
96221565 TTGGTGCCGGCCATTGACAGGCCAGCA-CAAATTTTTTTTAAAACTCGTACT
1 TTGGTGCCGGCCATTGACAGGCCAGCACCAATTTTTTTTTAAAACTCGTACT
* * * * * * * *
96221616 CTGGTGCCGACAATTGATAGGCCAACATCAAAATTTTTTTTAAAACTTGTACT
1 TTGGTGCCGGCCATTGACAGGCCAGCA-CCAATTTTTTTTTAAAACTCGTACT
* *
96221669 TTGGTGCCGGCCATTGACAGGCCAGTACCATTTTTTTTTTAAAACAT-GTACT
1 TTGGTGCCGGCCATTGACAGGCCAGCACCAATTTTTTTTTAAAAC-TCGTACT
* * * ** *
96221721 TTGGTGCCAGCTATTGACAAGCCAGCACCTTTTTTTTTTTAAAACTCATACT
1 TTGGTGCCGGCCATTGACAGGCCAGCACCAATTTTTTTTTAAAACTCGTACT
* * * * *
96221773 CTGGTGCCAGCCATTGACAGGTCAGAACTAATTTTTTTT
1 TTGGTGCCGGCCATTGACAGGCCAGCACCAATTTTTTTT
96221812 AAATACTGAT
Statistics
Matches: 162, Mismatches: 30, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
51 23 0.14
52 95 0.59
53 44 0.27
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.35
Consensus pattern (52 bp):
TTGGTGCCGGCCATTGACAGGCCAGCACCAATTTTTTTTTAAAACTCGTACT
Found at i:96222402 original size:20 final size:21
Alignment explanation
Indices: 96222336--96222421 Score: 74
Period size: 20 Copynumber: 4.2 Consensus size: 21
96222326 ATGAAATGAG
*
96222336 GAAAAAATTA-AATTTAAATT
1 GAAAAAAATATAATTTAAATT
* * *
96222356 TAAAAATAATATAA-ATGAATT
1 GAAAAA-AATATAATTTAAATT
96222377 GAGAAAAAA-ATAAATTTAAATT
1 GA-AAAAAATAT-AATTTAAATT
96222399 G-AAAAAATATAATTTAAA-T
1 GAAAAAAATATAATTTAAATT
96222418 GAAA
1 GAAA
96222422 TGAAATGAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
19 2 0.04
20 23 0.44
21 15 0.29
22 12 0.23
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (21 bp):
GAAAAAAATATAATTTAAATT
Found at i:96222405 original size:19 final size:19
Alignment explanation
Indices: 96222381--96222421 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
96222371 TGAATTGAGA
96222381 AAAAAATA-AATTTAAATTG
1 AAAAAATATAATTTAAA-TG
96222400 AAAAAATATAATTTAAATG
1 AAAAAATATAATTTAAATG
96222419 AAA
1 AAA
96222422 TGAAATGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (19 bp):
AAAAAATATAATTTAAATG
Found at i:96222405 original size:44 final size:44
Alignment explanation
Indices: 96222323--96222424 Score: 134
Period size: 43 Copynumber: 2.3 Consensus size: 44
96222313 ATAGAAAATT
* *
96222323 TAAATGAAATGAGGAAAAAATTAAATTTAAATTTAAAAATAATA
1 TAAATGAAATGAGGAAAAAAATAAATTTAAATTAAAAAATAATA
* *
96222367 TAAATGAATTGA-GAAAAAAATAAATTTAAATTGAAAAAATATAATT
1 TAAATGAAATGAGGAAAAAAATAAATTTAAATT--AAAAA-ATAATA
96222413 TAAATGAAATGA
1 TAAATGAAATGA
96222425 AATGAAATGG
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
43 19 0.38
44 11 0.22
45 4 0.08
46 16 0.32
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.29
Consensus pattern (44 bp):
TAAATGAAATGAGGAAAAAAATAAATTTAAATTAAAAAATAATA
Found at i:96222424 original size:5 final size:5
Alignment explanation
Indices: 96222414--96222479 Score: 71
Period size: 5 Copynumber: 12.6 Consensus size: 5
96222404 AATATAATTT
* *
96222414 AAATG AAATG AAATG AAATGG AAATG AAATT AGAATG AAATA AAATG AAAATG
1 AAATG AAATG AAATG AAAT-G AAATG AAATG A-AATG AAATG AAATG -AAATG
96222467 AAAAT- AAATG AAA
1 -AAATG AAATG AAA
96222480 AAAAAAAAAC
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
4 4 0.08
5 30 0.57
6 19 0.36
ACGTcount: A:0.64, C:0.00, G:0.17, T:0.20
Consensus pattern (5 bp):
AAATG
Found at i:96222439 original size:11 final size:10
Alignment explanation
Indices: 96222414--96222479 Score: 71
Period size: 11 Copynumber: 6.3 Consensus size: 10
96222404 AATATAATTT
96222414 AAATGAAATG
1 AAATGAAATG
96222424 AAATGAAATGG
1 AAATGAAAT-G
*
96222435 AAATGAAATT
1 AAATGAAATG
*
96222445 AGAATGAAATA
1 A-AATGAAATG
96222456 AAATGAAAATG
1 AAATG-AAATG
96222467 AAAAT-AAATG
1 -AAATGAAATG
96222477 AAA
1 AAA
96222480 AAAAAAAAAC
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
9 3 0.06
10 19 0.39
11 23 0.47
12 4 0.08
ACGTcount: A:0.64, C:0.00, G:0.17, T:0.20
Consensus pattern (10 bp):
AAATGAAATG
Found at i:96222480 original size:16 final size:16
Alignment explanation
Indices: 96222414--96222480 Score: 75
Period size: 16 Copynumber: 4.2 Consensus size: 16
96222404 AATATAATTT
96222414 AAATGAAATGAAATG-
1 AAATGAAATGAAATGA
*
96222429 AAATGGAAATGAAATTA
1 AAAT-GAAATGAAATGA
* *
96222446 GAATGAAATAAAATGA
1 AAATGAAATGAAATGA
96222462 AAATGAAAAT-AAATGA
1 AAATG-AAATGAAATGA
96222478 AAA
1 AAA
96222481 AAAAAAAACC
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
15 4 0.09
16 33 0.75
17 7 0.16
ACGTcount: A:0.64, C:0.00, G:0.16, T:0.19
Consensus pattern (16 bp):
AAATGAAATGAAATGA
Found at i:96223167 original size:57 final size:53
Alignment explanation
Indices: 96223042--96223177 Score: 175
Period size: 54 Copynumber: 2.5 Consensus size: 53
96223032 TAAAAAAAAA
* **
96223042 TTTGGTTCTGGCCTGTTAATGGCCGGCACCAAGTACGAAAAAAAATCAAATTTT
1 TTTGGTT-TGGCCTGTCAATGGCCGGCACCAAGTAAAAAAAAAAATCAAATTTT
96223096 TTTGGTGTTGGCCTGTCAATGGCCGGCACCAAGTGCAAAAAAAAAAAAATCAAA-TTT
1 TTTGGT-TTGGCCTGTCAATGGCCGGCACCAAGT----AAAAAAAAAAATCAAATTTT
96223153 TTTGGTATTGGCCTGTCAATGGCCG
1 TTTGGT-TTGGCCTGTCAATGGCCG
96223178 ACAAAAGAGT
Statistics
Matches: 73, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
54 31 0.42
55 1 0.01
57 27 0.37
58 14 0.19
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (53 bp):
TTTGGTTTGGCCTGTCAATGGCCGGCACCAAGTAAAAAAAAAAATCAAATTTT
Found at i:96223365 original size:21 final size:20
Alignment explanation
Indices: 96223308--96223376 Score: 61
Period size: 20 Copynumber: 3.4 Consensus size: 20
96223298 TTAAAATTAA
* *
96223308 AATTAAAAATAATATAAA-TG
1 AATTGAAAA-AATATAAATTT
*
96223328 AATTGAGAAAAAAATAAATTT
1 AATTGA-AAAAATATAAATTT
96223349 AATTGAAAAAAGTAT-AATTT
1 AATTGAAAAAA-TATAAATTT
*
96223369 AAATGAAA
1 AATTGAAA
96223377 TGAAATGGAA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
20 29 0.71
21 12 0.29
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.29
Consensus pattern (20 bp):
AATTGAAAAAATATAAATTT
Found at i:96223379 original size:5 final size:5
Alignment explanation
Indices: 96223369--96223468 Score: 83
Period size: 5 Copynumber: 18.6 Consensus size: 5
96223359 AGTATAATTT
* *
96223369 AAATG AAATG AAATGG AAATAG GAATGG AAATG AAATTA AAATG AAATG
1 AAATG AAATG AAAT-G AAAT-G AAAT-G AAATG AAA-TG AAATG AAATG
* * * *
96223418 AAATTG GAATG AAATA AAATTA AAATG AAATG AAAATG AAAAG AAATG
1 AAA-TG AAATG AAATG AAA-TG AAATG AAATG -AAATG AAATG AAATG
96223466 AAA
1 AAA
96223469 AAAGAAAATT
Statistics
Matches: 78, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
5 47 0.60
6 31 0.40
ACGTcount: A:0.61, C:0.00, G:0.19, T:0.20
Consensus pattern (5 bp):
AAATG
Found at i:96223413 original size:11 final size:11
Alignment explanation
Indices: 96223397--96223458 Score: 63
Period size: 11 Copynumber: 5.7 Consensus size: 11
96223387 ATAGGAATGG
96223397 AAATGAAATTA
1 AAATGAAATTA
*
96223408 AAATGAAATGA
1 AAATGAAATTA
* * *
96223419 AATTGGAA-TG
1 AAATGAAATTA
*
96223429 AAATAAAATTA
1 AAATGAAATTA
*
96223440 AAATGAAATGA
1 AAATGAAATTA
96223451 AAATGAAA
1 AAATGAAA
96223459 AGAAATGAAA
Statistics
Matches: 39, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
10 5 0.13
11 34 0.87
ACGTcount: A:0.63, C:0.00, G:0.15, T:0.23
Consensus pattern (11 bp):
AAATGAAATTA
Found at i:96223417 original size:16 final size:16
Alignment explanation
Indices: 96223374--96223468 Score: 95
Period size: 16 Copynumber: 5.8 Consensus size: 16
96223364 AATTTAAATG
96223374 AAATGAAATGGAAA-TA
1 AAATGAAAT-GAAATTA
*
96223390 GGAATGGAAATGAAATTA
1 -AAAT-GAAATGAAATTA
*
96223408 AAATGAAATGAAATTG
1 AAATGAAATGAAATTA
* *
96223424 GAATGAAATAAAATTA
1 AAATGAAATGAAATTA
*
96223440 AAATGAAATGAAAATGA
1 AAATGAAATG-AAATTA
96223457 AAA-GAAATGAAA
1 AAATGAAATGAAA
96223469 AAAGAAAATT
Statistics
Matches: 66, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
15 3 0.05
16 38 0.58
17 18 0.27
18 7 0.11
ACGTcount: A:0.61, C:0.00, G:0.19, T:0.20
Consensus pattern (16 bp):
AAATGAAATGAAATTA
Found at i:96223814 original size:105 final size:106
Alignment explanation
Indices: 96223652--96223853 Score: 298
Period size: 105 Copynumber: 1.9 Consensus size: 106
96223642 TTTTTTTTAC
* * *
96223652 TTGGTGCCGGCCATTGATAGGCCAACACAAATTTTTTTTTTTAAAAACTCGTACTCTGGTTCCAG
1 TTGGTGCCGGCCATTGACAGGCCAACACAAATTTTTTTTTTTAAAAACACGTACTCTGGTGCCAG
*
96223717 CAATTGATAGGCCAGAACCAATTTTTTTTAAAACTTGTACT
66 CAATTGACAGGCCAGAACCAATTTTTTTTAAAACTTGTACT
** * *
96223758 TTGGTGCCGGCCATTGACAGGCCAGTACCAA-TTTTTTTTTTAAAAACACGTACTCTGGTGCCGG
1 TTGGTGCCGGCCATTGACAGGCCAACACAAATTTTTTTTTTTAAAAACACGTACTCTGGTGCCAG
* **
96223822 CCATTGACAGGGTAGAACCAATTTTTTTTAAA
66 CAATTGACAGGCCAGAACCAATTTTTTTTAAA
96223854 TACTGGTATT
Statistics
Matches: 85, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
105 58 0.68
106 27 0.32
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.34
Consensus pattern (106 bp):
TTGGTGCCGGCCATTGACAGGCCAACACAAATTTTTTTTTTTAAAAACACGTACTCTGGTGCCAG
CAATTGACAGGCCAGAACCAATTTTTTTTAAAACTTGTACT
Found at i:96223820 original size:54 final size:54
Alignment explanation
Indices: 96223649--96223850 Score: 243
Period size: 54 Copynumber: 3.8 Consensus size: 54
96223639 TGATTTTTTT
* *
96223649 TACT-TGGTGCCGGCCATTGATAGGCCA-ACACAAATTTTTTTTTTTAAAAACTCG
1 TACTCTGGTGCCGGCCATTGACAGGCCAGA-ACCAA-TTTTTTTTTTAAAAACTCG
* * * * *
96223703 TACTCTGGTTCCAGCAATTGATAGGCCAGAACCAA--TTTTTTTT-AAAACTTG
1 TACTCTGGTGCCGGCCATTGACAGGCCAGAACCAATTTTTTTTTTAAAAACTCG
* * *
96223754 TACTTTGGTGCCGGCCATTGACAGGCCAGTACCAATTTTTTTTTTAAAAACACG
1 TACTCTGGTGCCGGCCATTGACAGGCCAGAACCAATTTTTTTTTTAAAAACTCG
**
96223808 TACTCTGGTGCCGGCCATTGACAGGGTAGAACCAATTTTTTTT
1 TACTCTGGTGCCGGCCATTGACAGGCCAGAACCAATTTTTTTT
96223851 AAATACTGGT
Statistics
Matches: 126, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
51 36 0.29
52 8 0.06
53 8 0.06
54 49 0.39
55 24 0.19
56 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (54 bp):
TACTCTGGTGCCGGCCATTGACAGGCCAGAACCAATTTTTTTTTTAAAAACTCG
Found at i:96224332 original size:223 final size:223
Alignment explanation
Indices: 96223944--96224345 Score: 565
Period size: 223 Copynumber: 1.8 Consensus size: 223
96223934 AAAAATCAAT
* * ** * * *
96223944 TTTTTAAAGCCTGACATAGTTATCAGGTAATCATGGGTCCAAAATACGAGTTGGTGCTGGCCACT
1 TTTTTAAAGCCTGACACAATTATCAGACAATCAGGGGTCCAAAATACGAATTGGTGCCGGCCACT
* * * **
96224009 TACAGGCCAAAACCCCATTCTACTGTTCATTTCAGGTCATTCTGGTGATTGTTTTTAAACCTGGG
66 TACAAGCCAAAACCCCATTCTACTATTCATTTCAGGTAATTCTGGTGATTGTTTTTAAACCTGAA
* * *
96224074 TAATTTTTGTAAATATCAAAATTTTTTGGGTCAATTTAGTAAAATAGCCAAAAAAATACCCTGGT
131 TAATTTTTATAAATATCAAAATTTTTTGAGTCAATTTAGTAAAAAAGCCAAAAAAATACCCTGGT
96224139 GTCGGCCATTGACAGCCCAAAAAAAAAA
196 GTCGGCCATTGACAGCCCAAAAAAAAAA
* * *
96224167 TTTTTAAAGTCTGACACAATTATTAGACAATCAGGGGTCCAAAATACGAATTGGTGCCGGTCA-T
1 TTTTTAAAGCCTGACACAATTATCAGACAATCAGGGGTCCAAAATACGAATTGGTGCCGGCCACT
* * * *
96224231 TGACAAGCCAAAACCCTATTCTACTATTTATTTCAGGTAATTTTGGTGATTGTTTTTGAACCTGA
66 T-ACAAGCCAAAACCCCATTCTACTATTCATTTCAGGTAATTCTGGTGATTGTTTTTAAACCTGA
*
96224296 ATCATTTTTATAAATAT-AAAATTTTTTTGAGTCAATTTAGTAAAAAAGCC
130 ATAATTTTTATAAATATCAAAA-TTTTTTGAGTCAATTTAGTAAAAAAGCC
96224346 CTTTTTTTTT
Statistics
Matches: 154, Mismatches: 23, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
222 6 0.04
223 148 0.96
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Consensus pattern (223 bp):
TTTTTAAAGCCTGACACAATTATCAGACAATCAGGGGTCCAAAATACGAATTGGTGCCGGCCACT
TACAAGCCAAAACCCCATTCTACTATTCATTTCAGGTAATTCTGGTGATTGTTTTTAAACCTGAA
TAATTTTTATAAATATCAAAATTTTTTGAGTCAATTTAGTAAAAAAGCCAAAAAAATACCCTGGT
GTCGGCCATTGACAGCCCAAAAAAAAAA
Found at i:96225814 original size:21 final size:21
Alignment explanation
Indices: 96225788--96225830 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
96225778 ACAGTGAGAA
96225788 TGTCTCTTTTCATATTTCAAT
1 TGTCTCTTTTCATATTTCAAT
96225809 TGTCTCTTTTCATATTTCAAT
1 TGTCTCTTTTCATATTTCAAT
96225830 T
1 T
96225831 TTTATTCCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.19, G:0.05, T:0.58
Consensus pattern (21 bp):
TGTCTCTTTTCATATTTCAAT
Found at i:96226971 original size:20 final size:20
Alignment explanation
Indices: 96226946--96226984 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
96226936 GACGAAATAA
96226946 TTTAGAATTA-ATTTAATTTC
1 TTTAG-ATTATATTTAATTTC
96226966 TTTAGATTATTATTTAATT
1 TTTAGATTA-TATTTAATT
96226985 GAATAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.24
20 5 0.29
21 8 0.47
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (20 bp):
TTTAGATTATATTTAATTTC
Found at i:96227223 original size:46 final size:45
Alignment explanation
Indices: 96227125--96227214 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 45
96227115 TGTTGATCAT
*
96227125 ACAAAATTCTTTAAAAAATTTTAACTCTGTCACCTTGCTCATTTA
1 ACAAAATTCTTTAAAAAATTTTAACCCTGTCACCTTGCTCATTTA
* *
96227170 ACAAAATTCTTTCAAAAAA-TTTAACCCTTTGACCTTGCTCATTTA
1 ACAAAATTCTTT-AAAAAATTTTAACCCTGTCACCTTGCTCATTTA
96227215 CAACAAATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
45 35 0.85
46 6 0.15
ACGTcount: A:0.36, C:0.21, G:0.04, T:0.39
Consensus pattern (45 bp):
ACAAAATTCTTTAAAAAATTTTAACCCTGTCACCTTGCTCATTTA
Found at i:96242668 original size:27 final size:27
Alignment explanation
Indices: 96242638--96242699 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 27
96242628 ATTTACTAAA
96242638 ATACCCCTAAGTATG-AAAATTACCATT
1 ATACCCCTAAG-ATGCAAAATTACCATT
* * *
96242665 ATA-CCCTTAGGTGCAAAATTACTATT
1 ATACCCCTAAGATGCAAAATTACCATT
96242691 ATACCCCTA
1 ATACCCCTA
96242700 GGGTTAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
25 2 0.07
26 20 0.69
27 7 0.24
ACGTcount: A:0.37, C:0.24, G:0.08, T:0.31
Consensus pattern (27 bp):
ATACCCCTAAGATGCAAAATTACCATT
Found at i:96242846 original size:27 final size:28
Alignment explanation
Indices: 96242804--96242918 Score: 164
Period size: 28 Copynumber: 4.2 Consensus size: 28
96242794 GGAGGAAGCA
*
96242804 TTCTGGTGGCTTTGCCACAAATATCTG-
1 TTCTGGTGGCTCTGCCACAAATATCTGT
*
96242831 ATCTGGTGGCTCTGCCACAAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
96242859 TTCTGGTGGCTCTGCCACAAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* **
96242887 TTCTGGTGACTCTATCAC-AATATCTG-
1 TTCTGGTGGCTCTGCCACAAATATCTGT
96242913 TTCTGG
1 TTCTGG
96242919 CAGCCATGCT
Statistics
Matches: 81, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
26 6 0.07
27 33 0.41
28 42 0.52
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (28 bp):
TTCTGGTGGCTCTGCCACAAATATCTGT
Found at i:96242909 original size:55 final size:54
Alignment explanation
Indices: 96242804--96242918 Score: 160
Period size: 55 Copynumber: 2.1 Consensus size: 54
96242794 GGAGGAAGCA
* * *
96242804 TTCTGGTGGCTTTGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTG
1 TTCTGGTGGCTCTGCCACAAATATCTGATCTGGTGACTCTACCACAAATATCTG
* *
96242858 TTTCTGGTGGCTCTGCCACAAATATCTGTTTCTGGTGACTCTATCAC-AATATCTG
1 -TTCTGGTGGCTCTGCCACAAATATCTG-ATCTGGTGACTCTACCACAAATATCTG
96242913 TTCTGG
1 TTCTGG
96242919 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
54 6 0.11
55 34 0.63
56 14 0.26
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (54 bp):
TTCTGGTGGCTCTGCCACAAATATCTGATCTGGTGACTCTACCACAAATATCTG
Found at i:96250604 original size:17 final size:17
Alignment explanation
Indices: 96250572--96250605 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
96250562 TGAGTTCTAG
*
96250572 TAGCTATAGGTATCAAA
1 TAGCTATAGATATCAAA
*
96250589 TAGCTATAGATTTCAAA
1 TAGCTATAGATATCAAA
96250606 ATTGGAGGTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (17 bp):
TAGCTATAGATATCAAA
Found at i:96251818 original size:21 final size:21
Alignment explanation
Indices: 96251792--96251833 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
96251782 GCTCTTCGTG
*
96251792 AGCTTTCCGATTAAAGGCTCT
1 AGCTTTCCAATTAAAGGCTCT
* *
96251813 AGCTTTCTAATTAATGGCTCT
1 AGCTTTCCAATTAAAGGCTCT
96251834 CTGGAGCTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (21 bp):
AGCTTTCCAATTAAAGGCTCT
Found at i:96251852 original size:23 final size:24
Alignment explanation
Indices: 96251826--96251890 Score: 78
Period size: 23 Copynumber: 2.7 Consensus size: 24
96251816 TTTCTAATTA
96251826 ATGGCTCTCTGGAGCTTTTCG-AT
1 ATGGCTCTCTGGAGCTTTTCGAAT
* * *
96251849 ATGGCTCGCTTGAACTTTTCGATAT
1 ATGGCTCTCTGGAGCTTTTCGA-AT
*
96251874 ATGGCTATCTGGAGCTT
1 ATGGCTCTCTGGAGCTT
96251891 CTTGATTAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
23 18 0.55
25 15 0.45
ACGTcount: A:0.17, C:0.20, G:0.25, T:0.38
Consensus pattern (24 bp):
ATGGCTCTCTGGAGCTTTTCGAAT
Found at i:96254126 original size:2 final size:2
Alignment explanation
Indices: 96254119--96254146 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
96254109 ACACAAATCT
96254119 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
96254147 ACAATTCCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:96257616 original size:96 final size:96
Alignment explanation
Indices: 96257452--96257642 Score: 274
Period size: 96 Copynumber: 2.0 Consensus size: 96
96257442 CTTCTTTTTA
* * *
96257452 CTCCTCTTAGCCCTATTGGCTTCGGCTTTACCCTTACTCGAACCAAGCTTCTTGGGCTCCTTGTC
1 CTCCTCTTAGCCCTATTGGCTTCGGCTTTACCCTTACTCAAACCAAGCTTCTTGGGCTCCGTATC
* * *
96257517 TGCTCCACCGTTCCCTTCGATGACAGACTTG
66 TGCTCCACCATTCCCATCGATAACAGACTTG
* * * *
96257548 CTCCTCTTTGCCCTCTTGGCTTCGGCTTTTCCCTTGCTCAAACCAAGCTTCTTGGGCTCCGTATC
1 CTCCTCTTAGCCCTATTGGCTTCGGCTTTACCCTTACTCAAACCAAGCTTCTTGGGCTCCGTATC
* *
96257613 TGCTCGATCATTCCCATCGATAACAGACTT
66 TGCTCCACCATTCCCATCGATAACAGACTT
96257643 CCTCGGACAC
Statistics
Matches: 83, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
96 83 1.00
ACGTcount: A:0.14, C:0.35, G:0.17, T:0.34
Consensus pattern (96 bp):
CTCCTCTTAGCCCTATTGGCTTCGGCTTTACCCTTACTCAAACCAAGCTTCTTGGGCTCCGTATC
TGCTCCACCATTCCCATCGATAACAGACTTG
Found at i:96263360 original size:2 final size:2
Alignment explanation
Indices: 96263353--96263379 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
96263343 TATAAGTAAA
96263353 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
96263380 ATAAATTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:96265999 original size:19 final size:19
Alignment explanation
Indices: 96265970--96266018 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
96265960 GTTAATATAC
*
96265970 TATTTAGTATTTGAGTTTGA
1 TATTTAATATTTGA-TTTGA
*
96265990 T-TTTAATATTCGATTTGA
1 TATTTAATATTTGATTTGA
96266008 TATTTAA-ATTT
1 TATTTAATATTT
96266019 TTTTGTCTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
18 9 0.36
19 15 0.60
20 1 0.04
ACGTcount: A:0.29, C:0.02, G:0.12, T:0.57
Consensus pattern (19 bp):
TATTTAATATTTGATTTGA
Found at i:96275203 original size:2 final size:2
Alignment explanation
Indices: 96275196--96275224 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
96275186 TTGAATATGT
96275196 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
96275225 CACCATGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:96275688 original size:20 final size:19
Alignment explanation
Indices: 96275599--96275697 Score: 74
Period size: 20 Copynumber: 5.1 Consensus size: 19
96275589 AAAATCATAA
* *
96275599 ATATATTAAATTTATTATT
1 ATATCTTAAAATTATTATT
* *
96275618 ATCTCTTAAAATTATAATTT
1 ATATCTTAAAATTATTA-TT
* *
96275638 AATAT-TTAAAATTATCATAA
1 -ATATCTTAAAATTATTAT-T
*
96275658 ATATGTTAAAATTATTATT
1 ATATCTTAAAATTATTATT
* *
96275677 ATCTCTTAAAAATCATTATT
1 ATATCTT-AAAATTATTATT
96275697 A
1 A
96275698 AGTGTTGGGT
Statistics
Matches: 63, Mismatches: 12, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
19 23 0.37
20 37 0.59
21 3 0.05
ACGTcount: A:0.44, C:0.06, G:0.01, T:0.48
Consensus pattern (19 bp):
ATATCTTAAAATTATTATT
Found at i:96277445 original size:11 final size:11
Alignment explanation
Indices: 96277426--96277460 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
96277416 CAAAATTAAA
96277426 TAAATAAAAAT
1 TAAATAAAAAT
*
96277437 TAAA-GAAAAT
1 TAAATAAAAAT
96277447 TAAATAAAAAT
1 TAAATAAAAAT
96277458 TAA
1 TAA
96277461 TTTTGGAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (11 bp):
TAAATAAAAAT
Found at i:96282381 original size:22 final size:22
Alignment explanation
Indices: 96282356--96282397 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
96282346 TTTCTTAAAA
96282356 TAAAAGTATAAAAATTACATTC
1 TAAAAGTATAAAAATTACATTC
** *
96282378 TAAATTTGTAAAAATTACAT
1 TAAAAGTATAAAAATTACAT
96282398 AAACTTATAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.52, C:0.07, G:0.05, T:0.36
Consensus pattern (22 bp):
TAAAAGTATAAAAATTACATTC
Found at i:96287701 original size:46 final size:46
Alignment explanation
Indices: 96287636--96287775 Score: 165
Period size: 46 Copynumber: 3.0 Consensus size: 46
96287626 TTATCTGTGA
* * * * * *
96287636 CATGATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATAT
*
96287682 CATGTTGCCATGGTATCTTTCAACCATGGTCTTGCTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* * * *
96287728 CAGGTTGCAATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
96287774 CA
1 CA
96287776 GAGAGCACAC
Statistics
Matches: 81, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
45 4 0.05
46 77 0.95
ACGTcount: A:0.22, C:0.21, G:0.15, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
Found at i:96287776 original size:46 final size:46
Alignment explanation
Indices: 96287651--96287776 Score: 171
Period size: 46 Copynumber: 2.7 Consensus size: 46
96287641 TGCCATAGTG
* * * * * *
96287651 TCTTTCAACTATGGTCTTATTCATTTTCTGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTTATATCAGGTTGCAATGGTA
* *
96287697 TCTTTCAACCATGGTCTTGCTCATTTCATATCAGGTTGCAATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTTATATCAGGTTGCAATGGTA
*
96287743 TCTTTCAACCATGGTCTTACACATTTTATATCAG
1 TCTTTCAACCATGGTCTTACTCATTTTATATCAG
96287777 AGAGCACACT
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 69 1.00
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.43
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACTCATTTTATATCAGGTTGCAATGGTA
Found at i:96295119 original size:13 final size:12
Alignment explanation
Indices: 96295093--96295125 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
96295083 TTAAATTCCA
96295093 ATTA-TATTAGG
1 ATTATTATTAGG
96295104 ATTATTATTAAGG
1 ATTATTATT-AGG
96295117 ATTATTATT
1 ATTATTATT
96295126 TAGATTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 4 0.20
12 4 0.20
13 12 0.60
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (12 bp):
ATTATTATTAGG
Found at i:96295158 original size:10 final size:10
Alignment explanation
Indices: 96295143--96295201 Score: 84
Period size: 10 Copynumber: 5.9 Consensus size: 10
96295133 AATTTTAGCT
96295143 TTTATCTTTA
1 TTTATCTTTA
*
96295153 TTTATCCTTA
1 TTTATCTTTA
96295163 TTTATCTTTA
1 TTTATCTTTA
*
96295173 ATTATCTTTA
1 TTTATCTTTA
96295183 TTTAT-TTGTA
1 TTTATCTT-TA
96295193 TTTATCTTT
1 TTTATCTTT
96295202 TAGAATTTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
9 2 0.05
10 39 0.91
11 2 0.05
ACGTcount: A:0.20, C:0.10, G:0.02, T:0.68
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:96300118 original size:40 final size:39
Alignment explanation
Indices: 96300028--96300119 Score: 114
Period size: 40 Copynumber: 2.4 Consensus size: 39
96300018 AACTTCGTCC
* *
96300028 AACCCAACACACC-ATATGGGGATAAAATTGACCCACCT
1 AACCCTACACACCAATATGGGGATAAAATCGACCCACCT
* ** *
96300066 ATCCCTGTACACCAAATATGGGGATAAAATCGACCCATCT
1 AACCCTACACACC-AATATGGGGATAAAATCGACCCACCT
96300106 AACCCTACACACCA
1 AACCCTACACACCA
96300120 TAAAGTACTG
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
38 9 0.21
39 1 0.02
40 33 0.77
ACGTcount: A:0.38, C:0.33, G:0.12, T:0.17
Consensus pattern (39 bp):
AACCCTACACACCAATATGGGGATAAAATCGACCCACCT
Found at i:96302166 original size:37 final size:37
Alignment explanation
Indices: 96302073--96302145 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
96302063 AATTGATTTT
*
96302073 GAATGATAGCAAAGTACACTGTCTGGTGGTTCTATGA
1 GAATGATACCAAAGTACACTGTCTGGTGGTTCTATGA
96302110 GAATGATACCAAAGTACACTGTCTGGTGGTTCTATG
1 GAATGATACCAAAGTACACTGTCTGGTGGTTCTATG
96302146 TTAAATATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (37 bp):
GAATGATACCAAAGTACACTGTCTGGTGGTTCTATGA
Found at i:96303922 original size:53 final size:54
Alignment explanation
Indices: 96303781--96303931 Score: 209
Period size: 53 Copynumber: 2.8 Consensus size: 54
96303771 ACAAGTGTGC
* **
96303781 CCGTTTAAGACCATAGT-TGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGTCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
96303834 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGTCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
96303887 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAGTCTGGGCTATGGCATCGGTAT-A-ATGTGA
96303932 ACCGTGTAAG
Statistics
Matches: 88, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
52 1 0.01
53 80 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (54 bp):
CCGTATAAGACCATAGTCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:96306446 original size:3 final size:3
Alignment explanation
Indices: 96306428--96306478 Score: 52
Period size: 3 Copynumber: 17.0 Consensus size: 3
96306418 TTAAATACTC
* *
96306428 TTA TTA TTT TTA -TA TTA TTAA TT- TTA TTA TTA TTA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA
96306472 TGTA TTA
1 T-TA TTA
96306479 GTTTATGTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
2 4 0.10
3 30 0.75
4 6 0.15
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:96306458 original size:15 final size:15
Alignment explanation
Indices: 96306428--96306478 Score: 68
Period size: 15 Copynumber: 3.4 Consensus size: 15
96306418 TTAAATACTC
*
96306428 TTATTATTTTTA-TA
1 TTATTAATTTTATTA
96306442 TTATTAATTTTATTA
1 TTATTAATTTTATTA
*
96306457 TTATTAATATTATTA
1 TTATTAATTTTATTA
96306472 TGTATTA
1 T-TATTA
96306479 GTTTATGTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.33
15 17 0.52
16 5 0.15
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (15 bp):
TTATTAATTTTATTA
Found at i:96309788 original size:19 final size:19
Alignment explanation
Indices: 96309750--96309788 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
96309740 GAGGTTGAGG
*
96309750 GTCAGGTAGAAGTGGTTTA
1 GTCAGGTAGAAGAGGTTTA
96309769 GTCA-GTAGAAGAGGTGTTA
1 GTCAGGTAGAAGAGGT-TTA
96309788 G
1 G
96309789 AAAAACAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.28, C:0.05, G:0.38, T:0.28
Consensus pattern (19 bp):
GTCAGGTAGAAGAGGTTTA
Found at i:96313638 original size:21 final size:19
Alignment explanation
Indices: 96313608--96313649 Score: 57
Period size: 21 Copynumber: 2.1 Consensus size: 19
96313598 ATAATATAAT
*
96313608 AATAATATAAAACATAAAAGA
1 AATAAAATAAAAC--AAAAGA
96313629 AATAAAATAAAACAAAAGA
1 AATAAAATAAAACAAAAGA
96313648 AA
1 AA
96313650 AGAAAAAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 8 0.40
21 12 0.60
ACGTcount: A:0.76, C:0.05, G:0.05, T:0.14
Consensus pattern (19 bp):
AATAAAATAAAACAAAAGA
Found at i:96334020 original size:24 final size:23
Alignment explanation
Indices: 96333969--96334033 Score: 78
Period size: 24 Copynumber: 2.8 Consensus size: 23
96333959 TTAATGTTCA
*
96333969 CGAACATGTTCATTTAA-ATTAAT
1 CGAACATGTTCA-TGAACATTAAT
96333992 CGAACATGTTCATGAACATATAAT
1 CGAACATGTTCATGAACAT-TAAT
* *
96334016 TGAACATGTTCACGAACA
1 CGAACATGTTCATGAACA
96334034 ATGTTAATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
22 3 0.08
23 14 0.38
24 20 0.54
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (23 bp):
CGAACATGTTCATGAACATTAAT
Found at i:96334293 original size:12 final size:12
Alignment explanation
Indices: 96334264--96334320 Score: 64
Period size: 12 Copynumber: 4.8 Consensus size: 12
96334254 ATCATTAATA
*
96334264 AATAAATGAGTC
1 AATAAACGAGTC
96334276 -ATAAACGAGTC
1 AATAAACGAGTC
*
96334287 AATAAACAAG-C
1 AATAAACGAGTC
*
96334298 TTATAAACGAGTC
1 -AATAAACGAGTC
96334311 AATAAACGAG
1 AATAAACGAG
96334321 CTTGTTCGTG
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
11 11 0.30
12 25 0.68
13 1 0.03
ACGTcount: A:0.51, C:0.14, G:0.16, T:0.19
Consensus pattern (12 bp):
AATAAACGAGTC
Found at i:96334305 original size:24 final size:24
Alignment explanation
Indices: 96334276--96334323 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
96334266 TAAATGAGTC
96334276 ATAAACGAGTCAATAAACAAGCTT
1 ATAAACGAGTCAATAAACAAGCTT
*
96334300 ATAAACGAGTCAATAAACGAGCTT
1 ATAAACGAGTCAATAAACAAGCTT
96334324 GTTCGTGAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.48, C:0.17, G:0.15, T:0.21
Consensus pattern (24 bp):
ATAAACGAGTCAATAAACAAGCTT
Found at i:96342861 original size:29 final size:31
Alignment explanation
Indices: 96342826--96342895 Score: 108
Period size: 31 Copynumber: 2.3 Consensus size: 31
96342816 TAAAATCATG
*
96342826 TTTGACA-T-TTAGTTGGGCACATAATCACA
1 TTTGACACTCTTAGTTCGGCACATAATCACA
*
96342855 TTTGACACTCTTGGTTCGGCACATAATCACA
1 TTTGACACTCTTAGTTCGGCACATAATCACA
96342886 TTTGACACTC
1 TTTGACACTC
96342896 ACACTTGAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
29 7 0.19
30 1 0.03
31 29 0.78
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (31 bp):
TTTGACACTCTTAGTTCGGCACATAATCACA
Found at i:96343508 original size:22 final size:22
Alignment explanation
Indices: 96343482--96343526 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
96343472 ATTATTTGTG
96343482 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
96343504 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
96343526 T
1 T
96343527 TTTTTTATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:96348108 original size:22 final size:22
Alignment explanation
Indices: 96348080--96348124 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
96348070 AGGGGGAGTG
96348080 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
96348102 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
96348124 T
1 T
96348125 TTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:96349169 original size:27 final size:26
Alignment explanation
Indices: 96349131--96349186 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 26
96349121 ATACTATGCC
*
96349131 CTTATAATCTTGTCTCTTCTCATTTTT
1 CTTAAAATCTTGTCTCTTCTC-TTTTT
96349158 CTTAAAATCTTGTCTCTTCTCTTTTT
1 CTTAAAATCTTGTCTCTTCTCTTTTT
96349184 CTT
1 CTT
96349187 TTTCTCTCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.14, C:0.23, G:0.04, T:0.59
Consensus pattern (26 bp):
CTTAAAATCTTGTCTCTTCTCTTTTT
Found at i:96349712 original size:20 final size:18
Alignment explanation
Indices: 96349677--96349728 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
96349667 AGTTTTCGGA
96349677 AAATTATTTTTGGAAAAT
1 AAATTATTTTTGGAAAAT
96349695 AAATTGATTTTCTGGAAAAGT
1 AAATT-ATTTT-TGGAAAA-T
* *
96349716 TAATTCTTTTTGG
1 AAATTATTTTTGG
96349729 TGTTTGGATG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
18 5 0.17
19 8 0.28
20 11 0.38
21 5 0.17
ACGTcount: A:0.35, C:0.04, G:0.15, T:0.46
Consensus pattern (18 bp):
AAATTATTTTTGGAAAAT
Found at i:96349923 original size:28 final size:28
Alignment explanation
Indices: 96349869--96349926 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
96349859 ATAATATGTT
* *
96349869 ATAATAATTAATATCTTATATAGACTTA
1 ATAATAATTAATATCTAATATAAACTTA
*
96349897 ATAATAATTAATGTCTAAT-TAAAACTTA
1 ATAATAATTAATATCTAATAT-AAACTTA
96349925 AT
1 AT
96349927 TTGAAATTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 1 0.04
28 25 0.96
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.41
Consensus pattern (28 bp):
ATAATAATTAATATCTAATATAAACTTA
Found at i:96356116 original size:12 final size:12
Alignment explanation
Indices: 96356099--96356131 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
96356089 TCCAGATAAT
96356099 CATGATTTTGTC
1 CATGATTTTGTC
96356111 CATGATTTTGTC
1 CATGATTTTGTC
96356123 CATGATTTT
1 CATGATTTT
96356132 ATTTTGTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.18, C:0.15, G:0.15, T:0.52
Consensus pattern (12 bp):
CATGATTTTGTC
Found at i:96357297 original size:61 final size:62
Alignment explanation
Indices: 96357202--96357341 Score: 183
Period size: 62 Copynumber: 2.3 Consensus size: 62
96357192 GCCATGTGGT
** * *
96357202 AGGTCGTGTGACTCACTGTTGCTATTAGAGACCACA-CGGCCAGAGACACAGACGTGTGTCC
1 AGGTCGTGTGACTCACTACTACTATTAAAGACCACATCGGCCAGAGACACAGACGTGTGTCC
* * * *
96357263 AGGTCGTGTGACTCACTACTACTATTAAAGACCACATGGGTCAGAGACACGGGCGTGTGTCC
1 AGGTCGTGTGACTCACTACTACTATTAAAGACCACATCGGCCAGAGACACAGACGTGTGTCC
* *
96357325 AGGTCATATGACTCACT
1 AGGTCGTGTGACTCACT
96357342 GTTTGCGATT
Statistics
Matches: 68, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
61 32 0.47
62 36 0.53
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (62 bp):
AGGTCGTGTGACTCACTACTACTATTAAAGACCACATCGGCCAGAGACACAGACGTGTGTCC
Found at i:96360427 original size:33 final size:33
Alignment explanation
Indices: 96360385--96360452 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
96360375 CCCCCACTAA
96360385 GAAAGATTCAATTTGGTTCATTGTTGGTCGATT
1 GAAAGATTCAATTTGGTTCATTGTTGGTCGATT
96360418 GAAAGATTCAATTTGGTTCATTGTTGGTCGATT
1 GAAAGATTCAATTTGGTTCATTGTTGGTCGATT
96360451 GA
1 GA
96360453 CCAAATCCGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.25, C:0.09, G:0.25, T:0.41
Consensus pattern (33 bp):
GAAAGATTCAATTTGGTTCATTGTTGGTCGATT
Found at i:96361827 original size:17 final size:18
Alignment explanation
Indices: 96361805--96361853 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 18
96361795 TTTTTCCATT
96361805 TTCATTCATTTCTTTTC-
1 TTCATTCATTTCTTTTCG
96361822 TTCATTC-TTT-TTCTTCG
1 TTCATTCATTTCTT-TTCG
*
96361839 TTC-TTAATTTCTTTT
1 TTCATTCATTTCTTTT
96361854 ATTTTTCTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
15 2 0.07
16 8 0.30
17 15 0.56
18 2 0.07
ACGTcount: A:0.10, C:0.20, G:0.02, T:0.67
Consensus pattern (18 bp):
TTCATTCATTTCTTTTCG
Found at i:96371639 original size:15 final size:15
Alignment explanation
Indices: 96371619--96371687 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
96371609 GTATCTTGGG
96371619 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
96371634 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
96371649 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
96371664 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
96371679 TTTCTTTAT
1 TTTCTTTAT
96371688 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:96371688 original size:30 final size:30
Alignment explanation
Indices: 96371610--96371697 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
96371600 CATAGTATCG
* * * *
96371610 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
96371640 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
96371670 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
96371698 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:96374122 original size:46 final size:46
Alignment explanation
Indices: 96374072--96374247 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
96374062 ATGGTTGGCA
96374072 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
96374118 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
96374165 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
96374211 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
96374248 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:96374227 original size:93 final size:93
Alignment explanation
Indices: 96374068--96374239 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
96374058 TAGGATGGTT
* *
96374068 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
96374133 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
96374161 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
96374226 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
96374240 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:96377018 original size:7 final size:6
Alignment explanation
Indices: 96376982--96377020 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
96376972 TTTATAACTA
* *
96376982 TTTATT TTTATT TTTATT TTGACT TTTATT TTCTATT TT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TT-TATT TT
96377021 GGTTGTTGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
6 22 0.79
7 6 0.21
ACGTcount: A:0.15, C:0.05, G:0.03, T:0.77
Consensus pattern (6 bp):
TTTATT
Found at i:96381490 original size:46 final size:46
Alignment explanation
Indices: 96381440--96381611 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
96381430 TGAGCATTCA
* *
96381440 AACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTTCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* * * *
96381486 AACTCGTCGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCCG
* * * *
96381533 AGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
*
96381579 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
96381612 GCGGGTTACA
Statistics
Matches: 102, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 58 0.57
47 25 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
Found at i:96390247 original size:28 final size:28
Alignment explanation
Indices: 96390215--96390271 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
96390205 TTGAAATTTT
*
96390215 CATATCAATTGAAATTATTCCTTTCTAC
1 CATATCAATTGAAACTATTCCTTTCTAC
96390243 CATATCAATTGAAACTATTCCTTTCTAC
1 CATATCAATTGAAACTATTCCTTTCTAC
96390271 C
1 C
96390272 TCTATGTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.25, G:0.04, T:0.40
Consensus pattern (28 bp):
CATATCAATTGAAACTATTCCTTTCTAC
Found at i:96397364 original size:6 final size:6
Alignment explanation
Indices: 96397353--96397398 Score: 65
Period size: 6 Copynumber: 7.7 Consensus size: 6
96397343 CAATCCACTT
* * *
96397353 ATATAC ATATAC ATATAC ATATAT GTATAC ATATAT ATATAC ATAT
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATAT
96397399 CCTCATTTTG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (6 bp):
ATATAC
Found at i:96397370 original size:12 final size:12
Alignment explanation
Indices: 96397352--96397398 Score: 76
Period size: 12 Copynumber: 3.9 Consensus size: 12
96397342 TCAATCCACT
96397352 TATATACATATA
1 TATATACATATA
*
96397364 CATATACATATA
1 TATATACATATA
*
96397376 TGTATACATATA
1 TATATACATATA
96397388 TATATACATAT
1 TATATACATAT
96397399 CCTCATTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.47, C:0.11, G:0.02, T:0.40
Consensus pattern (12 bp):
TATATACATATA
Found at i:96398673 original size:7 final size:7
Alignment explanation
Indices: 96398661--96398697 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
96398651 TTATGACACC
96398661 AATGGTA
1 AATGGTA
96398668 AATGGTA
1 AATGGTA
96398675 AATGGTA
1 AATGGTA
*
96398682 AATGGAA
1 AATGGTA
96398689 AATGG-A
1 AATGGTA
96398695 AAT
1 AAT
96398698 TTATTTTAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
6 4 0.14
7 25 0.86
ACGTcount: A:0.49, C:0.00, G:0.27, T:0.24
Consensus pattern (7 bp):
AATGGTA
Found at i:96400191 original size:40 final size:40
Alignment explanation
Indices: 96400145--96400359 Score: 295
Period size: 40 Copynumber: 5.4 Consensus size: 40
96400135 ATCAGTTATT
*
96400145 TATGGCACTTAGTGTGCGATACGACATAGCTTCGGCTATA
1 TATGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATA
* *
96400185 AATGGCACTTAGTGTGTGATTCGACATAGCTTCGGCTATA
1 TATGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATA
* * * *
96400225 TATGACACTTAGTGTGCGATTTGAGATAGCTTCGGCTATG
1 TATGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATA
* ** *
96400265 TATGACACTTAGTGTGTTATTCGACATAGCTTCAGCTATA
1 TATGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATA
* * *
96400305 TATGGCACTTAGTGTGCGATTTGAGATAGCTTCGGCTATG
1 TATGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATA
*
96400345 TATGGCATTTAGTGT
1 TATGGCACTTAGTGT
96400360 ACGAGATTTC
Statistics
Matches: 152, Mismatches: 23, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 152 1.00
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (40 bp):
TATGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATA
Found at i:96400257 original size:80 final size:80
Alignment explanation
Indices: 96400136--96400359 Score: 340
Period size: 80 Copynumber: 2.8 Consensus size: 80
96400126 CGACGACAAA
* * ** * **
96400136 TCAGTTATTTATGGCACTTAGTGTGCGATACGACATAGCTTCGGCTATAAATGGCACTTAGTGTG
1 TCAGCTATATATGGCACTTAGTGTGCGATTTGAGATAGCTTCGGCTATGTATGGCACTTAGTGTG
96400201 TGATTCGACATAGCT
66 TGATTCGACATAGCT
* * *
96400216 TCGGCTATATATGACACTTAGTGTGCGATTTGAGATAGCTTCGGCTATGTATGACACTTAGTGTG
1 TCAGCTATATATGGCACTTAGTGTGCGATTTGAGATAGCTTCGGCTATGTATGGCACTTAGTGTG
*
96400281 TTATTCGACATAGCT
66 TGATTCGACATAGCT
*
96400296 TCAGCTATATATGGCACTTAGTGTGCGATTTGAGATAGCTTCGGCTATGTATGGCATTTAGTGT
1 TCAGCTATATATGGCACTTAGTGTGCGATTTGAGATAGCTTCGGCTATGTATGGCACTTAGTGT
96400360 ACGAGATTTC
Statistics
Matches: 129, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
80 129 1.00
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.36
Consensus pattern (80 bp):
TCAGCTATATATGGCACTTAGTGTGCGATTTGAGATAGCTTCGGCTATGTATGGCACTTAGTGTG
TGATTCGACATAGCT
Found at i:96400416 original size:28 final size:28
Alignment explanation
Indices: 96400344--96400417 Score: 96
Period size: 28 Copynumber: 2.6 Consensus size: 28
96400334 CTTCGGCTAT
* *
96400344 GTATGGCATTTAGTGTACGAGATTTCGA
1 GTATGGCACTTAGTGTGCGAGATTTCGA
*
96400372 GTGTGGCACTTAGTGTGCGAGATATT-GA
1 GTATGGCACTTAGTGTGCGAGAT-TTCGA
*
96400400 GTATGGCACATAGTGTGC
1 GTATGGCACTTAGTGTGC
96400418 AAGGCATTGA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 38 0.95
29 2 0.05
ACGTcount: A:0.23, C:0.12, G:0.32, T:0.32
Consensus pattern (28 bp):
GTATGGCACTTAGTGTGCGAGATTTCGA
Found at i:96400426 original size:28 final size:28
Alignment explanation
Indices: 96400370--96400430 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
96400360 ACGAGATTTC
* * * *
96400370 GAGTGTGGCACTTAGTGTGCGAGATATT
1 GAGTATGGCACATAGTGTGCAAGACATT
*
96400398 GAGTATGGCACATAGTGTGCAAGGCATT
1 GAGTATGGCACATAGTGTGCAAGACATT
96400426 GAGTA
1 GAGTA
96400431 ATGAACGAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.26, C:0.11, G:0.34, T:0.28
Consensus pattern (28 bp):
GAGTATGGCACATAGTGTGCAAGACATT
Found at i:96404506 original size:14 final size:14
Alignment explanation
Indices: 96404487--96404524 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
96404477 GTTTGCCAGT
*
96404487 AAAATGTTTTCTGG
1 AAAATGATTTCTGG
96404501 AAAATGATTTCTGG
1 AAAATGATTTCTGG
96404515 AAAATGATTT
1 AAAATGATTT
96404525 ACTTTTCTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.37, C:0.05, G:0.18, T:0.39
Consensus pattern (14 bp):
AAAATGATTTCTGG
Found at i:96411885 original size:2 final size:2
Alignment explanation
Indices: 96411878--96411908 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
96411868 ACCACATAGG
*
96411878 TA TA TA TA TA TA TA TA TA TA TA AA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
96411909 TTGTAAAGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:96416478 original size:40 final size:38
Alignment explanation
Indices: 96416331--96416461 Score: 217
Period size: 38 Copynumber: 3.4 Consensus size: 38
96416321 ACATGGTATT
96416331 TGGAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
1 TGGAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
*
96416369 TGGAACATATCCGGACTTGAGGTCCGCAGGCTACGTGA
1 TGGAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
* *
96416407 TGGAACATATCCGAACTTGAGGTCCGCAGGCTATGTGC
1 TGGAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
*
96416445 TGGAAATATATCCGGAC
1 TGG-AACATATCCGGAC
96416462 CTAAAGTCCC
Statistics
Matches: 86, Mismatches: 6, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
38 75 0.87
39 11 0.13
ACGTcount: A:0.24, C:0.24, G:0.30, T:0.22
Consensus pattern (38 bp):
TGGAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
Found at i:96425294 original size:14 final size:14
Alignment explanation
Indices: 96425275--96425302 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
96425265 AGAAAAGCCT
96425275 AAAAAGCTTTTACA
1 AAAAAGCTTTTACA
96425289 AAAAAGCTTTTACA
1 AAAAAGCTTTTACA
96425303 GGTTACCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.29
Consensus pattern (14 bp):
AAAAAGCTTTTACA
Found at i:96428897 original size:2 final size:2
Alignment explanation
Indices: 96428892--96428939 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
96428882 TCATATCCTC
96428892 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
96428934 CT CT CT
1 CT CT CT
96428940 TTTCAATTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:96450740 original size:94 final size:94
Alignment explanation
Indices: 96450635--96450896 Score: 413
Period size: 94 Copynumber: 2.8 Consensus size: 94
96450625 CTCCTTTCTC
* *
96450635 TTTTTTCAATTTTTCCCCACATATATAAGGAATAAAATTTTTGATTCATCAATATCCTTTAAGAA
1 TTTTTTCAATTTTTCCCCACATATATAAGAAATAAAATTTTTGATTCATCAATGTCCTTTAAGAA
96450700 GCCATCAACTTCTCTTC-TTTTTTCTTTTT
66 GCCATCAACTTCTCTTCTTTTTTTC-TTTT
* *
96450729 TTTTTTCAATTTTCCCCCACATATATAAAAAATAAAATTTTTGATTCATCAATGTCCTTTAAGAA
1 TTTTTTCAATTTTTCCCCACATATATAAGAAATAAAATTTTTGATTCATCAATGTCCTTTAAGAA
96450794 GCCATCAACTTCTCTTCTTTTTTTCTTTT
66 GCCATCAACTTCTCTTCTTTTTTTCTTTT
* * * * *
96450823 TTTTTT-AATTTCT-CCCACATATATAAGAAATAAAACTTTTGATTCATTAATGCCCTTTCAGAA
1 TTTTTTCAATTTTTCCCCACATATATAAGAAATAAAATTTTTGATTCATCAATGTCCTTTAAGAA
96450886 GCCATCAACTT
66 GCCATCAACTT
96450897 TTATAGTCTT
Statistics
Matches: 156, Mismatches: 11, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
92 56 0.36
93 5 0.03
94 88 0.56
95 7 0.04
ACGTcount: A:0.30, C:0.20, G:0.05, T:0.45
Consensus pattern (94 bp):
TTTTTTCAATTTTTCCCCACATATATAAGAAATAAAATTTTTGATTCATCAATGTCCTTTAAGAA
GCCATCAACTTCTCTTCTTTTTTTCTTTT
Found at i:96458027 original size:8 final size:8
Alignment explanation
Indices: 96458014--96458044 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
96458004 TTAAAAAAAA
96458014 TTATAATT
1 TTATAATT
96458022 TTATAATT
1 TTATAATT
96458030 TTATAATT
1 TTATAATT
96458038 TTATAAT
1 TTATAAT
96458045 GATTTTAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
TTATAATT
Found at i:96458080 original size:19 final size:18
Alignment explanation
Indices: 96458058--96458106 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 18
96458048 TTTAATGATT
96458058 TTTTTAATTTTTTAAAATA
1 TTTTTAATTTTTTAAAA-A
96458077 TTTTTATATTTTTTAAAAA
1 TTTTTA-ATTTTTTAAAAA
*
96458096 TTTTAAATTTT
1 TTTTTAATTTT
96458107 AAAAAATTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 5 0.18
19 12 0.43
20 11 0.39
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTTTAATTTTTTAAAAA
Found at i:96458087 original size:29 final size:28
Alignment explanation
Indices: 96458020--96458090 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 28
96458010 AAAATTATAA
* * *
96458020 TTTTATAATTTTATAATTTTATAATGAT
1 TTTTATATTTTTTTAATTTTAAAATGAT
*
96458048 TTTAATGATTTTTTTAATTTTTTAAAAT-AT
1 TTTTAT-ATTTTTTTAA--TTTTAAAATGAT
96458078 TTTTATATTTTTT
1 TTTTATATTTTTT
96458091 AAAAATTTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
28 5 0.14
29 15 0.43
30 7 0.20
31 8 0.23
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (28 bp):
TTTTATATTTTTTTAATTTTAAAATGAT
Found at i:96458099 original size:29 final size:31
Alignment explanation
Indices: 96458034--96458102 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 31
96458024 ATAATTTTAT
* *
96458034 AATTTTATAATGATTTTAATGATTTTTTTAA
1 AATTTTAAAATGATTTTAATGATTTTTTAAA
** *
96458065 TTTTTTAAAAT-ATTTTTAT-ATTTTTTAAA
1 AATTTTAAAATGATTTTAATGATTTTTTAAA
96458094 AATTTTAAA
1 AATTTTAAA
96458103 TTTTAAAAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
29 16 0.52
30 7 0.23
31 8 0.26
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (31 bp):
AATTTTAAAATGATTTTAATGATTTTTTAAA
Found at i:96458975 original size:22 final size:22
Alignment explanation
Indices: 96458950--96459009 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 22
96458940 ATTTTCTTAT
*
96458950 TATTTTATCTCA-ATTTTGCTAC
1 TATTTTATCT-ATATATTGCTAC
96458972 TATTTTA-CTATTATATTGCTAC
1 TATTTTATCTA-TATATTGCTAC
96458994 TATTTTAT-TAT-TATTG
1 TATTTTATCTATATATTG
96459010 TTTGTATATT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
20 6 0.18
21 3 0.09
22 25 0.74
ACGTcount: A:0.25, C:0.12, G:0.05, T:0.58
Consensus pattern (22 bp):
TATTTTATCTATATATTGCTAC
Found at i:96459098 original size:30 final size:30
Alignment explanation
Indices: 96459037--96459099 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
96459027 ATTTATTTTA
*
96459037 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTGTAAAGACAT
* *
96459067 TTGTTAATTTTGTTATTATTGTAGAGGCAT
1 TTGTTAATTTTGTTATTATTGTAAAGACAT
96459097 TTG
1 TTG
96459100 ATTGTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.25, C:0.03, G:0.16, T:0.56
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTGTAAAGACAT
Found at i:96459213 original size:17 final size:19
Alignment explanation
Indices: 96459182--96459221 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
96459172 GAAATATTTA
*
96459182 TTTTGATGTTTTTAT-TAT
1 TTTTGATGTTATTATATAT
96459200 TTTTGATG-TATTATATAT
1 TTTTGATGTTATTATATAT
96459218 TTTT
1 TTTT
96459222 AAAAATTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.20, C:0.00, G:0.10, T:0.70
Consensus pattern (19 bp):
TTTTGATGTTATTATATAT
Found at i:96464391 original size:22 final size:21
Alignment explanation
Indices: 96464354--96464394 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
96464344 ATCACTACCC
96464354 ATCTTCAAAAACCTTAAAAGA
1 ATCTTCAAAAACCTTAAAAGA
96464375 ATCTTACAAACAA-CTTAAAA
1 ATCTT-CAAA-AACCTTAAAA
96464395 ACATCCAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 11 0.61
23 2 0.11
ACGTcount: A:0.54, C:0.20, G:0.02, T:0.24
Consensus pattern (21 bp):
ATCTTCAAAAACCTTAAAAGA
Found at i:96480377 original size:53 final size:54
Alignment explanation
Indices: 96480291--96480514 Score: 227
Period size: 53 Copynumber: 4.2 Consensus size: 54
96480281 ATGATACACG
* * * * *
96480291 GGTA-CCTTTCCTTATTAAACTTACCATTACCATGTCTTGACATGGTCTTACAT
1 GGTATCCTTGCCTTATAAAACTTACCAATGCCATGCCTTGACATGGTCTTACAT
* * * *
96480344 GGTATCCTTGCCTTAT-GAACTCACCATTGCCATGCCTTGGCATGGTCTTACAT
1 GGTATCCTTGCCTTATAAAACTTACCAATGCCATGCCTTGACATGGTCTTACAT
* * * ** * *
96480397 GGGATCTTTGCCTTATAGTAGTTTATCAATGCCATGTCTTGACATGGTCTTACAT
1 GGTATCCTTGCCTTATA-AAACTTACCAATGCCATGCCTTGACATGGTCTTACAT
* * * * * *
96480452 GATTTCCTTGCCTTGTAAAACTTACCAATGCCATGCCTTGGCATGGTCCTACTT
1 GGTATCCTTGCCTTATAAAACTTACCAATGCCATGCCTTGACATGGTCTTACAT
96480506 GGTATCCTT
1 GGTATCCTT
96480515 AAACCCTAAT
Statistics
Matches: 137, Mismatches: 31, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
53 50 0.36
54 46 0.34
55 41 0.30
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.38
Consensus pattern (54 bp):
GGTATCCTTGCCTTATAAAACTTACCAATGCCATGCCTTGACATGGTCTTACAT
Found at i:96480463 original size:55 final size:53
Alignment explanation
Indices: 96480320--96480514 Score: 201
Period size: 55 Copynumber: 3.6 Consensus size: 53
96480310 CTTACCATTA
*
96480320 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCATTG
1 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATG
* * * * ** * *
96480373 CCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAGTAGTTTATCAATG
1 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G-AACTCACCAATG
* * * * *
96480428 CCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAAAACTTACCAATG
1 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCACCAATG
* * * *
96480482 CCATGCCTTGGCATGGTCCTACTTGGTATCCTT
1 CCATGTCTTGACATGGTCTTACATGGTATCCTT
96480515 AAACCCTAAT
Statistics
Matches: 114, Mismatches: 26, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
53 36 0.32
54 37 0.32
55 41 0.36
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.37
Consensus pattern (53 bp):
CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATG
Found at i:96482048 original size:53 final size:53
Alignment explanation
Indices: 96481977--96482082 Score: 160
Period size: 53 Copynumber: 2.0 Consensus size: 53
96481967 GATTTATGTG
* *
96481977 TTTATACGGTAAGTTTATCGTTTTAACCATTGAGCTTACTAAGA-TTTAGTAAA
1 TTTATACGGTAAGGTTATCGTTTTAACCATTGAACTTACTAA-ACTTTAGTAAA
* *
96482030 TTTATATGGTAAGGTTATCGTTTTAACCGTTGAACTTACTAAACTTTAGTAAA
1 TTTATACGGTAAGGTTATCGTTTTAACCATTGAACTTACTAAACTTTAGTAAA
96482083 GCTTACTTGT
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
52 1 0.02
53 47 0.98
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.42
Consensus pattern (53 bp):
TTTATACGGTAAGGTTATCGTTTTAACCATTGAACTTACTAAACTTTAGTAAA
Found at i:96485728 original size:21 final size:20
Alignment explanation
Indices: 96485689--96485733 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
96485679 CCATGTTTTT
* *
96485689 AAATTTTTTTTAATTTTTCC
1 AAATTTTTTTGAATTTTTCA
*
96485709 AAATTTTTTTGATTTGTTTCA
1 AAATTTTTTTGAATT-TTTCA
96485730 AAAT
1 AAAT
96485734 GATCCCTGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.29, C:0.07, G:0.04, T:0.60
Consensus pattern (20 bp):
AAATTTTTTTGAATTTTTCA
Found at i:96493102 original size:87 final size:87
Alignment explanation
Indices: 96492927--96493105 Score: 224
Period size: 84 Copynumber: 2.1 Consensus size: 87
96492917 ATGATACAAA
* * *
96492927 AATAACATAAATATGGCATGCATTAAAAAAAAGGGGAGAATAGTTGATACACGGTCAGTGTGTAA
1 AATAACATAAATATGACATGCATTAAAAAAAAGGGGAAAATAGTTGATACACGATCAGTGTGTAA
96492992 GTCTAATGCACCATAAGTGAAT
66 GTCTAATGCACCATAAGTGAAT
* ** *
96493014 AATAACATAAATATGACATGCATT-AAAAAAA-TGGAAAAT-GTTTGATGTACTATC-G-GTGTA
1 AATAACATAAATATGACATGCATTAAAAAAAAGGGGAAAATAG-TTGATACACGATCAGTGTGT-
* *
96493074 AAGTCTCATGCACCATAGGTGAAT
64 AAGTCTAATGCACCATAAGTGAAT
96493098 AATAACAT
1 AATAACAT
96493106 GATAATTTAT
Statistics
Matches: 81, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
83 4 0.05
84 32 0.40
85 15 0.19
86 7 0.09
87 23 0.28
ACGTcount: A:0.43, C:0.12, G:0.19, T:0.26
Consensus pattern (87 bp):
AATAACATAAATATGACATGCATTAAAAAAAAGGGGAAAATAGTTGATACACGATCAGTGTGTAA
GTCTAATGCACCATAAGTGAAT
Found at i:96494259 original size:2 final size:2
Alignment explanation
Indices: 96494252--96494291 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
96494242 ATTTGTGTTT
96494252 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
96494292 GGTTTTATCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:96495426 original size:9 final size:9
Alignment explanation
Indices: 96495412--96495440 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
96495402 TATAATTTGA
96495412 TATTCGAAT
1 TATTCGAAT
96495421 TATTCGAAT
1 TATTCGAAT
96495430 TATTCGAAT
1 TATTCGAAT
96495439 TA
1 TA
96495441 GAAAACTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.45
Consensus pattern (9 bp):
TATTCGAAT
Found at i:96495512 original size:18 final size:18
Alignment explanation
Indices: 96495489--96495523 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
96495479 AATTAAGTTG
96495489 ACTCGAATAACTCGATTA
1 ACTCGAATAACTCGATTA
*
96495507 ACTCGAATAATTCGATT
1 ACTCGAATAACTCGATT
96495524 CGTTTAACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.31
Consensus pattern (18 bp):
ACTCGAATAACTCGATTA
Found at i:96497892 original size:6 final size:6
Alignment explanation
Indices: 96497881--96497941 Score: 104
Period size: 6 Copynumber: 10.2 Consensus size: 6
96497871 TAGGTTTCCA
96497881 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG
* *
96497929 GAAATG GAAATG A
1 AAAATG AAAATG A
96497942 TCCATTTGCA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 53 1.00
ACGTcount: A:0.64, C:0.00, G:0.20, T:0.16
Consensus pattern (6 bp):
AAAATG
Found at i:96498959 original size:16 final size:17
Alignment explanation
Indices: 96498932--96498966 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
96498922 AACGCGTAAA
*
96498932 ATTATACAATTATTGCC
1 ATTATACAATTATTACC
96498949 ATTAT-CAATTATTACC
1 ATTATACAATTATTACC
96498965 AT
1 AT
96498967 ATTTTTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.37, C:0.17, G:0.03, T:0.43
Consensus pattern (17 bp):
ATTATACAATTATTACC
Done.