Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008243.1 Hibiscus syriacus cultivar Beakdansim tig00110893_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 10265705
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 23 of 49
Found at i:4865114 original size:23 final size:23
Alignment explanation
Indices: 4865084--4865133 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
4865074 TGCCCGGGAG
*
4865084 TCGTGTCTTGCGCCGATATCCTC
1 TCGTGTCTTGCGCCAATATCCTC
4865107 TCGTGTCTTGCGCCAATATCCTC
1 TCGTGTCTTGCGCCAATATCCTC
4865130 TCGT
1 TCGT
4865134 TGGTCACGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.10, C:0.34, G:0.20, T:0.36
Consensus pattern (23 bp):
TCGTGTCTTGCGCCAATATCCTC
Found at i:4872221 original size:64 final size:64
Alignment explanation
Indices: 4872152--4872300 Score: 187
Period size: 64 Copynumber: 2.3 Consensus size: 64
4872142 TGTTTGCCAA
*
4872152 TAAAATTTAAATTTAGATTTTTTTTTCATTTAAATATACAAAAATTAATATACA-TCAAATAAAC
1 TAAAATTTAAATTTAGATTTTTTTTTCATTT-AATATACAAAAATTAATATACACTCAAAGAAAC
* * * *
4872216 TAAAA-TTAAAGTTTA-AATCTTTTTTCATTTAATATATAAAAATTAATATACATCTCAAAGGAA
1 TAAAATTTAAA-TTTAGATTTTTTTTTCATTTAATATACAAAAATTAATATACA-CTCAAAGAAA
4872279 C
64 C
* *
4872280 TAAAATTGAAGTTTAGATTTT
1 TAAAATTTAAATTTAGATTTT
4872301 ACGTATACAT
Statistics
Matches: 71, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
62 21 0.30
63 18 0.25
64 26 0.37
65 6 0.08
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.42
Consensus pattern (64 bp):
TAAAATTTAAATTTAGATTTTTTTTTCATTTAATATACAAAAATTAATATACACTCAAAGAAAC
Found at i:4872810 original size:17 final size:17
Alignment explanation
Indices: 4872776--4872809 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
4872766 TTATATTTAA
4872776 TAAGAGGTTATTCATTT
1 TAAGAGGTTATTCATTT
4872793 TAAGA-GTTATTCATTT
1 TAAGAGGTTATTCATTT
4872809 T
1 T
4872810 TGTAACACCC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.29, C:0.06, G:0.15, T:0.50
Consensus pattern (17 bp):
TAAGAGGTTATTCATTT
Found at i:4882985 original size:61 final size:62
Alignment explanation
Indices: 4882872--4882994 Score: 239
Period size: 61 Copynumber: 2.0 Consensus size: 62
4882862 AATTATGCTT
4882872 GGTATTTTCTGGCCTATCTCTGCTCAAATCTCGATGCATCCTCAACTTAGTTGTGCACGGGC
1 GGTATTTTCTGGCCTATCTCTGCTCAAATCTCGATGCATCCTCAACTTAGTTGTGCACGGGC
4882934 GGTATTTTCTGGCCTATCTCTGCTC-AATCTCGATGCATCCTCAACTTAGTTGTGCACGGGC
1 GGTATTTTCTGGCCTATCTCTGCTCAAATCTCGATGCATCCTCAACTTAGTTGTGCACGGGC
4882995 TTAGATTTTC
Statistics
Matches: 61, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
61 36 0.59
62 25 0.41
ACGTcount: A:0.17, C:0.28, G:0.21, T:0.34
Consensus pattern (62 bp):
GGTATTTTCTGGCCTATCTCTGCTCAAATCTCGATGCATCCTCAACTTAGTTGTGCACGGGC
Found at i:4884430 original size:16 final size:17
Alignment explanation
Indices: 4884409--4884442 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
4884399 TTTTATTATT
*
4884409 ATTTAATATA-AAAATA
1 ATTTAAAATATAAAATA
4884425 ATTTAAAATATAAAATA
1 ATTTAAAATATAAAATA
4884442 A
1 A
4884443 AAAACAGAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
ATTTAAAATATAAAATA
Found at i:4893035 original size:23 final size:23
Alignment explanation
Indices: 4893009--4893060 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
4892999 ATTAAGAGTG
4893009 ATCTAATAATATAATTCTATAAT
1 ATCTAATAATATAATTCTATAAT
*
4893032 ATCTAATAATATAATTCTGTAAT
1 ATCTAATAATATAATTCTATAAT
4893055 ATCTAA
1 ATCTAA
4893061 ATTAAATTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.42
Consensus pattern (23 bp):
ATCTAATAATATAATTCTATAAT
Found at i:4895169 original size:43 final size:43
Alignment explanation
Indices: 4895108--4895209 Score: 195
Period size: 43 Copynumber: 2.4 Consensus size: 43
4895098 AAGCACATTA
*
4895108 TATTAAGTATGTTGTATTGGTTTTACTATGACGAACCTGAATG
1 TATTAAGTATGATGTATTGGTTTTACTATGACGAACCTGAATG
4895151 TATTAAGTATGATGTATTGGTTTTACTATGACGAACCTGAATG
1 TATTAAGTATGATGTATTGGTTTTACTATGACGAACCTGAATG
4895194 TATTAAGTATGATGTA
1 TATTAAGTATGATGTA
4895210 ATAATGGATG
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (43 bp):
TATTAAGTATGATGTATTGGTTTTACTATGACGAACCTGAATG
Found at i:4903549 original size:2 final size:2
Alignment explanation
Indices: 4903542--4903575 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4903532 GTGCAAATCA
4903542 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4903576 GTTCTTAGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4911425 original size:16 final size:16
Alignment explanation
Indices: 4911406--4911440 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
4911396 TTCAAATCAA
*
4911406 TTTCGGTTTGGATTAC
1 TTTCGGTTCGGATTAC
*
4911422 TTTCGGTTCGTATTAC
1 TTTCGGTTCGGATTAC
4911438 TTT
1 TTT
4911441 TAGTTTTGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.11, C:0.14, G:0.20, T:0.54
Consensus pattern (16 bp):
TTTCGGTTCGGATTAC
Found at i:4912077 original size:2 final size:2
Alignment explanation
Indices: 4912070--4912104 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
4912060 GCTTTATTCC
4912070 AT AT AT 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 AT AT AT A
4912105 ATTTTAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4912288 original size:60 final size:59
Alignment explanation
Indices: 4912172--4912290 Score: 168
Period size: 60 Copynumber: 2.0 Consensus size: 59
4912162 GCTTAAAGTG
* * ***
4912172 TGACTTTCATTTTAAATTGATCCTAAACTTTTAAATATTTCAATTTCATTTTTAAACTA
1 TGACTATCATTTTAAATTGATCCTAAACTTTTAAATATTTCAATTCCATCCCTAAACTA
4912231 TGACTATCATTTTAAATT-AGTCCTCAAACTTTTAAATATTTCAATTCCATCCCTAAACTA
1 TGACTATCATTTTAAATTGA-TCCT-AAACTTTTAAATATTTCAATTCCATCCCTAAACTA
4912291 GAACCTTCAT
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
58 1 0.02
59 21 0.40
60 31 0.58
ACGTcount: A:0.34, C:0.18, G:0.03, T:0.45
Consensus pattern (59 bp):
TGACTATCATTTTAAATTGATCCTAAACTTTTAAATATTTCAATTCCATCCCTAAACTA
Found at i:4912307 original size:60 final size:59
Alignment explanation
Indices: 4912184--4912313 Score: 149
Period size: 60 Copynumber: 2.2 Consensus size: 59
4912174 ACTTTCATTT
* *** **
4912184 TAAATT-GATCCTAAACTTTTAAATATTTCAATTTCATTTTTAAACTATGACTATCATTT
1 TAAATTAG-TCCTAAACTTTTAAATATTTCAATTCCATCCCTAAACTATGACTATCATCC
4912243 TAAATTAGTCCTCAAACTTTTAAATATTTCAATTCCATCCCTAAACTA-GAACCT-TCATCC
1 TAAATTAGTCCT-AAACTTTTAAATATTTCAATTCCATCCCTAAACTATG-A-CTATCATCC
4912303 TAAATTAGTCC
1 TAAATTAGTCC
4912314 CCAGACCTTT
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
59 11 0.18
60 48 0.79
61 2 0.03
ACGTcount: A:0.35, C:0.20, G:0.04, T:0.41
Consensus pattern (59 bp):
TAAATTAGTCCTAAACTTTTAAATATTTCAATTCCATCCCTAAACTATGACTATCATCC
Found at i:4912624 original size:59 final size:60
Alignment explanation
Indices: 4912529--4912659 Score: 192
Period size: 59 Copynumber: 2.2 Consensus size: 60
4912519 AAAGAGTGTC
* * * * *
4912529 ATAGTTTAGGGATAAAATTAGAATATTCAAAAGTTTAAGGATTAATTTGAAATGGAAGTT
1 ATAGTTTGGGGATAAAATTAGAATATTCAAAAGTTTAAAGATCAATTTAAAATGAAAGTT
* *
4912589 ATAGTTTGGGGAT-GAATTAGAATATTCAAAAGTTTAAATATCAATTTAAAATGAAAGTT
1 ATAGTTTGGGGATAAAATTAGAATATTCAAAAGTTTAAAGATCAATTTAAAATGAAAGTT
4912648 ATAGTTTGGGGA
1 ATAGTTTGGGGA
4912660 CATACGATGC
Statistics
Matches: 64, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
59 52 0.81
60 12 0.19
ACGTcount: A:0.42, C:0.02, G:0.21, T:0.35
Consensus pattern (60 bp):
ATAGTTTGGGGATAAAATTAGAATATTCAAAAGTTTAAAGATCAATTTAAAATGAAAGTT
Found at i:4925878 original size:146 final size:146
Alignment explanation
Indices: 4925728--4926291 Score: 864
Period size: 146 Copynumber: 3.9 Consensus size: 146
4925718 ACTCTGTAAT
* *
4925728 GTTCAAACGACATATCCCTAATAGGAAGACGATCGAACGATATGATATCTTCTAATCTCCATGCA
1 GTTCAAACGACATATCCCTAATAGGAAGACGATCGAACGATATGACATCTTCTAATCTTCATGCA
*
4925793 TAGCTATGGTCAACTTTACTCCAAATATGTTCATCATCCATTGTACCAAAGATAATTTATATGTA
66 TAGCTATGGTCAACTTTACTCCAAATATGTTCATCATCCACTGTACCAAAGATAATTTATATGTA
* * *
4925858 CAGAGGGTTGTACACC
131 CGGAGAGTTCTACACC
* * *
4925874 GTTCAAACGACATATCCTTAATAGAAAGAC-AGTCGAACGATATGGA-ATTTTCTAATCTTCATG
1 GTTCAAACGACATATCCCTAATAGGAAGACGA-TCGAACGATAT-GACATCTTCTAATCTTCATG
* * *
4925937 CATAACTATAGTCAACTTTACTCCAAATATGTTCATCATCTACTGTACCAAAGATAATTTATATG
64 CATAGCTATGGTCAACTTTACTCCAAATATGTTCATCATCCACTGTACCAAAGATAATTTATATG
4926002 TACGGAGAGTTCTACACC
129 TACGGAGAGTTCTACACC
* * * *
4926020 GTTTAAACGACATATCCCTAATAGGAAGA-GGTCGAAGGATATGACAACTTCTAATCTTCATGCA
1 GTTCAAACGACATATCCCTAATAGGAAGACGATCGAACGATATGACATCTTCTAATCTTCATGCA
* * *
4926084 TAGCTATGGTTAACTTTACTCCAAATATGGTCATCATCCATTGTACCAAAGATAATTTATATGTA
66 TAGCTATGGTCAACTTTACTCCAAATATGTTCATCATCCACTGTACCAAAGATAATTTATATGTA
* *
4926149 CGGAGAGCTCTTCACC
131 CGGAGAGTTCTACACC
* * * *
4926165 ATTCAAAAGACATATCCCTAATAGGAAGACGGTCGAACGATATGGCATCTTCTAATCTTCATGCA
1 GTTCAAACGACATATCCCTAATAGGAAGACGATCGAACGATATGACATCTTCTAATCTTCATGCA
4926230 TAGCTATGGTCAACTTTACTCCAAATATGTTCATCATCCACTGTACCAAAGATAATTTATAT
66 TAGCTATGGTCAACTTTACTCCAAATATGTTCATCATCCACTGTACCAAAGATAATTTATAT
4926292 CAATTGTTAT
Statistics
Matches: 378, Mismatches: 35, Indels: 10
0.89 0.08 0.02
Matches are distributed among these distances:
144 2 0.01
145 127 0.34
146 247 0.65
147 2 0.01
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.31
Consensus pattern (146 bp):
GTTCAAACGACATATCCCTAATAGGAAGACGATCGAACGATATGACATCTTCTAATCTTCATGCA
TAGCTATGGTCAACTTTACTCCAAATATGTTCATCATCCACTGTACCAAAGATAATTTATATGTA
CGGAGAGTTCTACACC
Found at i:4926179 original size:291 final size:292
Alignment explanation
Indices: 4925732--4926291 Score: 915
Period size: 291 Copynumber: 1.9 Consensus size: 292
4925722 TGTAATGTTC
* *
4925732 AAACGACATATCCCTAATAGGAAGACGATCGAACGATATGATATCTTCTAATCTCCATGCATAGC
1 AAACGACATATCCCTAATAGGAAGACGATCGAACGATATGACAACTTCTAATCTCCATGCATAGC
*
4925797 TATGGTCAACTTTACTCCAAATATGTTCATCATCCATTGTACCAAAGATAATTTATATGTACAGA
66 TATGGTCAACTTTACTCCAAATATGGTCATCATCCATTGTACCAAAGATAATTTATATGTACAGA
* * * * * * *
4925862 GGGTTGTACACCGTTCAAACGACATATCCTTAATAGAAAGACAGTCGAACGATATGGAATTTTCT
131 GAGCTCTACACCATTCAAAAGACATATCCCTAATAGAAAGACAGTCGAACGATATGGAATCTTCT
*
4925927 AATCTTCATGCATAACTATAGTCAACTTTACTCCAAATATGTTCATCATCTACTGTACCAAAGAT
196 AATCTTCATGCATAACTATAGTCAACTTTACTCCAAATATGTTCATCATCCACTGTACCAAAGAT
4925992 AATTTATATGTACGGAGAGTTCTACACCGTTT
261 AATTTATATGTACGGAGAGTTCTACACCGTTT
* * *
4926024 AAACGACATATCCCTAATAGGAAGA-GGTCGAAGGATATGACAACTTCTAATCTTCATGCATAGC
1 AAACGACATATCCCTAATAGGAAGACGATCGAACGATATGACAACTTCTAATCTCCATGCATAGC
* *
4926088 TATGGTTAACTTTACTCCAAATATGGTCATCATCCATTGTACCAAAGATAATTTATATGTACGGA
66 TATGGTCAACTTTACTCCAAATATGGTCATCATCCATTGTACCAAAGATAATTTATATGTACAGA
* * * *
4926153 GAGCTCTTCACCATTCAAAAGACATATCCCTAATAGGAAGACGGTCGAACGATATGGCATCTTCT
131 GAGCTCTACACCATTCAAAAGACATATCCCTAATAGAAAGACAGTCGAACGATATGGAATCTTCT
* *
4926218 AATCTTCATGCATAGCTATGGTCAACTTTACTCCAAATATGTTCATCATCCACTGTACCAAAGAT
196 AATCTTCATGCATAACTATAGTCAACTTTACTCCAAATATGTTCATCATCCACTGTACCAAAGAT
4926283 AATTTATAT
261 AATTTATAT
4926292 CAATTGTTAT
Statistics
Matches: 246, Mismatches: 22, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
291 221 0.90
292 25 0.10
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.31
Consensus pattern (292 bp):
AAACGACATATCCCTAATAGGAAGACGATCGAACGATATGACAACTTCTAATCTCCATGCATAGC
TATGGTCAACTTTACTCCAAATATGGTCATCATCCATTGTACCAAAGATAATTTATATGTACAGA
GAGCTCTACACCATTCAAAAGACATATCCCTAATAGAAAGACAGTCGAACGATATGGAATCTTCT
AATCTTCATGCATAACTATAGTCAACTTTACTCCAAATATGTTCATCATCCACTGTACCAAAGAT
AATTTATATGTACGGAGAGTTCTACACCGTTT
Found at i:4928823 original size:2 final size:2
Alignment explanation
Indices: 4928818--4928842 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4928808 TGTGTGTGCG
4928818 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 T
4928843 GAAGATGAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4931060 original size:18 final size:19
Alignment explanation
Indices: 4931037--4931078 Score: 68
Period size: 20 Copynumber: 2.2 Consensus size: 19
4931027 GAGCAATCCT
4931037 ATTCC-CTGGTAATCTTAC
1 ATTCCACTGGTAATCTTAC
4931055 ATTCCCACTGGTAATCTTAC
1 ATT-CCACTGGTAATCTTAC
4931075 ATTC
1 ATTC
4931079 TGTGAATCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 3 0.14
19 3 0.14
20 16 0.73
ACGTcount: A:0.24, C:0.29, G:0.10, T:0.38
Consensus pattern (19 bp):
ATTCCACTGGTAATCTTAC
Found at i:4931209 original size:18 final size:18
Alignment explanation
Indices: 4931186--4931221 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
4931176 GATTATTAAA
4931186 AATTATA-AATAATTATTT
1 AATTATATAAT-ATTATTT
4931204 AATTATATAATATTATTT
1 AATTATATAATATTATTT
4931222 TATTGAGTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.82
19 3 0.18
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
AATTATATAATATTATTT
Found at i:4931218 original size:59 final size:59
Alignment explanation
Indices: 4931138--4931262 Score: 148
Period size: 59 Copynumber: 2.1 Consensus size: 59
4931128 GTACATACAT
* * *
4931138 ATTATTTGATTATGAAGTATTACTTTATTGAGT-ATTATGATTATTAAAAATTAT-AAATA
1 ATTATTTAATTATGAAATATTACTTTATTGAGTCATCA--ATTATTAAAAATTATAAAATA
* *
4931197 ATTATTTAATTAT-ATAATATTATTTTATTGAGTCCCTCAATTATTAAAAATTATAAAATA
1 ATTATTTAATTATGA-AATATTACTTTATTGAGT-CATCAATTATTAAAAATTATAAAATA
4931257 ATTATT
1 ATTATT
4931263 AAAATATTTA
Statistics
Matches: 57, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
58 1 0.02
59 43 0.75
60 11 0.19
61 2 0.04
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (59 bp):
ATTATTTAATTATGAAATATTACTTTATTGAGTCATCAATTATTAAAAATTATAAAATA
Found at i:4932790 original size:39 final size:37
Alignment explanation
Indices: 4932747--4932841 Score: 93
Period size: 39 Copynumber: 2.4 Consensus size: 37
4932737 TTTTTTGTAG
*
4932747 TAAAATAATTTTATTAA-TTAATAATATTTTATTATTTAT
1 TAAAAAAATTTTATTAACTT-AT--TATTTTATTATTTAT
* *
4932786 TAAAAAAAATATTAGTTAACTTATTTTTTTATTATTTAT
1 T-AAAAAAATTTTA-TTAACTTATTATTTTATTATTTAT
4932825 TAATAAAAATTATTATT
1 TAA-AAAAATT-TTATT
4932842 TAGATTTATT
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
38 2 0.04
39 24 0.51
40 13 0.28
41 6 0.13
42 2 0.04
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (37 bp):
TAAAAAAATTTTATTAACTTATTATTTTATTATTTAT
Found at i:4932854 original size:40 final size:39
Alignment explanation
Indices: 4932773--4932855 Score: 121
Period size: 39 Copynumber: 2.1 Consensus size: 39
4932763 ATTAATAATA
4932773 TTTTATTATTTATTAAAAAAAATATTAGTTAACTTATTT
1 TTTTATTATTTATTAAAAAAAATATTAGTTAACTTATTT
* * *
4932812 TTTTATTATTTATTAATAAAAATTATTATTTAGATTTATTT
1 TTTTATTATTTATTAA-AAAAAATATTAGTTA-ACTTATTT
4932853 TTT
1 TTT
4932856 GAATGAAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
39 16 0.41
40 13 0.33
41 10 0.26
ACGTcount: A:0.37, C:0.01, G:0.02, T:0.59
Consensus pattern (39 bp):
TTTTATTATTTATTAAAAAAAATATTAGTTAACTTATTT
Found at i:4934358 original size:19 final size:19
Alignment explanation
Indices: 4934334--4934375 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
4934324 TCTCTCGAAA
4934334 TTTAAAATGTAT-TATATAT
1 TTTAAAAT-TATCTATATAT
*
4934353 TTTAAAATTTTCTATATAT
1 TTTAAAATTATCTATATAT
4934372 TTTA
1 TTTA
4934376 TATTAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 2 0.10
19 19 0.90
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (19 bp):
TTTAAAATTATCTATATAT
Found at i:4935039 original size:21 final size:21
Alignment explanation
Indices: 4935009--4935270 Score: 229
Period size: 21 Copynumber: 12.6 Consensus size: 21
4934999 GATTTACATA
*
4935009 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
*
4935030 TTCGCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* ** *
4935051 CTCGCGTTGCGATTTTCCAAA
1 TTCGCGTTGCGATAGTCCAAG
*
4935072 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
*
4935091 TTCGCGTTGCGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
*
4935114 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
4935133 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
*
4935156 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
4935175 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
*
4935198 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
*
4935217 TTCGCGTTGCGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
*
4935240 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
4935259 TTCGCGTTGCGA
1 TTCGCGTTGCGA
4935271 ATCTGAAAAC
Statistics
Matches: 191, Mismatches: 32, Indels: 36
0.74 0.12 0.14
Matches are distributed among these distances:
19 49 0.26
21 108 0.57
23 34 0.18
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.34
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:4935063 original size:42 final size:41
Alignment explanation
Indices: 4935034--4935270 Score: 404
Period size: 42 Copynumber: 5.7 Consensus size: 41
4935024 TCCAAGTTCG
*
4935034 CGTTGCGATAGTCGAAGCTCGCGTTGCGATT-TTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTATTCCAAATT
*
4935074 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGA-TTATTCCAAATT
4935116 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGA-TTATTCCAAATT
4935158 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGA-TTATTCCAAATT
*
4935200 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGA-TTATTCCAAATT
4935242 CGTTGCGATAGTCGAAGTTCGCGTTGCGA
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGA
4935271 ATCTGAAAAC
Statistics
Matches: 191, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
40 28 0.15
41 2 0.01
42 161 0.84
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.34
Consensus pattern (41 bp):
CGTTGCGATAGTCGAAGTTCGCGTTGCGATTATTCCAAATT
Found at i:4935232 original size:126 final size:124
Alignment explanation
Indices: 4935034--4935270 Score: 447
Period size: 126 Copynumber: 1.9 Consensus size: 124
4935024 TCCAAGTTCG
4935034 CGTTGCGATAGTCGAAGCTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTT
1 CGTTGCGATAGTCGAAGCTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTT
4935099 GCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
66 GCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
*
4935158 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCG
1 CGTTGCGATAGTCGAAGCTCGCGTTGCGA-TT-TTCCAAATTCGTTGCGATAGTCGAAGTTCGCG
4935223 TTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGA
64 TTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGA
4935271 ATCTGAAAAC
Statistics
Matches: 110, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
124 28 0.25
125 2 0.02
126 80 0.73
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.34
Consensus pattern (124 bp):
CGTTGCGATAGTCGAAGCTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTT
GCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
Found at i:4943516 original size:30 final size:31
Alignment explanation
Indices: 4943480--4943538 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 31
4943470 TTAACAATCG
4943480 ATTTTTTAATT-TTATTAA-TAAGACCACTTA
1 ATTTTTTAATTGTTATTAATTAAG-CCACTTA
4943510 ATTTTTTAATTGTTATTAATTAAGCCACT
1 ATTTTTTAATTGTTATTAATTAAGCCACT
4943539 AGTTGTTAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
30 11 0.41
31 12 0.44
32 4 0.15
ACGTcount: A:0.34, C:0.10, G:0.05, T:0.51
Consensus pattern (31 bp):
ATTTTTTAATTGTTATTAATTAAGCCACTTA
Found at i:4943757 original size:29 final size:31
Alignment explanation
Indices: 4943689--4943757 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
4943679 ATGTTAATGA
* *
4943689 ATAG-TGATTTTATTGACAACAATTAAATAG
1 ATAGATGATTTGATTAACAACAATTAAATAG
*
4943719 TTAGATGATTTGATTAACAA-AATTAAA-AG
1 ATAGATGATTTGATTAACAACAATTAAATAG
*
4943748 ATCGATGATT
1 ATAGATGATT
4943758 AAAGTAAAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
29 10 0.30
30 10 0.30
31 13 0.39
ACGTcount: A:0.43, C:0.06, G:0.14, T:0.36
Consensus pattern (31 bp):
ATAGATGATTTGATTAACAACAATTAAATAG
Found at i:4946139 original size:2 final size:2
Alignment explanation
Indices: 4946132--4946161 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
4946122 TAATTATGTT
4946132 TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4946162 TTTAAGTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4951655 original size:17 final size:16
Alignment explanation
Indices: 4951630--4951661 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
4951620 TATTCATAAA
4951630 TTACTAATATTATTTT
1 TTACTAATATTATTTT
4951646 TTACTCAATATTATTT
1 TTACT-AATATTATTT
4951662 GTAATTTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (16 bp):
TTACTAATATTATTTT
Found at i:4952019 original size:31 final size:31
Alignment explanation
Indices: 4951962--4952029 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 31
4951952 TTAACGAATG
* *
4951962 AGGGACTAAAATCGAACGGAACGATAATGTT
1 AGGGACTAAAATCGAACGGAACGATAACGTC
* * *
4951993 AGGGACTATAATCGAAC-TAATTGATAACGTC
1 AGGGACTAAAATCGAACGGAA-CGATAACGTC
4952024 AGGGAC
1 AGGGAC
4952030 CATTACCTCT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 2 0.06
31 29 0.94
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.21
Consensus pattern (31 bp):
AGGGACTAAAATCGAACGGAACGATAACGTC
Found at i:4954034 original size:31 final size:32
Alignment explanation
Indices: 4953999--4954058 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 32
4953989 GGTATATATA
4953999 TATTTAAATTAAATATATAAATA-TATATTTT
1 TATTTAAATTAAATATATAAATATTATATTTT
* *
4954030 TATTTAAATTAAATTTATTAATATTATAT
1 TATTTAAATTAAATATATAAATATTATAT
4954059 ATATAAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 21 0.81
32 5 0.19
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (32 bp):
TATTTAAATTAAATATATAAATATTATATTTT
Found at i:4961401 original size:11 final size:11
Alignment explanation
Indices: 4961385--4961413 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
4961375 ATATAGTAAC
4961385 TTTAACCATAA
1 TTTAACCATAA
4961396 TTTAACCATAA
1 TTTAACCATAA
4961407 TTTAACC
1 TTTAACC
4961414 TAAACTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.41, C:0.21, G:0.00, T:0.38
Consensus pattern (11 bp):
TTTAACCATAA
Found at i:4963007 original size:426 final size:425
Alignment explanation
Indices: 4962159--4963012 Score: 1635
Period size: 426 Copynumber: 2.0 Consensus size: 425
4962149 GATCTCATTC
4962159 CTTTCTTTATTCACACCAAACAGAGAATTTCTCTGGATTTTTTGTATTCAATTTAAAATTTAATT
1 CTTTCTTTATTCACACCAAACAGAGAATTTCTCTGGATTTTTTGTATTCAATTTAAAATTTAATT
4962224 ATTATTTGAATTTAATTTAAATAAAATTATTTACTAAGCATTTGGTTTGCTAAACATTTGAATTT
66 ATTATTTGAATTTAATTTAAATAAAATTATTTACTAAGCATTTGGTTTGCTAAACATTTGAATTT
4962289 AATAAGTTAAAATTATTTTTATAATTAATTTATTATTATTTGAAACATTATTTTAGTTTTTGTTA
131 AATAAGTTAAAATTATTTTTATAATTAATTTATTATTATTTGAAACATTATTTTAGTTTTTGTTA
4962354 GTTGTACCTAAAACCCATTTTCAAGATAATTAAAAACACACAAATATATATGCCAAGCTGGCTTT
196 GTTGTACCTAAAACCCATTTTCAAGATAATTAAAAACACACAAATATATATGCCAAGCTGGCTTT
4962419 GATTTCACATGATTTGATTTTTAATCATGATCACATACATAAAAAATTCTTATTATAATTAATAT
261 GATTTCACATGATTTGATTTTTAATCATGATCACATACATAAAAAATTCTTATTATAATTAATAT
4962484 TGGGGTCAATACATCAAATACCACTAATTTTTGGGTTTTGAATTGATTTTACCACTAAACTTTAA
326 TGGGGTCAATACATCAAATACCACTAATTTTTGGGTTTTGAATTGATTTTACCACTAAACTTTAA
4962549 AATACTTCAATTTTAACATTTAATTATAGTGTTAG
391 AATACTTCAATTTTAACATTTAATTATAGTGTTAG
4962584 CTTT-TTTATTCACACCAAACAGAGAATTTCTCTGGATTTTTTGTATTATTCAATTTTAAAATTT
1 CTTTCTTTATTCACACCAAACAGAGAATTTCTCTGGATTTTTTG---TATTCAA-TTTAAAATTT
4962648 AATTATTATTTGAATTTAATTTAAATAAAATTATTTACTAAGCATTTGGTTTGCTAAACATTTGA
62 AATTATTATTTGAATTTAATTTAAATAAAATTATTTACTAAGCATTTGGTTTGCTAAACATTTGA
4962713 ATTTAATAAGTTAAAATTATTTTTATAATTAATTTA-TATTATTTGAAACATTATTTTAGTTTTT
127 ATTTAATAAGTTAAAATTATTTTTATAATTAATTTATTATTATTTGAAACATTATTTTAGTTTTT
4962777 GTTAGTTGTACCTAAAACCCATTTTCAAGATAATTAAAAACACAC-AA-ATATATGCCAAGCTGG
192 GTTAGTTGTACCTAAAACCCATTTTCAAGATAATTAAAAACACACAAATATATATGCCAAGCTGG
4962840 CTTTGATTTCACATGATTTGATTTTTAATCATGATCACATACATAAAAAATTCTTAATTATAATT
257 CTTTGATTTCACATGATTTGATTTTTAATCATGATCACATACATAAAAAATTCTT-ATTATAATT
4962905 AATATTGGGGTCAATACATCAAATACCACTAATTTTTGGGTTTTGAATTGATTTTACCACTAAAC
321 AATATTGGGGTCAATACATCAAATACCACTAATTTTTGGGTTTTGAATTGATTTTACCACTAAAC
4962970 TTTAAAATACTTCAATTTTAACATTTAATTATAGTGTTAG
386 TTTAAAATACTTCAATTTTAACATTTAATTATAGTGTTAG
4963010 CTT
1 CTT
4963013 CAATGTGAAC
Statistics
Matches: 424, Mismatches: 0, Indels: 9
0.98 0.00 0.02
Matches are distributed among these distances:
424 39 0.09
425 75 0.18
426 119 0.28
427 80 0.19
428 111 0.26
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.44
Consensus pattern (425 bp):
CTTTCTTTATTCACACCAAACAGAGAATTTCTCTGGATTTTTTGTATTCAATTTAAAATTTAATT
ATTATTTGAATTTAATTTAAATAAAATTATTTACTAAGCATTTGGTTTGCTAAACATTTGAATTT
AATAAGTTAAAATTATTTTTATAATTAATTTATTATTATTTGAAACATTATTTTAGTTTTTGTTA
GTTGTACCTAAAACCCATTTTCAAGATAATTAAAAACACACAAATATATATGCCAAGCTGGCTTT
GATTTCACATGATTTGATTTTTAATCATGATCACATACATAAAAAATTCTTATTATAATTAATAT
TGGGGTCAATACATCAAATACCACTAATTTTTGGGTTTTGAATTGATTTTACCACTAAACTTTAA
AATACTTCAATTTTAACATTTAATTATAGTGTTAG
Found at i:4965293 original size:16 final size:17
Alignment explanation
Indices: 4965272--4965305 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
4965262 TTTTTTTATT
*
4965272 ATTTAATATAA-AAATA
1 ATTTAAAATAATAAATA
4965288 ATTTAAAATAATAAATA
1 ATTTAAAATAATAAATA
4965305 A
1 A
4965306 AAAAATAAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
ATTTAAAATAATAAATA
Found at i:4965912 original size:19 final size:21
Alignment explanation
Indices: 4965888--4965927 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
4965878 AATTAATTTT
4965888 TATCTT-C-TTTTTTACTATA
1 TATCTTACATTTTTTACTATA
4965907 TATCTTCACATTTTTTACTAT
1 TATCTT-ACATTTTTTACTAT
4965928 TGATCTCAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
21 1 0.06
22 11 0.61
ACGTcount: A:0.23, C:0.17, G:0.00, T:0.60
Consensus pattern (21 bp):
TATCTTACATTTTTTACTATA
Found at i:4966466 original size:9 final size:9
Alignment explanation
Indices: 4966452--4966479 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
4966442 AGGGTCTGAT
4966452 GGTGTAACC
1 GGTGTAACC
4966461 GGTGTAACC
1 GGTGTAACC
4966470 GGTGTAACC
1 GGTGTAACC
4966479 G
1 G
4966480 ATTTACATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.21, C:0.21, G:0.36, T:0.21
Consensus pattern (9 bp):
GGTGTAACC
Found at i:4968633 original size:4 final size:4
Alignment explanation
Indices: 4968616--4968653 Score: 67
Period size: 4 Copynumber: 9.5 Consensus size: 4
4968606 TTTGCTGTGT
*
4968616 ATGG ATGT ATGG ATGG ATGG ATGG ATGG ATGG ATGG AT
1 ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG AT
4968654 AACTCGCCTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.26, C:0.00, G:0.45, T:0.29
Consensus pattern (4 bp):
ATGG
Found at i:4971199 original size:55 final size:55
Alignment explanation
Indices: 4971086--4971199 Score: 124
Period size: 55 Copynumber: 2.1 Consensus size: 55
4971076 TTTAGTAACT
** *
4971086 TTTAAAAGTCGAGAGACTCAACAAAGTAACAATATAGTCGAAAGGTTATTTATAA
1 TTTAAAAGTCGAGAGACTCAACAAAGTAACAATATAGTCGAAAGGACAATTATAA
* * ** *
4971141 TTTAATAGTCGAGAGACTCAATAAAGTAGTACTTTATAGTTG-AAGGACAATTAT-A
1 TTTAAAAGTCGAGAGACTCAACAAAGTA--ACAATATAGTCGAAAGGACAATTATAA
4971196 TTTA
1 TTTA
4971200 CCCTAAATTT
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
55 31 0.63
56 9 0.18
57 9 0.18
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.32
Consensus pattern (55 bp):
TTTAAAAGTCGAGAGACTCAACAAAGTAACAATATAGTCGAAAGGACAATTATAA
Found at i:4984822 original size:200 final size:200
Alignment explanation
Indices: 4984466--4984865 Score: 613
Period size: 200 Copynumber: 2.0 Consensus size: 200
4984456 TCTTTGGTTC
* *
4984466 GATCCTGCTGATGATTTCCATCAGTACACCATTCTCTGGACTGATTCACACATCATGTAAGCATC
1 GATCCCGCTGATGATTTCCATCAGTACACCATTCTCTGGACTGATTCACACATCATGTAAGCATA
* * * * *
4984531 TAAAATCTATGCTCACGTAACTCGTATTCAGCGAACATGGATACGAGAAGATTACCCTTTCATGG
66 AAAAATCCATGCTCACGTAACTCGTATTCAACGAACATGGATACGAGAAGATTACCCTTACATGA
* * * **
4984596 TCCTCCGCATATATGTGTCGAGACTTGCATCCTGAGTCCGAATATCATAGGCTCTCACCATCTCC
131 TCCTCCGAATACATGTGTCCAGACTTGCATCCCAAGTCCGAATATCATAGGCTCTCACCATCTCC
4984661 CCTAT
196 CCTAT
* *
4984666 GATCCCGCTGATGATTTCCATCAGTACACCATTCTCTGGACTGATTCTCACATCATGTGAGCATA
1 GATCCCGCTGATGATTTCCATCAGTACACCATTCTCTGGACTGATTCACACATCATGTAAGCATA
* * * *
4984731 AAAAATCCATGCTCAGGTAACTCGTATTCAACGAACATGGATCCGGGAATATTACCCCTTACA-G
66 AAAAATCCATGCTCACGTAACTCGTATTCAACGAACATGGATACGAGAAGATTA-CCCTTACATG
4984795 ATCCTCCGAATACATGTGTCCAGACTTGCATCCCAAGTCCGAATATCATAGGCTCTCACCATCTC
130 ATCCTCCGAATACATGTGTCCAGACTTGCATCCCAAGTCCGAATATCATAGGCTCTCACCATCTC
*
4984860 TCCTAT
195 CCCTAT
4984866 AATTTGTTGT
Statistics
Matches: 180, Mismatches: 19, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
200 173 0.96
201 7 0.04
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.28
Consensus pattern (200 bp):
GATCCCGCTGATGATTTCCATCAGTACACCATTCTCTGGACTGATTCACACATCATGTAAGCATA
AAAAATCCATGCTCACGTAACTCGTATTCAACGAACATGGATACGAGAAGATTACCCTTACATGA
TCCTCCGAATACATGTGTCCAGACTTGCATCCCAAGTCCGAATATCATAGGCTCTCACCATCTCC
CCTAT
Found at i:4986871 original size:27 final size:28
Alignment explanation
Indices: 4986841--4986899 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
4986831 TTATTTCGGG
*
4986841 TCGGGTC-GGATTTTTTAAGTGTGATAT
1 TCGGGTCGGGATTTTTTAAGCGTGATAT
*
4986868 TCGGGTCGGGTTTTTTTAAGCGTGATAT
1 TCGGGTCGGGATTTTTTAAGCGTGATAT
4986896 TCGG
1 TCGG
4986900 ATCAGGTCGG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 7 0.24
28 22 0.76
ACGTcount: A:0.15, C:0.10, G:0.32, T:0.42
Consensus pattern (28 bp):
TCGGGTCGGGATTTTTTAAGCGTGATAT
Found at i:4986918 original size:221 final size:217
Alignment explanation
Indices: 4986477--4986919 Score: 545
Period size: 221 Copynumber: 2.0 Consensus size: 217
4986467 CGGATCGAGT
*
4986477 TTTTTTAAGTGTGATATTCGGGTCGGGTCGGGTTCGGGTTTAGGGTGAAAAAAACCAGACCGACC
1 TTTTTTAAGTGTGATATTCGGGTCGGGTCGGGTTAGGGTTTAGGGTGAAAAAAACCAGACCGACC
4986542 CGAAAATATATAATTAAGGTCGGATCAGATTAAGTCACTATTTTTATTAAATAAAAATAATTTTT
66 CGAAAATATATAATTAAGGTCGGATCAGATTAAGTCACTATTTTTATTAAATAAAAATAATTTTT
* *
4986607 TTATTATTTCGGGTCGGTCGGGTTGGATTTCTAATTCATATATTCGGGTCGGGTCGGATGAAACT
131 TTATTATTTCGGGTCGGTCGGATT-G-TTTCTAAGTCATATATTCGGGTCGGGTCGGATGAAACT
* ** * *
4986672 TTATTTTGTTCGGGTCGGGTCGGG
194 ATATTCGGATCAGGTCGGGTCGGG
* * *
4986696 TTTTTTAAGTGTGATATTCGGGTCGGGTCGGGTTTAGGGTTTAGGGTG-AAAAAATCGGGCCGAC
1 TTTTTTAAGTGTGATATTCGGGTCGGGTCGGG-TTAGGGTTTAGGGTGAAAAAAACCAGACCGAC
** * * *
4986760 CCGAAAATATATATAATTCGGGTCGGGT-AGGATTAATTCACTGTTTTTATTAAATAAAAATAAT
65 CCG-AAA-ATATATAATTAAGGTCGGATCA-GATTAAGTCACTATTTTTATTAAATAAAAATAAT
* **** *
4986824 TTTTTTATTATTTCGGGTCGGGTCGGATT-TTT-TAAGT-GTGATATTCGGGTCGGGTTTTTTTA
127 TTTTTTATTATTTCGGGTC-GGTCGGATTGTTTCTAAGTCAT-ATATTCGGGTCGGGTCGGATGA
*
4986886 AGCGTGATATTCGGATCAGGTCGGGTTCGGG
190 AAC-T-ATATTCGGATCAGGTCGGG-TCGGG
4986917 TTT
1 TTT
4986920 AGGGTGAAAA
Statistics
Matches: 192, Mismatches: 23, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
217 1 0.01
218 23 0.12
219 52 0.27
220 32 0.17
221 76 0.40
222 8 0.04
ACGTcount: A:0.24, C:0.11, G:0.27, T:0.37
Consensus pattern (217 bp):
TTTTTTAAGTGTGATATTCGGGTCGGGTCGGGTTAGGGTTTAGGGTGAAAAAAACCAGACCGACC
CGAAAATATATAATTAAGGTCGGATCAGATTAAGTCACTATTTTTATTAAATAAAAATAATTTTT
TTATTATTTCGGGTCGGTCGGATTGTTTCTAAGTCATATATTCGGGTCGGGTCGGATGAAACTAT
ATTCGGATCAGGTCGGGTCGGG
Found at i:4994688 original size:2 final size:2
Alignment explanation
Indices: 4994683--4994718 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
4994673 AAATGTGTTA
*
4994683 AT AT AT AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4994719 GTGTGTGTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:4995940 original size:7 final size:7
Alignment explanation
Indices: 4995930--4995954 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
4995920 CAGCAAGCAC
4995930 ATGGCTG
1 ATGGCTG
4995937 ATGGCTG
1 ATGGCTG
4995944 ATGGCTG
1 ATGGCTG
4995951 ATGG
1 ATGG
4995955 GGTCCACTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.12, G:0.44, T:0.28
Consensus pattern (7 bp):
ATGGCTG
Found at i:4996527 original size:15 final size:15
Alignment explanation
Indices: 4996484--4996527 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
4996474 TTGAGACCTT
4996484 ACCCGCCCCGCATCC
1 ACCCGCCCCGCATCC
* *
4996499 ACCCTCCTCGCATCC
1 ACCCGCCCCGCATCC
* *
4996514 GCCCGCCCCACATC
1 ACCCGCCCCGCATC
4996528 TGTCCGCCTA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.14, C:0.64, G:0.11, T:0.11
Consensus pattern (15 bp):
ACCCGCCCCGCATCC
Found at i:5001772 original size:23 final size:23
Alignment explanation
Indices: 5001746--5001793 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
5001736 ATAAAGTACA
*
5001746 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
5001769 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
5001792 AT
1 AT
5001794 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:5002196 original size:21 final size:22
Alignment explanation
Indices: 5002171--5002222 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
5002161 ACACTTTACA
*
5002171 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
5002194 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
5002217 ATATAA
1 ATATAA
5002223 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:5002207 original size:23 final size:23
Alignment explanation
Indices: 5002181--5002243 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
5002171 ATATAACCAC
5002181 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
5002204 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
5002227 TACCTATTACATCATAT
1 TACCTATTACATTATAT
5002244 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:5005377 original size:22 final size:23
Alignment explanation
Indices: 5005346--5005388 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
5005336 TTCCACAGTG
5005346 AAAAAAGTATCGACAC-TTTTAT
1 AAAAAAGTATCGACACATTTTAT
*
5005368 AAAAAGGTATCGACACATTTT
1 AAAAAAGTATCGACACATTTT
5005389 TATACCGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (23 bp):
AAAAAAGTATCGACACATTTTAT
Found at i:5005853 original size:365 final size:364
Alignment explanation
Indices: 5005384--5006076 Score: 1237
Period size: 365 Copynumber: 1.9 Consensus size: 364
5005374 GTATCGACAC
*
5005384 ATTTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAA
1 ATTTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAA
5005449 TGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGAACATAAAGTACCGACAC
66 TGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGAACATAAAGTACCGACAC
5005514 AATATTAGAAAGTGTCGATAAAGGTTGTAGACCTATTCGCTCATAAAACCGGTAT-TTTATACCG
131 AATATTAGAAAGTGTCGATAAAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCG
5005578 GTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATG-TGTAAATGTCGACACTT
196 GTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTTGTAAA--TCGACACTT
* *
5005642 TTTTAAATGGTATCGACACATTTTTCTTCCAATCTGAACATAAAGTACCGACACAATATTAGAAA
259 TTTTAAATGGTATCGACACA-TTTTCTTCCAATCTGAACATAAAGTACAGACACAATATTAAAAA
5005707 GTGTCGATAAAGGTTGTAGACCTATTCGCTCATAAAACCGGT
323 GTGTCGATAAAGGTTGTAGACCTATTCGCTCATAAAACCGGT
5005749 ATTTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAA
1 ATTTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAA
*
5005814 TGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACAC
66 TGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGAACATAAAGTACCGACAC
*
5005879 AATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCG
131 AATATTAGAAAGTGTCGATAAAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCG
* *
5005944 GTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTTTTTTCAATCGACACTT
196 GTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATG--TTGTAAATCGACACTT
* * *
5006009 TTTTAAATGGTATCGACACATTTTCTTTCATTCTGGACATAAAGTACAGACACAATATTAAAAAG
259 TTTTAAATGGTATCGACACATTTTCTTCCAATCTGAACATAAAGTACAGACACAATATTAAAAAG
5006074 TGT
324 TGT
5006077 GAAAACTTTG
Statistics
Matches: 314, Mismatches: 10, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
365 182 0.58
366 99 0.32
367 29 0.09
369 4 0.01
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.36
Consensus pattern (364 bp):
ATTTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAA
TGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGAACATAAAGTACCGACAC
AATATTAGAAAGTGTCGATAAAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCG
GTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTTGTAAATCGACACTTTT
TTAAATGGTATCGACACATTTTCTTCCAATCTGAACATAAAGTACAGACACAATATTAAAAAGTG
TCGATAAAGGTTGTAGACCTATTCGCTCATAAAACCGGT
Found at i:5005876 original size:183 final size:183
Alignment explanation
Indices: 5005384--5006076 Score: 1232
Period size: 183 Copynumber: 3.8 Consensus size: 183
5005374 GTATCGACAC
5005384 ATTTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAA
1 ATTTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAA
5005449 TGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGAACATAAAGTACCGACAC
66 TGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGAACATAAAGTACCGACAC
5005514 AATATTAGAAAGTGTCGATAAAGGTTGTAGACCTATTCGCTCATAAAACCGGT
131 AATATTAGAAAGTGTCGATAAAGGTTGTAGACCTATTCGCTCATAAAACCGGT
5005567 A-TTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAA
1 ATTTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAA
5005631 TGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGAACATAAAGTACCGACAC
66 TGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGAACATAAAGTACCGACAC
5005696 AATATTAGAAAGTGTCGATAAAGGTTGTAGACCTATTCGCTCATAAAACCGGT
131 AATATTAGAAAGTGTCGATAAAGGTTGTAGACCTATTCGCTCATAAAACCGGT
*
5005749 ATTTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAA
1 ATTTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAA
*
5005814 TGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACAC
66 TGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGAACATAAAGTACCGACAC
*
5005879 AATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGT
131 AATATTAGAAAGTGTCGATAAAGGTTGTAGACCTATTCGCTCATAAAACCGGT
* *
5005932 ATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTTTTTT
1 ATTTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATG---TGT
* * * * *
5005997 CAA--TCGACACTTTTTTAAATGGTATCGACACA-TTTTCTTTCATTCTGGACATAAAGTACAGA
63 AAATGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGAACATAAAGTACCGA
*
5006059 CACAATATTAAAAAGTGT
128 CACAATATTAGAAAGTGT
5006077 GAAAACTTTG
Statistics
Matches: 495, Mismatches: 11, Indels: 8
0.96 0.02 0.02
Matches are distributed among these distances:
182 182 0.37
183 280 0.57
184 29 0.06
186 4 0.01
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.36
Consensus pattern (183 bp):
ATTTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAA
TGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGAACATAAAGTACCGACAC
AATATTAGAAAGTGTCGATAAAGGTTGTAGACCTATTCGCTCATAAAACCGGT
Found at i:5007282 original size:12 final size:12
Alignment explanation
Indices: 5007265--5007372 Score: 63
Period size: 12 Copynumber: 9.0 Consensus size: 12
5007255 ACTTGTTTGG
5007265 ATCATCATCTTC
1 ATCATCATCTTC
*
5007277 ATCATCATCGTC
1 ATCATCATCTTC
* *
5007289 ATCATCTTCATC
1 ATCATCATCTTC
** * * *
5007301 GCCAGCTTCATC
1 ATCATCATCTTC
*
5007313 GTCATCATCTTC
1 ATCATCATCTTC
** *
5007325 ATCGCCAGCTTC
1 ATCATCATCTTC
* *
5007337 ATCGTCATCATC
1 ATCATCATCTTC
*
5007349 ATCATCATCGTC
1 ATCATCATCTTC
* *
5007361 AGCTTCATCTTC
1 ATCATCATCTTC
5007373 TGCGACCGCT
Statistics
Matches: 74, Mismatches: 22, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
12 74 1.00
ACGTcount: A:0.21, C:0.35, G:0.08, T:0.35
Consensus pattern (12 bp):
ATCATCATCTTC
Found at i:5007284 original size:6 final size:6
Alignment explanation
Indices: 5007265--5007357 Score: 60
Period size: 6 Copynumber: 15.5 Consensus size: 6
5007255 ACTTGTTTGG
* * * ** * *
5007265 ATCATC ATCTTC ATCATC ATCGTC ATCATC TTCATC GCCAGC TTCATC
1 ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC
* * ** * * *
5007313 GTCATC ATCTTC ATCGCC AGCTTC ATCGTC ATCATC ATCATC ATC
1 ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATC
5007358 GTCAGCTTCA
Statistics
Matches: 65, Mismatches: 22, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
6 65 1.00
ACGTcount: A:0.23, C:0.35, G:0.08, T:0.34
Consensus pattern (6 bp):
ATCATC
Found at i:5007311 original size:27 final size:27
Alignment explanation
Indices: 5007281--5007369 Score: 142
Period size: 27 Copynumber: 3.2 Consensus size: 27
5007271 ATCTTCATCA
5007281 TCATCGTCATCATCTTCATCGCCAGCT
1 TCATCGTCATCATCTTCATCGCCAGCT
5007308 TCATCGTCATCATCTTCATCGCCAGCT
1 TCATCGTCATCATCTTCATCGCCAGCT
*
5007335 TCATCGTCATCATCATCATCATCGTCAGCT
1 TCATCGTCATCATC-T--TCATCGCCAGCT
5007365 TCATC
1 TCATC
5007370 TTCTGCGACC
Statistics
Matches: 58, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
27 41 0.71
28 1 0.02
30 16 0.28
ACGTcount: A:0.20, C:0.36, G:0.10, T:0.34
Consensus pattern (27 bp):
TCATCGTCATCATCTTCATCGCCAGCT
Found at i:5007326 original size:9 final size:9
Alignment explanation
Indices: 5007278--5007361 Score: 55
Period size: 9 Copynumber: 9.3 Consensus size: 9
5007268 ATCATCTTCA
5007278 TCATCATCG
1 TCATCATCG
*
5007287 TCATCATCT
1 TCATCATCG
**
5007296 TCATCGCCAG
1 TCATCATC-G
*
5007306 -CTTCATCG
1 TCATCATCG
*
5007314 TCATCATCT
1 TCATCATCG
**
5007323 TCATCGCCAG
1 TCATCATC-G
*
5007333 -CTTCATCG
1 TCATCATCG
*
5007341 TCATCATCA
1 TCATCATCG
5007350 TCATCATCG
1 TCATCATCG
5007359 TCA
1 TCA
5007362 GCTTCATCTT
Statistics
Matches: 53, Mismatches: 18, Indels: 8
0.67 0.23 0.10
Matches are distributed among these distances:
8 2 0.04
9 51 0.96
ACGTcount: A:0.21, C:0.36, G:0.10, T:0.33
Consensus pattern (9 bp):
TCATCATCG
Found at i:5009546 original size:196 final size:199
Alignment explanation
Indices: 5008827--5010308 Score: 2848
Period size: 196 Copynumber: 7.5 Consensus size: 199
5008817 TATTTAAATT
5008827 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
5008892 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
5008957 ATCGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCTTG-TTTCCATTCATTCTGGGA
131 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGA
5009020 AAAA
196 AAAA
5009024 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
5009089 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
5009154 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGA
131 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGA
5009219 AAAA
196 AAAA
5009223 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCAT-AAACCGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
5009287 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATAC-TTTGGGTTCGATGA-TTTGGG
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
5009350 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTG-TTTCCATTCATTCTGGG-
131 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGA
5009413 AAAA
196 AAAA
5009417 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCAT-AAACCGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
5009481 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
*
5009546 ATCGACACTTTTTATATATAGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGA
131 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGA
5009611 AAAA
196 AAAA
*
5009615 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTCGACATATTCTCTCATAAAACCGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
5009680 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
5009745 ATCGACAC-TTTT-TATATGGATCGACACTTTATGGGTGCACCTTG-TTTCCATTCATTCTGGGA
131 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGA
5009807 AAAA
196 AAAA
5009811 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
5009876 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
5009941 ATCGACAC--TTT-TATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGA
131 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGA
5010003 AAAA
196 AAAA
5010007 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
5010072 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
5010137 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGA
131 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGA
5010202 AAAA
196 AAAA
5010206 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
5010271 TAATTGTACCGGTTAGATTGAAAAATTACATATTACAT
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACAT
5010309 ATTCTCTCAT
Statistics
Matches: 1270, Mismatches: 4, Indels: 20
0.98 0.00 0.02
Matches are distributed among these distances:
194 111 0.09
195 66 0.05
196 422 0.33
197 200 0.16
198 154 0.12
199 317 0.25
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.36
Consensus pattern (199 bp):
AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGA
AAAA
Found at i:5009947 original size:591 final size:591
Alignment explanation
Indices: 5008827--5010308 Score: 2836
Period size: 591 Copynumber: 2.5 Consensus size: 591
5008817 TATTTAAATT
5008827 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
5008892 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
5008957 ATCGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCTTG-TTTCCATTCATTCTGGGA
131 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGA
5009020 AAAAAGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACC
196 AAAAAGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACC
5009085 GGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTT
261 GGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTT
5009150 TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCT
326 TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCT
5009215 GGGAAAAAAGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAA
391 GGGAAAAAAGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAA
5009280 ACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTGGGTTCGATGAT
456 ACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTGGGTTCGATGAT
5009345 TTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTG-TTTCCATTCATTC
521 TTGGGATCGACAC--TTT-TATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTC
5009409 TGGG-AAAA
583 TGGGAAAAA
5009417 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCAT-AAACCGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
5009481 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
*
5009546 ATCGACACTTTTTATATATAGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGA
131 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGA
*
5009611 AAAAAGTATCGACACAAACTATATTAGTGTCGACACATTATTTCGACATATTCTCTCATAAAACC
196 AAAAAGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACC
5009676 GGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTT
261 GGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTT
5009741 TGGGATCGACAC-TTTT-TATATGGATCGACACTTTATGGGTGCACCTTG-TTTCCATTCATTCT
326 TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCT
5009803 GGGAAAAAAGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAA
391 GGGAAAAAAGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCAT-A
5009868 AACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATG
455 AACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATAC-TTTGGGTTCGATG
5009933 ATTTTGGGATCGACACTTTTATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTC
519 A-TTTGGGATCGACACTTTTATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTC
5009998 TGGGAAAAA
583 TGGGAAAAA
5010007 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
5010072 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
5010137 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGA
131 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGA
5010202 AAAAAGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACC
196 AAAAAGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACC
5010267 GGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACAT
261 GGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACAT
5010309 ATTCTCTCAT
Statistics
Matches: 880, Mismatches: 4, Indels: 15
0.98 0.00 0.02
Matches are distributed among these distances:
588 109 0.12
589 186 0.21
590 168 0.19
591 417 0.47
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.36
Consensus pattern (591 bp):
AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGA
AAAAAGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACC
GGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTT
TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCT
GGGAAAAAAGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAA
ACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTGGGTTCGATGAT
TTGGGATCGACACTTTTATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGG
GAAAAA
Found at i:5010477 original size:19 final size:19
Alignment explanation
Indices: 5010431--5010479 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
5010421 TTATATTCAC
*
5010431 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
5010450 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
5010469 ATACAAAATTA
1 ATACAAAATTA
5010480 ACTCGACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:5012076 original size:15 final size:14
Alignment explanation
Indices: 5012031--5012078 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 14
5012021 CATCGACTTC
*
5012031 CTTCCTCCTCATTT
1 CTTCCTCCTCTTTT
5012045 CTTCCAT-CTCTTCTT
1 CTTCC-TCCTCTT-TT
5012060 CTTCCTCCCTCTTTT
1 CTTCCT-CCTCTTTT
5012075 CTTC
1 CTTC
5012079 TTCATATCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
14 10 0.34
15 14 0.48
16 5 0.17
ACGTcount: A:0.04, C:0.44, G:0.00, T:0.52
Consensus pattern (14 bp):
CTTCCTCCTCTTTT
Found at i:5012402 original size:21 final size:21
Alignment explanation
Indices: 5012362--5012426 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
5012352 CCCCTTATTC
* *
5012362 CTCTCGAGTGTATCTTCGACT
1 CTCTCGAGTTTCTCTTCGACT
*
5012383 CTCTCGAGTTTCTCTACGACT
1 CTCTCGAGTTTCTCTTCGACT
* *
5012404 -TGATCAAGTTTCTCTTCGACT
1 CT-CTCGAGTTTCTCTTCGACT
5012425 CT
1 CT
5012427 TGATTGTCTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.15, C:0.29, G:0.15, T:0.40
Consensus pattern (21 bp):
CTCTCGAGTTTCTCTTCGACT
Found at i:5014664 original size:18 final size:19
Alignment explanation
Indices: 5014620--5014661 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
5014610 TCCGGTATCA
5014620 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
5014639 TTGTTACCGGTTTTCAT-ATT
1 TT-TTACCGGTTTT-ATCATT
5014659 TTT
1 TTT
5014662 ACCTGTTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
19 3 0.14
20 16 0.76
21 2 0.10
ACGTcount: A:0.14, C:0.14, G:0.12, T:0.60
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:5014809 original size:20 final size:20
Alignment explanation
Indices: 5014783--5014828 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
5014773 CACTTTTAAA
5014783 TTTACCGGTTTTATCAT-TT
1 TTTACCGGTTTTATCATATT
5014802 TGTTACCGGTTTTATCATATT
1 T-TTACCGGTTTTATCATATT
5014823 TTTACC
1 TTTACC
5014829 TGGTATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.54
Consensus pattern (20 bp):
TTTACCGGTTTTATCATATT
Found at i:5015311 original size:222 final size:224
Alignment explanation
Indices: 5014893--5015333 Score: 739
Period size: 222 Copynumber: 2.0 Consensus size: 224
5014883 TTAAAACTGC
5014893 TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
1 TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
*
5014958 TTAATTTAATAATTTAATTTACACAAAATTATATTTGATTGTTTTGATATTTATAAAATATTATT
66 TTAATTTAATAATTTAATTTACACAAAAATATATTTGATTGTTTTGATATTTATAAAATATTATT
* *
5015023 AGAATTTAAATTTAACAATATTAACCAAATATAATAATAAATATGTTTTCAACAGTGAAATAAGT
131 AGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTCAACAGTGAAATAAGT
*
5015088 ATGGACACTTTTATAAAAATGATATACTT
196 ATGGACACTTTTATAAAAAGGATATACTT
* *
5015117 TTTTGAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCTCCTAC-A-
1 TTTT-AAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAAT
*
5015180 ATTAATTTAATAATTTCA-TTACACAAAAA-ATTATTTGATTGTTTTGATATTTATAAAATATTA
65 ATTAATTTAATAATTTAATTTACACAAAAATA-TATTTGATTGTTTTGATATTTATAAAATATTA
* *
5015243 TTTAGATTTTAAATTTAACAATATTAACTAAAGATAATAATAAATATATTTTC-ACAGTGAAATA
129 -TTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTCAACAGTGAAATA
5015307 AGTATGGACACTTTTATAAAAAGGATA
193 AGTATGGACACTTTTATAAAAAGGATA
5015334 GATAATTTAC
Statistics
Matches: 205, Mismatches: 9, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
221 1 0.00
222 79 0.39
223 65 0.32
224 5 0.02
225 55 0.27
ACGTcount: A:0.40, C:0.07, G:0.08, T:0.45
Consensus pattern (224 bp):
TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
TTAATTTAATAATTTAATTTACACAAAAATATATTTGATTGTTTTGATATTTATAAAATATTATT
AGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTCAACAGTGAAATAAGT
ATGGACACTTTTATAAAAAGGATATACTT
Found at i:5016653 original size:22 final size:23
Alignment explanation
Indices: 5016625--5016671 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
5016615 AATTTAAATT
5016625 AAATAAAAATC-TAA-AATTTTTA
1 AAAT-AAAATCATAATAATTTTTA
*
5016647 AAATAAAATCATAATTATTTTTA
1 AAATAAAATCATAATAATTTTTA
5016670 AA
1 AA
5016672 TTAATTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 6 0.27
22 7 0.32
23 9 0.41
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.38
Consensus pattern (23 bp):
AAATAAAATCATAATAATTTTTA
Found at i:5016672 original size:22 final size:21
Alignment explanation
Indices: 5016623--5016672 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
5016613 AAAATTTAAA
5016623 TTAAATAAAAATCTAAAATTT
1 TTAAATAAAAATCTAAAATTT
*
5016644 TTAAA-ATAAAATCATAATTATTT
1 TTAAATA-AAAATC-TAA-AATTT
5016667 TTAAAT
1 TTAAAT
5016673 TAATTTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 1 0.04
21 11 0.46
22 3 0.12
23 9 0.38
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (21 bp):
TTAAATAAAAATCTAAAATTT
Found at i:5022272 original size:39 final size:39
Alignment explanation
Indices: 5022168--5022283 Score: 119
Period size: 39 Copynumber: 2.9 Consensus size: 39
5022158 TTATTTAGAA
* * **
5022168 TTCTCAAATTATTTCAC-TCTAACATTCAAAATTCCTAAT
1 TTCTTAAATTATTTCACAT-TAACATTCTAAATTTTTAAT
* ** *
5022207 TTCTTAAATTGTACCACCA-TAGCATTCTAAATTTTTAAT
1 TTCTTAAATTATTTCA-CATTAACATTCTAAATTTTTAAT
5022246 TTCTTAAATTATTTCACATTAACATTCTAAATTATTTA
1 TTCTTAAATTATTTCACATTAACATTCTAAATT-TTTA
5022284 TTTTAACTTC
Statistics
Matches: 61, Mismatches: 12, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.03
39 54 0.89
40 5 0.08
ACGTcount: A:0.35, C:0.18, G:0.02, T:0.45
Consensus pattern (39 bp):
TTCTTAAATTATTTCACATTAACATTCTAAATTTTTAAT
Found at i:5023098 original size:14 final size:14
Alignment explanation
Indices: 5023079--5023107 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
5023069 AGCTTTTAAA
5023079 TAGAGATGTACATG
1 TAGAGATGTACATG
5023093 TAGAGATGTACATG
1 TAGAGATGTACATG
5023107 T
1 T
5023108 TCGGACCGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.31
Consensus pattern (14 bp):
TAGAGATGTACATG
Found at i:5032382 original size:35 final size:35
Alignment explanation
Indices: 5032342--5032438 Score: 106
Period size: 35 Copynumber: 2.8 Consensus size: 35
5032332 GATGAATTCT
* *
5032342 AAATATTTACAATTTTCATATGATTTTAAGTTATC
1 AAATATTTACAATTATCAGATGATTTTAAGTTATC
* * *
5032377 AAATATTTACAGTTATCAGATGATTTTTATTTATC
1 AAATATTTACAATTATCAGATGATTTTAAGTTATC
* * * *
5032412 AGATGTTTACAGTTATAAGATG-TTTTA
1 AAATATTTACAATTATCAGATGATTTTA
5032439 CAATTATTAA
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
34 4 0.08
35 49 0.92
ACGTcount: A:0.35, C:0.07, G:0.10, T:0.47
Consensus pattern (35 bp):
AAATATTTACAATTATCAGATGATTTTAAGTTATC
Found at i:5032390 original size:17 final size:17
Alignment explanation
Indices: 5032342--5032427 Score: 57
Period size: 18 Copynumber: 4.9 Consensus size: 17
5032332 GATGAATTCT
* *
5032342 AAATATTTACAATTTTC
1 AAATATTTACAGTTATC
*
5032359 ATATGATTTTA-AGTTATC
1 AAAT-A-TTTACAGTTATC
5032377 AAATATTTACAGTTATC
1 AAATATTTACAGTTATC
* ** *
5032394 AGATGATTTTTATTTATC
1 AAAT-ATTTACAGTTATC
* *
5032412 AGATGTTTACAGTTAT
1 AAATATTTACAGTTAT
5032428 AAGATGTTTT
Statistics
Matches: 53, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
16 4 0.08
17 22 0.42
18 23 0.43
19 4 0.08
ACGTcount: A:0.35, C:0.08, G:0.09, T:0.48
Consensus pattern (17 bp):
AAATATTTACAGTTATC
Found at i:5032432 original size:17 final size:17
Alignment explanation
Indices: 5032366--5032436 Score: 72
Period size: 17 Copynumber: 4.2 Consensus size: 17
5032356 TTCATATGAT
* *
5032366 TTTA-AGTTATCAAATA
1 TTTACAGTTATCAGATG
5032382 TTTACAGTTATCAGATG
1 TTTACAGTTATCAGATG
** *
5032399 ATTTTTATTTATCAGATG
1 -TTTACAGTTATCAGATG
*
5032417 TTTACAGTTATAAGATG
1 TTTACAGTTATCAGATG
5032434 TTT
1 TTT
5032437 TACAATTATT
Statistics
Matches: 44, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
16 4 0.09
17 26 0.59
18 14 0.32
ACGTcount: A:0.32, C:0.07, G:0.13, T:0.48
Consensus pattern (17 bp):
TTTACAGTTATCAGATG
Found at i:5032440 original size:18 final size:18
Alignment explanation
Indices: 5032365--5032445 Score: 71
Period size: 18 Copynumber: 4.7 Consensus size: 18
5032355 TTTCATATGA
*
5032365 TTTTA-AGTTATCAAAT-
1 TTTTACAGTTATCAGATG
*
5032381 ATTTACAGTTATCAGATG
1 TTTTACAGTTATCAGATG
* *
5032399 ATTTT-TATTTATCAGATG
1 -TTTTACAGTTATCAGATG
*
5032417 -TTTACAGTTATAAGATG
1 TTTTACAGTTATCAGATG
*
5032434 TTTTACAATTAT
1 TTTTACAGTTAT
5032446 TAAACGTAGA
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
16 7 0.14
17 20 0.39
18 21 0.41
19 3 0.06
ACGTcount: A:0.33, C:0.07, G:0.11, T:0.48
Consensus pattern (18 bp):
TTTTACAGTTATCAGATG
Found at i:5033438 original size:17 final size:18
Alignment explanation
Indices: 5033403--5033449 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
5033393 TTATATGATT
*
5033403 AAGAAAAAAAACTTTTTA
1 AAGAAAAAAAACTTATTA
*
5033421 AAGATAAAAAA-TTATTA
1 AAGAAAAAAAACTTATTA
*
5033438 AATAAAACAAAA
1 AAGAAAA-AAAA
5033450 TTTTTAAGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.23
Consensus pattern (18 bp):
AAGAAAAAAAACTTATTA
Found at i:5036787 original size:21 final size:21
Alignment explanation
Indices: 5036762--5036801 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
5036752 AGAAATATTA
* *
5036762 AAAAATATTGATGTTTTAAAT
1 AAAAATAATAATGTTTTAAAT
5036783 AAAAATAATAATGTTTTAA
1 AAAAATAATAATGTTTTAA
5036802 TTATTGTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (21 bp):
AAAAATAATAATGTTTTAAAT
Found at i:5037655 original size:60 final size:61
Alignment explanation
Indices: 5037555--5037694 Score: 146
Period size: 60 Copynumber: 2.3 Consensus size: 61
5037545 GTCCTTCAAT
* * *
5037555 TATGATATTTATTCTAAA-TTAGTCCTTAAACTTGTAAATATACCAATTTT-ATCC-CTAAAA
1 TATGATCTTCATTCTAAATTTAGTCCTGAAACTTGTAAATATACC-ATTTTCATCCTC-AAAA
* * ** *
5037615 TATGA-CTATCATTCTAAATTTA-TCCTGAAACTTTTGAATATTTCATTTTCATCCTCAAAC
1 TATGATCT-TCATTCTAAATTTAGTCCTGAAACTTGTAAATATACCATTTTCATCCTCAAAA
5037675 TATGATCTTCATTCTAAATT
1 TATGATCTTCATTCTAAATT
5037695 GGTCCCCAAA
Statistics
Matches: 67, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
59 6 0.09
60 55 0.82
61 6 0.09
ACGTcount: A:0.34, C:0.17, G:0.05, T:0.44
Consensus pattern (61 bp):
TATGATCTTCATTCTAAATTTAGTCCTGAAACTTGTAAATATACCATTTTCATCCTCAAAA
Found at i:5037706 original size:60 final size:60
Alignment explanation
Indices: 5037601--5037736 Score: 152
Period size: 60 Copynumber: 2.2 Consensus size: 60
5037591 AATATACCAA
* * ** *
5037601 TTTTATCCCTAAAATATGACTATCATTCTAAATTTATCCTGAAAC-TTTTGAATATTTCA-
1 TTTTATCCC-AAACTATGACTATCATTCTAAATTGATCCCCAAACTTTTTGAACATTTCAG
* *
5037660 TTTTCATCCTCAAACTATGATCT-TCATTCTAAATTGGTCCCCAAACTTTTTGAACATTTTAG
1 TTTT-ATCC-CAAACTATGA-CTATCATTCTAAATTGATCCCCAAACTTTTTGAACATTTCAG
5037722 TTTTATCCCAAACTA
1 TTTTATCCCAAACTA
5037737 ATATAATAGT
Statistics
Matches: 65, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
59 4 0.06
60 38 0.58
61 19 0.29
62 4 0.06
ACGTcount: A:0.31, C:0.21, G:0.06, T:0.43
Consensus pattern (60 bp):
TTTTATCCCAAACTATGACTATCATTCTAAATTGATCCCCAAACTTTTTGAACATTTCAG
Found at i:5037939 original size:40 final size:40
Alignment explanation
Indices: 5037895--5037975 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 40
5037885 TCATAGTTTA
* * * * *
5037895 AGGATGGAATTAGAATGTTCAATAGTTTAAGGACTAATTT
1 AGGATGAAATTAGAATGTTAAAAAGTTTAAAGACCAATTT
* *
5037935 AGGATGAAATTGGAATTTTAAAAAGTTTAAAGACCAATTT
1 AGGATGAAATTAGAATGTTAAAAAGTTTAAAGACCAATTT
5037975 A
1 A
5037976 AAATGAGGGT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.42, C:0.05, G:0.20, T:0.33
Consensus pattern (40 bp):
AGGATGAAATTAGAATGTTAAAAAGTTTAAAGACCAATTT
Found at i:5039354 original size:20 final size:20
Alignment explanation
Indices: 5039329--5039369 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
5039319 TAAAATGACC
*
5039329 CAAATCTGCAAACAACTCTT
1 CAAATCTGCAAACAACGCTT
5039349 CAAATCTGCAAACAACGCTT
1 CAAATCTGCAAACAACGCTT
5039369 C
1 C
5039370 GGAACCTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.39, C:0.32, G:0.07, T:0.22
Consensus pattern (20 bp):
CAAATCTGCAAACAACGCTT
Found at i:5040946 original size:30 final size:30
Alignment explanation
Indices: 5040906--5040969 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
5040896 ATTTCAAAAC
*
5040906 CCATTGAATTTCTAAACCCAAAGATTAAAT
1 CCATTAAATTTCTAAACCCAAAGATTAAAT
* *
5040936 CCATTAAATTTCTAAACCCAGAGATTGAAT
1 CCATTAAATTTCTAAACCCAAAGATTAAAT
5040966 CCAT
1 CCAT
5040970 GACAAAAACG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.30
Consensus pattern (30 bp):
CCATTAAATTTCTAAACCCAAAGATTAAAT
Found at i:5044140 original size:60 final size:60
Alignment explanation
Indices: 5044074--5044279 Score: 236
Period size: 60 Copynumber: 3.4 Consensus size: 60
5044064 GGAAGATTCA
* * * ** * *
5044074 AAAGTTTAAGGACTAATTTAGAATGAAAATTGCAATTTTTGAATGAAATTAAATTTTTTG
1 AAAGTTTAAGGACTAATTTAAAATGAAAATCGTAATTTAGGAATGAAATTAAAATGTTTG
* * * *
5044134 AAAGTTTAAGGACTAATTTAGAATGATAATCATAATTTAGGGATGAAATTAAAATGTTTG
1 AAAGTTTAAGGACTAATTTAAAATGAAAATCGTAATTTAGGAATGAAATTAAAATGTTTG
* *
5044194 AAAGTTTAATGAGC-AATTTAAAATGAGAATCGTAATTTAGGGAA-GAAATTAAAATGTTTG
1 AAAGTTTAAGGA-CTAATTTAAAATGAAAATCGTAATTTA-GGAATGAAATTAAAATGTTTG
* * *
5044254 AAAGTTGAAGGGCCAATTTAAAATGA
1 AAAGTTTAAGGACTAATTTAAAATGA
5044280 GGACCATAGT
Statistics
Matches: 126, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
59 1 0.01
60 121 0.96
61 4 0.03
ACGTcount: A:0.44, C:0.04, G:0.18, T:0.34
Consensus pattern (60 bp):
AAAGTTTAAGGACTAATTTAAAATGAAAATCGTAATTTAGGAATGAAATTAAAATGTTTG
Found at i:5049063 original size:10 final size:10
Alignment explanation
Indices: 5049044--5049077 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
5049034 AATTTCAGCT
*
5049044 TTTTCCTTTC
1 TTTTCTTTTC
*
5049054 CTTTCTTTTC
1 TTTTCTTTTC
5049064 TTTTCTTTTC
1 TTTTCTTTTC
5049074 TTTT
1 TTTT
5049078 TCCATTCCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTTCTTTTC
Found at i:5049068 original size:15 final size:15
Alignment explanation
Indices: 5049044--5049087 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
5049034 AATTTCAGCT
5049044 TTTTCCTTTCCTTTC
1 TTTTCCTTTCCTTTC
* *
5049059 TTTTCTTTTCTTTTC
1 TTTTCCTTTCCTTTC
*
5049074 TTTTTCCATTCCTT
1 -TTTTCCTTTCCTT
5049088 CTCAAATGGT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTCCTTTCCTTTC
Found at i:5054131 original size:21 final size:21
Alignment explanation
Indices: 5054107--5054211 Score: 88
Period size: 21 Copynumber: 5.1 Consensus size: 21
5054097 GCAAATTCGC
5054107 GTTGCATTTCGCGTTGCGATA
1 GTTGCATTTCGCGTTGCGATA
* ** *
5054128 GTTGAAAATCGCATTGCGAT-
1 GTTGCATTTCGCGTTGCGATA
* *
5054148 TTTTCATTTCGCGTTGCGATA
1 GTTGCATTTCGCGTTGCGATA
* **
5054169 GTTGAAAATCGCGTTGCGAT-
1 GTTGCATTTCGCGTTGCGATA
* * *
5054189 TTTCCATTTTGCGTTGCGATA
1 GTTGCATTTCGCGTTGCGATA
5054210 GT
1 GT
5054212 CCAAGTTGCC
Statistics
Matches: 60, Mismatches: 22, Indels: 4
0.70 0.26 0.05
Matches are distributed among these distances:
20 28 0.47
21 32 0.53
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.39
Consensus pattern (21 bp):
GTTGCATTTCGCGTTGCGATA
Found at i:5054156 original size:41 final size:41
Alignment explanation
Indices: 5054111--5054211 Score: 175
Period size: 41 Copynumber: 2.5 Consensus size: 41
5054101 ATTCGCGTTG
*
5054111 CATTTCGCGTTGCGATAGTTGAAAATCGCATTGCGATTTTT
1 CATTTCGCGTTGCGATAGTTGAAAATCGCATTGCGATTTTC
*
5054152 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCATTGCGATTTTC
*
5054193 CATTTTGCGTTGCGATAGT
1 CATTTCGCGTTGCGATAGT
5054212 CCAAGTTGCC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 57 1.00
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.39
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCATTGCGATTTTC
Found at i:5054164 original size:20 final size:20
Alignment explanation
Indices: 5054136--5054208 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 20
5054126 TAGTTGAAAA
* *
5054136 TCGCATTGCGATTTTTCATT
1 TCGCGTTGCGATTTTCCATT
* ** **
5054156 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCATT
5054177 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
*
5054197 TTGCGTTGCGAT
1 TCGCGTTGCGAT
5054209 AGTCCAAGTT
Statistics
Matches: 40, Mismatches: 12, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
20 25 0.62
21 15 0.38
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.41
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:5054227 original size:41 final size:41
Alignment explanation
Indices: 5054111--5054251 Score: 142
Period size: 41 Copynumber: 3.5 Consensus size: 41
5054101 ATTCGCGTTG
* ** *
5054111 CATTTCGCGTTGCGATAGTTGAAAATCGCATTGCGATTTTT
1 CATTTTGCGTTGCGATAGTCCAAAATCGCATTGCGATTTTC
* ** *
5054152 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTTGCGTTGCGATAGTCCAAAATCGCATTGCGATTTTC
* *
5054193 CATTTTGCGTTGCGATAGTCC-AAGTTGCCATTGCGATTTTC
1 CATTTTGCGTTGCGATAGTCCAAAATCG-CATTGCGATTTTC
* **
5054234 TAAATT-CGTTGCGATAGT
1 CATTTTGCGTTGCGATAGT
5054252 TAAAAAAAAG
Statistics
Matches: 88, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
40 16 0.18
41 72 0.82
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.38
Consensus pattern (41 bp):
CATTTTGCGTTGCGATAGTCCAAAATCGCATTGCGATTTTC
Found at i:5055102 original size:2 final size:2
Alignment explanation
Indices: 5055095--5055135 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
5055085 TTTGTCTAGT
5055095 TA TA TA TA TA TA TA TA TA TA TA TA TA -A 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 TA
5055136 ATTAATTTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:5055698 original size:21 final size:21
Alignment explanation
Indices: 5055672--5055745 Score: 71
Period size: 21 Copynumber: 3.6 Consensus size: 21
5055662 TATCGCAATT
5055672 TCGCGTTGCGATAGTCGAAAA
1 TCGCGTTGCGATAGTCGAAAA
** **
5055693 TCGCGTTGCGATTTTTC--ATT
1 TCGCGTTGCGA-TAGTCGAAAA
*
5055713 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTCGAAAA
*
5055734 TTGCGTTGCGAT
1 TCGCGTTGCGAT
5055746 TTTCCATTTC
Statistics
Matches: 40, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
19 2 0.05
20 12 0.30
21 23 0.57
22 3 0.08
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.35
Consensus pattern (21 bp):
TCGCGTTGCGATAGTCGAAAA
Found at i:5055718 original size:20 final size:20
Alignment explanation
Indices: 5055693--5055765 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
5055683 TAGTCGAAAA
*
5055693 TCGCGTTGCGATTTTTCATT
1 TCGCGTTGCGATTTTACATT
* * *
5055713 TCGCGTTGCGATAGTTGAAAAT
1 TCGCGTTGCGAT--TTTACATT
*
5055735 T-GCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTACATT
5055754 TCGCGTTGCGAT
1 TCGCGTTGCGAT
5055766 AGTCTACAAT
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
19 5 0.12
20 22 0.52
21 10 0.24
22 5 0.12
ACGTcount: A:0.15, C:0.19, G:0.25, T:0.41
Consensus pattern (20 bp):
TCGCGTTGCGATTTTACATT
Found at i:5055726 original size:41 final size:40
Alignment explanation
Indices: 5055669--5055809 Score: 187
Period size: 41 Copynumber: 3.5 Consensus size: 40
5055659 TACTATCGCA
*
5055669 ATTTCGCGTTGCGATAGTCGAAAATCGCGTTGCGATTTTTC
1 ATTTCGCGTTGCGATAGTCGAAAAT-GCGTTGCGATTTTCC
*
5055710 ATTTCGCGTTGCGATAGTTGAAAATTGCGTTGCGATTTTCC
1 ATTTCGCGTTGCGATAGTCGAAAA-TGCGTTGCGATTTTCC
* *
5055751 ATTTCGCGTTGCGATAGTCTACAATGTCGTTGCGATTTTCC
1 ATTTCGCGTTGCGATAGTCGAAAATG-CGTTGCGATTTTCC
*
5055792 AAATT--CGTTGCGATAGTC
1 -ATTTCGCGTTGCGATAGTC
5055810 TACAGTTGTT
Statistics
Matches: 91, Mismatches: 6, Indels: 7
0.88 0.06 0.07
Matches are distributed among these distances:
40 15 0.16
41 72 0.79
42 4 0.04
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (40 bp):
ATTTCGCGTTGCGATAGTCGAAAATGCGTTGCGATTTTCC
Found at i:5055820 original size:19 final size:20
Alignment explanation
Indices: 5055758--5055840 Score: 62
Period size: 19 Copynumber: 4.1 Consensus size: 20
5055748 TCCATTTCGC
*
5055758 GTTGCGATAGTCTACAATGTC
1 GTTGCGATAGTCTAC-ATGTT
** * * *
5055779 GTTGCGATTTTCCAAAT-TC
1 GTTGCGATAGTCTACATGTT
5055798 GTTGCGATAGTCTACAGTTGTT
1 GTTGCGATAGTCTACA--TGTT
*
5055820 GTTGCGAAAGTCTACA-GTT
1 GTTGCGATAGTCTACATGTT
5055839 GT
1 GT
5055841 CATTGCGATT
Statistics
Matches: 49, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
19 19 0.39
20 2 0.04
21 12 0.24
22 16 0.33
ACGTcount: A:0.22, C:0.17, G:0.24, T:0.37
Consensus pattern (20 bp):
GTTGCGATAGTCTACATGTT
Found at i:5055825 original size:22 final size:22
Alignment explanation
Indices: 5055757--5055849 Score: 86
Period size: 22 Copynumber: 4.4 Consensus size: 22
5055747 TTCCATTTCG
*
5055757 CGTTGCGATAGTCTACA-ATGT
1 CGTTGCGATAGTCTACAGTTGT
* * **
5055778 CGTTGCGAT--TTTCCAAAT-T
1 CGTTGCGATAGTCTACAGTTGT
5055797 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
* *
5055819 TGTTGCGAAAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
*
5055841 CATTGCGAT
1 CGTTGCGAT
5055850 TTTCCAAATT
Statistics
Matches: 57, Mismatches: 11, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
19 14 0.25
20 2 0.04
21 14 0.25
22 27 0.47
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.37
Consensus pattern (22 bp):
CGTTGCGATAGTCTACAGTTGT
Found at i:5056047 original size:41 final size:41
Alignment explanation
Indices: 5055982--5056152 Score: 216
Period size: 41 Copynumber: 4.3 Consensus size: 41
5055972 ACCCGACCCG
*
5055982 AGACTATCGCAACGAATTTGGAAAATCGCAACGCCAACTGT
1 AGACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGT
* * *
5056023 AGACTATCGCAACGTGAA-CTGAAAAATCGCAACG-CGA-T-T
1 AGACTATCGCAAC--GAATTTGGAAAATCGCAACGACAACTGT
*
5056062 ----T-TCGCAACGAATTTGGAAAATCGCAAAGACAACTGT
1 AGACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGT
5056098 AGACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGT
1 AGACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGT
5056139 AGACTATCGCAACG
1 AGACTATCGCAACG
5056153 CGATTTTCAA
Statistics
Matches: 111, Mismatches: 8, Indels: 22
0.79 0.06 0.16
Matches are distributed among these distances:
32 3 0.03
33 13 0.12
34 9 0.08
35 2 0.02
36 1 0.01
39 1 0.01
40 2 0.02
41 63 0.57
42 14 0.13
43 3 0.03
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.19
Consensus pattern (41 bp):
AGACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGT
Found at i:5056087 original size:19 final size:19
Alignment explanation
Indices: 5056063--5056131 Score: 66
Period size: 19 Copynumber: 3.5 Consensus size: 19
5056053 AACGCGATTT
5056063 TCGCAACGAATTTGGAAAA
1 TCGCAACGAATTTGGAAAA
* * * **
5056082 TCGCAAAGACAACTGTAGACTA
1 TCGCAACG--AA-TTTGGAAAA
5056104 TCGCAACGAATTTGGAAAA
1 TCGCAACGAATTTGGAAAA
5056123 TCGCAACGA
1 TCGCAACGA
5056132 CAACTGTAGA
Statistics
Matches: 37, Mismatches: 10, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
19 21 0.57
20 2 0.05
21 2 0.05
22 12 0.32
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.19
Consensus pattern (19 bp):
TCGCAACGAATTTGGAAAA
Found at i:5056107 original size:22 final size:22
Alignment explanation
Indices: 5056081--5056152 Score: 78
Period size: 22 Copynumber: 3.4 Consensus size: 22
5056071 AATTTGGAAA
*
5056081 ATCGCAAAGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
* * **
5056103 ATCGCAACG--AA-TTTGGAAA
1 ATCGCAACGACAACTGTAGACT
5056122 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
5056144 ATCGCAACG
1 ATCGCAACG
5056153 CGATTTTCAA
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
19 13 0.34
20 2 0.05
21 2 0.05
22 21 0.55
ACGTcount: A:0.39, C:0.24, G:0.19, T:0.18
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:5056122 original size:75 final size:73
Alignment explanation
Indices: 5055988--5056130 Score: 216
Period size: 75 Copynumber: 1.9 Consensus size: 73
5055978 CCCGAGACTA
* *
5055988 TCGCAACGAATTTGGAAAATCGCAACGCCAACTGTAGACTATCGCAACGTGAACTGAAAAATCGC
1 TCGCAACGAATTTGGAAAATCGCAAAGACAACTGTAGACTATCGCAACG-GAACTG-AAAATCGC
5056053 AACGCGATTT
64 AACGCGATTT
*
5056063 TCGCAACGAATTTGGAAAATCGCAAAGACAACTGTAGACTATCGCAAC-GAATTTGGAAAATCGC
1 TCGCAACGAATTTGGAAAATCGCAAAGACAACTGTAGACTATCGCAACGGAA-CT-GAAAATCGC
5056127 AACG
64 AACG
5056131 ACAACTGTAG
Statistics
Matches: 63, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
73 3 0.05
74 13 0.21
75 47 0.75
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (73 bp):
TCGCAACGAATTTGGAAAATCGCAAAGACAACTGTAGACTATCGCAACGGAACTGAAAATCGCAA
CGCGATTT
Found at i:5056171 original size:21 final size:21
Alignment explanation
Indices: 5056141--5056299 Score: 135
Period size: 21 Copynumber: 7.7 Consensus size: 21
5056131 ACAACTGTAG
5056141 ACTATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGATTTTCA
*
5056162 ACTATTGCAACGCGATTTTCA
1 ACTATCGCAACGCGATTTTCA
* ** *
5056183 ACTATCGCAACACGA-ACTGA
1 ACTATCGCAACGCGATTTTCA
** ** **
5056203 AAAATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGATTTTCA
* ** **
5056224 A-AATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGATTTTCA
*
5056244 A-AATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGATTTTCA
5056264 ACTATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGATTTTCA
*
5056285 ATTATCGCAACGCGA
1 ACTATCGCAACGCGA
5056300 ATTTGCGATA
Statistics
Matches: 119, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
20 50 0.42
21 69 0.58
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (21 bp):
ACTATCGCAACGCGATTTTCA
Found at i:5056211 original size:20 final size:20
Alignment explanation
Indices: 5056186--5056257 Score: 117
Period size: 20 Copynumber: 3.6 Consensus size: 20
5056176 ATTTTCAACT
* * *
5056186 ATCGCAACACGAACTGAAAA
1 ATCGCAACGCGAAATGGAAA
5056206 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
5056226 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
5056246 ATCGCAACGCGA
1 ATCGCAACGCGA
5056258 TTTTCAACTA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.44, C:0.24, G:0.22, T:0.10
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:5056696 original size:16 final size:16
Alignment explanation
Indices: 5056650--5056697 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
5056640 AGAAACTTTT
5056650 AATATAATTTATGTAAA
1 AATATAATTTAT-TAAA
** *
5056667 AATATAATAAATTAGA
1 AATATAATTTATTAAA
*
5056683 AATGTAATTTATTAA
1 AATATAATTTATTAA
5056698 CGGTTAACCG
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
16 14 0.58
17 10 0.42
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (16 bp):
AATATAATTTATTAAA
Found at i:5060717 original size:80 final size:79
Alignment explanation
Indices: 5060567--5060729 Score: 308
Period size: 79 Copynumber: 2.1 Consensus size: 79
5060557 TGGAATTTGC
5060567 GTTTCGATTTATCGTGTTTCCAGACTGAAAGCAGTTCGCTGTACACCGGGATGGCTCCGTTGACT
1 GTTTCGATTTATCGTGTTTCCAGACTGAAAGCAGTTCGCTGTACACCGGGATGGCTCCGTTGACT
5060632 TCAATGGGAATCCT
66 TCAATGGGAATCCT
*
5060646 GTTTTGATTTATCGTGTTTCCAGACTGAAAGCAGTTCGCTGTACACCGGGGATGGCTCCGTTGAC
1 GTTTCGATTTATCGTGTTTCCAGACTGAAAGCAGTTCGCTGTACACC-GGGATGGCTCCGTTGAC
5060711 TTCAATGGGAATCCT
65 TTCAATGGGAATCCT
5060726 GTTT
1 GTTT
5060730 GAAGCAGAAT
Statistics
Matches: 82, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
79 46 0.56
80 36 0.44
ACGTcount: A:0.20, C:0.21, G:0.26, T:0.33
Consensus pattern (79 bp):
GTTTCGATTTATCGTGTTTCCAGACTGAAAGCAGTTCGCTGTACACCGGGATGGCTCCGTTGACT
TCAATGGGAATCCT
Found at i:5060757 original size:79 final size:77
Alignment explanation
Indices: 5060585--5060729 Score: 209
Period size: 80 Copynumber: 1.8 Consensus size: 77
5060575 TTATCGTGTT
*
5060585 TCCAGACTGAAAGCAGTTCGCTGTACACCGGGATGGCTCCGTTGACTTCAATGGGAATCCTGTTT
1 TCCAAACTGAAAGCAGTTCGCTGTACACCGGGATGGCTCCGTTGACTTCAATGGGAATCCTGTTT
* ** *
5060650 TGATTTATCGTGTT
66 TGA--TAGCGAATC
*
5060664 TCCAGACTGAAAGCAGTTCGCTGTACACCGGGGATGGCTCCGTTGACTTCAATGGGAATCCTGTT
1 TCCAAACTGAAAGCAGTTCGCTGTACACC-GGGATGGCTCCGTTGACTTCAATGGGAATCCTGTT
5060729 T
65 T
5060730 GAAGCAGAAT
Statistics
Matches: 65, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
79 29 0.45
80 36 0.55
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.30
Consensus pattern (77 bp):
TCCAAACTGAAAGCAGTTCGCTGTACACCGGGATGGCTCCGTTGACTTCAATGGGAATCCTGTTT
TGATAGCGAATC
Found at i:5066937 original size:24 final size:23
Alignment explanation
Indices: 5066922--5066967 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
5066912 AAATTAGTAA
5066922 TTTTAATTTATTTTAATATTTAAAC
1 TTTTAATTT-TTTTAA-ATTTAAAC
*
5066947 TTTTAATTTTTTTAAAATTAA
1 TTTTAATTTTTTTAAATTTAA
5066968 CATTAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 5 0.25
24 6 0.30
25 9 0.45
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (23 bp):
TTTTAATTTTTTTAAATTTAAAC
Found at i:5073575 original size:29 final size:29
Alignment explanation
Indices: 5073542--5073606 Score: 130
Period size: 29 Copynumber: 2.2 Consensus size: 29
5073532 TTTTACCTGA
5073542 GAATATAATGAATATAATTAAAAGAAATT
1 GAATATAATGAATATAATTAAAAGAAATT
5073571 GAATATAATGAATATAATTAAAAGAAATT
1 GAATATAATGAATATAATTAAAAGAAATT
5073600 GAATATA
1 GAATATA
5073607 GATGGGAACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.58, C:0.00, G:0.11, T:0.31
Consensus pattern (29 bp):
GAATATAATGAATATAATTAAAAGAAATT
Found at i:5078671 original size:22 final size:22
Alignment explanation
Indices: 5078610--5078688 Score: 86
Period size: 22 Copynumber: 3.5 Consensus size: 22
5078600 TAAACAGTAA
5078610 CCTGCTACAGGGAACCGATTCC
1 CCTGCTACAGGGAACCGATTCC
** * *
5078632 AGATTGCAAATAGGGAACCGATTCC
1 --CCTGC-TACAGGGAACCGATTCC
5078657 CCTGCTACAGGGAACCGATTCC
1 CCTGCTACAGGGAACCGATTCC
*
5078679 CTTGCTACAG
1 CCTGCTACAG
5078689 TACTGTTACA
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
22 24 0.53
23 3 0.07
24 3 0.07
25 15 0.33
ACGTcount: A:0.27, C:0.30, G:0.23, T:0.20
Consensus pattern (22 bp):
CCTGCTACAGGGAACCGATTCC
Found at i:5082880 original size:49 final size:49
Alignment explanation
Indices: 5082808--5082907 Score: 200
Period size: 49 Copynumber: 2.0 Consensus size: 49
5082798 TTTCCAGATC
5082808 TGGCTGCAACAACAAACCAAACCAAACATCGATTTTCTTTTAAATTCGG
1 TGGCTGCAACAACAAACCAAACCAAACATCGATTTTCTTTTAAATTCGG
5082857 TGGCTGCAACAACAAACCAAACCAAACATCGATTTTCTTTTAAATTCGG
1 TGGCTGCAACAACAAACCAAACCAAACATCGATTTTCTTTTAAATTCGG
5082906 TG
1 TG
5082908 TTATTATAAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (49 bp):
TGGCTGCAACAACAAACCAAACCAAACATCGATTTTCTTTTAAATTCGG
Found at i:5097235 original size:2 final size:2
Alignment explanation
Indices: 5097228--5097258 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
5097218 TTCAAGTCCA
5097228 AT 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 AT A
5097259 AACATTATAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5098468 original size:22 final size:22
Alignment explanation
Indices: 5098438--5098497 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
5098428 ATTTTAAATT
*
5098438 TGCAGAGAGTTACAAAGCTTTAA
1 TGCA-AGAGTTACAAAGATTTAA
* *
5098461 TGCAAGAGTTACAGAGATTTAT
1 TGCAAGAGTTACAAAGATTTAA
* *
5098483 TACATGAGTTACAAA
1 TGCAAGAGTTACAAA
5098498 CAGTTGGATT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
22 27 0.87
23 4 0.13
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.28
Consensus pattern (22 bp):
TGCAAGAGTTACAAAGATTTAA
Found at i:5100455 original size:2 final size:2
Alignment explanation
Indices: 5100448--5100518 Score: 92
Period size: 2 Copynumber: 36.5 Consensus size: 2
5100438 TCGGGCCGGG
* * * *
5100448 TA TA TA TA TT TA AA T- TA AA TA TA TA AA TA T- 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 TA
5100488 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5100519 TCTTTTTAAT
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
1 2 0.03
2 57 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:5100613 original size:30 final size:30
Alignment explanation
Indices: 5100579--5100655 Score: 127
Period size: 30 Copynumber: 2.6 Consensus size: 30
5100569 ACTAAACCCG
*
5100579 TCCCCGTCCCCGTTTAACATAAACGGTTTT
1 TCCCCGTCCCCGTTTAACATAAACGATTTT
*
5100609 TCCCCGTCCCCGTTTAGCATAAACGATTTT
1 TCCCCGTCCCCGTTTAACATAAACGATTTT
*
5100639 TCTCCGTCCCCGTTTAA
1 TCCCCGTCCCCGTTTAA
5100656 TTCGGTTTTC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.18, C:0.35, G:0.13, T:0.34
Consensus pattern (30 bp):
TCCCCGTCCCCGTTTAACATAAACGATTTT
Found at i:5106527 original size:44 final size:42
Alignment explanation
Indices: 5106468--5106555 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 42
5106458 TCGGGCTAAG
5106468 TATATATATTTAAATTAAATATATAAATATTATATATATATA
1 TATATATATTTAAATTAAATATATAAATATTATATATATATA
* *
5106510 TATATATTAATTTAAATTAAATTTATTAATATTATATATATATA
1 TATATA-T-ATTTAAATTAAATATATAAATATTATATATATATA
5106554 TA
1 TA
5106556 ATAATTATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
42 6 0.14
43 1 0.02
44 35 0.83
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (42 bp):
TATATATATTTAAATTAAATATATAAATATTATATATATATA
Found at i:5108119 original size:37 final size:37
Alignment explanation
Indices: 5108069--5108144 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
5108059 TTAATTTTTT
5108069 TAAAAAAAATTGAAAGTCAAAATTATCATTAACCCTA
1 TAAAAAAAATTGAAAGTCAAAATTATCATTAACCCTA
5108106 TAAAAAAAATTGAAAGTCAAAATTATCATTAACCCTA
1 TAAAAAAAATTGAAAGTCAAAATTATCATTAACCCTA
5108143 TA
1 TA
5108145 CAAGGATTGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.54, C:0.13, G:0.05, T:0.28
Consensus pattern (37 bp):
TAAAAAAAATTGAAAGTCAAAATTATCATTAACCCTA
Found at i:5109164 original size:19 final size:19
Alignment explanation
Indices: 5109105--5109165 Score: 50
Period size: 19 Copynumber: 3.1 Consensus size: 19
5109095 GGGTATATAT
* * *
5109105 ATTTAAATTAAATATATAA
1 ATTTAATTTAAATTTATTA
* * *
5109124 ATATTATATATATATTTTTTA
1 AT-TTA-ATTTAAATTTATTA
5109145 ATTTAATTTAAATTTATTA
1 ATTTAATTTAAATTTATTA
5109164 AT
1 AT
5109166 CTTATATATA
Statistics
Matches: 31, Mismatches: 9, Indels: 4
0.70 0.20 0.09
Matches are distributed among these distances:
19 15 0.48
20 6 0.19
21 10 0.32
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTAATTTAAATTTATTA
Found at i:5109187 original size:40 final size:39
Alignment explanation
Indices: 5109098--5109187 Score: 101
Period size: 40 Copynumber: 2.3 Consensus size: 39
5109088 TCGGGTCGGG
5109098 TATATAT-ATTTAAATTAAATATATAAATATTATATATA
1 TATATATAATTTAAATTAAATATATAAATATTATATATA
* * * * * *
5109136 TATTTTTTAATTTAATTTAAATTTATTAATCTTATATATA
1 TA-TATATAATTTAAATTAAATATATAAATATTATATATA
5109176 TATATAATAATT
1 TATAT-ATAATT
5109188 ATTTTTAATA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
38 2 0.05
39 5 0.12
40 34 0.83
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (39 bp):
TATATATAATTTAAATTAAATATATAAATATTATATATA
Found at i:5110321 original size:9 final size:9
Alignment explanation
Indices: 5110307--5110368 Score: 54
Period size: 9 Copynumber: 6.9 Consensus size: 9
5110297 TATTTTACCG
5110307 AAAATATTA
1 AAAATATTA
5110316 AAAATATTA
1 AAAATATTA
*
5110325 ATAATATTA
1 AAAATATTA
* *
5110334 AAACCTA-AA
1 AAA-ATATTA
*
5110343 AAAATGTTA
1 AAAATATTA
*
5110352 AAAAAATTA
1 AAAATATTA
*
5110361 ATAATATT
1 AAAATATT
5110369 TTTAATAATA
Statistics
Matches: 40, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
8 1 0.03
9 37 0.93
10 2 0.05
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (9 bp):
AAAATATTA
Found at i:5111927 original size:21 final size:21
Alignment explanation
Indices: 5111903--5111945 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
5111893 AAAAATATAT
*
5111903 TTAAAATATTATTATTTTTAA
1 TTAAAATATTAATATTTTTAA
5111924 TTAAAATATTAATATTTTTAA
1 TTAAAATATTAATATTTTTAA
5111945 T
1 T
5111946 ATTTCGGATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TTAAAATATTAATATTTTTAA
Found at i:5111996 original size:20 final size:20
Alignment explanation
Indices: 5111967--5112005 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
5111957 AGTGTCCAAT
* *
5111967 AATAATAAAATCGATAAAAA
1 AATAACAAAACCGATAAAAA
5111987 AATAACAAAACCGATAAAA
1 AATAACAAAACCGATAAAA
5112006 TACTTAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.69, C:0.10, G:0.05, T:0.15
Consensus pattern (20 bp):
AATAACAAAACCGATAAAAA
Found at i:5112040 original size:27 final size:26
Alignment explanation
Indices: 5111980--5112041 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
5111970 AATAAAATCG
*
5111980 ATAA-AAAAATAACAAAACCGATAAA
1 ATAATAAAAATAACAAAACCAATAAA
* * *
5112005 ATACTTAAAAATAATAAAATCAATAAA
1 ATA-ATAAAAATAACAAAACCAATAAA
5112032 TATAATAAAA
1 -ATAATAAAA
5112042 TTTTAAATAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
25 3 0.10
27 23 0.79
28 3 0.10
ACGTcount: A:0.69, C:0.08, G:0.02, T:0.21
Consensus pattern (26 bp):
ATAATAAAAATAACAAAACCAATAAA
Found at i:5121811 original size:2 final size:2
Alignment explanation
Indices: 5121804--5121835 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
5121794 ATTTGTCACA
*
5121804 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5121836 TTTTGTATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:5122697 original size:32 final size:31
Alignment explanation
Indices: 5122623--5122697 Score: 80
Period size: 32 Copynumber: 2.4 Consensus size: 31
5122613 TATCAATTCG
* * *
5122623 GTTGATTTTTGGGTCGGGTTAATACCGGATCT
1 GTTGATTTTCGGGTCGGGTTAATATCAGAT-T
*
5122655 GTT-AGGTTTCGGGTCGGGTTAATATCAGATT
1 GTTGA-TTTTCGGGTCGGGTTAATATCAGATT
5122686 GATTGATTTTCG
1 G-TTGATTTTCG
5122698 ATTTGGGTCA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
31 3 0.09
32 31 0.89
33 1 0.03
ACGTcount: A:0.17, C:0.11, G:0.31, T:0.41
Consensus pattern (31 bp):
GTTGATTTTCGGGTCGGGTTAATATCAGATT
Found at i:5123753 original size:2 final size:2
Alignment explanation
Indices: 5123746--5123777 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
5123736 ACAAAAGATA
5123746 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5123778 GCTCTTCTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5127511 original size:6 final size:6
Alignment explanation
Indices: 5127025--5127503 Score: 880
Period size: 6 Copynumber: 80.2 Consensus size: 6
5127015 TTCCAGTCTG
5127025 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
5127073 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
5127121 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
5127169 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT AC--ATAT ACATAT
5127219 ACATAT ACATAT ACATAT AC--AT ACATAT AC--AT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
5127263 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
5127311 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT --ACATAT
5127361 ACATAT ACATAT AC--AT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
5127407 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
5127455 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
5127503 A
1 A
5127504 TACATATAAA
Statistics
Matches: 463, Mismatches: 0, Indels: 20
0.96 0.00 0.04
Matches are distributed among these distances:
4 12 0.03
6 439 0.95
8 12 0.03
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
ACATAT
Found at i:5134469 original size:19 final size:19
Alignment explanation
Indices: 5134431--5134497 Score: 80
Period size: 19 Copynumber: 3.5 Consensus size: 19
5134421 TTCGAGAATG
*
5134431 AAAATCGCAATGCGGAAATA
1 AAAATCGCAACGC-GAAATA
**
5134451 ACTATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
**
5134470 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATA
5134489 AAAATCGCA
1 AAAATCGCA
5134498 TTGCGATTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
19 30 0.75
20 10 0.25
ACGTcount: A:0.48, C:0.24, G:0.16, T:0.12
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Done.