Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007748.1 Hibiscus syriacus cultivar Beakdansim tig00110013_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: 4568288
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 24
Found at i:746996 original size:21 final size:21
Alignment explanation
Indices: 746954--747018 Score: 94
Period size: 21 Copynumber: 3.0 Consensus size: 21
746944 AGCTTAAGGA
*
746954 TAGCTAACATTAGCTGGGAGAG
1 TAGCTGACATTAGCT-GGAGAG
* *
746976 TAGCTGATATTAGTTGGAGAG
1 TAGCTGACATTAGCTGGAGAG
746997 TAGCTGACATTAGCTGGAGAG
1 TAGCTGACATTAGCTGGAGAG
747018 T
1 T
747019 TGTTGAGGAC
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
21 26 0.68
22 12 0.32
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.28
Consensus pattern (21 bp):
TAGCTGACATTAGCTGGAGAG
Found at i:748287 original size:22 final size:22
Alignment explanation
Indices: 748259--748371 Score: 94
Period size: 22 Copynumber: 5.4 Consensus size: 22
748249 TTCCATTTCG
748259 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
** *
748281 CGTTGCGATTTTCTA-A-AT-T
1 CGTTGCGATAGTCTACAGTTGT
* * **
748300 CGTTGCGAT--TTTCCAAAT-T
1 CGTTGCGATAGTCTACAGTTGT
*
748319 CGTTGCGATAGTCTACATTTGT
1 CGTTGCGATAGTCTACAGTTGT
*
748341 TGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
*
748363 CGTTACGAT
1 CGTTGCGAT
748372 TTTCCAAATT
Statistics
Matches: 73, Mismatches: 13, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
17 2 0.03
18 1 0.01
19 22 0.30
20 1 0.01
21 6 0.08
22 41 0.56
ACGTcount: A:0.19, C:0.18, G:0.22, T:0.41
Consensus pattern (22 bp):
CGTTGCGATAGTCTACAGTTGT
Found at i:748304 original size:19 final size:19
Alignment explanation
Indices: 748280--748327 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
748270 TCTACAGTTG
*
748280 TCGTTGCGATTTTCTAAAT
1 TCGTTGCGATTTTCCAAAT
748299 TCGTTGCGATTTTCCAAAT
1 TCGTTGCGATTTTCCAAAT
748318 TCGTTGCGAT
1 TCGTTGCGAT
748328 AGTCTACATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.44
Consensus pattern (19 bp):
TCGTTGCGATTTTCCAAAT
Found at i:748342 original size:19 final size:19
Alignment explanation
Indices: 748260--748362 Score: 62
Period size: 19 Copynumber: 5.1 Consensus size: 19
748250 TCCATTTCGC
748260 GTTGCGATAGTCTACAGTTGT
1 GTTGCGATAGTCTACA-TT-T
** * *
748281 CGTTGCGATTTTCTAAATTC
1 -GTTGCGATAGTCTACATTT
** * * *
748301 GTTGCGATTTTCCAAATTC
1 GTTGCGATAGTCTACATTT
748320 GTTGCGATAGTCTACATTTGTT
1 GTTGCGATAGTCTACA--T-TT
*
748342 GTTGCGATAGTCTACAGTT
1 GTTGCGATAGTCTACATTT
748361 GT
1 GT
748363 CGTTACGATT
Statistics
Matches: 67, Mismatches: 11, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
19 34 0.51
21 3 0.04
22 30 0.45
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.42
Consensus pattern (19 bp):
GTTGCGATAGTCTACATTT
Found at i:749119 original size:22 final size:22
Alignment explanation
Indices: 749092--749173 Score: 130
Period size: 22 Copynumber: 3.7 Consensus size: 22
749082 AATTTGGAAA
*
749092 ATCGCAACGAC-AACTGTAGACT
1 ATCGCAACG-CGAAATGTAGACT
749114 ATCGCAACGCGAAATGTAGACT
1 ATCGCAACGCGAAATGTAGACT
*
749136 ATCGCAACGCGAAATGTAGGCT
1 ATCGCAACGCGAAATGTAGACT
749158 ATCGCAACGCGAAATG
1 ATCGCAACGCGAAATG
749174 AAAAATCGCA
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
21 1 0.02
22 56 0.98
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.17
Consensus pattern (22 bp):
ATCGCAACGCGAAATGTAGACT
Found at i:749183 original size:20 final size:20
Alignment explanation
Indices: 749114--749270 Score: 118
Period size: 20 Copynumber: 7.6 Consensus size: 20
749104 ACTGTAGACT
**
749114 ATCGCAACGCGAAATGTAGACT
1 ATCGCAACGCGAAATG-A-AAA
***
749136 ATCGCAACGCGAAATGTAGGCT
1 ATCGCAACGCGAAATG-A-AAA
749158 ATCGCAACGCGAAATGAAAA
1 ATCGCAACGCGAAATGAAAA
* *
749178 ATCGCAACACGAAATGGAAA
1 ATCGCAACGCGAAATGAAAA
** * **
749198 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGA-AATGAAAA
* *
749219 ATCGCAACGTGAAATGGAAA
1 ATCGCAACGCGAAATGAAAA
*
749239 ATTGCAACGCGAAAT-AGAAA
1 ATCGCAACGCGAAATGA-AAA
749259 ATCGCAACGCGA
1 ATCGCAACGCGA
749271 TTTTCAACTA
Statistics
Matches: 109, Mismatches: 24, Indels: 6
0.78 0.17 0.04
Matches are distributed among these distances:
20 58 0.53
21 14 0.13
22 37 0.34
ACGTcount: A:0.41, C:0.22, G:0.22, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAATGAAAA
Found at i:749233 original size:61 final size:61
Alignment explanation
Indices: 749156--749295 Score: 226
Period size: 61 Copynumber: 2.3 Consensus size: 61
749146 GAAATGTAGG
*
749156 CTATCGCAACGCGAAATGAAAAATCGCAACACGAAATGGAAAATCGCAACGCGATTTTCAA
1 CTATCGCAACGCGAAATGAAAAATCGCAACACGAAATAGAAAATCGCAACGCGATTTTCAA
* * * *
749217 CTATCGCAACGTGAAATGGAAAATTGCAACGCGAAATAGAAAATCGCAACGCGATTTTCAA
1 CTATCGCAACGCGAAATGAAAAATCGCAACACGAAATAGAAAATCGCAACGCGATTTTCAA
*
749278 CTATCGCAACGCAAAATG
1 CTATCGCAACGCGAAATG
749296 CAACGCGAAT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
61 72 1.00
ACGTcount: A:0.41, C:0.22, G:0.19, T:0.18
Consensus pattern (61 bp):
CTATCGCAACGCGAAATGAAAAATCGCAACACGAAATAGAAAATCGCAACGCGATTTTCAA
Found at i:749661 original size:14 final size:13
Alignment explanation
Indices: 749639--749668 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
749629 CGAATTACAT
*
749639 TTTTTGAAAAATG
1 TTTTTGGAAAATG
749652 TTTTTGGAAAATG
1 TTTTTGGAAAATG
749665 TTTT
1 TTTT
749669 ACGATGTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (13 bp):
TTTTTGGAAAATG
Found at i:750136 original size:19 final size:19
Alignment explanation
Indices: 750112--750175 Score: 65
Period size: 19 Copynumber: 3.2 Consensus size: 19
750102 TTGATTATTT
750112 TATTATATATTAAAAATTA
1 TATTATATATTAAAAATTA
*
750131 TATTATTTATTAGAAATATTA
1 TATTATATATTA-AAA-ATTA
* * *
750152 TAATATATTTTAATAATTAA
1 TATTATATATTAAAAATT-A
750172 TATT
1 TATT
750176 TTGATTAAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
19 14 0.39
20 9 0.25
21 13 0.36
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (19 bp):
TATTATATATTAAAAATTA
Found at i:752045 original size:20 final size:20
Alignment explanation
Indices: 752009--752046 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
751999 ATCCTATTCC
**
752009 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
752029 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
752047 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:756070 original size:44 final size:43
Alignment explanation
Indices: 755998--756216 Score: 159
Period size: 44 Copynumber: 5.0 Consensus size: 43
755988 TAAAATGATT
* * * * * *
755998 AAATTAGGGGCTTAAATTAAAAAAGTAAAAAGTATGGTTGAAAA
1 AAATTAAGGGCCTCAATTATAAAGGTAAAAA-TATGATTGAAAA
* *
756042 AAATTAAGGACC-CTAATTATAAAGGTAAAAA-ATGATATTAAAA
1 AAATTAAGGGCCTC-AATTATAAAGGTAAAAATATGAT-TGAAAA
* *
756085 AAA-T-AGAGGCATCAATTTTAAAGGTAAAAAT-TGATATTGAAAA
1 AAATTAAG-GGCCTCAATTATAAAGGTAAAAATATG--ATTGAAAA
* * *
756128 AAATTAGGGGCCTAAATTAT-ATGAGT-AAAATATGGGATTG-AAA
1 AAATTAAGGGCCTCAATTATAAAG-GTAAAAATAT--GATTGAAAA
756171 AAATTAAGGGCCTCAATTATAAAGGTAAAAAGTGA-GATTGAAAA
1 AAATTAAGGGCCTCAATTATAAAGGTAAAAA-T-ATGATTGAAAA
756215 AA
1 AA
756217 GGATGAGCTT
Statistics
Matches: 137, Mismatches: 20, Indels: 36
0.71 0.10 0.19
Matches are distributed among these distances:
41 2 0.01
42 25 0.18
43 52 0.38
44 54 0.39
45 2 0.01
46 2 0.01
ACGTcount: A:0.51, C:0.05, G:0.18, T:0.26
Consensus pattern (43 bp):
AAATTAAGGGCCTCAATTATAAAGGTAAAAATATGATTGAAAA
Found at i:756112 original size:86 final size:88
Alignment explanation
Indices: 756012--756216 Score: 217
Period size: 86 Copynumber: 2.4 Consensus size: 88
756002 TAGGGGCTTA
* * *
756012 AATTAAAAAAGTAAAAAGT-ATGGTTGAAAAAAATTAAGGACCCT-AATTATAA-AGGTAAAAAA
1 AATTATAAAGGTAAAAAGTGATGATTGAAAAAAATT-AGGACCCTAAATTATAAGA-GTAAAAAA
*
756074 TGATATT-AAAAAAAT-AGAGGCATC
64 TGAGATTGAAAAAAATAAG-GGCATC
* * ** * *
756098 AATTTTAAAGGTAAAAATTGAT-ATTGAAAAAAATTAGGGGCCTAAATTATATGAGTAAAATATG
1 AATTATAAAGGTAAAAAGTGATGATTGAAAAAAATTAGGACCCTAAATTATAAGAGTAAAAAATG
* * *
756162 GGATTGAAAAAATTAAGGGCCTC
66 AGATTGAAAAAAATAAGGGCATC
756185 AATTATAAAGGTAAAAAGTGA-GATTGAAAAAA
1 AATTATAAAGGTAAAAAGTGATGATTGAAAAAA
756217 GGATGAGCTT
Statistics
Matches: 98, Mismatches: 15, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
85 6 0.06
86 46 0.47
87 44 0.45
88 2 0.02
ACGTcount: A:0.52, C:0.05, G:0.18, T:0.25
Consensus pattern (88 bp):
AATTATAAAGGTAAAAAGTGATGATTGAAAAAAATTAGGACCCTAAATTATAAGAGTAAAAAATG
AGATTGAAAAAAATAAGGGCATC
Found at i:756128 original size:43 final size:43
Alignment explanation
Indices: 756035--756257 Score: 167
Period size: 42 Copynumber: 5.2 Consensus size: 43
756025 AAAAGTATGG
* *
756035 TTGAAAAAAATTA-AGGACC-CTAATTATAAAGGTAAAAAATGATA
1 TTGAAAAAAA-TAGAGG-CCTC-AATTATAAAGGTAAAAATTGAGA
* * *
756079 TT-AAAAAAATAGAGGCATCAATTTTAAAGGTAAAAATTGATA
1 TTGAAAAAAATAGAGGCCTCAATTATAAAGGTAAAAATTGAGA
* * * *
756121 TTGAAAAAAATTAGGGGCCTAAATTAT-ATGAGT-AAAATATGGGA
1 TTGAAAAAAA-TAGAGGCCTCAATTATAAAG-GTAAAAAT-TGAGA
* *
756165 TTGAAAAAATTA-AGGGCCTCAATTATAAAGGTAAAAAGTGAGA
1 TTGAAAAAAATAGA-GGCCTCAATTATAAAGGTAAAAATTGAGA
* * **
756208 TTGAAAAAAGGAT-GA-G-CTTAATTATAAAGGTACAAGGTGAGA
1 TTGAAAAAA--ATAGAGGCCTCAATTATAAAGGTAAAAATTGAGA
756250 TTGAAAAA
1 TTGAAAAA
756258 CTTAGGATCA
Statistics
Matches: 147, Mismatches: 20, Indels: 26
0.76 0.10 0.13
Matches are distributed among these distances:
42 57 0.39
43 54 0.37
44 34 0.23
45 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.19, T:0.26
Consensus pattern (43 bp):
TTGAAAAAAATAGAGGCCTCAATTATAAAGGTAAAAATTGAGA
Found at i:756236 original size:129 final size:130
Alignment explanation
Indices: 755998--756257 Score: 300
Period size: 129 Copynumber: 2.0 Consensus size: 130
755988 TAAAATGATT
*
755998 AAATTAGGGGCTTAAATTAAAAAAGTAAAAAGTATGGTTGAAAAAAATTAAGGACCCTAATTATA
1 AAATTAGGGGCCTAAATTAAAAAAGTAAAAAGTATGGTTGAAAAAAATTAAGGACCCTAATTATA
* * * *
756063 AAGGTAAAAAATGATATTAAAAAAATAGAGGCATCAATTTTAAAGGTAAAAATTGATATTGAAAA
66 AAGGTAAAAAATGAGATTAAAAAAATAGAGGCATCAATTATAAAGGTAAAAAGTGAGATTGAAAA
* ** *
756128 AAATTAGGGGCCTAAATTATATGAGT-AAAA-TATGGGATTG-AAAAAATTAAGG-GCCTCAATT
1 AAATTAGGGGCCTAAATTAAAAAAGTAAAAAGTAT-GG-TTGAAAAAAATTAAGGACCCT-AATT
* * * *
756189 ATAAAGGTAAAAAGTGAGATTGAAAAAAGGAT-GA-GC-TTAATTATAAAGGTACAAGGTGAGAT
63 ATAAAGGTAAAAAATGAGATT-AAAAAA--ATAGAGGCATCAATTATAAAGGTAAAAAGTGAGAT
756251 TGAAAA
125 TGAAAA
756257 A
1 A
756258 CTTAGGATCA
Statistics
Matches: 111, Mismatches: 13, Indels: 13
0.81 0.09 0.09
Matches are distributed among these distances:
128 6 0.05
129 68 0.61
130 33 0.30
131 2 0.02
132 2 0.02
ACGTcount: A:0.50, C:0.05, G:0.20, T:0.25
Consensus pattern (130 bp):
AAATTAGGGGCCTAAATTAAAAAAGTAAAAAGTATGGTTGAAAAAAATTAAGGACCCTAATTATA
AAGGTAAAAAATGAGATTAAAAAAATAGAGGCATCAATTATAAAGGTAAAAAGTGAGATTGAAAA
Found at i:756287 original size:129 final size:128
Alignment explanation
Indices: 755998--756288 Score: 281
Period size: 129 Copynumber: 2.2 Consensus size: 128
755988 TAAAATGATT
* * *
755998 AAATTAGGGGCTTAAATTAAAAAAGTAAAAAGTATGGTTGAAAAAAATTAAGGACCCTAATTATA
1 AAATTAGGAGCATAAATT-ATAAAGTAAAAA-TATGGTTGAAAAAAATTAAGGACCCTAATTATA
* * * *
756063 AAGGTAAAAAATGATATTAAAAAAATAGAGGCATCAATTTTAAAGGTAAAAATTGATATTGAAAA
64 AAGGTAAAAAATGAGATTAAAAAAATAGAGGCATCAATTATAAAGGTAAAAAGTGAGATTGAAAA
* * * *
756128 AAATTAGGGGCCTAAATTATATGAGT-AAAATATGGGATTG-AAAAAATTAAGG-GCCTCAATTA
1 AAATTAGGAGCATAAATTATA-AAGTAAAAATAT-GG-TTGAAAAAAATTAAGGACCCT-AATTA
* * * *
756190 TAAAGGTAAAAAGTGAGATTGAAAAAAGGAT-GA-GC-TTAATTATAAAGGTACAAGGTGAGATT
62 TAAAGGTAAAAAATGAGATT-AAAAAA--ATAGAGGCATCAATTATAAAGGTAAAAAGTGAGATT
756252 G-AAA
124 GAAAA
* * *
756256 AACTTAGGATCATCAATTATAAATGTAAAAATA
1 AAATTAGGAGCATAAATTATAAA-GTAAAAATA
756289 ATTTCACAAT
Statistics
Matches: 134, Mismatches: 18, Indels: 19
0.78 0.11 0.11
Matches are distributed among these distances:
127 1 0.01
128 27 0.20
129 71 0.53
130 31 0.23
131 2 0.01
132 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.19, T:0.26
Consensus pattern (128 bp):
AAATTAGGAGCATAAATTATAAAGTAAAAATATGGTTGAAAAAAATTAAGGACCCTAATTATAAA
GGTAAAAAATGAGATTAAAAAAATAGAGGCATCAATTATAAAGGTAAAAAGTGAGATTGAAAA
Found at i:756908 original size:124 final size:124
Alignment explanation
Indices: 756688--756930 Score: 486
Period size: 124 Copynumber: 2.0 Consensus size: 124
756678 AGAGTTAGGC
756688 CATTAATCGTTTATATGTTTTCGTAGCGGTTGAAATTATGAATTCAAGTCCATAATTAGCTTATG
1 CATTAATCGTTTATATGTTTTCGTAGCGGTTGAAATTATGAATTCAAGTCCATAATTAGCTTATG
756753 ATCCTTTTCATTGAACATTGGTTAATTTATTATTCATTCTTTATGTAAATAATTACTAA
66 ATCCTTTTCATTGAACATTGGTTAATTTATTATTCATTCTTTATGTAAATAATTACTAA
756812 CATTAATCGTTTATATGTTTTCGTAGCGGTTGAAATTATGAATTCAAGTCCATAATTAGCTTATG
1 CATTAATCGTTTATATGTTTTCGTAGCGGTTGAAATTATGAATTCAAGTCCATAATTAGCTTATG
756877 ATCCTTTTCATTGAACATTGGTTAATTTATTATTCATTCTTTATGTAAATAATT
66 ATCCTTTTCATTGAACATTGGTTAATTTATTATTCATTCTTTATGTAAATAATT
756931 GTACTAATGT
Statistics
Matches: 119, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
124 119 1.00
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.46
Consensus pattern (124 bp):
CATTAATCGTTTATATGTTTTCGTAGCGGTTGAAATTATGAATTCAAGTCCATAATTAGCTTATG
ATCCTTTTCATTGAACATTGGTTAATTTATTATTCATTCTTTATGTAAATAATTACTAA
Found at i:764375 original size:19 final size:19
Alignment explanation
Indices: 764351--764401 Score: 102
Period size: 19 Copynumber: 2.7 Consensus size: 19
764341 ATTGTTTAAG
764351 GTGCATCGATGCACATGCA
1 GTGCATCGATGCACATGCA
764370 GTGCATCGATGCACATGCA
1 GTGCATCGATGCACATGCA
764389 GTGCATCGATGCA
1 GTGCATCGATGCA
764402 TGAATTTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.22
Consensus pattern (19 bp):
GTGCATCGATGCACATGCA
Found at i:764444 original size:64 final size:62
Alignment explanation
Indices: 764371--764531 Score: 187
Period size: 64 Copynumber: 2.5 Consensus size: 62
764361 GCACATGCAG
*
764371 TGCATCGATGCACATGCAGTGCATCGATGCATGAATTTAAATAGAAAACATCGAATAGGATTTA
1 TGCATCGATGCACATGCAGTGCATCGATGCATCAA-TTAAATA-AAAACATCGAATAGGATTTA
* * * * * *
764435 TGCATCGATGCATAAGGAGTGCATCGATGCACCCCCATTAAATACAAACATCGAATAGGATTTA
1 TGCATCGATGCACATGCAGTGCATCGATGCA--TCAATTAAATAAAAACATCGAATAGGATTTA
** *
764499 TGCATCGATGCATGGTGTAGTGCATCGATGCAT
1 TGCATCGATGCA-CATGCAGTGCATCGATGCAT
764532 ACCTTCATTA
Statistics
Matches: 82, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
64 59 0.72
65 22 0.27
66 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.26
Consensus pattern (62 bp):
TGCATCGATGCACATGCAGTGCATCGATGCATCAATTAAATAAAAACATCGAATAGGATTTA
Found at i:765046 original size:18 final size:18
Alignment explanation
Indices: 765023--765057 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
765013 CTAGGAGATT
765023 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
765041 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
765058 CTAGATGGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:766118 original size:147 final size:148
Alignment explanation
Indices: 765947--766259 Score: 533
Period size: 149 Copynumber: 2.1 Consensus size: 148
765937 GAGTCGAGGG
* **
765947 TCTACGCGGTCCTTCGGG-ATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATA
1 TCTACGCGGTCCTTCGGGAATATATATATTCTGTGGAACATGTGTGAAGTCTGGAAAGACACATA
766011 -TATGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 CT-TGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
766075 TATGGCACTACGGTGCAAT
130 TATGGCACTACGGTGCAAT
*
766094 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGA-ATATATATATTCTGTGGAACATGTGTGAAGTCTGGAAAGACACAT
*
766159 ACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATTATTA
65 ACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
766224 TATGGCACTACGGTGCAAT
130 TATGGCACTACGGTGCAAT
766243 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
766260 TGCAATTATA
Statistics
Matches: 157, Mismatches: 5, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
147 18 0.11
148 1 0.01
149 137 0.87
150 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (148 bp):
TCTACGCGGTCCTTCGGGAATATATATATTCTGTGGAACATGTGTGAAGTCTGGAAAGACACATA
CTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTAT
ATGGCACTACGGTGCAAT
Found at i:766260 original size:23 final size:23
Alignment explanation
Indices: 766227--766271 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
766217 ATTATTATAT
*
766227 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
*
766250 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTATACG
766272 AGCTGTGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:769477 original size:64 final size:63
Alignment explanation
Indices: 769402--769562 Score: 200
Period size: 64 Copynumber: 2.5 Consensus size: 63
769392 TTGTTTAAGG
*
769402 TGCATCGATGCACT-TGCAGTGCATCGATGCAT-GAATTTAAATAGAAAACATCGAATAGGATTT
1 TGCATCGATGCA-TGTGCAGTGCATCGATGCATCCAA-TTAAATA-AAAACATCGAATAGGATTT
769465 A
63 A
** * * *
769466 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATACAAACATCGAATAGGATTTA
1 TGCATCGATGCATGTGCAGTGCATCGATGCAT-CCAATTAAATAAAAACATCGAATAGGATTTA
*
769530 TGCATCGATGCATGGTGTAGTGCATCGATGCAT
1 TGCATCGATGCAT-GTGCAGTGCATCGATGCAT
769563 ACCTTCATTA
Statistics
Matches: 85, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
63 1 0.01
64 60 0.71
65 23 0.27
66 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (63 bp):
TGCATCGATGCATGTGCAGTGCATCGATGCATCCAATTAAATAAAAACATCGAATAGGATTTA
Found at i:770077 original size:18 final size:18
Alignment explanation
Indices: 770054--770088 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
770044 CTAGGAGATT
770054 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
770072 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
770089 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:770338 original size:2 final size:2
Alignment explanation
Indices: 770331--770372 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
770321 AATCTTGAGG
*
770331 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
770373 GAAATGAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:771156 original size:15 final size:15
Alignment explanation
Indices: 771136--771165 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
771126 TATGGCACTA
*
771136 CGGTGCAATTCTACG
1 CGGTGCAATTATACG
771151 CGGTGCAATTATACG
1 CGGTGCAATTATACG
771166 AGCTGTGGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (15 bp):
CGGTGCAATTATACG
Found at i:773969 original size:21 final size:20
Alignment explanation
Indices: 773928--773989 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 20
773918 GGAAAATTTG
*
773928 GTATCGATACTC-AAG-GGA
1 GTATCGATACCCAAAGAGGA
773946 GTATCGATACCACAAAGAGGA
1 GTATCGATACC-CAAAGAGGA
*
773967 GTAT-GTATACCCAATGAGGA
1 GTATCG-ATACCCAAAGAGGA
773987 GTA
1 GTA
773990 CTAGTACCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
18 10 0.26
19 1 0.03
20 15 0.39
21 12 0.32
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (20 bp):
GTATCGATACCCAAAGAGGA
Found at i:778246 original size:12 final size:13
Alignment explanation
Indices: 778222--778246 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
778212 ATCATTGATG
778222 TGTTAATTTTTTT
1 TGTTAATTTTTTT
778235 TGTTAATTTTTT
1 TGTTAATTTTTT
778247 ATTTTTTCAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (13 bp):
TGTTAATTTTTTT
Found at i:785614 original size:2 final size:2
Alignment explanation
Indices: 785607--785659 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
785597 CCTTGCATGC
785607 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
785649 AT AT AT AT AT A
1 AT AT AT AT AT A
785660 AAGAAGATGT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:786800 original size:20 final size:20
Alignment explanation
Indices: 786732--786839 Score: 119
Period size: 20 Copynumber: 5.3 Consensus size: 20
786722 AATTCTGACT
* **
786732 ATCGCATTGCGATTTCCCAA
1 ATCGCATTGCGATTTACGTA
* * * *
786752 ATTCGCGTTGTGATTTTCCTA
1 A-TCGCATTGCGATTTACGTA
786773 ATTCGCATTGCGATTTACGTA
1 A-TCGCATTGCGATTTACGTA
786794 ATCGCATTGCGATTTACGTA
1 ATCGCATTGCGATTTACGTA
786814 ATCGCATTGCGATTTA-GTAA
1 ATCGCATTGCGATTTACGT-A
786834 ATCGCA
1 ATCGCA
786840 ACGAGATTCT
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
19 2 0.03
20 43 0.55
21 33 0.42
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (20 bp):
ATCGCATTGCGATTTACGTA
Found at i:787753 original size:24 final size:24
Alignment explanation
Indices: 787702--787755 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
787692 GTATTTGAAA
*
787702 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCAGAC
* *
787726 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCTTGGTCAATACCCAGAC
787750 TTTGAT
1 TTTGAT
787756 GATTTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCAGAC
Found at i:790307 original size:19 final size:20
Alignment explanation
Indices: 790265--790319 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
790255 CAATCATCTT
*
790265 AATGTCTATCGCAACGCGGA
1 AATGACTATCGCAACGCGGA
*
790285 AATGACTATCGCAATGC-GA
1 AATGACTATCGCAACGCGGA
**
790304 AATGAAAATCGCAACG
1 AATGACTATCGCAACG
790320 AGAGAATCGC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (20 bp):
AATGACTATCGCAACGCGGA
Found at i:790334 original size:33 final size:33
Alignment explanation
Indices: 790292--790403 Score: 197
Period size: 33 Copynumber: 3.4 Consensus size: 33
790282 GGAAATGACT
790292 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
790325 ATCGCAATGCGAAATAAAAATCACAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
790358 ATCGCAATGCGAAATGAAAATTGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
790391 ATCGCAATGCGAA
1 ATCGCAATGCGAA
790404 TTTAGTTTTG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 74 1.00
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:790428 original size:19 final size:19
Alignment explanation
Indices: 790398--790494 Score: 89
Period size: 19 Copynumber: 5.4 Consensus size: 19
790388 AGAATCGCAA
* * *
790398 TGCGAATTTAGTTTTGTGT
1 TGCGATTTTAGTTTCGCGT
*
790417 TACGATTTTAGTTTCGCGT
1 TGCGATTTTAGTTTCGCGT
*
790436 TGCAATTTTAGTTTCGCGT
1 TGCGATTTTAGTTTCGCGT
790455 TGCGATTTT-G--T--CGT
1 TGCGATTTTAGTTTCGCGT
*
790469 TGCGATTTTCA-TTTCGCAT
1 TGCGATTTT-AGTTTCGCGT
790488 TGCGATT
1 TGCGATT
790495 CTCTCGTTGT
Statistics
Matches: 64, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
14 12 0.19
16 1 0.02
17 1 0.02
18 1 0.02
19 49 0.77
ACGTcount: A:0.14, C:0.14, G:0.23, T:0.48
Consensus pattern (19 bp):
TGCGATTTTAGTTTCGCGT
Found at i:790470 original size:33 final size:33
Alignment explanation
Indices: 790433--790559 Score: 184
Period size: 33 Copynumber: 3.8 Consensus size: 33
790423 TTTAGTTTCG
* * * *
790433 CGTTGCAATTTT-AGTTTCGCGTTGCGATTTTGT
1 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
790466 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
*
790499 CGTTGTGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
*
790532 CGTTGTGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
790560 AGTCATTTTT
Statistics
Matches: 88, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
33 87 0.99
34 1 0.01
ACGTcount: A:0.13, C:0.20, G:0.20, T:0.47
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:790683 original size:14 final size:14
Alignment explanation
Indices: 790664--790701 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
790654 ACATCAATTA
790664 TACAAATCAACTTT
1 TACAAATCAACTTT
*
790678 TACAAATCATCTTT
1 TACAAATCAACTTT
790692 TACAAATCAA
1 TACAAATCAA
790702 TTAAACAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.34
Consensus pattern (14 bp):
TACAAATCAACTTT
Found at i:792116 original size:21 final size:21
Alignment explanation
Indices: 792050--792116 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
792040 GTGAATCGGG
*
792050 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
792070 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
792092 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
792113 CTCT
1 CTCT
792117 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:792611 original size:19 final size:19
Alignment explanation
Indices: 792587--792633 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
792577 AAAAATGACT
792587 ATCGCAACGCGAAACGAAA
1 ATCGCAACGCGAAACGAAA
*
792606 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAACGAAA
792625 ATCGCAACG
1 ATCGCAACG
792634 AGAGAATCGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.45, C:0.26, G:0.21, T:0.09
Consensus pattern (19 bp):
ATCGCAACGCGAAACGAAA
Found at i:792662 original size:19 final size:17
Alignment explanation
Indices: 792587--792669 Score: 64
Period size: 19 Copynumber: 4.6 Consensus size: 17
792577 AAAAATGACT
*
792587 ATCGCAACGCGAAACGAAA
1 ATCGCAA-GCG-AATGAAA
792606 ATCGCAACGCGAAATGAAA
1 ATCGCAA-GCG-AATGAAA
*
792625 ATCGCAA-CG-A-GAGA
1 ATCGCAAGCGAATGAAA
792639 ATCGCAATGCAGAATGAAA
1 ATCGCAA-GC-GAATGAAA
792658 ATCGCAACGCGA
1 ATCGCAA-GCGA
792670 TTATAGTTTC
Statistics
Matches: 55, Mismatches: 4, Indels: 11
0.79 0.06 0.16
Matches are distributed among these distances:
14 10 0.18
15 1 0.02
16 1 0.02
17 3 0.05
18 3 0.05
19 37 0.67
ACGTcount: A:0.45, C:0.23, G:0.23, T:0.10
Consensus pattern (17 bp):
ATCGCAAGCGAATGAAA
Found at i:792782 original size:20 final size:19
Alignment explanation
Indices: 792676--792790 Score: 123
Period size: 19 Copynumber: 6.2 Consensus size: 19
792666 GCGATTATAG
**
792676 TTTCGCGTTGCGATTTTTGG
1 TTTCGCGTTGCGA-TTTTCA
*
792696 TTTCGCGTTGCGATTCTC-
1 TTTCGCGTTGCGATTTTCA
792714 -TT---GTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCA
*
792729 TTTCGCGTTGCGATTTTCG
1 TTTCGCGTTGCGATTTTCA
*
792748 TTTCGCGTTGTGATTTTCA
1 TTTCGCGTTGCGATTTTCA
*
792767 TTCTCTCGTTGCGATTTTCA
1 TT-TCGCGTTGCGATTTTCA
792787 TTTC
1 TTTC
792791 AACCAAAAGA
Statistics
Matches: 81, Mismatches: 8, Indels: 13
0.79 0.08 0.13
Matches are distributed among these distances:
14 11 0.14
16 2 0.02
17 2 0.02
19 36 0.44
20 30 0.37
ACGTcount: A:0.08, C:0.20, G:0.22, T:0.50
Consensus pattern (19 bp):
TTTCGCGTTGCGATTTTCA
Found at i:792782 original size:39 final size:38
Alignment explanation
Indices: 792676--792790 Score: 123
Period size: 33 Copynumber: 3.1 Consensus size: 38
792666 GCGATTATAG
** *
792676 TTTCGCGTTGCGATTTTTGGTTTCGCGTTGCGATTCTC-
1 TTTCGCGTTGCGA-TTTTCATTTCGCGTTGCGATTTTCA
*
792714 -TT---GTTGCGATTTTCATTTCGCGTTGCGATTTTCG
1 TTTCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCA
* *
792748 TTTCGCGTTGTGATTTTCATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCATT-TCGCGTTGCGATTTTCA
792787 TTTC
1 TTTC
792791 AACCAAAAGA
Statistics
Matches: 65, Mismatches: 6, Indels: 11
0.79 0.07 0.13
Matches are distributed among these distances:
33 21 0.32
34 7 0.11
35 2 0.03
37 2 0.03
38 14 0.22
39 19 0.29
ACGTcount: A:0.08, C:0.20, G:0.22, T:0.50
Consensus pattern (38 bp):
TTTCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCA
Found at i:792783 original size:58 final size:53
Alignment explanation
Indices: 792676--792790 Score: 151
Period size: 52 Copynumber: 2.1 Consensus size: 53
792666 GCGATTATAG
*
792676 TTTCGCGTTGCGATTTTTGGTTTCGCGTTGCGATTCTCTTGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTTCGTTTCGCGTTGCGATTCTCTTGTTGCGATTTTCA
*
792729 TTTCGCGTTGCGA-TTTTCGTTTCGCGTTGTGATTTTCATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTTCGTTTCGCGTTGCGA--TTC--TCT-T-GTTGCGATTTTCA
792787 TTTC
1 TTTC
792791 AACCAAAAGA
Statistics
Matches: 54, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
52 17 0.31
53 13 0.24
54 3 0.06
56 3 0.06
57 1 0.02
58 17 0.31
ACGTcount: A:0.08, C:0.20, G:0.22, T:0.50
Consensus pattern (53 bp):
TTTCGCGTTGCGATTTTTCGTTTCGCGTTGCGATTCTCTTGTTGCGATTTTCA
Found at i:792998 original size:94 final size:94
Alignment explanation
Indices: 792881--793348 Score: 725
Period size: 94 Copynumber: 5.1 Consensus size: 94
792871 ATGGATTGCA
* *
792881 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCAGAGTATTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
* *
792945 TTAGCAGAATTGGTAGCAAACGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
* * *
792974 TTACTTTCAACCAAAGGACGAAACAAAGACAAATACTAACTTCACAGTGTTAAAAAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
793039 TTAGCAGAATTGGCAGCAACCGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
793068 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
793133 TTAGCAGAATTGGCAGTAACCGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
793162 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
* * *
793227 TTAGCAGAATTAGCAGCAATCGAATAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
* * *
793256 TTAC-TTCAACCAAAAGACAACA-AAAGACAAATATTAACTTCACAGTGTT----AATAAACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
* * * *
793315 TTAGTAGTATTGGCAGCAACCAAATAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
793344 TTACT
1 TTACT
793349 AAGCAATCTA
Statistics
Matches: 350, Mismatches: 23, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
88 37 0.11
92 26 0.07
93 21 0.06
94 266 0.76
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.22
Consensus pattern (94 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
TTAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:795077 original size:14 final size:14
Alignment explanation
Indices: 795058--795113 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
795048 GGAAATGACT
795058 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
795072 ATCGCAACGCGAAATGAAA
1 ATCGCAA--CG--A-GAGA
795091 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
795105 ATCGCAACG
1 ATCGCAACG
795114 CGAAATGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 19 0.54
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.43, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:795088 original size:33 final size:33
Alignment explanation
Indices: 795037--795130 Score: 152
Period size: 33 Copynumber: 2.8 Consensus size: 33
795027 TTGAAATGAA
* **
795037 AATCCCAACGCGGAAATGACTATCGCAACGAGAG
1 AATCGCAACGC-GAAATGAAAATCGCAACGAGAG
795071 AATCGCAACGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAGAG
795104 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
795131 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 47 0.82
34 10 0.18
ACGTcount: A:0.44, C:0.23, G:0.22, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAGAG
Found at i:795095 original size:19 final size:19
Alignment explanation
Indices: 795029--795135 Score: 81
Period size: 19 Copynumber: 6.1 Consensus size: 19
795019 TCTTTTGGTT
*
795029 GAAATGAAAATCCCAACGC
1 GAAATGAAAATCGCAACGC
**
795048 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
795066 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
795082 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
795099 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
795115 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
795134 GA
1 GA
795136 TTTTGGTTTC
Statistics
Matches: 68, Mismatches: 9, Indels: 21
0.69 0.09 0.21
Matches are distributed among these distances:
14 19 0.28
15 2 0.03
16 4 0.06
17 3 0.04
18 3 0.04
19 24 0.35
20 13 0.19
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.11
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:795181 original size:21 final size:21
Alignment explanation
Indices: 795155--795233 Score: 85
Period size: 20 Copynumber: 3.9 Consensus size: 21
795145 CGCGTTGCGA
*
795155 TTCTCTCGTTACGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
**
795176 TTCTCTCGTTGCGATAGTCAT
1 TTCTCTCGTTGCGATTTTCAT
795197 TT-TCGT-GTTGCGATTTTCAT
1 TTCTC-TCGTTGCGATTTTCAT
795217 TT-TCAT-GTTGCGATTTT
1 TTCTC-TCGTTGCGATTTT
795234 AAGTTTAGAA
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
20 30 0.59
21 21 0.41
ACGTcount: A:0.13, C:0.19, G:0.16, T:0.52
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:795810 original size:20 final size:20
Alignment explanation
Indices: 795764--795841 Score: 88
Period size: 20 Copynumber: 3.9 Consensus size: 20
795754 ATGGCGCTAT
*
795764 GTAAATCACAATGCGAATTA-
1 GTAAATCGCAATGCG-ATTAC
*
795784 GAAAAATCGCAATGCGATTAC
1 G-TAAATCGCAATGCGATTAC
*
795805 GTAAATCGCAATGCGAATAC
1 GTAAATCGCAATGCGATTAC
*
795825 GT-AATCGCATTGCGATT
1 GTAAATCGCAATGCGATT
795842 TACGCGTTGC
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
19 13 0.26
20 24 0.48
21 13 0.26
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.24
Consensus pattern (20 bp):
GTAAATCGCAATGCGATTAC
Found at i:795889 original size:21 final size:20
Alignment explanation
Indices: 795788--795918 Score: 143
Period size: 20 Copynumber: 6.8 Consensus size: 20
795778 GAATTAGAAA
*
795788 AATCGCAATGCGA-TTACGT
1 AATCGCATTGCGATTTACGT
* *
795807 AAATCGCAATGCGA-ATACGT
1 -AATCGCATTGCGATTTACGT
795827 AATCGCATTGCGATTTACG-
1 AATCGCATTGCGATTTACGT
* *
795846 ---CG--TTGCGATTTTCCT
1 AATCGCATTGCGATTTACGT
795861 AATCGCATTGCGATTTACGT
1 AATCGCATTGCGATTTACGT
795881 AATTCGCATTGCGATTTACGT
1 AA-TCGCATTGCGATTTACGT
795902 AATCGCATTGCGATTTA
1 AATCGCATTGCGATTTA
795919 GGAAAATCGC
Statistics
Matches: 96, Mismatches: 7, Indels: 16
0.81 0.06 0.13
Matches are distributed among these distances:
14 10 0.10
16 2 0.02
18 2 0.02
19 12 0.12
20 50 0.52
21 20 0.21
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.33
Consensus pattern (20 bp):
AATCGCATTGCGATTTACGT
Found at i:795929 original size:41 final size:41
Alignment explanation
Indices: 795848--795929 Score: 119
Period size: 41 Copynumber: 2.0 Consensus size: 41
795838 GATTTACGCG
* * *
795848 TTGCGATTTTCCTAATCGCATTGCGATTTACGTAATTCGCA
1 TTGCGATTTACCTAATCGCATTGCGATTTACGAAAATCGCA
* *
795889 TTGCGATTTACGTAATCGCATTGCGATTTAGGAAAATCGCA
1 TTGCGATTTACCTAATCGCATTGCGATTTACGAAAATCGCA
795930 ACGCGAATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.35
Consensus pattern (41 bp):
TTGCGATTTACCTAATCGCATTGCGATTTACGAAAATCGCA
Found at i:796169 original size:2 final size:2
Alignment explanation
Indices: 796162--796193 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
796152 TGCGTGTATG
*
796162 AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
796194 TAACTTTTAT
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:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:800156 original size:30 final size:29
Alignment explanation
Indices: 800066--800204 Score: 111
Period size: 29 Copynumber: 4.6 Consensus size: 29
800056 AAAATTTGAA
800066 AATTCCCAAAATGTCACCTTTTTT-AAAAT
1 AATTCCC-AAATGTCACCTTTTTTCAAAAT
* * *
800095 AATTCCCAGAGTGTCACC-TTTTACGAAAT
1 AATTCCCA-AATGTCACCTTTTTTCAAAAT
* *
800124 AATTCCCAATATGTTACCTTTTTTCCAAAT
1 AATTCCCAA-ATGTCACCTTTTTTCAAAAT
* ** *
800154 AATTCCTATAATGTCATTTTTTTTAAAAAAAT
1 AATTCCCA-AATGTCACCTTTTTT--CAAAAT
*
800186 AATTCCCAAAATATCACCT
1 AATTCCC-AAATGTCACCT
800205 AACAACAATT
Statistics
Matches: 85, Mismatches: 17, Indels: 13
0.74 0.15 0.11
Matches are distributed among these distances:
28 6 0.07
29 33 0.39
30 27 0.32
31 1 0.01
32 17 0.20
33 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.05, T:0.38
Consensus pattern (29 bp):
AATTCCCAAATGTCACCTTTTTTCAAAAT
Found at i:801667 original size:13 final size:13
Alignment explanation
Indices: 801649--801675 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
801639 TGTTATTGTA
801649 AGCAAATTCAGCC
1 AGCAAATTCAGCC
801662 AGCAAATTCAGCC
1 AGCAAATTCAGCC
801675 A
1 A
801676 AAGGCAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.30, G:0.15, T:0.15
Consensus pattern (13 bp):
AGCAAATTCAGCC
Found at i:806824 original size:28 final size:29
Alignment explanation
Indices: 806740--806901 Score: 136
Period size: 29 Copynumber: 5.7 Consensus size: 29
806730 AACATTTGAA
*
806740 AATTCCC-ATAATGTCACCTTTTTAAAAAT
1 AATTCCCAAT-ATGTCACCTTTTTCAAAAT
* * *
806769 AATTCCCAGA-GTGTCACC-TTTACGAAAT
1 AATTCCCA-ATATGTCACCTTTTTCAAAAT
* *
806797 AATTCCCAATATGTTA-CTTTTTCCAAAT
1 AATTCCCAATATGTCACCTTTTTCAAAAT
* *
806825 ATTTCCC-ATAATGTCACCATTTTCAAAAT
1 AATTCCCAAT-ATGTCACCTTTTTCAAAAT
* * *
806854 AATTCCCAAAATGTCACCTTTATCGAAAT
1 AATTCCCAATATGTCACCTTTTTCAAAAT
* * *
806883 ATTTCCCAAAATATCACCT
1 AATTCCCAATATGTCACCT
806902 AACAACAATT
Statistics
Matches: 107, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
27 4 0.04
28 38 0.36
29 63 0.59
30 1 0.01
31 1 0.01
ACGTcount: A:0.35, C:0.24, G:0.06, T:0.35
Consensus pattern (29 bp):
AATTCCCAATATGTCACCTTTTTCAAAAT
Found at i:809873 original size:18 final size:17
Alignment explanation
Indices: 809840--809903 Score: 60
Period size: 18 Copynumber: 3.8 Consensus size: 17
809830 ATCAGAAGAA
*
809840 AAGAAAAGAGAAAATAG
1 AAGAAAAGAAAAAATAG
809857 AAGAAAGAGAAAAAATAAG
1 AAGAAA-AGAAAAAAT-AG
* * *
809876 AAAAAAATAAAAAA-AA
1 AAGAAAAGAAAAAATAG
809892 AAGAAAA-AAAAA
1 AAGAAAAGAAAAA
809904 GAAAAAAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
15 5 0.12
16 7 0.17
17 6 0.15
18 15 0.38
19 7 0.17
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.05
Consensus pattern (17 bp):
AAGAAAAGAAAAAATAG
Found at i:809876 original size:16 final size:15
Alignment explanation
Indices: 809838--809907 Score: 63
Period size: 16 Copynumber: 4.5 Consensus size: 15
809828 CTATCAGAAG
809838 AAAAGAAAAGAGAAAA
1 AAAAG-AAAGAGAAAA
*
809854 TAGAAGAAAGAGAAAA
1 -AAAAGAAAGAGAAAA
*
809870 AATAAGAAA-AAAATAA
1 AA-AAGAAAGAGAA-AA
*
809886 AAAAAAAAGA-AAAA
1 AAAAGAAAGAGAAAA
809900 AAAAGAAA
1 AAAAGAAA
809908 AAAAATTGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
14 9 0.20
15 11 0.24
16 21 0.47
17 4 0.09
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.04
Consensus pattern (15 bp):
AAAAGAAAGAGAAAA
Found at i:809883 original size:29 final size:29
Alignment explanation
Indices: 809835--809911 Score: 93
Period size: 29 Copynumber: 2.7 Consensus size: 29
809825 CATCTATCAG
* * * *
809835 AAGAAAAGAAAAG-AGAAAATAGAAGAAA
1 AAGAAAAAAAAAGAAAAAAATAAAAAAAA
* *
809863 GAGAAAAAATAAGAAAAAAATAAAAAAAA
1 AAGAAAAAAAAAGAAAAAAATAAAAAAAA
809892 AAGAAAAAAAAAGAAAAAAA
1 AAGAAAAAAAAAGAAAAAAA
809912 ATTGAATCAA
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
28 10 0.25
29 30 0.75
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.04
Consensus pattern (29 bp):
AAGAAAAAAAAAGAAAAAAATAAAAAAAA
Found at i:809898 original size:19 final size:18
Alignment explanation
Indices: 809866--809912 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 18
809856 GAAGAAAGAG
*
809866 AAAAAATAAGAAAAAAATA
1 AAAAAAAAAGAAAAAAA-A
809885 AAAAAAAAAGAAAAAAAA
1 AAAAAAAAAGAAAAAAAA
809903 AGAAAAAAAA
1 A-AAAAAAAA
809913 TTGAATCAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 2 0.08
19 24 0.92
ACGTcount: A:0.89, C:0.00, G:0.06, T:0.04
Consensus pattern (18 bp):
AAAAAAAAAGAAAAAAAA
Found at i:809909 original size:10 final size:10
Alignment explanation
Indices: 809864--809912 Score: 73
Period size: 10 Copynumber: 5.0 Consensus size: 10
809854 TAGAAGAAAG
*
809864 AGAAAAAATA
1 AGAAAAAAAA
*
809874 AGAAAAAAAT
1 AGAAAAAAAA
809884 A-AAAAAAAA
1 AGAAAAAAAA
809893 AGAAAAAAAA
1 AGAAAAAAAA
809903 AGAAAAAAAA
1 AGAAAAAAAA
809913 TTGAATCAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
9 8 0.23
10 27 0.77
ACGTcount: A:0.88, C:0.00, G:0.08, T:0.04
Consensus pattern (10 bp):
AGAAAAAAAA
Found at i:811478 original size:52 final size:52
Alignment explanation
Indices: 811400--811518 Score: 175
Period size: 52 Copynumber: 2.3 Consensus size: 52
811390 GGTCCATATT
* ** * *
811400 ATCCATGTGGGGCATCCTGAAGGCTCATGTCAGCATGAAAAAGACTGAAGTA
1 ATCCATGTAGGGCATCCTGAAGGCTCACATCAGCATAAAAAAGACAGAAGTA
* *
811452 ATCCATGTTGGGCATCTTGAAGGCTCACATCAGCATAAAAAAGACAGAAGTA
1 ATCCATGTAGGGCATCCTGAAGGCTCACATCAGCATAAAAAAGACAGAAGTA
811504 ATCCATGTAGGGCAT
1 ATCCATGTAGGGCAT
811519 TAAATCTAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 60 1.00
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.22
Consensus pattern (52 bp):
ATCCATGTAGGGCATCCTGAAGGCTCACATCAGCATAAAAAAGACAGAAGTA
Found at i:816931 original size:57 final size:56
Alignment explanation
Indices: 816825--816931 Score: 144
Period size: 57 Copynumber: 1.9 Consensus size: 56
816815 TGCATCGATG
* * *
816825 CATCAAGTGCATTCGATGTTTCAAAATAGCCAGAGTGCATCGATGCATGGCTGGTA
1 CATCAAATGCATTCGATGTTTCAAAATAACCACAGTGCATCGATGCATGGCTGGTA
* *
816881 CATCAAATGCATTCGATGTTTTCATAAA-AACCTCATTGCATCGATGCATGG
1 CATCAAATGCATTCGATG-TTTCA-AAATAACCACAGTGCATCGATGCATGG
816932 TATGTGCATC
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
56 17 0.39
57 24 0.55
58 3 0.07
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.29
Consensus pattern (56 bp):
CATCAAATGCATTCGATGTTTCAAAATAACCACAGTGCATCGATGCATGGCTGGTA
Found at i:816941 original size:19 final size:19
Alignment explanation
Indices: 816917--816987 Score: 133
Period size: 19 Copynumber: 3.7 Consensus size: 19
816907 AAAACCTCAT
816917 TGCATCGATGCATGGTATG
1 TGCATCGATGCATGGTATG
816936 TGCATCGATGCATGGTATG
1 TGCATCGATGCATGGTATG
*
816955 TACATCGATGCATGGTATG
1 TGCATCGATGCATGGTATG
816974 TGCATCGATGCATG
1 TGCATCGATGCATG
816988 AAATGCATTC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 50 1.00
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.31
Consensus pattern (19 bp):
TGCATCGATGCATGGTATG
Found at i:830980 original size:2 final size:2
Alignment explanation
Indices: 830975--831003 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
830965 TAATTTTTTT
830975 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
831004 CATAAATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:837393 original size:29 final size:29
Alignment explanation
Indices: 837350--837407 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
837340 TAGAGACCAC
837350 GAAACAAGCCACGAAATCTCAGTAAGTTA
1 GAAACAAGCCACGAAATCTCAGTAAGTTA
*
837379 GAAACAAGCCGCGAAATCTCAGTAAGTTA
1 GAAACAAGCCACGAAATCTCAGTAAGTTA
837408 AAAATAAGTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.43, C:0.21, G:0.19, T:0.17
Consensus pattern (29 bp):
GAAACAAGCCACGAAATCTCAGTAAGTTA
Found at i:841338 original size:23 final size:23
Alignment explanation
Indices: 841312--841403 Score: 139
Period size: 23 Copynumber: 4.0 Consensus size: 23
841302 CACCACAGAT
* * *
841312 CGTATAATTGCACCGAAGTACCA
1 CGTAGAATTGCACCGGAGTGCCA
841335 CGTAGAATTGCACCGGAGTGCCA
1 CGTAGAATTGCACCGGAGTGCCA
*
841358 CGTAGAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACCGGAGTGCCA
*
841381 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGGAGTGCCA
841404 TATAATAATG
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 63 1.00
ACGTcount: A:0.27, C:0.26, G:0.27, T:0.20
Consensus pattern (23 bp):
CGTAGAATTGCACCGGAGTGCCA
Found at i:842621 original size:10 final size:10
Alignment explanation
Indices: 842606--842631 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
842596 GCTTCACGAC
842606 AAAGAAGAAG
1 AAAGAAGAAG
842616 AAAGAAGAAG
1 AAAGAAGAAG
842626 AAAGAA
1 AAAGAA
842632 ATATCCAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (10 bp):
AAAGAAGAAG
Found at i:844496 original size:21 final size:21
Alignment explanation
Indices: 844472--844514 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
844462 CCGTGAACAA
**
844472 TGCTACAGTGTATTGATGCAC
1 TGCTACAGTGTACCGATGCAC
*
844493 TGCTATAGTGTACCGATGCAC
1 TGCTACAGTGTACCGATGCAC
844514 T
1 T
844515 ACTATAGTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (21 bp):
TGCTACAGTGTACCGATGCAC
Found at i:848443 original size:22 final size:22
Alignment explanation
Indices: 848418--848498 Score: 128
Period size: 22 Copynumber: 3.7 Consensus size: 22
848408 TCGGTTGAGG
*
848418 GGGTATCGATTCCCCTTTGAAT
1 GGGTACCGATTCCCCTTTGAAT
*
848440 GGGTACCGATTCCCCCTTGAAT
1 GGGTACCGATTCCCCTTTGAAT
*
848462 GGGTACCGATT-CCCATTGAAT
1 GGGTACCGATTCCCCTTTGAAT
848483 GGGTACCGATTCCCCT
1 GGGTACCGATTCCCCT
848499 AGCCCAGAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
21 20 0.37
22 34 0.63
ACGTcount: A:0.19, C:0.28, G:0.23, T:0.30
Consensus pattern (22 bp):
GGGTACCGATTCCCCTTTGAAT
Found at i:853055 original size:105 final size:105
Alignment explanation
Indices: 852861--853070 Score: 258
Period size: 105 Copynumber: 2.0 Consensus size: 105
852851 GACAACATAT
* * * *
852861 AAATTCCTTAAGAACCATATACATATACCAATGATCAAGTAAGTATCTCAAAAGACCTCATACAT
1 AAATTCCTTAAGAACCATATACATATACCAAGGACCAAATAAGTATCACAAAAGACCTCATACAT
852926 GCTCCAAAGAATACATATACGTCCCAAAGGACCACGTAGA
66 GCTCCAAAGAATACATATACGTCCCAAAGGACCACGTAGA
* * * * * * *
852966 AAATTCCTTAAGAATCATATACATATGCTAAGGACCAAATACGTGTCACAAAGGACCTCATAGAT
1 AAATTCCTTAAGAACCATATACATATACCAAGGACCAAATAAGTATCACAAAAGACCTCATACAT
* * * * * * *
853031 GTTCCATAGGATACCTCTATGTCCCAAAGGACCGCGTAGA
66 GCTCCAAAGAATACATATACGTCCCAAAGGACCACGTAGA
853071 CCCTCGACTC
Statistics
Matches: 87, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
105 87 1.00
ACGTcount: A:0.40, C:0.23, G:0.14, T:0.23
Consensus pattern (105 bp):
AAATTCCTTAAGAACCATATACATATACCAAGGACCAAATAAGTATCACAAAAGACCTCATACAT
GCTCCAAAGAATACATATACGTCCCAAAGGACCACGTAGA
Found at i:854519 original size:22 final size:22
Alignment explanation
Indices: 854494--854553 Score: 95
Period size: 22 Copynumber: 2.7 Consensus size: 22
854484 TCAGTTGAGG
*
854494 GGGTATCGATTCCCCTTTGAAT
1 GGGTACCGATTCCCCTTTGAAT
854516 GGGTACCGATTCCTCC-TTGAAT
1 GGGTACCGATTCC-CCTTTGAAT
854538 GGGTACCGATTCCCCT
1 GGGTACCGATTCCCCT
854554 AGCCCAGAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.17, C:0.28, G:0.23, T:0.32
Consensus pattern (22 bp):
GGGTACCGATTCCCCTTTGAAT
Found at i:857093 original size:64 final size:65
Alignment explanation
Indices: 856953--857114 Score: 186
Period size: 64 Copynumber: 2.5 Consensus size: 65
856943 AATTGTTCAG
* * *
856953 TGTGTATCGATGCACAGGAACTGCATCGATGCA-CCCATTAAAAATGAAAACATTGAATGCAATT
1 TGTGTATCGATGCATAGGAAGTGCATCGATGCACCCCATTAAAAATGAAAACATCGAATGCAATT
* * * * **
857017 AGTGCATTGATGCATAAGG-AGTGCATCGATGCACCCCCTT-AAAATGAAAACATCGAATGTGAT
1 TGTGTATCGATGCAT-AGGAAGTGCATCGATGCACCCCATTAAAAATGAAAACATCGAATGCAAT
857080 T
65 T
* * *
857081 TGTGTATCGATGCATGGGTAGTTCATCGATGCAC
1 TGTGTATCGATGCATAGGAAGTGCATCGATGCAC
857115 TTCAAGGGAA
Statistics
Matches: 81, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
63 2 0.02
64 71 0.88
65 8 0.10
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.27
Consensus pattern (65 bp):
TGTGTATCGATGCATAGGAAGTGCATCGATGCACCCCATTAAAAATGAAAACATCGAATGCAATT
Found at i:858317 original size:2 final size:2
Alignment explanation
Indices: 858310--858377 Score: 136
Period size: 2 Copynumber: 34.0 Consensus size: 2
858300 GAACATGTGA
858310 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
858352 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
858378 GATAAGACAT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 66 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:858431 original size:2 final size:2
Alignment explanation
Indices: 858424--858453 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
858414 AGAAATGTGG
858424 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
858454 GAAAAGTGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:858825 original size:23 final size:23
Alignment explanation
Indices: 858792--858859 Score: 100
Period size: 23 Copynumber: 3.0 Consensus size: 23
858782 AACCTTATAT
858792 GGCACTTCGGTGCATTTCTACGC
1 GGCACTTCGGTGCATTTCTACGC
* * *
858815 GGCACTACGGTGCAATTCTACGT
1 GGCACTTCGGTGCATTTCTACGC
*
858838 GGCACTTCGGTGCATTTATACG
1 GGCACTTCGGTGCATTTCTACG
858860 AGTTGTGGTG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.18, C:0.26, G:0.26, T:0.29
Consensus pattern (23 bp):
GGCACTTCGGTGCATTTCTACGC
Found at i:861842 original size:19 final size:19
Alignment explanation
Indices: 861818--861871 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
861808 AACGTTTTTT
*
861818 TATGAATAGTACTATACCG
1 TATGAATAGTACTATACCA
* *
861837 TATGAATAGTAATATACTA
1 TATGAATAGTACTATACCA
*
861856 TATGAATAATACTATA
1 TATGAATAGTACTATA
861872 TTGTATAAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.44, C:0.09, G:0.11, T:0.35
Consensus pattern (19 bp):
TATGAATAGTACTATACCA
Found at i:861983 original size:21 final size:21
Alignment explanation
Indices: 861958--862001 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
861948 AATATAAATT
*
861958 GTGTATCGATGCACTGCTACA
1 GTGTACCGATGCACTGCTACA
861979 GTGTACCGATGCACTGCTACA
1 GTGTACCGATGCACTGCTACA
862000 GT
1 GT
862002 AACTTCAGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.27
Consensus pattern (21 bp):
GTGTACCGATGCACTGCTACA
Found at i:865847 original size:119 final size:119
Alignment explanation
Indices: 865635--865871 Score: 309
Period size: 119 Copynumber: 2.0 Consensus size: 119
865625 TAAAAAAATA
* * * *
865635 AAAACTAATAGTTTAGTTACTAAATATGTAATTTACCCTAAAAAACCAACACTGATGGCTTAATT
1 AAAACTAATAGTTTAGTTACAAAAAATATAATTTACCCTAAAAAACCAACACGGATGGCTTAATT
* *
865700 TGCACTATTTATATAGTTTAGTGATTTAATCAATGAAATTAAAATACTTATGATT
66 TGCACTATTTATATAGTTTAATGATTTAATCAAT-AAATTAAAAGACTTATGATT
* * * *
865755 AAAACTAATAGTTTTGATT-CAAAAAATATAGTTTACCCT-AAAAGCTAACACGGATGGCTTAAT
1 AAAACTAATAGTTTAG-TTACAAAAAATATAATTTACCCTAAAAAACCAACACGGATGGCTTAAT
* * *
865818 TTGCA-TCATTTATATAGTTTAATGGTTTAATCGATAAATTAAAAGATTTATGAT
65 TTGCACT-ATTTATATAGTTTAATGATTTAATCAATAAATTAAAAGACTTATGAT
865872 CGAATTGAAA
Statistics
Matches: 102, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
118 18 0.18
119 51 0.50
120 31 0.30
121 2 0.02
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.37
Consensus pattern (119 bp):
AAAACTAATAGTTTAGTTACAAAAAATATAATTTACCCTAAAAAACCAACACGGATGGCTTAATT
TGCACTATTTATATAGTTTAATGATTTAATCAATAAATTAAAAGACTTATGATT
Found at i:867978 original size:23 final size:22
Alignment explanation
Indices: 867925--867968 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
867915 CTTTTAAGAT
867925 AATTGTAATATGATTTTTTTAC
1 AATTGTAATATGATTTTTTTAC
867947 AATTGTAATATGATTTTTTTAC
1 AATTGTAATATGATTTTTTTAC
867969 CTTTATTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.05, G:0.09, T:0.55
Consensus pattern (22 bp):
AATTGTAATATGATTTTTTTAC
Found at i:887132 original size:33 final size:36
Alignment explanation
Indices: 887058--887135 Score: 92
Period size: 37 Copynumber: 2.2 Consensus size: 36
887048 GGTATATATA
887058 TTTAA-ATTAAATATATAAATAATAATATATAAATT
1 TTTAATATTAAATATATAAATAATAATATATAAATT
* * *
887093 TATTAATATTATATATATATAT-ATAATA-AT-TATT
1 T-TTAATATTAAATATATAAATAATAATATATAAATT
887127 TTTAATATT
1 TTTAATATT
887136 TATCGGGCCG
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
33 8 0.21
34 4 0.11
35 3 0.08
36 10 0.26
37 13 0.34
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (36 bp):
TTTAATATTAAATATATAAATAATAATATATAAATT
Found at i:887167 original size:13 final size:12
Alignment explanation
Indices: 887136--887167 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
887126 TTTTAATATT
887136 TATCGGGCCGGG
1 TATCGGGCCGGG
887148 TATCGGGCCGGG
1 TATCGGGCCGGG
887160 TAATCGGG
1 T-ATCGGG
887168 TAATCGGGCC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.68
13 6 0.32
ACGTcount: A:0.12, C:0.22, G:0.47, T:0.19
Consensus pattern (12 bp):
TATCGGGCCGGG
Found at i:887260 original size:35 final size:36
Alignment explanation
Indices: 887191--887267 Score: 111
Period size: 36 Copynumber: 2.2 Consensus size: 36
887181 GATTACTAAA
* *
887191 CCCGTCCCCGTTTAAAATAAACAGGTTTTCCCCGTT
1 CCCGTTCCCGTTTAAAATAAACAGGTTTTCCCCGTC
**
887227 CCCGTTCCCGTTTAGCATAAAC-GGTTTTCCCCGTC
1 CCCGTTCCCGTTTAAAATAAACAGGTTTTCCCCGTC
887262 CCCGTT
1 CCCGTT
887268 TAATTCAGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
35 18 0.49
36 19 0.51
ACGTcount: A:0.17, C:0.36, G:0.16, T:0.31
Consensus pattern (36 bp):
CCCGTTCCCGTTTAAAATAAACAGGTTTTCCCCGTC
Found at i:900314 original size:30 final size:30
Alignment explanation
Indices: 900280--900337 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
900270 TGGATTTATC
900280 TTTGGTGGGAGGGAGATTCACTTGGGGTCT
1 TTTGGTGGGAGGGAGATTCACTTGGGGTCT
900310 TTTGGTGGGAGGGAGATTCACTTGGGGT
1 TTTGGTGGGAGGGAGATTCACTTGGGGT
900338 AATAATAGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.14, C:0.09, G:0.45, T:0.33
Consensus pattern (30 bp):
TTTGGTGGGAGGGAGATTCACTTGGGGTCT
Found at i:901057 original size:2 final size:2
Alignment explanation
Indices: 901052--901087 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
901042 ATTAATATTA
901052 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
901088 TTAAATTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:902583 original size:3 final size:3
Alignment explanation
Indices: 902575--902629 Score: 60
Period size: 3 Copynumber: 19.0 Consensus size: 3
902565 GGCCTGTTTG
** *
902575 TAA TAA TAA TAA TTT TAA TAA TAA TAA -AA AAA TAA -AA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
902621 TAA CAA TAA
1 TAA TAA TAA
902630 AAAATGGGTT
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
2 4 0.09
3 39 0.91
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:902614 original size:28 final size:29
Alignment explanation
Indices: 902576--902633 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 29
902566 GCCTGTTTGT
** *
902576 AATAATAATAATTTTAATAATAATAAAAA
1 AATAATAATAATAATAATAACAATAAAAA
902605 AATAA-AATAATAATAATAACAATAAAAA
1 AATAATAATAATAATAATAACAATAAAAA
902633 A
1 A
902634 TGGGTTAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 21 0.81
29 5 0.19
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.28
Consensus pattern (29 bp):
AATAATAATAATAATAATAACAATAAAAA
Found at i:902615 original size:19 final size:20
Alignment explanation
Indices: 902591--902631 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
902581 TAATAATTTT
902591 AATAATAATAA-AAAAATAA
1 AATAATAATAATAAAAATAA
*
902610 AATAATAATAATAACAATAA
1 AATAATAATAATAAAAATAA
902630 AA
1 AA
902632 AATGGGTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (20 bp):
AATAATAATAATAAAAATAA
Found at i:903075 original size:113 final size:113
Alignment explanation
Indices: 902949--903622 Score: 962
Period size: 113 Copynumber: 6.0 Consensus size: 113
902939 ATAGAATCAT
* *
902949 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * * * **
903014 ATTATGAACTCTATCTGGAAAAGTTGATCCATCGAGTGATGAATTCAA
66 ATTATGAACTCTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGA
* * * *
903062 ACAAAAAGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGACGAGTTCTTCTC
1 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * * * **
903127 ATTATGAACTCTAC-CTGGCAATGCTGATCCATCAAATGATGAATTCAA
66 ATTATGAACTCT-CTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGA
* * *
903175 ACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
*
903240 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGA
66 ATTATGAACTCTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGA
* *
903288 GC-AAAAGATTTAACAAGATCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
1 GCAAAAAG-TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
* *
903352 CATTATGAACTTTCTCTGGAAAAGCTAATCCATCAAGTGATGGATTTGA
65 CATTATGAACTCTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGA
* *
903401 GC-AAAAGATTTAACAAGATCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
1 GCAAAAAG-TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
* *
903465 CATTATGAACTTTCTCTGGAAAAGCTAATCCATCAAGTGATGGATTTGA
65 CATTATGAACTCTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGA
* *
903514 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * * *
903579 ATTATGAACTCTTTCTGGAAATGTTGATCCAT--TGTGATGGATTT
66 ATTATGAACTCTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTT
903623 AAATCTTTGC
Statistics
Matches: 520, Mismatches: 37, Indels: 10
0.92 0.07 0.02
Matches are distributed among these distances:
111 11 0.02
112 5 0.01
113 500 0.96
114 4 0.01
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (113 bp):
GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTCTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGA
Found at i:910420 original size:20 final size:20
Alignment explanation
Indices: 910395--910434 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
910385 AGTGGCAGCC
910395 CCTATCATGTGATTAATATA
1 CCTATCATGTGATTAATATA
910415 CCTATCATGTGATTAATATA
1 CCTATCATGTGATTAATATA
910435 GGGAAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (20 bp):
CCTATCATGTGATTAATATA
Found at i:912476 original size:31 final size:31
Alignment explanation
Indices: 912438--912593 Score: 233
Period size: 31 Copynumber: 5.0 Consensus size: 31
912428 CCTGAAGGAC
* * *
912438 CAGTCCATA-GACTCCGAAGAACCTAGGTAAT
1 CAGTCCATATGTC-CCGAAGAACATAGGTAAA
* *
912469 CAGTCCATATGTACCGAAGAACATAGGCAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
912500 CAATCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
912531 CAGTTCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
912562 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
912593 C
1 C
912594 CCTCGACCCT
Statistics
Matches: 113, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
31 112 0.99
32 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.19, T:0.19
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:915608 original size:10 final size:10
Alignment explanation
Indices: 915595--915619 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
915585 TTAATACTTG
915595 AAAAAATAAA
1 AAAAAATAAA
915605 AAAAAATAAA
1 AAAAAATAAA
915615 AAAAA
1 AAAAA
915620 TAATATACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (10 bp):
AAAAAATAAA
Found at i:915671 original size:28 final size:29
Alignment explanation
Indices: 915613--915700 Score: 76
Period size: 29 Copynumber: 3.1 Consensus size: 29
915603 AAAAAAAATA
915613 AAAAAAATAATATACATATAAATATTATG
1 AAAAAAATAATATACATATAAATATTATG
* * *
915642 AAAATAATAAGTATATATA-AAAT-TTTTG
1 AAAAAAATAA-TATACATATAAATATTATG
* *
915670 AAAAGAAAGAATTATAAAT-TAAATA-TATG
1 AAAA-AAATAA-TATACATATAAATATTATG
915699 AA
1 AA
915701 TTTCTAATTT
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
28 8 0.17
29 32 0.68
30 7 0.15
ACGTcount: A:0.60, C:0.01, G:0.07, T:0.32
Consensus pattern (29 bp):
AAAAAAATAATATACATATAAATATTATG
Found at i:917735 original size:3 final size:3
Alignment explanation
Indices: 917727--917789 Score: 83
Period size: 3 Copynumber: 21.0 Consensus size: 3
917717 GGTCTGTTTG
**
917727 TAA TAA TAA TAA TTT TAA TAA TAA TAA TAA TAA TAAA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA
*
917772 TAA TAA TAA TAA CAA TAA
1 TAA TAA TAA TAA TAA TAA
917790 AAAAATGGGT
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
2 2 0.04
3 47 0.90
4 3 0.06
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:922928 original size:4 final size:4
Alignment explanation
Indices: 922916--922950 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
922906 TTTATAAATA
* *
922916 ATAT TTAT ATAT ATAT ATAT ATAT ATAT ATCT ATA
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATA
922951 GGATTAAGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (4 bp):
ATAT
Found at i:922930 original size:6 final size:6
Alignment explanation
Indices: 922916--922950 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
922906 TTTATAAATA
* *
922916 ATATTT ATATAT ATATAT ATATAT ATATAT CTATA
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATA
922951 GGATTAAGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (6 bp):
ATATAT
Found at i:924336 original size:3 final size:3
Alignment explanation
Indices: 924316--924389 Score: 84
Period size: 3 Copynumber: 25.7 Consensus size: 3
924306 ATAACTTAAT
* *
924316 TAA TAA TAG TAA TAAA TAA TAA TAA TAA TAA TAA T-A TAA TAG TAA
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
924361 -AA TAA -AA TAA TAT TAA TAA TAA T-A TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
924390 TTATTATTAT
Statistics
Matches: 60, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
2 8 0.13
3 49 0.82
4 3 0.05
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:924360 original size:33 final size:33
Alignment explanation
Indices: 924318--924389 Score: 110
Period size: 33 Copynumber: 2.2 Consensus size: 33
924308 AACTTAATTA
*
924318 ATAATAGTAATAA-ATAATAATAATAATAATAAT
1 ATAATAGTAA-AATAAAATAATAATAATAATAAT
*
924351 ATAATAGTAAAATAAAATAATATTAATAATAAT
1 ATAATAGTAAAATAAAATAATAATAATAATAAT
924384 ATAATA
1 ATAATA
924390 TTATTATTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
32 2 0.06
33 34 0.94
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (33 bp):
ATAATAGTAAAATAAAATAATAATAATAATAAT
Found at i:924455 original size:3 final size:3
Alignment explanation
Indices: 924449--924473 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
924439 ATTTCTAAAT
924449 ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA A
924474 AACCCAATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:924707 original size:14 final size:14
Alignment explanation
Indices: 924688--924726 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
924678 TAATGGGGAG
924688 TAATCCCTGCAAAA
1 TAATCCCTGCAAAA
*
924702 TAATCCCTGCGAAA
1 TAATCCCTGCAAAA
* *
924716 GAATCTCTGCA
1 TAATCCCTGCA
924727 TATAGACAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.28, G:0.13, T:0.23
Consensus pattern (14 bp):
TAATCCCTGCAAAA
Found at i:929787 original size:19 final size:19
Alignment explanation
Indices: 929717--929779 Score: 126
Period size: 19 Copynumber: 3.3 Consensus size: 19
929707 TTGGACTCTC
929717 AGTGCATCGGTGCACTAAG
1 AGTGCATCGGTGCACTAAG
929736 AGTGCATCGGTGCACTAAG
1 AGTGCATCGGTGCACTAAG
929755 AGTGCATCGGTGCACTAAG
1 AGTGCATCGGTGCACTAAG
929774 AGTGCA
1 AGTGCA
929780 ACGATGCATA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 44 1.00
ACGTcount: A:0.27, C:0.21, G:0.32, T:0.21
Consensus pattern (19 bp):
AGTGCATCGGTGCACTAAG
Found at i:930330 original size:2 final size:2
Alignment explanation
Indices: 930323--930355 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
930313 AATTGAGTAA
930323 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 A
930356 GCTTAAGCTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:938477 original size:45 final size:46
Alignment explanation
Indices: 938389--938479 Score: 157
Period size: 46 Copynumber: 2.0 Consensus size: 46
938379 TTAAAAAAGC
*
938389 CTGAGTGCATCGATGCATGGTATTGTGCATCGATGCATCAAATGCA
1 CTGAGTGCATCGATGCATGGTATTGTGCATCGATGCATAAAATGCA
*
938435 CTGAGTGCATCGATGCATGGTA-TGTGCATCGATGTATAAAATGCA
1 CTGAGTGCATCGATGCATGGTATTGTGCATCGATGCATAAAATGCA
938480 TTCGATGTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
45 21 0.49
46 22 0.51
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (46 bp):
CTGAGTGCATCGATGCATGGTATTGTGCATCGATGCATAAAATGCA
Found at i:940617 original size:40 final size:42
Alignment explanation
Indices: 940514--940620 Score: 141
Period size: 41 Copynumber: 2.6 Consensus size: 42
940504 TTTTAATTTT
* *
940514 ATGTAATAACAATATTAATAAAATAATACTAATAGATGTCAC
1 ATGTTATAAAAATATTAATAAAATAATACTAATAGATGTCAC
**
940556 ATCATA-AAAAATATTAATAAAATAATACTAACT-GATG-C-C
1 ATGTTATAAAAATATTAATAAAATAATACTAA-TAGATGTCAC
940595 ATGTTATAAAAATATTAATAAAATAA
1 ATGTTATAAAAATATTAATAAAATAA
940621 ATTTTAGTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
39 5 0.09
40 20 0.35
41 28 0.49
42 4 0.07
ACGTcount: A:0.55, C:0.08, G:0.06, T:0.31
Consensus pattern (42 bp):
ATGTTATAAAAATATTAATAAAATAATACTAATAGATGTCAC
Found at i:940687 original size:25 final size:27
Alignment explanation
Indices: 940653--940708 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
940643 TATTCTATAG
940653 TTTAATAATTAAA-T-AAAAAATAAAA
1 TTTAATAATTAAATTAAAAAAATAAAA
*
940678 TTTAATAATTAAATTAAAAAAATAAAC
1 TTTAATAATTAAATTAAAAAAATAAAA
940705 TTTA
1 TTTA
940709 GTGAGTAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
25 13 0.46
26 1 0.04
27 14 0.50
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (27 bp):
TTTAATAATTAAATTAAAAAAATAAAA
Found at i:944648 original size:28 final size:28
Alignment explanation
Indices: 944597--944651 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
944587 AGTTCTTTAA
* *
944597 GACACAATAAAATAATTCAATGGTTTTG
1 GACACAATAAAACAATCCAATGGTTTTG
**
944625 GACACAATAAAACAATCCCTTGGTTTT
1 GACACAATAAAACAATCCAATGGTTTT
944652 AGTTCTTTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.31
Consensus pattern (28 bp):
GACACAATAAAACAATCCAATGGTTTTG
Found at i:945385 original size:16 final size:16
Alignment explanation
Indices: 945364--945394 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
945354 AAGATTTTAC
945364 CTTTTTAATTTTAAAT
1 CTTTTTAATTTTAAAT
945380 CTTTTTAATTTTAAA
1 CTTTTTAATTTTAAA
945395 ACATTACTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.61
Consensus pattern (16 bp):
CTTTTTAATTTTAAAT
Found at i:948692 original size:18 final size:18
Alignment explanation
Indices: 948666--948709 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
948656 CCACCTGCGT
*
948666 TTGTCACAATACATCGGA
1 TTGTTACAATACATCGGA
948684 TTGTTACAATACATCGGA
1 TTGTTACAATACATCGGA
948702 TTGTTACA
1 TTGTTACA
948710 TCGGAGTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (18 bp):
TTGTTACAATACATCGGA
Found at i:962925 original size:16 final size:17
Alignment explanation
Indices: 962900--962938 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
962890 TGATGTGACT
*
962900 ATTAAAATAATTA-ATA
1 ATTAATATAATTATATA
962916 ATTAATATAATTATATA
1 ATTAATATAATTATATA
*
962933 TTTAAT
1 ATTAAT
962939 TTTTGATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATTAATATAATTATATA
Found at i:964333 original size:4 final size:4
Alignment explanation
Indices: 964324--964352 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
964314 TTTTAGCAAC
964324 TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
964353 AATTAAGTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:972910 original size:91 final size:89
Alignment explanation
Indices: 972736--972913 Score: 243
Period size: 91 Copynumber: 2.0 Consensus size: 89
972726 CCTTCTCGGC
* *
972736 CCATTCAAAGAAATATCATTGTTTTCTTTATTTGATGACCCGATAGGGCCCTATCTTTCGCCTAT
1 CCATTCAAAGAAATACCAATGTTTTCTTTATTTGATGACCCGATAGGGCCCTATCTTTCGCCTAT
972801 TATTATTTCGCTAATCTGGACAGA
66 TATTATTTCGCTAATCTGGACAGA
* * * *
972825 CCATTCAAAGAAATGCCAATGTTTTCTTTATTTGAAATGATCCGGTAGGG-CCTAATCTTTTGCC
1 CCATTCAAAGAAATACCAATGTTTTCTTTATTTG--ATGACCCGATAGGGCCCT-ATCTTTCGCC
*
972889 TATTATTATCTT-GCTATTCTGGACA
63 TATTATTAT-TTCGCTAATCTGGACA
972914 ACTGCCGTCA
Statistics
Matches: 78, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
89 31 0.40
90 3 0.04
91 42 0.54
92 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (89 bp):
CCATTCAAAGAAATACCAATGTTTTCTTTATTTGATGACCCGATAGGGCCCTATCTTTCGCCTAT
TATTATTTCGCTAATCTGGACAGA
Found at i:989725 original size:54 final size:57
Alignment explanation
Indices: 989654--989894 Score: 177
Period size: 55 Copynumber: 4.4 Consensus size: 57
989644 ATCGGGATAA
* * * *
989654 ATAAGACTTGAAAAATCTTCAAAT-GACGA-GCCTGCTC-CTATTCCTTCAG-GAAGT
1 ATAAGACTTGAACAATCTTCAAATAAAAGATGCCTGCTCTCTATTCATTCAGAG-AGT
* * *
989708 ATAAGACTCGAACAATCTT--AATAAAATATGTCTGCTCTCTATTCATTCAGAGAGT
1 ATAAGACTTGAACAATCTTCAAATAAAAGATGCCTGCTCTCTATTCATTCAGAGAGT
** *
989763 ATAAGACTTGAACAATCTTC-AAT-AAAGCGGGTCC-GCTCTCTATTCCTTCAGAGAGT
1 ATAAGACTTGAACAATCTTCAAATAAAAG-ATG-CCTGCTCTCTATTCATTCAGAGAGT
* * * *
989819 AT-AGAACTCGGAA-AATCTTC-AATAAACAGGT-CC-GCTCCCTATTCTTTCAGAGAGT
1 ATAAG-ACT-TGAACAATCTTCAAATAAA-AGATGCCTGCTCTCTATTCATTCAGAGAGT
* * *
989874 ATAGGACTCGAAAAATCTTCA
1 ATAAGACTTGAACAATCTTCA
989895 TAAAATGGGT
Statistics
Matches: 154, Mismatches: 19, Indels: 26
0.77 0.10 0.13
Matches are distributed among these distances:
52 3 0.02
53 2 0.01
54 27 0.18
55 71 0.46
56 42 0.27
57 7 0.05
58 2 0.01
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.29
Consensus pattern (57 bp):
ATAAGACTTGAACAATCTTCAAATAAAAGATGCCTGCTCTCTATTCATTCAGAGAGT
Found at i:989768 original size:55 final size:56
Alignment explanation
Indices: 989687--990095 Score: 363
Period size: 55 Copynumber: 7.6 Consensus size: 56
989677 TGACGAGCCT
*** *
989687 GCTC-CTATTCCTTCAG-GAAGTATAAGACTCGAACAATCTT-AATAAAATATGTCT
1 GCTCTCTATTCCTTCAGAG-AGTATAAGACTCGAACAATCTTCAATAAAACGGGTCC
* * *
989741 GCTCTCTATTCATTCAGAGAGTATAAGACTTGAACAATCTTCAATAAAGCGGGTCC
1 GCTCTCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAATAAAACGGGTCC
*
989797 GCTCTCTATTCCTTCAGAGAGTAT-AGAACTCGGAA-AATCTTCAAT-AAACAGGTCC
1 GCTCTCTATTCCTTCAGAGAGTATAAG-ACTC-GAACAATCTTCAATAAAACGGGTCC
* * * * *
989852 GCTCCCTATTCTTTCAGAGAGTATAGGACTCGAAAAATCTTC-ATAAAATGGGTCC
1 GCTCTCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAATAAAACGGGTCC
* *
989907 GCTC-CT-TATCCGTTCAGGGAGTAT-AGAACTCGAACAATCTTCAACAAAACGGGTCC
1 GCTCTCTAT-TCC-TTCAGAGAGTATAAG-ACTCGAACAATCTTCAATAAAACGGGTCC
* ** **
989963 GCTCTCTATTCCTTCAGAGAGTATAGGACT----CAATCTTCAA-CGAACTTGTCC
1 GCTCTCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAATAAAACGGGTCC
* * ** **
990014 GCTCCCTATTCCTTCAGAGAGTATAGGACT----CAATCTTCAA-CGAACTTGTCC
1 GCTCTCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAATAAAACGGGTCC
* * *
990065 GCTCCCTATTCTTTCAGAGAGTATAGGACTC
1 GCTCTCTATTCCTTCAGAGAGTATAAGACTC
990096 AATCTTCAAC
Statistics
Matches: 309, Mismatches: 30, Indels: 34
0.83 0.08 0.09
Matches are distributed among these distances:
51 86 0.28
52 10 0.03
53 1 0.00
54 14 0.05
55 112 0.36
56 76 0.25
57 9 0.03
58 1 0.00
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (56 bp):
GCTCTCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAATAAAACGGGTCC
Found at i:989836 original size:111 final size:110
Alignment explanation
Indices: 989654--990094 Score: 389
Period size: 111 Copynumber: 4.1 Consensus size: 110
989644 ATCGGGATAA
* *
989654 ATAAGACTTGAAAAATCTTCA-AATGACGAG-CCTGCTCCTATTCCTTCAG-GAAGTATA-AGAC
1 ATAAGACTTGAAAAATCTTCATAAAG-CGGGTCC-GCTCCTATTCCTTCAGAG-AGTATAGA-AC
* * *
989715 TCGAACAATCTT-AATAAAATATGTCTGCTCTCTATTCATTCAGAGAGT
62 TCGAACAATCTTCAATAAAACAGGTCCGCTCTCTATTCATTCAGAGAGT
*
989763 ATAAGACTTGAACAATCTTCAATAAAGCGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTC
1 ATAAGACTTGAAAAATCTTC-ATAAAGCGGGTCCGCTC-CTATTCCTTCAGAGAGTATAGAACTC
* *
989828 GGAA-AATCTTCAAT-AAACAGGTCCGCTCCCTATTCTTTCAGAGAGT
64 -GAACAATCTTCAATAAAACAGGTCCGCTCTCTATTCATTCAGAGAGT
* * ** *
989874 ATAGGACTCGAAAAATCTTCATAAAATGGGTCCGCTCCT-TATCCGTTCAGGGAGTATAGAACTC
1 ATAAGACTTGAAAAATCTTCATAAAGCGGGTCCGCTCCTAT-TCC-TTCAGAGAGTATAGAACTC
* * *
989938 GAACAATCTTCAACAAAACGGGTCCGCTCTCTATTCCTTCAGAGAGT
64 GAACAATCTTCAATAAAACAGGTCCGCTCTCTATTCATTCAGAGAGT
* * ** *
989985 ATAGGAC-T---CAATCTTCA-ACGAA-CTTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACT
1 ATAAGACTTGAAAAATCTTCATA--AAGCGGGTCCGCT-CCTATTCCTTCAGAGAGTATAGAACT
** ** * *
990044 ----CAATCTTCAA-CGAACTTGTCCGCTCCCTATTCTTTCAGAGAGT
63 CGAACAATCTTCAATAAAACAGGTCCGCTCTCTATTCATTCAGAGAGT
*
990087 ATAGGACT
1 ATAAGACT
990095 CAATCTTCAA
Statistics
Matches: 284, Mismatches: 31, Indels: 40
0.80 0.09 0.11
Matches are distributed among these distances:
102 34 0.12
103 10 0.04
106 1 0.00
107 31 0.11
108 9 0.03
109 28 0.10
110 50 0.18
111 113 0.40
112 8 0.03
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.29
Consensus pattern (110 bp):
ATAAGACTTGAAAAATCTTCATAAAGCGGGTCCGCTCCTATTCCTTCAGAGAGTATAGAACTCGA
ACAATCTTCAATAAAACAGGTCCGCTCTCTATTCATTCAGAGAGT
Found at i:989964 original size:166 final size:162
Alignment explanation
Indices: 989690--990044 Score: 464
Period size: 166 Copynumber: 2.2 Consensus size: 162
989680 CGAGCCTGCT
* * * * *
989690 CCTATTCCTTCAG-GAAGTATAAGACTCGAACAATCTTAATAAAATATGTCTGCTCTCTATTCAT
1 CCTATTCCTTCAGAG-AGTATAGGACTCGAAAAATCTTAATAAAATAGGTCCGCTCTCTATCCAT
* * *
989754 TCAGAGAGTATAAGACTTGAACAATCTTCAATAAAGCGGGTCCGCTCTCTATTCCTTCAGAGAGT
65 TCAGAGAGTATAAGACTCGAACAATCTTCAACAAAACGGGTCCGCTCTCTATTCCTTCAGAGAGT
*
989819 ATAGAACTCGGAAAATCTTCAATAAACAGGTCCGCTC
130 ATAGAACTC----AATCTTCAACAAACAGGTCCGCTC
* * * *
989856 CCTATTCTTTCAGAGAGTATAGGACTCGAAAAATCTTCATAAAATGGGTCCGCTC-CTTATCCGT
1 CCTATTCCTTCAGAGAGTATAGGACTCGAAAAATCTTAATAAAATAGGTCCGCTCTC-TATCCAT
*
989920 TCAGGGAGTAT-AGAACTCGAACAATCTTCAACAAAACGGGTCCGCTCTCTATTCCTTCAGAGAG
65 TCAGAGAGTATAAG-ACTCGAACAATCTTCAACAAAACGGGTCCGCTCTCTATTCCTTCAGAGAG
* * **
989984 TATAGGACTCAATCTTCAACGAACTTGTCCGCTC
129 TATAGAACTCAATCTTCAACAAACAGGTCCGCTC
990018 CCTATTCCTTCAGAGAGTATAGGACTC
1 CCTATTCCTTCAGAGAGTATAGGACTC
990045 AATCTTCAAC
Statistics
Matches: 167, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
162 46 0.28
165 3 0.02
166 117 0.70
167 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (162 bp):
CCTATTCCTTCAGAGAGTATAGGACTCGAAAAATCTTAATAAAATAGGTCCGCTCTCTATCCATT
CAGAGAGTATAAGACTCGAACAATCTTCAACAAAACGGGTCCGCTCTCTATTCCTTCAGAGAGTA
TAGAACTCAATCTTCAACAAACAGGTCCGCTC
Found at i:990023 original size:51 final size:51
Alignment explanation
Indices: 989741--990109 Score: 348
Period size: 51 Copynumber: 6.9 Consensus size: 51
989731 AAATATGTCT
* * * * *
989741 GCTCTCTATTCATTCAGAGAGTATAAGACTTGAACAATCTTCAATAAAGCGGGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAGGAC-T---CAATCTTCAACAAA-CTGGTCC
* * * *
989797 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGGAAAATCTTCAATAAACAGGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAGGACTC----AATCTTCAACAAACTGGTCC
*
989852 GCTCCCTATTCTTTCAGAGAGTATAGGACTCGAAAAATCTTCATA-AAA-TGGGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAGGACTC----AATCTTCA-ACAAACT-GGTCC
* * * *
989907 GCTCCTTA-TCCGTTCAGGGAGTATAGAACTCGAACAATCTTCAACAAAACGGGTCC
1 GCTCCCTATTCC-TTCAGAGAGTATAGGACT----CAATCTTCAAC-AAACTGGTCC
* * *
989963 GCTCTCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACAAACTGGTCC
* *
990014 GCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACAAACTGGTCC
*
990065 GCTCCCTATTCTTTCAGAGAGTATAGGACTCAATCTTCAACAAAC
1 GCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACAAAC
990110 GAATTTGCTT
Statistics
Matches: 274, Mismatches: 24, Indels: 35
0.82 0.07 0.11
Matches are distributed among these distances:
51 100 0.36
52 12 0.04
54 3 0.01
55 85 0.31
56 70 0.26
57 3 0.01
59 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (51 bp):
GCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACAAACTGGTCC
Found at i:991464 original size:27 final size:26
Alignment explanation
Indices: 991434--991547 Score: 81
Period size: 27 Copynumber: 4.3 Consensus size: 26
991424 TTATTTCTCT
*
991434 TTTTTTTTTCTCTTTTTTCA-TTTTTC
1 TTTTTTTTTC-CTTTTTCCATTTTTTC
*
991460 ATTTTTTTCTTCCCTTTTCCATTTTTTC
1 -TTTTTTT-TTCCTTTTTCCATTTTTTC
*
991488 TTCTTTTTTTCC-TTTT-CGTTTTTTCC
1 TT-TTTTTTTCCTTTTTCCATTTTTT-C
* ** *
991514 ATCATTTTTCTTTTTTCTCATTTTTTC
1 TTTTTTTTTCCTTTTTC-CATTTTTTC
*
991541 TTCTTTT
1 TTTTTTT
991548 CTCTTTTATT
Statistics
Matches: 70, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
25 13 0.19
26 10 0.14
27 26 0.37
28 21 0.30
ACGTcount: A:0.05, C:0.20, G:0.01, T:0.74
Consensus pattern (26 bp):
TTTTTTTTTCCTTTTTCCATTTTTTC
Found at i:991477 original size:26 final size:24
Alignment explanation
Indices: 991419--991510 Score: 71
Period size: 27 Copynumber: 3.6 Consensus size: 24
991409 TCTTGAACCC
* *
991419 TCCTTTT-ATTTCTCTTTTTTTTT
1 TCCTTTTCATTTTTCTTCTTTTTT
991442 TCTCTTTTTTCATTTTTCATT-TTTTTCT
1 TC-C--TTTTCATTTTTC-TTCTTTTT-T
991470 TCCCTTTTCCATTTTTTCTTCTTTTTT
1 T-CCTTTT-CA-TTTTTCTTCTTTTTT
*
991497 TCCTTTTCGTTTTT
1 TCCTTTTCATTTTT
991511 TCCATCATTT
Statistics
Matches: 57, Mismatches: 2, Indels: 19
0.73 0.03 0.24
Matches are distributed among these distances:
23 2 0.04
24 6 0.11
25 1 0.02
26 14 0.25
27 17 0.30
28 16 0.28
29 1 0.02
ACGTcount: A:0.04, C:0.21, G:0.01, T:0.74
Consensus pattern (24 bp):
TCCTTTTCATTTTTCTTCTTTTTT
Found at i:991511 original size:26 final size:28
Alignment explanation
Indices: 991454--991549 Score: 73
Period size: 28 Copynumber: 3.6 Consensus size: 28
991444 TCTTTTTTCA
991454 TTTTTCATTTTTTTCTTCCCTTTTCCAT
1 TTTTTCATTTTTTTCTTCCCTTTTCCAT
*
991482 TTTTTC-TTCTTTTT-TT-CCTTTT-CGT
1 TTTTTCATT-TTTTTCTTCCCTTTTCCAT
*
991507 TTTTTCCATCATTTTTCTT---TTTTCTCAT
1 TTTTT-CAT-TTTTTTCTTCCCTTTTC-CAT
*
991535 TTTTTC-TTCTTTTCT
1 TTTTTCATTTTTTTCT
991550 CTTTTATTTC
Statistics
Matches: 56, Mismatches: 5, Indels: 17
0.72 0.06 0.22
Matches are distributed among these distances:
25 13 0.23
26 12 0.21
27 11 0.20
28 20 0.36
ACGTcount: A:0.05, C:0.22, G:0.01, T:0.72
Consensus pattern (28 bp):
TTTTTCATTTTTTTCTTCCCTTTTCCAT
Found at i:991559 original size:19 final size:18
Alignment explanation
Indices: 991462--991564 Score: 76
Period size: 19 Copynumber: 5.7 Consensus size: 18
991452 CATTTTTCAT
991462 TTTTTTCTTCCCTTTTC-CA
1 TTTTTTCTT--CTTTTCTCA
991481 TTTTTTCTTCTTTT-T--
1 TTTTTTCTTCTTTTCTCA
991496 TTCCTTTTCGTT-TTTTC-CA
1 TT--TTTTC-TTCTTTTCTCA
991515 TCATTTTTCTT-TTTTCTCA
1 T--TTTTTCTTCTTTTCTCA
*
991534 TTTTTTCTTCTTTTCTCT
1 TTTTTTCTTCTTTTCTCA
991552 TTTATTTCTTCTT
1 TTT-TTTCTTCTT
991565 CAAGCAAAAT
Statistics
Matches: 71, Mismatches: 1, Indels: 24
0.74 0.01 0.25
Matches are distributed among these distances:
15 2 0.03
17 22 0.31
18 19 0.27
19 27 0.38
21 1 0.01
ACGTcount: A:0.05, C:0.22, G:0.01, T:0.72
Consensus pattern (18 bp):
TTTTTTCTTCTTTTCTCA
Found at i:1001045 original size:45 final size:47
Alignment explanation
Indices: 1000977--1001065 Score: 155
Period size: 45 Copynumber: 1.9 Consensus size: 47
1000967 TGCTTTGTTA
1000977 TTCACAAAAATAAATCCTAACCGCATGATATCTAATTCGCATGCTTG
1 TTCACAAAAATAAATCCTAACCGCATGATATCTAATTCGCATGCTTG
*
1001024 TTCA-AAAAATAAA-CCTAACCGCATGATATCTAGTTCGCATGC
1 TTCACAAAAATAAATCCTAACCGCATGATATCTAATTCGCATGC
1001066 ATTTATTCGA
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
45 28 0.68
46 9 0.22
47 4 0.10
ACGTcount: A:0.37, C:0.24, G:0.11, T:0.28
Consensus pattern (47 bp):
TTCACAAAAATAAATCCTAACCGCATGATATCTAATTCGCATGCTTG
Found at i:1004119 original size:21 final size:21
Alignment explanation
Indices: 1004090--1004142 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
1004080 ATTCTGACTA
1004090 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
1004111 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCAAAT
*
1004132 TCGCAATGCGA
1 TCGCATTGCGA
1004143 ATACGTAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:1004172 original size:19 final size:20
Alignment explanation
Indices: 1004132--1004203 Score: 119
Period size: 20 Copynumber: 3.6 Consensus size: 20
1004122 TTTTCCTAAT
*
1004132 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACATAAA
1004152 TCGCAATGCGAATAC-TAAA
1 TCGCAATGCGAATACATAAA
1004171 TCGCAATGCGAATACATAAA
1 TCGCAATGCGAATACATAAA
*
1004191 TCGCAACGCGAAT
1 TCGCAATGCGAAT
1004204 CTGACTATCG
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
19 19 0.38
20 31 0.62
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.19
Consensus pattern (20 bp):
TCGCAATGCGAATACATAAA
Done.