Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008936.1 Hibiscus syriacus cultivar Beakdansim tig00112254_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: 973811
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 5
Found at i:368030 original size:63 final size:62
Alignment explanation
Indices: 367875--368020 Score: 180
Period size: 63 Copynumber: 2.4 Consensus size: 62
367865 AAAAAAATAG
* *
367875 ACTCAAAGA-ATTT-TTTCAAAAGAAAC-AACTCAAAGAT---TTTTATTTCAAAAGAAACA
1 ACTCAAAGACTTTTGTTTCAAGAGAAACTAACTCAAAGATAGGTTTTATTTCAAAAGAAACA
* *
367931 ACTCACAGACTTTTGTTTCAAGAGAAACTAACTCAAAGATAGGTTTTGTTTCAAAAGAAACA
1 ACTCAAAGACTTTTGTTTCAAGAGAAACTAACTCAAAGATAGGTTTTATTTCAAAAGAAACA
*
367993 ATCTCAAAGA-TGTTTGTTTTAAGAGAAA
1 A-CTCAAAGACT-TTTGTTTCAAGAGAAA
368021 TTGTCTCAAA
Statistics
Matches: 76, Mismatches: 6, Indels: 9
0.84 0.07 0.10
Matches are distributed among these distances:
56 8 0.11
57 3 0.04
58 12 0.16
59 11 0.14
62 20 0.26
63 22 0.29
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (62 bp):
ACTCAAAGACTTTTGTTTCAAGAGAAACTAACTCAAAGATAGGTTTTATTTCAAAAGAAACA
Found at i:368133 original size:64 final size:64
Alignment explanation
Indices: 367974--368204 Score: 256
Period size: 64 Copynumber: 3.6 Consensus size: 64
367964 CAAAGATAGG
* * * *
367974 TTTTGTTTCAAAAGAAACA-ATCTCAAAGATGTTTGTTTTAAGAGAAATTGTCTCAAAAGAGACA
1 TTTTGTTTCCAAAGAAACATA-CTCAAAGAT-TTT-TTTCAAAAGAAACTGTCTCAAAAGAGACA
368038 AA
63 AA
* * * * *
368040 CCTTTGTTTTCATAA-AAACAGACTTAAAGATTTTTCTTCAAAAGGAACTGTCTCAAAAGAGAC-
1 -TTTTGTTTCCA-AAGAAACATACTCAAAGATTTTT-TTCAAAAGAAACTGTCTCAAAAGAGACA
368103 AA
63 AA
* *
368105 TTTTGTTTCCAAAGAAACATACTCAAAGA-TTCTTTCAAAAGAAACTTTCTCAAAAGAGACAAAA
1 TTTTGTTTCCAAAGAAACATACTCAAAGATTTTTTTCAAAAGAAACTGTCTCAAAAGAGAC-AAA
368169 TTTTGTTAT-CAAAGAAACATACTCAAAGATTTTTTT
1 TTTTGTT-TCCAAAGAAACATACTCAAAGATTTTTTT
368205 TTCATTTTGT
Statistics
Matches: 140, Mismatches: 16, Indels: 18
0.80 0.09 0.10
Matches are distributed among these distances:
62 25 0.18
63 5 0.04
64 51 0.36
65 9 0.06
66 26 0.19
67 21 0.15
68 3 0.02
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (64 bp):
TTTTGTTTCCAAAGAAACATACTCAAAGATTTTTTTCAAAAGAAACTGTCTCAAAAGAGACAAA
Found at i:368409 original size:36 final size:35
Alignment explanation
Indices: 368369--368458 Score: 108
Period size: 36 Copynumber: 2.5 Consensus size: 35
368359 ATAATTTGGA
* *
368369 AAATTGTCTCAAGTGAGACAACATTTGTTTTTAGAG
1 AAATTGTCTCAAGTGAGACAAAAATTGTTTTT-GAG
**
368405 AAATTGTCTCAAACGAGACAAAAATTGTTTTTGAG
1 AAATTGTCTCAAGTGAGACAAAAATTGTTTTTGAG
**
368440 AAAACGATCTCAAGTGAGA
1 AAATTG-TCTCAAGTGAGA
368459 TCATCTTTGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
35 7 0.16
36 38 0.84
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.30
Consensus pattern (35 bp):
AAATTGTCTCAAGTGAGACAAAAATTGTTTTTGAG
Found at i:368614 original size:107 final size:106
Alignment explanation
Indices: 368438--368860 Score: 511
Period size: 107 Copynumber: 4.0 Consensus size: 106
368428 ATTGTTTTTG
* *
368438 AGAAAACGATCTCAAGTGAGA-TCATCTTTGTTTAATGTGAAAACAAATTCGAAATTTGTATCTC
1 AGAAAACAATCTCAAGTGAGATTAAT-TTTGTTTAATGTG-AAACAAATTCGAAATTTGTATCTC
*
368502 AAAGGAAAAATGTCTCAAATGAGACGAAATTTGTTTTGAAAAA
64 AAAGGAAAAATGTCTCAAACGAGACGAAATTTGTTTTGAAAAA
* *
368545 AGAATAACAATCTCAAGTGAGATTAATTTTGTTTCAA-GTGAATCAAATTCGAAATTTGTATCTT
1 AGAA-AACAATCTCAAGTGAGATTAATTTTGTTT-AATGTGAAACAAATTCGAAATTTGTATCTC
*
368609 AAAGGAAAAATGTCTCAAACGAGACGAAATTTGTTTTTTTAAAAA
64 AAAGGAAAAATGTCTCAAACGAGACGAAATTTG--TTTTGAAAAA
* * * * *
368654 A-ATAACAATCTCAAGTGATATTAATTTTGTTTCAA-GTGAATCAAATTCAAAATTTGTATATCA
1 AGAAAACAATCTCAAGTGAGATTAATTTTGTTT-AATGTGAAACAAATTCGAAATTTGTATCTC-
* * * * *
368717 AAAGAAAAAATGTCTCAAGCAAGACGAAGTTTGTTTT---AAG
64 AAAGGAAAAATGTCTCAAACGAGACGAAATTTGTTTTGAAAAA
* * * *
368757 AGAAAACGATCTCAAATGAGATCAACTTTGTTTAATGTGAAACAAATTC-AAATTTTGTATCTCA
1 AGAAAACAATCTCAAGTGAGATTAATTTTGTTTAATGTGAAACAAATTCGAAA-TTTGTATCTCA
**
368821 AAGGAAAAATGTCTCAAGTGAGACGAAATTTGTTTTGAAA
65 AAGGAAAAATGTCTCAAACGAGACGAAATTTGTTTTGAAA
368861 GAAATTGTCT
Statistics
Matches: 276, Mismatches: 28, Indels: 25
0.84 0.09 0.08
Matches are distributed among these distances:
103 41 0.15
104 46 0.17
106 5 0.02
107 113 0.41
108 56 0.20
109 15 0.05
ACGTcount: A:0.42, C:0.11, G:0.15, T:0.32
Consensus pattern (106 bp):
AGAAAACAATCTCAAGTGAGATTAATTTTGTTTAATGTGAAACAAATTCGAAATTTGTATCTCAA
AGGAAAAATGTCTCAAACGAGACGAAATTTGTTTTGAAAAA
Found at i:368835 original size:211 final size:213
Alignment explanation
Indices: 368446--368856 Score: 539
Period size: 211 Copynumber: 1.9 Consensus size: 213
368436 TGAGAAAACG
* * * *
368446 ATCTCAAGTGAGATCATCTTTGTTTAATGTGAAAACAAATTCGAAATTTGTATCTCAAAGGAAAA
1 ATCTCAAGTGAGATAATCTTTGTTTAATGTGAAAACAAATTCAAAATTTGTATATCAAAGAAAAA
** * * *
368511 ATGTCTCAAATGAGACGAAATTTGTTTTGAAAAAAGAATAACAATCTCAAGTGAGATTAATTTTG
66 ATGTCTCAAACAAGACGAAATTTGTTTT--AAAAAGAATAACAATCTCAAATGAGATCAACTTTG
* *
368576 TTTCAAGTGAATCAAATTCGAAATTTGTATCTTAAAGGAAAAATGTCTCAAACGAGACGAAATTT
129 TTTCAAGTGAAACAAATTCGAAATTTGTATCTCAAAGGAAAAATGTCTCAAACGAGACGAAATTT
368641 GTTTTTTTAAAAAAATAACA
194 GTTTTTTTAAAAAAATAACA
* *
368661 ATCTCAAGTGATATTAAT-TTTGTTTCAA-GTG-AATCAAATTCAAAATTTGTATATCAAAAGAA
1 ATCTCAAGTGAGA-TAATCTTTGTTT-AATGTGAAAACAAATTCAAAATTTGTATATC-AAAGAA
* * * *
368723 AAAATGTCTCAAGCAAGACGAAGTTTGTTTT-AAGAGAA-AACGATCTCAAATGAGATCAACTTT
63 AAAATGTCTCAAACAAGACGAAATTTGTTTTAAAAAGAATAACAATCTCAAATGAGATCAACTTT
**
368786 GTTT-AATGTGAAACAAATTC-AAATTTTGTATCTCAAAGGAAAAATGTCTCAAGTGAGACGAAA
128 GTTTCAA-GTGAAACAAATTCGAAA-TTTGTATCTCAAAGGAAAAATGTCTCAAACGAGACGAAA
368849 TTTGTTTT
191 TTTGTTTT
368857 GAAAGAAATT
Statistics
Matches: 172, Mismatches: 19, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
210 5 0.03
211 81 0.47
212 6 0.03
214 21 0.12
215 54 0.31
216 5 0.03
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (213 bp):
ATCTCAAGTGAGATAATCTTTGTTTAATGTGAAAACAAATTCAAAATTTGTATATCAAAGAAAAA
ATGTCTCAAACAAGACGAAATTTGTTTTAAAAAGAATAACAATCTCAAATGAGATCAACTTTGTT
TCAAGTGAAACAAATTCGAAATTTGTATCTCAAAGGAAAAATGTCTCAAACGAGACGAAATTTGT
TTTTTTAAAAAAATAACA
Found at i:370919 original size:21 final size:21
Alignment explanation
Indices: 370885--370955 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
370875 GCTTTGGAAT
* * *
370885 TTTTCATGGGATGCAACCAGC
1 TTTTCTTGGTATGCAACCAGA
370906 TTTTCTTGGTATGCAACCA-A
1 TTTTCTTGGTATGCAACCAGA
* *
370926 TTTTTCATAGGT-TGTAACCAGA
1 -TTTTC-TTGGTATGCAACCAGA
370948 TTTTCTTG
1 TTTTCTTG
370956 TGAAATTGCT
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
20 2 0.05
21 34 0.83
22 5 0.12
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (21 bp):
TTTTCTTGGTATGCAACCAGA
Found at i:373122 original size:21 final size:21
Alignment explanation
Indices: 373098--373137 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
373088 GGCTTAAAAG
*
373098 AAAATTAGCTAAGCATGACAA
1 AAAATTAACTAAGCATGACAA
373119 AAAATTAACTAAGCATGAC
1 AAAATTAACTAAGCATGAC
373138 CAAAGTCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.53, C:0.15, G:0.12, T:0.20
Consensus pattern (21 bp):
AAAATTAACTAAGCATGACAA
Found at i:376589 original size:21 final size:21
Alignment explanation
Indices: 376560--376612 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
376550 ATTCTGACTA
376560 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * * *
376581 TCGCGTTGCGGTTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
*
376602 TCGCAATGCGA
1 TCGCATTGCGA
376613 ATACGTAAAT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:376627 original size:20 final size:20
Alignment explanation
Indices: 376602--376789 Score: 259
Period size: 20 Copynumber: 9.3 Consensus size: 20
376592 TTTTCCTAAT
376602 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
** *
376622 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAA-TACGTAAA
* ** *
376643 TCGCAATACGAATTTGGAAAA
1 TCGCAATGCGAA-TACGTAAA
* *
376664 TCGCAATACGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
376684 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
376704 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
376724 TCGCAATGCGAATATGTAAA
1 TCGCAATGCGAATACGTAAA
*
376744 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
376764 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
376784 TCGCAA
1 TCGCAA
376790 CGAGATTCTG
Statistics
Matches: 153, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
20 117 0.76
21 36 0.24
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:379855 original size:20 final size:20
Alignment explanation
Indices: 379827--379940 Score: 176
Period size: 20 Copynumber: 5.7 Consensus size: 20
379817 GACATTCATT
379827 TGACTATCGCAACGC-GAATA
1 TGACTATCGCAACGCGGAA-A
* *
379847 TGACGATCGCAACACGGAAA
1 TGACTATCGCAACGCGGAAA
*
379867 TGACTATCGCAACACGGAAA
1 TGACTATCGCAACGCGGAAA
*
379887 TGACTATCGCAACGCGGAAT
1 TGACTATCGCAACGCGGAAA
379907 TGACTATCGCAACGCGGAAA
1 TGACTATCGCAACGCGGAAA
379927 TGACTATCGCAACG
1 TGACTATCGCAACG
379941 AGAGAATCGC
Statistics
Matches: 87, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
20 84 0.97
21 3 0.03
ACGTcount: A:0.35, C:0.25, G:0.23, T:0.17
Consensus pattern (20 bp):
TGACTATCGCAACGCGGAAA
Found at i:379973 original size:32 final size:32
Alignment explanation
Indices: 379912--380006 Score: 118
Period size: 32 Copynumber: 2.8 Consensus size: 32
379902 GGAATTGACT
* *
379912 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGA-AATCGCAACGAGAGA
* *
379946 ATCGCAATGCGAAATGAAATTGCAACGAGTGA
1 ATCGCAATGCGAAATGAAATCGCAACGAGAGA
379978 ATCGCAATGCGAAAATGAAAATCGCAACG
1 ATCGCAATGCG-AAATG-AAATCGCAACG
380007 CGAAATTAGT
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
32 23 0.43
33 12 0.22
34 19 0.35
ACGTcount: A:0.41, C:0.20, G:0.24, T:0.15
Consensus pattern (32 bp):
ATCGCAATGCGAAATGAAATCGCAACGAGAGA
Found at i:380038 original size:19 final size:18
Alignment explanation
Indices: 380016--380113 Score: 61
Period size: 19 Copynumber: 5.8 Consensus size: 18
380006 GCGAAATTAG
380016 TTTCGCGTTGCGATTTTCA
1 TTTCGCGTTGCGA-TTTCA
*
380035 TTTCGCATTGCGA--TCA
1 TTTCGCGTTGCGATTTCA
*
380051 ---CTCGTTGCGATTTTCA
1 TTTCGCGTTGCGA-TTTCA
*
380067 TTTCGCATTGCGA-TTC-
1 TTTCGCGTTGCGATTTCA
* *
380083 --TCTCGTTGCGATAGTCA
1 TTTCGCGTTGCGAT-TTCA
380100 TTTCGCGTTGCGAT
1 TTTCGCGTTGCGAT
380114 AGTCTGTTTT
Statistics
Matches: 59, Mismatches: 9, Indels: 22
0.66 0.10 0.24
Matches are distributed among these distances:
13 8 0.14
14 9 0.15
16 8 0.14
17 3 0.05
19 31 0.53
ACGTcount: A:0.13, C:0.23, G:0.21, T:0.42
Consensus pattern (18 bp):
TTTCGCGTTGCGATTTCA
Found at i:380062 original size:32 final size:32
Alignment explanation
Indices: 380021--380113 Score: 141
Period size: 32 Copynumber: 2.9 Consensus size: 32
380011 ATTAGTTTCG
380021 CGTTGCGATTTTCATTTCGCATTGCGATCACT
1 CGTTGCGATTTTCATTTCGCATTGCGATCACT
*
380053 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGA-TCACT
** *
380086 CGTTGCGATAGTCATTTCGCGTTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
380114 AGTCTGTTTT
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
32 28 0.50
33 28 0.50
ACGTcount: A:0.14, C:0.24, G:0.22, T:0.41
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATCACT
Found at i:380093 original size:33 final size:33
Alignment explanation
Indices: 380021--380113 Score: 143
Period size: 33 Copynumber: 2.8 Consensus size: 33
380011 ATTAGTTTCG
380021 CGTTGCGATTTTCATTTCGCATTGCGA-TCACT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCACT
*
380053 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCACT
** *
380086 CGTTGCGATAGTCATTTCGCGTTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
380114 AGTCTGTTTT
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
32 27 0.48
33 29 0.52
ACGTcount: A:0.14, C:0.24, G:0.22, T:0.41
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCACT
Found at i:382182 original size:19 final size:20
Alignment explanation
Indices: 382152--382190 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
382142 AACATAAAAG
382152 ACGCGAAAATGACTATCGCA
1 ACGCGAAAATGACTATCGCA
382172 ACGCG-AAATGACTATCGCA
1 ACGCGAAAATGACTATCGCA
382191 CGAGAGAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.38, C:0.26, G:0.21, T:0.15
Consensus pattern (20 bp):
ACGCGAAAATGACTATCGCA
Found at i:382268 original size:19 final size:20
Alignment explanation
Indices: 382229--382276 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
382219 TAACAACAAA
*
382229 ATCGCAACGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
*
382249 ATCGCAATGCG-AATTGACT
1 ATCGCAATGCGAAAATGACT
382268 ATCGCAATG
1 ATCGCAATG
382277 AGAGAATCGT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (20 bp):
ATCGCAATGCGAAAATGACT
Found at i:382346 original size:20 final size:20
Alignment explanation
Indices: 382321--382410 Score: 162
Period size: 20 Copynumber: 4.5 Consensus size: 20
382311 GATTCTTTCG
382321 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
382341 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
382361 TTGCGATAGTCATTTTCACA
1 TTGCGATAGTCATTTTCGCA
*
382381 TTGTGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
382401 TTGCGATAGT
1 TTGCGATAGT
382411 AAACTATTCT
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 66 1.00
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.41
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:382366 original size:40 final size:40
Alignment explanation
Indices: 382300--382410 Score: 162
Period size: 40 Copynumber: 2.9 Consensus size: 40
382290 GCGATTTTCA
382300 TTTCGCATTGCGAT--TC--TTTCG--TTGCGATAGTCAT
1 TTTCGCATTGCGATAGTCATTTTCGCATTGCGATAGTCAT
382334 TTTCGCATTGCGATAGTCATTTTCGCATTGCGATAGTCAT
1 TTTCGCATTGCGATAGTCATTTTCGCATTGCGATAGTCAT
* *
382374 TTTCACATTGTGATAGTCATTTTCGCATTGCGATAGT
1 TTTCGCATTGCGATAGTCATTTTCGCATTGCGATAGT
382411 AAACTATTCT
Statistics
Matches: 69, Mismatches: 2, Indels: 6
0.90 0.03 0.08
Matches are distributed among these distances:
34 14 0.20
36 2 0.03
38 5 0.07
40 48 0.70
ACGTcount: A:0.19, C:0.19, G:0.20, T:0.42
Consensus pattern (40 bp):
TTTCGCATTGCGATAGTCATTTTCGCATTGCGATAGTCAT
Found at i:384303 original size:20 final size:20
Alignment explanation
Indices: 384280--384368 Score: 99
Period size: 20 Copynumber: 4.5 Consensus size: 20
384270 CTGAAACTTT
384280 AAATCGCAACACGAAAATGA
1 AAATCGCAACACGAAAATGA
384300 AAATCGCAACACGAAAATGA
1 AAATCGCAACACGAAAATGA
** * **
384320 CTATCGCAACGCGAATTTGA
1 AAATCGCAACACGAAAATGA
* *
384340 CAATCGCAACGCG-AAATGA
1 AAATCGCAACACGAAAATGA
*
384359 AAATCACAAC
1 AAATCGCAAC
384369 GACAGAATCG
Statistics
Matches: 59, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
19 12 0.20
20 47 0.80
ACGTcount: A:0.47, C:0.24, G:0.16, T:0.13
Consensus pattern (20 bp):
AAATCGCAACACGAAAATGA
Found at i:384993 original size:21 final size:21
Alignment explanation
Indices: 384969--385014 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
384959 TATTCGCATT
384969 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* * *
384990 GCGAATTTGGGAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
385011 GCGA
1 GCGA
385015 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:385266 original size:17 final size:17
Alignment explanation
Indices: 385217--385269 Score: 56
Period size: 17 Copynumber: 3.0 Consensus size: 17
385207 TACACTAATT
385217 TATAATTATTAAATTT-AA
1 TATAATTA--AAATTTAAA
385235 -ATAATTAAATGATTTAAA
1 TATAATTAAA--ATTTAAA
385253 TATAATTAAAATTTAAA
1 TATAATTAAAATTTAAA
385270 CCCATAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
15 2 0.06
17 18 0.58
18 2 0.06
19 9 0.29
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (17 bp):
TATAATTAAAATTTAAA
Found at i:388102 original size:36 final size:35
Alignment explanation
Indices: 388044--388222 Score: 164
Period size: 36 Copynumber: 4.9 Consensus size: 35
388034 CTTTTTTAAA
* *
388044 AAAACATTTTGAAAA-TAAATAATATATGGTTTTT
1 AAAACATTTTGAAAATTATATAATATATAGTTTTT
* *
388078 AAAACTTTTTGAAAACTTATATAATATATAGTTTTG
1 AAAACATTTTGAAAA-TTATATAATATATAGTTTTT
* *
388114 AAATCATTTTGAAAAAATATATAATATATAGTTTCTTT
1 AAAACATTTTG-AAAATTATATAATATATAG-TT-TTT
* *
388152 AAAACCTTTTGAAAAACTTATATAAAATATAG-TTTT
1 AAAACATTTTG-AAAA-TTATATAATATATAGTTTTT
****
388188 AATTTTTTTTTGAAATATTATATAATATATAGTTT
1 AA-AACATTTTGAAA-ATTATATAATATATAGTTT
388223 AAAATCGTTT
Statistics
Matches: 119, Mismatches: 17, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
34 14 0.12
36 61 0.51
37 15 0.13
38 16 0.13
39 13 0.11
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.45
Consensus pattern (35 bp):
AAAACATTTTGAAAATTATATAATATATAGTTTTT
Found at i:388182 original size:75 final size:73
Alignment explanation
Indices: 388048--388222 Score: 214
Period size: 75 Copynumber: 2.4 Consensus size: 73
388038 TTTAAAAAAA
* * * *
388048 CATTTTG--AAAATAAATAATATAT-GGTTTTTAAAACTTTTTGAAAACTTATATAATATATAGT
1 CATTTTGAAAAAATATATAATATATAGTTTTTTAAAACCTTTTGAAAACTTATATAAAATATAGT
388110 TTTGAA-AT
66 TTT-AATAT
388118 CATTTTGAAAAAATATATAATATATAGTTTCTTTAAAACCTTTTGAAAAACTTATATAAAATATA
1 CATTTTGAAAAAATATATAATATATAGTTT-TTTAAAACCTTTTG-AAAACTTATATAAAATATA
*
388183 GTTTTAATTT
64 GTTTTAATAT
** * *
388193 TTTTTTGAAATATTATATAATATATAGTTT
1 CATTTTGAAAAAATATATAATATATAGTTT
388223 AAAATCGTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
70 7 0.08
72 15 0.17
73 3 0.03
74 15 0.17
75 50 0.56
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.46
Consensus pattern (73 bp):
CATTTTGAAAAAATATATAATATATAGTTTTTTAAAACCTTTTGAAAACTTATATAAAATATAGT
TTTAATAT
Found at i:388314 original size:34 final size:33
Alignment explanation
Indices: 388266--388358 Score: 100
Period size: 33 Copynumber: 2.8 Consensus size: 33
388256 AAATCATTTA
388266 TTTGAAAAACTATAATATATAGTTTGGAAA-ACTATT
1 TTTGAAAAA-TATAATATATAGTTT--AAAGA-TATT
* *
388302 TTT-AAAAATATAATATATGGTTTAAAGATGTT
1 TTTGAAAAATATAATATATAGTTTAAAGATATT
* *
388334 TTTGAAATATATATTATATAGTTTA
1 TTTGAAAAATATAATATATAGTTTA
388359 TTAGTATACT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
32 9 0.18
33 19 0.38
34 14 0.28
35 5 0.10
36 3 0.06
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.44
Consensus pattern (33 bp):
TTTGAAAAATATAATATATAGTTTAAAGATATT
Found at i:390813 original size:20 final size:21
Alignment explanation
Indices: 390727--390812 Score: 120
Period size: 21 Copynumber: 4.0 Consensus size: 21
390717 ATCAGATTGT
390727 CCAGGGGGTACAGATTCCCCC
1 CCAGGGGGTACAGATTCCCCC
390748 CCAGGGGGTACAGATTCCCCCCC
1 CCAGGGGGTACAGATT--CCCCC
* *
390771 CCAAGGGGTACCGATT-CCCC
1 CCAGGGGGTACAGATTCCCCC
*
390791 CCAGGGGGAACAGATTCCCCC
1 CCAGGGGGTACAGATTCCCCC
390812 C
1 C
390813 ATAGGGGTAT
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
20 17 0.30
21 21 0.37
23 19 0.33
ACGTcount: A:0.20, C:0.41, G:0.27, T:0.13
Consensus pattern (21 bp):
CCAGGGGGTACAGATTCCCCC
Found at i:390819 original size:21 final size:21
Alignment explanation
Indices: 390731--390821 Score: 105
Period size: 20 Copynumber: 4.3 Consensus size: 21
390721 GATTGTCCAG
*
390731 GGGGTACAGATTCCCCCCCAG
1 GGGGTACAGATTCCCCCCCAA
390752 GGGGTACAGATTCCCCCCCCCAA
1 GGGGTACAGATT--CCCCCCCAA
* *
390775 GGGGTACCGATT-CCCCCCAG
1 GGGGTACAGATTCCCCCCCAA
*
390795 GGGGAACAGATT-CCCCCCATA
1 GGGGTACAGATTCCCCCCCA-A
390816 GGGGTA
1 GGGGTA
390822 TCGATCCCCC
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
20 24 0.40
21 17 0.28
23 19 0.32
ACGTcount: A:0.21, C:0.36, G:0.29, T:0.14
Consensus pattern (21 bp):
GGGGTACAGATTCCCCCCCAA
Found at i:390829 original size:20 final size:20
Alignment explanation
Indices: 390767--390832 Score: 73
Period size: 20 Copynumber: 3.3 Consensus size: 20
390757 ACAGATTCCC
*
390767 CCCCCCAAGGGGTACCGATT
1 CCCCCCAAGGGGTAACGATT
*
390787 CCCCCC-AGGGGGAACAGATT
1 CCCCCCAAGGGGTAAC-GATT
*
390807 CCCCCCATAGGGGTATCGA-T
1 CCCCCCA-AGGGGTAACGATT
390827 CCCCCC
1 CCCCCC
390833 TATTTAACAG
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
19 7 0.18
20 23 0.59
21 2 0.05
22 7 0.18
ACGTcount: A:0.20, C:0.42, G:0.24, T:0.14
Consensus pattern (20 bp):
CCCCCCAAGGGGTAACGATT
Found at i:392130 original size:19 final size:20
Alignment explanation
Indices: 392106--392153 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
392096 AATGATTTTC
*
392106 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATAAAA
* *
392125 TTTTGAAAGCCAAAATAAAA
1 TTTTGAAAACAAAAATAAAA
392145 TTTTGAAAA
1 TTTTGAAAA
392154 AGGATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.54, C:0.06, G:0.10, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATAAAA
Found at i:396629 original size:19 final size:20
Alignment explanation
Indices: 396591--396629 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
396581 TAATATTGTT
396591 CAGGGGGTACAGATTCCCCC
1 CAGGGGGTACAGATTCCCCC
*
396611 CAGGGGGTACCGATTCCCC
1 CAGGGGGTACAGATTCCCC
396630 TTGTCTAACG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.18, C:0.36, G:0.31, T:0.15
Consensus pattern (20 bp):
CAGGGGGTACAGATTCCCCC
Found at i:400902 original size:23 final size:23
Alignment explanation
Indices: 400875--400961 Score: 138
Period size: 23 Copynumber: 3.8 Consensus size: 23
400865 CAGCTCATAT
*
400875 AATTGCACCGAAGTGCCACGTAG
1 AATTGCACCGGAGTGCCACGTAG
*
400898 AATTGCACCGGAGTGCCGCGTAG
1 AATTGCACCGGAGTGCCACGTAG
*
400921 AATTGCACCGGAGTGCCGCGTAG
1 AATTGCACCGGAGTGCCACGTAG
*
400944 AATTGCACCGTAGTGCCA
1 AATTGCACCGGAGTGCCA
400962 TATAATAATG
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 60 1.00
ACGTcount: A:0.25, C:0.26, G:0.30, T:0.18
Consensus pattern (23 bp):
AATTGCACCGGAGTGCCACGTAG
Found at i:401321 original size:30 final size:30
Alignment explanation
Indices: 401285--401352 Score: 118
Period size: 30 Copynumber: 2.3 Consensus size: 30
401275 ATATAATCAC
401285 GTAATTCACTTACACATAGCACATTTTTAA
1 GTAATTCACTTACACATAGCACATTTTTAA
* *
401315 GTAATTCACTTACTCATAGCACATTTTTAT
1 GTAATTCACTTACACATAGCACATTTTTAA
401345 GTAATTCA
1 GTAATTCA
401353 TATATATCCC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.34, C:0.19, G:0.07, T:0.40
Consensus pattern (30 bp):
GTAATTCACTTACACATAGCACATTTTTAA
Found at i:402610 original size:21 final size:21
Alignment explanation
Indices: 402585--402626 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
402575 TTCTGGTTCG
* *
402585 TTTGAAGGGGTATCGGTTCCC
1 TTTGAAGGGGTACCGATTCCC
*
402606 TTTGAATGGGTACCGATTCCC
1 TTTGAAGGGGTACCGATTCCC
402627 CTAGCCCAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.21, G:0.29, T:0.33
Consensus pattern (21 bp):
TTTGAAGGGGTACCGATTCCC
Found at i:406192 original size:23 final size:23
Alignment explanation
Indices: 406166--406215 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
406156 CAGCTCATAT
406166 AATTACACCGAAGTACCACGTAG
1 AATTACACCGAAGTACCACGTAG
* * *
406189 AATTACACCGGAGTGCCACGTAT
1 AATTACACCGAAGTACCACGTAG
406212 AATT
1 AATT
406216 GCACTATAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.22
Consensus pattern (23 bp):
AATTACACCGAAGTACCACGTAG
Found at i:407256 original size:18 final size:18
Alignment explanation
Indices: 407233--407269 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
407223 TCACATAGTC
407233 TTATATTTCATTATCTTA
1 TTATATTTCATTATCTTA
* *
407251 TTATATTTTATTCTCTTA
1 TTATATTTCATTATCTTA
407269 T
1 T
407270 GATTCTTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.24, C:0.11, G:0.00, T:0.65
Consensus pattern (18 bp):
TTATATTTCATTATCTTA
Found at i:411471 original size:23 final size:23
Alignment explanation
Indices: 411408--411461 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
411398 CAGCTCATAT
* * *
411408 AATTACACCGAAGTACCACGTAG
1 AATTGCACCGATGTGCCACGTAG
*
411431 AATTGCACCGGTGTGCCACGTAG
1 AATTGCACCGATGTGCCACGTAG
411454 AATTGCAC
1 AATTGCAC
411462 TATAGTGCCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.20
Consensus pattern (23 bp):
AATTGCACCGATGTGCCACGTAG
Found at i:412524 original size:21 final size:22
Alignment explanation
Indices: 412484--412524 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
412474 TTCACATAGT
412484 CTTATATTTCATTATCTTATTA
1 CTTATATTTCATTATCTTATTA
*
412506 CTTATATTT-ATTCTCTTAT
1 CTTATATTTCATTATCTTAT
412525 GATTTTTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.61
Consensus pattern (22 bp):
CTTATATTTCATTATCTTATTA
Found at i:419471 original size:95 final size:95
Alignment explanation
Indices: 419308--419491 Score: 253
Period size: 95 Copynumber: 1.9 Consensus size: 95
419298 ATTTATATCA
* *
419308 AATAAAGCTTGAGTTGTCCCTCTAGAGAAATTGGTTAAACCCCCCAGCTTTATGGATAATATTCA
1 AATAAAGCTTGAGCTGTCCCTCTAGAGAAATTGGTTAAACCCCCCAGCTTTATGGATAAGATTCA
* *
419373 GCTAGCTTGATAAAGGTGATTATACTATAC
66 GCTAACCTGATAAAGGTGATTATACTATAC
* * ** * *
419403 AATAAAGTTTGAGCTGTCCCTCTA-AGGCAATTGGTTAAATGCCCCGGTTTTATGGATAAGATTC
1 AATAAAGCTTGAGCTGTCCCTCTAGA-GAAATTGGTTAAACCCCCCAGCTTTATGGATAAGATTC
*
419467 AGCTAACCTGATAAAGGTGTTTATA
65 AGCTAACCTGATAAAGGTGATTATA
419492 TATTAAACTG
Statistics
Matches: 77, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
94 1 0.01
95 76 0.99
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.32
Consensus pattern (95 bp):
AATAAAGCTTGAGCTGTCCCTCTAGAGAAATTGGTTAAACCCCCCAGCTTTATGGATAAGATTCA
GCTAACCTGATAAAGGTGATTATACTATAC
Found at i:420950 original size:81 final size:80
Alignment explanation
Indices: 420677--421534 Score: 768
Period size: 81 Copynumber: 10.4 Consensus size: 80
420667 AGGACAACAT
* * * * *
420677 TTTGCAGCATAACTCAAGGCTAGAAGGATTATCTGCCAACAAAGGCCTTCGAGTTCGACTACACT
1 TTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTG-C--CAAAGACCTTCGAGTTCGACTACACT
*
420742 CAGCTCCAAGGCATATCA
63 CAGCTCCAAGGCACATCA
* * *
420760 TTTGAAGCATAACTTAAGTCAAGAAGGGTTATCTGTCAACCAAAGACCTTCAAGTTCGACTACGC
1 TTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTG----CCAAAGACCTTCGAGTTCGACTACAC
*
420825 TCAGCTCCAAGGCGCATCA
62 TCAGCTCCAAGGCACATCA
* * * * * * * *
420844 TTTGTAGCATAGCTTAAGTCGAGAAGGGATATCTGCCAAAGACCCTCAAGTTTGATTACACTCAG
1 TTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAAAGACCTTCGAGTTCGACTACACTCAG
* *
420909 CTTCGAGGGCACATCA
66 C-TCCAAGGCACATCA
* * * * * *
420925 TTTACAGCATAACTTAAATCAAGAAGGGTTATCTACCAACCAAATACCTTCGAGTTTGACTACGC
1 TTTGCAGCATAACTTAAGTCAAGAAGGGTTATCT----GCCAAAGACCTTCGAGTTCGACTACAC
*
420990 TCAGCTGCAAGGCACATCA
62 TCAGCTCCAAGGCACATCA
* * * * * *
421009 TTTGCAGTATAACTTAAGTTGAA-AAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCA
1 TTTGCAGCATAACTTAAG-TCAAGAAGGGTTATCTGCCAAAGACCTTCGAGTTCGACTACACTCA
* * *
421073 TCTTCGAGGGCACATCA
65 GC-TCCAAGGCACATCA
* * * *
421090 TTTGCAGCATAACTTAAAGTCGAGAAGGGTTATCTGCCAACCAAAGATCTTCAAGTTCGACTACG
1 TTTGCAGCATAACTT-AAGTCAAGAAGGGTTATCTG----CCAAAGACCTTCGAGTTCGACTACA
*
421155 CTCAACTCCAAGGCACATCA
61 CTCAGCTCCAAGGCACATCA
* * * * * *
421175 TTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAG
1 TTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAAAGACCTTCGAGTTCGACTACACTCAG
* *
421240 CTTCGAGAGCACATCA
66 CTCCAAG-GCACATCA
* * * * * * *
421256 TTTGAAGCATAACTCAAGGCTAGAAGGGTTATCTGACAACAAAGACCTTTGAGTTTGACTACGCT
1 TTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTG-C--CAAAGACCTTCGAGTTCGACTACACT
*
421321 CAGCT-CAACGACACATCA
63 CAGCTCCAA-GGCACATCA
* * * * ** * *
421339 TTTGCAGTATAGCTTAAGGCTAGAAGGGCCATCTGCCAAAGACCCTCGAGTTCGATTACACTCAG
1 TTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAAAGACCTTCGAGTTCGACTACACTCAG
* *
421404 CTTCGAGGGCACATCA
66 C-TCCAAGGCACATCA
* * * * * *
421420 TTTGCAGTATAACTCAAGGCTAGAAGGGTTATCTGCCAAAGACCTTCGAGTTCAACTACGCTCAG
1 TTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAAAGACCTTCGAGTTCGACTACACTCAG
*
421485 CTCCAATGCACATCA
66 CTCCAAGGCACATCA
* * *
421500 TTTACAGCATAGCTCAAAG-CAAGAAGGGTTATCTG
1 TTTGCAGCATAACT-TAAGTCAAGAAGGGTTATCTG
421535 TCAATAAAAT
Statistics
Matches: 632, Mismatches: 119, Indels: 51
0.79 0.15 0.06
Matches are distributed among these distances:
80 142 0.22
81 172 0.27
82 17 0.03
83 68 0.11
84 152 0.24
85 54 0.09
86 27 0.04
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (80 bp):
TTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAAAGACCTTCGAGTTCGACTACACTCAG
CTCCAAGGCACATCA
Found at i:421387 original size:164 final size:165
Alignment explanation
Indices: 420716--421534 Score: 1044
Period size: 165 Copynumber: 5.0 Consensus size: 165
420706 TATCTGCCAA
* * * * * * *
420716 CAAAGGCCTTCGAGTTCGACTACACTCAGC-TCCAAGGCATATCATTTGAAGCATAACTTAAGTC
1 CAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGAAGCATAACTCAAGTC
* * *
420780 AAGAAGGGTTATCTGTCAACCAAAGACCTTCAAGTTCGACTACGCTCAGCTCCAAGGCGCATCAT
66 AAGAAGGGTTATCTGACAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCAT
* * * *
420845 TTGTAGCATAGCTTAAGTCGAGAAGGGATATCTGC
131 TTGCAGTATAGCTTAAGGCGAGAAGGGCTATCTGC
* * * *
420880 CAAAGACCCTCAAGTTTGATTACACTCAGCTTCGAGGGCACATCATTT-ACAGCATAACTTAAAT
1 CAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGA-AGCATAACTCAAGT
* * *
420944 CAAGAAGGGTTATCT-ACCAACCAAATACCTTCGAGTTTGACTACGCTCAGCTGCAAGGCACATC
65 CAAGAAGGGTTATCTGA-CAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* ** *
421008 ATTTGCAGTATAACTTAAGTTGAAAAGGGCTATCTGC
129 ATTTGCAGTATAGCTTAAGGCGAGAAGGGCTATCTGC
* * * *
421045 CAAAGACCCTCAAGTTCGATTACACTCATCTTCGAGGGCACATCATTTGCAGCATAACTTAAAGT
1 CAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGAAGCATAAC-TCAAGT
* * * * *
421110 CGAGAAGGGTTATCTGCCAACCAAAGATCTTCAAGTTCGACTACGCTCAACTCCAAGGCACATCA
65 CAAGAAGGGTTATCTGACAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCA
*
421175 TTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGC
130 TTTGCAGTATAGCTTAAGGCGAGAAGGGCTATCTGC
* *
421211 CAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGAGCACATCATTTGAAGCATAACTCAAGGC
1 CAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGAAGCATAACTCAAGTC
* * * *
421276 TAGAAGGGTTATCTGACAA-CAAAGACCTTTGAGTTTGACTACGCTCAGCT-CAACGACACATCA
66 AAGAAGGGTTATCTGACAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCA
* *
421339 TTTGCAGTATAGCTTAAGGCTAGAAGGGCCATCTGC
130 TTTGCAGTATAGCTTAAGGCGAGAAGGGCTATCTGC
* * *
421375 CAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGTATAACTCAAGGC
1 CAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGAAGCATAACTCAAGTC
* * *
421440 TAGAAGGGTTATCTG----CCAAAGACCTTCGAGTTCAACTACGCTCAGCTCCAATGCACATCAT
66 AAGAAGGGTTATCTGACAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCAT
* * * * * *
421501 TTACAGCATAGCTCAAAGCAAGAAGGGTTATCTG
131 TTGCAGTATAGCTTAAGGCGAGAAGGGCTATCTG
421535 TCAATAAAAT
Statistics
Matches: 577, Mismatches: 69, Indels: 21
0.87 0.10 0.03
Matches are distributed among these distances:
161 63 0.11
162 3 0.01
163 3 0.01
164 170 0.29
165 191 0.33
166 147 0.25
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.25
Consensus pattern (165 bp):
CAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGAAGCATAACTCAAGTC
AAGAAGGGTTATCTGACAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCAT
TTGCAGTATAGCTTAAGGCGAGAAGGGCTATCTGC
Found at i:422149 original size:34 final size:34
Alignment explanation
Indices: 422111--422430 Score: 145
Period size: 36 Copynumber: 8.9 Consensus size: 34
422101 TTTAAAAAAA
* *
422111 AAAACATTTTGAAGATACATAATATATAGTTTTT
1 AAAACATTTTGAAAATATATAATATATAGTTTTT
* *
422145 AAAACATTTTGAAAACTTATATAGTATATAGTTTTG
1 AAAACATTTTGAAAA--TATATAATATATAGTTTTT
* *
422181 AAATCATTTTGAAAAAATATATAATATGTAGTTTCTTT
1 AAAACATTTTG--AAAATATATAATATATAG-TT-TTT
* * *
422219 AAAACCTTTTGAAAAAACTTATATAAAATATAGTTTTAAAA
1 AAAACATTTTG--AAAA--TATATAATATATAGTTTT---T
*
422260 AAAACATTTTTAAAAAATTATATAATATATAG--TTT
1 AAAACA-TTTT-GAAAA-TATATAATATATAGTTTTT
* * * *
422295 AAAATCATTTTAAAAAAAT-TGATGTA-ATGTTTTT
1 AAAA-CATTTTGAAAATATATAATATATA-GTTTTT
* **
422329 AAATCATTTTTTGAAAA-ACTATAATATATAGTTTGG
1 AAAACA--TTTTGAAAATA-TATAATATATAGTTTTT
* * * *
422365 AAAA-TTGTTTTAAAAAATATAATATAT-G-GTTT
1 AAAACAT-TTTGAAAATATATAATATATAGTTTTT
* *
422397 AAAGATATTTTTG-AAATATATATTTATATAGTTT
1 AAA-ACA-TTTTGAAAATATATA-ATATATAGTTT
422431 ATTAGTATAC
Statistics
Matches: 219, Mismatches: 37, Indels: 58
0.70 0.12 0.18
Matches are distributed among these distances:
31 1 0.00
32 10 0.05
33 15 0.07
34 51 0.23
35 20 0.09
36 53 0.24
37 3 0.01
38 25 0.11
39 2 0.01
40 26 0.12
41 9 0.04
42 4 0.02
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.42
Consensus pattern (34 bp):
AAAACATTTTGAAAATATATAATATATAGTTTTT
Found at i:422253 original size:40 final size:38
Alignment explanation
Indices: 422129--422314 Score: 179
Period size: 36 Copynumber: 4.9 Consensus size: 38
422119 TTGAAGATAC
*
422129 ATAATATATAG-TTTTTAAAACATTTTG-AAAACTTAT
1 ATAATATATAGTTTTTTAAAACATTTTGAAAAAATTAT
* * *
422165 ATAGTATATAG-TTTTGAAATCATTTTGAAAAAA-TAT
1 ATAATATATAGTTTTTTAAAACATTTTGAAAAAATTAT
* *
422201 ATAATATGTAGTTTCTTTAAAACCTTTTGAAAAAACTTAT
1 ATAATATATAGTTT-TTTAAAACATTTTGAAAAAA-TTAT
* ** *
422241 ATAAAATATAGTTTTAAAAAAAACATTTTTAAAAAATTAT
1 ATAATATATAGTTTT--TTAAAACATTTTGAAAAAATTAT
*
422281 ATAATATATAG---TTTAAAATCATTTTAAAAAAATT
1 ATAATATATAGTTTTTTAAAA-CATTTTGAAAAAATT
422315 GATGTAATGT
Statistics
Matches: 123, Mismatches: 19, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
35 4 0.03
36 50 0.41
37 7 0.06
38 17 0.14
39 1 0.01
40 29 0.24
41 15 0.12
ACGTcount: A:0.48, C:0.05, G:0.06, T:0.41
Consensus pattern (38 bp):
ATAATATATAGTTTTTTAAAACATTTTGAAAAAATTAT
Found at i:423749 original size:6 final size:6
Alignment explanation
Indices: 423738--423792 Score: 56
Period size: 6 Copynumber: 8.2 Consensus size: 6
423728 TTCATTTCCA
423738 TCTTTT TCTTTT TCTTTT TCTTTTT TCCTATTT TAACATTTT TCTTTT
1 TCTTTT TCTTTT TCTTTT TC-TTTT T-CT-TTT T--C-TTTT TCTTTT
423786 TCTTTT T
1 TCTTTT T
423793 TTCAATTTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 10
0.80 0.02 0.19
Matches are distributed among these distances:
6 25 0.58
7 7 0.16
8 5 0.12
9 5 0.12
10 1 0.02
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.76
Consensus pattern (6 bp):
TCTTTT
Found at i:425363 original size:16 final size:16
Alignment explanation
Indices: 425339--425370 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
425329 TTGTTCACCC
*
425339 GGTGGAGGTTTGGTCG
1 GGTGAAGGTTTGGTCG
425355 GGTGAAGGTTTGGTCG
1 GGTGAAGGTTTGGTCG
425371 AGGTCAACGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.09, C:0.06, G:0.53, T:0.31
Consensus pattern (16 bp):
GGTGAAGGTTTGGTCG
Found at i:428601 original size:52 final size:53
Alignment explanation
Indices: 428540--428653 Score: 153
Period size: 52 Copynumber: 2.2 Consensus size: 53
428530 TTTCTTCATT
*
428540 TTTTATTTTTATTTCTTCTAAAATTTAACA-TTTCTTTC-TCTTTTTTATTTT-A
1 TTTTATTTTTATTTCTTCTAAAAATTAACATTTTC-TTCAT-TTTTTTATTTTAA
* *
428592 TTTTATTTTTATTTCTTTTAAAAATTAATATTTTCTTCATTTTTTTATTTTAA
1 TTTTATTTTTATTTCTTCTAAAAATTAACATTTTCTTCATTTTTTTATTTTAA
*
428645 GTTTATTTT
1 TTTTATTTT
428654 AAAATTTAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
52 41 0.75
53 14 0.25
ACGTcount: A:0.23, C:0.08, G:0.01, T:0.68
Consensus pattern (53 bp):
TTTTATTTTTATTTCTTCTAAAAATTAACATTTTCTTCATTTTTTTATTTTAA
Found at i:428641 original size:42 final size:43
Alignment explanation
Indices: 428592--428678 Score: 131
Period size: 43 Copynumber: 2.0 Consensus size: 43
428582 TTTTATTTTA
* * *
428592 TTTTATTTTTA-TTTCTTTTAAAAATTAATATTTTCTTCATTT
1 TTTTATTTTAAGTTTATTTTAAAAATTAATAGTTTCTTCATTT
*
428634 TTTTATTTTAAGTTTATTTTAAAATTTAATAGTTTCTTCATTT
1 TTTTATTTTAAGTTTATTTTAAAAATTAATAGTTTCTTCATTT
428677 TT
1 TT
428679 ATTTATCTCT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
42 10 0.25
43 30 0.75
ACGTcount: A:0.26, C:0.06, G:0.02, T:0.66
Consensus pattern (43 bp):
TTTTATTTTAAGTTTATTTTAAAAATTAATAGTTTCTTCATTT
Found at i:440706 original size:47 final size:47
Alignment explanation
Indices: 440639--440731 Score: 132
Period size: 47 Copynumber: 2.0 Consensus size: 47
440629 CCATCTTTAT
* * *
440639 GGATGATAATACAGTACCTACGTGATGAGGATGACACGTTATCTAAA
1 GGATGATAACACAGTACCTACGTGATGAGGACGACAAGTTATCTAAA
* * *
440686 GGATGATAACACGGTTCCTACGTGATGAGTACGACAAGTTATCTAA
1 GGATGATAACACAGTACCTACGTGATGAGGACGACAAGTTATCTAA
440732 GGTTGACACG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 40 1.00
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (47 bp):
GGATGATAACACAGTACCTACGTGATGAGGACGACAAGTTATCTAAA
Found at i:441889 original size:10 final size:10
Alignment explanation
Indices: 441874--441911 Score: 51
Period size: 11 Copynumber: 3.8 Consensus size: 10
441864 CCCTCATTTA
441874 TTTTTTTCTC
1 TTTTTTTCTC
441884 TTTTTTTTCTC
1 -TTTTTTTCTC
*
441895 TTTTTTTC-A
1 TTTTTTTCTC
441904 TTTTTTTC
1 TTTTTTTC
441912 GTTTTTCATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
9 8 0.31
10 8 0.31
11 10 0.38
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTTTCTC
Found at i:441890 original size:11 final size:11
Alignment explanation
Indices: 441874--441901 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
441864 CCCTCATTTA
441874 TTTTTTTCTCT
1 TTTTTTTCTCT
441885 TTTTTTTCTCT
1 TTTTTTTCTCT
441896 TTTTTT
1 TTTTTT
441902 CATTTTTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (11 bp):
TTTTTTTCTCT
Found at i:441917 original size:10 final size:9
Alignment explanation
Indices: 441874--441970 Score: 54
Period size: 10 Copynumber: 9.9 Consensus size: 9
441864 CCCTCATTTA
441874 TTTTTTTCTC
1 TTTTTTT-TC
441884 TTTTTTTTC
1 TTTTTTTTC
441893 TCTTTTTTTC
1 T-TTTTTTTC
*
441903 ATTTTTTTC
1 TTTTTTTTC
*
441912 --GTTTTTC
1 TTTTTTTTC
441919 ATTTTTTTTCC
1 -TTTTTTTT-C
441930 TTTTCCTTTTC
1 TTTT--TTTTC
441941 ATTTTCCTTTTC
1 -TTTT--TTTTC
* *
441953 ATTTTCTTC
1 TTTTTTTTC
441962 TTGTTTTTT
1 TT-TTTTTT
441971 TCTCTTCAAG
Statistics
Matches: 71, Mismatches: 7, Indels: 18
0.74 0.07 0.19
Matches are distributed among these distances:
7 6 0.08
9 16 0.23
10 29 0.41
11 5 0.07
12 15 0.21
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.76
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:441927 original size:17 final size:16
Alignment explanation
Indices: 441897--441957 Score: 61
Period size: 17 Copynumber: 3.7 Consensus size: 16
441887 TTTTTCTCTT
*
441897 TTTTTCATTTTTTTCG
1 TTTTTCATTTTTTTCC
441913 TTTTTCATTTTTTTTCC
1 TTTTTCA-TTTTTTTCC
* *
441930 TTTTCCTTTTCATTTTCC
1 TTTTTCATTT--TTTTCC
441948 -TTTTCATTTT
1 TTTTTCATTTT
441958 CTTCTTGTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
15 1 0.03
16 10 0.27
17 20 0.54
18 6 0.16
ACGTcount: A:0.07, C:0.18, G:0.02, T:0.74
Consensus pattern (16 bp):
TTTTTCATTTTTTTCC
Found at i:441945 original size:12 final size:12
Alignment explanation
Indices: 441914--441958 Score: 67
Period size: 12 Copynumber: 3.9 Consensus size: 12
441904 TTTTTTTCGT
441914 TTTTCATTTT--
1 TTTTCATTTTCC
*
441924 TTTTCCTTTTCC
1 TTTTCATTTTCC
441936 TTTTCATTTTCC
1 TTTTCATTTTCC
441948 TTTTCATTTTC
1 TTTTCATTTTC
441959 TTCTTGTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
10 9 0.29
12 22 0.71
ACGTcount: A:0.07, C:0.22, G:0.00, T:0.71
Consensus pattern (12 bp):
TTTTCATTTTCC
Found at i:441945 original size:18 final size:18
Alignment explanation
Indices: 441914--441958 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
441904 TTTTTTTCGT
441914 TTTTCATTTT--TTTTCC
1 TTTTCATTTTCATTTTCC
*
441930 TTTTCCTTTTCATTTTCC
1 TTTTCATTTTCATTTTCC
441948 TTTTCATTTTC
1 TTTTCATTTTC
441959 TTCTTGTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 9 0.36
18 16 0.64
ACGTcount: A:0.07, C:0.22, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTCATTTTCATTTTCC
Found at i:441969 original size:18 final size:17
Alignment explanation
Indices: 441888--441960 Score: 64
Period size: 16 Copynumber: 4.4 Consensus size: 17
441878 TTTCTCTTTT
*
441888 TTTTCTCTT-TTTTTCA
1 TTTTCTTTTCTTTTTCA
441904 -TTT-TTTTCGTTTTTCA
1 TTTTCTTTTC-TTTTTCA
* *
441920 TTTT-TTTTCCTTTTCC
1 TTTTCTTTTCTTTTTCA
*
441936 TTTTCATTTTCCTTTTCA
1 TTTTC-TTTTCTTTTTCA
441954 TTTTCTT
1 TTTTCTT
441961 CTTGTTTTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
14 3 0.06
15 3 0.06
16 16 0.33
17 10 0.21
18 16 0.33
ACGTcount: A:0.05, C:0.19, G:0.01, T:0.74
Consensus pattern (17 bp):
TTTTCTTTTCTTTTTCA
Found at i:443931 original size:23 final size:23
Alignment explanation
Indices: 443905--443954 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
443895 AAATGCTCTG
443905 AAGTGCCACGTAAAAATGCACCA
1 AAGTGCCACGTAAAAATGCACCA
** * *
443928 AAGTGCTGCGTAGAAATGCACCG
1 AAGTGCCACGTAAAAATGCACCA
443951 AAGT
1 AAGT
443955 TCCATATAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (23 bp):
AAGTGCCACGTAAAAATGCACCA
Found at i:450914 original size:23 final size:23
Alignment explanation
Indices: 450855--450907 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
450845 AGCTCGTATA
450855 AAATGCACCGAAGTGCCACGTAG
1 AAATGCACCGAAGTGCCACGTAG
* *
450878 AAATGCACCGAAGTGTCGCGTAG
1 AAATGCACCGAAGTGCCACGTAG
450901 AAATGCA
1 AAATGCA
450908 ACAAAGTACC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.36, C:0.23, G:0.26, T:0.15
Consensus pattern (23 bp):
AAATGCACCGAAGTGCCACGTAG
Found at i:451634 original size:13 final size:13
Alignment explanation
Indices: 451542--451630 Score: 124
Period size: 13 Copynumber: 6.8 Consensus size: 13
451532 TGCGTCATAA
451542 ATTTATGACGCGC
1 ATTTATGACGCGC
**
451555 ATTTATGACATGC
1 ATTTATGACGCGC
* *
451568 ATTTATGACACAC
1 ATTTATGACGCGC
*
451581 ATTTATGACACGC
1 ATTTATGACGCGC
451594 ATTTATGACGCGC
1 ATTTATGACGCGC
*
451607 ATTTATGACGCTC
1 ATTTATGACGCGC
451620 ATTTATGACGC
1 ATTTATGACGC
451631 TCATGTCATA
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 69 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (13 bp):
ATTTATGACGCGC
Found at i:454854 original size:21 final size:22
Alignment explanation
Indices: 454828--454873 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
454818 TAATGCAAAT
454828 AGGGAATCG-GTACCCTGCTAC
1 AGGGAATCGAGTACCCTGCTAC
* *
454849 AGGGAATCGATTCCCCTGCTAC
1 AGGGAATCGAGTACCCTGCTAC
454871 AGG
1 AGG
454874 ACTGCTACAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.24, C:0.28, G:0.28, T:0.20
Consensus pattern (22 bp):
AGGGAATCGAGTACCCTGCTAC
Found at i:455433 original size:24 final size:23
Alignment explanation
Indices: 455409--455494 Score: 70
Period size: 23 Copynumber: 3.7 Consensus size: 23
455399 TCATATAAAT
455409 TTGCACCGAAGTGCCACGTAGAA
1 TTGCACCGAAGTGCCACGTAGAA
* *
455432 TTTGTC-CTGAAG-GACCGCGTAGAGA
1 -TTG-CACCGAAGTG-CCACGTAGA-A
*
455457 -TGCACCGAAGTGCCATGTAGAA
1 TTGCACCGAAGTGCCACGTAGAA
* *
455479 TTACACCGTAGTGCCA
1 TTGCACCGAAGTGCCA
455495 TATAATATGT
Statistics
Matches: 49, Mismatches: 7, Indels: 13
0.71 0.10 0.19
Matches are distributed among these distances:
22 2 0.04
23 28 0.57
24 17 0.35
25 2 0.04
ACGTcount: A:0.28, C:0.24, G:0.27, T:0.21
Consensus pattern (23 bp):
TTGCACCGAAGTGCCACGTAGAA
Found at i:458327 original size:16 final size:15
Alignment explanation
Indices: 458301--458330 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
458291 CGTTTTGGAC
458301 AAAAGGAAAAAGGGA
1 AAAAGGAAAAAGGGA
458316 AAAAGAGAAAAAGGG
1 AAAAG-GAAAAAGGG
458331 GAAGCATGCG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (15 bp):
AAAAGGAAAAAGGGA
Found at i:461337 original size:18 final size:18
Alignment explanation
Indices: 461314--461363 Score: 91
Period size: 18 Copynumber: 2.8 Consensus size: 18
461304 TGGTTGTGCT
461314 GGATCTGGTACTGGACTA
1 GGATCTGGTACTGGACTA
461332 GGATCTGGTACTGGACTA
1 GGATCTGGTACTGGACTA
*
461350 GGATCTGCTACTGG
1 GGATCTGGTACTGG
461364 GATCGGTGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.20, C:0.18, G:0.34, T:0.28
Consensus pattern (18 bp):
GGATCTGGTACTGGACTA
Found at i:475561 original size:22 final size:22
Alignment explanation
Indices: 475536--475577 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
475526 ATGTGAAATT
*
475536 TGTCTTGAAGGACCTATGAATA
1 TGTCTCGAAGGACCTATGAATA
475558 TGTCTCGAAGGACCTATGAA
1 TGTCTCGAAGGACCTATGAA
475578 ACCCTCAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.29
Consensus pattern (22 bp):
TGTCTCGAAGGACCTATGAATA
Found at i:487650 original size:2 final size:2
Alignment explanation
Indices: 487645--487710 Score: 66
Period size: 2 Copynumber: 34.0 Consensus size: 2
487635 AAAAGACTAA
* *
487645 AT AT AT -T AT AT AG A- AT AT GAT AT AT AT AT AT AT AG 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
* *
487686 AT AT AT AT A- AT AT AA AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
487711 TTTTGTATAT
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
1 3 0.06
2 48 0.91
3 2 0.04
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.42
Consensus pattern (2 bp):
AT
Found at i:492731 original size:187 final size:187
Alignment explanation
Indices: 492476--492835 Score: 688
Period size: 187 Copynumber: 1.9 Consensus size: 187
492466 GAATAAAGAT
492476 ATATGTTTAAAGACTCTCAATCATTTGATTTAAATGCTCATACACTCCAACAAATTTAGTGTTTG
1 ATATGTTTAAAGACTCTCAATCATTTGATTTAAATGCTCATACACTCCAACAAATTTAGTGTTTG
492541 AATTCTAAACCTCAAAAAAAAAAAATTAACACGGATTATATACTTAAAATCTATAGCTTGTCATT
66 AATTCTAAACCTC--AAAAAAAAAATTAACACGGATTATATACTTAAAATCTATAGCTTGTCATT
492606 TAAAATGGTGTCTAAGATCATAAGCAAGCCA-CAATAA-GCTTTCGAATATAAGATATA
129 TAAAATGGTGTCTAAGATCATAAGCAAGCCACCAATAATGCTTTCGAATATAAGATATA
492663 ATATGTTTAAAGACTCTCAATCATTTGATTTAAATGCTCATACACTCCAACAAATTTAGTGTTTG
1 ATATGTTTAAAGACTCTCAATCATTTGATTTAAATGCTCATACACTCCAACAAATTTAGTGTTTG
492728 AATTCTAAACCTCAAAAAAAAAATTAACACGGATTATATACTTAAAATCTATAGCTTGTCATTTA
66 AATTCTAAACCTCAAAAAAAAAATTAACACGGATTATATACTTAAAATCTATAGCTTGTCATTTA
492793 AAATGGTGTCTAAGATCATAAGCAAGCCACCAATAATGCTTTC
131 AAATGGTGTCTAAGATCATAAGCAAGCCACCAATAATGCTTTC
492836 TTTCTATTCA
Statistics
Matches: 171, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
185 81 0.47
186 6 0.04
187 84 0.49
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.33
Consensus pattern (187 bp):
ATATGTTTAAAGACTCTCAATCATTTGATTTAAATGCTCATACACTCCAACAAATTTAGTGTTTG
AATTCTAAACCTCAAAAAAAAAATTAACACGGATTATATACTTAAAATCTATAGCTTGTCATTTA
AAATGGTGTCTAAGATCATAAGCAAGCCACCAATAATGCTTTCGAATATAAGATATA
Found at i:496780 original size:30 final size:29
Alignment explanation
Indices: 496715--496790 Score: 116
Period size: 29 Copynumber: 2.6 Consensus size: 29
496705 AAATTATCTC
* *
496715 TTTATTTTTGTTTTAACTTATTAAATATT
1 TTTATTTTTGTTTTAATTTATTAAATATG
*
496744 TTTATTTTTGTCTTAATTTATTAAATATAG
1 TTTATTTTTGTTTTAATTTATTAAATAT-G
496774 TTTATTTTTGTTTTAAT
1 TTTATTTTTGTTTTAAT
496791 ATTAAAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 26 0.62
30 16 0.38
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.66
Consensus pattern (29 bp):
TTTATTTTTGTTTTAATTTATTAAATATG
Found at i:498269 original size:22 final size:22
Alignment explanation
Indices: 498239--498299 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
498229 GGTTTTACGT
* *
498239 GGTCATTCGGGACAAATATAGA
1 GGTCCTTCGGGACAAATACAGA
*
498261 GGTCCTTCGGGACAAATACATA
1 GGTCCTTCGGGACAAATACAGA
498283 GGTCCTTCAGGG-CAAAT
1 GGTCCTTC-GGGACAAAT
498300 TTCACATGCC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
22 32 0.91
23 3 0.09
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (22 bp):
GGTCCTTCGGGACAAATACAGA
Found at i:498869 original size:21 final size:21
Alignment explanation
Indices: 498843--498884 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
498833 CTGAAGTTAT
*
498843 TGTAGCAGTGCATCGGTACAC
1 TGTAGCAGTGCATCGATACAC
*
498864 TGTAGCTGTGCATCGATACAC
1 TGTAGCAGTGCATCGATACAC
498885 AATTTATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (21 bp):
TGTAGCAGTGCATCGATACAC
Found at i:498961 original size:21 final size:21
Alignment explanation
Indices: 498904--498961 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 21
498894 TCGATGTTTT
* *
498904 GTGCATCGGTACATTATAGTA
1 GTGCATCGGTACACTGTAGTA
*
498925 GTGCATCAGTACACTGTAGTA
1 GTGCATCGGTACACTGTAGTA
498946 GTGCATCGGTACACTG
1 GTGCATCGGTACACTG
498962 CAGCACTGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (21 bp):
GTGCATCGGTACACTGTAGTA
Found at i:501106 original size:28 final size:29
Alignment explanation
Indices: 501050--501142 Score: 118
Period size: 28 Copynumber: 3.2 Consensus size: 29
501040 AATATACATA
*
501050 ATATTTTATTCTTATCTTT-ACTTAAAAAT
1 ATATTTTATTCTTAT-TTTAAATTAAAAAT
501079 ATATTTTATTCTTATTTTAAATT-AAAAT
1 ATATTTTATTCTTATTTTAAATTAAAAAT
* *
501107 ATATTTTATTATTATCTTAAATTTTAAAAAT
1 ATATTTTATTCTTATTTTAAA--TTAAAAAT
501138 ATATT
1 ATATT
501143 AAAATATTAT
Statistics
Matches: 57, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
28 27 0.47
29 18 0.32
30 2 0.04
31 10 0.18
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (29 bp):
ATATTTTATTCTTATTTTAAATTAAAAAT
Found at i:501340 original size:30 final size:29
Alignment explanation
Indices: 501299--501371 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
501289 TATTTATATC
* *
501299 AAAATAAAAATAAACTATATTTAATAAATT
1 AAAACAAAAATAAA-AATATTTAATAAATT
* *
501329 AAGACAAAAATAAAAATATTTAATAAGTT
1 AAAACAAAAATAAAAATATTTAATAAATT
501358 AAAACAAAAATAAA
1 AAAACAAAAATAAA
501372 GAGATAATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
29 26 0.68
30 12 0.32
ACGTcount: A:0.67, C:0.04, G:0.03, T:0.26
Consensus pattern (29 bp):
AAAACAAAAATAAAAATATTTAATAAATT
Found at i:501556 original size:28 final size:30
Alignment explanation
Indices: 501523--501593 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 30
501513 TTTCACTTAC
*
501523 TTAAAAATATATTTTATT-TTATTTTAAA-
1 TTAAAAATATATTTTATTATTATCTTAAAT
501551 TT-AAAATATATTTTATTATTATCTTAAATT
1 TTAAAAATATATTTTATTATTATCTTAAA-T
501581 TTAAAAATATATT
1 TTAAAAATATATT
501594 AAAATATTAT
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
27 15 0.39
28 11 0.29
30 2 0.05
31 10 0.26
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (30 bp):
TTAAAAATATATTTTATTATTATCTTAAAT
Found at i:501636 original size:30 final size:30
Alignment explanation
Indices: 501601--501665 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
501591 ATTAAAATAT
*
501601 TATATATTTTTTAATTTAAAATAAGAGTAAAA
1 TATATATTTTAT-A-TTAAAATAAGAGTAAAA
* * *
501633 TATATATTTTATATTAAATTAATAGTACAA
1 TATATATTTTATATTAAAATAAGAGTAAAA
501663 TAT
1 TAT
501666 TTAAATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 17 0.59
31 1 0.03
32 11 0.38
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.46
Consensus pattern (30 bp):
TATATATTTTATATTAAAATAAGAGTAAAA
Found at i:501728 original size:2 final size:2
Alignment explanation
Indices: 501721--501755 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
501711 GATGATAAAG
501721 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
501756 CAAAATAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:501835 original size:27 final size:27
Alignment explanation
Indices: 501778--501835 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
501768 AAACTATATT
* * **
501778 TAATAAATTAAGACAAAAAAAAATATT
1 TAATAAATTAAAACAAAAAAAAAGAGA
* *
501805 TAATAAGTTAAAACAAAAATAAAGAGA
1 TAATAAATTAAAACAAAAAAAAAGAGA
501832 TAAT
1 TAAT
501836 TTTAATTTTA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.66, C:0.03, G:0.07, T:0.24
Consensus pattern (27 bp):
TAATAAATTAAAACAAAAAAAAAGAGA
Found at i:501940 original size:455 final size:452
Alignment explanation
Indices: 501067--501974 Score: 1641
Period size: 455 Copynumber: 2.0 Consensus size: 452
501057 ATTCTTATCT
501067 TTACTTAAAAATATATTTTATTCTTATTTTAAATTAAAATATATTTTATTATTATCTTAAATTTT
1 TTACTTAAAAATATATTTTATTCTTATTTTAAATTAAAATATATTTTATTATTATCTTAAATTTT
501132 AAAAATATATTAAAATATTATATATGTTTTAATTTAAAAAAAGAGTAAAATATATATTTTTATAT
66 AAAAATATATTAAAATATTATATATGTTTTAATTTAAAAAAAGAGTAAAATATATATTTTTATAT
501197 TAAATTAATAGTACAATATTTAAATATATTTCAAGTAAAGATATTTAACAAAATATATTTTTACG
131 TAAATTAATAGTACAATATTTAAATATATTTCAAGTAAAGATATTTAACAAAATATATTTTTACG
501262 TGATGATAAAGATAATATATATATATATATTTATATCAAAATAAAAATAAACTATATTTAATAAA
196 TGATGATAAAGATAATATATATATATATATTTATATCAAAATAAAAATAAACTATATTTAATAAA
501327 TTAAGACAAAAATAAAAATATTTAATAAGTTAAAACAAAAATAAAGAGATAATTTTAAATTTTAA
261 TTAAGACAAAAATAAAAATATTTAATAAGTTAAAACAAAAATAAAGAGATAATTTTAAATTTTAA
* *
501392 GATATATAACATATTATTAATTTTGAGTAAAGCATTTACATACTAATATACAATATATATACCAT
326 GATATATAACATATTATTAATTTTGAGTAAAGAATTTACATACTAATATACAAGATATATACCAT
501457 TTGTTGTCCAAAATATGTCAAATGGTTATCTTGGCTCAATGGTTTGACTTGCATTATTTCAC
391 TTGTTGTCCAAAATATGTCAAATGGTTATCTTGGCTCAATGGTTTGACTTGCATTATTTCAC
501519 TTACTTAAAAATATATTTTATT-TTATTTTAAATTAAAATATATTTTATTATTATCTTAAATTTT
1 TTACTTAAAAATATATTTTATTCTTATTTTAAATTAAAATATATTTTATTATTATCTTAAATTTT
* *
501583 AAAAATATATTAAAATATTATATATTTTTTAATTTAAAATAAGAGTAAAATATATA-TTTTATAT
66 AAAAATATATTAAAATATTATATATGTTTTAATTTAAAAAAAGAGTAAAATATATATTTTTATAT
501647 TAAATTAATAGTACAATATTTAAATATA-TTCAAGTAAAGATATTTAAC-AAATATATTTTTACG
131 TAAATTAATAGTACAATATTTAAATATATTTCAAGTAAAGATATTTAACAAAATATATTTTTACG
501710 TGATGATAAAGATATATATATATATATATATATATATATATTATATCAAAATAAAAATAAACTAT
196 TGATGATAAAG--------ATA-ATATATATATATATAT-TTATATCAAAATAAAAATAAACTAT
501775 ATTTAATAAATTAAGAC-AAAA-AAAAATATTTAATAAGTTAAAACAAAAATAAAGAGATAATTT
251 ATTTAATAAATTAAGACAAAAATAAAAATATTTAATAAGTTAAAACAAAAATAAAGAGATAATTT
501838 T-AATTTTAAGATATATAACATATTATTAATTTTGAGTAAAGAATTTACATACTAATATACAAGA
316 TAAATTTTAAGATATATAACATATTATTAATTTTGAGTAAAGAATTTACATACTAATATACAAGA
501902 TATATACCATTTGTTGTCCAAAATATGTCAAATGGTTATCTTGGCTCAATGGTTTGACTTGCATT
381 TATATACCATTTGTTGTCCAAAATATGTCAAATGGTTATCTTGGCTCAATGGTTTGACTTGCATT
501967 ATTTCAC
446 ATTTCAC
501974 T
1 T
501975 CAAGGGTCCC
Statistics
Matches: 442, Mismatches: 4, Indels: 17
0.95 0.01 0.04
Matches are distributed among these distances:
448 26 0.06
449 20 0.05
450 36 0.08
451 96 0.22
452 22 0.05
455 134 0.30
456 46 0.10
457 20 0.05
458 42 0.10
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.41
Consensus pattern (452 bp):
TTACTTAAAAATATATTTTATTCTTATTTTAAATTAAAATATATTTTATTATTATCTTAAATTTT
AAAAATATATTAAAATATTATATATGTTTTAATTTAAAAAAAGAGTAAAATATATATTTTTATAT
TAAATTAATAGTACAATATTTAAATATATTTCAAGTAAAGATATTTAACAAAATATATTTTTACG
TGATGATAAAGATAATATATATATATATATTTATATCAAAATAAAAATAAACTATATTTAATAAA
TTAAGACAAAAATAAAAATATTTAATAAGTTAAAACAAAAATAAAGAGATAATTTTAAATTTTAA
GATATATAACATATTATTAATTTTGAGTAAAGAATTTACATACTAATATACAAGATATATACCAT
TTGTTGTCCAAAATATGTCAAATGGTTATCTTGGCTCAATGGTTTGACTTGCATTATTTCAC
Found at i:503649 original size:64 final size:64
Alignment explanation
Indices: 503567--503686 Score: 161
Period size: 64 Copynumber: 1.9 Consensus size: 64
503557 CTATCTAATA
** * * *
503567 CATCGATGCACCCTTAAATAAATTGAATTTCGAATGTATTTTGTGTACCGATGCACAAGGCATG
1 CATCGATGCACCCTTAAATAAATTGAACATCGAATGCATTTTATGCACCGATGCACAAGGCATG
* *
503631 CATCGATGCACTCC-TAAATAATTTGAACATCGAATGCATTTTATGCATCGATGCAC
1 CATCGATGCAC-CCTTAAATAAATTGAACATCGAATGCATTTTATGCACCGATGCAC
503687 TCAAGGCTTG
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
64 46 0.96
65 2 0.04
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.31
Consensus pattern (64 bp):
CATCGATGCACCCTTAAATAAATTGAACATCGAATGCATTTTATGCACCGATGCACAAGGCATG
Found at i:503683 original size:45 final size:47
Alignment explanation
Indices: 503628--503737 Score: 138
Period size: 46 Copynumber: 2.4 Consensus size: 47
503618 TGCACAAGGC
503628 ATGCATCGATGCACTCCTAA-ATAATTTG-AACATCGAATGCATTTT
1 ATGCATCGATGCACTCCTAAGATAATTTGAAACATCGAATGCATTTT
* ** *
503673 ATGCATCGATGCACT-C-AAGGCTTGTTTGAAACATCGAATGTATTTT
1 ATGCATCGATGCACTCCTAA-GATAATTTGAAACATCGAATGCATTTT
*
503719 ATGCATCGATGCACCCCTA
1 ATGCATCGATGCACTCCTA
503738 GTGTACCGAT
Statistics
Matches: 55, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
43 2 0.04
44 1 0.02
45 20 0.36
46 30 0.55
47 1 0.02
48 1 0.02
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (47 bp):
ATGCATCGATGCACTCCTAAGATAATTTGAAACATCGAATGCATTTT
Found at i:511133 original size:85 final size:85
Alignment explanation
Indices: 510985--511150 Score: 192
Period size: 85 Copynumber: 2.0 Consensus size: 85
510975 ATACAATCAC
* * * * *
510985 GACACACGAATGAGTGTCATCTTTTTTAATGACGTGTGCTTCAATGACACGTAATGTAAGTCATA
1 GACACACAAATGAGTGTCATCTTATTTAATGACGGGGGCTTCAATGACACGTAATGCAAGTCATA
* * *
511050 CATGCGTGTCATAAATTTAT
66 AATACGCGTCATAAATTTAT
* * **
511070 GACACACAAATGTGTGTCATCTTCATTT-ATGACGGGGGCTTCAATGACGC-TCAATGCGCGTCA
1 GACACACAAATGAGTGTCATCTT-ATTTAATGACGGGGGCTTCAATGACACGT-AATGCAAGTCA
511133 TAAATACGCGTCATAAAT
64 TAAATACGCGTCATAAAT
511151 ATGTGTCATA
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
84 1 0.01
85 63 0.94
86 3 0.04
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (85 bp):
GACACACAAATGAGTGTCATCTTATTTAATGACGGGGGCTTCAATGACACGTAATGCAAGTCATA
AATACGCGTCATAAATTTAT
Found at i:511144 original size:13 final size:13
Alignment explanation
Indices: 511126--511163 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
511116 ACGCTCAATG
511126 CGCGTCATAAATA
1 CGCGTCATAAATA
511139 CGCGTCATAAATA
1 CGCGTCATAAATA
* *
511152 TGTGTCATAAAT
1 CGCGTCATAAAT
511164 GTGTGACATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (13 bp):
CGCGTCATAAATA
Found at i:511168 original size:13 final size:13
Alignment explanation
Indices: 511129--511173 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
511119 CTCAATGCGC
* *
511129 GTCATAAATACGC
1 GTCATAAATATGT
511142 GTCATAAATATGT
1 GTCATAAATATGT
*
511155 GTCATAAATGTGT
1 GTCATAAATATGT
*
511168 GACATA
1 GTCATA
511174 GATTTATGAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (13 bp):
GTCATAAATATGT
Found at i:513924 original size:21 final size:21
Alignment explanation
Indices: 513865--513924 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
513855 TAGATGCATC
* *
513865 CCTTGAATGTTCATCGATTCA
1 CCTTGAAGGTGCATCGATTCA
* *
513886 CGTTGAAGGTGTATCGATTCA
1 CCTTGAAGGTGCATCGATTCA
*
513907 CCTTGAAGGTGCACCGAT
1 CCTTGAAGGTGCATCGAT
513925 GCACGCCTTA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (21 bp):
CCTTGAAGGTGCATCGATTCA
Found at i:513962 original size:20 final size:20
Alignment explanation
Indices: 513937--513984 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
513927 ACGCCTTAAT
513937 TGTGCATCAATGCACTCTAC
1 TGTGCATCAATGCACTCTAC
*
513957 TGTGCATCAATGCACTCTGC
1 TGTGCATCAATGCACTCTAC
513977 TGTGCATC
1 TGTGCATC
513985 GATACACCAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.21, C:0.29, G:0.19, T:0.31
Consensus pattern (20 bp):
TGTGCATCAATGCACTCTAC
Found at i:514435 original size:17 final size:18
Alignment explanation
Indices: 514403--514436 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
514393 TTGAAATTTA
*
514403 TTGATTTAATTAATGTTT
1 TTGATTAAATTAATGTTT
514421 TTGATTAAATT-ATGTT
1 TTGATTAAATTAATGTT
514437 GTTTTCATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.12, T:0.59
Consensus pattern (18 bp):
TTGATTAAATTAATGTTT
Found at i:516692 original size:159 final size:159
Alignment explanation
Indices: 516398--516697 Score: 537
Period size: 159 Copynumber: 1.9 Consensus size: 159
516388 ATTGTGTTTT
* *
516398 AATCTTAAAATATTTTTGAAATGATTTTCACAAAGTATTTCGAATAAAAAATGAGCCCAATATCA
1 AATCTTAAAATATTTTTGAAATGATTTTCACAAAGTATTTCAAATAAAAAACGAGCCCAATATCA
* * *
516463 ATTCTCAAAGTAGTGTACCGATGCACTATCTAATGCATCGATGCACCCTTGAATAAATTGAATTT
66 ATTCTCAAAGTAATGTACCAATGCACTATCTAATGCATCGATGCACCCTTGAATAAATTAAATTT
*
516528 TGAATGTATTTAGGAGTGCATCAATGCAC
131 CGAATGTATTTAGGAGTGCATCAATGCAC
516557 AATCTTAAAATATTTTTGAAATGATTTTCACAAAGTATTTCAAATAAAAAACGAGCCCAATATCA
1 AATCTTAAAATATTTTTGAAATGATTTTCACAAAGTATTTCAAATAAAAAACGAGCCCAATATCA
*
516622 ATTTTCAAAGTAATGTACCAATGCACTATCTAATGCATCGATGCACCCTTGAATAAATTAAATTT
66 ATTCTCAAAGTAATGTACCAATGCACTATCTAATGCATCGATGCACCCTTGAATAAATTAAATTT
516687 CGAATGTATTT
131 CGAATGTATTT
516698 TGTGTACTGA
Statistics
Matches: 134, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
159 134 1.00
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.33
Consensus pattern (159 bp):
AATCTTAAAATATTTTTGAAATGATTTTCACAAAGTATTTCAAATAAAAAACGAGCCCAATATCA
ATTCTCAAAGTAATGTACCAATGCACTATCTAATGCATCGATGCACCCTTGAATAAATTAAATTT
CGAATGTATTTAGGAGTGCATCAATGCAC
Found at i:516773 original size:45 final size:45
Alignment explanation
Indices: 516718--516822 Score: 124
Period size: 46 Copynumber: 2.3 Consensus size: 45
516708 TGCACAAGGC
516718 ATGCATCGATGCACTCCTAA-ATAATTTG-AACATCGAATGCATTTT
1 ATGCATCGATGCACT-C-AAGATAATTTGAAACATCGAATGCATTTT
* ** *
516763 ATGCATCGATGCACTCAAGGCTTGTTTGAAACATCGAATGTATTTT
1 ATGCATCGATGCACTCAA-GATAATTTGAAACATCGAATGCATTTT
*
516809 ATACATCGATGCAC
1 ATGCATCGATGCAC
516823 CCGTAGTGTA
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
43 2 0.04
44 1 0.02
45 20 0.38
46 29 0.56
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.32
Consensus pattern (45 bp):
ATGCATCGATGCACTCAAGATAATTTGAAACATCGAATGCATTTT
Found at i:516774 original size:64 final size:64
Alignment explanation
Indices: 516654--516776 Score: 142
Period size: 64 Copynumber: 1.9 Consensus size: 64
516644 GCACTATCTA
* ** * * *
516654 ATGCATCGATGCACCCTTGAATAAATTAAATTTCGAATGTATTTTGTGTACTGATGCACAAGGC
1 ATGCATCGATGCACCCTTAAATAAATTAAACATCGAATGCATTTTATGCACTGATGCACAAGGC
* *
516718 ATGCATCGATGCACTCC-TAAATAATTTGAACATCGAATGCATTTTATGCA-TCGATGCAC
1 ATGCATCGATGCAC-CCTTAAATAAATTAAACATCGAATGCATTTTATGCACT-GATGCAC
516777 TCAAGGCTTG
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
63 1 0.02
64 46 0.94
65 2 0.04
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.32
Consensus pattern (64 bp):
ATGCATCGATGCACCCTTAAATAAATTAAACATCGAATGCATTTTATGCACTGATGCACAAGGC
Found at i:517699 original size:39 final size:39
Alignment explanation
Indices: 517606--517710 Score: 124
Period size: 39 Copynumber: 2.7 Consensus size: 39
517596 CTTAACATGT
* * *
517606 GCACAAAG-CATAGGAGCCTGCAGTAAAGACTTACCTTGA
1 GCACAAAGCCA-AGGAGCATGCGGTAAAGACTTACCCTGA
* *
517645 GCACAAAGTCAAGGAGCATGCGGTAAGGACTTACCCTGA
1 GCACAAAGCCAAGGAGCATGCGGTAAAGACTTACCCTGA
* *
517684 GCACAAAGCCGAGGAGCTTGCGG-AAAG
1 GCACAAAGCCAAGGAGCATGCGGTAAAG
517711 CAGTAAGGTC
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
38 3 0.05
39 52 0.91
40 2 0.04
ACGTcount: A:0.34, C:0.23, G:0.29, T:0.14
Consensus pattern (39 bp):
GCACAAAGCCAAGGAGCATGCGGTAAAGACTTACCCTGA
Found at i:523541 original size:39 final size:39
Alignment explanation
Indices: 523406--523547 Score: 146
Period size: 39 Copynumber: 3.6 Consensus size: 39
523396 CATGTACACC
* * * * * *
523406 CAGTAAGGGCTTACCCTGTGCAAAAAGCAAATGAGCTTT
1 CAGTAAGGACTTACCCTGAGCACAAAGCAAAGGAGCCTG
* *
523445 CTA-TAAGGTA-TTATCCTGTGCACAAAGCAAAGGAGCCTG
1 C-AGTAAGG-ACTTACCCTGAGCACAAAGCAAAGGAGCCTG
523484 CAGTAAGGACTTACCCTGAGCACAAAGTCAAA-GAGCCTG
1 CAGTAAGGACTTACCCTGAGCACAAAG-CAAAGGAGCCTG
* *
523523 CGGTAAGGACTTACCCTGAGTACAA
1 CAGTAAGGACTTACCCTGAGCACAA
523548 TGTCGAGGAG
Statistics
Matches: 88, Mismatches: 10, Indels: 10
0.81 0.09 0.09
Matches are distributed among these distances:
38 2 0.02
39 81 0.92
40 5 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (39 bp):
CAGTAAGGACTTACCCTGAGCACAAAGCAAAGGAGCCTG
Found at i:523559 original size:39 final size:39
Alignment explanation
Indices: 523459--523560 Score: 134
Period size: 39 Copynumber: 2.6 Consensus size: 39
523449 AAGGTATTAT
*
523459 CCTGTGCACAAAG-CAAAGGAGCCTGCAGTAAGGACTTAC
1 CCTGAGCACAAAGTC-AAGGAGCCTGCAGTAAGGACTTAC
* *
523498 CCTGAGCACAAAGTCAAAGAGCCTGCGGTAAGGACTTAC
1 CCTGAGCACAAAGTCAAGGAGCCTGCAGTAAGGACTTAC
* * *
523537 CCTGAGTACAATGTCGAGGAGCCT
1 CCTGAGCACAAAGTCAAGGAGCCT
523561 ACGGAAAGAG
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
39 54 0.98
40 1 0.02
ACGTcount: A:0.31, C:0.25, G:0.26, T:0.17
Consensus pattern (39 bp):
CCTGAGCACAAAGTCAAGGAGCCTGCAGTAAGGACTTAC
Found at i:529113 original size:14 final size:15
Alignment explanation
Indices: 529094--529123 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
529084 CTATATAGGT
529094 AAATTTGA-TAAAAA
1 AAATTTGATTAAAAA
529108 AAATTTGATTAAAAA
1 AAATTTGATTAAAAA
529123 A
1 A
529124 TGATGTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (15 bp):
AAATTTGATTAAAAA
Found at i:530084 original size:181 final size:182
Alignment explanation
Indices: 529719--530192 Score: 659
Period size: 182 Copynumber: 2.6 Consensus size: 182
529709 GTTCCAAATT
* * * * **
529719 AAAAATGTATCGATCCAAAATGATATAACAGGTAAAACTATGACAAAATCGGTATTGAAATGATA
1 AAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGATAAAA-CGGTATCAAAATGATA
** * * *
529784 AAACCGGTAAAGGGGTACCGGATATATTTAAAGT-TTCGGTACTTTAATATAAGGATCGACATTT
65 AAACCGGTAAAACGCTACCGGATATATTGAAAGTGTT-GATACTTTAATATAAGGATCGACATTT
* * *
529848 CGTTAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGTTACTTT-AA
129 CGTGAATTTAAAAGAGAAGCAGTTTTAGAGCCTATAAAGTGTCGATACTTTAAA
* *
529901 AAAAATGTATCGATTCACAACGATATAACAGGTAAAAATATGATAAAACAGGTATCAAAATGATG
1 AAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGATAAAAC-GGTATCAAAATGATA
* *
529966 AAACCTGTAAAACGCTACCGGATATATTGAAAGTGTTGATACTTT-ATATAAGGATTGACACTTT
65 AAACCGGTAAAACGCTACCGGATATATTGAAAGTGTTGATACTTTAATATAAGGATCGACA-TTT
*
530030 -GTGAATTTAAAAGAGAAGCAGTTTTAGAGCTTATAAAGTGTCGATACTTTAAA
129 CGTGAATTTAAAAGAGAAGCAGTTTTAGAGCCTATAAAGTGTCGATACTTTAAA
* *
530083 AAAAATGTATCTATCCACAACGATATAACAGGTAAAATTATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGATAAAA-CGGTATCAAAATGATA
** *
530148 AAACCGGTAAAACGCTACCATATATATTGAAAGTGTCGATACTTT
65 AAACCGGTAAAACGCTACCGGATATATTGAAAGTGTTGATACTTT
530193 CGTAAGTACG
Statistics
Matches: 260, Mismatches: 27, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
181 61 0.23
182 196 0.75
183 3 0.01
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (182 bp):
AAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACGGTATCAAAATGATAA
AACCGGTAAAACGCTACCGGATATATTGAAAGTGTTGATACTTTAATATAAGGATCGACATTTCG
TGAATTTAAAAGAGAAGCAGTTTTAGAGCCTATAAAGTGTCGATACTTTAAA
Found at i:530136 original size:20 final size:18
Alignment explanation
Indices: 530122--530159 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 18
530112 AGGTAAAATT
530122 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGGTA--AAA
530142 ATGATAAAACCGGTAAAA
1 ATGATAAAACCGGTAAAA
530160 CGCTACCATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 3 0.17
20 15 0.83
ACGTcount: A:0.53, C:0.13, G:0.16, T:0.18
Consensus pattern (18 bp):
ATGATAAAACCGGTAAAA
Found at i:532367 original size:21 final size:21
Alignment explanation
Indices: 532342--532387 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
532332 ACAGAGTCGA
532342 AGAGAGTCGAAGATACACTTG
1 AGAGAGTCGAAGATACACTTG
532363 AGAGAGTCGAAGATACACTTG
1 AGAGAGTCGAAGATACACTTG
532384 AGAG
1 AGAG
532388 GCATAAGGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.39, C:0.13, G:0.30, T:0.17
Consensus pattern (21 bp):
AGAGAGTCGAAGATACACTTG
Found at i:534265 original size:19 final size:19
Alignment explanation
Indices: 534241--534289 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
534231 AATGTTAGGT
*
534241 TAATTTTGTGTAAGATTTA
1 TAATTTTGTATAAGATTTA
*
534260 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
534279 TAATTTTGTAT
1 TAATTTTGTAT
534290 GTGAATGTAA
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:0.31, C:0.02, G:0.12, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:535070 original size:200 final size:200
Alignment explanation
Indices: 534541--536082 Score: 2632
Period size: 200 Copynumber: 7.7 Consensus size: 200
534531 GTGCAACCAT
534541 AAAGTGTCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
1 AAAGTGTCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
* *
534606 CCGGTATAAGTATACC-AGTTTTATGAGAGATTAGGTGTAACATATGTATCGACACTTTTTAATT
66 CCGGTATAAGTATACCGA-TTTTATGAGAGATTAGGTATAATATATGTATCGACACTTTTTAATT
* *
534670 TTGTGTCGATACCATTGGTCCAGAATGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATACAT
130 TTGTGTCGATACTATTGGTCCAGAATGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCAT
534735 ATATAA
195 ATATAA
534741 AAAGTGTCGAT-CCAGAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
1 AAAGTGTCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
*
534805 CCGGTATAAGTATACCGGTTTTATGAGAGATTAGGTAT-ATAATATGTATCGACACTTTTTAATT
66 CCGGTATAAGTATACCGATTTTATGAGAGATTAGGTATAAT-ATATGTATCGACACTTTTTAATT
*
534869 TTGTGTCGATACTATTGGTCCAGAATGAATGACAAACAGGGTGCAACCATAAAGTGTCGATCCAT
130 TTGTGTCGATACTATTGGTCCAGAATGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCAT
534934 ATATAA
195 ATATAA
* *
534940 AAGGTGTCGATCACAGAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
1 AAAGTGTCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
* * *
535005 CCGGTATAAGTGTACCGATTTTATAACAGATTAGGTAT-ATAATATGTATCGACACTTTTTAATT
66 CCGGTATAAGTATACCGATTTTATGAGAGATTAGGTATAAT-ATATGTATCGACACTTTTTAATT
535069 TTGTGTCGATACTATTGGTCCAGAATGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCAT
130 TTGTGTCGATACTATTGGTCCAGAATGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCAT
535134 ATATAA
195 ATATAA
* *
535140 AAGGTGTCAATCCCAGAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
1 AAAGTGTCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
* *
535205 CCGGTATAAGTATACC-AGTTTTATGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATT
66 CCGGTATAAGTATACCGA-TTTTATGAGAGATTAGGTATAATATATGTATCGACACTTTTTAATT
* * *
535269 TTGTGTCGATACCATTGGTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAGTGTCGATACAT
130 TTGTGTCGATACTATTGGTCCAGAATGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCAT
535334 ATATAA
195 ATATAA
535340 AAAGTGTCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
1 AAAGTGTCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
* *
535405 CCGGTATAAGTATATCGGTTTTATGAGAGATTAGGTAT-ATAATATGTATCGACACTTTTTAATT
66 CCGGTATAAGTATACCGATTTTATGAGAGATTAGGTATAAT-ATATGTATCGACACTTTTTAATT
* *
535469 TTGTGTCGATACTATTGGTCCAGAATGAATGGCAAACATGGTGCAACCATAAAGTGTCGATACAT
130 TTGTGTCGATACTATTGGTCCAGAATGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCAT
535534 ATATAA
195 ATATAA
*
535540 AAAGTGTCGATCCCAGAAACATCGAAACTCATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
1 AAAGTGTCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
*
535605 CCGGTATAAGTATACCGGTTTTATGAGAGATTAGGTAT-ATAATATGTATCGACACTTTTTAATT
66 CCGGTATAAGTATACCGATTTTATGAGAGATTAGGTATAAT-ATATGTATCGACACTTTTTAATT
535669 TTGTGTCGATACTATTGGTCCAGAATGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCAT
130 TTGTGTCGATACTATTGGTCCAGAATGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCAT
535734 ATATAA
195 ATATAA
* *
535740 AAGGTGTCGATCCCAAAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
1 AAAGTGTCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
* * * *
535805 CCAGTATAAGTATACCGGTTTTATGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTT
66 CCGGTATAAGTATACCGATTTTATGAGAGATTAGGTATAATATATGTATCGACACTTTTTAATTT
*
535870 TGTGTCGATACTATTGGTCCAGAATGAATGGCAAACAGGGTTCAACCATAAAGTGTCGATCCATA
131 TGTGTCGATACTATTGGTCCAGAATGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATA
535935 TATAA
196 TATAA
**
535940 AAAGTGTCGATCTTAGAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
1 AAAGTGTCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
* * * *
536005 CCGGTATAAGTATACC-ATTTTTATGAGATAATAGGTGTAATATATGTATCGACAGTTTTTAATT
66 CCGGTATAAGTATACCGA-TTTTATGAGAGATTAGGTATAATATATGTATCGACACTTTTTAATT
536069 TTGTGTCGATACTA
130 TTGTGTCGATACTA
536083 ATTTAAATAT
Statistics
Matches: 1282, Mismatches: 51, Indels: 18
0.95 0.04 0.01
Matches are distributed among these distances:
198 1 0.00
199 192 0.15
200 1085 0.85
201 4 0.00
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.31
Consensus pattern (200 bp):
AAAGTGTCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
CCGGTATAAGTATACCGATTTTATGAGAGATTAGGTATAATATATGTATCGACACTTTTTAATTT
TGTGTCGATACTATTGGTCCAGAATGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATA
TATAA
Found at i:539298 original size:184 final size:184
Alignment explanation
Indices: 538989--539697 Score: 1321
Period size: 184 Copynumber: 3.9 Consensus size: 184
538979 ATATCATCAT
538989 AAAGTGTCGATACCTTTTCAAAAAGTGTCGATTGAAAAAACATCGGAACCCATAATTATAATGTA
1 AAAGTGTCGATACCTTTTCAAAAAGTGTCGATTGAAAAAACATCGGAACCCATAATTATAATGTA
*
539054 ATAGGTAATTTTGTAATATAACCGGTATAGATATATCGGTTTTATGAGAGAATAGGTCTACAACC
66 ATAGGTAATTTTGTAATATAACCGGTATAGATATACCGGTTTTATGAGAGAATAGGTCTACAACC
*
539119 TATATCGATACTTTTTAATATTGTGTCGCTAATTTATGTCCAGAATGGATGAAA
131 TATATCGACACTTTTTAATATTGTGTCGCTAATTTATGTCCAGAATGGATGAAA
539173 AAAGTGTCGATACCTTTTCAAAAAGTGTCGATTGAAAAAACATCGGAACCCATAATTATAATGTA
1 AAAGTGTCGATACCTTTTCAAAAAGTGTCGATTGAAAAAACATCGGAACCCATAATTATAATGTA
* *
539238 ATTGATAATTTTGTAATATAACCGGTATAGATATACCGGTTTTATGAGAGAATAGGTCTACAACC
66 ATAGGTAATTTTGTAATATAACCGGTATAGATATACCGGTTTTATGAGAGAATAGGTCTACAACC
*
539303 TATATCGACACTTTTTAATATTGTGTCGCTATTTTATGTCCAGAATGGATGAAA
131 TATATCGACACTTTTTAATATTGTGTCGCTAATTTATGTCCAGAATGGATGAAA
*
539357 AAAGTGTCGATACATTTTCAAAAAGTGTCGATTGAAAAAACATCGGAACCCATAATTATAATGTA
1 AAAGTGTCGATACCTTTTCAAAAAGTGTCGATTGAAAAAACATCGGAACCCATAATTATAATGTA
* *
539422 ATAGGTAATTTTGTAATATAATCGGTATAGATATACCAGTTTTATGAGAGAATAGGTCTACAACC
66 ATAGGTAATTTTGTAATATAACCGGTATAGATATACCGGTTTTATGAGAGAATAGGTCTACAACC
539487 TATATCGACACTTTTTAATATTGTGTCGC-AACTTTATGTCCAGAATGGATGAAA
131 TATATCGACACTTTTTAATATTGTGTCGCTAA-TTTATGTCCAGAATGGATGAAA
539541 AAAGTGTCGATACCTTTTCAAAAAGTGTCGATTGAAAAAACATCGGAACCCATAATTATAATGTA
1 AAAGTGTCGATACCTTTTCAAAAAGTGTCGATTGAAAAAACATCGGAACCCATAATTATAATGTA
*
539606 ATAGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACC
66 ATAGGTAATTTTGTAATATAACCGGTATAGATATACCGGTTTTATGAGAGAATAGGTCTACAACC
539671 TATATCGACACTTTTTAATATTGTGTC
131 TATATCGACACTTTTTAATATTGTGTC
539698 CATACTTTTA
Statistics
Matches: 509, Mismatches: 15, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
183 1 0.00
184 508 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (184 bp):
AAAGTGTCGATACCTTTTCAAAAAGTGTCGATTGAAAAAACATCGGAACCCATAATTATAATGTA
ATAGGTAATTTTGTAATATAACCGGTATAGATATACCGGTTTTATGAGAGAATAGGTCTACAACC
TATATCGACACTTTTTAATATTGTGTCGCTAATTTATGTCCAGAATGGATGAAA
Found at i:542898 original size:23 final size:23
Alignment explanation
Indices: 542867--542916 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
542857 ATAGATAAAA
*
542867 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
542890 ATATAATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
542913 ATAT
1 ATAT
542917 TGTAAAGTAT
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:0.34, C:0.08, G:0.22, T:0.36
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:543880 original size:87 final size:87
Alignment explanation
Indices: 543776--543938 Score: 263
Period size: 87 Copynumber: 1.9 Consensus size: 87
543766 AAATAGGTCA
* *
543776 ATATAAGCGTTACCTATTACATTATATAAACGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGATACCTATTACATTATATAAACGCTACCTAATATGTTATTGTACTTAATAATATTT
*
543841 CCGGTTAAATACCTATTTTATT
66 CCGATTAAATACCTATTTTATT
* * * *
543863 ATATAAGCGATATCTATTACATTATATAAGCGTTCCCTAATATGTTATTGTACTTAATAATATTT
1 ATATAAGCGATACCTATTACATTATATAAACGCTACCTAATATGTTATTGTACTTAATAATATTT
543928 CCGATTAAATA
66 CCGATTAAATA
543939 ATATAATATA
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 69 1.00
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.42
Consensus pattern (87 bp):
ATATAAGCGATACCTATTACATTATATAAACGCTACCTAATATGTTATTGTACTTAATAATATTT
CCGATTAAATACCTATTTTATT
Found at i:545228 original size:23 final size:23
Alignment explanation
Indices: 545197--545241 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
545187 TATAGTGATA
*
545197 AAATTATATAACTTTAAAATTTT
1 AAATAATATAACTTTAAAATTTT
* *
545220 AAATAATATAAGTTTATAATTT
1 AAATAATATAACTTTAAAATTT
545242 ATACTATTAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (23 bp):
AAATAATATAACTTTAAAATTTT
Found at i:553476 original size:16 final size:17
Alignment explanation
Indices: 553427--553479 Score: 60
Period size: 16 Copynumber: 3.3 Consensus size: 17
553417 ATCAAAAAAA
553427 TAATTTAAAAGTTAGAG
1 TAATTTAAAAGTTAGAG
*
553444 TGA-TT-AAA-TTAAGAG
1 TAATTTAAAAGTT-AGAG
553459 TAATTTAAAAGTTA-AG
1 TAATTTAAAAGTTAGAG
553475 TAATT
1 TAATT
553480 AAATTAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
14 2 0.07
15 9 0.30
16 11 0.37
17 6 0.20
18 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.15, T:0.38
Consensus pattern (17 bp):
TAATTTAAAAGTTAGAG
Found at i:553484 original size:31 final size:32
Alignment explanation
Indices: 553427--553486 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
553417 ATCAAAAAAA
*
553427 TAATTTAAAAGTTAGAGTGATTAAATTAAGAG
1 TAATTTAAAAGTTAGAGTAATTAAATTAAGAG
553459 TAATTTAAAAGTTA-AGTAATTAAATTAA
1 TAATTTAAAAGTTAGAGTAATTAAATTAA
553487 AAAATTAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
31 13 0.48
32 14 0.52
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (32 bp):
TAATTTAAAAGTTAGAGTAATTAAATTAAGAG
Found at i:553633 original size:19 final size:18
Alignment explanation
Indices: 553606--553642 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
553596 TTTAAATATC
*
553606 AAAAAGAGAGAAAAGTAA
1 AAAAAGAGACAAAAGTAA
553624 AAAAACGAGACAAAAGTAA
1 AAAAA-GAGACAAAAGTAA
553643 CCATTTAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.70, C:0.05, G:0.19, T:0.05
Consensus pattern (18 bp):
AAAAAGAGACAAAAGTAA
Found at i:557491 original size:20 final size:20
Alignment explanation
Indices: 557466--557507 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
557456 GACATTGAAT
557466 GTCTATTCATCTTTGTAGTC
1 GTCTATTCATCTTTGTAGTC
557486 GTCTATTCATCTTTGTAGTC
1 GTCTATTCATCTTTGTAGTC
557506 GT
1 GT
557508 TGGTACTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.14, C:0.19, G:0.17, T:0.50
Consensus pattern (20 bp):
GTCTATTCATCTTTGTAGTC
Found at i:558321 original size:3 final size:3
Alignment explanation
Indices: 558315--558353 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
558305 AATAATAATA
* *
558315 ATT ATT ATT ATT ATT ATC ATC ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
558354 TCCTTTTCCC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:558417 original size:3 final size:3
Alignment explanation
Indices: 558409--558434 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
558399 GGATACTATA
558409 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
558435 GGTAATTGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:561003 original size:2 final size:2
Alignment explanation
Indices: 560996--561106 Score: 132
Period size: 2 Copynumber: 55.5 Consensus size: 2
560986 AATCTAACTA
* * * * *
560996 AT AT AT AT AT AT AT AT AT AT AT AC AT AC AT AC AA AC 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
*
561038 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
561080 AT AC AT AC AA AC AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
561107 AATTCGGTTC
Statistics
Matches: 93, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 93 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (2 bp):
AT
Found at i:561147 original size:27 final size:28
Alignment explanation
Indices: 561113--561167 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 28
561103 TATAAATTCG
*
561113 GTTCGGTTAATATTTAAA-AAAAAATCA
1 GTTCGGTTAATAGTTAAAGAAAAAATCA
561140 GTTCGGTTAATAGTTAAAGGAAAAAATC
1 GTTCGGTTAATAGTTAAA-GAAAAAATC
561168 GGTTAATTCG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 17 0.68
29 8 0.32
ACGTcount: A:0.45, C:0.07, G:0.16, T:0.31
Consensus pattern (28 bp):
GTTCGGTTAATAGTTAAAGAAAAAATCA
Found at i:563049 original size:44 final size:44
Alignment explanation
Indices: 562999--563088 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
562989 AAATGCCAAC
562999 TTTATCAGGTATTTCACATTAACTGGATCTAGTTTCTGTCAAGT
1 TTTATCAGGTATTTCACATTAACTGGATCTAGTTTCTGTCAAGT
563043 TTTATCAGGTATTTCACATTAACTGGATCTAGTTTCTGTCAAGT
1 TTTATCAGGTATTTCACATTAACTGGATCTAGTTTCTGTCAAGT
563087 TT
1 TT
563089 CTAATTTTAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (44 bp):
TTTATCAGGTATTTCACATTAACTGGATCTAGTTTCTGTCAAGT
Found at i:566559 original size:3 final size:3
Alignment explanation
Indices: 566551--566577 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
566541 CTGTTATGGT
566551 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
566578 ATTGCATCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:567036 original size:60 final size:59
Alignment explanation
Indices: 566907--567089 Score: 192
Period size: 60 Copynumber: 3.1 Consensus size: 59
566897 CATGAATTTG
* * ** *
566907 GGGATAAAATTGAAATATTCAAAAGTTT-GGGA-TCAATTTAGAAAAAG-GTTCATATTTT
1 GGGATAAAATTAAAATATTCAAAAGTTTAAGGACT-AATTTAGAATGAGAG-TCATAGTTT
* *
566965 AGGGATGAAATTAAAATGTTCAAAAGTTTAAGGACTAATTTAGAATGAGAGTCATAGTTT
1 -GGGATAAAATTAAAATATTCAAAAGTTTAAGGACTAATTTAGAATGAGAGTCATAGTTT
* * * * *
567025 GGAGATAAAATTAGAATATTTAAAAGTTTAAGGACCAATTTAAAATGAGAGTTATAGTTT
1 GG-GATAAAATTAAAATATTCAAAAGTTTAAGGACTAATTTAGAATGAGAGTCATAGTTT
567085 AGGGA
1 -GGGA
567090 CATATAATAC
Statistics
Matches: 105, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
59 27 0.26
60 74 0.70
61 4 0.04
ACGTcount: A:0.43, C:0.04, G:0.21, T:0.32
Consensus pattern (59 bp):
GGGATAAAATTAAAATATTCAAAAGTTTAAGGACTAATTTAGAATGAGAGTCATAGTTT
Found at i:567850 original size:20 final size:21
Alignment explanation
Indices: 567825--567869 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
567815 CGGTTAACGG
567825 TTAAAGAAA-AAAAAATTCGA
1 TTAAAGAAACAAAAAATTCGA
*
567845 TTAAAGAAACAAAAAATTCGG
1 TTAAAGAAACAAAAAATTCGA
567866 TTAA
1 TTAA
567870 TTCAATTGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.60, C:0.07, G:0.11, T:0.22
Consensus pattern (21 bp):
TTAAAGAAACAAAAAATTCGA
Found at i:568757 original size:55 final size:55
Alignment explanation
Indices: 568673--568776 Score: 199
Period size: 55 Copynumber: 1.9 Consensus size: 55
568663 CATGCATTGG
*
568673 GATAGATGGGTTCATTCAAAAACTAGAGTACGAAGGTTTAAATAACATCAGGAGA
1 GATAGATGGGTTCATTCAAAAACTAGAGTACGAAGGTTTAAACAACATCAGGAGA
568728 GATAGATGGGTTCATTCAAAAACTAGAGTACGAAGGTTTAAACAACATC
1 GATAGATGGGTTCATTCAAAAACTAGAGTACGAAGGTTTAAACAACATC
568777 TGTTTCTCCT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 48 1.00
ACGTcount: A:0.41, C:0.12, G:0.22, T:0.24
Consensus pattern (55 bp):
GATAGATGGGTTCATTCAAAAACTAGAGTACGAAGGTTTAAACAACATCAGGAGA
Found at i:569949 original size:21 final size:21
Alignment explanation
Indices: 569908--569949 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
569898 AGTATTAATT
* *
569908 TTGTTTTCCTGCTTGTTTCGA
1 TTGTTTTCCTGCTAGTCTCGA
*
569929 TTGTTTTCTTGCTAGTCTCGA
1 TTGTTTTCCTGCTAGTCTCGA
569950 ATATCAGTTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.07, C:0.19, G:0.19, T:0.55
Consensus pattern (21 bp):
TTGTTTTCCTGCTAGTCTCGA
Found at i:571671 original size:20 final size:20
Alignment explanation
Indices: 571648--571697 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
571638 CCATTTCTAA
*
571648 AATGGTATCGATATTTGCAT
1 AATGGTATCGATATTTACAT
571668 AATGGTATCGATATTTACAT
1 AATGGTATCGATATTTACAT
571688 AATGGTATCG
1 AATGGTATCG
571698 GTACTCTTGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (20 bp):
AATGGTATCGATATTTACAT
Found at i:581010 original size:74 final size:73
Alignment explanation
Indices: 580913--581152 Score: 250
Period size: 74 Copynumber: 3.4 Consensus size: 73
580903 CTCGTTTAAT
* *
580913 ACAAAAATTTATCTCACTTGAGATTGTTGTTCTTAAAGCAAGATTCATTTCGCTTGAGATAATTT
1 ACAAAAATTTATCTCACTTGAGATTGTTGTTCTTAAAACAAGATTCATCTCGCTTGAGATAATTT
580978 CAC-TAGAA
66 CACAT-GAA
* *
580986 ACAAAAGATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAGATTCATCTCGCTTGAGATAGTT
1 ACAAAA-ATTTATCTCACTTGAGATTGTTGTTCTTAAAACAAGATTCATCTCGCTTGAGATAATT
581051 TCACATGAA
65 TCACATGAA
** * * * * *
581060 AGGAAATTTTATCTCACTTGA-A--------CATAAAACCATATTCATCTCGCTTGAGATAGTTT
1 ACAAAAATTTATCTCACTTGAGATTGTTGTTCTTAAAACAAGATTCATCTCGCTTGAGATAATTT
581116 CAC-TCGAA
66 CACAT-GAA
* *
581124 ACATAAATTTTATCTCACTTGAGGTTGTT
1 ACA-AAAATTTATCTCACTTGAGATTGTT
581153 TTTGTAACAC
Statistics
Matches: 144, Mismatches: 13, Indels: 22
0.80 0.07 0.12
Matches are distributed among these distances:
63 1 0.01
64 38 0.26
65 18 0.12
72 1 0.01
73 20 0.14
74 65 0.45
75 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (73 bp):
ACAAAAATTTATCTCACTTGAGATTGTTGTTCTTAAAACAAGATTCATCTCGCTTGAGATAATTT
CACATGAA
Found at i:581037 original size:36 final size:36
Alignment explanation
Indices: 580923--581051 Score: 125
Period size: 36 Copynumber: 3.5 Consensus size: 36
580913 ACAAAAATTT
* * *
580923 ATCTCACTTGAGATTGTTGTTCTTAAAGCAAGATTC
1 ATCTCACTTGAGATAGTTTTTCTTAAAACAAGATTC
* * * ** *
580959 ATTTCGCTTGAGATAATTTCAC-TAGAAACAAAAGATTT
1 ATCTCACTTGAGATAGTTTTTCTTA-AAAC--AAGATTC
*
580997 ATCTCACTTGAGATTGTTTTTCTTAAAACAAGATTC
1 ATCTCACTTGAGATAGTTTTTCTTAAAACAAGATTC
*
581033 ATCTCGCTTGAGATAGTTT
1 ATCTCACTTGAGATAGTTT
581052 CACATGAAAG
Statistics
Matches: 71, Mismatches: 18, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
35 2 0.03
36 41 0.58
38 26 0.37
39 2 0.03
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.39
Consensus pattern (36 bp):
ATCTCACTTGAGATAGTTTTTCTTAAAACAAGATTC
Found at i:581810 original size:24 final size:23
Alignment explanation
Indices: 581783--581857 Score: 96
Period size: 23 Copynumber: 3.2 Consensus size: 23
581773 GAAGTGCCAT
*
581783 ATAGAATTTGTCCCGAAGGACAAC
1 ATAG-ATTTGTCCCGAAGGACCAC
* *
581807 ATAGATTTTTCCCAAAGGACCAC
1 ATAGATTTGTCCCGAAGGACCAC
* *
581830 ATAGTTTTGTCCCGAAGAACCAC
1 ATAGATTTGTCCCGAAGGACCAC
581853 ATAGA
1 ATAGA
581858 ACCCTCGACT
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
23 39 0.91
24 4 0.09
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.24
Consensus pattern (23 bp):
ATAGATTTGTCCCGAAGGACCAC
Found at i:583180 original size:64 final size:63
Alignment explanation
Indices: 583026--583171 Score: 231
Period size: 64 Copynumber: 2.3 Consensus size: 63
583016 GGGTGTCCAA
*
583026 GTGCATCGGTGCATAAATCAACTTCGATGTTTCAAAATAACCAGGGTGCATCGATGCATGTCTT
1 GTGCATCGGTGCATAAATCAA-TTCGATGTTTCAAAATAACCAGAGTGCATCGATGCATGTCTT
* *
583090 GTGCATCGGTGCATAAAATCAATTCGATGTTTTAAAATAGCCAGAGTGCATCGATGCATGGT-TT
1 GTGCATCGGTGCAT-AAATCAATTCGATGTTTCAAAATAACCAGAGTGCATCGATGCAT-GTCTT
583154 GTGCATCGGTGCATAAAT
1 GTGCATCGGTGCATAAAT
583172 TGCATTCGAA
Statistics
Matches: 77, Mismatches: 3, Indels: 5
0.91 0.04 0.06
Matches are distributed among these distances:
63 4 0.05
64 64 0.83
65 9 0.12
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (63 bp):
GTGCATCGGTGCATAAATCAATTCGATGTTTCAAAATAACCAGAGTGCATCGATGCATGTCTT
Found at i:585822 original size:21 final size:20
Alignment explanation
Indices: 585793--585857 Score: 67
Period size: 23 Copynumber: 3.0 Consensus size: 20
585783 CGTGGAGGGT
*
585793 ATCGATTCCCTAAAGGGAGGA
1 ATCGGTTCCCTAAAGGG-GGA
585814 ATCGGTTCCCATTCAAAGGGGGA
1 ATCGGTTCCC--T-AAAGGGGGA
585837 ATCGGTTCCCCTACAAGGGGG
1 ATCGGTT-CCCTA-AAGGGGG
585858 GTATCGATTC
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
21 10 0.26
22 8 0.21
23 11 0.29
24 9 0.24
ACGTcount: A:0.26, C:0.23, G:0.31, T:0.20
Consensus pattern (20 bp):
ATCGGTTCCCTAAAGGGGGA
Found at i:585857 original size:23 final size:23
Alignment explanation
Indices: 585800--585868 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
585790 GGTATCGATT
*
585800 CCCTA-AAGGGAGGAATCGGTTC
1 CCCTACAAGGGGGGAATCGGTTC
* * *
585822 CCATTCAAAGGGGGAATCGGTTC
1 CCCTACAAGGGGGGAATCGGTTC
* *
585845 CCCTACAAGGGGGGTATCGATTC
1 CCCTACAAGGGGGGAATCGGTTC
585868 C
1 C
585869 TCTTGTACTA
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
22 3 0.08
23 34 0.92
ACGTcount: A:0.25, C:0.25, G:0.30, T:0.20
Consensus pattern (23 bp):
CCCTACAAGGGGGGAATCGGTTC
Found at i:589950 original size:117 final size:117
Alignment explanation
Indices: 589738--589953 Score: 303
Period size: 117 Copynumber: 1.8 Consensus size: 117
589728 AATCGAAATT
*
589738 TTCTTTTTCAATAATTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCTTCAAGATTTCATTTT
1 TTCTTTTTCAATAATTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCTTCAACATTTCATTTT
*
589803 GATTTTCAAAATCCATTTTTGTTTCTAAAAGAAGTTTGTTTAATTTGAAAAA
66 GATTTTCAAAATCCATTTTAGTTTCTAAAAGAAGTTTGTTTAATTTGAAAAA
* * * *
589855 TTCTTTTTCAA-AGTTTTCAGATTTCGTTTTTGAAAGCTCTAACTCCTT-TCTCAACATTTCATT
1 TTCTTTTTCAATA-ATTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCT-TCAACATTTCATT
* **
589918 TTGATTTTCTAAATCTGTTTTAGCTTTC-AAAAGAAG
64 TTGATTTTCAAAATCCATTTTAG-TTTCTAAAAGAAG
589954 ATCATTTTTA
Statistics
Matches: 87, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
116 2 0.02
117 81 0.93
118 4 0.05
ACGTcount: A:0.29, C:0.15, G:0.09, T:0.48
Consensus pattern (117 bp):
TTCTTTTTCAATAATTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCTTCAACATTTCATTTT
GATTTTCAAAATCCATTTTAGTTTCTAAAAGAAGTTTGTTTAATTTGAAAAA
Done.