Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007494.1 Hibiscus syriacus cultivar Beakdansim tig00020729_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: 265578
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.31
File 1 of 2
Found at i:800 original size:12 final size:11
Alignment explanation
Indices: 778--854 Score: 64
Period size: 12 Copynumber: 6.5 Consensus size: 11
768 TTGGGCCTGC
778 AATAAAAATAA
1 AATAAAAATAA
*
789 ATATAAATATAA
1 A-ATAAAAATAA
*
801 AATAATAATAA
1 AATAAAAATAA
*
812 TAATAATAATAA
1 -AATAAAAATAA
*
824 TAATAATAATAA
1 -AATAAAAATAA
*
836 TAATAATAATAA
1 -AATAAAAATAA
848 TAATAAA
1 -AATAAA
855 TATTAATAAT
Statistics
Matches: 60, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
11 9 0.15
12 51 0.85
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
AATAAAAATAA
Found at i:809 original size:3 final size:3
Alignment explanation
Indices: 797--866 Score: 115
Period size: 3 Copynumber: 23.3 Consensus size: 3
787 AAATATAAAT
797 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
844 ATA ATA ATAA ATA TTA ATA ATA A
1 ATA ATA AT-A ATA ATA ATA ATA A
867 CTCGGACAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
2 2 0.03
3 58 0.92
4 3 0.05
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:1622 original size:117 final size:116
Alignment explanation
Indices: 1430--1665 Score: 327
Period size: 117 Copynumber: 2.0 Consensus size: 116
1420 AGTTACTAAT
* * *
1430 TGAGGGTCCCGAGCAAAAGAAAAAAATGTTGAGGTCGAGGGAGAAATAGATAAGATTATTGGGTC
1 TGAGGGTCCCGAACAAAAGAAAAAAATGTTGAGGTCGAGAGAGAAATAGATAAGATTATTGGATC
*
1495 TACACCGATGAATTGAATA-TTTTGTTTTGGTTAC-AAAAGTTT-AGATCAGGAG
66 TACACCGATGAATTGAAGAGTTTT-TTTT--TTACAAAAAGTTTAAG-TCAGGAG
* *
1547 TGAGGGTCCTGAACAAAAGATAAAAATGTTGAGGTCGAGAGAGAAATAGATAAGATTATTGGAT-
1 TGAGGGTCCCGAACAAAAGAAAAAAATGTTGAGGTCGAGAGAGAAATAGATAAGATTATTGGATC
**
1611 TAACATTGATGAATTGAAGAGTTTTTTTTTTACAAAAAGTTTAAGTCAGGAG
66 T-ACACCGATGAATTGAAGAGTTTTTTTTTTACAAAAAGTTTAAGTCAGGAG
1663 TGA
1 TGA
1666 TTCTCCCAGT
Statistics
Matches: 107, Mismatches: 8, Indels: 9
0.86 0.06 0.07
Matches are distributed among these distances:
115 4 0.04
116 19 0.18
117 80 0.75
118 4 0.04
ACGTcount: A:0.38, C:0.08, G:0.26, T:0.29
Consensus pattern (116 bp):
TGAGGGTCCCGAACAAAAGAAAAAAATGTTGAGGTCGAGAGAGAAATAGATAAGATTATTGGATC
TACACCGATGAATTGAAGAGTTTTTTTTTTACAAAAAGTTTAAGTCAGGAG
Found at i:2486 original size:28 final size:28
Alignment explanation
Indices: 2454--2509 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
2444 ACTTTGTTTG
* *
2454 TATGTAGGGTTGCATCAACACTCAGCCT
1 TATGTAGGGTTACACCAACACTCAGCCT
2482 TATGTAGGGTTACACCAACACTCAGCCT
1 TATGTAGGGTTACACCAACACTCAGCCT
2510 CGGATGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (28 bp):
TATGTAGGGTTACACCAACACTCAGCCT
Found at i:3019 original size:42 final size:43
Alignment explanation
Indices: 2957--3166 Score: 264
Period size: 42 Copynumber: 4.9 Consensus size: 43
2947 TTTTAATACA
2957 AAACGCCACTAAAA-ACAATAGCATTAGCGGCGTTTGTGGCAAG
1 AAACGCCACTAAAACA-AATAGCATTAGCGGCGTTTGTGGCAAG
* *
3000 AAACG-CACTAAAACAAATAGCATTAACGGCATTTGTGGCAAG
1 AAACGCCACTAAAACAAATAGCATTAGCGGCGTTTGTGGCAAG
** * * * *
3042 AAACGCCACTAAAACCTACAGCATTAACGGCGTTTGTTGCAAAA
1 AAACGCCACTAAAACAAATAGCATTAGCGGCGTTTGTGGC-AAG
* * *
3086 AAACGCTACTAAAACCAATAGCATTAGCGGCGTTTGTGGTAA-
1 AAACGCCACTAAAACAAATAGCATTAGCGGCGTTTGTGGCAAG
* *
3128 AAATGCCACTAAAACAAATAGCATTAGCGGCATTTGTGG
1 AAACGCCACTAAAACAAATAGCATTAGCGGCGTTTGTGG
3167 TTTTCCTGCT
Statistics
Matches: 146, Mismatches: 18, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
42 73 0.50
43 37 0.25
44 36 0.25
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.21
Consensus pattern (43 bp):
AAACGCCACTAAAACAAATAGCATTAGCGGCGTTTGTGGCAAG
Found at i:6144 original size:2 final size:2
Alignment explanation
Indices: 6137--6191 Score: 85
Period size: 2 Copynumber: 27.5 Consensus size: 2
6127 CATAAATCAT
6137 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
6179 CT- TA TA TA CA TA T
1 -TA TA TA TA TA TA T
6192 TACTATGGAA
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
1 1 0.02
2 47 0.96
3 1 0.02
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:9406 original size:34 final size:32
Alignment explanation
Indices: 9325--9406 Score: 76
Period size: 34 Copynumber: 2.4 Consensus size: 32
9315 TTTATTTTCA
*
9325 TTTATTCTTTCTTTCTTATTCTTTTTTCTCTAT
1 TTTA-TCTTTTTTTCTTATTCTTTTTTCTCTAT
* *
9358 TTTCTCTCTATTTTTCTTTTTCTCTTTTATCTTCT-T
1 TTTATCT-T-TTTTTCTTATTCT-TTTT-TC-TCTAT
9394 TTTATCTTTTTTT
1 TTTATCTTTTTTT
9407 TAAATGAGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
32 3 0.08
33 4 0.10
34 16 0.40
35 5 0.12
36 9 0.22
37 3 0.08
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.74
Consensus pattern (32 bp):
TTTATCTTTTTTTCTTATTCTTTTTTCTCTAT
Found at i:10240 original size:41 final size:40
Alignment explanation
Indices: 10183--10295 Score: 111
Period size: 41 Copynumber: 2.8 Consensus size: 40
10173 ACATCCTGCC
* * * *
10183 CGAAAGTCTTATAGATGGCCCGAATGACTTATCATATTGCT
1 CGAAAGCCTAATAGATGGCCCGAAGGACTTATCATA-TGAT
* * *
10224 CGAAAGCCTAATAGATGACCCAAAGGATTTAATCATATGAT
1 CGAAAGCCTAATAGATGGCCCGAAGGACTT-ATCATATGAT
* *
10265 CGAAAGACTTACT-GATGGCCCGAAGGACTTA
1 CGAAAG-CCTAATAGATGGCCCGAAGGACTTA
10296 CCGATTTTGG
Statistics
Matches: 58, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
40 1 0.02
41 47 0.81
42 10 0.17
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (40 bp):
CGAAAGCCTAATAGATGGCCCGAAGGACTTATCATATGAT
Found at i:10514 original size:258 final size:255
Alignment explanation
Indices: 9988--10794 Score: 1004
Period size: 239 Copynumber: 3.2 Consensus size: 255
9978 GGATGGCAAG
* *
9988 AAGGATTTAATCATCATGCTCGAAAGACTTACTGATATCCCGAACGACTTACCAATTTTGAAAAT
1 AAGGATTTAATCATCATGCTCGAAAGACTTACTGATAGCCCGAAGGACTTACC-ATTTTG-AAAT
*
10053 AGTTTATTGGGTAAGAAACTTTGGAAATCACTTTCTTATTTTTCAAAAATTTCACTTTCTGAAAA
64 AGTTTA-TGGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTCACTTTCTGAAAA
* ** ** * *
10118 TACTAAATGAGATACTTTAAAAATTGCTTTCTCAGTTTTTGGAAATCATGTGAAAACATCCTGCC
128 TACTAAATGAGAAACTTTGGAAATCACTTTCTCATTTTTTGAAAATCATGTGAAAACATCCTGCC
* * * * *
10183 CGAAAGTCTTATAGATGGCCCGAATGACTTATCATATTGCTCGAAAGCCTAATAGATGACCCA
193 CGAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTAACAGATGACCCA
* *
10246 AAGGATTTAATCAT-ATGATCGAAAGACTTACTGATGGCCCGAAGGACTTACCGATTTTGGAAAT
1 AAGGATTTAATCATCATGCTCGAAAGACTTACTGATAGCCCGAAGGACTTACC-ATTTT-GAAAT
*
10310 AGTTTACTGGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCA-TTTCTGAAAA
64 AGTTTA-TGGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTCACTTTCTGAAAA
* * * *
10374 CACTGAATGAGAAACTTTGGAAATCACTTTCTCATTTTTTTTGAAAATCATGCGAAAACATCATG
128 TACTAAATGAGAAACTTTGGAAATCACTTTCTCA--TTTTTTGAAAATCATGTGAAAACATCCTG
* * * * *
10439 TCCGAAGGTCTTATAGATGGGCCGAAGGACTTATCGTCTTGATCGAAAGACTTACAGATGACCCA
191 CCCGAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTAACAGATGACCCA
*
10504 AAGGATTTAATCATCATGCTCGAAAGGCTTACTGATAGCCCGAAGGACTT---A--TT---A-AG
1 AAGGATTTAATCATCATGCTCGAAAGACTTACTGATAGCCCGAAGGACTTACCATTTTGAAATAG
* * * * * *
10560 --TA-----AA-AAACTTTAGAAATCATTTTCTTACTTTTCAAAAATTTTATTTTCAGAAAAGTT
66 TTTATGGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTCACTTTCTGAAAA-TA
* * **
10617 TTAAATGAGAAACTTTGGAAATCACTTTCGCATTTTTCAAAAATCATGTGAAAACATCCTGCCCG
130 CTAAATGAGAAACTTTGGAAATCACTTTCTCATTTTTTGAAAATCATGTGAAAACATCCTGCCCG
* * * **
10682 AAGGTCTTATGGATGGCCCGAAGAACTTATCATCTTGCTCGAAAGACTGACAGATGACCTG
195 AAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTAACAGATGACCCA
*
10743 AAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTAC
1 AAGGATTTAATCATCATGCTCGAAAGACTTACTGATAGCCCGAAGGACTTAC
10795 TAAGTAAGAA
Statistics
Matches: 484, Mismatches: 57, Indels: 33
0.84 0.10 0.06
Matches are distributed among these distances:
239 164 0.34
240 11 0.02
241 29 0.06
246 2 0.00
248 2 0.00
249 1 0.00
253 2 0.00
255 1 0.00
256 37 0.08
257 94 0.19
258 109 0.23
259 32 0.07
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (255 bp):
AAGGATTTAATCATCATGCTCGAAAGACTTACTGATAGCCCGAAGGACTTACCATTTTGAAATAG
TTTATGGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTCACTTTCTGAAAATAC
TAAATGAGAAACTTTGGAAATCACTTTCTCATTTTTTGAAAATCATGTGAAAACATCCTGCCCGA
AGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTAACAGATGACCCA
Found at i:10608 original size:15 final size:17
Alignment explanation
Indices: 10588--10619 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
10578 ATTTTCTTAC
10588 TTTTCA-AAAA-TTTTA
1 TTTTCAGAAAAGTTTTA
10603 TTTTCAGAAAAGTTTTA
1 TTTTCAGAAAAGTTTTA
10620 AATGAGAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 4 0.27
17 5 0.33
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (17 bp):
TTTTCAGAAAAGTTTTA
Found at i:10749 original size:239 final size:237
Alignment explanation
Indices: 10320--10896 Score: 778
Period size: 239 Copynumber: 2.4 Consensus size: 237
10310 AGTTTACTGG
* * ***
10320 GTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCA-TTTCTGAAAACACTGAATGA
1 GTAAGAAACTTTAGAAATC-CTTTCTTACTTTTCAAAAATTTCATTTTCAGAAAATTTTGAATGA
** *
10384 GAAACTTTGGAAATCACTTTCTCATTTTTTTTGAAAATCATGCGAAAACATCATGTCCGAAGGTC
65 GAAACTTTGGAAATCACTTTCTCA--TTTTTCAAAAATCATGCGAAAACATCATGCCCGAAGGTC
* * * *
10449 TTATAGATGGGCCGAAGGACTTATCGTCTTGATCGAAAGACTTACAGATGACCCAAAGGATTTAA
128 TTATAGATGGCCCGAAGAACTTATCATCTTGATCGAAAGACTGACAGATGACCCAAAGGATTTAA
* *
10514 TCATCATGCTCGAAAGGCTTACTGATAGCCCGAAGGACTTATTAA
193 TCATCATGCTCGAAAGACTTACTGATAGCCCGAAGGACTTACTAA
* * * *
10559 GTAAAAAACTTTAGAAATCATTTTCTTACTTTTCAAAAATTTTATTTTCAGAAAAGTTTTAAATG
1 GTAAGAAACTTTAGAAATC-CTTTCTTACTTTTCAAAAATTTCATTTTCAGAAAA-TTTTGAATG
* * *
10624 AGAAACTTTGGAAATCACTTTCGCATTTTTCAAAAATCATGTGAAAACATCCTGCCCGAAGGTCT
64 AGAAACTTTGGAAATCACTTTCTCATTTTTCAAAAATCATGCGAAAACATCATGCCCGAAGGTCT
* * **
10689 TATGGATGGCCCGAAGAACTTATCATCTTGCTCGAAAGACTGACAGATGACCTGAAGGATTTAAT
129 TATAGATGGCCCGAAGAACTTATCATCTTGATCGAAAGACTGACAGATGACCCAAAGGATTTAAT
*
10754 CATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACTAA
194 CATCATGCTCGAAAGACTTACTGATAGCCCGAAGGACTTACTAA
* * * * * *
10798 GTAAGAAACTTTCGAAATCGTTTCTTAATTTTCAAGAATTTCATTTACAGAAAATATTTGACTGA
1 GTAAGAAACTTTAGAAATCCTTTCTTACTTTTCAAAAATTTCATTTTCAGAAAAT-TTTGAATGA
* * *
10863 GAAACTTTGTAAATCATTTTCTTATTTTTCAAAA
65 GAAACTTTGGAAATCACTTTCTCATTTTTCAAAA
10897 TAACTTAATG
Statistics
Matches: 295, Mismatches: 40, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
237 1 0.00
238 67 0.23
239 189 0.64
240 9 0.03
241 29 0.10
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (237 bp):
GTAAGAAACTTTAGAAATCCTTTCTTACTTTTCAAAAATTTCATTTTCAGAAAATTTTGAATGAG
AAACTTTGGAAATCACTTTCTCATTTTTCAAAAATCATGCGAAAACATCATGCCCGAAGGTCTTA
TAGATGGCCCGAAGAACTTATCATCTTGATCGAAAGACTGACAGATGACCCAAAGGATTTAATCA
TCATGCTCGAAAGACTTACTGATAGCCCGAAGGACTTACTAA
Found at i:10769 original size:42 final size:42
Alignment explanation
Indices: 10693--10789 Score: 115
Period size: 42 Copynumber: 2.3 Consensus size: 42
10683 AGGTCTTATG
* * * *
10693 GATGGCCCGAAGAACTT-ATCATCTTGCTCGAAAGACTGACA
1 GATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTGACA
* * *
10734 GATGACCTGAAGGATTTAATCATCATGCTCGAAAGACTTACT
1 GATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTGACA
*
10776 GATGGCCCGAAGGA
1 GATGACCCGAAGGA
10790 CTTACTAAGT
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
41 13 0.28
42 33 0.72
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.23
Consensus pattern (42 bp):
GATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTGACA
Found at i:12518 original size:3 final size:3
Alignment explanation
Indices: 12510--12549 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
12500 GAATTCAACT
12510 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
12550 ATATATATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:12554 original size:2 final size:2
Alignment explanation
Indices: 12547--12577 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
12537 TTATTATTAT
12547 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12578 ATCGTCTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:26220 original size:47 final size:46
Alignment explanation
Indices: 26127--26299 Score: 239
Period size: 47 Copynumber: 3.8 Consensus size: 46
26117 GGTAAGTATG
* *
26127 AAAATAAGCTTACGAGCTTAT-GA-AT-AATGGCAAGTATATTGAT
1 AAAATAAGCTTACGAGCTTATGGATTTAAATGGTAAGTATATTGAT
*
26170 AAAATAAGTTTACGAGCTTATGGTATTTAAATGGTAAGTATATTGAT
1 AAAATAAGCTTACGAGCTTATGG-ATTTAAATGGTAAGTATATTGAT
* *
26217 AAAATAAGCTTAGGAGCTTATGGAATTTAAATGGTAAGTATTTTGAT
1 AAAATAAGCTTACGAGCTTATGG-ATTTAAATGGTAAGTATATTGAT
26264 AAAATAAGCTTACGAGCTTATGAGA--TAAATGGTAAG
1 AAAATAAGCTTACGAGCTTATG-GATTTAAATGGTAAG
26300 AGATTTTATA
Statistics
Matches: 117, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
43 20 0.17
44 1 0.01
45 12 0.10
46 1 0.01
47 82 0.70
48 1 0.01
ACGTcount: A:0.40, C:0.06, G:0.20, T:0.33
Consensus pattern (46 bp):
AAAATAAGCTTACGAGCTTATGGATTTAAATGGTAAGTATATTGAT
Found at i:26811 original size:7 final size:7
Alignment explanation
Indices: 26799--26829 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
26789 TCGATTCCCC
*
26799 CACTGTA
1 CACTGTT
26806 CACTGTT
1 CACTGTT
26813 CACTGTT
1 CACTGTT
26820 CACTGTT
1 CACTGTT
26827 CAC
1 CAC
26830 GGGTACTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.19, C:0.32, G:0.13, T:0.35
Consensus pattern (7 bp):
CACTGTT
Found at i:27045 original size:41 final size:41
Alignment explanation
Indices: 26988--27069 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
26978 AGAAAATCGG
26988 ATAACATCTATAATCTGTATAAGTATAATTGTACGGGTTAT
1 ATAACATCTATAATCTGTATAAGTATAATTGTACGGGTTAT
*
27029 ATAACATCTATAATCTGTATAAGTATAATTGTATGGGTTAT
1 ATAACATCTATAATCTGTATAAGTATAATTGTACGGGTTAT
27070 GGGTGTTACA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.40
Consensus pattern (41 bp):
ATAACATCTATAATCTGTATAAGTATAATTGTACGGGTTAT
Found at i:29632 original size:32 final size:31
Alignment explanation
Indices: 29557--29641 Score: 82
Period size: 31 Copynumber: 2.7 Consensus size: 31
29547 CTAACGTGAC
* * *
29557 TCTTAGGTAGGCTCTGCGGCCCTGAGATTAT
1 TCTTAGGTAGGCCCCGCGGCCCTAAGATTAT
* *
29588 T-TTCGGGTAGGCCCCGCGGCCCTAAGATGTGT
1 TCTT-AGGTAGGCCCCGCGGCCCTAAGAT-TAT
* *
29620 TCTTAGGTAGGCCTCGTGGCCC
1 TCTTAGGTAGGCCCCGCGGCCC
29642 CGAAACTTTC
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
30 2 0.05
31 21 0.49
32 18 0.42
33 2 0.05
ACGTcount: A:0.13, C:0.27, G:0.32, T:0.28
Consensus pattern (31 bp):
TCTTAGGTAGGCCCCGCGGCCCTAAGATTAT
Found at i:35236 original size:28 final size:28
Alignment explanation
Indices: 35204--35446 Score: 210
Period size: 26 Copynumber: 9.0 Consensus size: 28
35194 ATAGTATAAT
*
35204 AATATATATAGCATACT-GTTTTTAGAAA
1 AATATATATAGTATA-TAGTTTTTAGAAA
35232 AATATATATAGTATATAGTTTTTAG-AA
1 AATATATATAGTATATAGTTTTTAGAAA
35259 AA-ATATATAGTATATAG-TTTTAGAAA
1 AATATATATAGTATATAGTTTTTAGAAA
*
35285 AATATATATAATATATAG-TTTTAG---
1 AATATATATAGTATATAGTTTTTAGAAA
* * * *
35309 -ATATATATA-TATATA-TATATATATA
1 AATATATATAGTATATAGTTTTTAGAAA
* * * * *
35334 TATATATATA-TATATA-TATATATATA
1 AATATATATAGTATATAGTTTTTAGAAA
* * *
35360 TATATATATTGTATATAATTTTTAG-AA
1 AATATATATAGTATATAGTTTTTAGAAA
35387 AATAT-TCATAGTATATAGTTTTTAGAAAAAA
1 AATATAT-ATAGTATATAGTTTTTAG---AAA
35418 AATATATATAGTATATAGTTTTTAGAAA
1 AATATATATAGTATATAGTTTTTAGAAA
35446 A
1 A
35447 CAATATAGTT
Statistics
Matches: 186, Mismatches: 13, Indels: 32
0.81 0.06 0.14
Matches are distributed among these distances:
22 9 0.05
23 9 0.05
25 6 0.03
26 54 0.29
27 52 0.28
28 30 0.16
31 25 0.13
32 1 0.01
ACGTcount: A:0.47, C:0.01, G:0.08, T:0.44
Consensus pattern (28 bp):
AATATATATAGTATATAGTTTTTAGAAA
Found at i:35237 original size:26 final size:26
Alignment explanation
Indices: 35207--35455 Score: 165
Period size: 27 Copynumber: 9.3 Consensus size: 26
35197 GTATAATAAT
*
35207 ATATATAGCATACT-GTTTTTAGAAAAA
1 ATATATAGTATA-TAGTTTTTAG-AAAA
35234 TATATATAGTATATAGTTTTTAGAAAA
1 -ATATATAGTATATAGTTTTTAGAAAA
35261 ATATATAGTATATAG-TTTTAGAAAAA
1 ATATATAGTATATAGTTTTTAG-AAAA
* *
35287 TATATATAATATATAG-TTTTAGATATAT
1 -ATATATAGTATATAGTTTTTAGA-A-AA
* * * * *
35315 ATATATA-TATATA-TATATATATAT
1 ATATATAGTATATAGTTTTTAGAAAA
* * * * *
35339 ATATATA-TATATA-TATATATATAT
1 ATATATAGTATATAGTTTTTAGAAAA
* *
35363 ATATATTGTATATAATTTTTAG-AAA
1 ATATATAGTATATAGTTTTTAGAAAA
35388 ATATTCATAGTATATAGTTTTTAGAAAAAAAA
1 ATA-T-ATAGTATATAGTTTTTAG----AAAA
35420 TATATATAGTATATAGTTTTTAGAAAA
1 -ATATATAGTATATAGTTTTTAGAAAA
35447 CA-ATATAGT
1 -ATATATAGT
35456 TTAAAATATA
Statistics
Matches: 189, Mismatches: 16, Indels: 34
0.79 0.07 0.14
Matches are distributed among these distances:
24 32 0.17
25 16 0.08
26 42 0.22
27 54 0.29
28 20 0.11
31 18 0.10
32 4 0.02
33 3 0.02
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.44
Consensus pattern (26 bp):
ATATATAGTATATAGTTTTTAGAAAA
Found at i:35376 original size:2 final size:2
Alignment explanation
Indices: 35286--35368 Score: 125
Period size: 2 Copynumber: 42.0 Consensus size: 2
35276 TTTTAGAAAA
* *
35286 AT AT AT AT A- AT AT AT AGT -T TT AG AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT
35327 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
35369 TGTATATAAT
Statistics
Matches: 75, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
1 2 0.03
2 72 0.96
3 1 0.01
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:35429 original size:31 final size:31
Alignment explanation
Indices: 35361--35446 Score: 110
Period size: 31 Copynumber: 2.9 Consensus size: 31
35351 ATATATATAT
* *
35361 ATATATATTGTATATAATTTTTAG----AAA
1 ATATATATAGTATATAGTTTTTAGAAAAAAA
35388 ATAT-TCATAGTATATAGTTTTTAGAAAAAAA
1 ATATAT-ATAGTATATAGTTTTTAGAAAAAAA
35419 ATATATATAGTATATAGTTTTTAGAAAA
1 ATATATATAGTATATAGTTTTTAGAAAA
35447 CAATATAGTT
Statistics
Matches: 51, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
26 1 0.02
27 20 0.39
31 29 0.57
32 1 0.02
ACGTcount: A:0.47, C:0.01, G:0.09, T:0.43
Consensus pattern (31 bp):
ATATATATAGTATATAGTTTTTAGAAAAAAA
Found at i:35465 original size:31 final size:31
Alignment explanation
Indices: 35399--35465 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
35389 TATTCATAGT
**
35399 ATATAGTTTTTAGAAAAAAAATATATATAGT
1 ATATAGTTTTTAGAAAAAAAATATATATAAA
* *
35430 ATATAGTTTTTAG-AAAACAATATAGTTTAAA
1 ATATAGTTTTTAGAAAAAAAATATA-TATAAA
35461 ATATA
1 ATATA
35466 TATAATATAG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 10 0.32
31 21 0.68
ACGTcount: A:0.51, C:0.01, G:0.09, T:0.39
Consensus pattern (31 bp):
ATATAGTTTTTAGAAAAAAAATATATATAAA
Found at i:35485 original size:33 final size:35
Alignment explanation
Indices: 35448--35551 Score: 115
Period size: 38 Copynumber: 2.9 Consensus size: 35
35438 TTTAGAAAAC
35448 AATATAGTTTAAAATAT-ATATAATATAGT-TTTA
1 AATATAGTTTAAAATATAATATAATATAGTATTTA
*
35481 AATATAGTTTTAAAA-ATAAGTATATATATAATATTTA
1 AATATAG-TTTAAAATATAA-TATA-ATATAGTATTTA
*
35518 ATATAGTATTTTAAAATATAAATATAATATAGTA
1 A-ATA-TAGTTTAAAATAT-AATATAATATAGTA
35552 CATGTTTTCG
Statistics
Matches: 59, Mismatches: 3, Indels: 13
0.79 0.04 0.17
Matches are distributed among these distances:
33 9 0.15
34 8 0.14
35 4 0.07
36 6 0.10
37 5 0.08
38 17 0.29
39 8 0.14
40 2 0.03
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (35 bp):
AATATAGTTTAAAATATAATATAATATAGTATTTA
Found at i:35505 original size:39 final size:38
Alignment explanation
Indices: 35461--35551 Score: 109
Period size: 37 Copynumber: 2.4 Consensus size: 38
35451 ATAGTTTAAA
35461 ATATATATAATATAGT-TTTAAATATAGT-TTTAAAAAT
1 ATATATATAATATAGTATTT-AATATAGTATTTAAAAAT
* *
35498 A-AGTATAT-ATATAATATTTAATATAGTATTTTAAAAT
1 ATA-TATATAATATAGTATTTAATATAGTATTTAAAAAT
*
35535 ATAAATATAATATAGTA
1 ATATATATAATATAGTA
35552 CATGTTTTCG
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
36 15 0.33
37 22 0.49
38 8 0.18
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (38 bp):
ATATATATAATATAGTATTTAATATAGTATTTAAAAAT
Found at i:37613 original size:2 final size:2
Alignment explanation
Indices: 37606--37668 Score: 117
Period size: 2 Copynumber: 31.5 Consensus size: 2
37596 GTAAATCATG
37606 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
37648 TA TA TA TA TA TA TA TT TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
37669 GCACATGTGC
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:38427 original size:17 final size:19
Alignment explanation
Indices: 38392--38431 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
38382 CACATACCTC
*
38392 AAATTTGTTGTTTTAATTA
1 AAATTTATTGTTTTAATTA
38411 AAATTTATT-TTTT-ATTA
1 AAATTTATTGTTTTAATTA
38428 AAAT
1 AAAT
38432 GACAAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
18 4 0.20
19 8 0.40
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (19 bp):
AAATTTATTGTTTTAATTA
Found at i:45367 original size:19 final size:20
Alignment explanation
Indices: 45328--45367 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
45318 TAAGTGTTAA
*
45328 TGAATTTTAAGATTTTATAT
1 TGAATTTTAAGATTATATAT
45348 TGAATTTTAA-ATTATATAT
1 TGAATTTTAAGATTATATAT
45367 T
1 T
45368 CGATTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (20 bp):
TGAATTTTAAGATTATATAT
Found at i:45668 original size:74 final size:74
Alignment explanation
Indices: 45533--45718 Score: 250
Period size: 74 Copynumber: 2.5 Consensus size: 74
45523 TAAATAGGGA
*
45533 GGTACCGATACCCCTCATAGGGTGTACCGATACTCCTATGCCAACTTTAGTTCCGAGAAAAACAA
1 GGTACCGATACCCCTCATA-GG-GTACCGATACTCCTATGCCAACTTTAGCTCCGAGAAAAACAA
45598 AATGCCCAATG
64 AATGCCCAATG
* * * * * *
45609 GGTACCGATACCCCTCATAGGGTACCGATACCCCTAT-CTAATTTTTGGCTCTGAGAAAAACAGA
1 GGTACCGATACCCCTCATAGGGTACCGATACTCCTATGCCAA-CTTTAGCTCCGAGAAAAACAAA
45673 ATGCCCAATG
65 ATGCCCAATG
*
45683 GGTACCGATACCCC-CTTAGAGGTACCGATACTCCTA
1 GGTACCGATACCCCTCATAG-GGTACCGATACTCCTA
45719 GTCATTTAAC
Statistics
Matches: 99, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
73 7 0.07
74 71 0.72
75 2 0.02
76 19 0.19
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (74 bp):
GGTACCGATACCCCTCATAGGGTACCGATACTCCTATGCCAACTTTAGCTCCGAGAAAAACAAAA
TGCCCAATG
Found at i:51220 original size:21 final size:21
Alignment explanation
Indices: 51194--51275 Score: 78
Period size: 21 Copynumber: 3.9 Consensus size: 21
51184 TTTGGGCACC
51194 AGGTATCGATACCCCCTTTAT
1 AGGTATCGATACCCCCTTTAT
* * **
51215 AGGTATTGATAACCCCTTGCT
1 AGGTATCGATACCCCCTTTAT
*
51236 AGGTATCGATA-CCCCTTCA-
1 AGGTATCGATACCCCCTTTAT
*
51255 ATGTGTATCGATACACCCTTT
1 A-G-GTATCGATACCCCCTTT
51276 GAATGTGTAT
Statistics
Matches: 49, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
19 1 0.02
20 7 0.14
21 36 0.73
22 5 0.10
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.33
Consensus pattern (21 bp):
AGGTATCGATACCCCCTTTAT
Found at i:51280 original size:23 final size:22
Alignment explanation
Indices: 51238--51295 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 22
51228 CCCTTGCTAG
51238 GTATCGATACCCC-TTCAATGT
1 GTATCGATACCCCTTTCAATGT
*
51259 GTATCGATACACCCTTTGAATGT
1 GTATCGATAC-CCCTTTCAATGT
*
51282 GTATCAATACCCCT
1 GTATCGATACCCCT
51296 ATAAGGGTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 10 0.30
22 7 0.21
23 16 0.48
ACGTcount: A:0.26, C:0.28, G:0.14, T:0.33
Consensus pattern (22 bp):
GTATCGATACCCCTTTCAATGT
Found at i:52865 original size:55 final size:55
Alignment explanation
Indices: 52801--55944 Score: 4476
Period size: 55 Copynumber: 57.1 Consensus size: 55
52791 GTGGAGTGAA
* * *
52801 TCCAAAGATTTTTCGAGTCTTATCTCCCTAAAAGAAGAGTGGAGAAGACACGTCT
1 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCT
* * * **
52856 TCCAAAGATTTTTCGAGTCTTATCTCCCTAAAAGAAAAGTGGAGTAGACCTTTCT
1 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCT
* * * * *
52911 TCCAAAGATTTTTCGAGTCTTATCTACCTAAAAGAATAGTGTAGCAGACTCGTCT
1 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCT
* * * *
52966 TCCAAAGATTTTTCGAGTCTTATCTCCCTAAAAAAATAGTGGAGCAGACACGTCT
1 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCT
* * ** *
53021 TCCAAAGATTTTTCGAGTCTTATCTACTTGTTAGAAGAGTGGAGCGGACCCGTCT
1 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCT
* * * * * *
53076 TCCAAATATTTTTTGATTTTTATCTCACT-AAAGGAAGAGTGGAGTAGACCCGTCT
1 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAA-GAAGAGTGGAGCAGACCCGTCT
*
53131 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAAGGAGAGTGGAGCAGACCCGTCT
1 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCT
* *
53186 TCAAAATATTTTTCGAGTCTTATCTCCCTGAAAAAAGAAGAGTGGAGCAGACCCGTCT
1 TCCAAAGATTTTTCGAGTCTTATCTCCCTG---AAAGAAGAGTGGAGCAGACCCGTCT
* * * *
53244 TCCAAAGATTTTACGAGTCTTATCTCCCTAAAAGAATAGTGGAGCAGACTCGTCT
1 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCT
* *
53299 TCCAAAGATTTTTTGAGTCTTATCTCCATGAAAGAAGAGTGGAGCAGACCCGTCT
1 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCT
* * * * * *
53354 TCCAACGATTTTTCGAGTCTTATCTCCTTAAAAAAATAGTGGAGCAGACACGTCT
1 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCT
* ** *
53409 TCCAATGATTTTTTTAGTCTTATCTCCCTGATAGAAGAGTGGAGCAGACCCGTCT
1 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCT
* * * * **
53464 TCCAAATATTTTTCGAGTTTTATCTCACT-AAAGGAAGAGTGAAATAGACCCGTCT
1 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAA-GAAGAGTGGAGCAGACCCGTCT
* *
53519 TCCAAATATTTTTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCAGTCT
1 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCT
* * * * * *
53574 TCAAAATATTTTTTGAGTCTTATCTCCCTAAAAGAAGTGTGGATCAGACCCGTCT
1 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCT
*
53629 TCCAAAGATTTTTCAAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCT
1 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCT
* *
53684 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAAGAATAGTGGAGCAGACCCGTAT
1 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCT
* * *
53739 TCCAAAGATTTTTTGAGTCTTATCTCCATGAAAGAAGAGTGGAGCAGACCCGTCA
1 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCT
* *
53794 TCCAAAGATTTTTCGAGTCTTATATCCTTGAAAGAAGAGTGGAGCAGACCCGTCT
1 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCT
* * *
53849 TCTAAAGATTTTTCGAGTCTTATCTCCCTG-AAGAAAGAGTGGAGCATAACCGTCT
1 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAAG-AAGAGTGGAGCAGACCCGTCT
* **
53904 TCCAAAGATTTTTTGAGTCTTATCTCTATGAAAGAAGAGTGGAGCAGACCCGTCT
1 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCT
* * * * *
53959 TCCAAAGATTTTTCGAGTCTTATCTTCCT-AAGAAAATAATGGAGCAGACACGTCT
1 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAA-AGAAGAGTGGAGCAGACCCGTCT
54014 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCT
1 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCT
* * * * ** *
54069 TCCAAATATTTTTCGAGTTTTATCTCACT-AAAGGAAGAGTAGAATAGAACCGTCT
1 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAA-GAAGAGTGGAGCAGACCCGTCT
* * *
54124 TCCAAATAGTTTTCGAGTCTTATCTCCCTGAAAGGAGAGTGGAGCAGACCCGTCT
1 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCT
* * * *
54179 TCAAAATATTTTTCGAGTCTTATCTCCCTGAAAGAAGTGTGGATCAGACCCGTCT
1 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCT
*
54234 TCCAAAGATTTTTCGAGTCTTATCTCCTTGAAAGAAGAGTGGAGCAGACCCGTCT
1 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCT
*
54289 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAAGAATAGTGGAGCAGACCCGTCT
1 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCT
* * *
54344 TCCAAAGATTTTTCGAGTCTTATCTCCCT-AAGAAAATAGTGGAGCAGACACGTCT
1 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAA-AGAAGAGTGGAGCAGACCCGTCT
* *
54399 TCCAAAGATTTTTCGAGTCTTATCTACCTGATAGAAGAGTGGAGCAGACCCGTCT
1 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCT
* * * *
54454 TCCAAATATTTTTCGAGTTTTATCTCACT-AAAGGAAGAGTGGAGTAGACCCGTCT
1 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAA-GAAGAGTGGAGCAGACCCGTCT
* * **
54509 TCCAAAGATTTTTCGAGTCTTATCTCCTTGAAAGGAGAGTGGAGCAGACTTGTCT
1 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCT
* * * **
54564 TCAAAATATTTTTCGAGTCTTATCTCCCTGAAAGAAGTGTGGATTAGACCCGTCT
1 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCT
*
54619 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAAACCCGTCT
1 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCT
* * *
54674 TCTAAAGATTTTTCGAGTCTTATCTCCCTGAAAGAATAGTGGAGCAGACTCGTCT
1 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCT
* *
54729 TCCAAAGATTTTTTGAGTCTTATCTCCATGAAAGAAGAGTGGAGCAGACCCGTCT
1 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCT
* * * *
54784 TCCAAAGATTTTTCGAGTCTTATCTCCCTAAAAAAATAGTGGAGCAGACACGTCT
1 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCT
* *
54839 TCCAAATATTTTTTGAGTCTTATCTCCCT-AATAGAAGAGTGGAGCAGACCCGTCT
1 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAA-AGAAGAGTGGAGCAGACCCGTCT
* * * **
54894 TCCAAATATTTTTCGAGTTTTATCTCACT-AAAGGAAGAGTGGAATAGACCCGTCT
1 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAA-GAAGAGTGGAGCAGACCCGTCT
* * *
54949 TCCAAATATTTTTCGAGTCTTATCTCCCTGAAAGGAGAGTGGAGCAGACCAGTCT
1 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCT
* * * ** *
55004 TCAAAATATTTTTCGAGTCTTATCTCCCTGAAAGAAGTGTGGATTAGACCCATCT
1 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCT
55059 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCT
1 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCT
* *
55114 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAAGAATAGTGGAGCAGACCCGTAT
1 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCT
* * *
55169 TCCAAAGATTTTTTGAGTCTTATCTCCATGAAAGAAGAGTGGAGCAGACCCGTCA
1 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCT
55224 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCT
1 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCT
*
55279 TCTAAAGATTTTTCGAGTCTTATCTCCCTG-AAGAAAGAGTGGAGCAGACCCGTCT
1 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAAG-AAGAGTGGAGCAGACCCGTCT
* *
55334 TCCAAAGATTTTTTGAGTCTTATCTCCATGAAAGAAGAGTGGAGCAGACCCGTCT
1 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCT
* * * * *
55389 TCCAAAGATTTTTCGAGTCTTATCTCCCTAAAAAAATAGTGTAGCAGACACGTCT
1 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCT
*
55444 TCCAAAGATTTTTCGAGTCTTATCTCCCTGATAGAAGAGTGGAGCAGACCCGTCT
1 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCT
* * * * **
55499 TCCAAATATTTTTCGAGTTTTATCTCACT-AAAGGAAGAGTGAAATAGACCCGTCT
1 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAA-GAAGAGTGGAGCAGACCCGTCT
* *
55554 TCCAAATATTTTTCGAGTCTTATCTCCCTGAAAGGAGAGTGGAGCAGACCCGTCT
1 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCT
* * * *
55609 TCAAAATATTTTTCGAGTCTTATCTCCCTGAAAGAAGTGTGGATCAGACCCGTCT
1 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCT
* *
55664 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAAGAAAAATGGAGCAGACCCGTCT
1 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCT
* *
55719 TTCAAAGATTTTTCGAGTCTTATCTCCCTGAAAGAATAGTGGAGCAGACCCGTCT
1 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCT
* * * *
55774 TCCAAAGATTTTTTGAGTCTTATCTCCATGAAAGAAGAGTGGAACAGACCCGTCA
1 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCT
55829 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCT
1 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCT
* * *
55884 TCCAAAGATTTTTCGAGTGTTATCTCCCTG-AAGAAAGAGTGGAGGAGACCCATCT
1 TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAAG-AAGAGTGGAGCAGACCCGTCT
55939 TCCAAA
1 TCCAAA
55945 ATTGATCTGA
Statistics
Matches: 2752, Mismatches: 312, Indels: 50
0.88 0.10 0.02
Matches are distributed among these distances:
54 26 0.01
55 2649 0.96
56 27 0.01
58 50 0.02
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (55 bp):
TCCAAAGATTTTTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCT
Found at i:56284 original size:28 final size:28
Alignment explanation
Indices: 56253--56420 Score: 205
Period size: 28 Copynumber: 6.3 Consensus size: 28
56243 ATAGTATAAT
*
56253 AATATATATAGCATATAGTTTTTAGAAA
1 AATATATATAGTATATAGTTTTTAGAAA
56281 AATATATATAGTATATAGTTTTTAG-AA
1 AATATATATAGTATATAGTTTTTAGAAA
56308 AA-ATATATAGTATATAG-TTTTAGAAA
1 AATATATATAGTATATAGTTTTTAGAAA
*
56334 AATATATATAGTATATA-----T--ATA
1 AATATATATAGTATATAGTTTTTAGAAA
*
56355 TATATATATAGTATATAGTTTTTAGAAAA
1 AATATATATAGTATATAGTTTTTAG-AAA
*
56384 AACATATATAGTATATAGTTTTTAG-AA
1 AATATATATAGTATATAGTTTTTAGAAA
56411 AATAATATAT
1 AAT-ATATAT
56421 TTTAAAATAT
Statistics
Matches: 122, Mismatches: 7, Indels: 22
0.81 0.05 0.15
Matches are distributed among these distances:
21 18 0.15
23 1 0.01
25 6 0.05
26 20 0.16
27 22 0.18
28 30 0.25
29 25 0.20
ACGTcount: A:0.48, C:0.01, G:0.10, T:0.42
Consensus pattern (28 bp):
AATATATATAGTATATAGTTTTTAGAAA
Found at i:56340 original size:2 final size:2
Alignment explanation
Indices: 56335--56371 Score: 56
Period size: 2 Copynumber: 17.5 Consensus size: 2
56325 TTTTAGAAAA
56335 AT AT AT AT AGT AT AT AT AT AT AT AT AT AT AGT AT AT A
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT AT A-T AT AT A
56372 GTTTTTAGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 29 0.88
3 4 0.12
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (2 bp):
AT
Found at i:56392 original size:29 final size:28
Alignment explanation
Indices: 56358--56420 Score: 108
Period size: 29 Copynumber: 2.2 Consensus size: 28
56348 ATATATATAT
56358 ATATATAGTATATAGTTTTTAGAAAAAA
1 ATATATAGTATATAGTTTTTAGAAAAAA
*
56386 CATATATAGTATATAGTTTTTAGAAAATA
1 -ATATATAGTATATAGTTTTTAGAAAAAA
56415 ATATAT
1 ATATAT
56421 TTTAAAATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 6 0.18
29 27 0.82
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.41
Consensus pattern (28 bp):
ATATATAGTATATAGTTTTTAGAAAAAA
Found at i:56413 original size:77 final size:72
Alignment explanation
Indices: 56282--56442 Score: 225
Period size: 74 Copynumber: 2.2 Consensus size: 72
56272 TTTTAGAAAA
56282 ATATATATAGTATATAGTTTTTAGAAAAATATATAGTATATAGTTTTAGAAAAATATATATAGTA
1 ATATATATAGTATATAGTTTTTAGAAAAATATATAGTATATAGTTTTAGAAAAATA-ATATAGTA
*
56347 TATATATAT
65 TA-AAATAT
56356 ATATATATAGTATATAGTTTTTAGAAAAAACATATATAGTATATAGTTTTTAG-AAAATAATATA
1 ATATATATAGTATATAGTTTTTAG--AAAA-ATATATAGTATATAG-TTTTAGAAAAATAATATA
* *
56420 TTTTAAAATAT
62 GTATAAAATAT
56431 ATATAATATAGT
1 ATAT-ATATAGT
56443 TTTTAAATAT
Statistics
Matches: 79, Mismatches: 3, Indels: 8
0.88 0.03 0.09
Matches are distributed among these distances:
74 24 0.30
75 9 0.11
76 19 0.24
77 21 0.27
78 6 0.08
ACGTcount: A:0.48, C:0.01, G:0.09, T:0.43
Consensus pattern (72 bp):
ATATATATAGTATATAGTTTTTAGAAAAATATATAGTATATAGTTTTAGAAAAATAATATAGTAT
AAAATAT
Found at i:56436 original size:21 final size:22
Alignment explanation
Indices: 56412--56453 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
56402 TTTTTAGAAA
56412 ATAATATA-TTTTAAAATATAT
1 ATAATATAGTTTTAAAATATAT
*
56433 ATAATATAGTTTTTAAATATA
1 ATAATATAGTTTTAAAATATA
56454 GTTTTAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
ATAATATAGTTTTAAAATATAT
Found at i:56481 original size:51 final size:53
Alignment explanation
Indices: 56396--56504 Score: 129
Period size: 51 Copynumber: 2.1 Consensus size: 53
56386 CATATATAGT
*
56396 ATATAGTTTTTAGAAAATAATATATTTTAAAATATATATAATATAGT-TTTT-AA
1 ATATAGTTTTTAGAAAATAATATATTAT-AAA-ATATATAATATAGTATTTTAAA
* *
56449 ATATAG-TTTTA-AAAATAAGTATA-TATATAATATGTAATATAGTATTTTAAA
1 ATATAGTTTTTAGAAAATAA-TATATTATAAAATATATAATATAGTATTTTAAA
56500 ATATA
1 ATATA
56505 AATATAATAT
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
49 13 0.26
50 6 0.12
51 16 0.32
52 9 0.18
53 6 0.12
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (53 bp):
ATATAGTTTTTAGAAAATAATATATTATAAAATATATAATATAGTATTTTAAA
Found at i:58604 original size:2 final size:2
Alignment explanation
Indices: 58597--58643 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
58587 GTAAATCATG
*
58597 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
58639 TA TA T
1 TA TA T
58644 GTGCATGTGC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:59801 original size:69 final size:69
Alignment explanation
Indices: 59712--59945 Score: 245
Period size: 69 Copynumber: 3.4 Consensus size: 69
59702 TATGATAATA
* *
59712 TGCTCCCTTGTGAGTCACTCTAATCCTTT-GGAGCTTCCGTGCGAGTCAACCAAAATAATTACGA
1 TGCTCCCGTGCGAGTCACTCTAATCCTTTGGGA-CTTCCGTGCGAGTCAACCAAAATAATTACGA
59776 TTAGG
65 TTAGG
* * * ** * ** * * *
59781 TGCTCTCGTGCAAGTCACTCTAATCCTTCGGGACACCCCTGTAAGTCACCCGAAATAATTACAAT
1 TGCTCCCGTGCGAGTCACTCTAATCCTTTGGGACTTCCGTGCGAGTCAACCAAAATAATTACGAT
59846 TAGG
66 TAGG
* * * * * * * *
59850 TACTCCCGTGTGAGTCACTCTAATCCTTTGGGAATTTCGAGCGAGTCAACCAGAACAATCACGAT
1 TGCTCCCGTGCGAGTCACTCTAATCCTTTGGGACTTCCGTGCGAGTCAACCAAAATAATTACGAT
59915 TAGG
66 TAGG
* *
59919 TGTTCCCTTGCGAGTCACTCTAATCCT
1 TGCTCCCGTGCGAGTCACTCTAATCCT
59946 ACGAGGCTCC
Statistics
Matches: 128, Mismatches: 36, Indels: 2
0.77 0.22 0.01
Matches are distributed among these distances:
69 125 0.98
70 3 0.02
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (69 bp):
TGCTCCCGTGCGAGTCACTCTAATCCTTTGGGACTTCCGTGCGAGTCAACCAAAATAATTACGAT
TAGG
Found at i:60228 original size:76 final size:75
Alignment explanation
Indices: 60141--60355 Score: 288
Period size: 76 Copynumber: 2.8 Consensus size: 75
60131 ACAATTCTAG
* * *
60141 CAGTGAAACTTAACATTGACTTACGCGAGTGAAATGAATACATAATTCTAACACTAAACTTATGA
1 CAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCTAACACTAAACTTAT-A
60206 CATGATTTCAA
65 CATGATTTCAA
** * * *
60217 CAGTGAAACTTAACATTGACTTACAATAGTGAAATGAATACGTGATTCTAGCACCAAACTTAATA
1 CAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCTAACACTAAACTT-ATA
*
60282 CATGATTTCAG
65 CATGATTTCAA
* * *
60293 TAGTGAAATTTAACATTGACCTACACCAGTGAAATGAATACGTAATTCTAGA-ACTAAACTTAT
1 CAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCTA-ACACTAAACTTAT
60356 CACGTAATTC
Statistics
Matches: 121, Mismatches: 16, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
75 2 0.02
76 117 0.97
77 2 0.02
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.29
Consensus pattern (75 bp):
CAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCTAACACTAAACTTATAC
ATGATTTCAA
Found at i:60366 original size:25 final size:25
Alignment explanation
Indices: 60332--60380 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
60322 TGAAATGAAT
60332 ACGTAATTCTAGA-ACTAAACTTATC
1 ACGTAATTCTA-ACACTAAACTTATC
60357 ACGTAATTCTAACACTAAACTTAT
1 ACGTAATTCTAACACTAAACTTAT
60381 GACATGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 1 0.04
25 22 0.96
ACGTcount: A:0.41, C:0.20, G:0.06, T:0.33
Consensus pattern (25 bp):
ACGTAATTCTAACACTAAACTTATC
Found at i:60436 original size:101 final size:101
Alignment explanation
Indices: 60256--60455 Score: 276
Period size: 101 Copynumber: 2.0 Consensus size: 101
60246 TGAAATGAAT
* * ** * *
60256 ACGTGATTCTAGCACCAAACTTAATACATGATTTCAGTAGTGAAATTTAACATTGACCTACACCA
1 ACGTAATTCTAACACCAAACTTAATACATGATTTCAACAGTGAAACTTAACATTGACCTACAACA
*
60321 GTGAAATGAATACGTAATTCTAGAACTAAACTTATC
66 GTGAAATGAATACGTAATTCTAGAACCAAACTTATC
* * *
60357 ACGTAATTCTAACACTAAACTT-ATGACATGATTTCAACAGTGAAACTTAACATTGACTTACAAT
1 ACGTAATTCTAACACCAAACTTAAT-ACATGATTTCAACAGTGAAACTTAACATTGACCTACAAC
* *
60421 AGTGAAATGAATACGTGATTCTAGCACCAAACTTA
65 AGTGAAATGAATACGTAATTCTAGAACCAAACTTA
60456 ATACATGATT
Statistics
Matches: 86, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
100 2 0.02
101 84 0.98
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.29
Consensus pattern (101 bp):
ACGTAATTCTAACACCAAACTTAATACATGATTTCAACAGTGAAACTTAACATTGACCTACAACA
GTGAAATGAATACGTAATTCTAGAACCAAACTTATC
Found at i:60463 original size:76 final size:76
Alignment explanation
Indices: 60357--60733 Score: 418
Period size: 76 Copynumber: 5.0 Consensus size: 76
60347 TAAACTTATC
* * * **
60357 ACGTAATTCTAACACTAAACTTATGACATGATTTCAACAGTGAAACTTAACATTGACTTACAATA
1 ACGTAATTCTAGCACTAAACTTATCACATAATTTCAACAGTGAAACTTAACATTGACTTACACCA
60422 GTGAAATGAAT
66 GTGAAATGAAT
* * * ** *
60433 ACGTGATTCTAGCACCAAACTTAAT-ACATGATTTCAGTAGTGAAACTTAACATTGACCTACACC
1 ACGTAATTCTAGCACTAAACTT-ATCACATAATTTCAACAGTGAAACTTAACATTGACTTACACC
60497 AGTGAAATGAAT
65 AGTGAAATGAAT
* * * * * *
60509 ACGTAATTCTAGAACTAAACTTATCACGTAATTTCAGCAGTGAAAGTTAACATTGATTTATACCA
1 ACGTAATTCTAGCACTAAACTTATCACATAATTTCAACAGTGAAACTTAACATTGACTTACACCA
60574 GTGAAATGAAT
66 GTGAAATGAAT
* * * * *
60585 ACGTAATTCCAGCGCTAAACTTATCACATAATTCCAATAGTGAAACTTAACATTAACTTACACCA
1 ACGTAATTCTAGCACTAAACTTATCACATAATTTCAACAGTGAAACTTAACATTGACTTACACCA
**
60650 ACGAAATGAAT
66 GTGAAATGAAT
* * * * * * * *
60661 ATGTAATTAC-AACACAAAACTTATCAAATAATTCCAGCAATGAAATTTAACATTGACTTACACT
1 ACGTAATT-CTAGCACTAAACTTATCACATAATTTCAACAGTGAAACTTAACATTGACTTACAC-
60725 C-GTGAAATG
64 CAGTGAAATG
60734 TGTCGACACT
Statistics
Matches: 254, Mismatches: 43, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
75 2 0.01
76 248 0.98
77 4 0.02
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (76 bp):
ACGTAATTCTAGCACTAAACTTATCACATAATTTCAACAGTGAAACTTAACATTGACTTACACCA
GTGAAATGAAT
Found at i:60485 original size:177 final size:177
Alignment explanation
Indices: 60183--60541 Score: 709
Period size: 177 Copynumber: 2.0 Consensus size: 177
60173 AATGAATACA
60183 TAATTCTAACACTAAACTTATGACATGATTTCAACAGTGAAACTTAACATTGACTTACAATAGTG
1 TAATTCTAACACTAAACTTATGACATGATTTCAACAGTGAAACTTAACATTGACTTACAATAGTG
*
60248 AAATGAATACGTGATTCTAGCACCAAACTTAATACATGATTTCAGTAGTGAAATTTAACATTGAC
66 AAATGAATACGTGATTCTAGCACCAAACTTAATACATGATTTCAGTAGTGAAACTTAACATTGAC
60313 CTACACCAGTGAAATGAATACGTAATTCTAGAACTAAACTTATCACG
131 CTACACCAGTGAAATGAATACGTAATTCTAGAACTAAACTTATCACG
60360 TAATTCTAACACTAAACTTATGACATGATTTCAACAGTGAAACTTAACATTGACTTACAATAGTG
1 TAATTCTAACACTAAACTTATGACATGATTTCAACAGTGAAACTTAACATTGACTTACAATAGTG
60425 AAATGAATACGTGATTCTAGCACCAAACTTAATACATGATTTCAGTAGTGAAACTTAACATTGAC
66 AAATGAATACGTGATTCTAGCACCAAACTTAATACATGATTTCAGTAGTGAAACTTAACATTGAC
60490 CTACACCAGTGAAATGAATACGTAATTCTAGAACTAAACTTATCACG
131 CTACACCAGTGAAATGAATACGTAATTCTAGAACTAAACTTATCACG
60537 TAATT
1 TAATT
60542 TCAGCAGTGA
Statistics
Matches: 181, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
177 181 1.00
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.30
Consensus pattern (177 bp):
TAATTCTAACACTAAACTTATGACATGATTTCAACAGTGAAACTTAACATTGACTTACAATAGTG
AAATGAATACGTGATTCTAGCACCAAACTTAATACATGATTTCAGTAGTGAAACTTAACATTGAC
CTACACCAGTGAAATGAATACGTAATTCTAGAACTAAACTTATCACG
Found at i:60589 original size:253 final size:253
Alignment explanation
Indices: 60141--60618 Score: 690
Period size: 253 Copynumber: 1.9 Consensus size: 253
60131 ACAATTCTAG
** *
60141 CAGTGAAACTTAACATTGACTTACGCGAGTGAAATGAATACATAATTCTAACACTAAACTTATGA
1 CAGTGAAACTTAACATTGACTTACAAGAGTGAAATGAATACATAATTCTAACACCAAACTTATGA
* * * *
60206 CATGATTTCAACAGTGAAACTTAACATTGACTTACAATAGTGAAATGAATACGTGATTCTAGCAC
66 CATGATTTCAACAGTGAAACTTAACATTGACCTACAACAGTGAAATGAATACGTAATTCTAGAAC
* * *
60271 CAAACTTAATACATGATTTCAGTAGTGAAATTTAACATTGACCTACACCAGTGAAATGAATACGT
131 CAAACTTAATACATAATTTCAGCAGTGAAAGTTAACATTGACCTACACCAGTGAAATGAATACGT
* *
60336 AATTCTAGAACTAAACTTATCACGTAATTCTAACACTAAACTTATGACATGATTTCAA
196 AATTCCAGAACTAAACTTATCACATAATTCTAACACTAAACTTATGACATGATTTCAA
* * * *
60394 CAGTGAAACTTAACATTGACTTACAATAGTGAAATGAATACGTGATTCTAGCACCAAACTTAAT-
1 CAGTGAAACTTAACATTGACTTACAAGAGTGAAATGAATACATAATTCTAACACCAAACTT-ATG
** *
60458 ACATGATTTCAGTAGTGAAACTTAACATTGACCTACACCAGTGAAATGAATACGTAATTCTAGAA
65 ACATGATTTCAACAGTGAAACTTAACATTGACCTACAACAGTGAAATGAATACGTAATTCTAGAA
* * ** *
60523 CTAAACTT-ATCACGTAATTTCAGCAGTGAAAGTTAACATTGATTTATACCAGTGAAATGAATAC
130 CCAAACTTAAT-ACATAATTTCAGCAGTGAAAGTTAACATTGACCTACACCAGTGAAATGAATAC
**
60587 GTAATTCCAGCGCTAAACTTATCACATAATTC
194 GTAATTCCAGAACTAAACTTATCACATAATTC
60619 CAATAGTGAA
Statistics
Matches: 197, Mismatches: 26, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
252 2 0.01
253 193 0.98
254 2 0.01
ACGTcount: A:0.40, C:0.18, G:0.13, T:0.29
Consensus pattern (253 bp):
CAGTGAAACTTAACATTGACTTACAAGAGTGAAATGAATACATAATTCTAACACCAAACTTATGA
CATGATTTCAACAGTGAAACTTAACATTGACCTACAACAGTGAAATGAATACGTAATTCTAGAAC
CAAACTTAATACATAATTTCAGCAGTGAAAGTTAACATTGACCTACACCAGTGAAATGAATACGT
AATTCCAGAACTAAACTTATCACATAATTCTAACACTAAACTTATGACATGATTTCAA
Found at i:71142 original size:134 final size:134
Alignment explanation
Indices: 70985--71828 Score: 844
Period size: 134 Copynumber: 6.3 Consensus size: 134
70975 AATCGAACTT
* * * * * *
70985 GATTCAATCTTCCATAAAGAACAGTGGAATGAATCAACATTTCCAAATATGATTTTCCCACTAGA
1 GATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACATTCCCAAATCTGATTTTCCCTCAAGA
* * * * * *
71050 AGAAGCGGAACAAATCCCTCTCTTTCAAAATTTGATCTTCCCTGAGTAAAAGTGGAAAAAGTCAG
66 AGAAGCGAAACATATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAAAAGTGGAACAAGTCTG
71115 CCTC
131 CCTC
*
71119 GATTCAATCTTCCCT-AAGTAACAGTGGAATGAATCAAC-TTCCTCAAATCTAATTTTCCCTCAA
1 GATTCAATCTTCCCTGAAG-AACAGTGGAATGAATCAACATTCC-CAAATCTGATTTTCCCTCAA
* * * ** * *
71182 GAAGAAGAGGAACATATCCCTCCCTTTTGAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTT
64 GAAGAAGCGAAACATATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAAAAGTGGAACAAGTC
71247 TGCCTC
129 TGCCTC
* * * * *
71253 CATTCAATCTTCCCTGAAGAACAGTTGAATGAATC-A-ATGTCCCTAGATATGATTTTACCTCAA
1 GATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACAT-TCCC-AAATCTGATTTTCCCTCAA
* * * * *
71316 GAAGAAGCTAAATAGATCCCTCTCTTTTAAGATTTGATATTCCCTGAGTAATAGTGGAACAAGTC
64 GAAGAAGCGAAACATATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAAAAGTGGAACAAGTC
*
71381 TGCCTT
129 TGCCTC
* * * * * *
71387 GATTCAATCTTCCCTAAAGAACATTGGAATGAATCAACGTCCCCAGATCTAATTTTCCCTCAAGA
1 GATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACATTCCCAAATCTGATTTTCCCTCAAGA
* * *
71452 AGAAGCGAAATATATCCCTCTCTTTCAAGATTTGATCTTCTCTGAAG-AACAA-TGGAACAAGTC
66 AGAAGCGAAACATATCCCTCTCTTTCAAGATTTGATATTCCCTG-AGTAA-AAGTGGAACAAGTC
71515 TGCCTC
129 TGCCTC
* * * *
71521 GATTCAATCTT-CCTGAAGAACAGTGGAATAAATCAACATTTCCAAATCTGATGTTCCCTCAAAA
1 GATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACATTCCCAAATCTGATTTTCCCTCAAGA
* * ** * * * * * * *
71585 AGCAA-CAGAACCGATCTCTTTATTTTTTTC-AGATTTGTTTTTCCCTAAGGAATAGTGGAACAA
66 AG-AAGC-GAAAC-ATATC--CCTCTCTTTCAAGATTTGATATTCCCTGAGTAAAAGTGGAACAA
**
71648 GTCTATCTC
126 GTCTGCCTC
* * * * * * * *
71657 GATTCAATCTTCCCTGAAGAATAGTGCAATGAATCAACATTTCTAGATCT-AGTTTTCCTTTAGG
1 GATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACATTCCCAAATCTGA-TTTTCCCTCAAG
* * * * * *
71721 AAGCAGTGAAACATATCCCTCTCTTTCAAGACTTGATTTTCCCTGAGTAACAGTGAAACAAGTCT
65 AAGAAGCGAAACATATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAAAAGTGGAACAAGTCT
71786 GCCTC
130 GCCTC
* * *
71791 GATTCAATCTTCTCTGAAGAATAGTGGAAAGAATCAAC
1 GATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAAC
71829 GTTTATGGAT
Statistics
Matches: 587, Mismatches: 102, Indels: 42
0.80 0.14 0.06
Matches are distributed among these distances:
133 61 0.10
134 408 0.70
135 21 0.04
136 48 0.08
137 49 0.08
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (134 bp):
GATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACATTCCCAAATCTGATTTTCCCTCAAGA
AGAAGCGAAACATATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAAAAGTGGAACAAGTCTG
CCTC
Found at i:71469 original size:268 final size:266
Alignment explanation
Indices: 70985--71828 Score: 942
Period size: 268 Copynumber: 3.1 Consensus size: 266
70975 AATCGAACTT
* * * *
70985 GATTCAATCTTCCATAAAGAACAGTGGAATGAATCAACATTTCCAAATATGATTTTCCCACTAGA
1 GATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACATTTCCAAATATGATTTTCCCTCAAGA
* * * * * * * *
71050 AGAAGCGGAACAAATCCCTCTCTTTCAAAATTTGATCTTCCCTGAGTAAAAGTGGAAAAAGTCAG
66 AGAAGC-AAACAGATCCCTCTCTTTTAAGATTTGATATTCCCTGAGTAATAGTGGAACAAGTCTG
* * *
71115 CCTCGATTCAATCTTCCCTAAGTAACAGTGGAATGAATCAACTTCCTCAAATCTAATTTTCCCTC
130 CCTCGATTCAATCTTCCCTAAG-AACAGTGGAATGAATCAACATCCCCAGATCTAATTTTCCCTC
* * **
71180 AAGAAGAAGAGGAACATATCCCTCCCTTTTGAGATTTGATATTCCCTGAGTAACAGTGGAACAAG
194 AAGAAGAAGAGAAACATATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAG
*
71245 TTTGCCTC
259 TCTGCCTC
* * * * *
71253 CATTCAATCTTCCCTGAAGAACAGTTGAATGAATC-A-ATGTCCCTAGATATGATTTTACCTCAA
1 GATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACAT-TTCC-AAATATGATTTTCCCTCAA
*
71316 GAAGAAGCTAAATAGATCCCTCTCTTTTAAGATTTGATATTCCCTGAGTAATAGTGGAACAAGTC
64 GAAGAAGC-AAACAGATCCCTCTCTTTTAAGATTTGATATTCCCTGAGTAATAGTGGAACAAGTC
* * *
71381 TGCCTTGATTCAATCTTCCCTAAAGAACATTGGAATGAATCAACGTCCCCAGATCTAATTTTCCC
128 TGCCTCGATTCAATCTTCCCT-AAGAACAGTGGAATGAATCAACATCCCCAGATCTAATTTTCCC
* * * * *
71446 TCAAGAAGAAGCGAAATATATCCCTCTCTTTCAAGATTTGATCTTCTCTGAAG-AACAATGGAAC
192 TCAAGAAGAAGAGAAACATATCCCTCTCTTTCAAGATTTGATATTCCCTG-AGTAACAGTGGAAC
71510 AAGTCTGCCTC
256 AAGTCTGCCTC
* * * *
71521 GATTCAATCTT-CCTGAAGAACAGTGGAATAAATCAACATTTCCAAATCTGATGTTCCCTCAAAA
1 GATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACATTTCCAAATATGATTTTCCCTCAAGA
* * * * * * * * *
71585 AGCAA-CAGAACCGATCTCTTTATTTTTTTCAGATTTGTTTTTCCCTAAGGAATAGTGGAACAAG
66 AG-AAGCA-AACAGATC-C-CT-CTCTTTTAAGATTTGATATTCCCTGAGTAATAGTGGAACAAG
** * * ** * *
71649 TCTATCTCGATTCAATCTTCCCTGAAGAATAGTGCAATGAATCAACATTTCTAGATCTAGTTTTC
126 TCTGCCTCGATTCAATCTTCCCT-AAGAACAGTGGAATGAATCAACATCCCCAGATCTAATTTTC
* * * * * * * *
71714 CTTTAGGAAGCAGTGAAACATATCCCTCTCTTTCAAGACTTGATTTTCCCTGAGTAACAGTGAAA
190 CCTCAAGAAGAAGAGAAACATATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAA
71779 CAAGTCTGCCTC
255 CAAGTCTGCCTC
* * *
71791 GATTCAATCTTCTCTGAAGAATAGTGGAAAGAATCAAC
1 GATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAAC
71829 GTTTATGGAT
Statistics
Matches: 483, Mismatches: 80, Indels: 23
0.82 0.14 0.04
Matches are distributed among these distances:
266 3 0.01
267 50 0.10
268 236 0.49
269 10 0.02
270 162 0.34
271 22 0.05
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (266 bp):
GATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACATTTCCAAATATGATTTTCCCTCAAGA
AGAAGCAAACAGATCCCTCTCTTTTAAGATTTGATATTCCCTGAGTAATAGTGGAACAAGTCTGC
CTCGATTCAATCTTCCCTAAGAACAGTGGAATGAATCAACATCCCCAGATCTAATTTTCCCTCAA
GAAGAAGAGAAACATATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTC
TGCCTC
Found at i:71801 original size:404 final size:402
Alignment explanation
Indices: 70985--71830 Score: 974
Period size: 404 Copynumber: 2.1 Consensus size: 402
70975 AATCGAACTT
* * ** * *
70985 GATTCAATCTTCCATAAAGAACAGTGGAATGAATCAACATTTCCAAATATGATTTTCCCACTAGA
1 GATTCAATCTTCCCTAAAGAACAGTGGAATGAATCAACGTCCCCAAATATAATTTTCCCACAAGA
*
71050 AGAAGCGGAACAAATCCCTCTCTTTCAAAATTTGATCTTCCCTGAGTAAAAGTGGAAAAAGTCAG
66 AGAAGCGAAACAAATCCCTCTCTTTCAAAATTTGATCTTCCCTGAGTAAAAGTGGAAAAAGTCAG
* *
71115 CCTCGATTCAATCTTCCCTAAGTAACAGTGGAATGAATCAACTTCCTCAAATCTAATTTTCCCTC
131 CCTCGATTCAATCTTCCCTAAGTAACAGTGGAATAAATCAACTTCCTCAAATCTAATGTTCCCTC
* * * * *
71180 AAGAAGAAGAGGAACATATCCCTCCCTTTTGAGATTTGATATTCCCTGAGTAACAGTGGAACAAG
196 AAAAAGAACAGGAACATATCCCTCCCTTTTCAGATTTGATATTCCCTAAGGAACAGTGGAACAAG
* * **
71245 TTTGCCTCCATTCAATCTTCCCTGAAGAACAGTTGAATGAATCAATGTCCCTAGATATGATTTTA
261 TCTACCTCCATTCAATCTTCCCTGAAGAACAGTTGAATGAATCAACATCCCTAGATATGATTTTA
* * * * *
71310 CCTCAAGAAGAAGCTAAATAGATCCCTCTCTTTTAAGATTTGATATTCCCTGAGTAATAGTGGAA
326 CCTCAAGAAGAAGCTAAACAGATCCCTCTCTTTCAAGACTTGATATTCCCTGAGTAACAGTGAAA
*
71375 CAAGTCTGCCTT
391 CAAGTCTGCCTC
* * * *
71387 GATTCAATCTTCCCTAAAGAACATTGGAATGAATCAACGTCCCCAGATCTAATTTTCCCTCAAGA
1 GATTCAATCTTCCCTAAAGAACAGTGGAATGAATCAACGTCCCCAAATATAATTTTCCCACAAGA
* * * * *
71452 AGAAGCGAAATATATCCCTCTCTTTCAAGATTTGATCTTCTCTGAAG-AACAA-TGGAACAAGTC
66 AGAAGCGAAACAAATCCCTCTCTTTCAAAATTTGATCTTCCCTG-AGTAA-AAGTGGAAAAAGTC
* * *
71515 TGCCTCGATTCAATCTT-CCTGAAG-AACAGTGGAATAAATCAACATTTC-CAAATCTGATGTTC
129 AGCCTCGATTCAATCTTCCCT-AAGTAACAGTGGAATAAATCAAC-TTCCTCAAATCTAATGTTC
* ** *** * * *
71577 CCTCAAAAAGCAACA-GAACCGATCTCTTTATTTTTTTCAGATTTGTTTTTCCCTAAGGAATAGT
192 CCTCAAAAAG-AACAGGAA-C-ATATCCCT-CCCTTTTCAGATTTGATATTCCCTAAGGAACAGT
* * * **
71641 GGAACAAGTCTATCTCGATTCAATCTTCCCTGAAGAATAG-TGCAATGAATCAACATTTCTAGAT
253 GGAACAAGTCTACCTCCATTCAATCTTCCCTGAAGAACAGTTG-AATGAATCAACATCCCTAGAT
* * * * * *
71705 CT-AGTTTT-CCTTTAGGAAGCAG-TGAAACATATCCCTCTCTTTCAAGACTTGATTTTCCCTGA
317 ATGA-TTTTACC-TCAAGAAGAAGCT-AAACAGATCCCTCTCTTTCAAGACTTGATATTCCCTGA
71767 GTAACAGTGAAACAAGTCTGCCTC
379 GTAACAGTGAAACAAGTCTGCCTC
* * * *
71791 GATTCAATCTTCTCTGAAGAATAGTGGAAAGAATCAACGT
1 GATTCAATCTTCCCTAAAGAACAGTGGAATGAATCAACGT
71831 TTATGGATCT
Statistics
Matches: 371, Mismatches: 61, Indels: 22
0.82 0.13 0.05
Matches are distributed among these distances:
401 45 0.12
402 132 0.36
403 15 0.04
404 179 0.48
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (402 bp):
GATTCAATCTTCCCTAAAGAACAGTGGAATGAATCAACGTCCCCAAATATAATTTTCCCACAAGA
AGAAGCGAAACAAATCCCTCTCTTTCAAAATTTGATCTTCCCTGAGTAAAAGTGGAAAAAGTCAG
CCTCGATTCAATCTTCCCTAAGTAACAGTGGAATAAATCAACTTCCTCAAATCTAATGTTCCCTC
AAAAAGAACAGGAACATATCCCTCCCTTTTCAGATTTGATATTCCCTAAGGAACAGTGGAACAAG
TCTACCTCCATTCAATCTTCCCTGAAGAACAGTTGAATGAATCAACATCCCTAGATATGATTTTA
CCTCAAGAAGAAGCTAAACAGATCCCTCTCTTTCAAGACTTGATATTCCCTGAGTAACAGTGAAA
CAAGTCTGCCTC
Found at i:72004 original size:3 final size:3
Alignment explanation
Indices: 71996--72035 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
71986 TTTTTTCCCG
71996 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA CTTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA T
72036 ATTTATTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.86
4 3 0.09
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:72632 original size:27 final size:25
Alignment explanation
Indices: 72581--72632 Score: 59
Period size: 27 Copynumber: 2.0 Consensus size: 25
72571 TTAAGGATTT
*
72581 GAAAAAAATAAAAGAAGAAACAGAG
1 GAAAAAAATAAAAGAAAAAACAGAG
* *
72606 GAAAAAATTGAAAAGGAAAAAAGAGAG
1 GAAAAAAAT-AAAA-GAAAAAACAGAG
72633 CAGTCAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 8 0.36
26 4 0.18
27 10 0.45
ACGTcount: A:0.69, C:0.02, G:0.23, T:0.06
Consensus pattern (25 bp):
GAAAAAAATAAAAGAAAAAACAGAG
Found at i:75937 original size:22 final size:22
Alignment explanation
Indices: 75909--75959 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
75899 GATGGAATAT
75909 GAGTGAAAGCTTAGAAAAGCTA
1 GAGTGAAAGCTTAGAAAAGCTA
75931 GAGTGAAAGCTTAGAAAAGCTA
1 GAGTGAAAGCTTAGAAAAGCTA
75953 GAGTGAA
1 GAGTGAA
75960 TTAAGTAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.45, C:0.08, G:0.29, T:0.18
Consensus pattern (22 bp):
GAGTGAAAGCTTAGAAAAGCTA
Found at i:81653 original size:5 final size:5
Alignment explanation
Indices: 81643--81676 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
81633 AATATATACC
81643 TATTT TATTT TATTT TATTT TATTT TATTT TATT
1 TATTT TATTT TATTT TATTT TATTT TATTT TATT
81677 ATATAAGAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TATTT
Found at i:82783 original size:28 final size:28
Alignment explanation
Indices: 82752--82808 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
82742 TAGAACTTGA
*
82752 AGTTTATGATGTAATTCATAGGATTTGG
1 AGTTCATGATGTAATTCATAGGATTTGG
* *
82780 AGTTCATGATGTAATTTATAGGGTTTGG
1 AGTTCATGATGTAATTCATAGGATTTGG
82808 A
1 A
82809 TTAAATTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.28, C:0.04, G:0.26, T:0.42
Consensus pattern (28 bp):
AGTTCATGATGTAATTCATAGGATTTGG
Found at i:83989 original size:7 final size:7
Alignment explanation
Indices: 83977--84001 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
83967 TCTGTAACAA
83977 TAATAAT
1 TAATAAT
83984 TAATAAT
1 TAATAAT
83991 TAATAAT
1 TAATAAT
83998 TAAT
1 TAAT
84002 GTTTCTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
TAATAAT
Found at i:88041 original size:29 final size:29
Alignment explanation
Indices: 88003--88187 Score: 86
Period size: 29 Copynumber: 6.3 Consensus size: 29
87993 CATTTTACAG
*
88003 AAATAGCACCATTTTTAAAATAATTACCA
1 AAATAGCACCATTTTCAAAATAATTACCA
* * * * *
88032 AAATAACACCCTTTTCGAATTAATTCCCA
1 AAATAGCACCATTTTCAAAATAATTACCA
*** * * *
88061 AAATAGCACCAAAATCGAATTAATTCCCA
1 AAATAGCACCATTTTCAAAATAATTACCA
* * *
88090 GAATATCACC-TTTTCCGAAAAAAATTACCA
1 AAATAGCACCATTTT-C-AAAATAATTACCA
* * * *
88120 AAATAACACCCA-TTTCGAATTAATTCCCA
1 AAATAGCA-CCATTTTCAAAATAATTACCA
* * *** * *
88149 GAATAACACCAAAATCAAATTAATTCCCA
1 AAATAGCACCATTTTCAAAATAATTACCA
*
88178 GAATAGCACC
1 AAATAGCACC
88188 GGTCAACGAT
Statistics
Matches: 120, Mismatches: 31, Indels: 10
0.75 0.19 0.06
Matches are distributed among these distances:
28 4 0.03
29 95 0.79
30 16 0.13
31 5 0.04
ACGTcount: A:0.45, C:0.24, G:0.05, T:0.25
Consensus pattern (29 bp):
AAATAGCACCATTTTCAAAATAATTACCA
Found at i:88159 original size:88 final size:88
Alignment explanation
Indices: 88019--88187 Score: 284
Period size: 88 Copynumber: 1.9 Consensus size: 88
88009 CACCATTTTT
* * * *
88019 AAAATAATTACCAAAATAACACCCTTTTCGAATTAATTCCCAAAATAGCACCAAAATCGAATTAA
1 AAAAAAATTACCAAAATAACACCCATTTCGAATTAATTCCCAAAATAACACCAAAATCAAATTAA
*
88084 TTCCCAGAATATCACCTTTTCCG
66 TTCCCAGAATAGCACCTTTTCCG
*
88107 AAAAAAATTACCAAAATAACACCCATTTCGAATTAATTCCCAGAATAACACCAAAATCAAATTAA
1 AAAAAAATTACCAAAATAACACCCATTTCGAATTAATTCCCAAAATAACACCAAAATCAAATTAA
88172 TTCCCAGAATAGCACC
66 TTCCCAGAATAGCACC
88188 GGTCAACGAT
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 75 1.00
ACGTcount: A:0.46, C:0.25, G:0.05, T:0.24
Consensus pattern (88 bp):
AAAAAAATTACCAAAATAACACCCATTTCGAATTAATTCCCAAAATAACACCAAAATCAAATTAA
TTCCCAGAATAGCACCTTTTCCG
Found at i:88239 original size:18 final size:18
Alignment explanation
Indices: 88216--88261 Score: 92
Period size: 18 Copynumber: 2.6 Consensus size: 18
88206 AACGGTCAAT
88216 GGTCGGGTCGGGTCAACG
1 GGTCGGGTCGGGTCAACG
88234 GGTCGGGTCGGGTCAACG
1 GGTCGGGTCGGGTCAACG
88252 GGTCGGGTCG
1 GGTCGGGTCG
88262 TGACCGGTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.09, C:0.22, G:0.52, T:0.17
Consensus pattern (18 bp):
GGTCGGGTCGGGTCAACG
Found at i:95716 original size:29 final size:29
Alignment explanation
Indices: 95563--95749 Score: 113
Period size: 29 Copynumber: 6.3 Consensus size: 29
95553 CATTTTACAG
* ** * *
95563 AAATAGCACCCTTTTTAAAATAATTACCA
1 AAATAGCACCCATTTCGAATTAATTCCCA
* *
95592 AAATAACACCCTTTTCGAATTAATTCCCA
1 AAATAGCACCCATTTCGAATTAATTCCCA
* * **
95621 AAATAACACCAAAATCGAATTAATTCCCA
1 AAATAGCACCCATTTCGAATTAATTCCCA
* * *** ** *
95650 GAATATCACTTTTTTTCCGAAAAAAATTACCA
1 AAATAGCAC-CCATTT-CG-AATTAATTCCCA
95682 AAATAGCACCCATTTCGAATTAATTCCCA
1 AAATAGCACCCATTTCGAATTAATTCCCA
* * ** * *
95711 GAATAGCACCAAAATCAAATTAATTCTCA
1 AAATAGCACCCATTTCGAATTAATTCCCA
*
95740 GAATAGCACC
1 AAATAGCACC
95750 GATCAACGGT
Statistics
Matches: 122, Mismatches: 33, Indels: 6
0.76 0.20 0.04
Matches are distributed among these distances:
29 98 0.80
30 3 0.02
31 5 0.04
32 16 0.13
ACGTcount: A:0.43, C:0.24, G:0.06, T:0.27
Consensus pattern (29 bp):
AAATAGCACCCATTTCGAATTAATTCCCA
Found at i:95742 original size:90 final size:90
Alignment explanation
Indices: 95579--95744 Score: 269
Period size: 90 Copynumber: 1.8 Consensus size: 90
95569 CACCCTTTTT
* * *
95579 AAAATAATTACCAAAATAACACCCTTTTCGAATTAATTCCCAAAATAACACCAAAATCGAATTAA
1 AAAAAAATTACCAAAATAACACCCATTTCGAATTAATTCCCAAAATAACACCAAAATCAAATTAA
95644 TTCCCAGAATATCACTTTTTTTCCG
66 TTCCCAGAATATCACTTTTTTTCCG
* * *
95669 AAAAAAATTACCAAAATAGCACCCATTTCGAATTAATTCCCAGAATAGCACCAAAATCAAATTAA
1 AAAAAAATTACCAAAATAACACCCATTTCGAATTAATTCCCAAAATAACACCAAAATCAAATTAA
*
95734 TTCTCAGAATA
66 TTCCCAGAATA
95745 GCACCGATCA
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
90 69 1.00
ACGTcount: A:0.45, C:0.22, G:0.05, T:0.27
Consensus pattern (90 bp):
AAAAAAATTACCAAAATAACACCCATTTCGAATTAATTCCCAAAATAACACCAAAATCAAATTAA
TTCCCAGAATATCACTTTTTTTCCG
Found at i:95801 original size:18 final size:17
Alignment explanation
Indices: 95771--95805 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
95761 AATGGACAAC
95771 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
95788 GGTCAACGGGTCGGGTCG
1 GGTCAAC-GGTCGGGTCG
95806 TGACCTGTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.11, C:0.23, G:0.49, T:0.17
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:98760 original size:29 final size:29
Alignment explanation
Indices: 98679--98762 Score: 150
Period size: 29 Copynumber: 2.9 Consensus size: 29
98669 TAAATTAATT
*
98679 ATGTCATTGCTTACATCAATTTACTTTTG
1 ATGTCATTGCTTACATCAATTTAGTTTTG
*
98708 ATGTCATTGATTACATCAATTTAGTTTTG
1 ATGTCATTGCTTACATCAATTTAGTTTTG
98737 ATGTCATTGCTTACATCAATTTAGTT
1 ATGTCATTGCTTACATCAATTTAGTT
98763 AGGTGCAAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.26, C:0.14, G:0.12, T:0.48
Consensus pattern (29 bp):
ATGTCATTGCTTACATCAATTTAGTTTTG
Found at i:101225 original size:77 final size:77
Alignment explanation
Indices: 101098--101254 Score: 269
Period size: 77 Copynumber: 2.0 Consensus size: 77
101088 GAAGAGTTTA
101098 ATGATGGTTTAAGCCTCAAGGCTAGGCTAGGAGAGATTTGGAGCATACTATTATTTTTAAATTCA
1 ATGATGGTTTAAGCCTCAAGGCTAGGCTAGGAGAGATTTGGAGCATACTATTATTTTTAAATTCA
*
101163 TTATTAGCACTT
66 TCATTAGCACTT
* *
101175 ATGATGGTTTAAGCCTCGAGGTTAGGCTAGGAGAGATTTGGAGCATACTATTATTTTTAAATTCA
1 ATGATGGTTTAAGCCTCAAGGCTAGGCTAGGAGAGATTTGGAGCATACTATTATTTTTAAATTCA
* *
101240 TCCTTGGCACTT
66 TCATTAGCACTT
101252 ATG
1 ATG
101255 TTATCATTTT
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
77 75 1.00
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.36
Consensus pattern (77 bp):
ATGATGGTTTAAGCCTCAAGGCTAGGCTAGGAGAGATTTGGAGCATACTATTATTTTTAAATTCA
TCATTAGCACTT
Found at i:102618 original size:30 final size:30
Alignment explanation
Indices: 102582--102642 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
102572 GATAATTGAT
*
102582 GTAATTGGGTTGGGTTTCCTTGATTTAGGA
1 GTAATTGGGTTGGGTTTCCTTAATTTAGGA
*
102612 GTAATTGGGTTGTGTTTCCTTAATTTAGGA
1 GTAATTGGGTTGGGTTTCCTTAATTTAGGA
102642 G
1 G
102643 ATTTTGTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.18, C:0.07, G:0.31, T:0.44
Consensus pattern (30 bp):
GTAATTGGGTTGGGTTTCCTTAATTTAGGA
Found at i:110587 original size:49 final size:49
Alignment explanation
Indices: 110527--110627 Score: 148
Period size: 49 Copynumber: 2.1 Consensus size: 49
110517 TTTGTGTTCG
* * **
110527 TAATTAGCATTCATTATTCTTTGAATTCTTTGAATTAATTGAACTTTAC
1 TAATTAACATTCATTATTATTTGAATTCTAAGAATTAATTGAACTTTAC
* *
110576 TAATTAACATTCATTATTATTTGAATTCTAAGAATTATTTTAACTTTAC
1 TAATTAACATTCATTATTATTTGAATTCTAAGAATTAATTGAACTTTAC
110625 TAA
1 TAA
110628 CTTACCTCTT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.35, C:0.11, G:0.06, T:0.49
Consensus pattern (49 bp):
TAATTAACATTCATTATTATTTGAATTCTAAGAATTAATTGAACTTTAC
Found at i:113227 original size:26 final size:27
Alignment explanation
Indices: 113178--113253 Score: 77
Period size: 26 Copynumber: 2.9 Consensus size: 27
113168 TATTCCAGGT
* *
113178 TTTAGAGGTACTTTAGGTC-ATTTACAC
1 TTTAGAGGCA-TTTTGGTCAATTTACAC
* *
113205 TTTA-AGTCATTTTGGTCAATTTACCC
1 TTTAGAGGCATTTTGGTCAATTTACAC
*
113231 TTTAGAGGCATTTTCGT-AATTTA
1 TTTAGAGGCATTTTGGTCAATTTA
113254 TCCATGTCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
25 7 0.17
26 20 0.49
27 14 0.34
ACGTcount: A:0.25, C:0.14, G:0.16, T:0.45
Consensus pattern (27 bp):
TTTAGAGGCATTTTGGTCAATTTACAC
Found at i:113809 original size:14 final size:14
Alignment explanation
Indices: 113790--113830 Score: 73
Period size: 14 Copynumber: 2.9 Consensus size: 14
113780 TGACTTGTTA
*
113790 GTCAAAGTCAACTG
1 GTCAAAGTCAACGG
113804 GTCAAAGTCAACGG
1 GTCAAAGTCAACGG
113818 GTCAAAGTCAACG
1 GTCAAAGTCAACG
113831 AGTTGACTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (14 bp):
GTCAAAGTCAACGG
Found at i:117352 original size:21 final size:19
Alignment explanation
Indices: 117324--117364 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
117314 CATTGCAGAA
117324 ATTTATGGCCTCAACGAAAG
1 ATTTATGGCCTCAAC-AAAG
*
117344 ATTTCATGGCCTCCACAAAG
1 ATTT-ATGGCCTCAACAAAG
117364 A
1 A
117365 CCTTGATGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
ATTTATGGCCTCAACAAAG
Found at i:126598 original size:309 final size:309
Alignment explanation
Indices: 126039--126625 Score: 1039
Period size: 309 Copynumber: 1.9 Consensus size: 309
126029 GATAAGTCTG
* * *
126039 AATATGTGAGGTTTTTTGCATTATATATAAATCAACATTTATTTTATTTTATTCCAGCATTCTGC
1 AATATGTGAGGTTGTTTGCATTATATATAAATCAACACTTATTTTATTTTATTCCAGCATTATGC
* * *
126104 ATACTTATTTTGCCTCGACCAAACTTTTTTGCAATCATTATATCACTTATTTGTTTTATTAATAT
66 ATACTTATTTTACCTCGACCAAACTTTTTTGCAATAATTATATCACTTATTTGTTTTATTAAAAT
*
126169 TAGTTCTTAAGTTGACAACCTAGTAGGAATTAGTTTGCGACACTAGTTCTAGTTGTGGTGAAGAT
131 TAGTTATTAAGTTGACAACCTAGTAGGAATTAGTTTGCGACACTAGTTCTAGTTGTGGTGAAGAT
126234 AAATTTCTAGACCAATCCCTGTGGAGACGATAACTCACTTACCCTATATTACTTGAATCGATTGT
196 AAATTTCTAGACCAATCCCTGTGGAGACGATAACTCACTTACCCTATATTACTTGAATCGATTGT
126299 GTATACTTGCACAGAATTTCTTGCCTTAGCATATACATTTACAAGCGAT
261 GTATACTTGCACAGAATTTCTTGCCTTAGCATATACATTTACAAGCGAT
* *
126348 AATATGTGAGGTTGTTTGCATTATATTTAAATCAATACTTATTTTATTTTATTCCAGCATTATGC
1 AATATGTGAGGTTGTTTGCATTATATATAAATCAACACTTATTTTATTTTATTCCAGCATTATGC
*
126413 ATACTTATTTTACCTCGACCAAACTTTTTTGCAATAATTATATCACTTCTTTGTTTTATTAAAAT
66 ATACTTATTTTACCTCGACCAAACTTTTTTGCAATAATTATATCACTTATTTGTTTTATTAAAAT
*
126478 TAGTTATTAAGTTGACAACCTAGTAGGAATTAGTTTGTGACACTAGTTCTAGTTGTGGTGAAGAT
131 TAGTTATTAAGTTGACAACCTAGTAGGAATTAGTTTGCGACACTAGTTCTAGTTGTGGTGAAGAT
* * * *
126543 AAATTTCTCGATCAATCCTTGTGGAGACGATAACTCACTTACCCTATATTACTTGAATTGATTGT
196 AAATTTCTAGACCAATCCCTGTGGAGACGATAACTCACTTACCCTATATTACTTGAATCGATTGT
126608 GTATACTTGCACAGAATT
261 GTATACTTGCACAGAATT
126626 GCTTCTGGTG
Statistics
Matches: 263, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
309 263 1.00
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (309 bp):
AATATGTGAGGTTGTTTGCATTATATATAAATCAACACTTATTTTATTTTATTCCAGCATTATGC
ATACTTATTTTACCTCGACCAAACTTTTTTGCAATAATTATATCACTTATTTGTTTTATTAAAAT
TAGTTATTAAGTTGACAACCTAGTAGGAATTAGTTTGCGACACTAGTTCTAGTTGTGGTGAAGAT
AAATTTCTAGACCAATCCCTGTGGAGACGATAACTCACTTACCCTATATTACTTGAATCGATTGT
GTATACTTGCACAGAATTTCTTGCCTTAGCATATACATTTACAAGCGAT
Found at i:128817 original size:12 final size:12
Alignment explanation
Indices: 128802--128839 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
128792 GAAAAATAAA
*
128802 AAGATTTCAAAG
1 AAGATTTAAAAG
128814 AAGATTTAAAAG
1 AAGATTTAAAAG
128826 AA-AGTTTAAAAG
1 AAGA-TTTAAAAG
128838 AA
1 AA
128840 AATTCATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 1 0.04
12 23 0.96
ACGTcount: A:0.58, C:0.03, G:0.16, T:0.24
Consensus pattern (12 bp):
AAGATTTAAAAG
Found at i:137469 original size:28 final size:26
Alignment explanation
Indices: 137435--137495 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 26
137425 TGATTATATG
137435 TTAGGGGTAAATTTCAATTTATAAAAT
1 TTAGGGGTAAA-TTCAATTTATAAAAT
* *
137462 TTCAGGGGTGAATTGAATTTATAAAAT
1 TT-AGGGGTAAATTCAATTTATAAAAT
137489 TTAGGGG
1 TTAGGGG
137496 CGAAAATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
26 5 0.16
27 18 0.58
28 8 0.26
ACGTcount: A:0.36, C:0.03, G:0.23, T:0.38
Consensus pattern (26 bp):
TTAGGGGTAAATTCAATTTATAAAAT
Found at i:138133 original size:5 final size:5
Alignment explanation
Indices: 138123--138147 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
138113 TAAAGTTGAG
138123 CTCGA CTCGA CTCGA CTCGA CTCGA
1 CTCGA CTCGA CTCGA CTCGA CTCGA
138148 AAGCTAACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.40, G:0.20, T:0.20
Consensus pattern (5 bp):
CTCGA
Found at i:138863 original size:24 final size:24
Alignment explanation
Indices: 138834--138892 Score: 66
Period size: 25 Copynumber: 2.5 Consensus size: 24
138824 ACTAAATTTT
138834 ATATTAGAGAAATAAATTTATAAA
1 ATATTAGAGAAATAAATTTATAAA
***
138858 ATATTAGACGGTTTAAATTTATAAA
1 ATATTAGA-GAAATAAATTTATAAA
*
138883 ATTTTA-AGAA
1 ATATTAGAGAA
138893 GCGAAAATAG
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
23 1 0.04
24 9 0.32
25 18 0.64
ACGTcount: A:0.51, C:0.02, G:0.10, T:0.37
Consensus pattern (24 bp):
ATATTAGAGAAATAAATTTATAAA
Found at i:141672 original size:31 final size:30
Alignment explanation
Indices: 141608--141672 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 30
141598 TAAAACTTGT
* * *
141608 AATACAGTCCCCAATATTTAGTTCGTTTGC
1 AATACAGTCCCCAACATTTAGTTCATTTAC
141638 AATACAGTCCCCCAACATTTAG-TCTATTTAC
1 AATACAGT-CCCCAACATTTAGTTC-ATTTAC
141669 AATA
1 AATA
141673 TGGTCCCCGA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
30 10 0.33
31 20 0.67
ACGTcount: A:0.32, C:0.25, G:0.09, T:0.34
Consensus pattern (30 bp):
AATACAGTCCCCAACATTTAGTTCATTTAC
Found at i:146197 original size:18 final size:18
Alignment explanation
Indices: 146174--146241 Score: 92
Period size: 18 Copynumber: 4.1 Consensus size: 18
146164 TAAAATTTTA
146174 TATTAAAGTCTTTTTCAT
1 TATTAAAGTCTTTTTCAT
146192 TATTAAAGTCTTTTTCAT
1 TATTAAAGTCTTTTTCAT
146210 TATTAAAG---TTTTC--
1 TATTAAAGTCTTTTTCAT
*
146223 TATTAAAGTATTTTTCAT
1 TATTAAAGTCTTTTTCAT
146241 T
1 T
146242 TATTTCTTCT
Statistics
Matches: 45, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
13 8 0.18
15 5 0.11
16 5 0.11
18 27 0.60
ACGTcount: A:0.29, C:0.09, G:0.06, T:0.56
Consensus pattern (18 bp):
TATTAAAGTCTTTTTCAT
Found at i:146274 original size:28 final size:28
Alignment explanation
Indices: 146220--146274 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
146210 TATTAAAGTT
* **
146220 TTCTATTAAAGTATTTTTCATTTATTTC
1 TTCTATTAAAGTATTTTTAATCAATTTC
146248 TTCTATTAAAGT-TATTTTAATCAATTT
1 TTCTATTAAAGTAT-TTTTAATCAATTT
146275 AAACTTTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 1 0.04
28 22 0.96
ACGTcount: A:0.29, C:0.09, G:0.04, T:0.58
Consensus pattern (28 bp):
TTCTATTAAAGTATTTTTAATCAATTTC
Found at i:146813 original size:2 final size:2
Alignment explanation
Indices: 146801--146849 Score: 89
Period size: 2 Copynumber: 24.0 Consensus size: 2
146791 AAACATCAAA
146801 AT AT CAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
146844 AT AT AT
1 AT AT AT
146850 GGAAAAGGGT
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 44 0.96
3 2 0.04
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:147827 original size:21 final size:22
Alignment explanation
Indices: 147801--147841 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
147791 TGCAAATGAA
*
147801 AAATAA-AATATTTACAATATT
1 AAATAAGAACATTTACAATATT
147822 AAATAAGAACATTTACAATA
1 AAATAAGAACATTTACAATA
147842 CGTGCATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.32
Consensus pattern (22 bp):
AAATAAGAACATTTACAATATT
Found at i:149464 original size:8 final size:8
Alignment explanation
Indices: 149453--149498 Score: 53
Period size: 8 Copynumber: 6.0 Consensus size: 8
149443 AATGTAATAT
149453 TAATAAAA
1 TAATAAAA
*
149461 TAATAATA
1 TAATAAAA
149469 TAAT--AA
1 TAATAAAA
149475 TAATAATAA
1 TAATAA-AA
149484 TAATAAAA
1 TAATAAAA
149492 T-ATAAAA
1 TAATAAAA
149499 CAAAATAGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
6 5 0.15
7 6 0.18
8 14 0.42
9 8 0.24
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (8 bp):
TAATAAAA
Found at i:149467 original size:3 final size:3
Alignment explanation
Indices: 149447--149493 Score: 64
Period size: 3 Copynumber: 16.7 Consensus size: 3
149437 TATGTAAATG
*
149447 TAA TAT TAA TAA -AA TAA TAA T-A TAA TAA TAA TAA TAA TAA TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
149492 TA
1 TA
149494 TAAAACAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 6 0.15
3 33 0.85
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:149467 original size:11 final size:11
Alignment explanation
Indices: 149448--149493 Score: 60
Period size: 11 Copynumber: 4.4 Consensus size: 11
149438 ATGTAAATGT
*
149448 AATATTAATAA
1 AATAATAATAA
*
149459 AATAATAATAT
1 AATAATAATAA
149470 AATAATAAT--
1 AATAATAATAA
149479 AATAATAATAA
1 AATAATAATAA
149490 AATA
1 AATA
149494 TAAAACAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 9 0.29
11 22 0.71
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
AATAATAATAA
Found at i:149481 original size:25 final size:25
Alignment explanation
Indices: 149447--149496 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
149437 TATGTAAATG
*
149447 TAATATTAATAA-AATAATAATATAA
1 TAATAATAATAATAATAA-AATATAA
149472 TAATAATAATAATAATAAAATATAA
1 TAATAATAATAATAATAAAATATAA
149497 AACAAAATAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 18 0.78
26 5 0.22
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (25 bp):
TAATAATAATAATAATAAAATATAA
Found at i:149505 original size:20 final size:22
Alignment explanation
Indices: 149447--149505 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
149437 TATGTAAATG
* * *
149447 TAATATTAATAAAATAATAATA
1 TAATAATAACAAAATAATAAAA
*
149469 TAATAATAATAATAATAATAAAA
1 TAATAATAACAA-AATAATAAAA
149492 T-ATAA-AACAAAATA
1 TAATAATAACAAAATA
149506 GAAAAGACCC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 4 0.12
21 4 0.12
22 15 0.45
23 10 0.30
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.31
Consensus pattern (22 bp):
TAATAATAACAAAATAATAAAA
Found at i:149892 original size:40 final size:40
Alignment explanation
Indices: 149831--149942 Score: 197
Period size: 40 Copynumber: 2.8 Consensus size: 40
149821 TAATCTAGGG
* *
149831 TGACACGACTCCTACGTGATGAAGAGATCTGGTCGGGGGA
1 TGACACGACTCATACGTGATGAAGAGTTCTGGTCGGGGGA
*
149871 TGACACGACTCATACGCGATGAAGAGTTCTGGTCGGGGGA
1 TGACACGACTCATACGTGATGAAGAGTTCTGGTCGGGGGA
149911 TGACACGACTCATACGTGATGAAGAGTTCTGG
1 TGACACGACTCATACGTGATGAAGAGTTCTGG
149943 CCATCTTTAG
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 68 1.00
ACGTcount: A:0.26, C:0.20, G:0.33, T:0.21
Consensus pattern (40 bp):
TGACACGACTCATACGTGATGAAGAGTTCTGGTCGGGGGA
Found at i:150008 original size:29 final size:29
Alignment explanation
Indices: 149962--150047 Score: 154
Period size: 29 Copynumber: 3.0 Consensus size: 29
149952 GGGATAATAA
*
149962 TTTCAAAAGAAACCGACTCAAAGATGATG
1 TTTCAAAAGAAACAGACTCAAAGATGATG
*
149991 TTTCAAAAGAAACAGACTCAAATATGATG
1 TTTCAAAAGAAACAGACTCAAAGATGATG
150020 TTTCAAAAGAAACAGACTCAAAGATGAT
1 TTTCAAAAGAAACAGACTCAAAGATGAT
150048 TTTGTTAAGA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 54 1.00
ACGTcount: A:0.48, C:0.15, G:0.15, T:0.22
Consensus pattern (29 bp):
TTTCAAAAGAAACAGACTCAAAGATGATG
Found at i:150551 original size:31 final size:31
Alignment explanation
Indices: 150501--150561 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 31
150491 AGGGGAAACG
*
150501 ACTCAAAGATGATTTTATTTCAAGAGAAACAA
1 ACTCAAAGAT-ATTTTATTTCAAGAAAAACAA
*
150533 ACTCAAAGAT-TTTGTATTTCTAGAAAAAC
1 ACTCAAAGATATTT-TATTTCAAGAAAAAC
150562 TGCCTCAAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 3 0.12
31 13 0.50
32 10 0.38
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.31
Consensus pattern (31 bp):
ACTCAAAGATATTTTATTTCAAGAAAAACAA
Found at i:150851 original size:120 final size:118
Alignment explanation
Indices: 150637--150858 Score: 279
Period size: 120 Copynumber: 1.9 Consensus size: 118
150627 ATTGTCTCGA
150637 GAGACAAAATTTTGTTTCAAAGGAAACAAACTCAGATTTTTTCTCAAAAGAAATTGTCTTTAAGA
1 GAGACAAAATTTTGTTTCAAAGGAAACAAACTCAGATTTTTTCTCAAAAGAAATTGTCTTTAAGA
* * *
150702 GATAATATTTTGTTTCAAAAGAAACAGACTCAAAGATAAATTACATCTCAAGT
66 GAGAAAAATTTGTTTCAAAAGAAACAGACTCAAAGATAAATTACATCTCAAGT
* * * **
150755 GAGACCAAA-TTTGTTTCAAAGGAAACAATCTCAAAGGTTGATTTT-TCATTAGAAATTGTC-TT
1 GAGACAAAATTTTGTTTCAAAGGAAACAAACTC--AGATT--TTTTCTCAAAAGAAATTGTCTTT
* * *
150817 AAGAGAGACAAAATTTGTTTTAATAGAAATAGACTCAAAGAT
62 AAGAGAGA-AAAATTTGTTTCAAAAGAAACAGACTCAAAGAT
150859 GATTTTTTTT
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
117 22 0.25
118 8 0.09
119 13 0.15
120 41 0.47
121 4 0.05
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (118 bp):
GAGACAAAATTTTGTTTCAAAGGAAACAAACTCAGATTTTTTCTCAAAAGAAATTGTCTTTAAGA
GAGAAAAATTTGTTTCAAAAGAAACAGACTCAAAGATAAATTACATCTCAAGT
Found at i:150876 original size:31 final size:30
Alignment explanation
Indices: 150829--150899 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 30
150819 GAGAGACAAA
* * * *
150829 ATTTGTTTTAATAGAAATAGACTCAAAGAT
1 ATTTTTTTTAAAAGAAACAAACTCAAAGAT
150859 GATTTTTTTTAAAAGAAACAAACTCAAAGAT
1 -ATTTTTTTTAAAAGAAACAAACTCAAAGAT
*
150890 TTTTTTTTTA
1 ATTTTTTTTA
150900 CGAAAAACTT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
30 9 0.26
31 26 0.74
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (30 bp):
ATTTTTTTTAAAAGAAACAAACTCAAAGAT
Found at i:151139 original size:15 final size:15
Alignment explanation
Indices: 151119--151154 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
151109 CTCAAAGATT
151119 TCTCAAGAAAATCTG
1 TCTCAAGAAAATCTG
151134 TCTCAAGAAAATCTG
1 TCTCAAGAAAATCTG
151149 TCTCAA
1 TCTCAA
151155 CAGAGACAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.28
Consensus pattern (15 bp):
TCTCAAGAAAATCTG
Found at i:151650 original size:102 final size:104
Alignment explanation
Indices: 151444--151708 Score: 279
Period size: 102 Copynumber: 2.6 Consensus size: 104
151434 CGGTTTTGAA
* * * * ** * ** *
151444 AATCTCAAATGAGATTACTTTTGTTTCAAGTAAAACAACTTGGAAATTTTTAT-TCGGAGG-GAA
1 AATCTCAAGTGAGATTA-ATTTGTTTCAAGTGAAACAAATTCAAAATTTATATATCAAAGGAAAA
* * *
151507 ATGTATCAAGTGAGACGAAATTTGTTTTGAAATAAACAAC
65 ATGTATCAAGCGAGACGAAATGTGTTTTGAAAGAAACAAC
*
151547 AATCTCGAGTG-GAATTAA-TT-TTTCAAGTGAAACAAATTCAAAATTTATATATCAAAGGAAAA
1 AATCTCAAGTGAG-ATTAATTTGTTTCAAGTGAAACAAATTCAAAATTTATATATCAAAGGAAAA
* *
151609 ATGTCTCAAGCGAGACGAAATGTGTTTTGAAAGAAATAAC
65 ATGTATCAAGCGAGACGAAATGTGTTTTGAAAGAAACAAC
* * * * *
151649 AATCTCAAGTGAGATTAATTTTGTTTCAAGTGAATCAAATTCGAATTTTGTATCTCAAAG
1 AATCTCAAGTGAGATTAA-TTTGTTTCAAGTGAAACAAATTCAAAATTTATATATCAAAG
151709 AAAGAAAGAA
Statistics
Matches: 133, Mismatches: 22, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
100 25 0.19
101 7 0.05
102 53 0.40
103 14 0.11
104 2 0.02
105 32 0.24
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.32
Consensus pattern (104 bp):
AATCTCAAGTGAGATTAATTTGTTTCAAGTGAAACAAATTCAAAATTTATATATCAAAGGAAAAA
TGTATCAAGCGAGACGAAATGTGTTTTGAAAGAAACAAC
Found at i:151788 original size:37 final size:36
Alignment explanation
Indices: 151747--151831 Score: 100
Period size: 37 Copynumber: 2.3 Consensus size: 36
151737 CGAAGTTTAT
151747 TTTTTAGAGAAATTATCTCAAACGAGGCA-AAAATTTG
1 TTTTTAGAGAAATTATCTCAAACGA-G-ATAAAATTTG
* * * *
151784 TTTTTAAAAAAATTGTCTCAAGCGAGATAAAATTTG
1 TTTTTAGAGAAATTATCTCAAACGAGATAAAATTTG
*
151820 TTTTTTGAGAAA
1 TTTTTAGAGAAA
151832 ACGATCTCAA
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
35 1 0.03
36 18 0.45
37 21 0.52
ACGTcount: A:0.40, C:0.08, G:0.15, T:0.36
Consensus pattern (36 bp):
TTTTTAGAGAAATTATCTCAAACGAGATAAAATTTG
Found at i:151940 original size:36 final size:35
Alignment explanation
Indices: 151895--151997 Score: 125
Period size: 35 Copynumber: 2.9 Consensus size: 35
151885 ACCTCAAAGA
* * * *
151895 AAAAATGTCTCAAGCAAGACGAAGTTTGTTTTAAG
1 AAAATTGTCTCAAGCGAGACAAAATTTGTTTTAAG
* * *
151930 AGAAATTGTCTTAAACGAGACAAAATTTGTTTTTAG
1 A-AAATTGTCTCAAGCGAGACAAAATTTGTTTTAAG
*
151966 AAAATTATCTCAAGCGAGACAAAATTTGTTTT
1 AAAATTGTCTCAAGCGAGACAAAATTTGTTTT
151998 TCAAAAGAAG
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
35 29 0.51
36 28 0.49
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.33
Consensus pattern (35 bp):
AAAATTGTCTCAAGCGAGACAAAATTTGTTTTAAG
Found at i:153629 original size:54 final size:51
Alignment explanation
Indices: 153571--153768 Score: 170
Period size: 49 Copynumber: 4.0 Consensus size: 51
153561 TTTTCTTTTC
*
153571 TTTTTCTTTTGCTATTTTTCTTTGATTTTTTTTGTTTCTTTTCTCTTTGCTCTT
1 TTTTTCTTTTGCT-TTTTTCTTT--TTTTCTTTGTTTCTTTTCTCTTTGCTCTT
**
153625 TTTTTCTTTTGC--TTTGATTTTTTTCTTTGTTTCTTTTCTCTTTGCTCTT
1 TTTTTCTTTTGCTTTTTTCTTTTTTTCTTTGTTTCTTTTCTCTTTGCTCTT
* * **
153674 TGTTTATTTT-CTTTGCTC-TTTTTTCTTTGTTT-TTTT-TCTTTGCTC--
1 TTTTTCTTTTGCTTTTTTCTTTTTTTCTTTGTTTCTTTTCTCTTTGCTCTT
* * *
153719 -TTCTGTGTT-C-TTTTTCTCTTTTTTCTTTGTTT-TTTT-TCTTTGCTTCTT
1 TTTTTCTTTTGCTTTTTTCT-TTTTTTCTTTGTTTCTTTTCTCTTTGC-TCTT
153767 TT
1 TT
153769 CTGTTTGTTT
Statistics
Matches: 121, Mismatches: 15, Indels: 21
0.77 0.10 0.13
Matches are distributed among these distances:
43 4 0.03
44 6 0.05
45 25 0.21
46 2 0.02
47 9 0.07
48 5 0.04
49 51 0.42
50 1 0.01
51 6 0.05
54 12 0.10
ACGTcount: A:0.02, C:0.16, G:0.08, T:0.74
Consensus pattern (51 bp):
TTTTTCTTTTGCTTTTTTCTTTTTTTCTTTGTTTCTTTTCTCTTTGCTCTT
Found at i:153634 original size:7 final size:7
Alignment explanation
Indices: 153596--153759 Score: 70
Period size: 7 Copynumber: 23.4 Consensus size: 7
153586 TTTTCTTTGA
153596 TTTTTT-
1 TTTTTTC
*
153602 TTGTTTC
1 TTTTTTC
*
153609 TTTTCTC
1 TTTTTTC
**
153616 TTTGCTC
1 TTTTTTC
153623 TTTTTT-
1 TTTTTTC
*
153629 TCTTTTGC
1 T-TTTTTC
**
153637 TTTGAT-
1 TTTTTTC
153643 TTTTTTC
1 TTTTTTC
153650 TTTGTTTC
1 TTT-TTTC
*
153658 TTTTCTC
1 TTTTTTC
**
153665 TTTGCTC
1 TTTTTTC
*
153672 TTTGTT-
1 TTTTTTC
*
153678 TATTTTC
1 TTTTTTC
**
153685 TTTGCTC
1 TTTTTTC
153692 TTTTTTC
1 TTTTTTC
*
153699 TTTGTT-
1 TTTTTTC
153705 TTTTTTC
1 TTTTTTC
153712 TTTGCTCTTC
1 TTT--T-TTC
* *
153722 TGTGTTC
1 TTTTTTC
153729 TTTTTCTC
1 TTTTT-TC
153737 TTTTTTC
1 TTTTTTC
*
153744 TTTGTT-
1 TTTTTTC
153750 TTTTTTC
1 TTTTTTC
153757 TTT
1 TTT
153760 GCTTCTTTTC
Statistics
Matches: 116, Mismatches: 30, Indels: 23
0.69 0.18 0.14
Matches are distributed among these distances:
6 24 0.21
7 71 0.61
8 15 0.13
9 1 0.01
10 5 0.04
ACGTcount: A:0.01, C:0.16, G:0.08, T:0.75
Consensus pattern (7 bp):
TTTTTTC
Found at i:153689 original size:107 final size:108
Alignment explanation
Indices: 153572--153775 Score: 263
Period size: 107 Copynumber: 1.9 Consensus size: 108
153562 TTTCTTTTCT
* * * *
153572 TTTTCTTTTGCT-ATTTTTCTTTGATTTTTTTTGTTT-CTTTTCTCTTTGCTCTTTTTTTC-TTT
1 TTTTCTTTTGCTCATTTTTCTTTG-TTTTTTTTCTTTGC-TCT-TCTGTGCTCTTTTTCTCTTTT
*
153634 TGCTTTGATTTTTTTCTTTGTTTCTTTTCTCTTTGCTCTTTGTTTA
63 TGCTTTGATTTTTTTCTTTGCTTCTTTTCTCTTTGCTCTTTGTTTA
* * *
153680 TTTTC-TTTGCTCTTTTTTCTTTGTTTTTTTTCTTTGCTCTTCTGTGTTCTTTTTCTCTTTTTTC
1 TTTTCTTTTGCTCATTTTTCTTTGTTTTTTTTCTTTGCTCTTCTGTGCTCTTTTTCTCTTTTTGC
* *
153744 TTTGTTTTTTTTCTTTGCTTCTTTTCTGTTTG
66 TTTGATTTTTTTCTTTGCTTCTTTTCTCTTTG
153776 TTTTTCTTGT
Statistics
Matches: 83, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
106 14 0.17
107 53 0.64
108 16 0.19
ACGTcount: A:0.02, C:0.16, G:0.09, T:0.74
Consensus pattern (108 bp):
TTTTCTTTTGCTCATTTTTCTTTGTTTTTTTTCTTTGCTCTTCTGTGCTCTTTTTCTCTTTTTGC
TTTGATTTTTTTCTTTGCTTCTTTTCTCTTTGCTCTTTGTTTA
Found at i:153749 original size:72 final size:66
Alignment explanation
Indices: 153596--153780 Score: 192
Period size: 72 Copynumber: 2.6 Consensus size: 66
153586 TTTTCTTTGA
**
153596 TTTTT-TTTGTTTCTTTTCTCTTTGCTCTTTTTTTCTTTTGCTTTGATTTTTTTCTTTGTTTCTT
1 TTTTTCTTTGTTT-TTTT-TCTTTGCTC-TTTTTTC-TTTG-TTTTTTTTTTTTCTTTGTTTCTT
153660 TTCTCT
61 TTCTCT
** *
153666 TTGCTCTTTGTTTATTTTCTTTGCTCTTTTTTCTTTGTTTTTTTTCTTTGCTCTTCTGTGTTCTT
1 TTTTTCTTTGTTTTTTTTCTTTGCTCTTTTTTCTTTGTTTTTTTT-TTT--TCTT-TGT-TTC-T
153731 TTTCTCT
60 TTTCTCT
* *
153738 TTTTTCTTTGTTTTTTTTCTTTGCTTCTTTTCTGTTTGTTTTT
1 TTTTTCTTTGTTTTTTTTCTTTGC-TCTTTTTTCTTTGTTTTT
153781 CTTGTCTCTT
Statistics
Matches: 97, Mismatches: 10, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
66 6 0.06
67 7 0.07
68 7 0.07
69 13 0.13
70 9 0.09
71 10 0.10
72 29 0.30
73 16 0.16
ACGTcount: A:0.01, C:0.16, G:0.09, T:0.75
Consensus pattern (66 bp):
TTTTTCTTTGTTTTTTTTCTTTGCTCTTTTTTCTTTGTTTTTTTTTTTTCTTTGTTTCTTTTCTC
T
Found at i:158466 original size:21 final size:22
Alignment explanation
Indices: 158440--158480 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
158430 TGCAAATGAA
*
158440 AAATAA-AATATTTACAATATT
1 AAATAAGAACATTTACAATATT
158461 AAATAAGAACATTTACAATA
1 AAATAAGAACATTTACAATA
158481 CGTGCATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.32
Consensus pattern (22 bp):
AAATAAGAACATTTACAATATT
Found at i:160171 original size:3 final size:3
Alignment explanation
Indices: 160157--160220 Score: 112
Period size: 3 Copynumber: 21.7 Consensus size: 3
160147 TATGTAAATG
*
160157 TAA TAT TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
160205 TAA TAA TAA TAA -AA TA
1 TAA TAA TAA TAA TAA TA
160221 TAAAACAAAA
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
2 2 0.03
3 56 0.97
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:172164 original size:138 final size:138
Alignment explanation
Indices: 171924--172181 Score: 318
Period size: 138 Copynumber: 1.9 Consensus size: 138
171914 TACGATAATA
* * * * * *
171924 TGCTCCCTTGTGAGTCACTCTAATCCTTCGGAGCTCCCGTGCAAGTCAATCGAAATAGTTACGAT
1 TGCTCCCGTGTGAGTCACTCTAATCCTTCGGAGCTCCCATGCAAGTCAACCAAAATAATCACGAT
* *
171989 TAGGTGTTCCCGTGCAAGTCACTCTAATCATTCGAGGCTCCCGTGCAAGTCACCCAAAATAATTA
66 TAGGTGCTCCCGTGCAAGCCACTCTAATCATTCGAGGCTCCCGTGCAAGTCACCCAAAATAATTA
172054 CGATTAGG
131 CGATTAGG
* * ** * **
172062 TGCTCCCGTGTGAGTCACTCTAATCCTTCGGGGTTTTCATGCGAGTCGCCCAAAATAATCACGAT
1 TGCTCCCGTGTGAGTCACTCTAATCCTTCGGAGCTCCCATGCAAGTCAACCAAAATAATCACGAT
** * * * * *
172127 TAGGTGCTCCTTTGCGAGCCACTCTAATCCTTTGAGGCTCCTGTGCGAGTCACCC
66 TAGGTGCTCCCGTGCAAGCCACTCTAATCATTCGAGGCTCCCGTGCAAGTCACCC
172182 GGAATACTCA
Statistics
Matches: 98, Mismatches: 22, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
138 98 1.00
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.28
Consensus pattern (138 bp):
TGCTCCCGTGTGAGTCACTCTAATCCTTCGGAGCTCCCATGCAAGTCAACCAAAATAATCACGAT
TAGGTGCTCCCGTGCAAGCCACTCTAATCATTCGAGGCTCCCGTGCAAGTCACCCAAAATAATTA
CGATTAGG
Found at i:172193 original size:69 final size:68
Alignment explanation
Indices: 171924--172198 Score: 271
Period size: 69 Copynumber: 4.0 Consensus size: 68
171914 TACGATAATA
* * ** * * *
171924 TGCTCCCTTGTGAGTCACTCTAATCCTTCGGAGCTCCCGTGCAAGTCAATCGAAATAGTTACGAT
1 TGCTCCCGTGCGAGTCACTCTAATCCTTCGG-GCTCCCGTGCAAGTCACCCAAAATAATCACGAT
171989 TAGG
65 TAGG
* * * *
171993 TGTTCCCGTGCAAGTCACTCTAATCATTCGAGGCTCCCGTGCAAGTCACCCAAAATAATTACGAT
1 TGCTCCCGTGCGAGTCACTCTAATCCTTCG-GGCTCCCGTGCAAGTCACCCAAAATAATCACGAT
172058 TAGG
65 TAGG
* * ** * * *
172062 TGCTCCCGTGTGAGTCACTCTAATCCTTCGGGGTTTTCATGCGAGTCGCCCAAAATAATCACGAT
1 TGCTCCCGTGCGAGTCACTCTAATCCTTC-GGGCTCCCGTGCAAGTCACCCAAAATAATCACGAT
172127 TAGG
65 TAGG
** * * * * ** *
172131 TGCTCCTTTGCGAGCCACTCTAATCCTTTGAGGCTCCTGTGCGAGTCACCCGGAATACTCACGAT
1 TGCTCCCGTGCGAGTCACTCTAATCCTTCG-GGCTCCCGTGCAAGTCACCCAAAATAATCACGAT
172196 TAG
65 TAG
172199 ATATCTTTGC
Statistics
Matches: 169, Mismatches: 34, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
68 1 0.01
69 166 0.98
70 2 0.01
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (68 bp):
TGCTCCCGTGCGAGTCACTCTAATCCTTCGGGCTCCCGTGCAAGTCACCCAAAATAATCACGATT
AGG
Found at i:172458 original size:76 final size:76
Alignment explanation
Indices: 172330--172883 Score: 605
Period size: 76 Copynumber: 7.3 Consensus size: 76
172320 ACATCAAAAT
* * * *
172330 GTAATTCCAGCACTAAA-TTAAACACATCACAATTCTAGCAATGAAACTTAACATTGACTTACAC
1 GTAATTCTAGCACTAAACTT-ATCACAT-A-ATTTC-AGCAGTGAAACTTAACATTGACTTACAC
*
172394 CCGTGAAATGAATAC
62 CAGTGAAATGAATAC
* * * * * *
172409 GTAATTCTAGCACAAAACTTATGACATGATTT-AGGTAGTGAAACTTAACATTGACTTACACTAC
1 GTAATTCTAGCACTAAACTTATCACATAATTTCA-GCAGTGAAACTTAACATTGACTTACACCAG
*
172473 TGAAATGAATAT
65 TGAAATGAATAC
* *
172485 GTAATTCTAGCACCAAACTTATCACATGATTTCAGCAGTGAAACTTAACATTGACTTACACCAGT
1 GTAATTCTAGCACTAAACTTATCACATAATTTCAGCAGTGAAACTTAACATTGACTTACACCAGT
*
172550 GAAATGAATAT
66 GAAATGAATAC
* * *
172561 GTAATTATAGCACTAAACTTATCACAT-ATTTCAGTAGTGAAACTTAACATTTACTTACACCAGT
1 GTAATTCTAGCACTAAACTTATCACATAATTTCAGCAGTGAAACTTAACATTGACTTACACCAGT
*
172625 GAAATGACTAC
66 GAAATGAATAC
* * * * * *
172636 GTAATTCCAACTCTAAACTTATCACATAATTTCAACAGTGAAACCTAACATTGACTTATACCAGT
1 GTAATTCTAGCACTAAACTTATCACATAATTTCAGCAGTGAAACTTAACATTGACTTACACCAGT
*
172701 GAAATTAATAC
66 GAAATGAATAC
* * * * * * * *
172712 GTAATTCCAGCACAAAATTTATCATC-TAATTCCAACAATGAAATTTAACATTGACTTACATCAG
1 GTAATTCTAGCACTAAACTTATCA-CATAATTTCAGCAGTGAAACTTAACATTGACTTACACCAG
* *
172776 TAAAATGAATAT
65 TGAAATGAATAC
* * * * * * *
172788 GTAATTCCAACACTAAACTTATCATATAATTCCAGTAGCGAAACTTAACATTGACTTACATCAGT
1 GTAATTCTAGCACTAAACTTATCACATAATTTCAGCAGTGAAACTTAACATTGACTTACACCAGT
*
172853 TAAATGAATAC
66 GAAATGAATAC
*
172864 ATAATT-TCAGCACTAAACTT
1 GTAATTCT-AGCACTAAACTT
172884 TGAAGCTTAA
Statistics
Matches: 407, Mismatches: 61, Indels: 17
0.84 0.13 0.04
Matches are distributed among these distances:
75 68 0.17
76 312 0.77
77 5 0.01
79 20 0.05
80 2 0.00
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.30
Consensus pattern (76 bp):
GTAATTCTAGCACTAAACTTATCACATAATTTCAGCAGTGAAACTTAACATTGACTTACACCAGT
GAAATGAATAC
Found at i:172766 original size:227 final size:228
Alignment explanation
Indices: 172371--172883 Score: 654
Period size: 227 Copynumber: 2.3 Consensus size: 228
172361 ATTCTAGCAA
* * * *
172371 TGAAACTTAACATTGACTTACACCCGTGAAATGAATACGTAATTCTAGCACAAAACTTATGACAT
1 TGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAGCACTAAACTTATCACAT
* ** * * * * *
172436 GATTTAGGTAGTGAAACTTAACATTGACTTACACTACTGAAATGAATATGTAATTCTAGCACCAA
66 AATTTAGACAGTGAAACCTAACATTGACTTACACCACTGAAATGAATACGTAATTCCAGCACAAA
* * * * *
172501 ACTTATCACATGATTTCAGCAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATATGTAAT
131 ACTTATCACATAATTCCAACAATGAAACTTAACATTGACTTACACCAGTAAAATGAATATGTAAT
* * *
172566 TATAGCACTAAACTTATCACAT-ATTTCAGTAG
196 TACAACACTAAACTTATCACATAATTCCAGTAG
* * * *
172598 TGAAACTTAACATTTACTTACACCAGTGAAATGACTACGTAATTCCAACTCTAAACTTATCACAT
1 TGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAGCACTAAACTTATCACAT
* * *
172663 AATTTCA-ACAGTGAAACCTAACATTGACTTATACCAGTGAAATTAATACGTAATTCCAGCACAA
66 AATTT-AGACAGTGAAACCTAACATTGACTTACACCACTGAAATGAATACGTAATTCCAGCACAA
* * *
172727 AATTTATCATC-TAATTCCAACAATGAAATTTAACATTGACTTACATCAGTAAAATGAATATGTA
130 AACTTATCA-CATAATTCCAACAATGAAACTTAACATTGACTTACACCAGTAAAATGAATATGTA
* *
172791 ATTCCAACACTAAACTTATCATATAATTCCAGTAG
194 ATTACAACACTAAACTTATCACATAATTCCAGTAG
* * * * *
172826 CGAAACTTAACATTGACTTACATCAGTTAAATGAATACATAATTTCAGCACTAAACTT
1 TGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAGCACTAAACTT
172884 TGAAGCTTAA
Statistics
Matches: 242, Mismatches: 41, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
227 182 0.75
228 60 0.25
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.31
Consensus pattern (228 bp):
TGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAGCACTAAACTTATCACAT
AATTTAGACAGTGAAACCTAACATTGACTTACACCACTGAAATGAATACGTAATTCCAGCACAAA
ACTTATCACATAATTCCAACAATGAAACTTAACATTGACTTACACCAGTAAAATGAATATGTAAT
TACAACACTAAACTTATCACATAATTCCAGTAG
Found at i:172831 original size:152 final size:149
Alignment explanation
Indices: 172328--173399 Score: 962
Period size: 152 Copynumber: 7.2 Consensus size: 149
172318 TAACATCAAA
* * * *
172328 ATGTAATTCCAGCACTAAA-TTAAACACATCACAATTCTAGCAATGAAACTTAACATTGACTTAC
1 ATGTAATTCCAACACTAAACTT-ATCACAT-A-ATTTC-AGCAGTGAAACTTAACATTGACTTAC
* * * * *
172392 ACCCGTGAAATGAATACGTAATTCTAGCACAAAACTTATGACATGATTTAGGTAGTGAAACTTAA
62 ACCAGTGAAATGAATACGTAATTCCAGCACAAAACTTATCAC-TAATTCA-GTAGTGAAACTTAA
*
172457 CATTGACTTACACTACTGAAATGAAT
125 CATTGACTTACAC-AGTGAAATGAAT
* * * *
172483 ATGTAATTCTAGCACCAAACTTATCACATGATTTCAGCAGTGAAACTTAACATTGACTTACACCA
1 ATGTAATTCCAACACTAAACTTATCACATAATTTCAGCAGTGAAACTTAACATTGACTTACACCA
* ** * * *
172548 GTGAAATGAATATGTAATTATAGCACTAAACTTATCACATATTTCAGTAGTGAAACTTAACATTT
66 GTGAAATGAATACGTAATTCCAGCACAAAACTTATCAC-TAATTCAGTAGTGAAACTTAACATTG
*
172613 ACTTACACCAGTGAAATGACT
130 ACTTACA-CAGTGAAATGAAT
* * * * *
172634 ACGTAATTCCAACTCTAAACTTATCACATAATTTCAACAGTGAAACCTAACATTGACTTATACCA
1 ATGTAATTCCAACACTAAACTTATCACATAATTTCAGCAGTGAAACTTAACATTGACTTACACCA
* * ** * *
172699 GTGAAATTAATACGTAATTCCAGCACAAAATTTATCATCTAATTCCAACAATGAAATTTAACATT
66 GTGAAATGAATACGTAATTCCAGCACAAAACTTATCA-CTAATT-CAGTAGTGAAACTTAACATT
*
172764 GACTTACATCAGTAAAATGAAT
129 GACTTACA-CAGTGAAATGAAT
* * * * *
172786 ATGTAATTCCAACACTAAACTTATCATATAATTCCAGTAGCGAAACTTAACATTGACTTACATCA
1 ATGTAATTCCAACACTAAACTTATCACATAATTTCAGCAGTGAAACTTAACATTGACTTACACCA
* * * * *
172851 GTTAAATGAATACATAATTTCAG--C---AC---T-A--AA--C--T-TTGAAGCTTAACATTGA
66 GTGAAATGAATACGTAATTCCAGCACAAAACTTATCACTAATTCAGTAGTGAAACTTAACATTGA
172900 CTTACATCAGTGAAATGAAT
131 CTTACA-CAGTGAAATGAAT
** * * * ** * *
172920 ACATAATTTCAGCACTAAACTTATCACATAATTCCCA-CAGAAAAATTTAACATTGACTTGCACC
1 ATGTAATTCCAACACTAAACTTATCACATAATT-TCAGCAGTGAAACTTAACATTGACTTACACC
* * * * *
172984 AGTGAAATAAATATGTAATTCCAGCACTAAACTTATCACATAATTCTTGCAGTGAAACTTAA-AT
65 AGTGAAATGAATACGTAATTCCAGCACAAAACTTATCAC-TAATTC-AGTAGTGAAACTTAACA-
*
173048 TTGACTTACACCAGCGAAATGAAT
127 TTGACTTACA-CAGTGAAATGAAT
** * * * *
173072 ACATAATTTCAACACTAAACTTATCACATAATTCCCA-CAGTAAAATTTAACATTGACTTACACC
1 ATGTAATTCCAACACTAAACTTATCACATAATT-TCAGCAGTGAAACTTAACATTGACTTACACC
* * * *
173136 AGTGAAATGAATACGTAATTCCAACACTAAACTTATCACATAATTCCTGCAGTGAAACTTAACAT
65 AGTGAAATGAATACGTAATTCCAGCACAAAACTTATCAC-TAATT-CAGTAGTGAAACTTAACAT
*
173201 TGACTTACACCAGCGAAATGAAT
128 TGACTTACA-CAGTGAAATGAAT
** * ** * * * *
173224 ACATAATTCCAGCAAAAAATTTATCACCTAA-TTCTAGTAGTGAAACTTAACATTGACTTAAACC
1 ATGTAATTCCAACACTAAACTTATCACATAATTTC-AGCAGTGAAACTTAACATTGACTTACACC
* * * ** * * *
173288 AATGAAATGAATACGTAATTCCAACACTAATTTTTTCACATAAGTCAAGGAGTGAAACTTAACAT
65 AGTGAAATGAATACGTAATTCCAGCACAAAACTTATCAC-TAATTC-AGTAGTGAAACTTAACAT
173353 TGACTTACACTAGTGAAATGAAT
128 TGACTTACAC-AGTGAAATGAAT
* * *
173376 ACGTAATTCTAGCACTAAACTTAT
1 ATGTAATTCCAACACTAAACTTAT
173400 GATTTCACAT
Statistics
Matches: 775, Mismatches: 112, Indels: 63
0.82 0.12 0.07
Matches are distributed among these distances:
134 101 0.13
135 3 0.00
136 1 0.00
137 1 0.00
139 2 0.00
140 2 0.00
142 1 0.00
143 2 0.00
144 1 0.00
146 2 0.00
147 1 0.00
148 1 0.00
150 2 0.00
151 131 0.17
152 493 0.64
153 6 0.01
155 23 0.03
156 2 0.00
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.30
Consensus pattern (149 bp):
ATGTAATTCCAACACTAAACTTATCACATAATTTCAGCAGTGAAACTTAACATTGACTTACACCA
GTGAAATGAATACGTAATTCCAGCACAAAACTTATCACTAATTCAGTAGTGAAACTTAACATTGA
CTTACACAGTGAAATGAAT
Found at i:172921 original size:58 final size:58
Alignment explanation
Indices: 172831--172941 Score: 213
Period size: 58 Copynumber: 1.9 Consensus size: 58
172821 AGTAGCGAAA
*
172831 CTTAACATTGACTTACATCAGTTAAATGAATACATAATTTCAGCACTAAACTTTGAAG
1 CTTAACATTGACTTACATCAGTGAAATGAATACATAATTTCAGCACTAAACTTTGAAG
172889 CTTAACATTGACTTACATCAGTGAAATGAATACATAATTTCAGCACTAAACTT
1 CTTAACATTGACTTACATCAGTGAAATGAATACATAATTTCAGCACTAAACTT
172942 ATCACATAAT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (58 bp):
CTTAACATTGACTTACATCAGTGAAATGAATACATAATTTCAGCACTAAACTTTGAAG
Found at i:173003 original size:134 final size:134
Alignment explanation
Indices: 172756--173017 Score: 355
Period size: 134 Copynumber: 2.0 Consensus size: 134
172746 ACAATGAAAT
** *
172756 TTAACATTGACTTACATCAGTAAAATGAATATGTAATTCCAACACTAAACTTATCATATAATTCC
1 TTAACATTGACTTACATCAGTAAAATGAATACATAATTCCAACACTAAACTTATCACATAATTCC
* ** * * * *
172821 AGTAGCGAAACTTAACATTGACTTACATCAGTTAAATGAATACATAATTTCAGCACTAAACTTTG
66 AGCAGAAAAACTTAACATTGACTTACACCAGTGAAATAAATACATAATTCCAGCACTAAACTTTG
172886 AAGC
131 AAGC
* * *
172890 TTAACATTGACTTACATCAGTGAAATGAATACATAATTTCAGCACTAAACTTATCACATAATTCC
1 TTAACATTGACTTACATCAGTAAAATGAATACATAATTCCAACACTAAACTTATCACATAATT-C
* * **
172955 CA-CAGAAAAATTTAACATTGACTTGCACCAGTGAAATAAATATGTAATTCCAGCACTAAACTT
65 CAGCAGAAAAACTTAACATTGACTTACACCAGTGAAATAAATACATAATTCCAGCACTAAACTT
173018 ATCACATAAT
Statistics
Matches: 110, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
134 107 0.97
135 3 0.03
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.31
Consensus pattern (134 bp):
TTAACATTGACTTACATCAGTAAAATGAATACATAATTCCAACACTAAACTTATCACATAATTCC
AGCAGAAAAACTTAACATTGACTTACACCAGTGAAATAAATACATAATTCCAGCACTAAACTTTG
AAGC
Found at i:173016 original size:76 final size:76
Alignment explanation
Indices: 172884--173399 Score: 624
Period size: 76 Copynumber: 6.8 Consensus size: 76
172874 CACTAAACTT
* * * *
172884 TGAAGCTTAACATTGACTTACATCAGTGAAATGAATACATAATTTCAGCACTAAACTTATCACAT
1 TGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAGCACTAAACTTATCACAT
*
172949 AATTCCCACAG
66 AATTCCTACAG
** * * * *
172960 AAAAATTTAACATTGACTTGCACCAGTGAAATAAATATGTAATTCCAGCACTAAACTTATCACAT
1 TGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAGCACTAAACTTATCACAT
* *
173025 AATTCTTGCAG
66 AATTCCTACAG
* * * *
173036 TGAAACTTAA-ATTTGACTTACACCAGCGAAATGAATACATAATTTCAACACTAAACTTATCACA
1 TGAAACTTAACA-TTGACTTACACCAGTGAAATGAATACGTAATTCCAGCACTAAACTTATCACA
*
173100 TAATTCCCACAG
65 TAATTCCTACAG
* * *
173112 TAAAATTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAACACTAAACTTATCACAT
1 TGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAGCACTAAACTTATCACAT
*
173177 AATTCCTGCAG
66 AATTCCTACAG
* * ** * *
173188 TGAAACTTAACATTGACTTACACCAGCGAAATGAATACATAATTCCAGCAAAAAATTTATCACCT
1 TGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAGCACTAAACTTATCACAT
*
173253 AATT-CTAGTAG
66 AATTCCTA-CAG
* * * ** *
173264 TGAAACTTAACATTGACTTAAACCAATGAAATGAATACGTAATTCCAACACTAATTTTTTCACAT
1 TGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAGCACTAAACTTATCACAT
* * *
173329 AAGT-CAAGGAG
66 AATTCCTA-CAG
* *
173340 TGAAACTTAACATTGACTTACACTAGTGAAATGAATACGTAATTCTAGCACTAAACTTAT
1 TGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAGCACTAAACTTAT
173400 GATTTCACAT
Statistics
Matches: 372, Mismatches: 65, Indels: 6
0.84 0.15 0.01
Matches are distributed among these distances:
75 3 0.01
76 368 0.99
77 1 0.00
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (76 bp):
TGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAGCACTAAACTTATCACAT
AATTCCTACAG
Found at i:173124 original size:286 final size:286
Alignment explanation
Indices: 172598--173399 Score: 732
Period size: 286 Copynumber: 2.7 Consensus size: 286
172588 ATTTCAGTAG
* * * *
172598 TGAAACTTAACATTTACTTACACCAGTGAAATGACTACGTAATTCCAACTCTAAACTTATCACAT
1 TGAAACTTAACATTGACTTACACCAGTGAAATGAATACATAATTCCAACACTAAACTTATCACAT
* ** * *
172663 AATTTCAACAGTGAAACCTAACATTGACTTATACCAGTGAAATTAATACGTAATTCCAGCACAAA
66 AATTCCAACAGAAAAACCTAACATTGACTTACACCAGTGAAATAAATACGTAATTCCAGCACAAA
* * * * **
172728 ATTTATCATCTAATTCCAACAATGAAATTTAACATTGACTTACATCAGTAAAATGAATATGTAAT
131 ACTTATCATCTAATTCCAACAATGAAACTTAACATTGACTTACACCAGCAAAATGAATACATAAT
* * * * *
172793 TCCAACACTAAACTTATCATATAATTCCAGTAGCGAAACTTAACATTGACTTACATCAGTTAAAT
196 TCCAACACTAAACTTATCACATAATTCCAGCAGCAAAACTTAACATTGACTTACACCAGTGAAAT
* *
172858 GAATACATAATTTCAGCACTAAACTT
261 GAATACATAATTCCAACACTAAACTT
* * * *
172884 TGAAGCTTAACATTGACTTACATCAGTGAAATGAATACATAATTTCAGCACTAAACTTATCACAT
1 TGAAACTTAACATTGACTTACACCAGTGAAATGAATACATAATTCCAACACTAAACTTATCACAT
* ** * * *
172949 AATTCCCACAGAAAAATTTAACATTGACTTGCACCAGTGAAATAAATATGTAATTCCAGCACTAA
66 AATTCCAACAGAAAAACCTAACATTGACTTACACCAGTGAAATAAATACGTAATTCCAGCACAAA
*** * *
173014 ACTTATCA-CATAATTCTTGCAGTGAAACTTAA-ATTTGACTTACACCAGCGAAATGAATACATA
131 ACTTATCATC-TAATTCCAACAATGAAACTTAACA-TTGACTTACACCAGCAAAATGAATACATA
* * *
173077 ATTTCAACACTAAACTTATCACATAATTCCCA-CAGTAAAATTTAACATTGACTTACACCAGTGA
194 ATTCCAACACTAAACTTATCACATAATT-CCAGCAGCAAAACTTAACATTGACTTACACCAGTGA
*
173141 AATGAATACGTAATTCCAACACTAAACTTATCACATAATTCCT
258 AATGAATACATAATTCCAACACT--A---A--AC-----T--T
* * ** *
173184 GCAGTGAAACTTAACATTGACTTACACCAGCGAAATGAATACATAATTCCAGCAAAAAATTTATC
1 ----TGAAACTTAACATTGACTTACACCAGTGAAATGAATACATAATTCCAACACTAAACTTATC
* * ** ** * * * * *
173249 ACCTAATTCTAGTAGTGAAACTTAACATTGACTTAAACCAATGAAATGAATACGTAATTCCAACA
62 ACATAATTCCAACAGAAAAACCTAACATTGACTTACACCAGTGAAATAAATACGTAATTCCAGCA
* ** * * * * * **
173314 CTAATTTTTTCA-CATAAGT-CAAGGAGTGAAACTTAACATTGACTTACACTAGTGAAATGAATA
127 CAAAACTTATCATC-TAATTCCAA-CAATGAAACTTAACATTGACTTACACCAGCAAAATGAATA
* * *
173377 CGTAATTCTAGCACTAAACTTAT
190 CATAATTCCAACACTAAACTTAT
173400 GATTTCACAT
Statistics
Matches: 417, Mismatches: 76, Indels: 28
0.80 0.15 0.05
Matches are distributed among these distances:
285 2 0.00
286 231 0.55
287 3 0.01
288 1 0.00
291 1 0.00
293 2 0.00
298 1 0.00
300 1 0.00
304 174 0.42
305 1 0.00
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.30
Consensus pattern (286 bp):
TGAAACTTAACATTGACTTACACCAGTGAAATGAATACATAATTCCAACACTAAACTTATCACAT
AATTCCAACAGAAAAACCTAACATTGACTTACACCAGTGAAATAAATACGTAATTCCAGCACAAA
ACTTATCATCTAATTCCAACAATGAAACTTAACATTGACTTACACCAGCAAAATGAATACATAAT
TCCAACACTAAACTTATCACATAATTCCAGCAGCAAAACTTAACATTGACTTACACCAGTGAAAT
GAATACATAATTCCAACACTAAACTT
Found at i:173195 original size:362 final size:361
Alignment explanation
Indices: 172523--173237 Score: 972
Period size: 362 Copynumber: 2.0 Consensus size: 361
172513 ATTTCAGCAG
**
172523 TGAAACTTAACATTGACTTACACCAGTGAAATGAATATGTAATTATAGCACTAAACTTATCACAT
1 TGAAACTTAACATTGACTTACACCAGTGAAATGAATACATAATTATAGCACTAAACTTATCACAT
* * ** * * * *
172588 ATTTCAGTAGTGAAACTTAACATTTACTTACACCAGTGAAATGACTACGTAATTCCAACTCTAAA
66 ATTCCAGCAGAAAAACTTAACATTGACTTACACCAGTGAAATAAATACGTAATTCCAACACTAAA
* * * *
172653 CTTATCACATAATTTCAACAGTGAAACCTAACATTGACTTATACCAGTGAAATTAATACGTAATT
131 CTTATCACATAATTTCAACAGTGAAACCTAACATTGACTTACACCAGCGAAATGAATACATAATT
* * * *
172718 CCAGCACAAAATTTATCATCTAATTCCAACAATGAAATTTAACATTGACTTACATCAGTAAAATG
196 CCAACACAAAACTTATCATCTAATTCCAACAATAAAATTTAACATTGACTTACACCAGTAAAATG
* * *
172783 AATATGTAATTCCAACACTAAACTTATCATATAATTCCAGTAGCGAAACTTAACATTGACTTACA
261 AATACGTAATTCCAACACTAAACTTATCACATAATTCCAGCAGCGAAACTTAACATTGACTTACA
* ** *
172848 TCAGTTAAATGAATACATAATTTCAGCACTAAACTT
326 CCAGCGAAATGAATACATAATTCCAGCACTAAACTT
* *
172884 TGAAGCTTAACATTGACTTACATCAGTGAAATGAATACATAATT-TCAGCACTAAACTTATCACA
1 TGAAACTTAACATTGACTTACACCAGTGAAATGAATACATAATTAT-AGCACTAAACTTATCACA
* * * *
172948 TAATTCCCA-CAGAAAAATTTAACATTGACTTGCACCAGTGAAATAAATATGTAATTCCAGCACT
65 T-ATT-CCAGCAGAAAAACTTAACATTGACTTACACCAGTGAAATAAATACGTAATTCCAACACT
** *
173012 AAACTTATCACATAA-TTCTTGCAGTGAAACTTAA-ATTTGACTTACACCAGCGAAATGAATACA
128 AAACTTATCACATAATTTC-AACAGTGAAACCTAACA-TTGACTTACACCAGCGAAATGAATACA
* * * *
173075 TAATTTCAACACTAAACTTATCA-CATAATTCCCACAGTAAAATTTAACATTGACTTACACCAGT
191 TAATTCCAACACAAAACTTATCATC-TAATTCCAACAATAAAATTTAACATTGACTTACACCAGT
* * *
173139 GAAATGAATACGTAATTCCAACACTAAACTTATCACATAATTCCTGCAGTGAAACTTAACATTGA
255 AAAATGAATACGTAATTCCAACACTAAACTTATCACATAATTCCAGCAGCGAAACTTAACATTGA
173204 CTTACACCAGCGAAATGAATACATAATTCCAGCA
320 CTTACACCAGCGAAATGAATACATAATTCCAGCA
173238 AAAAATTTAT
Statistics
Matches: 307, Mismatches: 41, Indels: 11
0.86 0.11 0.03
Matches are distributed among these distances:
360 1 0.00
361 64 0.21
362 240 0.78
363 2 0.01
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.30
Consensus pattern (361 bp):
TGAAACTTAACATTGACTTACACCAGTGAAATGAATACATAATTATAGCACTAAACTTATCACAT
ATTCCAGCAGAAAAACTTAACATTGACTTACACCAGTGAAATAAATACGTAATTCCAACACTAAA
CTTATCACATAATTTCAACAGTGAAACCTAACATTGACTTACACCAGCGAAATGAATACATAATT
CCAACACAAAACTTATCATCTAATTCCAACAATAAAATTTAACATTGACTTACACCAGTAAAATG
AATACGTAATTCCAACACTAAACTTATCACATAATTCCAGCAGCGAAACTTAACATTGACTTACA
CCAGCGAAATGAATACATAATTCCAGCACTAAACTT
Found at i:175248 original size:69 final size:68
Alignment explanation
Indices: 175062--175263 Score: 194
Period size: 69 Copynumber: 2.9 Consensus size: 68
175052 GATAATATGT
* ** *
175062 TCCCTTGTGAGTCACTCTAATCCTTCG-GAGCTCCCT-TGCGAGTGAACTGAAATAATTACGATT
1 TCCCTTGCGAGTCACTCTAATCCTTCGAG-GCT-CCTGTGCGAGT-AACCCAAATAATCACGATT
* *
175125 ATGTGC
63 AGGTAC
* * * ** * *
175131 TCCCGTGCAAGTCACTCTAATCCTTC-AGGGATTTTGTGTGAGTCACCCAGAATAATCACGATTA
1 TCCCTTGCGAGTCACTCTAATCCTTCGA-GGCTCCTGTGCGAGTAACCCA-AATAATCACGATTA
175195 GGTAC
64 GGTAC
* *
175200 TCCCTTGCGAGTCACTCTAATCTTTCGAGGCTCCTGTGCGAGTAACCCAAAATACTCACGATTA
1 TCCCTTGCGAGTCACTCTAATCCTTCGAGGCTCCTGTGCGAGTAACCC-AAATAATCACGATTA
175264 CATATCTTTG
Statistics
Matches: 105, Mismatches: 22, Indels: 12
0.76 0.16 0.09
Matches are distributed among these distances:
68 4 0.04
69 98 0.93
70 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (68 bp):
TCCCTTGCGAGTCACTCTAATCCTTCGAGGCTCCTGTGCGAGTAACCCAAATAATCACGATTAGG
TAC
Found at i:185766 original size:90 final size:90
Alignment explanation
Indices: 185613--185788 Score: 298
Period size: 90 Copynumber: 2.0 Consensus size: 90
185603 TAACACACCC
* * *
185613 TTTTATAGCCAAGTTACCCTAGTCATATTAGGGTTTTTATTATTTCAAATTAATTAAATCTATAT
1 TTTTATAGCCAAGTTACCCTAATCATATCAGGGATTTTATTATTTCAAATTAATTAAATCTATAT
* *
185678 TTAATTAATTGGAATTTAATAATCA
66 TTAATTAATTGAAATTAAATAATCA
*
185703 TTTTATATCCAAGTTACCCTAATCATATCAGGGATTTTATTATTTCAAATTAATTAAATCTATAT
1 TTTTATAGCCAAGTTACCCTAATCATATCAGGGATTTTATTATTTCAAATTAATTAAATCTATAT
185768 TTAATTAATTGAAATTAAATA
66 TTAATTAATTGAAATTAAATA
185789 TTCGGGATTA
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
90 80 1.00
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (90 bp):
TTTTATAGCCAAGTTACCCTAATCATATCAGGGATTTTATTATTTCAAATTAATTAAATCTATAT
TTAATTAATTGAAATTAAATAATCA
Found at i:192630 original size:90 final size:90
Alignment explanation
Indices: 192477--192652 Score: 298
Period size: 90 Copynumber: 2.0 Consensus size: 90
192467 TAACACACCC
* * *
192477 TTTTATAGCCAAGTTACCCTAGTCATATTAGGGTTTTTATTATTTCAAATTAATTAAATCTATAT
1 TTTTATAGCCAAGTTACCCTAATCATATCAGGGATTTTATTATTTCAAATTAATTAAATCTATAT
* *
192542 TTAATTAATTGGAATTTAATAATCA
66 TTAATTAATTGAAATTAAATAATCA
*
192567 TTTTATATCCAAGTTACCCTAATCATATCAGGGATTTTATTATTTCAAATTAATTAAATCTATAT
1 TTTTATAGCCAAGTTACCCTAATCATATCAGGGATTTTATTATTTCAAATTAATTAAATCTATAT
192632 TTAATTAATTGAAATTAAATA
66 TTAATTAATTGAAATTAAATA
192653 TTCGGGATTA
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
90 80 1.00
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (90 bp):
TTTTATAGCCAAGTTACCCTAATCATATCAGGGATTTTATTATTTCAAATTAATTAAATCTATAT
TTAATTAATTGAAATTAAATAATCA
Found at i:195935 original size:5 final size:5
Alignment explanation
Indices: 195862--195935 Score: 51
Period size: 5 Copynumber: 15.0 Consensus size: 5
195852 GAGGCAACCC
* * * * * * *
195862 ATTTC ATTTT ATTCT CTTTT TTTTT A-TTT ATTTG ATTTT AATTT ATTTC
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
** *
195911 ATTCC ATTTC ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT
195936 TCTCTAAACA
Statistics
Matches: 54, Mismatches: 14, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
4 4 0.07
5 50 0.93
ACGTcount: A:0.19, C:0.09, G:0.01, T:0.70
Consensus pattern (5 bp):
ATTTT
Found at i:198368 original size:10 final size:10
Alignment explanation
Indices: 198353--198377 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
198343 CAAATATAAC
198353 CTAAATGCAA
1 CTAAATGCAA
198363 CTAAATGCAA
1 CTAAATGCAA
198373 CTAAA
1 CTAAA
198378 ATGTTGTGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.20, G:0.08, T:0.20
Consensus pattern (10 bp):
CTAAATGCAA
Found at i:205755 original size:21 final size:20
Alignment explanation
Indices: 205729--205768 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
205719 GCATCAAGGT
205729 TTTTGTCGAAGCCATGAAATA
1 TTTTGTCGAAGCCAT-AAATA
* *
205750 TTTTGTTGAGGCCATAAAT
1 TTTTGTCGAAGCCATAAAT
205769 TCATGCAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (20 bp):
TTTTGTCGAAGCCATAAATA
Found at i:207992 original size:77 final size:79
Alignment explanation
Indices: 207909--208055 Score: 194
Period size: 77 Copynumber: 1.9 Consensus size: 79
207899 AAATAAAATA
**
207909 TTATTTAATTAATT-CAAATTAAATAT-ACATT-AAAGACTTATAATCTGAATTACAATC-TTTA
1 TTATTTAATT-ATTCCAAATTAAATATCA-ATTAAAAGACTTATAATCAAAATTACAATCTTTTA
207970 ATGTTTATTTAAAACT
64 ATGTTTATTTAAAACT
* * * *
207986 TTATTTAATTATTCCGAATTAAATATCAATTAAAAGAGTTGTAATCAAAATTACATTCTTTTAAT
1 TTATTTAATTATTCCAAATTAAATATCAATTAAAAGACTTATAATCAAAATTACAATCTTTTAAT
208051 GTTTA
66 GTTTA
208056 CTTACTATAT
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
76 3 0.05
77 24 0.40
78 22 0.37
79 11 0.18
ACGTcount: A:0.41, C:0.09, G:0.05, T:0.44
Consensus pattern (79 bp):
TTATTTAATTATTCCAAATTAAATATCAATTAAAAGACTTATAATCAAAATTACAATCTTTTAAT
GTTTATTTAAAACT
Found at i:213179 original size:8 final size:8
Alignment explanation
Indices: 213166--213211 Score: 51
Period size: 8 Copynumber: 5.8 Consensus size: 8
213156 TGTATGTTCT
213166 TTATTTTA
1 TTATTTTA
*
213174 TTATTTCA
1 TTATTTTA
213182 TTATTTTA
1 TTATTTTA
213190 TTATATTT-
1 TTAT-TTTA
213198 TTAATTTTA
1 TT-ATTTTA
213207 -TATTT
1 TTATTT
213212 GCAAAAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
7 4 0.12
8 24 0.73
9 5 0.15
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (8 bp):
TTATTTTA
Found at i:213314 original size:17 final size:17
Alignment explanation
Indices: 213278--213325 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
213268 CAATAAACCC
*
213278 AAAAGAAAAAAAATGAA
1 AAAAGAAAAAAAATCAA
*
213295 AAAATAAAAAAAATCCAA
1 AAAAGAAAAAAAAT-CAA
213313 AAAACGAAAAAAA
1 AAAA-GAAAAAAA
213326 TTGTGAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 13 0.50
18 6 0.23
19 7 0.27
ACGTcount: A:0.81, C:0.06, G:0.06, T:0.06
Consensus pattern (17 bp):
AAAAGAAAAAAAATCAA
Found at i:213314 original size:18 final size:17
Alignment explanation
Indices: 213278--213326 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
213268 CAATAAACCC
* *
213278 AAAAGAAAAAAAATGAA
1 AAAACAAAAAAAATCAA
*
213295 AAAATAAAAAAAATCCAA
1 AAAACAAAAAAAAT-CAA
*
213313 AAAACGAAAAAAAT
1 AAAACAAAAAAAAT
213327 TGTGAAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
17 13 0.48
18 14 0.52
ACGTcount: A:0.80, C:0.06, G:0.06, T:0.08
Consensus pattern (17 bp):
AAAACAAAAAAAATCAA
Found at i:213777 original size:36 final size:36
Alignment explanation
Indices: 213730--213802 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
213720 GTCTTTGCTT
213730 GATTGCACCTTGATTTCGGTAATTGTAATGGACATA
1 GATTGCACCTTGATTTCGGTAATTGTAATGGACATA
213766 GATTGCACCTTGATTTCGGTAATTGTAATGGACATA
1 GATTGCACCTTGATTTCGGTAATTGTAATGGACATA
213802 G
1 G
213803 TTCGATTGGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (36 bp):
GATTGCACCTTGATTTCGGTAATTGTAATGGACATA
Found at i:215494 original size:39 final size:39
Alignment explanation
Indices: 215373--215531 Score: 139
Period size: 39 Copynumber: 4.1 Consensus size: 39
215363 CTTTACATTG
* * *
215373 ACTTTCACCAGTGAAATGAATACGTAATTCTAGCACTAA
1 ACTTACACTAGTGAAATGAATACGTAATTCTAACACTAA
** * * * **
215412 ACTTATCAC-A-TGATTTCAGTA-GTGAA-GCTTAACA-TTG
1 ACTTA-CACTAGTGAAATGAATACGT-AATTC-TAACACTAA
215449 ACTTACACTAGTGAAATGAATACGTAATTCTAACACTAA
1 ACTTACACTAGTGAAATGAATACGTAATTCTAACACTAA
* * *
215488 ACTTACACTAGTAAAATGAATACATAATTCTAGCACTAA
1 ACTTACACTAGTGAAATGAATACGTAATTCTAACACTAA
215527 ACTTA
1 ACTTA
215532 TCGCATAATT
Statistics
Matches: 93, Mismatches: 19, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
36 3 0.03
37 10 0.11
38 27 0.29
39 50 0.54
40 3 0.03
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.30
Consensus pattern (39 bp):
ACTTACACTAGTGAAATGAATACGTAATTCTAACACTAA
Done.