Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000291.1 Hibiscus syriacus cultivar Beakdansim tig00000535_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: 159095
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Found at i:12374 original size:16 final size:16
Alignment explanation
Indices: 12350--12383 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
12340 TATCGCCGAC
*
12350 CGAATTTCACTATTCA
1 CGAAATTCACTATTCA
12366 CGAAATTCACTATTCA
1 CGAAATTCACTATTCA
12382 CG
1 CG
12384 TGATTAGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.26, G:0.09, T:0.32
Consensus pattern (16 bp):
CGAAATTCACTATTCA
Found at i:13820 original size:29 final size:31
Alignment explanation
Indices: 13788--13847 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
13778 TATTTCATCG
* *
13788 CTAAAT-ATTT-TTATAATTTTTTAATGTGA
1 CTAAATAATTTGTTACAATTTATTAATGTGA
*
13817 CTAAATAATTTGTTACAATTTATTATTGTGA
1 CTAAATAATTTGTTACAATTTATTAATGTGA
13848 AAGAATATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 6 0.23
30 4 0.15
31 16 0.62
ACGTcount: A:0.35, C:0.05, G:0.08, T:0.52
Consensus pattern (31 bp):
CTAAATAATTTGTTACAATTTATTAATGTGA
Found at i:14163 original size:198 final size:197
Alignment explanation
Indices: 13812--14219 Score: 600
Period size: 198 Copynumber: 2.1 Consensus size: 197
13802 AATTTTTTAA
*
13812 TGTGACTAAATAATTTGTTACAATTTATTATTGTGAAAGAATATTATTTGTCACAAATTTTTATA
1 TGTGACTAAATAATTTGTTACAATTTATTATTGTGAAAGAATATTACTTGTCACAAATTTTTATA
* ** * ** *
13877 ATGAGAAATTAATATTTGTTATAAATTGCTATTTTGATTAAATAAATTTGTCGTAATTTTTTATT
66 ATGAGAAATTAATATTTGTTAGAAATTAATATTTTGATTAAATAAATTTATCAAAACTTTTTATT
* * * *
13942 TTGACAAAATATTATGACTAAATAAATTTGATATAACTTTTTACTTTGATTAAATTTAATGTGTT
131 TTGACAAAATATTATGACTAAATAAATTTAACATAACTTTTTACTTTAAATAAATTTAATGTGTT
14007 AT
196 AT
* * * *
14009 TGTGACTAAATCATTTTGTTACAATTTGTTATTGTGAAATAATATTACTTGTCATAAATTTTTAT
1 TGTGACTAAAT-AATTTGTTACAATTTATTATTGTGAAAGAATATTACTTGTCACAAATTTTTAT
*
14074 ATTGAGAAATTAATATTTGTTAGAAATTAATATTTTGATTAAATAAATTTATCAAAACTTTTTAT
65 AATGAGAAATTAATATTTGTTAGAAATTAATATTTTGATTAAATAAATTTATCAAAACTTTTTAT
* * * *
14139 TTTGACAAAATATTTTGACTAAATAAATTTAACATAATTTTTTATTTTAAATAAATTTAATTTGT
130 TTTGACAAAATATTATGACTAAATAAATTTAACATAACTTTTTACTTTAAATAAATTTAATGTGT
14204 TAT
195 TAT
* *
14207 TTTGTCTAAATAA
1 TGTGACTAAATAA
14220 ATTATCATAA
Statistics
Matches: 186, Mismatches: 24, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
197 12 0.06
198 174 0.94
ACGTcount: A:0.38, C:0.05, G:0.09, T:0.48
Consensus pattern (197 bp):
TGTGACTAAATAATTTGTTACAATTTATTATTGTGAAAGAATATTACTTGTCACAAATTTTTATA
ATGAGAAATTAATATTTGTTAGAAATTAATATTTTGATTAAATAAATTTATCAAAACTTTTTATT
TTGACAAAATATTATGACTAAATAAATTTAACATAACTTTTTACTTTAAATAAATTTAATGTGTT
AT
Found at i:14287 original size:21 final size:21
Alignment explanation
Indices: 14263--14303 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
14253 TTTTATTTAA
*
14263 ATTTGTTATTATAAATAAAAT
1 ATTTGTTATGATAAATAAAAT
* *
14284 ATTTTTTATGATAACTAAAA
1 ATTTGTTATGATAAATAAAA
14304 ATATATTTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.46
Consensus pattern (21 bp):
ATTTGTTATGATAAATAAAAT
Found at i:14356 original size:27 final size:28
Alignment explanation
Indices: 14299--14363 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 28
14289 TTATGATAAC
* *
14299 TAAAAATATATTTTAAAATCTTATAACAA
1 TAAAAATA-ATATTAAAATCATATAACAA
14328 TAAAAATAATATTAAATATCAT-TAA-AA
1 TAAAAATAATATTAAA-ATCATATAACAA
*
14355 TAAACATAA
1 TAAAAATAA
14364 AATGTTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 10 0.31
28 10 0.31
29 12 0.38
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (28 bp):
TAAAAATAATATTAAAATCATATAACAA
Found at i:17904 original size:20 final size:20
Alignment explanation
Indices: 17867--17909 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
17857 ATTCCACCAC
*
17867 ATGCAACTATATACTCCTAA
1 ATGCAACTACATACTCCTAA
* *
17887 ATGCATCTACATAGTCCTAA
1 ATGCAACTACATACTCCTAA
17907 ATG
1 ATG
17910 AGCTCTTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.37, C:0.23, G:0.09, T:0.30
Consensus pattern (20 bp):
ATGCAACTACATACTCCTAA
Found at i:26766 original size:18 final size:18
Alignment explanation
Indices: 26732--26777 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
26722 ATGATATGTA
26732 CAAATGAGAATGCTGTGG
1 CAAATGAGAATGCTGTGG
*
26750 CAAACTGAG-ATGTTGTGG
1 CAAA-TGAGAATGCTGTGG
26768 -AAATG-GAATG
1 CAAATGAGAATG
26778 GTGGTAGTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
15 1 0.04
16 5 0.20
17 3 0.12
18 12 0.48
19 4 0.16
ACGTcount: A:0.35, C:0.09, G:0.33, T:0.24
Consensus pattern (18 bp):
CAAATGAGAATGCTGTGG
Found at i:28318 original size:20 final size:20
Alignment explanation
Indices: 28281--28323 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
28271 ATTCCACCAC
*
28281 ATGCAACTATATGCTCCTAA
1 ATGCAACTACATGCTCCTAA
* *
28301 ATGCATCTACATGGTCCTAA
1 ATGCAACTACATGCTCCTAA
28321 ATG
1 ATG
28324 AGCTCTTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (20 bp):
ATGCAACTACATGCTCCTAA
Found at i:28843 original size:11 final size:11
Alignment explanation
Indices: 28827--28851 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
28817 AAATCTATTG
28827 TTTTATTTTAT
1 TTTTATTTTAT
28838 TTTTATTTTAT
1 TTTTATTTTAT
28849 TTT
1 TTT
28852 AACTAATGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:29847 original size:416 final size:415
Alignment explanation
Indices: 29196--30037 Score: 1158
Period size: 416 Copynumber: 2.0 Consensus size: 415
29186 TATAAAACTT
* * * *
29196 TTACTATATAACATTTTATGCACCAAAAAATAGGGAAAATGTTTCTGATAGTATAATTTTTCATA
1 TTACTATATAACATTTTATACACCAAAAAATAGGGAAAATGATTCTGATAATATAATGTTTCATA
*
29261 ATGATTAAAATATATAACTATAAAAATAATTAATTACAAAAAACTTGAATTTTATTATCTAATGT
66 ATGATTAAAATATATAACTACAAAAATAATTAATTACAAAAAACTTGAATTTTATTATCTAATGT
* * *
29326 GATAATTTTTCTATAACAATAACTATAAATTATAATTACAAACTTATCAATATAACTTTTGAAAC
131 GATAATTTTTCTATAACAATAAATATAAATTATAATTAAAAAATTATCAATATAACTTTTGAAAC
*
29391 AAAAAAAAAAAGTGGAGAAAAATATTTATCACAATATATGTTATCAATATAATTAAAATTTATAA
196 ---AAAAAAAAGTGGAGAAAAATAGTTATCACAATATATGTTATCAATATAATTAAAATTTATAA
* * * * *
29456 CTACAAGTATAATCTGTCATAAAAA-TGTGAATAACATTATTTTTTGTGACATTGTTTTTTTGTA
258 CTACAAATATAATCTGTCACAAAAAGCGTGAATAACATTATTTTTTGTGACACT-ATTTTTTGTA
* *
29520 ATAATTATAAACAC-TATAGTTACAAAAATTATTACTATATAATTTTTTTGGG-ACAAA-AATAT
322 ATAATTATAAACACTTATAGTTACAAAAATTATCACTATATAACTTTTTTGGGCA-AAACAATAT
* *
29582 GGAGGAAAATCATTATGATAATATATTTTG
386 GGAGGAAAATCATTATGACAATATATTTTA
* *
29612 TTACTATATAACATTTTTTACACTAAAAAATAGGGAGAAATGATTCTGATAATATAATGTTTCAT
1 TTACTATATAACATTTTATACACCAAAAAATAGGGA-AAATGATTCTGATAATATAATGTTTCAT
* * * *
29677 AATGATTAAAATATATATATGTACAAAAATAATTTATTA-AAAAAACTTGAATTTTATTATTTGA
65 AATGATTAAAATATATA-A-CTACAAAAATAATTAATTACAAAAAACTTGAATTTTATTATCTAA
* *
29741 TGTGATAATTTTTTCTATAACAATAAATATAAATTATAATTATAAAAATTGTTAATATAACTTTT
128 TGTGATAA-TTTTTCTATAACAATAAATATAAATTATAATTA-AAAAATTATCAATATAACTTTT
* * * *
29806 GAAAC-AAAAAAA-TTGAGAAAAAATAGTTATGACAATATATGTTATCACTATAGTTAAAATTTA
191 GAAACAAAAAAAAGTGGAG-AAAAATAGTTATCACAATATATGTTATCAATATAATTAAAATTTA
* * *
29869 TAACTACAAATATAATTTGTCACAAAAAGCGTGAATAACGTTATTTTTTGTGATACTATTTTTTG
255 TAACTACAAATATAATCTGTCACAAAAAGCGTGAATAACATTATTTTTTGTGACACTATTTTTTG
* * * * *
29934 TAATAATTATTAACACTTATAGTTACAAAATTTGTCACTATATGACTTTTTTGTGCAAAACAATA
320 TAATAATTATAAACACTTATAGTTACAAAAATTATCACTATATAACTTTTTTGGGCAAAACAATA
* * *
29999 TGGAGGGAAATCTTTGTGACAATATATTTTA
385 TGGAGGAAAATCATTATGACAATATATTTTA
*
30030 TCACTATA
1 TTACTATA
30038 ATTAAACATA
Statistics
Matches: 374, Mismatches: 42, Indels: 18
0.86 0.10 0.04
Matches are distributed among these distances:
415 4 0.01
416 128 0.34
417 101 0.27
418 70 0.19
419 48 0.13
420 23 0.06
ACGTcount: A:0.44, C:0.08, G:0.09, T:0.39
Consensus pattern (415 bp):
TTACTATATAACATTTTATACACCAAAAAATAGGGAAAATGATTCTGATAATATAATGTTTCATA
ATGATTAAAATATATAACTACAAAAATAATTAATTACAAAAAACTTGAATTTTATTATCTAATGT
GATAATTTTTCTATAACAATAAATATAAATTATAATTAAAAAATTATCAATATAACTTTTGAAAC
AAAAAAAAGTGGAGAAAAATAGTTATCACAATATATGTTATCAATATAATTAAAATTTATAACTA
CAAATATAATCTGTCACAAAAAGCGTGAATAACATTATTTTTTGTGACACTATTTTTTGTAATAA
TTATAAACACTTATAGTTACAAAAATTATCACTATATAACTTTTTTGGGCAAAACAATATGGAGG
AAAATCATTATGACAATATATTTTA
Found at i:30037 original size:180 final size:180
Alignment explanation
Indices: 29835--30292 Score: 439
Period size: 183 Copynumber: 2.5 Consensus size: 180
29825 AAAATAGTTA
* * * *
29835 TGACAATATATGTTATCACTATAGTTAAAATTTATAACTACAAATATAATTTGTCACAAAAAGCG
1 TGACAATATATTTTATCACTATAATTAAAA-TTATAACTACAAAAATAATTTTTCACAAAAA-CG
* * * * *
29900 TGAATAACGTTATTTTTTGTGA-TACTATTTTTTGTAATAATTATTA-ACACTTATAGTTACAAA
64 TGAATAACATTATTTGTTGTGACAAC--TTTTTTGTAACAATAATTATA-ACTTATAGTTACAAA
** * * *
29963 ATTTGTCACTATATGA-CT-TTTTTGTGCAAAACAATA-TGGAGGGA-AATC-TTTG
126 ACATATCACTATATGATCTGTTTTTGTACAAAACAAAATTGGA--GATAATCATTTG
* ** * *
30015 TGACAATATATTTTATCACTATAATTAAACA-TATAACGACAAAAATTTTTTTTTACTAAAAACT
1 TGACAATATATTTTATCACTATAATTAAA-ATTATAACTACAAAAATAATTTTTCAC-AAAAACG
** * *
30079 TGAATCTCATTATTTGTTGTGACAACTTTTTTGTAACAATAATTATATCTTATAGTTTCAAAACA
64 TGAATAACATTATTTGTTGTGACAACTTTTTTGTAACAATAATTATAACTTATAGTTACAAAACA
*
30144 TATCACTATATGATTTTGTTTTTGTACAAAACAAAATTGGAGATAATCATTTG
129 TATCACTATATGA-TCTGTTTTTGTACAAAACAAAATTGGAGATAATCATTTG
* * * *
30197 TGACTATATATTTTGTCACTATAATTAAAATATATAATTACAAACAA-AATTTTTCACAACAAAT
1 TGACAATATATTTTATCACTATAATTAAAAT-TATAACTACAAA-AATAATTTTTCACAA-AAAC
* * ** *
30261 TTAAATCTCATTATTTGTTGTGATAACTTTTT
63 GTGAATAACATTATTTGTTGTGACAACTTTTT
30293 CTGTCATAGT
Statistics
Matches: 230, Mismatches: 34, Indels: 25
0.80 0.12 0.09
Matches are distributed among these distances:
178 43 0.19
179 39 0.17
180 37 0.16
181 22 0.10
182 37 0.16
183 50 0.22
184 2 0.01
ACGTcount: A:0.38, C:0.11, G:0.09, T:0.41
Consensus pattern (180 bp):
TGACAATATATTTTATCACTATAATTAAAATTATAACTACAAAAATAATTTTTCACAAAAACGTG
AATAACATTATTTGTTGTGACAACTTTTTTGTAACAATAATTATAACTTATAGTTACAAAACATA
TCACTATATGATCTGTTTTTGTACAAAACAAAATTGGAGATAATCATTTG
Found at i:30327 original size:15 final size:16
Alignment explanation
Indices: 30299--30328 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
30289 TTTTCTGTCA
30299 TAGTTACTAAAATTTT
1 TAGTTACTAAAATTTT
30315 TAGTTAC-AAAATTT
1 TAGTTACTAAAATTT
30329 GTCATTATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (16 bp):
TAGTTACTAAAATTTT
Found at i:32286 original size:29 final size:30
Alignment explanation
Indices: 32231--32289 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
32221 TGGGATGTGC
32231 ATTATCTCGTGAATAAAAAAGTTCGAGAAT
1 ATTATCTCGTGAATAAAAAAGTTCGAGAAT
* *
32261 ATTATCTCGTGGAT-TAAAAGTTCGAGAAT
1 ATTATCTCGTGAATAAAAAAGTTCGAGAAT
32290 TCACCCCATT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 14 0.52
30 13 0.48
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.32
Consensus pattern (30 bp):
ATTATCTCGTGAATAAAAAAGTTCGAGAAT
Found at i:32490 original size:20 final size:20
Alignment explanation
Indices: 32465--32503 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
32455 TGACATACGA
32465 ATACGAGCCATACAAGCCAT
1 ATACGAGCCATACAAGCCAT
*
32485 ATACGAGCCATACGAGCCA
1 ATACGAGCCATACAAGCCA
32504 ATGGAGAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.31, G:0.18, T:0.13
Consensus pattern (20 bp):
ATACGAGCCATACAAGCCAT
Found at i:32497 original size:9 final size:9
Alignment explanation
Indices: 32465--32503 Score: 51
Period size: 9 Copynumber: 4.1 Consensus size: 9
32455 TGACATACGA
32465 ATACGAGCC
1 ATACGAGCC
*
32474 ATACAAGCC
1 ATACGAGCC
32483 ATATACGAGCC
1 --ATACGAGCC
32494 ATACGAGCC
1 ATACGAGCC
32503 A
1 A
32504 ATGGAGAGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
9 18 0.69
11 8 0.31
ACGTcount: A:0.38, C:0.31, G:0.18, T:0.13
Consensus pattern (9 bp):
ATACGAGCC
Found at i:32613 original size:29 final size:29
Alignment explanation
Indices: 32510--32613 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
32500 GCCAATGGAG
* **
32510 AGGTCGCCATGCAGTCTGGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
*
32539 AGGTCGCCATGTAGTCCTGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
**
32568 AGGTCGCCATGTAGTCCCGGCGACCAAGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
32597 AGGTCGCCATGTAGTCC
1 AGGTCGCCATGTAGTCC
32614 TAGCTCACGA
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 69 1.00
ACGTcount: A:0.16, C:0.29, G:0.32, T:0.23
Consensus pattern (29 bp):
AGGTCGCCATGTAGTCCCGGCGACCTTGT
Found at i:33091 original size:41 final size:41
Alignment explanation
Indices: 33046--33134 Score: 92
Period size: 41 Copynumber: 2.2 Consensus size: 41
33036 TATATGATTG
* *
33046 TTAGTTTAAG-TT-ATAGTATACATAAATTAAAAATTATTTAA
1 TTAGTTTAAGTTTGATAGT-TACAT-AATTAAAAAATAATTAA
* * * *
33087 TTAGTATATGTTTGATAGTTATATAGTTAAAAAATAATTAA
1 TTAGTTTAAGTTTGATAGTTACATAATTAAAAAATAATTAA
33128 TTAGTTT
1 TTAGTTT
33135 GTTTTGTTAA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
41 28 0.72
42 6 0.15
43 5 0.13
ACGTcount: A:0.43, C:0.01, G:0.10, T:0.46
Consensus pattern (41 bp):
TTAGTTTAAGTTTGATAGTTACATAATTAAAAAATAATTAA
Found at i:33177 original size:45 final size:45
Alignment explanation
Indices: 33074--33205 Score: 134
Period size: 45 Copynumber: 3.0 Consensus size: 45
33064 TACATAAATT
*
33074 AAAAATTATTTAATTAGTATATG-TTTG---ATAGTTA--TATAGTTA
1 AAAAATTATTTAATTAGT-T-TGTTTTGTTAATAGTTAGTTATA-TAA
*
33116 AAAAA-TAATTAATTAGTTTGTTTTGTTAATAGTTAGTTATATAA
1 AAAAATTATTTAATTAGTTTGTTTTGTTAATAGTTAGTTATATAA
*
33160 AAAAATTATTTAATTAGTTTGTGTTAGTTAAATAGTTAAGTTATAT
1 AAAAATTATTTAATTAGTTTGT-TTTGTT-AATAGTT-AGTTATAT
33206 TTGTTTGTTG
Statistics
Matches: 76, Mismatches: 4, Indels: 14
0.81 0.04 0.15
Matches are distributed among these distances:
39 2 0.03
40 5 0.07
41 11 0.14
42 5 0.07
43 7 0.09
44 7 0.09
45 19 0.25
46 5 0.07
47 7 0.09
48 8 0.11
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (45 bp):
AAAAATTATTTAATTAGTTTGTTTTGTTAATAGTTAGTTATATAA
Found at i:33398 original size:16 final size:16
Alignment explanation
Indices: 33366--33412 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
33356 TTTAAAAAGT
*
33366 TTAGTTTGTTAGT-TTA
1 TTAGTTTATTA-TATTA
33382 TTAGTTTATTATATTA
1 TTAGTTTATTATATTA
*
33398 TAAG-TTATTATATTA
1 TTAGTTTATTATATTA
33413 AAGTTTAGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 12 0.43
16 16 0.57
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.60
Consensus pattern (16 bp):
TTAGTTTATTATATTA
Found at i:33407 original size:15 final size:14
Alignment explanation
Indices: 33387--33417 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
33377 GTTTATTAGT
33387 TTATTATATTATAAG
1 TTATTATATTA-AAG
33402 TTATTATATTAAAG
1 TTATTATATTAAAG
33416 TT
1 TT
33418 TAGTGTTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (14 bp):
TTATTATATTAAAG
Found at i:35585 original size:17 final size:17
Alignment explanation
Indices: 35563--35595 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
35553 CAATGATTTT
*
35563 TAGTATCAAATCATTAC
1 TAGTATCAAATAATTAC
35580 TAGTATCAAATAATTA
1 TAGTATCAAATAATTA
35596 AATATTTAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.36
Consensus pattern (17 bp):
TAGTATCAAATAATTAC
Found at i:35612 original size:24 final size:22
Alignment explanation
Indices: 35580--35648 Score: 77
Period size: 22 Copynumber: 3.0 Consensus size: 22
35570 AAATCATTAC
35580 TAGTATCAAATAATTAAATATT
1 TAGTATCAAATAATTAAATATT
* *
35602 TAGTAAATCAACTATTTTAAATCA-T
1 TAGT--ATCAAATA-ATTAAAT-ATT
35627 TAGTATCAAATAATTAAATATT
1 TAGTATCAAATAATTAAATATT
35649 AACAATAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
21 1 0.03
22 11 0.29
23 7 0.18
24 7 0.18
25 11 0.29
26 1 0.03
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.41
Consensus pattern (22 bp):
TAGTATCAAATAATTAAATATT
Found at i:35846 original size:21 final size:21
Alignment explanation
Indices: 35820--35859 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
35810 AATCATTAGT
35820 ATATCAAGCAAACTCCATCGG
1 ATATCAAGCAAACTCCATCGG
35841 ATATCAAGCAAACTCCATC
1 ATATCAAGCAAACTCCATC
35860 TTCACGAACG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.30, G:0.10, T:0.20
Consensus pattern (21 bp):
ATATCAAGCAAACTCCATCGG
Found at i:37622 original size:26 final size:24
Alignment explanation
Indices: 37564--37622 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 24
37554 CTAATAAACC
*
37564 TAATAATGATTTGATAATTACTAT
1 TAATAATGATTTGATAATTAATAT
*
37588 TAATCTAATGATTTGATATTTAATGATT
1 TAA--TAATGATTTGATAATTAAT-A-T
37616 TAATAAT
1 TAATAAT
37623 AATATGATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
24 3 0.10
26 21 0.72
27 1 0.03
28 4 0.14
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.47
Consensus pattern (24 bp):
TAATAATGATTTGATAATTAATAT
Found at i:38473 original size:28 final size:30
Alignment explanation
Indices: 38433--38495 Score: 103
Period size: 28 Copynumber: 2.2 Consensus size: 30
38423 ATTTTTTATA
*
38433 TAATATAATATATAACTTAAACTAATAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
38463 TAATAT-A-ATATAACTTAAACTAACAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
38491 TAATA
1 TAATA
38496 ATTTATACTA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 25 0.78
29 1 0.03
30 6 0.19
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (30 bp):
TAATATAATATATAACTTAAACTAACAAAC
Found at i:38502 original size:28 final size:28
Alignment explanation
Indices: 38437--38502 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
38427 TTTATATAAT
*
38437 ATAATATATAACTTAAACTAATAAACTA
1 ATAATATATAACTTAAACTAACAAACTA
38465 AT-ATAATATAACTTAAACTAACAAACTA
1 ATAAT-ATATAACTTAAACTAACAAACTA
*
38493 ATAATTTATA
1 ATAATATATA
38503 CTAACAAACT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 2 0.06
28 30 0.88
29 2 0.06
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (28 bp):
ATAATATATAACTTAAACTAACAAACTA
Found at i:38505 original size:21 final size:21
Alignment explanation
Indices: 38472--38520 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
38462 CTAATATAAT
38472 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* *
38493 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
38514 ATTAACT
1 A-TAACT
38521 AGATTTTAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:38914 original size:21 final size:21
Alignment explanation
Indices: 38889--38960 Score: 58
Period size: 21 Copynumber: 3.3 Consensus size: 21
38879 ACGTAACTAT
38889 GGATGCAACACATGCAGCTAC
1 GGATGCAACACATGCAGCTAC
* * *
38910 GGATGCAGGA-ATC-TCCCAACTAT
1 GGATGCA--ACA-CAT-GCAGCTAC
*
38933 GGATGCAACGCATGCAGCTAC
1 GGATGCAACACATGCAGCTAC
38954 GGATGCA
1 GGATGCA
38961 GGAATCTCCC
Statistics
Matches: 38, Mismatches: 7, Indels: 12
0.67 0.12 0.21
Matches are distributed among these distances:
21 21 0.55
22 3 0.08
23 14 0.37
ACGTcount: A:0.31, C:0.26, G:0.26, T:0.17
Consensus pattern (21 bp):
GGATGCAACACATGCAGCTAC
Found at i:38992 original size:50 final size:44
Alignment explanation
Indices: 38883--38971 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
38873 GCAATAACGT
*
38883 AACTATGGATGCAACACATGCAGCTACGGATGCAGGAATCTCCC
1 AACTATGGATGCAACGCATGCAGCTACGGATGCAGGAATCTCCC
38927 AACTATGGATGCAACGCATGCAGCTACGGATGCAGGAATCTCCC
1 AACTATGGATGCAACGCATGCAGCTACGGATGCAGGAATCTCCC
38971 A
1 A
38972 GCCCCAGCTA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.31, C:0.27, G:0.24, T:0.18
Consensus pattern (44 bp):
AACTATGGATGCAACGCATGCAGCTACGGATGCAGGAATCTCCC
Found at i:39099 original size:20 final size:20
Alignment explanation
Indices: 39074--39111 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
39064 ACGTGCATGG
*
39074 CCCATGCACAGTTCCCACGT
1 CCCATGCACAGCTCCCACGT
39094 CCCATGCACAGCTCCCAC
1 CCCATGCACAGCTCCCAC
39112 ATGCATCCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.50, G:0.13, T:0.16
Consensus pattern (20 bp):
CCCATGCACAGCTCCCACGT
Found at i:39123 original size:20 final size:20
Alignment explanation
Indices: 39100--39137 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
39090 ACGTCCCATG
*
39100 CACAGCTCCCACATGCATCC
1 CACAACTCCCACATGCATCC
*
39120 CACAACTCCCCCATGCAT
1 CACAACTCCCACATGCAT
39138 GCTCCAATAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.50, G:0.08, T:0.16
Consensus pattern (20 bp):
CACAACTCCCACATGCATCC
Found at i:39230 original size:29 final size:29
Alignment explanation
Indices: 39197--39300 Score: 181
Period size: 29 Copynumber: 3.6 Consensus size: 29
39187 AACACCACAC
*
39197 AGGTCGCTCGGATGCCATGGCGACCTCCA
1 AGGTCGCCCGGATGCCATGGCGACCTCCA
39226 AGGTCGCCCGGATGCCATGGCGACCTCCA
1 AGGTCGCCCGGATGCCATGGCGACCTCCA
*
39255 AGGTCGCTCGGATGCCATGGCGACCTCCA
1 AGGTCGCCCGGATGCCATGGCGACCTCCA
*
39284 AGCTCGCCCGGATGCCA
1 AGGTCGCCCGGATGCCA
39301 CTGTAGACTT
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 71 1.00
ACGTcount: A:0.17, C:0.37, G:0.31, T:0.15
Consensus pattern (29 bp):
AGGTCGCCCGGATGCCATGGCGACCTCCA
Found at i:41365 original size:21 final size:21
Alignment explanation
Indices: 41341--41388 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
41331 CCTAATATTG
41341 CAATGTCAAAATTAGGCGCAA
1 CAATGTCAAAATTAGGCGCAA
*
41362 CAATGTCAAAATTAGGTGCAA
1 CAATGTCAAAATTAGGCGCAA
*
41383 TAATGT
1 CAATGT
41389 TTGAAAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.25
Consensus pattern (21 bp):
CAATGTCAAAATTAGGCGCAA
Found at i:43484 original size:15 final size:16
Alignment explanation
Indices: 43456--43487 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
43446 TTTTCTGTCA
43456 TAGTTACTAAAATTTT
1 TAGTTACTAAAATTTT
43472 TAGTTAC-AAAATTTT
1 TAGTTACTAAAATTTT
43487 T
1 T
43488 CATTATATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (16 bp):
TAGTTACTAAAATTTT
Found at i:45130 original size:21 final size:21
Alignment explanation
Indices: 45105--45152 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
45095 CCTAATATTG
45105 CAATGTCAAAATTAGGTGCAA
1 CAATGTCAAAATTAGGTGCAA
45126 CAATGTCAAAATTAGGTGCAA
1 CAATGTCAAAATTAGGTGCAA
*
45147 TAATGT
1 CAATGT
45153 TTGAAAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.27
Consensus pattern (21 bp):
CAATGTCAAAATTAGGTGCAA
Found at i:47243 original size:41 final size:41
Alignment explanation
Indices: 47137--47231 Score: 145
Period size: 41 Copynumber: 2.3 Consensus size: 41
47127 ATATTTGTAT
* * *
47137 TTTAGTGGCATTTGTATGAAAATGCCGCTATAGACTTCTAC
1 TTTAGTGGCGTTTGTATGAAAACGCCGCTATAGACTTATAC
* *
47178 TTTAGTGGCGTTCGTATGAGAACGCCGCTATAGACTTATAC
1 TTTAGTGGCGTTTGTATGAAAACGCCGCTATAGACTTATAC
47219 TTTAGTGGCGTTT
1 TTTAGTGGCGTTT
47232 TTGTTAAAAC
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.37
Consensus pattern (41 bp):
TTTAGTGGCGTTTGTATGAAAACGCCGCTATAGACTTATAC
Found at i:47264 original size:41 final size:43
Alignment explanation
Indices: 47219--47332 Score: 110
Period size: 44 Copynumber: 2.7 Consensus size: 43
47209 AGACTTATAC
* *
47219 TTTAGTGGCGTTTTTGTTA-AAACGCTGCAATAGTAATGTA-A
1 TTTAGTGGCGTTTTTGTAATAAACGCCGCAATAGTAATGTACA
* * *
47260 TTTAGTGGCATTTTTTTGTAATAAACGCCGCCATAGTCATGTACA
1 TTTAGTGGC--GTTTTTGTAATAAACGCCGCAATAGTAATGTACA
* *
47305 -TTAGCGGCGTTTTT-AATATAAACGCCGC
1 TTTAGTGGCGTTTTTGTA-ATAAACGCCGC
47333 GATTGTCTAA
Statistics
Matches: 60, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
41 10 0.17
42 16 0.27
43 8 0.13
44 25 0.42
45 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (43 bp):
TTTAGTGGCGTTTTTGTAATAAACGCCGCAATAGTAATGTACA
Found at i:51508 original size:21 final size:21
Alignment explanation
Indices: 51470--51539 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
51460 ATGAAGCAAA
* *
51470 GGAAGCAGAGAGAGCAGCAGT
1 GGAAGCAGACAGAGCAGCAGC
* *
51491 GGAAGCAGCCAGATCAGCAGC
1 GGAAGCAGACAGAGCAGCAGC
* * * *
51512 GAAAGCAGAGAAAGAAGCAGC
1 GGAAGCAGACAGAGCAGCAGC
*
51533 GGCAGCA
1 GGAAGCA
51540 CAGAGAGAAG
Statistics
Matches: 37, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.40, C:0.20, G:0.37, T:0.03
Consensus pattern (21 bp):
GGAAGCAGACAGAGCAGCAGC
Found at i:51548 original size:21 final size:21
Alignment explanation
Indices: 51506--51572 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 21
51496 CAGCCAGATC
** * *
51506 AGCAGCGAAAGCAGAGAAAGA
1 AGCAGCGGCAGCACAGAGAGA
51527 AGCAGCGGCAGCACAGAGAGA
1 AGCAGCGGCAGCACAGAGAGA
* * * *
51548 AGCAACTGCAGCATAGAGGGA
1 AGCAGCGGCAGCACAGAGAGA
51569 AGCA
1 AGCA
51573 ACATATCAGC
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.43, C:0.19, G:0.34, T:0.03
Consensus pattern (21 bp):
AGCAGCGGCAGCACAGAGAGA
Found at i:51573 original size:21 final size:21
Alignment explanation
Indices: 51515--51574 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 21
51505 CAGCAGCGAA
* * *
51515 AGCAGAGAAAGAAGCAGCGGC
1 AGCACAGAGAGAAGCAACGGC
*
51536 AGCACAGAGAGAAGCAACTGC
1 AGCACAGAGAGAAGCAACGGC
* *
51557 AGCATAGAGGGAAGCAAC
1 AGCACAGAGAGAAGCAAC
51575 ATATCAGCAG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.43, C:0.20, G:0.33, T:0.03
Consensus pattern (21 bp):
AGCACAGAGAGAAGCAACGGC
Found at i:51989 original size:43 final size:44
Alignment explanation
Indices: 51912--51994 Score: 123
Period size: 44 Copynumber: 1.9 Consensus size: 44
51902 GTTTGTTAAA
* *
51912 AAACGTCGCAATATACCATACATTTAGCGGCGTTTGTATACTAT
1 AAACGCCGCAATATACCAAACATTTAGCGGCGTTTGTATACTAT
* *
51956 AAACGCCGCGATATACCAAAC-TTTAGCGGCGTTTTTATA
1 AAACGCCGCAATATACCAAACATTTAGCGGCGTTTGTATA
51995 AAAAATGCCG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
43 17 0.49
44 18 0.51
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (44 bp):
AAACGCCGCAATATACCAAACATTTAGCGGCGTTTGTATACTAT
Found at i:52028 original size:43 final size:43
Alignment explanation
Indices: 51981--52293 Score: 188
Period size: 43 Copynumber: 7.3 Consensus size: 43
51971 CCAAACTTTA
* *
51981 GCGGCGTTTTTATAAAAAATGCCGCTAAAGCTCAACACCTATT
1 GCGGCGTTTTTATAAAAAACGCCGCTAAATCTCAACACCTATT
* * * *
52024 GCGGCATTTTCA-ATAGAAACGCCGCTAATTCTCAAC-CCTTATT
1 GCGGCGTTTTTATA-AAAAACGCCGCTAAATCTCAACACC-TATT
** * * * * * * *
52067 GCATCGTTTTCGAT-ACAAATGCCGCTTAATCTGAAAACCTACT
1 GCGGCGTTTT-TATAAAAAACGCCGCTAAATCTCAACACCTATT
* * *** * *
52110 GCGACGTTTGTGGGAGAAACGCCGCTAAA-CATCATCACCTATT
1 GCGGCGTTTTTATAAAAAACGCCGCTAAATC-TCAACACCTATT
* * *
52153 GCGGCGTTTTT-TGAAAAAAACGTCGCAAAATATCAACACCTATT
1 GCGGCGTTTTTAT--AAAAAACGCCGCTAAATCTCAACACCTATT
* *** *
52197 GCGGCGTTTGTAGGGAAAACGCCGCTAAA-CATCAAAACCTATT
1 GCGGCGTTTTTATAAAAAACGCCGCTAAATC-TCAACACCTATT
* * * * **
52240 GCGGTGTTTTTGTGACAAACGCCGCTAAATAACAACACCTATT
1 GCGGCGTTTTTATAAAAAACGCCGCTAAATCTCAACACCTATT
*
52283 GCGGCATTTTT
1 GCGGCGTTTTT
52294 TTGTTAAAAA
Statistics
Matches: 199, Mismatches: 58, Indels: 26
0.70 0.20 0.09
Matches are distributed among these distances:
42 4 0.02
43 159 0.80
44 36 0.18
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.27
Consensus pattern (43 bp):
GCGGCGTTTTTATAAAAAACGCCGCTAAATCTCAACACCTATT
Found at i:52223 original size:87 final size:86
Alignment explanation
Indices: 52103--52287 Score: 248
Period size: 87 Copynumber: 2.1 Consensus size: 86
52093 TAATCTGAAA
* * **
52103 ACCTACTGCGACGTTTGTGGGAGAAACGCCGCTAAACATCATCACCTATTGCGGCGTTTTT-TGA
1 ACCTATTGCGGCGTTTGTGGGAGAAACGCCGCTAAACATCAAAACCTATTGCGGCGTTTTTGTG-
* *
52167 AAAAAACGTCGCAAAATATCAAC
65 -AAAAACGCCGCAAAATAACAAC
*
52190 ACCTATTGCGGCGTTTGTAGGGA-AAACGCCGCTAAACATCAAAACCTATTGCGGTGTTTTTGTG
1 ACCTATTGCGGCGTTTGT-GGGAGAAACGCCGCTAAACATCAAAACCTATTGCGGCGTTTTTGTG
* *
52254 ACAAACGCCGCTAAATAACAAC
65 AAAAACGCCGCAAAATAACAAC
52276 ACCTATTGCGGC
1 ACCTATTGCGGC
52288 ATTTTTTTGT
Statistics
Matches: 87, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
86 30 0.34
87 51 0.59
88 6 0.07
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (86 bp):
ACCTATTGCGGCGTTTGTGGGAGAAACGCCGCTAAACATCAAAACCTATTGCGGCGTTTTTGTGA
AAAACGCCGCAAAATAACAAC
Found at i:65116 original size:71 final size:70
Alignment explanation
Indices: 65024--65158 Score: 184
Period size: 71 Copynumber: 1.9 Consensus size: 70
65014 AATAAAAATT
* * *
65024 TTATCTCATTGGAGATAGTTTTTCTTAAAACAAA-TAGTCTCACTCGGGACAATTTCTCTTGAAA
1 TTATCTCATTGGAGATAGTTTTCCTTAAAA-AAATTA-TCTCACTCGAGACAATTTCTCTCGAAA
65088 ATTTTTG
64 ATTTTTG
*
65095 TTATCTCACTT-GATATAGTTTTCCTTAAAAAAATTTATCTCACTCGAGACAATTTCTCTCGAAA
1 TTATCTCA-TTGGAGATAGTTTTCCTTAAAAAAA-TTATCTCACTCGAGACAATTTCTCTCGAAA
65159 CAAAATTTTA
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
70 3 0.05
71 50 0.88
72 4 0.07
ACGTcount: A:0.31, C:0.18, G:0.11, T:0.40
Consensus pattern (70 bp):
TTATCTCATTGGAGATAGTTTTCCTTAAAAAAATTATCTCACTCGAGACAATTTCTCTCGAAAAT
TTTTG
Found at i:65170 original size:71 final size:70
Alignment explanation
Indices: 65018--65636 Score: 291
Period size: 70 Copynumber: 8.8 Consensus size: 70
65008 CCTTAAAATA
* * *
65018 AAAATTTTATCTCA-TTGGAGATAGTTTTTCTTAAAACAAA-TAGTCTCACTCGGGACAATTTCT
1 AAAATTTTATCTCACTT-GAGATA-TTTTCCTTAAAA-AAATTTGTCTCACTCGAGACAATTTCT
*
65081 CTTGAAA-
63 CTCGAAAC
*** * *
65088 ATTTTTGTTATCTCACTTGATATAGTTTTCCTTAAAAAAATTTATCTCACTCGAGACAATTTCTC
1 AAAATT-TTATCTCACTTGAGATA-TTTTCCTTAAAAAAATTTGTCTCACTCGAGACAATTTCTC
65153 TCGAAAC
64 TCGAAAC
* * * * ** *
65160 AAAATTTTATCTC-GTT--TAT-TTTTCTCTTCAAATAAATTTCGTCTCACTTGAGGTAA--TAT
1 AAAATTTTATCTCACTTGAGATATTTTC-CTT-AAAAAAATTT-GTCTCACTCGAGACAATTTCT
65219 -T----A-
63 CTCGAAAC
* * ** * *
65221 AAAATTTCATCTCACTTGGGATATTTTCC--AATGAAATTTTTGTCTCACTCGAGACAGTTTCAC
1 AAAATTTTATCTCACTTGAGATATTTTCCTTAA--AAAAATTTGTCTCACTCGAGACAATTTCTC
*
65284 TGGAAAC
64 TCGAAAC
** * * * * * * * *
65291 AAAATTGCATCTCATTTGAGATATTTCCCTTGAAATATTTTGTCTCACTTGAGATAATTTCACTC
1 AAAATTTTATCTCACTTGAGATATTTTCCTTAAAAAAATTTGTCTCACTCGAGACAATTTCTCTC
65356 GAAAC
66 GAAAC
* * * * * * * *
65361 -AAATTTCATCTCACTTGAGATAGTTTCTCTTGAAATAAATTTTCTCTCACTTGAGATAGTTTTT
1 AAAATTTTATCTCACTTGAGATATTTTC-CTT-AAA-AAAATTTGTCTCACTCGAGACAATTTCT
*
65425 CTCAAAAAC
63 CTC-GAAAC
* * ** *
65434 AATAA-TTT-TCTCACTTGAGAAATTTTCTCTT-GAAATTTTTCGTCAT-ACTCGAGACATTTTC
1 AA-AATTTTATCTCACTTGAGATATTTTC-CTTAAAAAAATTT-GTC-TCACTCGAGACAATTTC
* *
65495 TCTCAAAATA
62 TCTCGAAA-C
* * * *
65505 AAAATTTTATCTCACTGGAGATAGTTTTTCTTAAAATAATTTTTTTTGTCTCACTCGAAACAATT
1 AAAATTTTATCTCACTTGAGATA-TTTTCCTTAAAA-AA----ATTTGTCTCACTCGAGACAATT
65570 TCTCTC-AAA-
60 TCTCTCGAAAC
* * *
65579 AAATATTTCA-CATCACTTGAGATATTTTCTCTT-AAAATATTATGTTTCACTCGAGACA
1 AAA-ATTTTATC-TCACTTGAGATATTTTC-CTTAAAAAAATT-TGTCTCACTCGAGACA
65637 TTGTCTTGAC
Statistics
Matches: 425, Mismatches: 78, Indels: 92
0.71 0.13 0.15
Matches are distributed among these distances:
61 14 0.03
62 15 0.04
63 5 0.01
64 4 0.01
65 6 0.01
66 6 0.01
67 5 0.01
68 12 0.03
69 38 0.09
70 93 0.22
71 83 0.20
72 48 0.11
73 32 0.08
74 15 0.04
75 21 0.05
76 4 0.01
77 20 0.05
78 4 0.01
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.41
Consensus pattern (70 bp):
AAAATTTTATCTCACTTGAGATATTTTCCTTAAAAAAATTTGTCTCACTCGAGACAATTTCTCTC
GAAAC
Found at i:65419 original size:36 final size:36
Alignment explanation
Indices: 65258--65548 Score: 161
Period size: 36 Copynumber: 8.1 Consensus size: 36
65248 CCAATGAAAT
* * * * * *
65258 TTTTGTCTCACTCGAGACAGTTTCACTGGAAACAAA
1 TTTTCTCTCACTTGAGATAGTTTCTCTTGAAATAAA
* * * *
65294 ATTGCATCTCATTTGAGATA-TTTCCCTTGAAAT--A
1 TTTTC-TCTCACTTGAGATAGTTTCTCTTGAAATAAA
* * * * *
65328 TTTTGTCTCACTTGAGATAATTTCACTCGAAACAAA
1 TTTTCTCTCACTTGAGATAGTTTCTCTTGAAATAAA
65364 -TTTCATCTCACTTGAGATAGTTTCTCTTGAAATAAA
1 TTTTC-TCTCACTTGAGATAGTTTCTCTTGAAATAAA
* * *
65400 TTTTCTCTCACTTGAGATAGTTTTTC-TCAAAAACAA
1 TTTTCTCTCACTTGAGATAGTTTCTCTTGAAATA-AA
* *
65436 TAATTT-TCTCACTTGAGAAATTTTCTCTTGAAAT---
1 T--TTTCTCTCACTTGAGATAGTTTCTCTTGAAATAAA
* * * **
65470 TTTTCGTCAT-ACTCGAGACATTTTCTCTCAAAATAAAAA
1 TTTTC-TC-TCACTTGAGATAGTTTCTCTTGAAAT--AAA
* * * * *
65509 TTTTATCTCACTGGAGATAGTTTTTCTTAAAATAAT
1 TTTTCTCTCACTTGAGATAGTTTCTCTTGAAATAAA
65545 TTTT
1 TTTT
65549 TTTGTCTCAC
Statistics
Matches: 196, Mismatches: 40, Indels: 38
0.72 0.15 0.14
Matches are distributed among these distances:
32 3 0.02
33 13 0.07
34 36 0.18
35 9 0.05
36 69 0.35
37 34 0.17
38 28 0.14
39 4 0.02
ACGTcount: A:0.31, C:0.18, G:0.11, T:0.41
Consensus pattern (36 bp):
TTTTCTCTCACTTGAGATAGTTTCTCTTGAAATAAA
Found at i:65427 original size:19 final size:19
Alignment explanation
Indices: 65369--65428 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
65359 ACAAATTTCA
65369 TCTCACTTGAGATAG--TT
1 TCTCACTTGAGATAGTTTT
* *
65386 TCT--CTTGAAATAAATTTT
1 TCTCACTTGAGAT-AGTTTT
65404 CTCTCACTTGAGATAGTTTT
1 -TCTCACTTGAGATAGTTTT
65424 TCTCA
1 TCTCA
65429 AAAACAATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 10
0.70 0.09 0.21
Matches are distributed among these distances:
15 7 0.21
16 1 0.03
17 3 0.09
18 2 0.06
19 8 0.24
20 5 0.15
21 7 0.21
ACGTcount: A:0.25, C:0.18, G:0.12, T:0.45
Consensus pattern (19 bp):
TCTCACTTGAGATAGTTTT
Found at i:80430 original size:15 final size:14
Alignment explanation
Indices: 80397--80446 Score: 73
Period size: 14 Copynumber: 3.5 Consensus size: 14
80387 GTCTGTTGAC
*
80397 TTTTCTAATAGGACA
1 TTTT-TAATGGGACA
80412 TTTTTAATGGGACA
1 TTTTTAATGGGACA
80426 TTTTTAATGGGACA
1 TTTTTAATGGGACA
*
80440 ATTTTAA
1 TTTTTAA
80447 AAACAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
14 29 0.88
15 4 0.12
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (14 bp):
TTTTTAATGGGACA
Found at i:81906 original size:13 final size:13
Alignment explanation
Indices: 81888--81913 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
81878 GTATGAATTT
81888 GACTAGATTCAGG
1 GACTAGATTCAGG
81901 GACTAGATTCAGG
1 GACTAGATTCAGG
81914 TCGATCCTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.31, T:0.23
Consensus pattern (13 bp):
GACTAGATTCAGG
Found at i:86235 original size:154 final size:149
Alignment explanation
Indices: 86020--86439 Score: 447
Period size: 149 Copynumber: 2.8 Consensus size: 149
86010 TTTAAAAGAA
* * * *
86020 AAAAAAATCATTTCTCAGTGACCATTGAATGAACAATGAC-AAAACTTTTCAGTG-CTCAATCAA
1 AAAAAAATCATTTCTCAGTGATCATTTAATGAACAATAACAAAAACTTTTTAGTGCCT-AATCAA
* * *
86083 ATCATTTTTCAACTTTTCAGTGATATATCACTTC-ATCACATATGAGCATATCAAACCATTGAAT
65 TTCATTTCTGAACTTTTCAGTGATATATCACTTCAAT-ACA-ATG-GCATATCAAACCATTGAAT
86147 GATGTTTTCGACCAATGCTTTAATG
127 GATGTTTTCGA-CAAT-CTTTAATG
* * * *
86172 AAAAACATCATTTTCTTAGTGATCATTTAATGCACAATAACAAAAACTTTTTAGTGCCTAATCAT
1 AAAAAAATCA-TTTCTCAGTGATCATTTAATGAACAATAACAAAAACTTTTTAGTGCCTAATCAA
* * * * ** *
86237 TTCGTTTCTGAACTTTTCAGTGACATATCACTTCAATTCAGTGTTATATCAGACCATTGAATGAT
65 TTCATTTCTGAACTTTTCAGTGATATATCACTTCAATACAATGGCATATCAAACCATTGAATGAT
* * *
86302 GTTTTTGACTATTTTTAATG
130 GTTTTCGACAATCTTTAATG
** * * * *
86322 AAAAATGTCATTTCTCAGTGATCATTTAATGAACAATAATAGAAAA-GTTTTAGTGCCCAATCAC
1 AAAAAAATCATTTCTCAGTGATCATTTAATGAACAATAACA-AAAACTTTTTAGTGCCTAATCAA
* * *
86386 TTCATTTCTGAA-TTTTCAGTGATATATCAAC-TCAATTCAGTGACATATCAAACC
65 TTCATTTCTGAACTTTTCAGTGATATATC-ACTTCAATACAATGGCATATCAAACC
86440 CTATCATAAT
Statistics
Matches: 228, Mismatches: 34, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
148 35 0.15
149 56 0.25
150 19 0.08
151 3 0.01
152 35 0.15
153 27 0.12
154 49 0.21
155 4 0.02
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.36
Consensus pattern (149 bp):
AAAAAAATCATTTCTCAGTGATCATTTAATGAACAATAACAAAAACTTTTTAGTGCCTAATCAAT
TCATTTCTGAACTTTTCAGTGATATATCACTTCAATACAATGGCATATCAAACCATTGAATGATG
TTTTCGACAATCTTTAATG
Found at i:87133 original size:26 final size:26
Alignment explanation
Indices: 87104--87189 Score: 82
Period size: 26 Copynumber: 3.3 Consensus size: 26
87094 TATTGTATTA
*
87104 TAATGTAATATAATAGTTAATGTTTC
1 TAATGTAATATAAGAGTTAATGTTTC
* * *
87130 TAATGTAACATAGGAGTTATTGTTTC
1 TAATGTAATATAAGAGTTAATGTTTC
* ** * *
87156 TGATGTAATGCATGAGTTAATGCTTC
1 TAATGTAATATAAGAGTTAATGTTTC
*
87182 GAATGTAA
1 TAATGTAA
87190 AATTTAGTAC
Statistics
Matches: 47, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 47 1.00
ACGTcount: A:0.34, C:0.07, G:0.19, T:0.41
Consensus pattern (26 bp):
TAATGTAATATAAGAGTTAATGTTTC
Found at i:88721 original size:37 final size:36
Alignment explanation
Indices: 88680--88753 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 36
88670 GTTGGAAAAT
* *
88680 ATTTATATATTTTCTTTATAAAATTTAAAATCATAAA
1 ATTTATATATTTTCTTTACAAAATTGAAAAT-ATAAA
* *
88717 ATTTATATTTTTTTTTTACAAAATTGAAAATATAAA
1 ATTTATATATTTTCTTTACAAAATTGAAAATATAAA
88753 A
1 A
88754 AGGTTTAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
36 6 0.18
37 27 0.82
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.49
Consensus pattern (36 bp):
ATTTATATATTTTCTTTACAAAATTGAAAATATAAA
Found at i:90553 original size:15 final size:15
Alignment explanation
Indices: 90535--90564 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
90525 TGGTAGAGCT
90535 TGGAATGGCCACTGC
1 TGGAATGGCCACTGC
90550 TGGAATGGCCACTGC
1 TGGAATGGCCACTGC
90565 AGCAGTTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.27, G:0.33, T:0.20
Consensus pattern (15 bp):
TGGAATGGCCACTGC
Found at i:94996 original size:16 final size:16
Alignment explanation
Indices: 94959--95009 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
94949 ATGATTAAGT
* *
94959 GCTGAATGATTCAAAT
1 GCTGAATGATTCAGAG
*
94975 GTTGAATGATTCAGAG
1 GCTGAATGATTCAGAG
*
94991 GCTGAATAATTCAGAG
1 GCTGAATGATTCAGAG
95007 GCT
1 GCT
95010 CTGGATGAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.29
Consensus pattern (16 bp):
GCTGAATGATTCAGAG
Found at i:96254 original size:21 final size:21
Alignment explanation
Indices: 96230--96290 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
96220 TTCAAAGAAA
96230 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
96251 CATTT-TCAAA----G-AAA-
1 CATTTACCAAACTTTGAAAAC
96265 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
96286 CATTT
1 CATTT
96291 TCAAAGTTGG
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 7 0.23
16 1 0.03
19 1 0.03
20 7 0.23
21 10 0.32
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAC
Found at i:96257 original size:35 final size:35
Alignment explanation
Indices: 96191--96296 Score: 178
Period size: 35 Copynumber: 3.0 Consensus size: 35
96181 AACATCTACC
*
96191 AAAC-TTTACCAAACTTTGAAAAAACATTTTTCAAAG
1 AAACATTTACCAAACTTTG-AAAACCA-TTTTCAAAG
96227 AAACATTTACCAAACTTTGAAAACCATTTTCAAAG
1 AAACATTTACCAAACTTTGAAAACCATTTTCAAAG
96262 AAACATTTACCAAACTTTGAAAACCATTTTCAAAG
1 AAACATTTACCAAACTTTGAAAACCATTTTCAAAG
96297 TTGGTTGCCA
Statistics
Matches: 68, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
35 44 0.65
36 10 0.15
37 14 0.21
ACGTcount: A:0.46, C:0.19, G:0.06, T:0.29
Consensus pattern (35 bp):
AAACATTTACCAAACTTTGAAAACCATTTTCAAAG
Found at i:100877 original size:35 final size:35
Alignment explanation
Indices: 100811--100912 Score: 168
Period size: 35 Copynumber: 2.9 Consensus size: 35
100801 TCTACTAAAC
*
100811 TTTACCAAACTTTGAAAAAACATTTTACAAAGAAATA
1 TTTACCAAACTTTG-AAAACCATTTT-CAAAGAAATA
100848 TTTACCAAACTTTGAAAACCATTTTCAAAGAAATA
1 TTTACCAAACTTTGAAAACCATTTTCAAAGAAATA
*
100883 TTTATCAAACTTTGAAAACCATTTTCAAAG
1 TTTACCAAACTTTGAAAACCATTTTCAAAG
100913 TTGGTTGCCA
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
35 39 0.62
36 10 0.16
37 14 0.22
ACGTcount: A:0.46, C:0.16, G:0.06, T:0.32
Consensus pattern (35 bp):
TTTACCAAACTTTGAAAACCATTTTCAAAGAAATA
Found at i:104082 original size:16 final size:17
Alignment explanation
Indices: 104058--104093 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
104048 TAGATCAAAG
104058 TTACGTTAGTTAACATA
1 TTACGTTAGTTAACATA
*
104075 TTAC-TTAGTTAACGTA
1 TTACGTTAGTTAACATA
104091 TTA
1 TTA
104094 TTGAGAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.44
Consensus pattern (17 bp):
TTACGTTAGTTAACATA
Found at i:105264 original size:16 final size:16
Alignment explanation
Indices: 105243--105287 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
105233 GACCCGACCC
*
105243 GTTGACTTTGACTAGA
1 GTTGACTTTGACCAGA
*
105259 GTTGACTTTAACCAGA
1 GTTGACTTTGACCAGA
105275 GTTGACTTTGACC
1 GTTGACTTTGACC
105288 CAAAAAGTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (16 bp):
GTTGACTTTGACCAGA
Found at i:110226 original size:17 final size:17
Alignment explanation
Indices: 110187--110236 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
110177 ATTAGTAAAC
* *
110187 TGCATGGTTATATGAAA
1 TGCATGCTTAAATGAAA
* *
110204 TACATGCTTAAATGCAA
1 TGCATGCTTAAATGAAA
*
110221 TGCATGCTTTAATGAA
1 TGCATGCTTAAATGAA
110237 CAAAAAACTT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (17 bp):
TGCATGCTTAAATGAAA
Found at i:112365 original size:20 final size:20
Alignment explanation
Indices: 112342--112380 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
112332 CAATAAAAAC
*
112342 AAATAAAATTAAAACAATAA
1 AAATAAAACTAAAACAATAA
**
112362 AAATACCACTAAAACAATA
1 AAATAAAACTAAAACAATA
112381 TATTTTAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.69, C:0.13, G:0.00, T:0.18
Consensus pattern (20 bp):
AAATAAAACTAAAACAATAA
Found at i:113305 original size:17 final size:18
Alignment explanation
Indices: 113283--113320 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
113273 TTTTCTCCGG
*
113283 TTCTGTCTCTCT-CTTTT
1 TTCTGTCTCTATCCTTTT
113300 TTCTGTCTCTATCCTTTT
1 TTCTGTCTCTATCCTTTT
113318 TTC
1 TTC
113321 CTTCTTTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.03, C:0.29, G:0.05, T:0.63
Consensus pattern (18 bp):
TTCTGTCTCTATCCTTTT
Found at i:113775 original size:14 final size:15
Alignment explanation
Indices: 113756--113789 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
113746 GTCTGTAATT
113756 ATTTATTT-ATATAG
1 ATTTATTTAATATAG
*
113770 ATTTATTTAATATAT
1 ATTTATTTAATATAG
113785 ATTTA
1 ATTTA
113790 ATAATAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (15 bp):
ATTTATTTAATATAG
Found at i:113796 original size:3 final size:3
Alignment explanation
Indices: 113788--113852 Score: 112
Period size: 3 Copynumber: 21.7 Consensus size: 3
113778 AATATATATT
*
113788 TAA TAA TAA TAA TGA 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
*
113836 TAA TAA TAA TAA AAA TA
1 TAA TAA TAA TAA TAA TA
113853 TGGATAAAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:114616 original size:115 final size:115
Alignment explanation
Indices: 113989--114857 Score: 1251
Period size: 115 Copynumber: 7.6 Consensus size: 115
113979 ATTGAATAAA
* * * ** * *
113989 TTCTTC-TCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTGCTGGGGATGATGATCCATC
1 TTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACCTTCT-CTGGAAAAGATAATCCATC
* * * * *
114053 AA-ATGATGAATTCAAG-CAAAAGATTGAACAAGTTCTTCTCATTATGAAC
65 AATTTGATGAATTCAGGAAAAAAGGTTGAACAAATTCTTCTCATTATGAAC
* * * * *
114102 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTAC-CTGGCAATGTTGATCC
1 TTCTTCTTCCTTCTTCAGAT-A--AGTTCTTCTCATTATGAAC-CTTCTCTGGAAAAGATAATCC
* * * * *
114166 ATCAA-ATGATGAATTCAAG-CAAAAGATTGAACAAGTTCTTCTCATTATGAAC
62 ATCAATTTGATGAATTCAGGAAAAAAGGTTGAACAAATTCTTCTCATTATGAAC
* *
114218 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTAC-CTGGCAAAGATAATCC
1 TTCTTCTTCCTTCTTCAGAT-A--AGTTCTTCTCATTATGAAC-CTTCTCTGGAAAAGATAATCC
114282 ATCAATTTGATGAATTCA-GAAAAAAGGTTGAACAAATTCTTCTCATTATGAAC
62 ATCAATTTGATGAATTCAGGAAAAAAGGTTGAACAAATTCTTCTCATTATGAAC
114335 TTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATAATCCATCA
1 TTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATAATCCATCA
114400 ATTTGATGAATTCA-GAAAAAAGGTTGAACAAATTCTTCTCATTATGAAC
66 ATTTGATGAATTCAGGAAAAAAGGTTGAACAAATTCTTCTCATTATGAAC
114449 TTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATAATCCATCA
1 TTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATAATCCATCA
114514 ATTTGATGAATTCAGGAAAAAAGGTTGAACAAATTCTTCTCATTATGAAC
66 ATTTGATGAATTCAGGAAAAAAGGTTGAACAAATTCTTCTCATTATGAAC
*
114564 TTCTTCTTCCTTCTTCAGATAAATTCTTCTCATTATGAACCTTCTCTGGAAAAGATAATCCATCA
1 TTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATAATCCATCA
114629 ATTTGATGAATTCAGGAAAAAAGGTTGAACAAATTCTTCTCATTATGAAC
66 ATTTGATGAATTCAGGAAAAAAGGTTGAACAAATTCTTCTCATTATGAAC
* * *
114679 TTCTTCTTCCTTCTTCAGAT-AGATTCTTCTCATTATGAACCTTCTCTGGAAAGGCTGATCCATC
1 TTCTTCTTCCTTCTTCAGATAAG-TTCTTCTCATTATGAACCTTCTCTGGAAAAGATAATCCATC
* * *
114743 AA-ATGATGGATTCAGG-TAAAAGGTTGAACAAATTCTTCTCATTATGAAC
65 AATTTGATGAATTCAGGAAAAAAGGTTGAACAAATTCTTCTCATTATGAAC
* *
114792 TTCTTCTTCCTTCTTCAGATAAATTCTTCTCATTATGAACCTTCTCTGGAAAA-ACTGATCCATC
1 TTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGA-TAATCCATC
114856 AA
65 AA
114858 GTGGATTCAA
Statistics
Matches: 717, Mismatches: 27, Indels: 24
0.93 0.04 0.03
Matches are distributed among these distances:
113 101 0.14
114 192 0.27
115 209 0.29
116 133 0.19
117 80 0.11
118 2 0.00
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.36
Consensus pattern (115 bp):
TTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATAATCCATCA
ATTTGATGAATTCAGGAAAAAAGGTTGAACAAATTCTTCTCATTATGAAC
Found at i:114828 original size:343 final size:343
Alignment explanation
Indices: 113989--114857 Score: 1297
Period size: 343 Copynumber: 2.5 Consensus size: 343
113979 ATTGAATAAA
* * ** *
113989 TTCTTC-TCTTTCTTCAGAT-GAGTTCTTCTCATTATGAACTTTCTGCTGGGGATGATGATCCAT
1 TTCTTCTTCCTTCTTCAGATAGAGTTCTTCTCATTATGAACCTTCT-CTGGAAAAGATGATCCAT
* * * *
114052 CAAATGATGAATTCAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTT
65 CAAATGATGAATTCAGGAAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTT
* * * *
114117 CAGATGACGAGTTCTTCTCATTATGAACTCTAC-CTGGCAATGTTGATCCATCAAATGATGAATT
130 CAGAT-A--AGTTCTTCTCATTATGAAC-CTTCTCTGGAAAAGATGATCCATCAAATGATGAATT
* * *
114181 CAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTT
191 CAAGAAAAAGATTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC-AATT
*
114246 CTTCTCATTATGAACTCTACCTGGCAAAGATAATCCATCAATTTGATGAATTCAGAAAAAAGGTT
255 CTTCTCATTATGAACTCTACCTGGAAAAGATAATCCATCAATTTGATGAATTCAGAAAAAAGGTT
114311 GAACAAATTCTTCTCATTATGAAC
320 GAACAAATTCTTCTCATTATGAAC
*
114335 TTCTTCTTCCTTCTTCAGATA-AGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATAATCCATC
1 TTCTTCTTCCTTCTTCAGATAGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATGATCCATC
* *
114399 AATTTGATGAATTCAGAAAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTT
66 AA-ATGATGAATTCAGGAAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTT
* * *
114464 CAGATAAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATAATCCATCAATTTGATGAATTCAG
130 CAGATAAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATGATCCATCAA-ATGATGAATTCAA
*
114529 GAAAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT-A-AATTCTT
194 G-AAAAAGATTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACAATTCTT
*
114592 CTCATTATGAAC-CTTCTCTGGAAAAGATAATCCATCAATTTGATGAATTCAGGAAAAAAGGTTG
258 CTCATTATGAACTCTAC-CTGGAAAAGATAATCCATCAATTTGATGAATTCA-GAAAAAAGGTTG
114656 AACAAATTCTTCTCATTATGAAC
321 AACAAATTCTTCTCATTATGAAC
* *
114679 TTCTTCTTCCTTCTTCAGATAGA-TTCTTCTCATTATGAACCTTCTCTGGAAAGGCTGATCCATC
1 TTCTTCTTCCTTCTTCAGATAGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATGATCCATC
* *
114743 AAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTC
66 AAATGATGAATTCAGGAAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTC
*
114808 AGATAAATTCTTCTCATTATGAACCTTCTCTGGAAAA-ACTGATCCATCAA
131 AGATAAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGA-TGATCCATCAA
114858 GTGGATTCAA
Statistics
Matches: 479, Mismatches: 34, Indels: 23
0.89 0.06 0.04
Matches are distributed among these distances:
342 4 0.01
343 159 0.33
344 132 0.28
345 14 0.03
346 74 0.15
347 96 0.20
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.36
Consensus pattern (343 bp):
TTCTTCTTCCTTCTTCAGATAGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATGATCCATC
AAATGATGAATTCAGGAAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTC
AGATAAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATGATCCATCAAATGATGAATTCAAGA
AAAAGATTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACAATTCTTCTC
ATTATGAACTCTACCTGGAAAAGATAATCCATCAATTTGATGAATTCAGAAAAAAGGTTGAACAA
ATTCTTCTCATTATGAAC
Found at i:115641 original size:83 final size:83
Alignment explanation
Indices: 115493--115876 Score: 689
Period size: 83 Copynumber: 4.6 Consensus size: 83
115483 CCTACTGAAT
115493 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATGTTCCGAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATGTTCCGAATTCAA
115558 TGATTGGTTCTGCCAAAC
66 TGATTGGTTCTGCCAAAC
* * * ** *
115576 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-GCAAATTCATCTTCTAAACTCA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAACACATTCATGTTCCGAATTCA
115640 ATGATTGGTTCTGCCAAAC
65 ATGATTGGTTCTGCCAAAC
115659 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATGTTCCGAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATGTTCCGAATTCAA
115724 TGATTGGTTCTGCCAAAC
66 TGATTGGTTCTGCCAAAC
*
115742 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATGTTCTGAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATGTTCCGAATTCAA
115807 TGATTGGTTCTGCCAAAC
66 TGATTGGTTCTGCCAAAC
115825 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCAT
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCAT
115877 CTTTCAGTTA
Statistics
Matches: 286, Mismatches: 13, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
82 2 0.01
83 282 0.99
84 2 0.01
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25
Consensus pattern (83 bp):
CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATGTTCCGAATTCAA
TGATTGGTTCTGCCAAAC
Found at i:124279 original size:15 final size:16
Alignment explanation
Indices: 124259--124291 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
124249 ATTATTTTTC
124259 AAATTTTA-ATTAATA
1 AAATTTTATATTAATA
*
124274 AAATTTTATCTTAATA
1 AAATTTTATATTAATA
124290 AA
1 AA
124292 TAAAATAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
AAATTTTATATTAATA
Found at i:129364 original size:17 final size:17
Alignment explanation
Indices: 129342--129378 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
129332 TTTTCTCCGG
*
129342 TTCTGTCTCTCTCTTTT
1 TTCTGTCTCTCTCCTTT
*
129359 TTCTGTCTCTGTCCTTT
1 TTCTGTCTCTCTCCTTT
129376 TTC
1 TTC
129379 CTTCTTTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.00, C:0.30, G:0.08, T:0.62
Consensus pattern (17 bp):
TTCTGTCTCTCTCCTTT
Found at i:129831 original size:14 final size:15
Alignment explanation
Indices: 129812--129845 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
129802 GTCTGTAATT
129812 ATTTATTT-ATATAG
1 ATTTATTTAATATAG
*
129826 ATTTATTTAATATAT
1 ATTTATTTAATATAG
129841 ATTTA
1 ATTTA
129846 ATAATAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (15 bp):
ATTTATTTAATATAG
Found at i:129852 original size:3 final size:3
Alignment explanation
Indices: 129844--129899 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
129834 AATATATATT
129844 TAA TAA 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
129892 TAA TAA TA
1 TAA TAA TA
129900 TGGATAAAAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:133906 original size:2 final size:2
Alignment explanation
Indices: 133901--133927 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
133891 TGTGCATCTC
133901 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
133928 GAATAGTCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:137844 original size:23 final size:23
Alignment explanation
Indices: 137818--137865 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
137808 TTATTTTAGG
*
137818 TTAAG-GGACAAATTTATAATATT
1 TTAAGTGG-CAAATTTATAAAATT
*
137841 TTAAGTGGTAAATTTATAAAATT
1 TTAAGTGGCAAATTTATAAAATT
137864 TT
1 TT
137866 CGATATCGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 20 0.91
24 2 0.09
ACGTcount: A:0.42, C:0.02, G:0.12, T:0.44
Consensus pattern (23 bp):
TTAAGTGGCAAATTTATAAAATT
Found at i:138218 original size:21 final size:23
Alignment explanation
Indices: 138194--138236 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
138184 TAAAGATGAA
*
138194 AATATAT-TAT-TAATAGAAAAT
1 AATATATATATATAATAAAAAAT
138215 AATATATATATATAATAAAAAA
1 AATATATATATATAATAAAAAA
138237 ATTTAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 3 0.16
23 9 0.47
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (23 bp):
AATATATATATATAATAAAAAAT
Found at i:140604 original size:18 final size:18
Alignment explanation
Indices: 140578--140632 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
140568 CAATACTAAT
140578 TCATACAGAGCCTCTGAA
1 TCATACAGAGCCTCTGAA
*
140596 TCATTCAGAG---CT-AA
1 TCATACAGAGCCTCTGAA
140610 CTCATACAGAGCCTCTGAA
1 -TCATACAGAGCCTCTGAA
140629 TCAT
1 TCAT
140633 TTAGCATTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
14 2 0.07
15 11 0.37
18 15 0.50
19 2 0.07
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (18 bp):
TCATACAGAGCCTCTGAA
Found at i:141262 original size:8 final size:7
Alignment explanation
Indices: 141243--141315 Score: 78
Period size: 7 Copynumber: 10.0 Consensus size: 7
141233 ATATGGTTAC
141243 TCTTTTT
1 TCTTTTT
141250 TCTTTTT
1 TCTTTTT
141257 TACTTTTT
1 T-CTTTTT
141265 TACTTTTTT
1 T-C-TTTTT
141274 TCTTTTT
1 TCTTTTT
141281 TC-TTTT
1 TCTTTTT
141287 TCTTTCTT
1 TCTTT-TT
141295 TC-TTTT
1 TCTTTTT
*
141301 TCTCTCTT
1 TCT-TTTT
141309 TCTTTTT
1 TCTTTTT
141316 CTCGTCCCAA
Statistics
Matches: 58, Mismatches: 2, Indels: 12
0.81 0.03 0.17
Matches are distributed among these distances:
6 10 0.17
7 22 0.38
8 20 0.34
9 6 0.10
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (7 bp):
TCTTTTT
Found at i:141270 original size:16 final size:15
Alignment explanation
Indices: 141244--141301 Score: 75
Period size: 16 Copynumber: 3.9 Consensus size: 15
141234 TATGGTTACT
141244 CTTTTTTCTTTTTTA
1 CTTTTTTCTTTTTTA
*
141259 CTTTTTTACTTTTTTT
1 CTTTTTT-CTTTTTTA
141275 CTTTTTTC-TTTTT-
1 CTTTTTTCTTTTTTA
141288 CTTTCTTTCTTTTT
1 CTTT-TTTCTTTTT
141302 CTCTCTTTCT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
13 4 0.10
14 9 0.23
15 12 0.31
16 14 0.36
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (15 bp):
CTTTTTTCTTTTTTA
Found at i:141279 original size:6 final size:6
Alignment explanation
Indices: 141270--141317 Score: 51
Period size: 6 Copynumber: 7.2 Consensus size: 6
141260 TTTTTTACTT
141270 TTTTTC TTTTTTC TTTTTC TTTCTTTC TTTTTC TCTCTTTC TTTTTC T
1 TTTTTC -TTTTTC TTTTTC -TT-TTTC TTTTTC T-T-TTTC TTTTTC T
141318 CGTCCCAATC
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
6 16 0.43
7 12 0.32
8 9 0.24
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTTC
Found at i:141281 original size:31 final size:30
Alignment explanation
Indices: 141242--141315 Score: 91
Period size: 29 Copynumber: 2.5 Consensus size: 30
141232 AATATGGTTA
141242 CTCTTTTTTCTTTTTTACTTT-TTTACTTTTT
1 CTCTTTTTTCTTTTTT-CTTTCTTT-CTTTTT
*
141273 TTCTTTTTTC-TTTTTCTTTCTTTCTTTTT
1 CTCTTTTTTCTTTTTTCTTTCTTTCTTTTT
*
141302 CTC-TCTTTCTTTTT
1 CTCTTTTTTCTTTTT
141316 CTCGTCCCAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
28 5 0.13
29 16 0.42
30 8 0.21
31 9 0.24
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (30 bp):
CTCTTTTTTCTTTTTTCTTTCTTTCTTTTT
Found at i:141308 original size:24 final size:24
Alignment explanation
Indices: 141246--141318 Score: 69
Period size: 24 Copynumber: 2.9 Consensus size: 24
141236 TGGTTACTCT
141246 TTTTTCTTTTTTACTTTTT-TACTT-
1 TTTTTCTTTTTT-CTTTTTCT-CTTC
141270 TTTTTCTTTTTTCTTTTTCTTTCTTTC
1 TTTTTCTTTTTTCTTTTTC--TC-TTC
*
141297 TTTTTCTCTCTTTCTTTTTCTC
1 TTTTTCT-TTTTTCTTTTTCTC
141319 GTCCCAATCT
Statistics
Matches: 42, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
23 6 0.14
24 12 0.29
25 1 0.02
26 5 0.12
27 7 0.17
28 11 0.26
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (24 bp):
TTTTTCTTTTTTCTTTTTCTCTTC
Found at i:145078 original size:37 final size:37
Alignment explanation
Indices: 145002--145078 Score: 86
Period size: 38 Copynumber: 2.1 Consensus size: 37
144992 TTTTTATATT
* *
145002 TTTAATTTTGTAAAAAAATTTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAATATATATAAATATTATCAA
* *
145039 TTTAATTTTTTTAAAGAAAATATATA-AAATTTTA-CAA
1 TTTAA-TTTTGTAAA-AAAATATATATAAATATTATCAA
145076 TTT
1 TTT
145079 GTAATATTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
37 10 0.29
38 15 0.44
39 9 0.26
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.48
Consensus pattern (37 bp):
TTTAATTTTGTAAAAAAATATATATAAATATTATCAA
Found at i:145240 original size:18 final size:19
Alignment explanation
Indices: 145217--145260 Score: 72
Period size: 20 Copynumber: 2.3 Consensus size: 19
145207 CTAGTAATCC
145217 TATTCC-CTGGTAATCTTT
1 TATTCCACTGGTAATCTTT
145235 TATTCCCACTGGTAATCTTT
1 TATT-CCACTGGTAATCTTT
145255 TATTCC
1 TATTCC
145261 GTGAACCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.17
19 4 0.17
20 16 0.67
ACGTcount: A:0.18, C:0.25, G:0.09, T:0.48
Consensus pattern (19 bp):
TATTCCACTGGTAATCTTT
Found at i:145248 original size:20 final size:20
Alignment explanation
Indices: 145223--145260 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
145213 ATCCTATTCC
145223 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTTTATTCCCA
145243 CTGGTAATCTTTTATTCC
1 CTGGTAATCTTTTATTCC
145261 GTGAACCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.18, C:0.24, G:0.11, T:0.47
Consensus pattern (20 bp):
CTGGTAATCTTTTATTCCCA
Found at i:149654 original size:55 final size:55
Alignment explanation
Indices: 149208--149688 Score: 619
Period size: 55 Copynumber: 8.7 Consensus size: 55
149198 TCTTCAAATG
* * *
149208 ACGGGTCTTCTCCCTAGTTC-TTCAGGAAGTATAAGACTCAAACAATCTTCAGCAA
1 ACGGGTCTGCTCCCTA-TTCTTTCAGGGAGTATAAGACTCGAACAATCTTCAGCAA
** *
149263 ACATGTCTGCTCCCTATT-TGTTCAGGGAGTATAAGACTCGAACAATCTTCAACAA
1 ACGGGTCTGCTCCCTATTCT-TTCAGGGAGTATAAGACTCGAACAATCTTCAGCAA
* * *
149318 AAGGGTCCGCTCCCTATTCTTTCAGGGAGTATAAGACTCGAACAATCTTCAACAA
1 ACGGGTCTGCTCCCTATTCTTTCAGGGAGTATAAGACTCGAACAATCTTCAGCAA
*
149373 ACGGGTCCGCTCCCTATTCTTTCAGGGAGTATAAGACTCGAACAATCTTCAGCAA
1 ACGGGTCTGCTCCCTATTCTTTCAGGGAGTATAAGACTCGAACAATCTTCAGCAA
* *
149428 ACGGGTCCGCTCCCTATTTTTTCAGGGAGTATAAGACTCGAACAATCTTCAGCAA
1 ACGGGTCTGCTCCCTATTCTTTCAGGGAGTATAAGACTCGAACAATCTTCAGCAA
* * *
149483 ACGGGT-TCGCTCCCTATTCTTTCAGGGAGTAT-AGAACTAGAATAATCTTCAGCGA
1 ACGGGTCT-GCTCCCTATTCTTTCAGGGAGTATAAG-ACTCGAACAATCTTCAGCAA
* * *
149538 ACGTGTCTGCTCCCTATTCATTCAGGGAGTATAAGACTCGAACAATCTTCAGCGA
1 ACGGGTCTGCTCCCTATTCTTTCAGGGAGTATAAGACTCGAACAATCTTCAGCAA
* * * ****
149593 ACGTGTCTGCTCCCTATTCATTCAGGGAGTATAAGAATCGAACAATCTTCAATTT
1 ACGGGTCTGCTCCCTATTCTTTCAGGGAGTATAAGACTCGAACAATCTTCAGCAA
* * * * * *
149648 ATGTGTCTGTTCCCTATTCCTTCAGAGAGTATATGACTCGA
1 ACGGGTCTGCTCCCTATTCTTTCAGGGAGTATAAGACTCGA
149689 TCTTCATAAA
Statistics
Matches: 386, Mismatches: 33, Indels: 14
0.89 0.08 0.03
Matches are distributed among these distances:
54 4 0.01
55 378 0.98
56 4 0.01
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (55 bp):
ACGGGTCTGCTCCCTATTCTTTCAGGGAGTATAAGACTCGAACAATCTTCAGCAA
Found at i:149745 original size:37 final size:36
Alignment explanation
Indices: 149699--149811 Score: 138
Period size: 37 Copynumber: 3.1 Consensus size: 36
149689 TCTTCATAAA
149699 ATGAGTTTGCTTCACGACTCTTCCGTGAAGGCTTATAG
1 ATGA-TTTGCTTCACGACTCTTCCGTGAAGGCTTA-AG
*
149737 ATGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAG
1 ATGATTTGCTTCACGACTCTTCCGTGAAGGCTTAAG
* * * *
149773 ATTGAATTGCTTTACTG-CTCTTTCATGAAGGCTTAAG
1 A-TGATTTGCTTCAC-GACTCTTCCGTGAAGGCTTAAG
149810 AT
1 AT
149812 TAACTTGTTT
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
36 4 0.06
37 59 0.88
38 4 0.06
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.37
Consensus pattern (36 bp):
ATGATTTGCTTCACGACTCTTCCGTGAAGGCTTAAG
Found at i:150064 original size:17 final size:17
Alignment explanation
Indices: 150032--150066 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
150022 TATCTTCATC
150032 TCAATGCTTCAATATCT
1 TCAATGCTTCAATATCT
150049 TCAAT-CTTCAACTATCT
1 TCAATGCTTCAA-TATCT
150066 T
1 T
150067 TGGGAAACCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.29, C:0.26, G:0.03, T:0.43
Consensus pattern (17 bp):
TCAATGCTTCAATATCT
Found at i:151131 original size:24 final size:25
Alignment explanation
Indices: 151099--151164 Score: 73
Period size: 24 Copynumber: 2.7 Consensus size: 25
151089 CTTTTATTTC
151099 TTTTTCTTTTTCTTTTTTC-AACAT
1 TTTTTCTTTTTCTTTTTTCTAACAT
* **
151123 TTTTTC-TTTTCTTTTGTCTTTCAT
1 TTTTTCTTTTTCTTTTTTCTAACAT
**
151147 TTTCCCTTTTTCTTTTTT
1 TTTTTCTTTTTCTTTTTT
151165 TCTTTTTTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
23 11 0.32
24 13 0.38
25 10 0.29
ACGTcount: A:0.06, C:0.18, G:0.02, T:0.74
Consensus pattern (25 bp):
TTTTTCTTTTTCTTTTTTCTAACAT
Found at i:151164 original size:8 final size:8
Alignment explanation
Indices: 151153--151268 Score: 72
Period size: 8 Copynumber: 13.2 Consensus size: 8
151143 TCATTTTCCC
151153 TTTTTCTT
1 TTTTTCTT
151161 TTTTTCTTT
1 TTTTTC-TT
151170 TTTTTCATTCAT
1 TTTTTC--T--T
151182 TTTTTCATTT
1 TTTTTC--TT
*
151192 TCTTTTCAT
1 T-TTTTCTT
151201 TTTTTC-T
1 TTTTTCTT
151208 TTTTTCATT
1 TTTTTC-TT
*
151217 TTTTCCTT
1 TTTTTCTT
*
151225 TTTTCCTT
1 TTTTTCTT
*
151233 TTCTTACTT
1 TT-TTTCTT
*
151242 TTTTTATTT
1 TTTTT-CTT
*
151251 TTTTTCTC
1 TTTTTCTT
151259 TTTTTCTT
1 TTTTTCTT
151267 TT
1 TT
151269 GTCATTAATT
Statistics
Matches: 91, Mismatches: 8, Indels: 18
0.78 0.07 0.15
Matches are distributed among these distances:
7 7 0.08
8 35 0.38
9 30 0.33
10 4 0.04
11 5 0.05
12 10 0.11
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTTCTT
Found at i:151175 original size:42 final size:43
Alignment explanation
Indices: 151124--151267 Score: 119
Period size: 43 Copynumber: 3.5 Consensus size: 43
151114 TTTCAACATT
*
151124 TTTTCTTTTC-TTTTGTCTTTCATTTTCCCTTTTTCTTTTTTTC
1 TTTT-TTTTCATTTTTTCTTTCATTTTCCCTTTTTCTTTTTTTC
* *
151167 TTTTTTTTCATTCATTT-TTTCATTTT--C-TTTTCATTTTTTC
1 TTTTTTTTCATT-TTTTCTTTCATTTTCCCTTTTTCTTTTTTTC
* * *
151207 --TTTTTTCATTTTTTCCTT--TTTTCCTTTTCTTACTTTTTTTA
1 TTTTTTTTCATTTTTTCTTTCATTTTCCCTTT-TT-CTTTTTTTC
151248 TTTTTTTTC-TCTTTTTCTTT
1 TTTTTTTTCAT-TTTTTCTTT
151268 TGTCATTAAT
Statistics
Matches: 81, Mismatches: 9, Indels: 22
0.72 0.08 0.20
Matches are distributed among these distances:
36 4 0.05
37 3 0.04
38 12 0.15
39 2 0.02
40 14 0.17
41 8 0.10
42 6 0.07
43 30 0.37
44 2 0.02
ACGTcount: A:0.06, C:0.17, G:0.01, T:0.76
Consensus pattern (43 bp):
TTTTTTTTCATTTTTTCTTTCATTTTCCCTTTTTCTTTTTTTC
Found at i:151192 original size:19 final size:19
Alignment explanation
Indices: 151170--151216 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
151160 TTTTTTCTTT
151170 TTTTTCATTCATTTTTTCA
1 TTTTTCATTCATTTTTTCA
* *
151189 -TTTTCTTTTCATTTTTTCT
1 TTTTTC-ATTCATTTTTTCA
151208 TTTTTCATT
1 TTTTTCATT
151217 TTTTCCTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 5 0.22
19 13 0.57
20 5 0.22
ACGTcount: A:0.11, C:0.15, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTTCATTCATTTTTTCA
Done.