Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168004.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_26, 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: 16099665
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 52 of 77
Found at i:10251504 original size:15 final size:16
Alignment explanation
Indices: 10251435--10251514 Score: 51
Period size: 15 Copynumber: 5.1 Consensus size: 16
10251425 TAGAGTTTGG
10251435 AGATTTTAAGGGGTTTTT
1 AGATTTTAAGGGG--TTT
*
10251453 GGATTTT--GGGGTTT
1 AGATTTTAAGGGGTTT
* *
10251467 CAGATTTTAAGGGGCTC
1 -AGATTTTAAGGGGTTT
*
10251484 AAATTTT-AGGGGTTT
1 AGATTTTAAGGGGTTT
* *
10251499 GGA-TTTAAAGGGTTT
1 AGATTTTAAGGGGTTT
10251514 A
1 A
10251515 AAGGTTTTAG
Statistics
Matches: 47, Mismatches: 11, Indels: 11
0.68 0.16 0.16
Matches are distributed among these distances:
14 6 0.13
15 20 0.43
16 10 0.21
17 5 0.11
18 6 0.13
ACGTcount: A:0.23, C:0.04, G:0.31, T:0.42
Consensus pattern (16 bp):
AGATTTTAAGGGGTTT
Found at i:10251761 original size:3 final size:3
Alignment explanation
Indices: 10251742--10251786 Score: 54
Period size: 3 Copynumber: 14.0 Consensus size: 3
10251732 AATAATAAAA
*
10251742 ATT ATTT ATT CTT ATT ATT ATTT ATAT ATT ATT ATT ATT ATT ATT
1 ATT A-TT ATT ATT ATT ATT A-TT AT-T ATT ATT ATT ATT ATT ATT
10251787 TTAAGCATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
3 28 0.76
4 9 0.24
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:10251771 original size:20 final size:20
Alignment explanation
Indices: 10251743--10251783 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
10251733 ATAATAAAAA
* *
10251743 TTATTTATTCTTATTATTAT
1 TTATATATTATTATTATTAT
10251763 TTATATATTATTATTATTAT
1 TTATATATTATTATTATTAT
10251783 T
1 T
10251784 ATTTTAAGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.68
Consensus pattern (20 bp):
TTATATATTATTATTATTAT
Found at i:10252942 original size:3 final size:3
Alignment explanation
Indices: 10252930--10252963 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
10252920 TTTTTAAATA
*
10252930 TAT T-T TAT TAT TAT TAT TAT TAT AAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
10252964 AAATCATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:10254051 original size:16 final size:15
Alignment explanation
Indices: 10254031--10254076 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 15
10254021 TTTTTTCAAC
10254031 TTTTTCTT-TTGTTTA
1 TTTTTCTTATT-TTTA
10254046 TGTTTTCTTATTTTTA
1 T-TTTTCTTATTTTTA
10254062 TTTTT-TGTATTTTTA
1 TTTTTCT-TATTTTTA
10254077 GATTAATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
14 1 0.04
15 13 0.46
16 12 0.43
17 2 0.07
ACGTcount: A:0.11, C:0.04, G:0.07, T:0.78
Consensus pattern (15 bp):
TTTTTCTTATTTTTA
Found at i:10255358 original size:23 final size:23
Alignment explanation
Indices: 10255316--10255359 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
10255306 TTTAAATATT
*
10255316 TTTAATTATTATTTATAATAAGA
1 TTTAATTATAATTTATAATAAGA
10255339 TTTAATT-TAATTTATGAATAA
1 TTTAATTATAATTTAT-AATAA
10255360 CTAGAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (23 bp):
TTTAATTATAATTTATAATAAGA
Found at i:10255836 original size:215 final size:215
Alignment explanation
Indices: 10255348--10255995 Score: 1266
Period size: 215 Copynumber: 3.0 Consensus size: 215
10255338 ATTTAATTTA
*
10255348 ATTTATGAATAACTAGAAATATGTGCACTCACACTCATTTTGTGGGTGGAGGAAAAATGTTAAAA
1 ATTTTTGAATAACTAGAAATATGTGCACTCACACTCATTTTGTGGGTGGAGGAAAAATGTTAAAA
10255413 AAAATATTTTGAGAAGAAAATGGATAGTTTTTTAATAAAGAGTATATGTAAC-TTTTTTTTTTAA
66 AAAATATTTTGAGAAGAAAATGGATAGTTTTTTAATAAAGAGTATATGTAACTTTTTTTTTTTAA
10255477 AGTAGACAG-TTTTTTAAAAAATATTATTTAAAAATTGAAAGACTAACATACTCTTACTAA-TTT
131 AGTAGACAGTTTTTTTAAAAAATATTATTTAAAAATTGAAAGACTAACATACTCTTACTAATTTT
10255540 TTATTATTACATAATTAAAT
196 TTATTATTACATAATTAAAT
10255560 ATTTTTGAATAACTAGAAATATGTGCACTCACACTCATTTTGTGGGTGGAGGAAAAATGTTAAAA
1 ATTTTTGAATAACTAGAAATATGTGCACTCACACTCATTTTGTGGGTGGAGGAAAAATGTTAAAA
10255625 AAAATATTTTGAGAAGAAAATGGATAGTTTTTTAATAAAGAGTATATGTAACTTTTTTTTTTTAA
66 AAAATATTTTGAGAAGAAAATGGATAGTTTTTTAATAAAGAGTATATGTAACTTTTTTTTTTTAA
10255690 AGTAGACAGTTTTTTTAAAAAATATTATTTAAAAATTGAAAGACTAACATACTCTTACTAATTTT
131 AGTAGACAGTTTTTTTAAAAAATATTATTTAAAAATTGAAAGACTAACATACTCTTACTAATTTT
10255755 TTATTATTACATAATTAAAT
196 TTATTATTACATAATTAAAT
10255775 ATTTTTGAATAACTAGAAATATGTGCACTCACACTCATTTTGTGGGTGGAGGAAAAATGTTAAAA
1 ATTTTTGAATAACTAGAAATATGTGCACTCACACTCATTTTGTGGGTGGAGGAAAAATGTTAAAA
10255840 AAAATATTTTGAGAAGAAAATGGATAGTTTTTTAATAAAGAGTATATGTAACTTTTTTTTTTTAA
66 AAAATATTTTGAGAAGAAAATGGATAGTTTTTTAATAAAGAGTATATGTAACTTTTTTTTTTTAA
10255905 AGTAGACAGTTTTTTTAAAAAATATTATTTAAAAATTGAAAGACTAACATACTCTTACTAATTTT
131 AGTAGACAGTTTTTTTAAAAAATATTATTTAAAAATTGAAAGACTAACATACTCTTACTAATTTT
10255970 TTATTATTACATAATTAAAT
196 TTATTATTACATAATTAAAT
10255990 ATTTTT
1 ATTTTT
10255996 AATTGAATTG
Statistics
Matches: 432, Mismatches: 1, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
212 116 0.27
213 21 0.05
214 51 0.12
215 244 0.56
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.40
Consensus pattern (215 bp):
ATTTTTGAATAACTAGAAATATGTGCACTCACACTCATTTTGTGGGTGGAGGAAAAATGTTAAAA
AAAATATTTTGAGAAGAAAATGGATAGTTTTTTAATAAAGAGTATATGTAACTTTTTTTTTTTAA
AGTAGACAGTTTTTTTAAAAAATATTATTTAAAAATTGAAAGACTAACATACTCTTACTAATTTT
TTATTATTACATAATTAAAT
Found at i:10258368 original size:2 final size:2
Alignment explanation
Indices: 10258361--10258388 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10258351 TGTTGAACTG
10258361 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
10258389 CATTATTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10259056 original size:44 final size:46
Alignment explanation
Indices: 10258983--10259068 Score: 140
Period size: 44 Copynumber: 1.9 Consensus size: 46
10258973 GTACTAATAA
10258983 CCCAGTTAGGAGTAACACAGCAACAATTAATG-GAAAAAAAATTAG
1 CCCAGTTAGGAGTAACACAGCAACAATTAATGAGAAAAAAAATTAG
* *
10259028 CCCAG-TAGGAGTAACACATCAACTATTAATGAGAAAAAAAA
1 CCCAGTTAGGAGTAACACAGCAACAATTAATGAGAAAAAAAA
10259069 AAAAAACCTA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
44 24 0.63
45 14 0.37
ACGTcount: A:0.50, C:0.16, G:0.16, T:0.17
Consensus pattern (46 bp):
CCCAGTTAGGAGTAACACAGCAACAATTAATGAGAAAAAAAATTAG
Found at i:10266656 original size:8 final size:8
Alignment explanation
Indices: 10266643--10266681 Score: 51
Period size: 8 Copynumber: 4.6 Consensus size: 8
10266633 TTTTGCTTAA
10266643 AAAAAAAG
1 AAAAAAAG
10266651 AAAAAAAG
1 AAAAAAAG
10266659 AGAAAAAAG
1 A-AAAAAAG
*
10266668 TAAAAAAGG
1 -AAAAAAAG
10266677 AAAAA
1 AAAAA
10266682 TAATGACTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
8 14 0.50
9 13 0.46
10 1 0.04
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (8 bp):
AAAAAAAG
Found at i:10266664 original size:17 final size:16
Alignment explanation
Indices: 10266644--10266681 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
10266634 TTTGCTTAAA
10266644 AAAAAAGAAAAAAAGAG
1 AAAAAAGAAAAAAAG-G
*
10266661 AAAAAAGTAAAAAAGG
1 AAAAAAGAAAAAAAGG
10266677 AAAAA
1 AAAAA
10266682 TAATGACTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.03
Consensus pattern (16 bp):
AAAAAAGAAAAAAAGG
Found at i:10267712 original size:49 final size:49
Alignment explanation
Indices: 10267409--10268185 Score: 876
Period size: 49 Copynumber: 16.0 Consensus size: 49
10267399 TTGAGAAAAA
* *
10267409 ATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-C-TTTTCAAA
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAG
* *
10267456 ATGAGATTTTAAAGTTGTTGAGCATCTGCTGAGATGAGCCCTTTTT-AAG
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CCTTTTTCAAG
* ** * * *
10267505 ATGA-TTTTTAAAGTCATTGAGCCTCTACTGAGATGAGCTTTTTTCAAG
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAG
* * ** *
10267553 ATGAGAATTTTTAAAGTTATTAAGCCTCTGCTGAGAAAAG-CTTTTTCAAT
1 ATGAG-A-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAG
* *
10267603 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAACCCTTTTCAAG
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAG
* ** * * *
10267652 ATGA-TTTTTAAAGTCATTGAGCCTCTACTGATAGGAGCTTTTTTCAAG
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAG
* * * *
10267700 ATGAGATTTTAAAGTTATTGAGCTTCTGTTGAGAGGACCCTTTTTCAAG
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAG
** * *
10267749 AT-A-ATTTTTAAAGTCATTGAGCCTCTGCTGAAAGGAGCTTTTTTCAAG
1 ATGAGA-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAG
* * * *
10267797 ATGAGATTTTAAAATTGTTGAGCCTCTGTTGAGATGAGCCTTTTTTAAG
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAG
*
10267846 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCCTTTTTCAAG
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAG
* * * *
10267895 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGATGTGCCCTTTTCAAA
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAG
* * * * *
10267944 ATGA-TTTTTAAAGTCGTTGAGCCTATGCTTAGAGGAGCCTTTTTTAAG
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAG
* *
10267992 ATGAGAATTTTTAAAGTTGTTGAGCCTTTGTTGAGAGGAG-CTTTTTCAAG
1 ATGAG-A-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAG
* * * *
10268042 ATGAGATTTTAAAGTTATTGAGTCTCTGTTGAGAGGAG-CTTTTCCAA-
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAG
** * * * *
10268089 AAAAGATTTTAAAGTTATGGAGCCTCTACCGAGAGGAGCCTTTTTCAAG
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAG
* * *
10268138 ATGAAATTTTAAAGTTGTTAAGCCTCTGCTGAGAGGAGTCTTTTTCAA
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAA
10268186 ATTTTAAATT
Statistics
Matches: 616, Mismatches: 97, Indels: 32
0.83 0.13 0.04
Matches are distributed among these distances:
47 73 0.12
48 226 0.37
49 230 0.37
50 32 0.05
51 55 0.09
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (49 bp):
ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAG
Found at i:10267939 original size:292 final size:290
Alignment explanation
Indices: 10267409--10268185 Score: 987
Period size: 292 Copynumber: 2.7 Consensus size: 290
10267399 TTGAGAAAAA
* * * * *
10267409 ATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC-TTTTCAAAATGAGATTTTAAAGTTG
1 ATGAGATTTTAAAGTTGTTGAGCTTCTGTTGAGAGGAGCTTTTTCAAGATGAGATTTTAAAGTTA
* * * *
10267473 TTGAGCATCTGCTGAGATGAGCCCTTTTT-AAGATGA-TTTTTAAAGTCATTGAGCCTCTACTGA
66 TTGAGCCTCTGCTGAGAGGAG--CTTTTTCAAGATGAGATTTTAAAGTTATTGAGCCTCTACTGA
* *
10267536 GATGAG-CTTTTTTCAAGATGAGAATTTTTAAAGTTATTAAGCCTCTGCTGAGAAAAGCTTTTTC
129 GATGAGCCTTTTTT-AAGATGAG-A-TTTTAAAGTTGTTAAGCCTCTGCTGAGAAGAGCTTTTTC
* *
10267600 AATATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAACCCTTTTCAAGATGATTTTTAAAG
191 AAGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAACCCTTTTCAAAATGATTTTTAAAG
* *
10267665 TCATTGAGCCTCTACTGATAGGAG-CTTTTTTCAAG
256 TCATTGAGCCTATACTGAGAGGAGCCTTTTTT-AAG
* *
10267700 ATGAGATTTTAAAGTTATTGAGCTTCTGTTGAGAGGACCCTTTTTCAAGAT-A-ATTTTTAAAGT
1 ATGAGATTTTAAAGTTGTTGAGCTTCTGTTGAGAGGA-GCTTTTTCAAGATGAGA-TTTTAAAGT
* * * * **
10267763 CATTGAGCCTCTGCTGAAAGGAGCTTTTTTCAAGATGAGATTTTAAAATTGTTGAGCCTCTGTTG
64 TATTGAGCCTCTGCTGAGAGGAGC-TTTTTCAAGATGAGATTTTAAAGTTATTGAGCCTCTACTG
* *
10267828 AGATGAGCCTTTTTTAAGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCCTTTTTCA
128 AGATGAGCCTTTTTTAAGATGAGATTTTAAAGTTGTTAAGCCTCTGCTGAGAAGAG-CTTTTTCA
* **
10267893 AGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGATGTGCCCTTTTCAAAATGATTTTTAAAGT
192 AGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAACCCTTTTCAAAATGATTTTTAAAGT
* * *
10267958 CGTTGAGCCTATGCTTAGAGGAGCCTTTTTTAAG
257 CATTGAGCCTATACTGAGAGGAGCCTTTTTTAAG
10267992 ATGAGAATTTTTAAAGTTGTTGAGCCTT-TGTTGAGAGGAGCTTTTTCAAGATGAGATTTTAAAG
1 ATGAG-A-TTTTAAAGTTGTTGAG-CTTCTGTTGAGAGGAGCTTTTTCAAGATGAGATTTTAAAG
* * * ** * *
10268056 TTATTGAGTCTCTGTTGAGAGGAGCTTTTCCAA-AAAAGATTTTAAAGTTATGGAGCCTCTACCG
63 TTATTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGAGATTTTAAAGTTATTGAGCCTCTACTG
* * * *
10268120 AGAGGAGCCTTTTTCAAGATGAAATTTTAAAGTTGTTAAGCCTCTGCTGAGAGGAGTCTTTTTCA
128 AGATGAGCCTTTTTTAAGATGAGATTTTAAAGTTGTTAAGCCTCTGCTGAGAAGAG-CTTTTTCA
10268185 A
192 A
10268186 ATTTTAAATT
Statistics
Matches: 420, Mismatches: 52, Indels: 27
0.84 0.10 0.05
Matches are distributed among these distances:
290 1 0.00
291 67 0.16
292 214 0.51
293 71 0.17
294 63 0.15
295 4 0.01
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (290 bp):
ATGAGATTTTAAAGTTGTTGAGCTTCTGTTGAGAGGAGCTTTTTCAAGATGAGATTTTAAAGTTA
TTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGAGATTTTAAAGTTATTGAGCCTCTACTGAGA
TGAGCCTTTTTTAAGATGAGATTTTAAAGTTGTTAAGCCTCTGCTGAGAAGAGCTTTTTCAAGAT
GAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAACCCTTTTCAAAATGATTTTTAAAGTCATT
GAGCCTATACTGAGAGGAGCCTTTTTTAAG
Found at i:10269654 original size:193 final size:192
Alignment explanation
Indices: 10269318--10269691 Score: 660
Period size: 193 Copynumber: 1.9 Consensus size: 192
10269308 TTTATTTATT
*
10269318 AAAAAAATATTCTCGAGAAAAATAAATCAAATCCTTTTTATTGAAATAATTCTTAAAATGTTCCA
1 AAAAAAATATTCTCGAGAAAAATAAATCAAAACCTTTTTATTGAAATAATTCTTAAAATGTTCCA
*
10269383 GTACGTTGGTAACATTAAAAGAACTCTTTCTCACCTAGAGATTTCTTAAAGCATCTCTACTCGGA
66 GTACGTTAGTAACATTAAAAGAACTCTTTCTCACCTAGAGATTTCTTAAAGCATCTCTACTCGGA
* * *
10269448 ATACTTTTAGAATCTCATCTTTGGAGG-CTCGAATTTATTTTTCGTAAGAAAATGTCATGTTA
131 ATACTTTTAGAATCTCATCTTCGGAGGTCT-AAATTTACTTTTCGTAAGAAAATGTCATGTTA
*
10269510 AAAAAAATTATTCTCGAGAAAAATAAATTAAAACCTTTTTATTGAAATAATTCTTAAAATGTTCC
1 AAAAAAA-TATTCTCGAGAAAAATAAATCAAAACCTTTTTATTGAAATAATTCTTAAAATGTTCC
*
10269575 AGTACGTTAGTAACATTAGAAGAACTCTTTCTCACCTAGAGATTTCTTAAAGCATCTCTACTCGG
65 AGTACGTTAGTAACATTAAAAGAACTCTTTCTCACCTAGAGATTTCTTAAAGCATCTCTACTCGG
10269640 AATACTTTTAGAATCTCATCTTCGGAGGTCTAAATTTACTTTTCGTAAGAAA
130 AATACTTTTAGAATCTCATCTTCGGAGGTCTAAATTTACTTTTCGTAAGAAA
10269692 TTATATCATG
Statistics
Matches: 173, Mismatches: 7, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
192 7 0.04
193 164 0.95
194 2 0.01
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.36
Consensus pattern (192 bp):
AAAAAAATATTCTCGAGAAAAATAAATCAAAACCTTTTTATTGAAATAATTCTTAAAATGTTCCA
GTACGTTAGTAACATTAAAAGAACTCTTTCTCACCTAGAGATTTCTTAAAGCATCTCTACTCGGA
ATACTTTTAGAATCTCATCTTCGGAGGTCTAAATTTACTTTTCGTAAGAAAATGTCATGTTA
Found at i:10270035 original size:23 final size:23
Alignment explanation
Indices: 10270005--10270068 Score: 119
Period size: 23 Copynumber: 2.8 Consensus size: 23
10269995 TATTATTATA
10270005 AAAAATGAAATTTTTATTTGAAG
1 AAAAATGAAATTTTTATTTGAAG
10270028 AAAAATGAAATTTTTATTTGAAG
1 AAAAATGAAATTTTTATTTGAAG
*
10270051 AAAAATGAAAATTTTATT
1 AAAAATGAAATTTTTATT
10270069 ATATTGAAGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (23 bp):
AAAAATGAAATTTTTATTTGAAG
Found at i:10270244 original size:252 final size:250
Alignment explanation
Indices: 10269794--10270260 Score: 588
Period size: 252 Copynumber: 1.9 Consensus size: 250
10269784 AAATTAAAAT
*
10269794 TTTGAAGAAAAAGAAATTTAATTATATTGAAAATTTTCTATAAATATTCCAATACGCTGGTAATA
1 TTTGAAGAAAAAGAAATTTAATTATATTGAAAATTTTCTATAAATATTCCAATACACTGGTAATA
* * * * *
10269859 TTTTACAGAAAATCTTCTCACCTAGAGTTTCTTAAAGCATCTCTACTCGAAATACTTTTAGAATC
66 TTTTAAAAAAAATCTTCTCACCTAGAGTTTCATAAAGCATCACTACTCGAAATACCTTTAGAATC
* * * * *
10269924 CCATCATTGGATTAAATTTCTTTCCTTCTTATTTTTATTACTTATTTTTAATATATTAATCAATT
131 CCATCATCGGATAAAATTTCTTTCCTAC-TATTTTTATTACTTATTATTAATATATAAATCAATT
10269989 TTTAT-TTATTATTATAAAAAATGAAATTTTTATTTGAAGAAAAATGAAATTTTTA
195 TTTATATTATTATTATAAAAAATGAAATTTTTATTTGAAGAAAAATGAAATTTTTA
* *
10270044 TTTGAAGAAAAATGAAAATTTTATTATATTGAAGATTTTCTATAAATATTCCAATACACTGGTAA
1 TTTGAAGAAAAA-G-AAATTTAATTATATTGAAAATTTTCTATAAATATTCCAATACACTGGTAA
* *
10270109 TATTTTATAAAAAAATCTTCTCACCTAGAGATTTCAT-AGGCATCACTACTCGGAATACCTTT-G
64 TATTTTA-AAAAAAATCTTCTCACCTAGAG-TTTCATAAAGCATCACTACTCGAAATACCTTTAG
* * * *
10270172 AATCTCATCGTCGGATAAAAATTTCATTTTCCTAC-A-TTTTGTTAGTTTATTATT-AT-TATCA
127 AATCCCATCATCGGAT-AAAATTTC--TTTCCTACTATTTTTATTA-CTTATTATTAATATAT-A
** * *
10270233 AATTTATTTTTATATTATTTTTTTAAAA
187 AATCAATTTTTATATTATTATTATAAAA
10270261 GTTTATCTTA
Statistics
Matches: 184, Mismatches: 23, Indels: 17
0.82 0.10 0.08
Matches are distributed among these distances:
250 12 0.07
251 4 0.02
252 88 0.48
253 68 0.37
254 5 0.03
255 7 0.04
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.44
Consensus pattern (250 bp):
TTTGAAGAAAAAGAAATTTAATTATATTGAAAATTTTCTATAAATATTCCAATACACTGGTAATA
TTTTAAAAAAAATCTTCTCACCTAGAGTTTCATAAAGCATCACTACTCGAAATACCTTTAGAATC
CCATCATCGGATAAAATTTCTTTCCTACTATTTTTATTACTTATTATTAATATATAAATCAATTT
TTATATTATTATTATAAAAAATGAAATTTTTATTTGAAGAAAAATGAAATTTTTA
Found at i:10271359 original size:18 final size:18
Alignment explanation
Indices: 10271336--10271397 Score: 56
Period size: 18 Copynumber: 3.3 Consensus size: 18
10271326 CGATCACGGG
10271336 TGGTGGCAATGTAGGGTC
1 TGGTGGCAATGTAGGGTC
*
10271354 TGGTGGTC-AGGT-GGGTC
1 TGGTGG-CAATGTAGGGTC
*
10271371 TGGTGGTGGCAGTGTAGGGTC
1 ---TGGTGGCAATGTAGGGTC
10271392 TGGTGG
1 TGGTGG
10271398 TGGCAGTGGT
Statistics
Matches: 35, Mismatches: 3, Indels: 12
0.70 0.06 0.24
Matches are distributed among these distances:
17 5 0.14
18 15 0.43
19 2 0.06
20 8 0.23
21 5 0.14
ACGTcount: A:0.10, C:0.10, G:0.52, T:0.29
Consensus pattern (18 bp):
TGGTGGCAATGTAGGGTC
Found at i:10271403 original size:21 final size:21
Alignment explanation
Indices: 10271334--10271405 Score: 107
Period size: 21 Copynumber: 3.6 Consensus size: 21
10271324 GGCGATCACG
*
10271334 GGTGGTGGCAATGTAGGGTCT
1 GGTGGTGGCAGTGTAGGGTCT
10271355 GGTGGT--CAG-GT-GGGTCT
1 GGTGGTGGCAGTGTAGGGTCT
10271372 GGTGGTGGCAGTGTAGGGTCT
1 GGTGGTGGCAGTGTAGGGTCT
10271393 GGTGGTGGCAGTG
1 GGTGGTGGCAGTG
10271406 GTGCCGGGGA
Statistics
Matches: 46, Mismatches: 1, Indels: 8
0.84 0.02 0.15
Matches are distributed among these distances:
17 12 0.26
18 2 0.04
19 5 0.11
20 2 0.04
21 25 0.54
ACGTcount: A:0.10, C:0.10, G:0.53, T:0.28
Consensus pattern (21 bp):
GGTGGTGGCAGTGTAGGGTCT
Found at i:10271480 original size:18 final size:17
Alignment explanation
Indices: 10271458--10271514 Score: 78
Period size: 18 Copynumber: 3.2 Consensus size: 17
10271448 CTGTTTTATT
10271458 TTTTTTTGTATTTCATA
1 TTTTTTTGTATTTCATA
*
10271475 TATTTTTTGTAGTTCATA
1 T-TTTTTTGTATTTCATA
*
10271493 TTTTTATTGTATTTCGTA
1 TTTTT-TTGTATTTCATA
10271511 TTTT
1 TTTT
10271515 ATACGTATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.14
18 30 0.86
ACGTcount: A:0.18, C:0.05, G:0.09, T:0.68
Consensus pattern (17 bp):
TTTTTTTGTATTTCATA
Found at i:10271512 original size:43 final size:43
Alignment explanation
Indices: 10271451--10271549 Score: 101
Period size: 43 Copynumber: 2.3 Consensus size: 43
10271441 TTTTGTTCTG
* * * *
10271451 TTTTATTTTTTTTTGTATTTCATATATTTTTTGTAGTTCA-TAT
1 TTTTA-TTTATTTCGTATTTCATACATATTTTGTAGTTCATTAT
* * * *
10271494 TTTTATTGTATTTCGTATTTTATACGTATTTTGTATTTTATTAT
1 TTTTATT-TATTTCGTATTTCATACATATTTTGTAGTTCATTAT
10271538 TTTTATTTATTT
1 TTTTATTTATTT
10271550 TATTATTTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
42 2 0.04
43 34 0.74
44 10 0.22
ACGTcount: A:0.19, C:0.04, G:0.07, T:0.70
Consensus pattern (43 bp):
TTTTATTTATTTCGTATTTCATACATATTTTGTAGTTCATTAT
Found at i:10272149 original size:21 final size:21
Alignment explanation
Indices: 10272106--10272150 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
10272096 TTAAAATTTT
* **
10272106 TTTTAAATATTATTTTTGTTA
1 TTTTAAATATTATTCTTAATA
*
10272127 TTTTAATTATTATTCTTAATA
1 TTTTAAATATTATTCTTAATA
10272148 TTT
1 TTT
10272151 ATGCATGTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTTAAATATTATTCTTAATA
Found at i:10274217 original size:40 final size:40
Alignment explanation
Indices: 10274098--10274555 Score: 321
Period size: 40 Copynumber: 11.1 Consensus size: 40
10274088 AAAATAAATC
* *
10274098 AAGCTCCTCCAATCAAAGGCTCAACAACTTTGAAAAATAAA
1 AAGCTCCTCTAAGCAAAGGCTCAACAACTTTGAAAAAT-AA
* * * *
10274139 TTAAGCTCTTATAAGTAGAA-GCTCAACAATTTTGAAAAATAA
1 --AAGCTCCTCTAAGCA-AAGGCTCAACAACTTTGAAAAATAA
* * * *
10274181 AGGCTCCTCTAAGTAAAGGCTCAATAACTTTTAAAAAATAAATA
1 AAGCTCCTCTAAGCAAAGGCTCAACAAC-TTTGAAAAAT--A-A
*
10274225 AAGCTCCTCTAAGCAGAGGCTCAACAACTTTGAAAAATAA
1 AAGCTCCTCTAAGCAAAGGCTCAACAACTTTGAAAAATAA
* * * * * *
10274265 AGGATTCTCTAAGTAAAGGCTCAATAACTTTAAAAAAATAAATA
1 AAGCTCCTCTAAGCAAAGGCTCAACAACTTT-GAAAAAT--A-A
* * * * *
10274309 AAACTCATTTAAGCAAAGGCACAATAACTTTGAAAAATAA
1 AAGCTCCTCTAAGCAAAGGCTCAACAACTTTGAAAAATAA
* * * *
10274349 AAGCCCCTCTAAACAGAGGCAT-AACAACTTTGGAAAATAAATA
1 AAGCTCCTCTAAGCAAAGGC-TCAACAACTTT-GAAAA-ATA-A
** * * *
10274392 AAGCTCCTCTAAGCAGGGGCACAATAAATTT-AGAAAATAA
1 AAGCTCCTCTAAGCAAAGGCTCAACAACTTTGA-AAAATAA
* *
10274432 AAGGCTCCTCTAAGCAGAGGCACAACAACTTTGAAAAATAA
1 AA-GCTCCTCTAAGCAAAGGCTCAACAACTTTGAAAAATAA
* * * * * *
10274473 AGGCTCTTCTAAACAGAGGAT-TACAACTTTGAAAAATAA
1 AAGCTCCTCTAAGCAAAGGCTCAACAACTTTGAAAAATAA
* * * * *
10274512 AAGTCTTCTCTAAACAGAGGCACAACAATTTTGAAAAATAA
1 AAG-CTCCTCTAAGCAAAGGCTCAACAACTTTGAAAAATAA
10274553 AAG
1 AAG
10274556 GCTCATTGAC
Statistics
Matches: 330, Mismatches: 65, Indels: 42
0.76 0.15 0.10
Matches are distributed among these distances:
39 21 0.06
40 101 0.31
41 78 0.24
42 8 0.02
43 71 0.22
44 51 0.15
ACGTcount: A:0.46, C:0.17, G:0.13, T:0.23
Consensus pattern (40 bp):
AAGCTCCTCTAAGCAAAGGCTCAACAACTTTGAAAAATAA
Found at i:10274237 original size:44 final size:43
Alignment explanation
Indices: 10274023--10274473 Score: 320
Period size: 43 Copynumber: 10.6 Consensus size: 43
10274013 TCCTTTAAAT
* * * *
10274023 AAAGGCTCCATGACTTTGAAAAAGTAAACAAAAG-TCCTCTAAAC
1 AAAGGCTCAATAACTTTGAAAAA-TAAA-TAAAGCTCCTCTAAGC
* * * * * *
10274067 AAAGGTTCAATGACTTTCAAAAAAATAAATCAAGCTCCTCCAATC
1 AAAGGCTCAATAACTTT--GAAAAATAAATAAAGCTCCTCTAAGC
* * * * *
10274112 AAAGGCTCAACAACTTTGAAAAATAAATTAAGCTCTTATAAGT
1 AAAGGCTCAATAACTTTGAAAAATAAATAAAGCTCCTCTAAGC
* * * *
10274155 AGAA-GCTCAACAATTTTGAAAAAT--A-AAGGCTCCTCTAAGT
1 A-AAGGCTCAATAACTTTGAAAAATAAATAAAGCTCCTCTAAGC
*
10274195 AAAGGCTCAATAACTTTTAAAAAATAAATAAAGCTCCTCTAAGC
1 AAAGGCTCAATAAC-TTTGAAAAATAAATAAAGCTCCTCTAAGC
* * * * * *
10274239 AGAGGCTCAACAACTTTGAAAAAT--A-AAGGATTCTCTAAGT
1 AAAGGCTCAATAACTTTGAAAAATAAATAAAGCTCCTCTAAGC
* * * *
10274279 AAAGGCTCAATAACTTTAAAAAAATAAATAAAACTCATTTAAGC
1 AAAGGCTCAATAACTTT-GAAAAATAAATAAAGCTCCTCTAAGC
* * *
10274323 AAAGGCACAATAACTTTGAAAAAT--A-AAAGCCCCTCTAAAC
1 AAAGGCTCAATAACTTTGAAAAATAAATAAAGCTCCTCTAAGC
* * *
10274363 AGAGGCAT-AACAACTTTGGAAAATAAATAAAGCTCCTCTAAGC
1 AAAGGC-TCAATAACTTTGAAAAATAAATAAAGCTCCTCTAAGC
** * * *
10274406 AGGGGCACAATAAATTT-AGAAAAT-AA-AAGGCTCCTCTAAGC
1 AAAGGCTCAATAACTTTGA-AAAATAAATAAAGCTCCTCTAAGC
* * *
10274447 AGAGGCACAACAACTTTGAAAAATAAA
1 AAAGGCTCAATAACTTTGAAAAATAAA
10274474 GGCTCTTCTA
Statistics
Matches: 320, Mismatches: 66, Indels: 44
0.74 0.15 0.10
Matches are distributed among these distances:
39 2 0.01
40 75 0.23
41 51 0.16
42 6 0.02
43 86 0.27
44 69 0.22
45 26 0.08
46 5 0.02
ACGTcount: A:0.47, C:0.18, G:0.13, T:0.23
Consensus pattern (43 bp):
AAAGGCTCAATAACTTTGAAAAATAAATAAAGCTCCTCTAAGC
Found at i:10274257 original size:84 final size:83
Alignment explanation
Indices: 10274100--10274553 Score: 416
Period size: 84 Copynumber: 5.5 Consensus size: 83
10274090 AATAAATCAA
* * * * * * *
10274100 GCTCCTCCAATCAAAGGCTCAACAACTTTGAAAAATAAATTAAGCTCTTATAAGTAGAAGCTCAA
1 GCTCCTCTAAGCAAAGGCTCAACAACTTTGAAAAATAAATAAAGCTCCTCTAAGCAGAGGCTCAA
*
10274165 CAATTTTGAAAAATAAAG
66 CAACTTTGAAAAATAAAG
* * *
10274183 GCTCCTCTAAGTAAAGGCTCAATAACTTTTAAAAAATAAATAAAGCTCCTCTAAGCAGAGGCTCA
1 GCTCCTCTAAGCAAAGGCTCAACAAC-TTTGAAAAATAAATAAAGCTCCTCTAAGCAGAGGCTCA
10274248 ACAACTTTGAAAAATAAAG
65 ACAACTTTGAAAAATAAAG
* * * * * * * * * *
10274267 GATTCTCTAAGTAAAGGCTCAATAACTTTAAAAAAATAAATAAAACTCATTTAAGCAAAGGCACA
1 GCTCCTCTAAGCAAAGGCTCAACAACTTT-GAAAAATAAATAAAGCTCCTCTAAGCAGAGGCTCA
* *
10274332 ATAACTTTGAAAAATAAAA
65 ACAACTTTGAAAAATAAAG
* * * * * *
10274351 GCCCCTCTAAACAGAGGCAT-AACAACTTTGGAAAATAAATAAAGCTCCTCTAAGCAGGGGCACA
1 GCTCCTCTAAGCAAAGGC-TCAACAACTTTGAAAAATAAATAAAGCTCCTCTAAGCAGAGGCTCA
* *
10274415 ATAAATTT-AGAAAATAAAAG
65 ACAACTTTGA-AAAAT-AAAG
* * * * * * *
10274435 GCTCCTCTAAGCAGAGGCACAACAACTTTGAAAAAT--A-AAGGCTCTTCTAAACAGAGGAT-TA
1 GCTCCTCTAAGCAAAGGCTCAACAACTTTGAAAAATAAATAAAGCTCCTCTAAGCAGAGGCTCAA
10274496 CAACTTTGAAAAATAAAAG
66 CAACTTTGAAAAAT-AAAG
* * * * * *
10274515 TCTTCTCTAAACAGAGGCACAACAATTTTGAAAAATAAA
1 GCTCCTCTAAGCAAAGGCTCAACAACTTTGAAAAATAAA
10274554 AGGCTCATTG
Statistics
Matches: 309, Mismatches: 53, Indels: 19
0.81 0.14 0.05
Matches are distributed among these distances:
80 48 0.16
81 17 0.06
82 3 0.01
83 65 0.21
84 175 0.57
85 1 0.00
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.23
Consensus pattern (83 bp):
GCTCCTCTAAGCAAAGGCTCAACAACTTTGAAAAATAAATAAAGCTCCTCTAAGCAGAGGCTCAA
CAACTTTGAAAAATAAAG
Found at i:10274366 original size:124 final size:119
Alignment explanation
Indices: 10274188--10274554 Score: 322
Period size: 124 Copynumber: 2.9 Consensus size: 119
10274178 TAAAGGCTCC
* * * *
10274188 TCTAAGTAAAGGCTCAATAACTTTTAAAAAATAAATAAAGCTCCTCTAAGCAGAGGCTCAACAAC
1 TCTAAGCAAAGGCACAATAAC-TTTGAAAAAT--A-AAAGCTCCTCTAAACAGAGGCT-AACAAC
* * * *
10274253 TTTGAAAAATAAAGGATTCTCTAAGTAAAGGCTCAATAACTTTAAAAAAATAAATAAAACTCA
61 TTTGAAAAATAAA-GATCCTCTAAGCAAAGGCACAATAAATTT-AAAAAAT-AA-AAAACTCA
* *
10274316 TTTAAGCAAAGGCACAATAACTTTGAAAAATAAAAGCCCCTCTAAACAGAGGCATAACAACTTTG
1 TCTAAGCAAAGGCACAATAACTTTGAAAAATAAAAGCTCCTCTAAACAGAGGC-TAACAACTTT-
* ** * ** *
10274381 GAAAATAAATAAAGCTCCTCTAAGCAGGGGCACAATAAATTTAGAAAATAAAAGGCTCC
64 G--AA-AAATAAAGATCCTCTAAGCAAAGGCACAATAAATTTAAAAAATAAAAAACTCA
* * * * * *
10274440 TCTAAGCAGAGGCACAACAACTTTGAAAAATAAAGGCTCTTCTAAACAGAGGATTACAACTTTGA
1 TCTAAGCAAAGGCACAATAACTTTGAAAAATAAAAGCTCCTCTAAACAGAGGCTAACAACTTTGA
* * * * *
10274505 AAAATAAA-AGTCTTCTCTAAACAGAGGCACAACAATTTTGAAAAATAAAA
66 AAAATAAAGA-TC--CTCTAAGCAAAGGCACAATAAATTTAAAAAATAAAA
10274555 GGCTCATTGA
Statistics
Matches: 199, Mismatches: 32, Indels: 23
0.78 0.13 0.09
Matches are distributed among these distances:
119 9 0.05
120 2 0.01
121 30 0.15
122 1 0.01
123 9 0.05
124 79 0.40
125 5 0.03
126 6 0.03
127 33 0.17
128 25 0.13
ACGTcount: A:0.47, C:0.17, G:0.13, T:0.23
Consensus pattern (119 bp):
TCTAAGCAAAGGCACAATAACTTTGAAAAATAAAAGCTCCTCTAAACAGAGGCTAACAACTTTGA
AAAATAAAGATCCTCTAAGCAAAGGCACAATAAATTTAAAAAATAAAAAACTCA
Found at i:10274812 original size:21 final size:21
Alignment explanation
Indices: 10274788--10274867 Score: 56
Period size: 20 Copynumber: 3.8 Consensus size: 21
10274778 GTATCCAACA
*
10274788 TTTAAAGATTCTCATTTAAAT
1 TTTAAAGATTCTCATTTAAAG
* *
10274809 TTTAGAA-ATTCACATCTAAAAG
1 TTTA-AAGATTCTCAT-TTAAAG
* * *
10274831 TTCAAAGCTTCTCATTT-GAG
1 TTTAAAGATTCTCATTTAAAG
* *
10274851 TTTAAAGGTTCACATTT
1 TTTAAAGATTCTCATTT
10274868 GACAAATTTG
Statistics
Matches: 45, Mismatches: 11, Indels: 7
0.71 0.17 0.11
Matches are distributed among these distances:
20 16 0.36
21 14 0.31
22 15 0.33
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.41
Consensus pattern (21 bp):
TTTAAAGATTCTCATTTAAAG
Found at i:10275066 original size:31 final size:31
Alignment explanation
Indices: 10275026--10275086 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
10275016 ATTTAAGTTC
*
10275026 TTCTTAAAGATTCTT-ATTTAAAACTCAAAGA
1 TTCTCAAAGATT-TTCATTTAAAACTCAAAGA
* *
10275057 TTCTCAAAGATTTTCATTTAAGATTCAAAG
1 TTCTCAAAGATTTTCATTTAAAACTCAAAG
10275087 GTGCTCATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 2 0.08
31 24 0.92
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.39
Consensus pattern (31 bp):
TTCTCAAAGATTTTCATTTAAAACTCAAAGA
Found at i:10275114 original size:46 final size:46
Alignment explanation
Indices: 10275062--10275271 Score: 280
Period size: 46 Copynumber: 4.6 Consensus size: 46
10275052 AAAGATTCTC
* * *
10275062 AAAGATTTTCATTTAAGATTCAAAGGTGCTCATTTGAAAACGTCTT
1 AAAGATTTTCATTTAAGACTCAAAGGTTCTCATTTGAAAACATCTT
* * *
10275108 AAAGATTCTCATTTAAGACTCAACA-TTTCTTATTTGAAAACATCTT
1 AAAGATTTTCATTTAAGACTCAA-AGGTTCTCATTTGAAAACATCTT
* * * *
10275154 AAAGATTCTCATTTAAGACTCAAAGTTTTTCATTTGAAAATATCTT
1 AAAGATTTTCATTTAAGACTCAAAGGTTCTCATTTGAAAACATCTT
* *
10275200 AAAGATTTTCATTTAAGACTCAAAGGTTCTCATTTGAAAACGTTTT
1 AAAGATTTTCATTTAAGACTCAAAGGTTCTCATTTGAAAACATCTT
10275246 AAAGATTCTT-ATTTAAGACTCAAAGG
1 AAAGATT-TTCATTTAAGACTCAAAGG
10275272 ACTTCATCAA
Statistics
Matches: 146, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
45 1 0.01
46 142 0.97
47 3 0.02
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (46 bp):
AAAGATTTTCATTTAAGACTCAAAGGTTCTCATTTGAAAACATCTT
Found at i:10275209 original size:25 final size:25
Alignment explanation
Indices: 10275091--10275252 Score: 98
Period size: 25 Copynumber: 7.0 Consensus size: 25
10275081 TCAAAGGTGC
* *
10275091 TCATTTGAAAACGTCTTAAAGATTC
1 TCATTTGAAAACATCTTAAAGATTT
* *
10275116 TCATTT-AAGAC-TC---AACATTT
1 TCATTTGAAAACATCTTAAAGATTT
* *
10275136 CTTATTTGAAAACATCTTAAAGATTC
1 -TCATTTGAAAACATCTTAAAGATTT
* *
10275162 TCATTT-AAGAC-TC--AAAGTTTT
1 TCATTTGAAAACATCTTAAAGATTT
*
10275183 TCATTTGAAAATATCTTAAAGATTT
1 TCATTTGAAAACATCTTAAAGATTT
* * *
10275208 TCATTT-AAGAC-TC--AAAGGTTC
1 TCATTTGAAAACATCTTAAAGATTT
* *
10275229 TCATTTGAAAACGTTTTAAAGATT
1 TCATTTGAAAACATCTTAAAGATT
10275253 CTTATTTAAG
Statistics
Matches: 102, Mismatches: 21, Indels: 28
0.68 0.14 0.19
Matches are distributed among these distances:
20 5 0.05
21 29 0.28
22 11 0.11
23 11 0.11
24 11 0.11
25 30 0.29
26 5 0.05
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (25 bp):
TCATTTGAAAACATCTTAAAGATTT
Found at i:10275681 original size:63 final size:63
Alignment explanation
Indices: 10275581--10275875 Score: 204
Period size: 63 Copynumber: 4.7 Consensus size: 63
10275571 CTCAATACTC
* * * * * * *
10275581 CACCATTT-TGAGCTTTTTAGCACTAGCCATTTTAGAACGAATTCTGTCTTCTATCACTTGAT
1 CACCATTTATAAGCTTTTCAGCACTAGCCATTTCAGAACAAATTCTATCCTCCATCACTTGAT
* * *
10275643 CACCATTTATAAGCTTTTCAGTACTAGCCATTTCAGAACAAATTTTATCCTCCATCACTTGGT
1 CACCATTTATAAGCTTTTCAGCACTAGCCATTTCAGAACAAATTCTATCCTCCATCACTTGAT
* * * * * * * * *
10275706 CACCACTCATAAGTTTTTCAACACTAACCATTTTAAAACAAATT-TCATTCTCCATCACTTGGT
1 CACCATTTATAAGCTTTTCAGCACTAGCCATTTCAGAACAAATTCT-ATCCTCCATCACTTGAT
* * * * * * * * * * *
10275769 CATCACTCAT-AGGTTTCTCGGCATTAACCATTTAAGAACAAATT-TCATCTTTCATCACTTGGT
1 CACCATTTATAAGCTTT-TCAGCACTAGCCATTTCAGAACAAATTCT-ATCCTCCATCACTTGAT
* * * * *
10275832 CACCAATTAT-AGGTTTCTCAACACTAACCATTTTAGAACAAATT
1 CACCATTTATAAGCTTT-TCAGCACTAGCCATTTCAGAACAAATT
10275876 TTGCCCACTG
Statistics
Matches: 194, Mismatches: 36, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
62 14 0.07
63 180 0.93
ACGTcount: A:0.30, C:0.24, G:0.09, T:0.36
Consensus pattern (63 bp):
CACCATTTATAAGCTTTTCAGCACTAGCCATTTCAGAACAAATTCTATCCTCCATCACTTGAT
Found at i:10275876 original size:63 final size:64
Alignment explanation
Indices: 10275665--10275876 Score: 277
Period size: 63 Copynumber: 3.4 Consensus size: 64
10275655 GCTTTTCAGT
* * * * *
10275665 ACTAGCCATTTCAGAACAAATTTTATC-CTCCATCACTTGGTCACCACTCATAAGTTTTTCAAC
1 ACTAACCATTTTAGAACAAATTTCATCTCTCCATCACTTGGTCACCACTCATAGGTTTCTCAAC
* * **
10275728 ACTAACCATTTTAAAACAAATTTCAT-TCTCCATCACTTGGTCATCACTCATAGGTTTCTCGGC
1 ACTAACCATTTTAGAACAAATTTCATCTCTCCATCACTTGGTCACCACTCATAGGTTTCTCAAC
* * * * *
10275791 ATTAACCATTTAAGAACAAATTTCATCT-TTCATCACTTGGTCACCAATTATAGGTTTCTCAAC
1 ACTAACCATTTTAGAACAAATTTCATCTCTCCATCACTTGGTCACCACTCATAGGTTTCTCAAC
10275854 ACTAACCATTTTAGAACAAATTT
1 ACTAACCATTTTAGAACAAATTT
10275877 TGCCCACTGA
Statistics
Matches: 127, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
63 126 0.99
64 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.08, T:0.35
Consensus pattern (64 bp):
ACTAACCATTTTAGAACAAATTTCATCTCTCCATCACTTGGTCACCACTCATAGGTTTCTCAAC
Found at i:10276602 original size:8 final size:8
Alignment explanation
Indices: 10276581--10276626 Score: 51
Period size: 8 Copynumber: 5.8 Consensus size: 8
10276571 ATTTGAGTCT
10276581 TTTTTTCTA
1 TTTTTTC-A
10276590 TTTTTTTCA
1 -TTTTTTCA
10276599 TTTTTTC-
1 TTTTTTCA
*
10276606 -TCTTTCA
1 TTTTTTCA
10276613 TTTTTTCA
1 TTTTTTCA
10276621 TTTTTT
1 TTTTTT
10276627 TTCTTTCCTC
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
6 5 0.16
8 19 0.59
9 1 0.03
10 7 0.22
ACGTcount: A:0.09, C:0.13, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTTTCA
Found at i:10276611 original size:24 final size:24
Alignment explanation
Indices: 10276584--10276652 Score: 79
Period size: 22 Copynumber: 2.9 Consensus size: 24
10276574 TGAGTCTTTT
10276584 TTTCTATTTTTTTCATTTTTTCTC
1 TTTCTATTTTTTTCATTTTTTCTC
*
10276608 TTTC-A-TTTTTTCATTTTTTTTC
1 TTTCTATTTTTTTCATTTTTTCTC
* *
10276630 TTTCCTCTTTTTCTTCTTTTTTT
1 TTT-CTATTTTT-TTCATTTTTT
10276653 ATTTTTTTTC
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
22 19 0.50
23 2 0.05
24 4 0.11
25 4 0.11
26 9 0.24
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.77
Consensus pattern (24 bp):
TTTCTATTTTTTTCATTTTTTCTC
Found at i:10280877 original size:13 final size:13
Alignment explanation
Indices: 10280861--10280885 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10280851 TTCAACCAAA
10280861 ATTTTTATTTTTT
1 ATTTTTATTTTTT
10280874 ATTTTTATTTTT
1 ATTTTTATTTTT
10280886 GTCCTTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
ATTTTTATTTTTT
Found at i:10282728 original size:17 final size:17
Alignment explanation
Indices: 10282692--10282725 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
10282682 AATAGATTTT
*
10282692 ATAAAAAAACATAATAA
1 ATAAAAAAACATAAAAA
10282709 ATAAAAAAA-ATAAAAA
1 ATAAAAAAACATAAAAA
10282725 A
1 A
10282726 ATATTACTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (17 bp):
ATAAAAAAACATAAAAA
Found at i:10283010 original size:14 final size:15
Alignment explanation
Indices: 10282993--10283026 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
10282983 TATTATATTT
10282993 AATAATTTA-AAATA
1 AATAATTTATAAATA
10283007 AATAA-TTATAAATA
1 AATAATTTATAAATA
10283021 AATAAT
1 AATAAT
10283027 CATCAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 3 0.17
14 15 0.83
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AATAATTTATAAATA
Found at i:10283020 original size:24 final size:27
Alignment explanation
Indices: 10282970--10283021 Score: 65
Period size: 29 Copynumber: 2.0 Consensus size: 27
10282960 AAATTTTAAA
10282970 TTAAAATAAAATATATTATATTTAATAAT
1 TTAAAATAAAATATATTATA--TAATAAT
10282999 TTAAAAT-AAATA-ATTATA-AATAA
1 TTAAAATAAAATATATTATATAATAA
10283022 ATAATCATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
24 5 0.22
27 6 0.26
28 5 0.22
29 7 0.30
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (27 bp):
TTAAAATAAAATATATTATATAATAAT
Found at i:10283034 original size:14 final size:14
Alignment explanation
Indices: 10283002--10283036 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
10282992 TAATAATTTA
*
10283002 AAATAAATAATTAT
1 AAATAAATAATCAT
10283016 AAATAAATAATCAT
1 AAATAAATAATCAT
*
10283030 CAATAAA
1 AAATAAA
10283037 ATTCAAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.29
Consensus pattern (14 bp):
AAATAAATAATCAT
Found at i:10284905 original size:16 final size:16
Alignment explanation
Indices: 10284871--10284915 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
10284861 GATTTCATTT
*
10284871 AAAAAAAT-AATAATA
1 AAAAAAATAAAAAATA
10284886 AAAAAAATAAAAAATGA
1 AAAAAAATAAAAAAT-A
*
10284903 AAAAAAGTAAAAA
1 AAAAAAATAAAAA
10284916 GCGGGTGGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
15 8 0.31
16 5 0.19
17 13 0.50
ACGTcount: A:0.82, C:0.00, G:0.04, T:0.13
Consensus pattern (16 bp):
AAAAAAATAAAAAATA
Found at i:10289008 original size:196 final size:196
Alignment explanation
Indices: 10288673--10289248 Score: 764
Period size: 196 Copynumber: 2.9 Consensus size: 196
10288663 TATGAATCAA
* * * *
10288673 CCTTTCAAGTACCTACATATAGGTCTAGCCATATCACTACATTAGCTTTTAAAGCCTAACAACTA
1 CCTTTCAAGTACCTACATATGGGTCTAGTCATATCACTACATCAGC-TTCAAAGCCTAACAACTA
* * * *
10288738 AGTGAGTGGTTTAAAGAGATATCAAAATAACTAAGAAATGGCCTACATTGATCTTATCCTTGTGA
65 AGTGAGTGGTTTAAGGAGATCTCAAAATAACTAAGAAAAGGCCCACATTGATCTTATCCTTGTGA
* * * *
10288803 CTTACATTGAGTTATTCCTATAACTGATAAAGAATAATTTTGTATCTCTAGTTTA-CTTACCAAT
130 CTTACATTGAGTTATTCCTAGAACTGATAAAGAACAACTTTGTATCTCTAGTTTATC-CACCAAT
10288867 AAG
194 AAG
* * * * *
10288870 CCTTTCAATTACCTACATATGGGTCTAGTCATATCACTACATCAACTTCAAAGCTTAAAAACCAA
1 CCTTTCAAGTACCTACATATGGGTCTAGTCATATCACTACATCAGCTTCAAAGCCTAACAACTAA
* *
10288935 GTGAGTGGTTGAAGGAGATCTCAAAATAACTAAGAAAAGGCCCACATTGATTTTATCCTTGTGAC
66 GTGAGTGGTTTAAGGAGATCTCAAAATAACTAAGAAAAGGCCCACATTGATCTTATCCTTGTGAC
* * *
10289000 ATACATTGAGTTATTCCTAGAACT-AGCAAAGAACAACTTTGTATCTTTAGTTTATCCACCAATA
131 TTACATTGAGTTATTCCTAGAACTGA-TAAAGAACAACTTTGTATCTCTAGTTTATCCACCAATA
10289064 AG
195 AG
* *
10289066 CCTTTCAAGTACCTACTTATGGGTCTAGTCATATTACTACATCAGCTTCAAAGCCTAACAACTAA
1 CCTTTCAAGTACCTACATATGGGTCTAGTCATATCACTACATCAGCTTCAAAGCCTAACAACTAA
* * * * *
10289131 GCT-AGTGGTTTAAGAAGATCTCAGAATAACCAAAAAAAAGGCCCACATTGATCCTAT-CTCTGT
66 G-TGAGTGGTTTAAGGAGATCTCAAAATAA-CTAAGAAAAGGCCCACATTGATCTTATCCT-TGT
* * * * *
10289194 AACTTACATTAAGTTATTCCTAGAACTGGTAAAGAACAACTTGGTATCTCCAGTT
128 GACTTACATTGAGTTATTCCTAGAACTGATAAAGAACAACTTTGTATCTCTAGTT
10289249 AGTCTAAAAC
Statistics
Matches: 329, Mismatches: 44, Indels: 12
0.85 0.11 0.03
Matches are distributed among these distances:
195 1 0.00
196 213 0.65
197 115 0.35
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (196 bp):
CCTTTCAAGTACCTACATATGGGTCTAGTCATATCACTACATCAGCTTCAAAGCCTAACAACTAA
GTGAGTGGTTTAAGGAGATCTCAAAATAACTAAGAAAAGGCCCACATTGATCTTATCCTTGTGAC
TTACATTGAGTTATTCCTAGAACTGATAAAGAACAACTTTGTATCTCTAGTTTATCCACCAATAA
G
Found at i:10290446 original size:15 final size:15
Alignment explanation
Indices: 10290428--10290463 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
10290418 ATGTGTGGAA
10290428 GAAAAATGAGAAAA-G
1 GAAAAATGA-AAAATG
10290443 GAAAAATGAAAAATG
1 GAAAAATGAAAAATG
10290458 GAAAAA
1 GAAAAA
10290464 AATGAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.69, C:0.00, G:0.22, T:0.08
Consensus pattern (15 bp):
GAAAAATGAAAAATG
Found at i:10290473 original size:11 final size:11
Alignment explanation
Indices: 10290459--10290499 Score: 64
Period size: 11 Copynumber: 3.6 Consensus size: 11
10290449 TGAAAAATGG
10290459 AAAAAAATGAA
1 AAAAAAATGAA
10290470 AAAAAAATGAA
1 AAAAAAATGAA
*
10290481 ATGAAAAATGAA
1 A-AAAAAATGAA
10290493 AAAAAAA
1 AAAAAAA
10290500 AAGAGCAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
11 17 0.63
12 10 0.37
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (11 bp):
AAAAAAATGAA
Found at i:10290529 original size:28 final size:27
Alignment explanation
Indices: 10290468--10290565 Score: 85
Period size: 28 Copynumber: 3.5 Consensus size: 27
10290458 GAAAAAAATG
10290468 AAAAAAAAATGAAATG--AAAAATGAAA
1 AAAAAAAAATGAAA-GAAAAAAATGAAA
*
10290494 AAAAAAAAGA-GCAAGAAAAAAAATGAAA
1 AAAAAAAA-ATGAAAG-AAAAAAATGAAA
**
10290522 AATGAAAAATGAAAGAAAAAAATGTAAA
1 AAAAAAAAATGAAAGAAAAAAATG-AAA
*
10290550 AAGACAAAAAAGGAAA
1 AA-A-AAAAAATGAAA
10290566 ACTTAAATTG
Statistics
Matches: 57, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
25 1 0.02
26 11 0.19
27 11 0.19
28 25 0.44
30 9 0.16
ACGTcount: A:0.76, C:0.02, G:0.14, T:0.08
Consensus pattern (27 bp):
AAAAAAAAATGAAAGAAAAAAATGAAA
Found at i:10290550 original size:7 final size:7
Alignment explanation
Indices: 10290428--10290535 Score: 70
Period size: 7 Copynumber: 15.6 Consensus size: 7
10290418 ATGTGTGGAA
10290428 GAAAAAT
1 GAAAAAT
*
10290435 GAGAAAAG
1 GA-AAAAT
10290443 GAAAAAT
1 GAAAAAT
10290450 GAAAAAT
1 GAAAAAT
10290457 GGAAAAAAAT
1 -G--AAAAAT
10290467 G-AAAA-
1 GAAAAAT
10290472 -AAAAAT
1 GAAAAAT
10290478 G--AAAT
1 GAAAAAT
10290483 GAAAAAT
1 GAAAAAT
10290490 GAAAAA-
1 GAAAAAT
*
10290496 -AAAAAA
1 GAAAAAT
10290502 GAGCAAGAA-
1 GA--AA-AAT
*
10290511 AAAAAAT
1 GAAAAAT
10290518 GAAAAAT
1 GAAAAAT
10290525 GAAAAAT
1 GAAAAAT
10290532 GAAA
1 GAAA
10290536 GAAAAAAATG
Statistics
Matches: 82, Mismatches: 4, Indels: 30
0.71 0.03 0.26
Matches are distributed among these distances:
5 14 0.17
6 6 0.07
7 43 0.52
8 7 0.09
9 4 0.05
10 8 0.10
ACGTcount: A:0.73, C:0.01, G:0.17, T:0.09
Consensus pattern (7 bp):
GAAAAAT
Found at i:10291242 original size:79 final size:79
Alignment explanation
Indices: 10291155--10291304 Score: 212
Period size: 79 Copynumber: 1.9 Consensus size: 79
10291145 TCGATTGACG
* * * *
10291155 AAATTTATGCTAAAATTACTAGTGCTGAGAA-GCTTGTGAGTTATGATCAAATGATGCAAACGAT
1 AAATTTATGCTAAAATTACTAGTGCTAAAAAGGC-TGTGAATTACGATCAAATGATGCAAACGAT
10291219 GTGGATCTATAAATA
65 GTGGATCTATAAATA
* ** *
10291234 AAATTTATGTTAAAATTGTTAGTGCTAAAAAGGCTGTGAATTACGATCAAATGATGCAAATGATG
1 AAATTTATGCTAAAATTACTAGTGCTAAAAAGGCTGTGAATTACGATCAAATGATGCAAACGATG
10291299 TGGATC
66 TGGATC
10291305 AGTGGACAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
79 60 0.97
80 2 0.03
ACGTcount: A:0.38, C:0.09, G:0.21, T:0.32
Consensus pattern (79 bp):
AAATTTATGCTAAAATTACTAGTGCTAAAAAGGCTGTGAATTACGATCAAATGATGCAAACGATG
TGGATCTATAAATA
Found at i:10291336 original size:79 final size:79
Alignment explanation
Indices: 10291155--10291338 Score: 194
Period size: 79 Copynumber: 2.3 Consensus size: 79
10291145 TCGATTGACG
* * * * *
10291155 AAATTTATGCTAAAATTA-CTAGTGCTGAGAA-GCTTGTGAGTTATGATCAAATGATGCAAACGA
1 AAATTTATGTTAAAA-TAGCTAGTGCTAAAAAGGC-TGTGAATTACGATCAAATGATGCAAACGA
*
10291218 TGTGGATCTATAAATA
64 TGTGGATCTATAAACA
* * *
10291234 AAATTTATGTTAAAATTGTTAGTGCTAAAAAGGCTGTGAATTACGATCAAATGATGCAAATGATG
1 AAATTTATGTTAAAATAGCTAGTGCTAAAAAGGCTGTGAATTACGATCAAATGATGCAAACGATG
**
10291299 TGGATC-AGTGGACA
66 TGGATCTA-TAAACA
* **
10291313 AAATTTATTTTAGGATAGCTAGTGCT
1 AAATTTATGTTAAAATAGCTAGTGCT
10291339 GAGTAGCTAA
Statistics
Matches: 86, Mismatches: 16, Indels: 6
0.80 0.15 0.06
Matches are distributed among these distances:
78 2 0.02
79 82 0.95
80 2 0.02
ACGTcount: A:0.37, C:0.09, G:0.21, T:0.33
Consensus pattern (79 bp):
AAATTTATGTTAAAATAGCTAGTGCTAAAAAGGCTGTGAATTACGATCAAATGATGCAAACGATG
TGGATCTATAAACA
Found at i:10293038 original size:11 final size:12
Alignment explanation
Indices: 10293015--10293040 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
10293005 TCGATGGTCG
10293015 AAAATCCTAAAA
1 AAAATCCTAAAA
10293027 AAAATCCTAAAA
1 AAAATCCTAAAA
10293039 AA
1 AA
10293041 TTCTCCTCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.15, G:0.00, T:0.15
Consensus pattern (12 bp):
AAAATCCTAAAA
Found at i:10294073 original size:50 final size:50
Alignment explanation
Indices: 10293869--10294106 Score: 189
Period size: 49 Copynumber: 4.8 Consensus size: 50
10293859 TTAAAATCTA
* *
10293869 AAAAAAGGCTCATCTCAGCAGAGG-TTCAATAACTTTAAAAATTTTATCTTG
1 AAAAAA-GCTCCTCTCAGCAGAGGCTT-AACAACTTTAAAAATTTTATCTTG
* * * * ** *
10293920 -AGAAAGCTCCTCTAAGTAGAGGCTCAACAACTTT-AAAATCATATATT-
1 AAAAAAGCTCCTCTCAGCAGAGGCTTAACAACTTTAAAAATTTTATCTTG
* ** * * * * *
10293967 AGAAAAAGCTCCTGTCAATAGAGGCTCAACGACTTT-CAAATTCTATTTTG
1 A-AAAAAGCTCCTCTCAGCAGAGGCTTAACAACTTTAAAAATTTTATCTTG
* * *
10294017 AAAAAAATCTCTTATCAGCAGAGGCTTAACAACTTTAAAAATTTTCATCTTG
1 -AAAAAAGCTCCTCTCAGCAGAGGCTTAACAACTTTAAAAATTTT-ATCTTG
* * *
10294069 AAAAAAGCTCCTCTTAGCAGAAGCTTAATAACTTTAAA
1 AAAAAAGCTCCTCTCAGCAGAGGCTTAACAACTTTAAA
10294107 TTAAACCATT
Statistics
Matches: 146, Mismatches: 34, Indels: 14
0.75 0.18 0.07
Matches are distributed among these distances:
48 10 0.07
49 60 0.41
50 32 0.22
51 39 0.27
52 5 0.03
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.30
Consensus pattern (50 bp):
AAAAAAGCTCCTCTCAGCAGAGGCTTAACAACTTTAAAAATTTTATCTTG
Found at i:10294332 original size:48 final size:49
Alignment explanation
Indices: 10294241--10294335 Score: 122
Period size: 48 Copynumber: 2.0 Consensus size: 49
10294231 GAGAAAATAT
* * *
10294241 AATTCAAGCTTTAATACTCGGATATCACCACCGAGGAAATGCAAATGCA
1 AATTCAAACTTTAATACTCAGATATCACCACCGAAGAAATGCAAATGCA
* *
10294290 AATTCAAACTTTAA-ACTCAGATTTCACCA-CTAAGAATATGCAAATG
1 AATTCAAACTTTAATACTCAGATATCACCACCGAAGAA-ATGCAAATG
10294336 ACTTACGATA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
47 5 0.12
48 22 0.55
49 13 0.32
ACGTcount: A:0.41, C:0.21, G:0.13, T:0.25
Consensus pattern (49 bp):
AATTCAAACTTTAATACTCAGATATCACCACCGAAGAAATGCAAATGCA
Found at i:10294549 original size:147 final size:147
Alignment explanation
Indices: 10294162--10294533 Score: 516
Period size: 147 Copynumber: 2.5 Consensus size: 147
10294152 AATAATCTTG
* * * * * *
10294162 GATATCACCACCGAGAATATGTAAATGACTTTGGATATTGTCACTGAAGGAAACACGAATATCAC
1 GATATCACCACTGAAAATATGCAAATGACTTCGGATATCGTCACTGAAGGAAACTCGAATATCAC
** * *
10294227 CATCGAGAAAATATAATTCAAGCTTTAATACTCGGATATCACCACCGAGGAAATGCAAATGCAAA
66 CATCGAGAAAATATAATTCAAGCTTTAATACTAAGATATCACCACTGAGAAAATGCAAATGCAAA
10294292 TTCAAACTTTAAACTCA
131 TTCAAACTTTAAACTCA
* * ** * *
10294309 GATTTCACCACT-AAGAATATGCAAATGACTTAC-GATATCATCACCAAAGGAAACTCAAATATG
1 GATATCACCACTGAA-AATATGCAAATGACTT-CGGATATCGTCACTGAAGGAAACTCGAATATC
* *
10294372 ACCATCGAGAAATTGTAATTCAAGCTTTAATACTAAGATATCACCACTGAGAAAATGCAAATGCA
64 ACCATCGAGAAAATATAATTCAAGCTTTAATACTAAGATATCACCACTGAGAAAATGCAAATGCA
10294437 AATTCAAACTTTAAACTC-
129 AATTCAAACTTTAAACTCA
* *
10294455 GAATATCACCACTGAAAATATGCAAATGACTTCGGATATCGCCACTGAAGAAAACTCGAATATCA
1 G-ATATCACCACTGAAAATATGCAAATGACTTCGGATATCGTCACTGAAGGAAACTCGAATATCA
10294520 CCATCGAGAAAATA
65 CCATCGAGAAAATA
10294534 CAAATGATTT
Statistics
Matches: 192, Mismatches: 28, Indels: 10
0.83 0.12 0.04
Matches are distributed among these distances:
146 3 0.02
147 187 0.97
148 2 0.01
ACGTcount: A:0.42, C:0.20, G:0.14, T:0.24
Consensus pattern (147 bp):
GATATCACCACTGAAAATATGCAAATGACTTCGGATATCGTCACTGAAGGAAACTCGAATATCAC
CATCGAGAAAATATAATTCAAGCTTTAATACTAAGATATCACCACTGAGAAAATGCAAATGCAAA
TTCAAACTTTAAACTCA
Found at i:10294560 original size:147 final size:147
Alignment explanation
Indices: 10294162--10294581 Score: 506
Period size: 147 Copynumber: 2.9 Consensus size: 147
10294152 AATAATCTTG
* * * * * *
10294162 GATATCACCACCGAGAATATGTAAATGACTTTGGATATTGTCACTGAAGGAAACACGAATATCAC
1 GATATCACCACTGAAAATATGCAAATGACTTCGGATATCGTCACTGAAGGAAACTCGAATATCAC
** * *
10294227 CATCGAGAAAATATAATTCAAGCTTTAATACTCGGATATCACCACCGAGGAAATGCAAATGCAAA
66 CATCGAGAAAATATAATTCAAGCTTTAATACTCAAATATCACCACTGAGAAAATGCAAATGCAAA
10294292 TTCAAACTTTAAACTCA
131 TTCAAACTTTAAACTCA
* * ** * *
10294309 GATTTCACCACT-AAGAATATGCAAATGACTTAC-GATATCATCACCAAAGGAAACTCAAATATG
1 GATATCACCACTGAA-AATATGCAAATGACTT-CGGATATCGTCACTGAAGGAAACTCGAATATC
* *
10294372 ACCATCGAGAAATTGTAATTCAAGCTTTAATACT-AAGATATCACCACTGAGAAAATGCAAATGC
64 ACCATCGAGAAAATATAATTCAAGCTTTAATACTCAA-ATATCACCACTGAGAAAATGCAAATGC
10294436 AAATTCAAACTTTAAACTC-
128 AAATTCAAACTTTAAACTCA
* *
10294455 GAATATCACCACTGAAAATATGCAAATGACTTCGGATATCGCCACTGAAGAAAACTCGAATATCA
1 G-ATATCACCACTGAAAATATGCAAATGACTTCGGATATCGTCACTGAAGGAAACTCGAATATCA
* * * *** * * * *
10294520 CCATCGAGAAAATACAAATGATTTTTTAATGCTCAAATATCATCACTGAGAATATACAAATG
65 CCATCGAGAAAATATAATTCAAGCTTTAATACTCAAATATCACCACTGAGAAAATGCAAATG
10294582 ACTTTGGATA
Statistics
Matches: 228, Mismatches: 38, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
146 3 0.01
147 221 0.97
148 4 0.02
ACGTcount: A:0.42, C:0.20, G:0.13, T:0.25
Consensus pattern (147 bp):
GATATCACCACTGAAAATATGCAAATGACTTCGGATATCGTCACTGAAGGAAACTCGAATATCAC
CATCGAGAAAATATAATTCAAGCTTTAATACTCAAATATCACCACTGAGAAAATGCAAATGCAAA
TTCAAACTTTAAACTCA
Found at i:10294669 original size:99 final size:99
Alignment explanation
Indices: 10294452--10294670 Score: 305
Period size: 99 Copynumber: 2.2 Consensus size: 99
10294442 AAACTTTAAA
* * * * * *
10294452 CTCGAATATCACCACTGAAAATATGCAAATGACTTCGGATATCGCCACTGAAGAAAACTCGAATA
1 CTCGAATATCACTACTGAGAATATACAAATGACTTCGGATATCACCACCGAAGAAAACTCAAATA
10294517 TCACCATCGAGAAAATACAAATGATTTTTTAATG
66 TCACCATCGAGAAAATACAAATGATTTTTTAATG
* * * *
10294551 CTCAAATATCA-TCACTGAGAATATACAAATGACTTTGGATATCACCACCGTAGGAAACTCAAAT
1 CTCGAATATCACT-ACTGAGAATATACAAATGACTTCGGATATCACCACCGAAGAAAACTCAAAT
*
10294615 ATCACCATCGAGAAAATGCAAATGATTTTTTAATG
65 ATCACCATCGAGAAAATACAAATGATTTTTTAATG
* *
10294650 CTCGGATATCACTAATGAGAA
1 CTCGAATATCACTACTGAGAA
10294671 AATGTAATTC
Statistics
Matches: 104, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
99 103 0.99
100 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.26
Consensus pattern (99 bp):
CTCGAATATCACTACTGAGAATATACAAATGACTTCGGATATCACCACCGAAGAAAACTCAAATA
TCACCATCGAGAAAATACAAATGATTTTTTAATG
Found at i:10294756 original size:41 final size:42
Alignment explanation
Indices: 10294667--10294802 Score: 175
Period size: 42 Copynumber: 3.3 Consensus size: 42
10294657 ATCACTAATG
* * ** *
10294667 AGAAAATGTAATTCAAACCTCGACATTTAGATATCACCACTA
1 AGAAAATGTAATTCAAACCTTGACACTCGGATATCACCACCA
*
10294709 AGAAAATGTAATTCAAACCTTGACACTCGGA-ATCACCACCG
1 AGAAAATGTAATTCAAACCTTGACACTCGGATATCACCACCA
* * *
10294750 AGAAAATGCAATTCAAACCTTAACACTCGGATATCACCATCA
1 AGAAAATGTAATTCAAACCTTGACACTCGGATATCACCACCA
*
10294792 AGAATATGTAA
1 AGAAAATGTAA
10294803 ATTATTTCAG
Statistics
Matches: 81, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
41 37 0.46
42 44 0.54
ACGTcount: A:0.43, C:0.23, G:0.12, T:0.23
Consensus pattern (42 bp):
AGAAAATGTAATTCAAACCTTGACACTCGGATATCACCACCA
Found at i:10294924 original size:42 final size:42
Alignment explanation
Indices: 10294873--10295026 Score: 193
Period size: 42 Copynumber: 3.7 Consensus size: 42
10294863 TTTTTTAATG
*
10294873 CTCAAATATCACCACCGAGAAAATGTAATTCAAACCTTGACA
1 CTCAGATATCACCACCGAGAAAATGTAATTCAAACCTTGACA
* *
10294915 CTCAGATATCACCACTGA-AAAGATGCAATTCAAACCTTGACA
1 CTCAGATATCACCACCGAGAAA-ATGTAATTCAAACCTTGACA
* * * * *
10294957 CTCAGATATCACAACCGAGAAGATATAATTCAAGCCTTAACA
1 CTCAGATATCACCACCGAGAAAATGTAATTCAAACCTTGACA
** *
10294999 CTTGGACATCACCACCGAGAAAATGTAA
1 CTCAGATATCACCACCGAGAAAATGTAA
10295027 ACGATTTTTT
Statistics
Matches: 94, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
41 3 0.03
42 89 0.95
43 2 0.02
ACGTcount: A:0.42, C:0.25, G:0.12, T:0.21
Consensus pattern (42 bp):
CTCAGATATCACCACCGAGAAAATGTAATTCAAACCTTGACA
Found at i:10294926 original size:223 final size:225
Alignment explanation
Indices: 10294588--10295027 Score: 589
Period size: 223 Copynumber: 2.0 Consensus size: 225
10294578 AATGACTTTG
* * * * * *
10294588 GATATCACCACCGTAGGAAACTCAAATATCACCATCGAGAAAATGCAAATGATTTTTTAATGCTC
1 GATATCACCAACGAAAGAAACTCAAATATCACCATCAAAAAAATGCAAATAATTTTTTAATGCTC
** * * * *
10294653 GGATATCACTAATGAGAAAATGTAATTCAAACCTCGACATTTAGATATCACCACT-AAGAAAATG
66 AAATATCACCAACGAGAAAATGTAATTCAAACCTCGACACTCAGATATCACCACTGAA-AAAATG
* * * *
10294717 TAATTCAAACCTTGACACTCGGA-ATCACCACCGAGAAAATGCAATTCAAACCTTAACACTCGGA
130 CAATTCAAACCTTGACACTCAGATATCACAACCGAGAAAATACAATTCAAACCTTAACACTCGGA
* * *
10294781 TATCACCATCAAGAATATGTAAATTATTTCA
195 CATCACCACCAAGAAAATGTAAATTATTTCA
* *
10294812 GATATCACCAACGAAAGAAACTCGAATATCACCAT-AAAAAAATGTAAATAATTTTTTAATGCTC
1 GATATCACCAACGAAAGAAACTCAAATATCACCATCAAAAAAATGCAAATAATTTTTTAATGCTC
* * *
10294876 AAATATCACCACCGAGAAAATGTAATTCAAACCTTGACACTCAGATATCACCACTGAAAAGATGC
66 AAATATCACCAACGAGAAAATGTAATTCAAACCTCGACACTCAGATATCACCACTGAAAAAATGC
* * * *
10294941 AATTCAAACCTTGACACTCAGATATCACAACCGAGAAGATATAATTCAAGCCTTAACACTTGGAC
131 AATTCAAACCTTGACACTCAGATATCACAACCGAGAAAATACAATTCAAACCTTAACACTCGGAC
*
10295006 ATCACCACCGAGAAAATGTAAA
196 ATCACCACCAAGAAAATGTAAA
10295028 CGATTTTTTA
Statistics
Matches: 185, Mismatches: 29, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
223 98 0.53
224 87 0.47
ACGTcount: A:0.42, C:0.22, G:0.12, T:0.24
Consensus pattern (225 bp):
GATATCACCAACGAAAGAAACTCAAATATCACCATCAAAAAAATGCAAATAATTTTTTAATGCTC
AAATATCACCAACGAGAAAATGTAATTCAAACCTCGACACTCAGATATCACCACTGAAAAAATGC
AATTCAAACCTTGACACTCAGATATCACAACCGAGAAAATACAATTCAAACCTTAACACTCGGAC
ATCACCACCAAGAAAATGTAAATTATTTCA
Found at i:10295050 original size:84 final size:83
Alignment explanation
Indices: 10294849--10295052 Score: 196
Period size: 84 Copynumber: 2.4 Consensus size: 83
10294839 ATCACCATAA
* * * *
10294849 AAAAATGTAAATAATTTTTTAATGCTCAAATATCACCACCGAGAAAATGTAATTCAAACCTTGAC
1 AAAAATGTAAACAATTTTTTAATGCTCAAATATCACAACCGAGAAAATATAATTCAAACCTTAAC
* *
10294914 ACTCAGATATCACCACTG
66 ACTCAGACATCACCACCG
* * *** * * * *
10294932 AAAAGATGCAATTCAAACCTTGACA--CTCAGATATCACAACCGAGAAGATATAATTCAAGCCTT
1 AAAA-ATGTAA-ACAATTTTTTA-ATGCTCAAATATCACAACCGAGAAAATATAATTCAAACCTT
**
10294995 AACACTTGGACATCACCACCG
63 AACACTCAGACATCACCACCG
*
10295016 AGAAAATGTAAACGATTTTTTAATGCTCAAATATCAC
1 A-AAAATGTAAACAATTTTTTAATGCTCAAATATCAC
10295053 TACCAAAAAA
Statistics
Matches: 90, Mismatches: 25, Indels: 11
0.71 0.20 0.09
Matches are distributed among these distances:
82 1 0.01
83 9 0.10
84 71 0.79
85 8 0.09
86 1 0.01
ACGTcount: A:0.42, C:0.22, G:0.11, T:0.25
Consensus pattern (83 bp):
AAAAATGTAAACAATTTTTTAATGCTCAAATATCACAACCGAGAAAATATAATTCAAACCTTAAC
ACTCAGACATCACCACCG
Found at i:10295470 original size:35 final size:35
Alignment explanation
Indices: 10295389--10295519 Score: 165
Period size: 35 Copynumber: 3.7 Consensus size: 35
10295379 CACCATTATG
*
10295389 ATGCAAATGTCTTTTCTTAAAATGATGATGCAAATGAA
1 ATGCAAATGTCTTTTCTTAAAATGATG-T--ACATGAA
* * *
10295427 ATGTAAATGTTTTTTCTTAAAATGATGCT-CATGAG
1 ATGCAAATGTCTTTTCTTAAAATGATG-TACATGAA
*
10295462 ATGCAAATGTCTTTTCTTAAAAAGATGTACATGAA
1 ATGCAAATGTCTTTTCTTAAAATGATGTACATGAA
*
10295497 ATGCAAATGTCTTTTCTAAAAAT
1 ATGCAAATGTCTTTTCTTAAAAT
10295520 ACTAATGCAT
Statistics
Matches: 81, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
34 1 0.01
35 54 0.67
38 26 0.32
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (35 bp):
ATGCAAATGTCTTTTCTTAAAATGATGTACATGAA
Found at i:10301569 original size:23 final size:21
Alignment explanation
Indices: 10301507--10301571 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 21
10301497 TAATGCACAC
10301507 ATTTTATT-TTTTATTTAAAA
1 ATTTTATTATTTTATTTAAAA
* *
10301527 ATTTTATTAATTTTAATTAATA
1 ATTTTATT-ATTTTATTTAAAA
*
10301549 CTTATTATTATTTTCATTTAAAA
1 ATT-TTATTATTTT-ATTTAAAA
10301572 GAATTAAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
20 8 0.22
22 17 0.47
23 11 0.31
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTATTATTTTATTTAAAA
Found at i:10303137 original size:16 final size:15
Alignment explanation
Indices: 10303112--10303168 Score: 53
Period size: 16 Copynumber: 3.7 Consensus size: 15
10303102 CATCCCCGAC
*
10303112 TTTGTTTTTTTCTTT
1 TTTGTATTTTTCTTT
*
10303127 TCTTGTATTTTT-TTG
1 T-TTGTATTTTTCTTT
*
10303142 TTTGTCTTCTTTCTTT
1 TTTGTATT-TTTCTTT
*
10303158 TTTGTGTTTTT
1 TTTGTATTTTT
10303169 TTTGTATTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
14 6 0.18
15 10 0.29
16 18 0.53
ACGTcount: A:0.02, C:0.09, G:0.11, T:0.79
Consensus pattern (15 bp):
TTTGTATTTTTCTTT
Found at i:10303173 original size:31 final size:30
Alignment explanation
Indices: 10303112--10303170 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
10303102 CATCCCCGAC
*
10303112 TTTGTTTTTTTCTTTTCTTGTATTTTTTTG
1 TTTGTTTCTTTCTTTTCTTGTATTTTTTTG
*
10303142 TTTGTCTTCTTTCTTTT-TTGTGTTTTTTT
1 TTTGT-TTCTTTCTTTTCTTGTATTTTTTT
10303171 TGTATTATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 16 0.62
31 10 0.38
ACGTcount: A:0.02, C:0.08, G:0.10, T:0.80
Consensus pattern (30 bp):
TTTGTTTCTTTCTTTTCTTGTATTTTTTTG
Found at i:10303312 original size:19 final size:20
Alignment explanation
Indices: 10303276--10303313 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
10303266 CATCTATTTG
10303276 CATTAAATGCATTATGTTTA
1 CATTAAATGCATTATGTTTA
*
10303296 CATTACATGCA-TATGTTT
1 CATTAAATGCATTATGTTT
10303314 GCATCATCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.45
Consensus pattern (20 bp):
CATTAAATGCATTATGTTTA
Found at i:10303617 original size:21 final size:21
Alignment explanation
Indices: 10303569--10303699 Score: 163
Period size: 21 Copynumber: 6.1 Consensus size: 21
10303559 GATAAAGTTA
* *
10303569 TGAGTTTTCAAATAAGAATCTT
1 TGAGTTTT-GAATGAGAATCTT
* *
10303591 TAAGTTTTGAATGAGAATATT
1 TGAGTTTTGAATGAGAATCTT
* *
10303612 TGAGTTTTCAATGAGAATTTT
1 TGAGTTTTGAATGAGAATCTT
*
10303633 TGAGTTTTGAATGATAATCTT
1 TGAGTTTTGAATGAGAATCTT
*
10303654 TGAGTTTTGAATGGGAATCTT
1 TGAGTTTTGAATGAGAATCTT
*
10303675 TGAGTTTTCAAATGAGAATCTT
1 TGAGTTTT-GAATGAGAATCTT
10303697 TGA
1 TGA
10303700 AATGTAAAAC
Statistics
Matches: 94, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
21 73 0.78
22 21 0.22
ACGTcount: A:0.31, C:0.05, G:0.20, T:0.44
Consensus pattern (21 bp):
TGAGTTTTGAATGAGAATCTT
Found at i:10303831 original size:43 final size:42
Alignment explanation
Indices: 10303765--10303845 Score: 110
Period size: 41 Copynumber: 1.9 Consensus size: 42
10303755 TGAACTCTTG
*
10303765 GATGCGAATCTCTAAATTTTTGAATGAGAA-CTTTGAACTTA
1 GATGCGAAACTCTAAATTTTTGAATGAGAATCTTTGAACTTA
* *
10303806 GATGTGAAACTCTAAGATTTATTGAATGTGAATCTTTGAA
1 GATGCGAAACTCTAA-ATTT-TTGAATGAGAATCTTTGAA
10303846 TTCAAATGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
41 13 0.38
42 4 0.12
43 10 0.29
44 7 0.21
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.37
Consensus pattern (42 bp):
GATGCGAAACTCTAAATTTTTGAATGAGAATCTTTGAACTTA
Found at i:10304164 original size:16 final size:16
Alignment explanation
Indices: 10304145--10304196 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
10304135 AAAATCTTGC
10304145 GAATCTGAAATTTTGT
1 GAATCTGAAATTTTGT
10304161 GAATC--AAATTCTTGT
1 GAATCTGAAATT-TTGT
* *
10304176 GAAACTGAAATTTTGA
1 GAATCTGAAATTTTGT
10304192 GAATC
1 GAATC
10304197 ACTTGCAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
14 5 0.17
15 8 0.27
16 12 0.40
17 5 0.17
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (16 bp):
GAATCTGAAATTTTGT
Found at i:10304184 original size:31 final size:31
Alignment explanation
Indices: 10304139--10304197 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
10304129 AGATGAAAAA
* *
10304139 TCTTGCGAATCTGAAATTTTGTGAATCAAAT
1 TCTTGCGAAACTGAAATTTTGAGAATCAAAT
*
10304170 TCTTGTGAAACTGAAATTTTGAGAATCA
1 TCTTGCGAAACTGAAATTTTGAGAATCA
10304198 CTTGCAAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (31 bp):
TCTTGCGAAACTGAAATTTTGAGAATCAAAT
Found at i:10304497 original size:13 final size:13
Alignment explanation
Indices: 10304479--10304514 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
10304469 AGCACCACTG
10304479 CCACCATACCCTA
1 CCACCATACCCTA
*
10304492 CCACCATATCCTA
1 CCACCATACCCTA
10304505 CCACCATACC
1 CCACCATACC
10304515 TCACTATTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.31, C:0.53, G:0.00, T:0.17
Consensus pattern (13 bp):
CCACCATACCCTA
Found at i:10306105 original size:15 final size:16
Alignment explanation
Indices: 10306044--10306236 Score: 112
Period size: 16 Copynumber: 12.1 Consensus size: 16
10306034 ACCTTTAAGT
* *
10306044 CCTAAAATCCGAAACT
1 CCTAAAATCCAAAACC
*
10306060 CCTAAAAATCCAAAAATC
1 CCT-AAAATCC-AAAACC
* *
10306078 TCTTAAATCC-AAACC
1 CCTAAAATCCAAAACC
*
10306093 CCTAAAATTCAAAACC
1 CCTAAAATCCAAAACC
*
10306109 CTTAAAATCCAAAACC
1 CCTAAAATCCAAAACC
*** *
10306125 CCTAAAATTTGAAATC
1 CCTAAAATCCAAAACC
* *
10306141 CC--AAA-CCTTTAAA-T
1 CCTAAAATCC--AAAACC
* *
10306155 CCTAAAATCCGAAATC
1 CCTAAAATCCAAAACC
*
10306171 CCTAAAAATCCAAAATC
1 CCT-AAAATCCAAAACC
*
10306188 CCTACAAATCCAAAATC
1 CCTA-AAATCCAAAACC
* *
10306205 CCTTAAATCCAAACCC
1 CCTAAAATCCAAAACC
10306221 CCT-AAAT-CAAAACC
1 CCTAAAATCCAAAACC
10306235 CC
1 CC
10306237 AAACCTCAAA
Statistics
Matches: 139, Mismatches: 27, Indels: 24
0.73 0.14 0.13
Matches are distributed among these distances:
14 13 0.09
15 21 0.15
16 55 0.40
17 45 0.32
18 5 0.04
ACGTcount: A:0.46, C:0.32, G:0.02, T:0.20
Consensus pattern (16 bp):
CCTAAAATCCAAAACC
Found at i:10306106 original size:32 final size:32
Alignment explanation
Indices: 10306046--10306235 Score: 103
Period size: 33 Copynumber: 6.0 Consensus size: 32
10306036 CTTTAAGTCC
* * * *
10306046 TAAAATCCGAAACTCCTAAAAATCCAAAAATCTCT
1 TAAAATCCAAAACCCCT-AAAATTC-AAAA-CCCT
10306081 T-AAATCC-AAACCCCTAAAATTCAAAACCCT
1 TAAAATCCAAAACCCCTAAAATTCAAAACCCT
* *
10306111 TAAAATCCAAAACCCCTAAAATTTGAAATCCC-
1 TAAAATCCAAAACCCCTAAAA-TTCAAAACCCT
* * * *
10306143 --AAA-CCTTTAAA-TCCTAAAATCCGAAATCCCT
1 TAAAATCC--AAAACCCCTAAAATTC-AAAACCCT
* * *
10306174 AAAAATCCAAAATCCCTACAAATCCAAAATCCCT
1 TAAAATCCAAAACCCCTA-AAATTCAAAA-CCCT
*
10306208 T-AAATCCAAACCCCCT-AAA-TCAAAACCC
1 TAAAATCCAAAACCCCTAAAATTCAAAACCC
10306236 CAAACCTCAA
Statistics
Matches: 126, Mismatches: 16, Indels: 32
0.72 0.09 0.18
Matches are distributed among these distances:
29 6 0.05
30 26 0.21
31 16 0.13
32 21 0.17
33 38 0.30
34 18 0.14
35 1 0.01
ACGTcount: A:0.47, C:0.31, G:0.02, T:0.21
Consensus pattern (32 bp):
TAAAATCCAAAACCCCTAAAATTCAAAACCCT
Found at i:10306176 original size:16 final size:16
Alignment explanation
Indices: 10306151--10306217 Score: 91
Period size: 17 Copynumber: 4.1 Consensus size: 16
10306141 CCAAACCTTT
*
10306151 AAAT-CCTAAAATCCG
1 AAATCCCTAAAATCCA
10306166 AAATCCCTAAAAATCCA
1 AAATCCCT-AAAATCCA
10306183 AAATCCCTACAAATCCA
1 AAATCCCTA-AAATCCA
*
10306200 AAATCCCTTAAATCCA
1 AAATCCCTAAAATCCA
10306216 AA
1 AA
10306218 CCCCCTAAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
15 4 0.09
16 13 0.28
17 30 0.64
ACGTcount: A:0.49, C:0.30, G:0.01, T:0.19
Consensus pattern (16 bp):
AAATCCCTAAAATCCA
Found at i:10306197 original size:111 final size:113
Alignment explanation
Indices: 10305991--10306239 Score: 339
Period size: 111 Copynumber: 2.2 Consensus size: 113
10305981 TAGGTTTCTG
*
10305991 AAACCCCTAAAATCCAAAACCCCCAAAAAATCTGAAATCCCAAACCTTTAAGTCCTAAAATCCGA
1 AAACCCCTAAAATCCAAAA-CCCCAAAAAATCTGAAATCCCAAACCTTTAAATCCTAAAATCCGA
* * *
10306056 AACTCCTAAAAATCCAAAAATCTCTTAAATCC-AAACCCCTAAAATTCA
65 AACTCCTAAAAATCCAAAAATCCCTCAAATCCAAAACCCCTAAAATCCA
* * *
10306104 AAACCCTTAAAATCCAAAACCCC-TAAAATTTGAAATCCCAAACCTTTAAATCCTAAAATCCGAA
1 AAACCCCTAAAATCCAAAACCCCAAAAAATCTGAAATCCCAAACCTTTAAATCCTAAAATCCGAA
* *
10306168 A-TCCCTAAAAATCC-AAAATCCCTACAAATCCAAAATCCCTTAAATCCA
66 ACT-CCTAAAAATCCAAAAATCCCT-CAAATCCAAAACCCCTAAAATCCA
*
10306216 AACCCCCT-AAAT-CAAAACCCCAAA
1 AAACCCCTAAAATCCAAAACCCCAAA
10306240 CCTCAAATTT
Statistics
Matches: 120, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
110 18 0.15
111 61 0.51
112 23 0.19
113 18 0.15
ACGTcount: A:0.47, C:0.32, G:0.02, T:0.19
Consensus pattern (113 bp):
AAACCCCTAAAATCCAAAACCCCAAAAAATCTGAAATCCCAAACCTTTAAATCCTAAAATCCGAA
ACTCCTAAAAATCCAAAAATCCCTCAAATCCAAAACCCCTAAAATCCA
Found at i:10306223 original size:16 final size:15
Alignment explanation
Indices: 10306193--10306236 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
10306183 AAATCCCTAC
* *
10306193 AAATCCAAAATCCCTT
1 AAATCC-AAACCCCCT
10306209 AAATCCAAACCCCCT
1 AAATCCAAACCCCCT
*
10306224 AAATCAAAACCCC
1 AAATCCAAACCCC
10306237 AAACCTCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
15 19 0.76
16 6 0.24
ACGTcount: A:0.45, C:0.39, G:0.00, T:0.16
Consensus pattern (15 bp):
AAATCCAAACCCCCT
Found at i:10306284 original size:30 final size:28
Alignment explanation
Indices: 10306224--10306298 Score: 96
Period size: 30 Copynumber: 2.6 Consensus size: 28
10306214 CAAACCCCCT
* * *
10306224 AAATCAAAACCCCAAACCTCAAATTTTA
1 AAATCAAAACCCTAAACCTCAAACTCTA
*
10306252 AAATCGAAACCCTAAACTCTTCAAACTCTA
1 AAATCAAAACCCTAAAC-C-TCAAACTCTA
10306282 AAATCAAAACCCTAAAC
1 AAATCAAAACCCTAAAC
10306299 ATTTCATACC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 15 0.38
29 1 0.03
30 24 0.60
ACGTcount: A:0.49, C:0.29, G:0.01, T:0.20
Consensus pattern (28 bp):
AAATCAAAACCCTAAACCTCAAACTCTA
Found at i:10308361 original size:201 final size:203
Alignment explanation
Indices: 10308004--10308371 Score: 442
Period size: 201 Copynumber: 1.8 Consensus size: 203
10307994 ATTATTATTA
* * * *
10308004 TTATTGTTTTATTGAAGAAAAGAGAAAATTTTATTATATTGAAGATTTTTATAAATATTCCAATA
1 TTATTGTTTTATTGAAGAAAAAAGAAAATTTTATTATATTAAAAATTTTTATAAATACTCCAATA
** * * * * *
10308069 TGCTGGTAATATTTAAGAAAAATCTTCTCACCTAGAGATGTCGTAAAGCATTACTATTCGGAATA
66 CACTGGTAATATTTAAGAAAAATCTTCTCACCTAGAAATGTCATAAAGCATCACTACTCAGAATA
*
10308134 CTTTTAGAATCTTATCCTCAAATAAAATTTTTTTTTCATTTTTTTATCGCTTTATTTAATTTATT
131 CTTTTAGAATCTTATCCTCAAATAAAAATTTTTTTTCATTTTTTTATCGCTTTATTTAATTTATT
10308199 AGTTAATT
196 AGTTAATT
* *
10308207 TTATT-TTTTATT-AATAAAAAAGAAAATTTTTTATTGTATTAAAAACTTTTTATAAATACTCCA
1 TTATTGTTTTATTGAAGAAAAAAGAAAA--TTTTATTATATTAAAAA-TTTTTATAAATACTCCA
* * * * * *
10308270 ATACACTGGTAGTATTTAA-AAAAATTTTCTC-GCTCAGAAATTTCAT-AGGTATCACTACTCAG
63 ATACACTGGTAATATTTAAGAAAAATCTTCTCACCT-AGAAATGTCATAAAGCATCACTACTCAG
* ** *
10308332 AGTACTTTT-GAATCTTATTGTCGAATAAAAATTTTTTTTC
127 AATACTTTTAGAATCTTATCCTCAAATAAAAATTTTTTTTC
10308372 TTACATTTTA
Statistics
Matches: 137, Mismatches: 24, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
201 39 0.28
202 28 0.20
203 38 0.28
204 32 0.23
ACGTcount: A:0.36, C:0.11, G:0.10, T:0.44
Consensus pattern (203 bp):
TTATTGTTTTATTGAAGAAAAAAGAAAATTTTATTATATTAAAAATTTTTATAAATACTCCAATA
CACTGGTAATATTTAAGAAAAATCTTCTCACCTAGAAATGTCATAAAGCATCACTACTCAGAATA
CTTTTAGAATCTTATCCTCAAATAAAAATTTTTTTTCATTTTTTTATCGCTTTATTTAATTTATT
AGTTAATT
Found at i:10308615 original size:24 final size:24
Alignment explanation
Indices: 10308579--10308637 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
10308569 AAATAATCAT
10308579 AAATTAAATAATAGAAATATATAAAA
1 AAATT-AA-AATAGAAATATATAAAA
* *
10308605 AAATTAAAATATATATATATAAAA
1 AAATTAAAATAGAAATATATAAAA
*
10308629 AAATAAAAA
1 AAATTAAAA
10308638 GTTACTATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
24 23 0.77
25 2 0.07
26 5 0.17
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (24 bp):
AAATTAAAATAGAAATATATAAAA
Found at i:10309966 original size:44 final size:45
Alignment explanation
Indices: 10309835--10310036 Score: 180
Period size: 45 Copynumber: 4.6 Consensus size: 45
10309825 GTTTAGATCT
* * * * **
10309835 TTATTTATTTTTTCTAAAATCGTTACGCCTCTAATTAAAGGAGTT
1 TTATTTATTTTTTCTAAAGTCGTTAAGCCTCTACTTAGAGGAGCC
* * * * * *
10309880 TTATTTATTTTTT-TCAAAGTTGTTAAACATTTGCTTATAGGAGCC
1 TTATTTATTTTTTCT-AAAGTCGTTAAGCCTCTACTTAGAGGAGCC
* *
10309925 TTATTTATTTTTTC-AAAGTTGTTGAGCCTCTACTTAGAGGAGCC
1 TTATTTATTTTTTCTAAAGTCGTTAAGCCTCTACTTAGAGGAGCC
* * * * * *
10309969 TTA-TT-TTTTTTCTAAAGTCATTAAGCCTATGCCTAAATGAGCC
1 TTATTTATTTTTTCTAAAGTCGTTAAGCCTCTACTTAGAGGAGCC
10310012 TTATTTATTTTTTC-AAAGTCGTTAA
1 TTATTTATTTTTTCTAAAGTCGTTAA
10310037 ACCTTTGTTT
Statistics
Matches: 126, Mismatches: 26, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
42 7 0.06
43 27 0.21
44 40 0.32
45 52 0.41
ACGTcount: A:0.27, C:0.14, G:0.13, T:0.47
Consensus pattern (45 bp):
TTATTTATTTTTTCTAAAGTCGTTAAGCCTCTACTTAGAGGAGCC
Found at i:10310060 original size:44 final size:44
Alignment explanation
Indices: 10309835--10310071 Score: 192
Period size: 44 Copynumber: 5.4 Consensus size: 44
10309825 GTTTAGATCT
* * ** **
10309835 TTATTTATTTTTTCTAAAATCGTTACGCCTCTAATTAAAGGAGTT
1 TTATTTATTTTTTC-AAAGTCGTTAAGCCTCTGCTTAAAGGAGCC
* * * * *
10309880 TTATTTATTTTTTTCAAAGTTGTTAAACATTTGCTTATAGGAGCC
1 TTATTTA-TTTTTTCAAAGTCGTTAAGCCTCTGCTTAAAGGAGCC
* * * *
10309925 TTATTTATTTTTTCAAAGTTGTTGAGCCTCTACTTAGAGGAGCC
1 TTATTTATTTTTTCAAAGTCGTTAAGCCTCTGCTTAAAGGAGCC
* * * *
10309969 TTA-TT-TTTTTTCTAAAGTCATTAAGCCTATGCCTAAATGAGCC
1 TTATTTATTTTTTC-AAAGTCGTTAAGCCTCTGCTTAAAGGAGCC
* * * * **
10310012 TTATTTATTTTTTCAAAGTCGTTAAACCTTTGTTTAGAGGAGTT
1 TTATTTATTTTTTCAAAGTCGTTAAGCCTCTGCTTAAAGGAGCC
*
10310056 TTATTTA-ATTTTCAAA
1 TTATTTATTTTTTCAAA
10310072 AGTTATGGAG
Statistics
Matches: 153, Mismatches: 35, Indels: 10
0.77 0.18 0.05
Matches are distributed among these distances:
42 7 0.05
43 35 0.23
44 64 0.42
45 40 0.26
46 7 0.05
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.47
Consensus pattern (44 bp):
TTATTTATTTTTTCAAAGTCGTTAAGCCTCTGCTTAAAGGAGCC
Found at i:10310113 original size:131 final size:132
Alignment explanation
Indices: 10309880--10310119 Score: 310
Period size: 131 Copynumber: 1.8 Consensus size: 132
10309870 TAAAGGAGTT
* * *
10309880 TTATTTATTTTTTTCAAAGTTGTTAAACATTTGCTTATAGGAGCCTTATTTATTTTTTCAAAGTT
1 TTATTTATTTTTTTCAAAGTCGTTAAACATTTGCTTAGAGGAGCCTTATTTATATTTTCAAAGTT
* * *
10309945 GTTGAGCCTCTACTTAGAGGAGCCTTATTTTTTTTCTA-AAGTCATTAAGCCTATGCCTAAATGA
66 ATGGAGCCTCCACTTAGAGGAG-CTTATTTTTTTTCTAGAAGTCATTAAGCCTATGCCTAAATGA
10310009 GCC
130 GCC
* * **
10310012 TTATTTA-TTTTTTCAAAGTCGTTAAACCTTTGTTTAGAGGAGTTTTATTTA-ATTTTCAAAAGT
1 TTATTTATTTTTTTCAAAGTCGTTAAACATTTGCTTAGAGGAGCCTTATTTATATTTTC-AAAGT
10310075 TATGGAGCCTCCACTTAGAGGAG-TT-TTTATATTATTCTAGAAGTC
65 TATGGAGCCTCCACTTAGAGGAGCTTATTT-T-TT-TTCTAGAAGTC
10310120 TAAGTATGCT
Statistics
Matches: 93, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
128 3 0.03
129 3 0.03
130 7 0.08
131 68 0.73
132 12 0.13
ACGTcount: A:0.27, C:0.13, G:0.15, T:0.45
Consensus pattern (132 bp):
TTATTTATTTTTTTCAAAGTCGTTAAACATTTGCTTAGAGGAGCCTTATTTATATTTTCAAAGTT
ATGGAGCCTCCACTTAGAGGAGCTTATTTTTTTTCTAGAAGTCATTAAGCCTATGCCTAAATGAG
CC
Found at i:10310298 original size:17 final size:17
Alignment explanation
Indices: 10310276--10310309 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
10310266 TGATTCTGTT
*
10310276 TTAAAAAATAATAATAA
1 TTAAAAAATAAAAATAA
10310293 TTAAAAAATAAAAATAA
1 TTAAAAAATAAAAATAA
10310310 AATATGTGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
TTAAAAAATAAAAATAA
Found at i:10314178 original size:2 final size:2
Alignment explanation
Indices: 10314171--10314222 Score: 77
Period size: 2 Copynumber: 25.5 Consensus size: 2
10314161 CTGACTCCAT
* *
10314171 TA TA TA TA TA TA TA TA TA TA TG TA TG 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
10314213 TA TA TGA TA T
1 TA TA T-A TA T
10314223 CATAGGATTC
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
2 43 0.96
3 2 0.04
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10315703 original size:17 final size:16
Alignment explanation
Indices: 10315650--10315706 Score: 64
Period size: 15 Copynumber: 3.6 Consensus size: 16
10315640 TTTTTATTTT
10315650 TAAATTTAAATAATTA
1 TAAATTTAAATAATTA
*
10315666 -AAATTAAAAT-ATTA
1 TAAATTTAAATAATTA
*
10315680 TTTAATTTAAATTAATTA
1 -TAAATTTAAA-TAATTA
10315698 TAAATTTAA
1 TAAATTTAA
10315707 TTTTTATATA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
14 4 0.12
15 9 0.27
16 7 0.21
17 9 0.27
18 4 0.12
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TAAATTTAAATAATTA
Found at i:10317134 original size:22 final size:23
Alignment explanation
Indices: 10317109--10317155 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
10317099 TTTTATTTCC
* *
10317109 TTATTAATATTAAA-TTCATTAA
1 TTATTAAAATAAAATTTCATTAA
*
10317131 TTATTAAAATAAAATTTCCTTAA
1 TTATTAAAATAAAATTTCATTAA
10317154 TT
1 TT
10317156 GATGTTCTCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (23 bp):
TTATTAAAATAAAATTTCATTAA
Found at i:10320033 original size:23 final size:24
Alignment explanation
Indices: 10319992--10320036 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
10319982 TAAATCCTTT
*
10319992 CTTTTTGTTTTCTACATTTTTTTG
1 CTTTTTCTTTTCTACATTTTTTTG
*
10320016 CTTTTTCTTTTGTA-ATTTTTT
1 CTTTTTCTTTTCTACATTTTTT
10320037 GTTGACTTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.09, C:0.11, G:0.07, T:0.73
Consensus pattern (24 bp):
CTTTTTCTTTTCTACATTTTTTTG
Found at i:10321011 original size:22 final size:21
Alignment explanation
Indices: 10320985--10321025 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
10320975 CTACCTTTTT
*
10320985 AAAAAATATACATAAAAATATG
1 AAAAAAAATA-ATAAAAATATG
10321007 AAAAAAAATAATAAAAATA
1 AAAAAAAATAATAAAAATA
10321026 AGTAACGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (21 bp):
AAAAAAAATAATAAAAATATG
Found at i:10322918 original size:29 final size:30
Alignment explanation
Indices: 10322860--10322918 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
10322850 AATAAAAAAA
* ** *
10322860 TATAAAAATATTATTTTAAATTTAATATTT
1 TATAAAAATATTATTTGAAATAAAAAATTT
10322890 TATAAAAATA-TATTTGAAATAAAAAATTT
1 TATAAAAATATTATTTGAAATAAAAAATTT
10322919 GAGATAGTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (30 bp):
TATAAAAATATTATTTGAAATAAAAAATTT
Found at i:10326610 original size:19 final size:20
Alignment explanation
Indices: 10326576--10326635 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 20
10326566 CAGGGACATT
10326576 AATTTTAATGATATGAACCTG
1 AATTTTAAT-ATATGAACCTG
10326597 AATTTTAAATATGAAATGAACCTG
1 AATTTT-AATAT---ATGAACCTG
10326621 AATTTTAA-ATATGAA
1 AATTTTAATATATGAA
10326636 AGGAACTTCT
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
19 5 0.14
21 8 0.23
22 5 0.14
23 2 0.06
24 15 0.43
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.37
Consensus pattern (20 bp):
AATTTTAATATATGAACCTG
Found at i:10326615 original size:24 final size:24
Alignment explanation
Indices: 10326583--10326641 Score: 100
Period size: 24 Copynumber: 2.5 Consensus size: 24
10326573 ATTAATTTTA
*
10326583 ATGATATGAACCTGAATTTTAAAT
1 ATGAAATGAACCTGAATTTTAAAT
10326607 ATGAAATGAACCTGAATTTTAAAT
1 ATGAAATGAACCTGAATTTTAAAT
*
10326631 ATGAAAGGAAC
1 ATGAAATGAAC
10326642 TTCTAATTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (24 bp):
ATGAAATGAACCTGAATTTTAAAT
Found at i:10328481 original size:20 final size:20
Alignment explanation
Indices: 10328458--10328501 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
10328448 TTACATTGAT
10328458 AAATATATTTTGGATTTAAA
1 AAATATATTTTGGATTTAAA
10328478 AAATATATTTTGGATTTAAA
1 AAATATATTTTGGATTTAAA
10328498 AAAT
1 AAAT
10328502 TTAATAAGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (20 bp):
AAATATATTTTGGATTTAAA
Found at i:10332971 original size:17 final size:15
Alignment explanation
Indices: 10332949--10332993 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 15
10332939 ATTTTATTTA
10332949 AAAAAATAAAAAATTAC
1 AAAAAA-AAAAAA-TAC
10332966 AAAAAAGATAAAAATAC
1 AAAAAA-A-AAAAATAC
10332983 AAAAAAAAAAA
1 AAAAAAAAAAA
10332994 GAACTGGTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 4 0.15
16 1 0.04
17 16 0.62
18 5 0.19
ACGTcount: A:0.82, C:0.04, G:0.02, T:0.11
Consensus pattern (15 bp):
AAAAAAAAAAAATAC
Found at i:10333332 original size:26 final size:25
Alignment explanation
Indices: 10333289--10333339 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
10333279 GGGACCCTGC
*
10333289 AAAAAAAATGTTTCCAAAATAAAAT
1 AAAAAAAATGTTTCCAAAAAAAAAT
*
10333314 AAAAAAAATGTTTTGCAAAAAAAAAT
1 AAAAAAAATG-TTTCCAAAAAAAAAT
10333340 GGCATGCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.24
Consensus pattern (25 bp):
AAAAAAAATGTTTCCAAAAAAAAAT
Found at i:10334210 original size:9 final size:10
Alignment explanation
Indices: 10334178--10334212 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
10334168 TAAATCTTAT
*
10334178 AAAATAACACA
1 AAAATAAGA-A
10334189 AAAATAAGAA
1 AAAATAAGAA
10334199 AAAATAAGAA
1 AAAATAAGAA
10334209 AAAA
1 AAAA
10334213 AATTTTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 15 0.65
11 8 0.35
ACGTcount: A:0.80, C:0.06, G:0.06, T:0.09
Consensus pattern (10 bp):
AAAATAAGAA
Found at i:10349320 original size:21 final size:23
Alignment explanation
Indices: 10349270--10349325 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 23
10349260 TAAATTAAAA
*
10349270 AATAAAAATAATTTTTATACATT
1 AATAAATATAATTTTTATACATT
10349293 AAT-AATATAATTTTT-TA-ATT
1 AATAAATATAATTTTTATACATT
* *
10349313 TATAAATAAAATT
1 AATAAATATAATT
10349326 AAAAAACCGC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 5 0.17
21 10 0.34
22 11 0.38
23 3 0.10
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (23 bp):
AATAAATATAATTTTTATACATT
Found at i:10349656 original size:17 final size:19
Alignment explanation
Indices: 10349631--10349665 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
10349621 AGTGAAAGTA
10349631 TTGCATTAAAAAA-AATTT
1 TTGCATTAAAAAATAATTT
10349649 TTGC-TTAAAAAATAATT
1 TTGCATTAAAAAATAATT
10349666 CAACCATCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.40
Consensus pattern (19 bp):
TTGCATTAAAAAATAATTT
Found at i:10353225 original size:2 final size:2
Alignment explanation
Indices: 10353218--10353246 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
10353208 TGAATTACAA
10353218 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10353247 GAGAGAGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10356008 original size:42 final size:43
Alignment explanation
Indices: 10355949--10356215 Score: 278
Period size: 42 Copynumber: 6.3 Consensus size: 43
10355939 CATGATTGTC
* *
10355949 AAGGAGCATTTTATTTTTTCAAAGTTATGG-TGCCTCTATTTA
1 AAGGAGCAATTTATTTTTTCAAAGTTATGGTTGCCTCTGTTTA
**
10355991 AAGGAGCAATTTA-TTTTTCAAAGTCGTGGTTGCCTCTGTTTA
1 AAGGAGCAATTTATTTTTTCAAAGTTATGGTTGCCTCTGTTTA
* * * * * *
10356033 GAGGAGCAATTTATTTTTT-GAAGTCATGGTTACCTTTGCTTA
1 AAGGAGCAATTTATTTTTTCAAAGTTATGGTTGCCTCTGTTTA
* * *
10356075 AAGGAGCAATTTATTTTTTCTAAGTTGTGG-TGCCTCTATTTA
1 AAGGAGCAATTTATTTTTTCAAAGTTATGGTTGCCTCTGTTTA
* *
10356117 AATGAGCAATTTA-TTTTTCCAAGTTATGG-TGCCTCTGTTTA
1 AAGGAGCAATTTATTTTTTCAAAGTTATGGTTGCCTCTGTTTA
* * * * *
10356158 GAGAAGCAATTTA-TTTTTCAAAAGTTGTGGTTACCTTTGTTTA
1 AAGGAGCAATTTATTTTTTC-AAAGTTATGGTTGCCTCTGTTTA
* *
10356201 GAGGAACAATTTATT
1 AAGGAGCAATTTATT
10356216 GTTCTAAAGT
Statistics
Matches: 188, Mismatches: 31, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
41 55 0.29
42 99 0.53
43 33 0.18
44 1 0.01
ACGTcount: A:0.26, C:0.12, G:0.19, T:0.43
Consensus pattern (43 bp):
AAGGAGCAATTTATTTTTTCAAAGTTATGGTTGCCTCTGTTTA
Found at i:10356189 original size:126 final size:126
Alignment explanation
Indices: 10355949--10356249 Score: 390
Period size: 126 Copynumber: 2.4 Consensus size: 126
10355939 CATGATTGTC
* * * *
10355949 AAGGAGCATTTTATTTTTTCAAAGTTATGGTGCCTCTATTTAAAGGAGCAATTTATTTTTCAAAG
1 AAGGAGCAATTTATTTTTTCTAAGTTGTGGTGCCTCTATTTAAATGAGCAATTTATTTTTCAAAG
* * **
10356014 TCGTGGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTTGAAGTCATGGTTACCTTTGCTTA
66 TCATGGTTGCCTCTGTTTAGAGAAGCAATTTATTTTTAAAAGTCATGGTTACCTTTGCTTA
*
10356075 AAGGAGCAATTTATTTTTTCTAAGTTGTGGTGCCTCTATTTAAATGAGCAATTTATTTTTCCAAG
1 AAGGAGCAATTTATTTTTTCTAAGTTGTGGTGCCTCTATTTAAATGAGCAATTTATTTTTCAAAG
* ** *
10356140 TTATGG-TGCCTCTGTTTAGAGAAGCAATTTATTTTTCAAAAGTTGTGGTTACCTTTGTTTA
66 TCATGGTTGCCTCTGTTTAGAGAAGCAATTTATTTTT-AAAAGTCATGGTTACCTTTGCTTA
* * * * * * *
10356201 GAGGAACAATTTA-TTGTTCTAAAGTTGTTGAGCTTCTGTTTAAATGAGC
1 AAGGAGCAATTTATTTTTTCT-AAGTTGTGGTGCCTCTATTTAAATGAGC
10356250 TTTATTACAT
Statistics
Matches: 153, Mismatches: 20, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
125 35 0.23
126 118 0.77
ACGTcount: A:0.26, C:0.12, G:0.20, T:0.43
Consensus pattern (126 bp):
AAGGAGCAATTTATTTTTTCTAAGTTGTGGTGCCTCTATTTAAATGAGCAATTTATTTTTCAAAG
TCATGGTTGCCTCTGTTTAGAGAAGCAATTTATTTTTAAAAGTCATGGTTACCTTTGCTTA
Found at i:10356474 original size:3 final size:3
Alignment explanation
Indices: 10356466--10356527 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
10356456 TTTCTGAATT
10356466 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10356514 TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TT
10356528 CTTTTTCTTC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:10356903 original size:10 final size:11
Alignment explanation
Indices: 10356888--10356912 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
10356878 TTTTTCTATC
10356888 ATTTTTTGGAA
1 ATTTTTTGGAA
10356899 ATTTTTTGGAA
1 ATTTTTTGGAA
10356910 ATT
1 ATT
10356913 CCAGAATTAG
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:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (11 bp):
ATTTTTTGGAA
Found at i:10358041 original size:7 final size:7
Alignment explanation
Indices: 10358022--10358064 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
10358012 AATTTGGAGT
10358022 TTTTAGAA
1 TTTTAG-A
10358030 TTTTAGA
1 TTTTAGA
10358037 TTTTAGGA
1 TTTTA-GA
*
10358045 TTTGAGA
1 TTTTAGA
*
10358052 TTTTGGA
1 TTTTAGA
10358059 TTTTAG
1 TTTTAG
10358065 GGTTAGGGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
7 18 0.60
8 12 0.40
ACGTcount: A:0.26, C:0.00, G:0.21, T:0.53
Consensus pattern (7 bp):
TTTTAGA
Found at i:10358042 original size:15 final size:15
Alignment explanation
Indices: 10358022--10358142 Score: 69
Period size: 14 Copynumber: 8.5 Consensus size: 15
10358012 AATTTGGAGT
*
10358022 TTTTAGAATTTTAGA
1 TTTTAGGATTTTAGA
*
10358037 TTTTAGGATTTGAGA
1 TTTTAGGATTTTAGA
10358052 TTTT-GGATTTTAG-
1 TTTTAGGATTTTAGA
** * *
10358065 GGTTAGGGTTTCA-A
1 TTTTAGGATTTTAGA
*
10358079 GTTTTA-GATTTTAGG
1 -TTTTAGGATTTTAGA
* *
10358094 GTTTAGG-TTTTTGA
1 TTTTAGGATTTTAGA
*
10358108 TTTTA-GAGTTTGAGA
1 TTTTAGGA-TTTTAGA
*
10358123 -TTTAGGGTTTT-GA
1 TTTTAGGATTTTAGA
10358136 TTTTAGG
1 TTTTAGG
10358143 GTTTGAGGTT
Statistics
Matches: 77, Mismatches: 20, Indels: 19
0.66 0.17 0.16
Matches are distributed among these distances:
13 5 0.06
14 45 0.58
15 27 0.35
ACGTcount: A:0.21, C:0.01, G:0.26, T:0.51
Consensus pattern (15 bp):
TTTTAGGATTTTAGA
Found at i:10358111 original size:28 final size:28
Alignment explanation
Indices: 10358022--10358259 Score: 106
Period size: 28 Copynumber: 8.2 Consensus size: 28
10358012 AATTTGGAGT
** * *
10358022 TTTTAGAATTTTAGATTTTAGGATTTGAGA
1 TTTTAG-ATTTTAGGGTTTAGGGTTT-TGA
* **
10358052 TTTTGGATTTTAGGG-TTAGGGTTTCAA
1 TTTTAGATTTTAGGGTTTAGGGTTTTGA
*
10358079 GTTTTAGATTTTAGGGTTTAGGTTTTTGA
1 -TTTTAGATTTTAGGGTTTAGGGTTTTGA
* *
10358108 TTTTAGAGTTT-GAGATTTAGGGTTTTGA
1 TTTTAGATTTTAG-GGTTTAGGGTTTTGA
** * * *
10358136 TTTTAGGGTTT-GAGGTTT-GAAGCTTTGG
1 TTTTAGATTTTAG-GGTTTAG-GGTTTTGA
** *
10358164 TTTTAGGGTTTAGAGGATTTAAGGTTTTGA
1 TTTTAGATTTTAG-GG-TTTAGGGTTTTGA
* * * *
10358194 TTTTAGAGTTTTGATGTTTTAAGGATTTGA
1 TTTTAGA-TTTT-AGGGTTTAGGGTTTTGA
* * * *
10358224 TTTTAAGGTTTGGAGGGTTTAAGGTTTTGT
1 TTTT-AGATTT-TAGGGTTTAGGGTTTTGA
10358254 TTTTAG
1 TTTTAG
10358260 GGTTCAAAAG
Statistics
Matches: 164, Mismatches: 33, Indels: 23
0.75 0.15 0.10
Matches are distributed among these distances:
27 3 0.02
28 77 0.47
29 22 0.13
30 55 0.34
31 6 0.04
32 1 0.01
ACGTcount: A:0.21, C:0.01, G:0.28, T:0.50
Consensus pattern (28 bp):
TTTTAGATTTTAGGGTTTAGGGTTTTGA
Found at i:10358215 original size:30 final size:30
Alignment explanation
Indices: 10358080--10358259 Score: 153
Period size: 30 Copynumber: 6.2 Consensus size: 30
10358070 GGGTTTCAAG
*
10358080 TTTTAGA-TTTT-AGGGTTT-AGGTTTTTGA
1 TTTTAGAGTTTTGAGGATTTAAGG-TTTTGA
*
10358108 TTTTAGAG-TTTGA-GATTTAGGGTTTTGA
1 TTTTAGAGTTTTGAGGATTTAAGGTTTTGA
* * *
10358136 TTTTAG-GGTTTGAGG-TTTGAA-GCTTTGG
1 TTTTAGAGTTTTGAGGATTT-AAGGTTTTGA
* *
10358164 TTTTAGGGTTTAGAGGATTTAAGGTTTTGA
1 TTTTAGAGTTTTGAGGATTTAAGGTTTTGA
* * *
10358194 TTTTAGAGTTTTGATGTTTTAAGGATTTGA
1 TTTTAGAGTTTTGAGGATTTAAGGTTTTGA
* * *
10358224 TTTTA-AGGTTTGGAGGGTTTAAGGTTTTGT
1 TTTTAGA-GTTTTGAGGATTTAAGGTTTTGA
10358254 TTTTAG
1 TTTTAG
10358260 GGTTCAAAAG
Statistics
Matches: 122, Mismatches: 19, Indels: 19
0.76 0.12 0.12
Matches are distributed among these distances:
27 1 0.01
28 45 0.37
29 15 0.12
30 61 0.50
ACGTcount: A:0.19, C:0.01, G:0.29, T:0.51
Consensus pattern (30 bp):
TTTTAGAGTTTTGAGGATTTAAGGTTTTGA
Found at i:10358222 original size:16 final size:13
Alignment explanation
Indices: 10358103--10358235 Score: 61
Period size: 14 Copynumber: 9.3 Consensus size: 13
10358093 GGTTTAGGTT
10358103 TTTGATTTT-AGAG
1 TTTGATTTTAAG-G
* *
10358116 TTTGAGATTTAGGG
1 TTTGA-TTTTAAGG
*
10358130 TTTTGATTTTAGGG
1 -TTTGATTTTAAGG
* *
10358144 TTTGAGGTTTGAAGC
1 TTTGA--TTTTAAGG
* *
10358159 TTTGGTTTTAGGG
1 TTTGATTTTAAGG
*
10358172 TTTAGAGGATTTAAGG
1 TTT-GA--TTTTAAGG
*
10358188 TTTTGATTTTAGAGT
1 -TTTGATTTTA-AGG
10358203 TTTGATGTTTTAAGG
1 TTTGA--TTTTAAGG
10358218 ATTTGATTTTAAGG
1 -TTTGATTTTAAGG
10358232 TTTG
1 TTTG
10358236 GAGGGTTTAA
Statistics
Matches: 91, Mismatches: 16, Indels: 26
0.68 0.12 0.20
Matches are distributed among these distances:
13 22 0.24
14 29 0.32
15 19 0.21
16 18 0.20
17 3 0.03
ACGTcount: A:0.20, C:0.01, G:0.29, T:0.50
Consensus pattern (13 bp):
TTTGATTTTAAGG
Found at i:10358227 original size:14 final size:14
Alignment explanation
Indices: 10358181--10358263 Score: 69
Period size: 14 Copynumber: 5.6 Consensus size: 14
10358171 GTTTAGAGGA
10358181 TTTAAGGTTTTGAT
1 TTTAAGGTTTTGAT
10358195 TTT-AGAGTTTTGATGT
1 TTTAAG-GTTTTGA--T
*
10358211 TTTAAGGATTTGAT
1 TTTAAGGTTTTGAT
* *
10358225 TTTAAGGTTTGGAGGG
1 TTTAAGGTTTTGA--T
*
10358241 TTTAAGGTTTTGTT
1 TTTAAGGTTTTGAT
*
10358255 TTTAGGGTT
1 TTTAAGGTT
10358264 CAAAAGTTTT
Statistics
Matches: 55, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
13 2 0.04
14 30 0.55
16 21 0.38
17 2 0.04
ACGTcount: A:0.19, C:0.00, G:0.28, T:0.53
Consensus pattern (14 bp):
TTTAAGGTTTTGAT
Found at i:10358245 original size:60 final size:58
Alignment explanation
Indices: 10358103--10358294 Score: 183
Period size: 60 Copynumber: 3.3 Consensus size: 58
10358093 GGTTTAGGTT
* * * * *
10358103 TTTGATTTT-AGAGTTT-GA-GATTTAGGGTTTTGATTTTAGGGTTTGAGGTTTGAAGC
1 TTTGATTTTAAG-GTTTGGAGGATTTAAGGTTTTGATTTTAGGTTTTGAAGTTTTAAGG
* * * *
10358159 TTTGGTTTTAGGGTTTAGAGGATTTAAGGTTTTGATTTTAGAGTTTTGATGTTTTAAGG
1 TTTGATTTTAAGGTTTGGAGGATTTAAGGTTTTGATTTTAG-GTTTTGAAGTTTTAAGG
* * ***
10358218 ATTTGATTTTAAGGTTTGGAGGGTTTAAGGTTTTGTTTTTAGGGTTCAAAAGTTTTAAGG
1 -TTTGATTTTAAGGTTTGGAGGATTTAAGGTTTTGATTTTA-GGTTTTGAAGTTTTAAGG
* *
10358278 TTTAATTTTAGGGTTTG
1 TTTGATTTTAAGGTTTG
10358295 AAAGTTTGGA
Statistics
Matches: 112, Mismatches: 18, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
56 12 0.11
57 3 0.03
58 20 0.18
59 28 0.25
60 48 0.43
61 1 0.01
ACGTcount: A:0.21, C:0.01, G:0.29, T:0.49
Consensus pattern (58 bp):
TTTGATTTTAAGGTTTGGAGGATTTAAGGTTTTGATTTTAGGTTTTGAAGTTTTAAGG
Found at i:10358411 original size:146 final size:146
Alignment explanation
Indices: 10358223--10358555 Score: 474
Period size: 146 Copynumber: 2.3 Consensus size: 146
10358213 TAAGGATTTG
* * * *
10358223 ATTTTAAG-GTTTGGAGGGTTTAAGGTTTTGTTTTTAGGGTTCAAAAGTTTTAAGGTTTAATTTT
1 ATTTTAAGATTTTGG-GGGTTTAGGGTTTCGTTTTTAGGGTTCAAAAGGTTTAAGGTTTAATTTT
* * *
10358287 AGGGTTTGAAAGTTTGGAGTTTTGATTTTAAAGCTTAAACTTTTGGGGTTTTGATTGTAGGGTTT
65 AGGGTTTGAAAGTTTGGAGTTTTGATTTTAAAGCTTAAACGTTTGGGGTTTTGATTGTAAGATTT
10358352 GGAAGGTGTAAGGTCTA
130 GGAAGGTGTAAGGTCTA
* *
10358369 ATTTTAAGATTTTGGGGGTTTAGGGTTTCGTTTTTAGGGTTCAGAAGGTTTAGGGTTTAATTTTA
1 ATTTTAAGATTTTGGGGGTTTAGGGTTTCGTTTTTAGGGTTCAAAAGGTTTAAGGTTTAATTTTA
* ** *
10358434 GGGTTTGAAGGTTTGGAGTTTTGATTTTAAAGCTTGGAGGTTTGGGGTTTTGATTGTAAGATTTG
66 GGGTTTGAAAGTTTGGAGTTTTGATTTTAAAGCTTAAACGTTTGGGGTTTTGATTGTAAGATTTG
* *
10358499 GAAGGTGTAGGGTTTA
131 GAAGGTGTAAGGTCTA
*
10358515 ATTTT-A-ATGTTTGGGTGGTTTAGAGTTTCGTTTTTAGGGTT
1 ATTTTAAGAT-TTTGGG-GGTTTAGGGTTTCGTTTTTAGGGTT
10358556 TGGAGGTTTA
Statistics
Matches: 168, Mismatches: 16, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
144 2 0.01
145 7 0.04
146 154 0.92
147 5 0.03
ACGTcount: A:0.21, C:0.02, G:0.31, T:0.46
Consensus pattern (146 bp):
ATTTTAAGATTTTGGGGGTTTAGGGTTTCGTTTTTAGGGTTCAAAAGGTTTAAGGTTTAATTTTA
GGGTTTGAAAGTTTGGAGTTTTGATTTTAAAGCTTAAACGTTTGGGGTTTTGATTGTAAGATTTG
GAAGGTGTAAGGTCTA
Found at i:10358454 original size:28 final size:29
Alignment explanation
Indices: 10358385--10358447 Score: 83
Period size: 30 Copynumber: 2.2 Consensus size: 29
10358375 AGATTTTGGG
**
10358385 GGTTTAGGGTTTCGTTTTTAGGGTTCAGAA
1 GGTTTAGGGTTT-AATTTTAGGGTTCAGAA
*
10358415 GGTTTAGGGTTTAATTTTAGGGTT-TGAA
1 GGTTTAGGGTTTAATTTTAGGGTTCAGAA
10358443 GGTTT
1 GGTTT
10358448 GGAGTTTTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 8 0.27
29 10 0.33
30 12 0.40
ACGTcount: A:0.17, C:0.03, G:0.33, T:0.46
Consensus pattern (29 bp):
GGTTTAGGGTTTAATTTTAGGGTTCAGAA
Found at i:10358460 original size:29 final size:29
Alignment explanation
Indices: 10358102--10358488 Score: 141
Period size: 29 Copynumber: 13.3 Consensus size: 29
10358092 GGGTTTAGGT
* *
10358102 TTTTGATTTTAGAGTTTG-AGATTTAGG-G
1 TTTTGATTTTAGGGTTTGAAGGTTT-GGAG
*
10358130 TTTTGATTTTAGGGTTTG-AGGTTTGAAG
1 TTTTGATTTTAGGGTTTGAAGGTTTGGAG
* * *
10358158 CTTTGGTTTTAGGGTTT-AGAGGATTT-AAGG
1 TTTTGATTTTAGGGTTTGA-AGG-TTTGGA-G
* * *
10358188 TTTTGATTTTAGAGTTTTGATGTTTTAAGGA-
1 TTTTGATTTTAG-GGTTTGAAGGTTT--GGAG
* * *
10358219 -TTTGATTTTAAGGTTTGGAGGGTTT-AAGG
1 TTTTGATTTTAGGGTTT-GAAGGTTTGGA-G
* ** * **
10358248 TTTTGTTTTTAGGGTTCAAAAGTTTTAAG
1 TTTTGATTTTAGGGTTTGAAGGTTTGGAG
* * *
10358277 GTTTAATTTTAGGGTTTGAAAGTTTGGAG
1 TTTTGATTTTAGGGTTTGAAGGTTTGGAG
** * * ** *
10358306 TTTTGATTTTAAAGCTTAAACTTTTGGGG
1 TTTTGATTTTAGGGTTTGAAGGTTTGGAG
* * *
10358335 TTTTGATTGTAGGGTTTGGAAGGTGT-AAG
1 TTTTGATTTTAGGGTTT-GAAGGTTTGGAG
* * * ** **
10358364 GTCTAATTTTAAGATTTTGGGGGTTTAGG-G
1 TTTTGATTTT-AGGGTTTGAAGGTTT-GGAG
* * *
10358394 TTTCGTTTTTAGGGTTCAGAAGGTTTAGG-G
1 TTTTGATTTTAGGGTT-TGAAGGTTT-GGAG
*
10358424 -TTTAATTTTAGGGTTTGAAGGTTTGGAG
1 TTTTGATTTTAGGGTTTGAAGGTTTGGAG
** * * *
10358452 TTTTGATTTTAAAGCTTGGAGGTTTGGGG
1 TTTTGATTTTAGGGTTTGAAGGTTTGGAG
10358481 TTTTGATT
1 TTTTGATT
10358489 GTAAGATTTG
Statistics
Matches: 259, Mismatches: 78, Indels: 43
0.68 0.21 0.11
Matches are distributed among these distances:
27 4 0.02
28 47 0.18
29 128 0.49
30 73 0.28
31 5 0.02
32 1 0.00
33 1 0.00
ACGTcount: A:0.21, C:0.02, G:0.30, T:0.47
Consensus pattern (29 bp):
TTTTGATTTTAGGGTTTGAAGGTTTGGAG
Found at i:10358527 original size:29 final size:29
Alignment explanation
Indices: 10358412--10358571 Score: 98
Period size: 29 Copynumber: 5.5 Consensus size: 29
10358402 TTAGGGTTCA
*
10358412 GAAGGTTTAGGG-TTTAATTTTAGGGTTT-
1 GAAGGTTTAGGGTTTTAATTTTA-AGTTTG
* *
10358440 GAAGGTTT-GGAGTTTTGATTTTAAAGCTTG
1 GAAGGTTTAGG-GTTTTAATTTT-AAGTTTG
* * *
10358470 G-AGGTTTGGGGTTTTGATTGTAAGATTTG
1 GAAGGTTTAGGGTTTTAATTTTAAG-TTTG
*
10358499 GAAGGTGTAGGG-TTTAATTTTAATGTTTG
1 GAAGGTTTAGGGTTTTAATTTTAA-GTTTG
** * *** *
10358528 GGTGGTTTAGAGTTTCGTTTTTAGGGTTTG
1 GAAGGTTTAGGGTTTTAATTTTA-AGTTTG
10358558 G-AGGTTTAGGGTTT
1 GAAGGTTTAGGGTTT
10358572 GAAGAATTTA
Statistics
Matches: 103, Mismatches: 19, Indels: 19
0.73 0.13 0.13
Matches are distributed among these distances:
27 2 0.02
28 12 0.12
29 63 0.61
30 26 0.25
ACGTcount: A:0.19, C:0.01, G:0.34, T:0.46
Consensus pattern (29 bp):
GAAGGTTTAGGGTTTTAATTTTAAGTTTG
Found at i:10358614 original size:45 final size:44
Alignment explanation
Indices: 10358533--10358619 Score: 122
Period size: 45 Copynumber: 1.9 Consensus size: 44
10358523 GTTTGGGTGG
* *
10358533 TTTAGAGTTTCGTTTTTAGGGTTTGGAGGTTTAGGGTTTGAAGAA
1 TTTAGAGTTTCATTTTTAGGGTTTCGA-GTTTAGGGTTTGAAGAA
10358578 TTTAGAGTTTCATTTTTAGGGTTTTCGA-TTTGAGGGTTTGAA
1 TTTAGAGTTTCATTTTTAGGG-TTTCGAGTTT-AGGGTTTGAA
10358620 AGTTTTAAGG
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
44 3 0.08
45 30 0.79
46 5 0.13
ACGTcount: A:0.20, C:0.03, G:0.30, T:0.47
Consensus pattern (44 bp):
TTTAGAGTTTCATTTTTAGGGTTTCGAGTTTAGGGTTTGAAGAA
Found at i:10358954 original size:3 final size:3
Alignment explanation
Indices: 10358948--10359030 Score: 61
Period size: 3 Copynumber: 28.3 Consensus size: 3
10358938 AAATTATTTA
*
10358948 ATT ATT ATT ATT ATT ATT A-T ATT -TT AGT ATT -TT -TT ATAT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT
* *
10358990 TTT ATTT ATT ATCCT ATT -TT ATT TTT ATT -TT ATT ATT ATT A
1 ATT A-TT ATT AT--T ATT ATT ATT ATT ATT ATT ATT ATT ATT A
10359031 AAAACAATTA
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
2 12 0.18
3 44 0.68
4 6 0.09
5 3 0.05
ACGTcount: A:0.28, C:0.02, G:0.01, T:0.69
Consensus pattern (3 bp):
ATT
Found at i:10358962 original size:17 final size:17
Alignment explanation
Indices: 10358940--10359029 Score: 71
Period size: 17 Copynumber: 5.4 Consensus size: 17
10358930 AATAAAAAAA
10358940 ATTATTTAATTAT-TATT
1 ATTATTT-ATTATATATT
*
10358957 ATTA-TTATTATATTTT
1 ATTATTTATTATATATT
* *
10358973 AGTATTTTTTATATATT
1 ATTATTTATTATATATT
* *
10358990 TTTATTTATTATCCTATT
1 ATTATTTATTAT-ATATT
*
10359008 -TTATTT-TTATTTTATT
1 ATTATTTATTA-TATATT
10359024 ATTATT
1 ATTATT
10359030 AAAAACAATT
Statistics
Matches: 59, Mismatches: 9, Indels: 10
0.76 0.12 0.13
Matches are distributed among these distances:
15 5 0.08
16 15 0.25
17 35 0.59
18 4 0.07
ACGTcount: A:0.28, C:0.02, G:0.01, T:0.69
Consensus pattern (17 bp):
ATTATTTATTATATATT
Found at i:10360091 original size:18 final size:17
Alignment explanation
Indices: 10360068--10360112 Score: 72
Period size: 18 Copynumber: 2.6 Consensus size: 17
10360058 CTTTTTCTTT
*
10360068 TTTTAATTAATTTTTAA
1 TTTTAATTAATGTTTAA
10360085 TTATTAATTAATGTTTAA
1 TT-TTAATTAATGTTTAA
10360103 TTTTAATTAA
1 TTTTAATTAA
10360113 ACCAATATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 10 0.38
18 16 0.62
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (17 bp):
TTTTAATTAATGTTTAA
Found at i:10360144 original size:21 final size:21
Alignment explanation
Indices: 10360118--10360157 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
10360108 ATTAAACCAA
*
10360118 TATTATTATTATTATTAAATT
1 TATTATTATTAATATTAAATT
10360139 TATTATTATTAATATTAAA
1 TATTATTATTAATATTAAA
10360158 CAAGAATTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TATTATTATTAATATTAAATT
Found at i:10360326 original size:21 final size:20
Alignment explanation
Indices: 10360297--10360335 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
10360287 TTTCAAAATT
10360297 TTTTCTTTTCTTCTTTTTTTG
1 TTTTCTTTTCTT-TTTTTTTG
* *
10360318 TTTTGTTTTGTTTTTTTT
1 TTTTCTTTTCTTTTTTTT
10360336 AACCATAAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.85
Consensus pattern (20 bp):
TTTTCTTTTCTTTTTTTTTG
Found at i:10360435 original size:37 final size:36
Alignment explanation
Indices: 10360386--10360472 Score: 129
Period size: 37 Copynumber: 2.4 Consensus size: 36
10360376 CTGCGAGTTG
* *
10360386 AAAAATAAAGAATCGATTAGGATAACACCGCAAGTC
1 AAAAATAAAGAATCGACTAGGATAACACCACAAGTC
*
10360422 AAAAAGTAAAGAATCGACTAGGATAACACCATAAGTC
1 AAAAA-TAAAGAATCGACTAGGATAACACCACAAGTC
*
10360459 AAAATTAAAGAATC
1 AAAAATAAAGAATC
10360473 AATTGGGACA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
36 14 0.30
37 32 0.70
ACGTcount: A:0.53, C:0.15, G:0.15, T:0.17
Consensus pattern (36 bp):
AAAAATAAAGAATCGACTAGGATAACACCACAAGTC
Found at i:10360705 original size:132 final size:132
Alignment explanation
Indices: 10360508--10360786 Score: 330
Period size: 132 Copynumber: 2.1 Consensus size: 132
10360498 ATTATGCTCG
* * * *
10360508 GAGGTTTTAAAAATCATGCTCAAAGGTCTTACAGAATCGATCAGGATAATACCGTAAGTCAAAAA
1 GAGGTCTTAAAAATCATGCTCAAAGGTCTTACAGAATCGACCAGGAGAACACCGTAAGTCAAAAA
*
10360573 ATAAAAAATCGATCGAGACAACA-CTGCGAATCAAAATTATGCCCGAAAG-TCTTAAAGATTATG
66 ATAAAAAATCGATCGAGACAACATC-GCGAATCAAAATTATACCC-AAAGATCTTAAAGATTATG
*
10360636 TCTA
129 CCTA
* * * * *
10360640 GAGGTCTTAGAAATCATGC-CTAGAGGTTTTATAGAATCGACCAGGAGGACACCGTAAGTCAAAA
1 GAGGTCTTAAAAATCATGCTC-AAAGGTCTTACAGAATCGACCAGGAGAACACCGTAAGTCAAAA
* * * * * *
10360704 AATTAAAAATCGATTGGGACAATATCGTGAATCGAAATTATACCCAAAGATCTTAAAGATTATGC
65 AATAAAAAATCGATCGAGACAACATCGCGAATCAAAATTATACCCAAAGATCTTAAAGATTATGC
10360769 CTA
130 CTA
* *
10360772 AAGGTTTTACAAAAT
1 GAGGTCTTA-AAAAT
10360787 TGATCGGGAT
Statistics
Matches: 123, Mismatches: 20, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
131 5 0.04
132 113 0.92
133 5 0.04
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.25
Consensus pattern (132 bp):
GAGGTCTTAAAAATCATGCTCAAAGGTCTTACAGAATCGACCAGGAGAACACCGTAAGTCAAAAA
ATAAAAAATCGATCGAGACAACATCGCGAATCAAAATTATACCCAAAGATCTTAAAGATTATGCC
TA
Found at i:10360888 original size:242 final size:241
Alignment explanation
Indices: 10360431--10360890 Score: 516
Period size: 242 Copynumber: 1.9 Consensus size: 241
10360421 CAAAAAGTAA
* * *
10360431 AGAATCGACTAGGATAACACCATAAGTCAAAATTAAAGAATCAATTGGGACAAAACTGTGAATTG
1 AGAATCGACCAGGAGAACACCATAAGTCAAAATTAAAGAATCAATTGGGACAAAACTGTGAATCG
* * ** * * * *
10360496 AAATTATGCTCGGAGGTTTTAAAAATCATGCTCAAAGGTCTTACAGAATCGATCAGGATAATACC
66 AAATTATACCCAAAGATCTTAAAAATCATGCTCAAAGGTCTTACAAAATCGATCAGGATAACACC
* * * *
10360561 GTAAGTCAAAAAATAAAAAATCGATCGAGACAACACTGCGAATCAAAATTATGCCCGAAAGTCTT
131 ATAAGTCAAAAAATAAAAAATCGATCGAGACAACACCGCGAATCAAAATTATGCCCGAAAGCCGT
* *
10360626 AAAGATTATGTCTAGAGGTCTTAGAAATCATGCCTAGAGGTTTTAT
196 AAAAATCATGTCTAGAGGTCTTAGAAATCATGCCTAGAGGTTTTAT
* * * *
10360672 AGAATCGACCAGGAGGACACCGTAAGTCAAAAAATTAAA-AATCGATTGGGACAATA-TCGTGAA
1 AGAATCGACCAGGAGAACACCATAAGTC--AAAATTAAAGAATCAATTGGGACAAAACT-GTGAA
* * * * *
10360735 TCGAAATTATACCCAAAGATCTTAAAGATTATGC-CTAAAGGTTTTACAAAATTGATCGGGATAA
63 TCGAAATTATACCCAAAGATCTTAAAAATCATGCTC-AAAGGTCTTACAAAATCGATCAGGATAA
* * * * * * **
10360799 CACCATAAGTCAAAAAATTAAAAATTGATTGGGATAACACCGTGAATTGAAATTATGCCC-AAAG
127 CACCATAAGTCAAAAAATAAAAAATCGATCGAGACAACACCGCGAATCAAAATTATGCCCGAAA-
*
10360863 GCCGTAAAAATCATG-CTCGGAGGTCTTA
191 GCCGTAAAAATCATGTCT-AGAGGTCTTA
10360891 CAAAATCAAC
Statistics
Matches: 178, Mismatches: 35, Indels: 11
0.79 0.16 0.05
Matches are distributed among these distances:
241 31 0.17
242 138 0.78
243 9 0.05
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.25
Consensus pattern (241 bp):
AGAATCGACCAGGAGAACACCATAAGTCAAAATTAAAGAATCAATTGGGACAAAACTGTGAATCG
AAATTATACCCAAAGATCTTAAAAATCATGCTCAAAGGTCTTACAAAATCGATCAGGATAACACC
ATAAGTCAAAAAATAAAAAATCGATCGAGACAACACCGCGAATCAAAATTATGCCCGAAAGCCGT
AAAAATCATGTCTAGAGGTCTTAGAAATCATGCCTAGAGGTTTTAT
Found at i:10360892 original size:110 final size:110
Alignment explanation
Indices: 10360650--10360975 Score: 323
Period size: 110 Copynumber: 3.0 Consensus size: 110
10360640 GAGGTCTTAG
* * * * * * ** *
10360650 AAATCATGCCTAGAGGTTTTATAGAATCGACCAGGAGGACACCGTAAGTCAAAAAATTAAAAATC
1 AAATCATGCCTAAAGGTCTTACAAAATCAACTAGGATAACACCGTAAGTCAAAAAATTAAAAATT
* * * ** *
10360715 GATTGGGACAATATCGTGAATCGAAATTATACCCAAAGATCTTAA
66 GATTGGGACAACACCGTGAATCGAAATTATGCCCAAAGGCCGTAA
* * * ** * *
10360760 AGATTATGCCTAAAGGTTTTACAAAATTGA-TCGGGATAACACCATAAGTCAAAAAATTAAAAAT
1 AAATCATGCCTAAAGGTCTTACAAAATCAACT-AGGATAACACCGTAAGTCAAAAAATTAAAAAT
* *
10360824 TGATTGGGATAACACCGTGAATTGAAATTATGCCCAAAGGCCGTAA
65 TGATTGGGACAACACCGTGAATCGAAATTATGCCCAAAGGCCGTAA
** * *
10360870 AAATCATG-CTCGGAGGTCTTACAAAATCAACTAGGATAACACTGCAAGTCAAAAAATTAAAAAT
1 AAATCATGCCT-AAAGGTCTTACAAAATCAACTAGGATAACACCGTAAGTCAAAAAATTAAAAAT
* ** * *
10360934 TAATTGGGACAACACCACGAATCAAAATTATGCCCAGAGGCC
65 TGATTGGGACAACACCGTGAATCGAAATTATGCCCAAAGGCC
10360976 ACCTTACCTC
Statistics
Matches: 175, Mismatches: 38, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
109 2 0.01
110 172 0.98
111 1 0.01
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.23
Consensus pattern (110 bp):
AAATCATGCCTAAAGGTCTTACAAAATCAACTAGGATAACACCGTAAGTCAAAAAATTAAAAATT
GATTGGGACAACACCGTGAATCGAAATTATGCCCAAAGGCCGTAA
Found at i:10362069 original size:20 final size:21
Alignment explanation
Indices: 10362036--10362075 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
10362026 GTTAATTTTT
*
10362036 AAAATGAACTTTAAAAATAAA
1 AAAATAAACTTTAAAAATAAA
*
10362057 AAAATAAAC-TTAATAATAA
1 AAAATAAACTTTAAAAATAA
10362076 TACCAAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.25
Consensus pattern (21 bp):
AAAATAAACTTTAAAAATAAA
Found at i:10362283 original size:18 final size:18
Alignment explanation
Indices: 10362257--10362302 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
10362247 AGTTATAAAA
10362257 AAATAATAAA-TAAGAACT
1 AAATAATAAATTAAGAA-T
*
10362275 AATTAATAAATTAAGAAT
1 AAATAATAAATTAAGAAT
10362293 AAATAATAAA
1 AAATAATAAA
10362303 AAATGAGAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 19 0.76
19 6 0.24
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.26
Consensus pattern (18 bp):
AAATAATAAATTAAGAAT
Done.