Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1688
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: 613586
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 1 of 4
Found at i:8502 original size:28 final size:28
Alignment explanation
Indices: 8441--8522 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
8431 TTTTGGAGAT
*
8441 AATAACGGGGTTGGAGTGTTGCCTCG--GA
1 AATAACGGGGTTGGAGT-AT-CCTCGATGA
* *
8469 AGTAACGGGGTTGGAGTATCCCCGATGA
1 AATAACGGGGTTGGAGTATCCTCGATGA
*
8497 AATAACGAGGTTGGAGTATCCTCGAT
1 AATAACGGGGTTGGAGTATCCTCGAT
8523 TGTGAAAAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
26 4 0.09
27 1 0.02
28 41 0.89
ACGTcount: A:0.26, C:0.16, G:0.34, T:0.24
Consensus pattern (28 bp):
AATAACGGGGTTGGAGTATCCTCGATGA
Found at i:8566 original size:52 final size:50
Alignment explanation
Indices: 8504--8674 Score: 189
Period size: 52 Copynumber: 3.3 Consensus size: 50
8494 TGAAATAACG
* *
8504 AGGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATC
1 AGGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGGAAATAAAATC
* * * *
8555 AGTGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAATC
1 AG-GTTGGAGTATCCCCGATT-ATGAAAAATTGGTATTTTGGAAATAAAATC
*** * *
8607 GAGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTTG
1 -AGGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAA-ATC
*
8659 GGGTTGGAGTATCCCC
1 AGGTTGGAGTATCCCC
8675 TCAGAAATAA
Statistics
Matches: 100, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
51 37 0.37
52 51 0.51
53 12 0.12
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.32
Consensus pattern (50 bp):
AGGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAAATC
Found at i:8664 original size:51 final size:51
Alignment explanation
Indices: 8505--8838 Score: 212
Period size: 51 Copynumber: 6.4 Consensus size: 51
8495 GAAATAACGA
* * *
8505 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCAG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGGAAATAAAATCGG
* * * * * *
8557 TGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAATCGA
1 GGTTGGAGTATCCCCGATT-ATGAAAAATTGGTATTTTGGAAATAAAATCGG
*** * *
8609 GGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTTGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAAATCGG
* **** * *
8660 GGTTGGAGTATCCCC--TCA-GAAATAACGGGGTTGGAGTATCCCCGATGAT-TAA-CGG
1 GGTTGGAGTATCCCCGATTATGAAA-AA-----TT-G-GTATTTTGGA-AATAAAATCGG
* * *
8715 GGTTGGAGTGTCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAA-AAATT-G-GTATTTTGGAAATAAAATCGG
* * * * *
8769 AGTTGGAGTATCCCCGATTAT-AGAAAATTAGTGTTTTGAAAATAAAATTGG
1 GGTTGGAGTATCCCCGATTATGA-AAAATTGGTATTTTGGAAATAAAATCGG
* *
8820 AGTTGGAATATCCCCGATT
1 GGTTGGAGTATCCCCGATT
8839 GTGTAGAATT
Statistics
Matches: 214, Mismatches: 51, Indels: 35
0.71 0.17 0.12
Matches are distributed among these distances:
48 4 0.02
49 4 0.02
51 73 0.34
52 52 0.24
53 27 0.13
54 23 0.11
55 16 0.07
56 6 0.03
57 3 0.01
58 5 0.02
59 1 0.00
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.31
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAAATCGG
Found at i:8720 original size:27 final size:28
Alignment explanation
Indices: 8658--8732 Score: 100
Period size: 27 Copynumber: 2.7 Consensus size: 28
8648 AAATAAAGTT
*
8658 GGGGTTGGAGTATCCCCTCA-GAAATAAC
1 GGGGTTGGAGTATCCCC-GATGAAATAAC
*
8686 GGGGTTGGAGTATCCCCGATG-ATTAAC
1 GGGGTTGGAGTATCCCCGATGAAATAAC
*
8713 GGGGTTGGAGTGTCCCCGAT
1 GGGGTTGGAGTATCCCCGAT
8733 TGTGAAGAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 25 0.58
28 18 0.42
ACGTcount: A:0.21, C:0.20, G:0.35, T:0.24
Consensus pattern (28 bp):
GGGGTTGGAGTATCCCCGATGAAATAAC
Found at i:8797 original size:211 final size:211
Alignment explanation
Indices: 8447--8838 Score: 592
Period size: 211 Copynumber: 1.9 Consensus size: 211
8437 AGATAATAAC
* ** * *
8447 GGGGTTGGAGTGTTGCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGA
1 GGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGA
* *
8512 GTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCAGTGTTGGAGTATCCCCGATTA
66 GTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCAGAGTTGGAGTATCCCCGATTA
* *
8577 AAGGAAAATTGGTGTTTTGAAAATAAAATC-GAGGTTGGAGTATCCCCGATTATGAAAAATCAAT
131 AAGGAAAATTAGTGTTTTGAAAATAAAATCGGA-GTTGGAATATCCCCGATTATGAAAAATCAAT
8641 ATTTTGGAAATAAAGTT
195 ATTTTGGAAATAAAGTT
* *
8658 GGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATG-ATTAACGGGGTTGGA
1 GGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGA
* * *
8722 GTGTCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGAT
66 GTATCCCCGATTGTGAA-AAATTGGT-ATTTTTGGAAATAAAATCAGAGTTGGAGTATCCCCGAT
* *
8787 TATA-GAAAATTAGTGTTTTGAAAATAAAATTGGAGTTGGAATATCCCCGATT
129 TAAAGGAAAATTAGTGTTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATT
8839 GTGTAGAATT
Statistics
Matches: 162, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
210 28 0.17
211 94 0.58
212 40 0.25
ACGTcount: A:0.31, C:0.12, G:0.28, T:0.30
Consensus pattern (211 bp):
GGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGA
GTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCAGAGTTGGAGTATCCCCGATTA
AAGGAAAATTAGTGTTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATTATGAAAAATCAATA
TTTTGGAAATAAAGTT
Found at i:11216 original size:13 final size:13
Alignment explanation
Indices: 11198--11223 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11188 ACAAAGATCC
11198 ATGTATCGATACA
1 ATGTATCGATACA
11211 ATGTATCGATACA
1 ATGTATCGATACA
11224 CAAAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:11287 original size:19 final size:17
Alignment explanation
Indices: 11261--11332 Score: 80
Period size: 19 Copynumber: 4.2 Consensus size: 17
11251 GGCAGTAGCT
11261 AATTATGTATCGATACA
1 AATTATGTATCGATACA
11278 ATACTTATGTATCGATAC-
1 A-A-TTATGTATCGATACA
11296 -A-T-TGTATCGATACAA
1 AATTATGTATCGATAC-A
11311 AATTTATGTATCGATACA
1 AA-TTATGTATCGATACA
11329 AATT
1 AATT
11333 GTTGAATTTC
Statistics
Matches: 47, Mismatches: 0, Indels: 16
0.75 0.00 0.25
Matches are distributed among these distances:
13 11 0.23
14 1 0.02
16 2 0.04
17 3 0.06
18 5 0.11
19 25 0.53
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.38
Consensus pattern (17 bp):
AATTATGTATCGATACA
Found at i:11303 original size:13 final size:13
Alignment explanation
Indices: 11285--11309 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11275 ACAATACTTA
11285 TGTATCGATACAT
1 TGTATCGATACAT
11298 TGTATCGATACA
1 TGTATCGATACA
11310 AAATTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:11305 original size:32 final size:32
Alignment explanation
Indices: 11266--11328 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
11256 TAGCTAATTA
*
11266 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
*
11298 TGTATCGATACAAAATTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
11329 AATTGTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.37
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:11624 original size:18 final size:18
Alignment explanation
Indices: 11591--11625 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11581 GGTGTCTACA
*
11591 GATACCAATTGATGAAAT
1 GATACCAAATGATGAAAT
*
11609 GATACCAAATGTTGAAA
1 GATACCAAATGATGAAA
11626 GATTAATGAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.11, G:0.17, T:0.26
Consensus pattern (18 bp):
GATACCAAATGATGAAAT
Found at i:11922 original size:21 final size:22
Alignment explanation
Indices: 11876--11922 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
11866 AAAACACTAA
11876 AAAATCAATCTAATCACTTAAC
1 AAAATCAATCTAATCACTTAAC
*
11898 -AAATCAATC-AAT-ATTTAATC
1 AAAATCAATCTAATCACTTAA-C
11918 AAAAT
1 AAAAT
11923 ATTAATCATC
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
19 5 0.23
20 4 0.18
21 13 0.59
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.30
Consensus pattern (22 bp):
AAAATCAATCTAATCACTTAAC
Found at i:12324 original size:42 final size:42
Alignment explanation
Indices: 12277--12362 Score: 163
Period size: 42 Copynumber: 2.0 Consensus size: 42
12267 TGCATATTTG
12277 GTCATCTATCATGATTTTTCATAAAGATTATTAACAACAAAT
1 GTCATCTATCATGATTTTTCATAAAGATTATTAACAACAAAT
*
12319 GTCATCTATCATGATTTTTCATAAAGATTATTAATAACAAAT
1 GTCATCTATCATGATTTTTCATAAAGATTATTAACAACAAAT
12361 GT
1 GT
12363 AATGAAAATC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.40
Consensus pattern (42 bp):
GTCATCTATCATGATTTTTCATAAAGATTATTAACAACAAAT
Found at i:13497 original size:21 final size:21
Alignment explanation
Indices: 13464--13515 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
13454 AGTTAAATCA
**
13464 TCATTTTCATTTTGTAACTCATT
1 TCATTTTC-TTTTCCAACTCA-T
13487 TC-TTTTCTTTTCCAACTCAT
1 TCATTTTCTTTTCCAACTCAT
13507 TCATTTTCT
1 TCATTTTCT
13516 CCTCTAGTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 3 0.12
21 16 0.62
22 5 0.19
23 2 0.08
ACGTcount: A:0.17, C:0.23, G:0.02, T:0.58
Consensus pattern (21 bp):
TCATTTTCTTTTCCAACTCAT
Found at i:18303 original size:36 final size:31
Alignment explanation
Indices: 18219--18313 Score: 104
Period size: 36 Copynumber: 2.9 Consensus size: 31
18209 CCTTACAACA
18219 CTATC-TTTCAAGGCTAAGATAGAAACC-TCC
1 CTATCTTTTCAAGGCTAAGATAG-AACCTTCC
*
18249 CTATCTTTTCACGAGCTAAGATAGAACCTTTCTC
1 CTATCTTTTCAAG-GCTAAGATAGAACC-TTC-C
18283 CTTATCTTTTTCAAAGGCTAAGATAGAACCT
1 C-TATC-TTTTC-AAGGCTAAGATAGAACCT
18314 CACAATCACT
Statistics
Matches: 55, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
30 5 0.09
31 10 0.18
32 10 0.18
33 2 0.04
34 2 0.04
35 5 0.09
36 19 0.35
37 2 0.04
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.33
Consensus pattern (31 bp):
CTATCTTTTCAAGGCTAAGATAGAACCTTCC
Found at i:19712 original size:20 final size:20
Alignment explanation
Indices: 19667--19718 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
19657 ATAGCCAAAC
* **
19667 TTGTATCGATACACAAAGTA
1 TTGTATCGATACAAAAAAAA
19687 -TGTATCGATACAAAAAAAA
1 TTGTATCGATACAAAAAAAA
19706 TTGTATCGATACA
1 TTGTATCGATACA
19719 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.29
Consensus pattern (20 bp):
TTGTATCGATACAAAAAAAA
Found at i:22245 original size:32 final size:30
Alignment explanation
Indices: 22209--22267 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
22199 GAAATCAAAT
22209 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
22241 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
22268 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:22566 original size:13 final size:13
Alignment explanation
Indices: 22548--22573 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22538 CAATTTTTTG
22548 TGTATCGATACAT
1 TGTATCGATACAT
22561 TGTATCGATACAT
1 TGTATCGATACAT
22574 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:22588 original size:32 final size:33
Alignment explanation
Indices: 22528--22591 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
22518 TACAAGCCAA
** *
22528 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
22561 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
22592 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:27026 original size:13 final size:13
Alignment explanation
Indices: 27008--27045 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
26998 CATTTTTCTT
27008 TGTATCGATACAA
1 TGTATCGATACAA
*
27021 TGTATCGATACAC
1 TGTATCGATACAA
27034 TGTATCGATACA
1 TGTATCGATACA
27046 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:27200 original size:20 final size:20
Alignment explanation
Indices: 27157--27202 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
27147 AAATCTTTTG
27157 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
27178 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
27198 CAAAA
1 CAAAA
27203 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:29630 original size:13 final size:13
Alignment explanation
Indices: 29612--29637 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
29602 TACACAAAGT
29612 ATGTATCGATACA
1 ATGTATCGATACA
29625 ATGTATCGATACA
1 ATGTATCGATACA
29638 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:29635 original size:32 final size:33
Alignment explanation
Indices: 29594--29657 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
29584 TAGCCAAACT
**
29594 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
29626 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
29658 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:39339 original size:52 final size:52
Alignment explanation
Indices: 39269--39389 Score: 215
Period size: 52 Copynumber: 2.3 Consensus size: 52
39259 GAAAATTTAT
* *
39269 CTGCATGTATCGATACATTTAATAGTTTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
39321 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
39373 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
39390 AAGATCAGTG
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:39402 original size:52 final size:51
Alignment explanation
Indices: 39269--39409 Score: 203
Period size: 52 Copynumber: 2.7 Consensus size: 51
39259 GAAAATTTAT
*
39269 CTGCATGTATCGATACATTTAATAGTTTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
39321 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
39373 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
39410 ATGTATCGAT
Statistics
Matches: 81, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
51 2 0.02
52 79 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:39416 original size:13 final size:13
Alignment explanation
Indices: 39398--39422 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39388 CAAAGATCAG
39398 TGTATCGATACAA
1 TGTATCGATACAA
39411 TGTATCGATACA
1 TGTATCGATACA
39423 TGTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:39524 original size:33 final size:33
Alignment explanation
Indices: 39464--39533 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
39454 GGCAGTAGCT
*
39464 TACATTGTATCGATACAAAAAAATATGTGTCGA
1 TACATTGTATCGATACAAAAAAATATGTATCGA
* ***
39497 TACATTGTATCGATACAACATTTTATGTATCGA
1 TACATTGTATCGATACAAAAAAATATGTATCGA
39530 TACA
1 TACA
39534 AATCGTTGAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.34
Consensus pattern (33 bp):
TACATTGTATCGATACAAAAAAATATGTATCGA
Found at i:43260 original size:13 final size:13
Alignment explanation
Indices: 43242--43267 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
43232 TACAGCAAGT
43242 ATGTATCGATACA
1 ATGTATCGATACA
43255 ATGTATCGATACA
1 ATGTATCGATACA
43268 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:47212 original size:31 final size:31
Alignment explanation
Indices: 47174--47460 Score: 197
Period size: 31 Copynumber: 9.3 Consensus size: 31
47164 GCCTTAGAAT
* *
47174 GTCAAAGCCCACATGAGTTGGTGGCACCCT-A
1 GTCAAAGCCCACACGAGTTGGCGGCA-CCTGA
* * *
47205 GTCAAAGCCCGA-ACAAGTTGGCGACACTTGA
1 GTCAAAGCCC-ACACGAGTTGGCGGCACCTGA
* ** **
47236 GTCTAAGCCTGCACGAGTTGTTGGCACCAT-A
1 GTCAAAGCCCACACGAGTTGGCGGCACC-TGA
* * * * *
47267 GTCGAAGCCCGCACAAGCTGGCGACACCTGA
1 GTCAAAGCCCACACGAGTTGGCGGCACCTGA
* * * * *
47298 GTCTAAGCTCGA-ATGAGTTGGTGGTACCCT-A
1 GTCAAAGC-CCACACGAGTTGGCGGCA-CCTGA
** * * *
47329 GTCAAAGCCTGCACAAGCTAGCGGCACCTGA
1 GTCAAAGCCCACACGAGTTGGCGGCACCTGA
* * * *
47360 GTCTAAGCCCATACGAGTTGGTGGCACCTAA
1 GTCAAAGCCCACACGAGTTGGCGGCACCTGA
*
47391 GTCAAAGCCCACACAAGTTGGCGGCACCTGA
1 GTCAAAGCCCACACGAGTTGGCGGCACCTGA
* * *
47422 GTCTAAGCCCACACGAGTTGGCGACACTTGA
1 GTCAAAGCCCACACGAGTTGGCGGCACCTGA
47453 GTCAAAGC
1 GTCAAAGC
47461 TCGCATAAGT
Statistics
Matches: 190, Mismatches: 57, Indels: 18
0.72 0.22 0.07
Matches are distributed among these distances:
30 7 0.04
31 177 0.93
32 6 0.03
ACGTcount: A:0.27, C:0.28, G:0.26, T:0.18
Consensus pattern (31 bp):
GTCAAAGCCCACACGAGTTGGCGGCACCTGA
Found at i:47471 original size:62 final size:61
Alignment explanation
Indices: 47178--47473 Score: 324
Period size: 62 Copynumber: 4.8 Consensus size: 61
47168 TAGAATGTCA
* * *
47178 AAGCCCACATGAGTTGGTGGCACCCTAGTCAAAGCCCGAACAAGTTGGCGACACTTGAGTCT
1 AAGCCCACACGAGTTGGTGGCA-CCTAGTCAAAGCCCGCACAAGTTGGCGACACCTGAGTCT
** * * *
47240 AAGCCTGCACGAGTTGTTGGCACCATAGTCGAAGCCCGCACAAGCTGGCGACACCTGAGTCT
1 AAGCCCACACGAGTTGGTGGCACC-TAGTCAAAGCCCGCACAAGTTGGCGACACCTGAGTCT
* * * * * * *
47302 AAGCTCGA-ATGAGTTGGTGGTACCCTAGTCAAAGCCTGCACAAGCTAGCGGCACCTGAGTCT
1 AAGC-CCACACGAGTTGGTGGCA-CCTAGTCAAAGCCCGCACAAGTTGGCGACACCTGAGTCT
* * *
47364 AAGCCCATACGAGTTGGTGGCACCTAAGTCAAAGCCCACACAAGTTGGCGGCACCTGAGTCT
1 AAGCCCACACGAGTTGGTGGCACCT-AGTCAAAGCCCGCACAAGTTGGCGACACCTGAGTCT
* * * * *
47426 AAGCCCACACGAGTTGGCGACACTTGAGTCAAAGCTCGCATAAGTTGG
1 AAGCCCACACGAGTTGGTGGCACCT-AGTCAAAGCCCGCACAAGTTGG
47474 TGGTACTTTC
Statistics
Matches: 197, Mismatches: 32, Indels: 10
0.82 0.13 0.04
Matches are distributed among these distances:
61 7 0.04
62 187 0.95
63 3 0.02
ACGTcount: A:0.27, C:0.28, G:0.27, T:0.19
Consensus pattern (61 bp):
AAGCCCACACGAGTTGGTGGCACCTAGTCAAAGCCCGCACAAGTTGGCGACACCTGAGTCT
Found at i:47655 original size:63 final size:60
Alignment explanation
Indices: 47467--47694 Score: 268
Period size: 59 Copynumber: 3.8 Consensus size: 60
47457 AAGCTCGCAT
* * * *
47467 AAGTTGGTGGTACTTTCTAGTCCTCAAAGAGC-ATGACACTTTCTTTTCAAAGCCAACAC
1 AAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCTAGGATACTTTCTTTTCAAAGCCCACAC
** * *
47526 AAGTTAATGGCACCTTCTAGTCCTCAAAGAG-TAGGATACTTTCCTTTCAAAGCCCACAC
1 AAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCTAGGATACTTTCTTTTCAAAGCCCACAC
47585 AAGTTGGTGGCAGCTTTC-AGTCCTCAAAGAGCTAGAGGATACTTTTCTTTTCAAAGCCCACAC
1 AAGTTGGTGGCA-CTTTCTAGTCCTCAAAGAGCT--AGGATAC-TTTCTTTTCAAAGCCCACAC
* * * *
47648 AAATTGGTAGCATCTTT-TAGTCCTTAAAGAG-TAGGACACTTTCTTTT
1 AAGTTGGTGGCA-CTTTCTAGTCCTCAAAGAGCTAGGATACTTTCTTTT
47695 TTTCTTTGAA
Statistics
Matches: 145, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
59 81 0.56
60 11 0.08
62 8 0.06
63 45 0.31
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.31
Consensus pattern (60 bp):
AAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCTAGGATACTTTCTTTTCAAAGCCCACAC
Found at i:47677 original size:122 final size:118
Alignment explanation
Indices: 47467--47690 Score: 288
Period size: 122 Copynumber: 1.9 Consensus size: 118
47457 AAGCTCGCAT
* * *
47467 AAGTTGGTGGTACTTTCTAGTCCTCAAAGAGCATGACACTTTCTTTTCAAAGCCAACACAAGTTA
1 AAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAGGACACTTTCTTTTCAAAGCCAACACAAATTA
* *
47532 ATGGCACCTTCTAGTCCTCAAAGAGTAGGATACTTTCCTTTCAAAGCCCACAC
66 ATAGCACCTTCTAGTCCTCAAAGAGTAGGACACTTTCCTTTCAAAGCCCACAC
* *
47585 AAGTTGGTGGCAGCTTTC-AGTCCTCAAAGAGCTAGAGGATACTTTTCTTTTCAAAGCCCACACA
1 AAGTTGGTGGCA-CTTTCTAGTCCTCAAAGAGC---AGGACAC-TTTCTTTTCAAAGCCAACACA
** * * *
47649 AATTGGTAGCATCTTTTAGTCCTTAAAGAGTAGGACACTTTC
61 AATTAATAGCACCTTCTAGTCCTCAAAGAGTAGGACACTTTC
47691 TTTTTTTCTT
Statistics
Matches: 89, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
118 25 0.28
119 5 0.06
121 5 0.06
122 54 0.61
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (118 bp):
AAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAGGACACTTTCTTTTCAAAGCCAACACAAATTA
ATAGCACCTTCTAGTCCTCAAAGAGTAGGACACTTTCCTTTCAAAGCCCACAC
Found at i:48586 original size:20 final size:20
Alignment explanation
Indices: 48561--48618 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
48551 GTCAAAACCC
48561 TTAAAAGTATCGATACATAT
1 TTAAAAGTATCGATACATAT
*
48581 TTAAAAGTATCGATACATGT
1 TTAAAAGTATCGATACATAT
** *
48601 TGCAATGTATCGATACAT
1 TTAAAAGTATCGATACAT
48619 GAAAAAGATG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (20 bp):
TTAAAAGTATCGATACATAT
Found at i:48695 original size:19 final size:20
Alignment explanation
Indices: 48671--48721 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
48661 TAGCCAAACT
*
48671 TGTATCGATACA-CA-AAGTA
1 TGTATCGATACACCATAA-AA
*
48690 TGTATCAATACACCATAAAA
1 TGTATCGATACACCATAAAA
48710 TGTATCGATACA
1 TGTATCGATACA
48722 TTGGCTTGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 11 0.41
20 14 0.52
21 2 0.07
ACGTcount: A:0.43, C:0.18, G:0.12, T:0.27
Consensus pattern (20 bp):
TGTATCGATACACCATAAAA
Found at i:50335 original size:9 final size:9
Alignment explanation
Indices: 50321--50351 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
50311 CATCAAGGAC
50321 GATGAAGAT
1 GATGAAGAT
50330 GATGAAGAT
1 GATGAAGAT
*
50339 GATGATGAT
1 GATGAAGAT
50348 GATG
1 GATG
50352 GTGACTCAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.35, T:0.26
Consensus pattern (9 bp):
GATGAAGAT
Found at i:54912 original size:13 final size:13
Alignment explanation
Indices: 54894--54932 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
54884 ACATCATTCT
54894 TTGTATCGATACA
1 TTGTATCGATACA
54907 TTGTATCGATACA
1 TTGTATCGATACA
*
54920 CTGTATCGATACA
1 TTGTATCGATACA
54933 GGGGGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:56889 original size:41 final size:41
Alignment explanation
Indices: 56841--56922 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
56831 AAATAAATTT
56841 TTGATTAAGAGAAAGAGATAAGTGTTTATGATTAATTAAGG
1 TTGATTAAGAGAAAGAGATAAGTGTTTATGATTAATTAAGG
56882 TTGATTAAGAGAAAGAGATAAGTGTTTATGATTAATTAAGG
1 TTGATTAAGAGAAAGAGATAAGTGTTTATGATTAATTAAGG
56923 GGGAGAATGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.34
Consensus pattern (41 bp):
TTGATTAAGAGAAAGAGATAAGTGTTTATGATTAATTAAGG
Found at i:57628 original size:32 final size:33
Alignment explanation
Indices: 57587--57650 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
57577 ATAGCCAAAC
*
57587 TTGTATCGATACA-CA-AAGTATGTATCGATACT
1 TTGTATCGATACACCATAA-AATGTATCGATACT
57619 TTGTATCGATACACCATAAAATGTATCGATAC
1 TTGTATCGATACACCATAAAATGTATCGATAC
57651 ATTGGCTTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 13 0.45
33 14 0.48
34 2 0.07
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (33 bp):
TTGTATCGATACACCATAAAATGTATCGATACT
Found at i:61523 original size:52 final size:52
Alignment explanation
Indices: 61453--61573 Score: 206
Period size: 52 Copynumber: 2.3 Consensus size: 52
61443 GAAAATTTAT
* *
61453 CTGCATGTATCGATACATTTAATAGTGTATCGATATATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
* *
61505 TTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
61557 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
61574 AAGATCGGTG
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 64 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:61586 original size:52 final size:52
Alignment explanation
Indices: 61453--61593 Score: 178
Period size: 52 Copynumber: 2.7 Consensus size: 52
61443 GAAAATTTAT
* *
61453 CTGCATGTATCGATACATTTA-ATAGTGTATCGATATATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TAAGATAGTGTATCGATACATCTGGGCAAATTTGC
* *** *
61505 TTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGC
*
61557 CTGCATGTATCGATACA-AAGATCGGTGTATCGATACA
1 CTGCATGTATCGATACATAAGAT-AGTGTATCGATACA
61594 ATGTATCGAT
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
51 4 0.05
52 73 0.95
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:61600 original size:13 final size:13
Alignment explanation
Indices: 61582--61606 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61572 CAAAGATCGG
61582 TGTATCGATACAA
1 TGTATCGATACAA
61595 TGTATCGATACA
1 TGTATCGATACA
61607 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:61689 original size:13 final size:13
Alignment explanation
Indices: 61671--61695 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61661 AAAAAAAATA
61671 TGTATCGATACAT
1 TGTATCGATACAT
61684 TGTATCGATACA
1 TGTATCGATACA
61696 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:66566 original size:26 final size:27
Alignment explanation
Indices: 66530--66582 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
66520 ATTTAAGGTG
* *
66530 TATCGATACTATG-AACATGTATCGAT
1 TATCAATACTAAGCAACATGTATCGAT
*
66556 TATCAATACTAAGCAATATGTATCGAT
1 TATCAATACTAAGCAACATGTATCGAT
66583 ACATCTGGGC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (27 bp):
TATCAATACTAAGCAACATGTATCGAT
Found at i:66716 original size:22 final size:22
Alignment explanation
Indices: 66684--66764 Score: 71
Period size: 22 Copynumber: 3.7 Consensus size: 22
66674 ACTTTGAATT
66684 ATTT-TTGCTTGAAAACATTTG
1 ATTTATTGCTTGAAAACATTTG
*
66705 ATTTATTGCTTGAAAAAAATTT-
1 ATTTATTGCTTG-AAAACATTTG
* *
66727 A--TACTTAACTTTAAAACATTTG
1 ATTTA-TT-GCTTGAAAACATTTG
*
66749 ATTTATTGCTTAAAAA
1 ATTTATTGCTTGAAAA
66765 ATATTTATAC
Statistics
Matches: 47, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
20 2 0.04
21 14 0.30
22 19 0.40
23 10 0.21
24 2 0.04
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.44
Consensus pattern (22 bp):
ATTTATTGCTTGAAAACATTTG
Found at i:66726 original size:23 final size:21
Alignment explanation
Indices: 66684--66766 Score: 62
Period size: 21 Copynumber: 3.9 Consensus size: 21
66674 ACTTTGAATT
*
66684 ATTTTTGCTTGAAAACATTTG
1 ATTTTTGCTTGAAAAAATTTG
66705 ATTTATTGCTTGAAAAAAATTT-
1 ATTT-TTGCTTG-AAAAAATTTG
* ** * *
66727 ATACTTAACTTTAAAACATTTG
1 AT-TTTTGCTTGAAAAAATTTG
66749 ATTTATTGCTT-AAAAAAT
1 ATTT-TTGCTTGAAAAAAT
66767 ATTTATACTT
Statistics
Matches: 47, Mismatches: 10, Indels: 10
0.70 0.15 0.15
Matches are distributed among these distances:
21 19 0.40
22 19 0.40
23 9 0.19
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (21 bp):
ATTTTTGCTTGAAAAAATTTG
Found at i:66747 original size:21 final size:21
Alignment explanation
Indices: 66718--66791 Score: 53
Period size: 21 Copynumber: 3.4 Consensus size: 21
66708 TATTGCTTGA
*
66718 AAAAAATTTATACTTAACTTT
1 AAAACATTTATACTTAACTTT
* *
66739 AAAACATTTGAT--TTATTGCTTAA
1 AAAACATTT-ATACTTA--ACTT-T
* *
66762 AAAATATTTATACTTAACTCT
1 AAAACATTTATACTTAACTTT
66783 AAAACATTT
1 AAAACATTT
66792 TTGATATTGA
Statistics
Matches: 39, Mismatches: 8, Indels: 12
0.66 0.14 0.20
Matches are distributed among these distances:
20 3 0.08
21 16 0.41
22 9 0.23
23 8 0.21
24 3 0.08
ACGTcount: A:0.45, C:0.11, G:0.03, T:0.42
Consensus pattern (21 bp):
AAAACATTTATACTTAACTTT
Found at i:66758 original size:44 final size:44
Alignment explanation
Indices: 66695--66791 Score: 169
Period size: 44 Copynumber: 2.2 Consensus size: 44
66685 TTTTTGCTTG
*
66695 AAAACATTTGATTTATTGCTTGAAAAAA-ATTTATACTTAACTTT
1 AAAACATTTGATTTATTGCTT-AAAAAATATTTATACTTAACTCT
66739 AAAACATTTGATTTATTGCTTAAAAAATATTTATACTTAACTCT
1 AAAACATTTGATTTATTGCTTAAAAAATATTTATACTTAACTCT
66783 AAAACATTT
1 AAAACATTT
66792 TTGATATTGA
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
43 6 0.12
44 45 0.88
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.42
Consensus pattern (44 bp):
AAAACATTTGATTTATTGCTTAAAAAATATTTATACTTAACTCT
Found at i:67412 original size:43 final size:41
Alignment explanation
Indices: 67364--67492 Score: 177
Period size: 43 Copynumber: 3.0 Consensus size: 41
67354 AATAAAACTC
67364 ATATACTTCTCCCTTTTAATAAATTCTCCTCTTTTTAAAGCTT
1 ATATACTTCTCCC-TTTAATAAATTCTCC-CTTTTTAAAGCTT
*
67407 ATATACTTCTTCCCTTTAATAAATTCTCCCCTTTTTAAAGCTC
1 ATATACTTC-TCCCTTTAATAAATTCT-CCCTTTTTAAAGCTT
* *
67450 ATATACTTTTTCCCTTTAATAAATTCTCCCAATTTTAAAGCTT
1 ATATAC-TTCTCCCTTTAATAAATTCTCCC-TTTTTAAAGCTT
67493 TAAAACAAAT
Statistics
Matches: 78, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
42 3 0.04
43 67 0.86
44 8 0.10
ACGTcount: A:0.27, C:0.24, G:0.02, T:0.47
Consensus pattern (41 bp):
ATATACTTCTCCCTTTAATAAATTCTCCCTTTTTAAAGCTT
Found at i:67667 original size:36 final size:37
Alignment explanation
Indices: 67621--67690 Score: 97
Period size: 36 Copynumber: 1.9 Consensus size: 37
67611 AAAATGATAT
* *
67621 CAAGGAAAACATTAATTGCATTCATGAAA-AAAATAG
1 CAAGGAAAACATTAATTACAATCATGAAAGAAAATAG
* *
67657 CAAGGCAAACATTCATTACAATCATGAAAGAAAA
1 CAAGGAAAACATTAATTACAATCATGAAAGAAAA
67691 CATAATTTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
36 25 0.86
37 4 0.14
ACGTcount: A:0.53, C:0.14, G:0.13, T:0.20
Consensus pattern (37 bp):
CAAGGAAAACATTAATTACAATCATGAAAGAAAATAG
Found at i:77674 original size:19 final size:19
Alignment explanation
Indices: 77629--77700 Score: 83
Period size: 20 Copynumber: 3.7 Consensus size: 19
77619 ACTGCCAGTT
77629 TCATGTATCGATACAATTG-
1 TCATGTATCGATACAA-TGA
*
77648 TCCATGTATCGATATAATGA
1 T-CATGTATCGATACAATGA
*
77668 TCATGTATCGATACAAAGCA
1 TCATGTATCGATACAATG-A
*
77688 TAATGTATCGATA
1 TCATGTATCGATA
77701 GATTTGGGAG
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
19 18 0.39
20 28 0.61
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (19 bp):
TCATGTATCGATACAATGA
Found at i:86336 original size:13 final size:13
Alignment explanation
Indices: 86296--86343 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
86286 CCGTTATAAG
86296 CAATGTATCGATA
1 CAATGTATCGATA
86309 CAA--T-TC-AT-
1 CAATGTATCGATA
86317 C-ATGTATCGATA
1 CAATGTATCGATA
86329 CAATGTATCGATA
1 CAATGTATCGATA
86342 CA
1 CA
86344 TTTGTCCATG
Statistics
Matches: 29, Mismatches: 0, Indels: 12
0.71 0.00 0.29
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.10
10 4 0.14
11 3 0.10
12 1 0.03
13 16 0.55
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:86354 original size:33 final size:33
Alignment explanation
Indices: 86296--86364 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
86286 CCGTTATAAG
*
86296 CAATGTATCGATACAATTCATCATGTATCGATA
1 CAATGTATCGATACAATTCATCATGTATCAATA
**
86329 CAATGTATCGATAC-ATTTGTCCATGTATCAATA
1 CAATGTATCGATACAATTCAT-CATGTATCAATA
86362 CAA
1 CAA
86365 ACAGTGATAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
32 4 0.12
33 28 0.88
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (33 bp):
CAATGTATCGATACAATTCATCATGTATCAATA
Found at i:87954 original size:13 final size:13
Alignment explanation
Indices: 87913--87959 Score: 50
Period size: 13 Copynumber: 4.0 Consensus size: 13
87903 CCGTTACAAG
87913 CAATGTATCGATA
1 CAATGTATCGATA
87926 CAAT-T-TC-AT-
1 CAATGTATCGATA
87935 C-ATGTATCGATA
1 CAATGTATCGATA
*
87947 CAATGTATTGATA
1 CAATGTATCGATA
87960 TATTGTACCA
Statistics
Matches: 28, Mismatches: 1, Indels: 10
0.72 0.03 0.26
Matches are distributed among these distances:
8 2 0.07
9 2 0.07
10 4 0.14
11 4 0.14
12 2 0.07
13 14 0.50
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:88065 original size:19 final size:19
Alignment explanation
Indices: 88011--88066 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
88001 CTGCCAATCT
* **
88011 CATGTATTGATACAATTGTC
1 CATGTATCGATACAA-TGAA
* *
88031 CATGTATCAATGCAATGAA
1 CATGTATCGATACAATGAA
88050 CATGTATCGATACAATG
1 CATGTATCGATACAATG
88067 TATCGATACA
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:88069 original size:13 final size:13
Alignment explanation
Indices: 88051--88077 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
88041 TGCAATGAAC
88051 ATGTATCGATACA
1 ATGTATCGATACA
88064 ATGTATCGATACA
1 ATGTATCGATACA
88077 A
1 A
88078 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:88607 original size:22 final size:21
Alignment explanation
Indices: 88580--88625 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 21
88570 AGTTTTCATT
*
88580 TTTCTCCCCTTTAATCAAAGAA
1 TTTCTCCCCCTTAATCAAA-AA
88602 TTTCTCCCCCTTAATCAAAAA
1 TTTCTCCCCCTTAATCAAAAA
88623 TTT
1 TTT
88626 ATTTATTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.30, C:0.28, G:0.02, T:0.39
Consensus pattern (21 bp):
TTTCTCCCCCTTAATCAAAAA
Found at i:96712 original size:20 final size:21
Alignment explanation
Indices: 96667--96718 Score: 72
Period size: 20 Copynumber: 2.5 Consensus size: 21
96657 GTTACAAGTA
*
96667 ATGTATCGATACAATTTCATC
1 ATGTATCGATACAATTTCACC
96688 ATGTATCGATAC-ATTAT-ACC
1 ATGTATCGATACAATT-TCACC
96708 ATGTATCGATA
1 ATGTATCGATA
96719 TAAACAGTGG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 16 0.55
21 13 0.45
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.37
Consensus pattern (21 bp):
ATGTATCGATACAATTTCACC
Found at i:96794 original size:19 final size:20
Alignment explanation
Indices: 96750--96802 Score: 81
Period size: 19 Copynumber: 2.7 Consensus size: 20
96740 CTGCCAATCT
**
96750 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGAA
96770 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
96789 CATGTATCGATACA
1 CATGTATCGATACA
96803 TTCAAAGCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:96831 original size:13 final size:13
Alignment explanation
Indices: 96813--96840 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
96803 TTCAAAGCAT
96813 AATGTATCGATAC
1 AATGTATCGATAC
96826 AATGTATCGATAC
1 AATGTATCGATAC
96839 AA
1 AA
96841 AGCATAATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:97377 original size:3 final size:3
Alignment explanation
Indices: 97369--97402 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
97359 CGAGTTAACT
*
97369 TCA TCA TCA TCA TCA TCA TCA TCT TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
97403 TGATAGTTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.29, C:0.32, G:0.00, T:0.38
Consensus pattern (3 bp):
TCA
Found at i:100895 original size:13 final size:13
Alignment explanation
Indices: 100877--100901 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
100867 ATAATCCCCC
100877 TGTATCGATACAG
1 TGTATCGATACAG
100890 TGTATCGATACA
1 TGTATCGATACA
100902 AAGAAAAATG
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:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:102989 original size:15 final size:15
Alignment explanation
Indices: 102969--103009 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
102959 GTTCATCGAT
102969 TTCATTTGGAGCTTC
1 TTCATTTGGAGCTTC
*
102984 TTCATTTTGAGCTTC
1 TTCATTTGGAGCTTC
*
102999 CTCAATTTGGA
1 TTC-ATTTGGA
103010 CATTTTTATC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.46
Consensus pattern (15 bp):
TTCATTTGGAGCTTC
Found at i:104838 original size:21 final size:21
Alignment explanation
Indices: 104809--104853 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
104799 AAGTTTTTAT
*
104809 TTTTCTTAG-CTAACTCATTA
1 TTTTCTTAGCCAAACTCATTA
*
104829 TTTTCATTAGCCAAATTCATTA
1 TTTTC-TTAGCCAAACTCATTA
104851 TTT
1 TTT
104854 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 4 0.19
22 12 0.57
ACGTcount: A:0.27, C:0.18, G:0.04, T:0.51
Consensus pattern (21 bp):
TTTTCTTAGCCAAACTCATTA
Found at i:107112 original size:19 final size:19
Alignment explanation
Indices: 107055--107112 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 19
107045 TACAAGCCAA
* * *
107055 TGTATTGATACAATTTTTTG
1 TGTATCGATACAA-GTTTGG
*
107075 TGTATCGATATATAG-TTGG
1 TGTATCGATACA-AGTTTGG
107094 TGTATCGATACAAGTTTGG
1 TGTATCGATACAAGTTTGG
107113 CTACTGCCAA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
18 2 0.06
19 18 0.58
20 10 0.32
21 1 0.03
ACGTcount: A:0.26, C:0.07, G:0.22, T:0.45
Consensus pattern (19 bp):
TGTATCGATACAAGTTTGG
Found at i:108866 original size:13 final size:13
Alignment explanation
Indices: 108848--108872 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
108838 TACTATGAAC
108848 ATGTATCGATACA
1 ATGTATCGATACA
108861 ATGTATCGATAC
1 ATGTATCGATAC
108873 TAAGCAATAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:112071 original size:52 final size:51
Alignment explanation
Indices: 112011--112397 Score: 226
Period size: 52 Copynumber: 7.4 Consensus size: 51
112001 GAAATAACGA
*
112011 GGTTGGAGTATCCTCGATTGTAA-AAAATTGGTGTTTTTGGAAATAAAATCGA
1 GGTTGGAGTATCCTCGATT-TAAGAAAATTGGTG-TTTTGGAAATAAAATCGG
* * * * * *
112063 AGTTGGAGTATCCTCAATTAAAGGAAAATTAGTGTTTTAGAAATAAAACCGG
1 GGTTGGAGTATCCTCGATTTAA-GAAAATTGGTGTTTTGGAAATAAAATCGG
* * * * *** * * *
112115 TGTTGGAGTATCCAC-AATTATGAGAAATCAATATTTTGGAAACAAAGTCGG
1 GGTTGGAGTATCCTCGATTTAAGA-AAATTGGTGTTTTGGAAATAAAATCGG
** *** * * ***** * *
112166 GGTTGGAGTATCCCCTCGGAGGTAATG-GGGTTGGAGTATCCCCGATGAAATAACGA
1 GGTTGGAGTAT--CCTC-GATTTAA-GAAAATTGGTGTTTTGGAAAT-AAA-ATCGG
112222 GGTTGGAGTATCCTCGATTGTGAA-AAAATTGGTGTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCTCGATT-T-AAGAAAATTGGTG-TTTTGGAAATAAAATCGG
* * * * *
112275 AGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAA-CAGA
1 GGTTGGAGTATCCTCGATTTAA-GAAAATTGGTGTTTTGGAAATAAAATC-GG
* * * *
112327 GGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCTCGATTTAA-GAAAATTGGTGTTTTGGAAATAAAATCGG
*
112379 GGTTGGAGTATCCCCGATT
1 GGTTGGAGTATCCTCGATT
112398 ATGAACAATT
Statistics
Matches: 254, Mismatches: 63, Indels: 36
0.72 0.18 0.10
Matches are distributed among these distances:
50 2 0.01
51 38 0.15
52 126 0.50
53 45 0.18
54 17 0.07
55 12 0.05
56 14 0.06
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCTCGATTTAAGAAAATTGGTGTTTTGGAAATAAAATCGG
Found at i:112169 original size:211 final size:212
Alignment explanation
Indices: 111925--112339 Score: 701
Period size: 211 Copynumber: 2.0 Consensus size: 212
111915 TATCCCCTAG
* *
111925 GAGAAATCAATATTTTGGACATAAAGCCGGGGTTAGAGTATCCCCTCGGAGGTAACGGGGTTGGA
1 GAGAAATCAATATTTTGGAAACAAAGCCGGGGTTAGAGTATCCCCTCGGAGGTAACGGGGTTGGA
111990 GTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGT-AAAAAATTGGTGTTTTTGGAAA
66 GTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAAATTGGTGTTTTTGGAAA
* *
112054 TAAAATCGAAGTTGGAGTATCCTCAATTAAAGGAAAATTAGTGTTTT-AGAAATAAAACCG-GTG
131 TAAAATCGAAGTTGGAGTATCCCCAATTAAAGGAAAATTAGTGTTTTGA-AAATAAAACAGAG-G
112117 TTGGAGTATCCACAATTAT
194 TTGGAGTATCCACAATTAT
* * *
112136 GAGAAATCAATATTTTGGAAACAAAGTCGGGGTTGGAGTATCCCCTCGGAGGTAATGGGGTTGGA
1 GAGAAATCAATATTTTGGAAACAAAGCCGGGGTTAGAGTATCCCCTCGGAGGTAACGGGGTTGGA
112201 GTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAAATTGGTGTTTTTGGAAA
66 GTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAAATTGGTGTTTTTGGAAA
* * *
112266 TAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACAGAGGTT
131 TAAAATCGAAGTTGGAGTATCCCCAATTAAAGGAAAATTAGTGTTTTGAAAATAAAACAGAGGTT
112331 GGAGTATCC
196 GGAGTATCC
112340 CCGATTAAAG
Statistics
Matches: 191, Mismatches: 10, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
211 102 0.53
212 87 0.46
213 2 0.01
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.28
Consensus pattern (212 bp):
GAGAAATCAATATTTTGGAAACAAAGCCGGGGTTAGAGTATCCCCTCGGAGGTAACGGGGTTGGA
GTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAAATTGGTGTTTTTGGAAA
TAAAATCGAAGTTGGAGTATCCCCAATTAAAGGAAAATTAGTGTTTTGAAAATAAAACAGAGGTT
GGAGTATCCACAATTAT
Found at i:112293 original size:53 final size:50
Alignment explanation
Indices: 112223--112398 Score: 228
Period size: 52 Copynumber: 3.4 Consensus size: 50
112213 AAATAACGAG
* * *
112223 GTTGGAGTATCCTCGATTGTGAA-AAAATTGGTGTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGA-T-TAAAGAAAATTGGTG-TTTTGAAAATAAAA-CGGA
*
112276 GTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACAGA
1 GTTGGAGTATCCCCGATTAAA-GAAAATTGGTGTTTTGAAAATAAAACGGA
*
112327 GGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGGG
1 -GTTGGAGTATCCCCGATTAAA-GAAAATTGGTGTTTTGAAAATAAAA-CGGA
112380 GTTGGAGTATCCCCGATTA
1 GTTGGAGTATCCCCGATTA
112399 TGAACAATTG
Statistics
Matches: 113, Mismatches: 6, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
51 6 0.05
52 80 0.71
53 27 0.24
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.30
Consensus pattern (50 bp):
GTTGGAGTATCCCCGATTAAAGAAAATTGGTGTTTTGAAAATAAAACGGA
Found at i:112398 original size:52 final size:52
Alignment explanation
Indices: 112246--112398 Score: 252
Period size: 52 Copynumber: 2.9 Consensus size: 52
112236 CGATTGTGAA
* * *
112246 AAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGG
1 AAAATTGGTG-TTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTAAAGG
* *
112299 AAAATTGGTGTTTTGAAAATAAAACAGAGGTTGGAGTATCCCCGATTAAAGG
1 AAAATTGGTGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTAAAGG
112351 AAAATTGGTGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTA
1 AAAATTGGTGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTA
112399 TGAACAATTG
Statistics
Matches: 93, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
52 83 0.89
53 10 0.11
ACGTcount: A:0.35, C:0.10, G:0.25, T:0.29
Consensus pattern (52 bp):
AAAATTGGTGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTAAAGG
Found at i:114779 original size:13 final size:13
Alignment explanation
Indices: 114761--114786 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
114751 ACAAAGATCG
114761 ATGTATCGATACA
1 ATGTATCGATACA
114774 ATGTATCGATACA
1 ATGTATCGATACA
114787 CTCTACAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:114971 original size:21 final size:21
Alignment explanation
Indices: 114930--114971 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
114920 GTTGGGACCT
*
114930 TGTATCGATACATTTATACAA
1 TGTATCGATACATTTAGACAA
*
114951 TGTATCGATACATTTGGACAA
1 TGTATCGATACATTTAGACAA
114972 AAATGAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTTAGACAA
Found at i:116406 original size:16 final size:17
Alignment explanation
Indices: 116380--116415 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
116370 TAAATATAAA
116380 AATATAAATTAATACAT
1 AATATAAATTAATACAT
*
116397 AATA-AAATTAATACTT
1 AATATAAATTAATACAT
116413 AAT
1 AAT
116416 TATAGACTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (17 bp):
AATATAAATTAATACAT
Found at i:117429 original size:20 final size:20
Alignment explanation
Indices: 117404--117448 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
117394 TAAAAGAAGT
117404 ATTTATGAATATTGAGGAGA
1 ATTTATGAATATTGAGGAGA
117424 ATTTATGAATATTGAGGAGA
1 ATTTATGAATATTGAGGAGA
117444 ATTTA
1 ATTTA
117449 GAAATTTCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.22, T:0.38
Consensus pattern (20 bp):
ATTTATGAATATTGAGGAGA
Found at i:118669 original size:21 final size:20
Alignment explanation
Indices: 118622--118674 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
118612 CATTTGAGAG
*
118622 ATGTATCGATACATTCACTT
1 ATGTATCGATACATTCACTA
118642 ATGTATCGATACATTCACTA
1 ATGTATCGATACATTCACTA
118662 ATTGTATCGATAC
1 A-TGTATCGATAC
118675 GAATTATATA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 20 0.65
21 11 0.35
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTCACTA
Found at i:119357 original size:31 final size:31
Alignment explanation
Indices: 119322--119532 Score: 102
Period size: 31 Copynumber: 6.8 Consensus size: 31
119312 ACTAAGACTT
* *
119322 AGGTGCCACCAACTTATGTGGGCTTTTACTC
1 AGGTGTCACCAACTCATGTGGGCTTTTACTC
** * * ** **
119353 AGGTGTTGCCAAATCGTACGGGCTTAGACTC
1 AGGTGTCACCAACTCATGTGGGCTTTTACTC
* * * * *
119384 -GAGTGTCGCCAACTTATGTAGGCTTTAACTA
1 AG-GTGTCACCAACTCATGTGGGCTTTTACTC
*
119415 AGGTGTCACAAACTCATGTGGGCTTTTACTC
1 AGGTGTCACCAACTCATGTGGGCTTTTACTC
*** * * ** * **
119446 AGGTGTTGTCAAATCGTACGAGCTTAGACTC
1 AGGTGTCACCAACTCATGTGGGCTTTTACTC
* * * *
119477 -GAGTGTCGCCAACTTATGTGGGCTTTAACTA
1 AG-GTGTCACCAACTCATGTGGGCTTTTACTC
* *
119508 AGGTGCCACAAACTCATGTGGGCTT
1 AGGTGTCACCAACTCATGTGGGCTT
119533 AGATTTAGAC
Statistics
Matches: 124, Mismatches: 52, Indels: 8
0.67 0.28 0.04
Matches are distributed among these distances:
30 2 0.02
31 120 0.97
32 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (31 bp):
AGGTGTCACCAACTCATGTGGGCTTTTACTC
Found at i:119377 original size:68 final size:68
Alignment explanation
Indices: 119249--119382 Score: 160
Period size: 68 Copynumber: 2.0 Consensus size: 68
119239 ACTTGACTCG
* * ** * * *
119249 GACTTAAGTGCCACCAGCTTGTATGGGCTTTGACTCAGGTGCTGCCATCTTGTGCAGGCTTTGAC
1 GACTTAAGTGCCACCAACTTATATGGGCTTTGACTCAGGTGCTGCCAAATCGTACAGGCTTAGAC
119314 TAA
66 TAA
* * * * *
119317 GACTTAGGTGCCACCAACTTATGTGGGCTTTTACTCAGGTGTTGCCAAATCGTACGGGCTTAGAC
1 GACTTAAGTGCCACCAACTTATATGGGCTTTGACTCAGGTGCTGCCAAATCGTACAGGCTTAGAC
119382 T
66 T
119383 CGAGTGTCGC
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
68 54 1.00
ACGTcount: A:0.20, C:0.23, G:0.26, T:0.31
Consensus pattern (68 bp):
GACTTAAGTGCCACCAACTTATATGGGCTTTGACTCAGGTGCTGCCAAATCGTACAGGCTTAGAC
TAA
Found at i:119448 original size:93 final size:93
Alignment explanation
Indices: 119322--119532 Score: 368
Period size: 93 Copynumber: 2.3 Consensus size: 93
119312 ACTAAGACTT
* * *
119322 AGGTGCCACCAACTTATGTGGGCTTTTACTCAGGTGTTGCCAAATCGTACGGGCTTAGACTCGAG
1 AGGTGCCACAAACTCATGTGGGCTTTTACTCAGGTGTTGCCAAATCGTACGAGCTTAGACTCGAG
119387 TGTCGCCAACTTATGTAGGCTTTAACTA
66 TGTCGCCAACTTATGTAGGCTTTAACTA
* *
119415 AGGTGTCACAAACTCATGTGGGCTTTTACTCAGGTGTTGTCAAATCGTACGAGCTTAGACTCGAG
1 AGGTGCCACAAACTCATGTGGGCTTTTACTCAGGTGTTGCCAAATCGTACGAGCTTAGACTCGAG
*
119480 TGTCGCCAACTTATGTGGGCTTTAACTA
66 TGTCGCCAACTTATGTAGGCTTTAACTA
119508 AGGTGCCACAAACTCATGTGGGCTT
1 AGGTGCCACAAACTCATGTGGGCTT
119533 AGATTTAGAC
Statistics
Matches: 111, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 111 1.00
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (93 bp):
AGGTGCCACAAACTCATGTGGGCTTTTACTCAGGTGTTGCCAAATCGTACGAGCTTAGACTCGAG
TGTCGCCAACTTATGTAGGCTTTAACTA
Found at i:119565 original size:37 final size:37
Alignment explanation
Indices: 119524--119813 Score: 194
Period size: 37 Copynumber: 8.2 Consensus size: 37
119514 CACAAACTCA
*
119524 TGTGGGCTTAGATTTAGACTTAGGTGCCACCAGCTTG
1 TGTGGGCTTAGACTTAGACTTAGGTGCCACCAGCTTG
* * * * *
119561 TGTGGGCTTTGACTCAGACTTAAGTACCACCAGCTTA
1 TGTGGGCTTAGACTTAGACTTAGGTGCCACCAGCTTG
* * * * **
119598 TGTAGGC-T----TT-GACTTAGATGCCGCCAACTCA
1 TGTGGGCTTAGACTTAGACTTAGGTGCCACCAGCTTG
* * *
119629 T-TCAGGCTTAGACTTAGACTTAGCTGCCACCAACTTG
1 TGT-GGGCTTAGACTTAGACTTAGGTGCCACCAGCTTG
* *
119666 TGTGGGCTTTA-ACTTAGACTTAGGTGCCACTATCTTG
1 TGTGGGC-TTAGACTTAGACTTAGGTGCCACCAGCTTG
* * * *
119703 TGTGGGC-T----TT-GACTTAAGTGCTACCAACTTA
1 TGTGGGCTTAGACTTAGACTTAGGTGCCACCAGCTTG
** * * *
119734 TGCAGGCTTAGACATAGACTTAGGTGCGACTAGCTTG
1 TGTGGGCTTAGACTTAGACTTAGGTGCCACCAGCTTG
* * * *
119771 TATAGGCTTTGACTCAGACTTAGGTGCCACCAGCTTG
1 TGTGGGCTTAGACTTAGACTTAGGTGCCACCAGCTTG
119808 TGTGGG
1 TGTGGG
119814 TTTTGACTCG
Statistics
Matches: 194, Mismatches: 44, Indels: 30
0.72 0.16 0.11
Matches are distributed among these distances:
30 1 0.01
31 41 0.21
32 5 0.03
35 1 0.01
36 4 0.02
37 138 0.71
38 4 0.02
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (37 bp):
TGTGGGCTTAGACTTAGACTTAGGTGCCACCAGCTTG
Found at i:119638 original size:105 final size:105
Alignment explanation
Indices: 119493--119852 Score: 402
Period size: 105 Copynumber: 3.4 Consensus size: 105
119483 CGCCAACTTA
* * ** *
119493 TGTGGGCTTTAAC-TAAGGTGCCACAAACTCATGTGGGCTTAGATTTAGACTTAGGTGCCACCAG
1 TGTGGGCTTTGACTTAA-GTGCCACCAACTCATGCAGGCTTAGACTTAGACTTAGGTGCCACCAG
* * *
119557 CTTGTGTGGGCTTTGACTCAGACTTAAGTACCACCAGCTTA
65 CTTGTGTGGGCTTTGACTCAGACTTAGGTGCCACCAGCTTG
* * * * *
119598 TGTAGGCTTTGACTT-AGATGCCGCCAACTCATTCAGGCTTAGACTTAGACTTAGCTGCCACCAA
1 TGTGGGCTTTGACTTAAG-TGCCACCAACTCATGCAGGCTTAGACTTAGACTTAGGTGCCACCAG
* * * *
119662 CTTGTGTGGGCTTTAACTTAGACTTAGGTGCCACTATCTTG
65 CTTGTGTGGGCTTTGACTCAGACTTAGGTGCCACCAGCTTG
* * * * *
119703 TGTGGGCTTTGACTTAAGTGCTACCAACTTATGCAGGCTTAGACATAGACTTAGGTGCGACTAGC
1 TGTGGGCTTTGACTTAAGTGCCACCAACTCATGCAGGCTTAGACTTAGACTTAGGTGCCACCAGC
* *
119768 TTGTATAGGCTTTGACTCAGACTTAGGTGCCACCAGCTTG
66 TTGTGTGGGCTTTGACTCAGACTTAGGTGCCACCAGCTTG
* *** * *
119808 TGTGGGTTTTGACTCGGGTGCTACCAACTCTTGC-GAGCTTAGACT
1 TGTGGGCTTTGACTTAAGTGCCACCAACTCATGCAG-GCTTAGACT
119853 CGGGTGTCGC
Statistics
Matches: 211, Mismatches: 40, Indels: 8
0.81 0.15 0.03
Matches are distributed among these distances:
104 2 0.01
105 206 0.98
106 3 0.01
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (105 bp):
TGTGGGCTTTGACTTAAGTGCCACCAACTCATGCAGGCTTAGACTTAGACTTAGGTGCCACCAGC
TTGTGTGGGCTTTGACTCAGACTTAGGTGCCACCAGCTTG
Found at i:119717 original size:68 final size:68
Alignment explanation
Indices: 119645--119784 Score: 167
Period size: 68 Copynumber: 2.1 Consensus size: 68
119635 CTTAGACTTA
* ** * * * *
119645 GACTT-AGCTGCCACCAACTTGTGTGGGCTTTA-ACTTAGACTTAGGTGCCACTATCTTGTGTGG
1 GACTTAAG-TGCCACCAACTTATGCAGGC-TTAGACATAGACTTAGGTGCCACTAGCTTGTATAG
119708 GCTTT
64 GCTTT
* *
119713 GACTTAAGTGCTACCAACTTATGCAGGCTTAGACATAGACTTAGGTGCGACTAGCTTGTATAGGC
1 GACTTAAGTGCCACCAACTTATGCAGGCTTAGACATAGACTTAGGTGCCACTAGCTTGTATAGGC
119778 TTT
66 TTT
119781 GACT
1 GACT
119785 CAGACTTAGG
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
67 3 0.05
68 56 0.92
69 2 0.03
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (68 bp):
GACTTAAGTGCCACCAACTTATGCAGGCTTAGACATAGACTTAGGTGCCACTAGCTTGTATAGGC
TTT
Found at i:119828 original size:31 final size:31
Alignment explanation
Indices: 119793--119909 Score: 103
Period size: 31 Copynumber: 3.8 Consensus size: 31
119783 CTCAGACTTA
*
119793 GGTGCCACCAGCTTGTGTGGGTTTTGACTCG
1 GGTGCCACCAGCTTGTGTGGGCTTTGACTCG
* * * * *
119824 GGTGCTACCAACTCT-TGCGAGCTTAGACTCG
1 GGTGCCACCAGCT-TGTGTGGGCTTTGACTCG
* * * *
119855 GGTGTCGCCAGCTTGTATGGGCTTTGACTAG
1 GGTGCCACCAGCTTGTGTGGGCTTTGACTCG
*
119886 GGTGCCA-CTGACTTGTGTGGGCTT
1 GGTGCCACCAG-CTTGTGTGGGCTT
119910 ATAAAAGAGG
Statistics
Matches: 64, Mismatches: 19, Indels: 6
0.72 0.21 0.07
Matches are distributed among these distances:
30 3 0.05
31 60 0.94
32 1 0.02
ACGTcount: A:0.13, C:0.23, G:0.33, T:0.31
Consensus pattern (31 bp):
GGTGCCACCAGCTTGTGTGGGCTTTGACTCG
Found at i:119964 original size:35 final size:33
Alignment explanation
Indices: 119920--120036 Score: 103
Period size: 34 Copynumber: 3.4 Consensus size: 33
119910 ATAAAAGAGG
* * *
119920 AAAGAAAAAGAAGAGGCGTCCTATTCTTTGAGGAT
1 AAAGGAAAAG-AGA-GCGTCCTATTCTTTAAGGAC
* *
119955 AAAGGAAAAG-GAGTACGTCCTATTCTTCAAGGAG
1 AAAGGAAAAGAGAG--CGTCCTATTCTTTAAGGAC
*
119989 AAAAGAAAATGAGTA-CGTCCTATTCTTTAAGGAC
1 AAAGGAAAA-GAG-AGCGTCCTATTCTTTAAGGAC
*
120023 AAAGGAAAAAAGAG
1 AAAGGAAAAGAGAG
120037 AATAAAATGG
Statistics
Matches: 67, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
32 2 0.03
33 4 0.06
34 49 0.73
35 10 0.15
36 1 0.01
37 1 0.01
ACGTcount: A:0.44, C:0.12, G:0.24, T:0.21
Consensus pattern (33 bp):
AAAGGAAAAGAGAGCGTCCTATTCTTTAAGGAC
Found at i:119974 original size:34 final size:34
Alignment explanation
Indices: 119936--120031 Score: 138
Period size: 34 Copynumber: 2.8 Consensus size: 34
119926 AAAGAAGAGG
* *
119936 CGTCCTATTCTTTGAGGATAAAGGAAAAGGAGTA
1 CGTCCTATTCTTTAAGGACAAAGGAAAAGGAGTA
* * * *
119970 CGTCCTATTCTTCAAGGAGAAAAGAAAATGAGTA
1 CGTCCTATTCTTTAAGGACAAAGGAAAAGGAGTA
120004 CGTCCTATTCTTTAAGGACAAAGGAAAA
1 CGTCCTATTCTTTAAGGACAAAGGAAAA
120032 AAGAGAATAA
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 54 1.00
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.25
Consensus pattern (34 bp):
CGTCCTATTCTTTAAGGACAAAGGAAAAGGAGTA
Found at i:120116 original size:43 final size:42
Alignment explanation
Indices: 120072--120196 Score: 144
Period size: 43 Copynumber: 2.9 Consensus size: 42
120062 GACAAAGGGA
* *
120072 AAAT-AAGTGTGTCTTACTCTATAAGGATAAAGGGAAAAAAGG
1 AAATGAAGTGTGTCTTGCTCT-TAAGGACAAAGGGAAAAAAGG
** *
120114 AAATGAAGTGCATCCTGCTCCTTAAGGACAAAGGGAAAAAAGG
1 AAATGAAGTGTGTCTTGCT-CTTAAGGACAAAGGGAAAAAAGG
* *
120157 AAATGAAGTATGTCTTGCTCTTTTGAGGACAAAGGGAAAA
1 AAATGAAGTGTGTCTTGCTC--TTAAGGACAAAGGGAAAA
120197 GAAGTGTGTC
Statistics
Matches: 69, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
42 5 0.07
43 45 0.65
44 19 0.28
ACGTcount: A:0.42, C:0.11, G:0.25, T:0.22
Consensus pattern (42 bp):
AAATGAAGTGTGTCTTGCTCTTAAGGACAAAGGGAAAAAAGG
Found at i:120201 original size:36 final size:35
Alignment explanation
Indices: 120155--120231 Score: 91
Period size: 35 Copynumber: 2.2 Consensus size: 35
120145 AGGGAAAAAA
* * * **
120155 GGAAATGAAGTATGTCTTGCTCTTTTGAGGACAAAG
1 GGAAAAGAAGTATGTCCTACT-TTTAAAGGACAAAG
*
120191 GGAAAAGAAGTGTGTCCTACTTTTAAAGGACAAAG
1 GGAAAAGAAGTATGTCCTACTTTTAAAGGACAAAG
120226 GGAAAA
1 GGAAAA
120232 AAAGGAAATA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
35 18 0.51
36 17 0.49
ACGTcount: A:0.38, C:0.10, G:0.27, T:0.25
Consensus pattern (35 bp):
GGAAAAGAAGTATGTCCTACTTTTAAAGGACAAAG
Found at i:120203 original size:122 final size:121
Alignment explanation
Indices: 120015--120264 Score: 317
Period size: 122 Copynumber: 2.1 Consensus size: 121
120005 GTCCTATTCT
* *
120015 TTAAGGACAAAGGAAAAAAGAGAATAAAATGGGTCCTGCTCCTTGAGGACAAAGGGAAAATAAGT
1 TTAAGGACAAAGGAAAAAAGAGAATAAAATAGGTCCTGCTCCTTGAGGACAAAGGGAAAAGAAGT
* * * *
120080 GTGTCTTACTCTAT-AAGGATAAAGGG-AAAAAAGGAAATGAAGTGCATCCTGCTCC
66 GTGTCCTACT-TATAAAGGACAAAGGGAAAAAAAGGAAATAAAGTGCATCCTGCCCC
* * * * *
120135 TTAAGGACAAAGGGAAAAAAG-GAAATGAAGTATGTCTTGCTCTTTTGAGGACAAAGGGAAAAGA
1 TTAAGGACAAA-GGAAAAAAGAG-AATAAAATAGGTCCTGCTC-CTTGAGGACAAAGGGAAAAGA
* *
120199 AGTGTGTCCTACTTTTAAAGGACAAAGGGAAAAAAAGGAAATAAAGTGCGTCCTGCCCC
63 AGTGTGTCCTACTTATAAAGGACAAAGGGAAAAAAAGGAAATAAAGTGCATCCTGCCCC
*
120258 TTGAGGA
1 TTAAGGA
120265 TGAAAGAAAA
Statistics
Matches: 111, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
120 12 0.11
121 25 0.23
122 42 0.38
123 32 0.29
ACGTcount: A:0.41, C:0.13, G:0.26, T:0.20
Consensus pattern (121 bp):
TTAAGGACAAAGGAAAAAAGAGAATAAAATAGGTCCTGCTCCTTGAGGACAAAGGGAAAAGAAGT
GTGTCCTACTTATAAAGGACAAAGGGAAAAAAAGGAAATAAAGTGCATCCTGCCCC
Found at i:125572 original size:19 final size:21
Alignment explanation
Indices: 125536--125574 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
125526 ACATTTCTTA
*
125536 TTTTTGAAAATATTTTAAGAT
1 TTTTTGAAAATATCTTAAGAT
125557 TTTTTGAAAA-A-CTTAAGA
1 TTTTTGAAAATATCTTAAGA
125575 AATTTGACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 1 0.06
21 10 0.59
ACGTcount: A:0.41, C:0.03, G:0.10, T:0.46
Consensus pattern (21 bp):
TTTTTGAAAATATCTTAAGAT
Found at i:127925 original size:24 final size:25
Alignment explanation
Indices: 127878--127925 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
127868 AAATAGCAGC
*
127878 AAGAAAGGAGAAAAGCAACGTGAAT
1 AAGAAAGGAGAAAAGCAACATGAAT
*
127903 AAGAAAGGA-AGAAGCAACATGAA
1 AAGAAAGGAGAAAAGCAACATGAA
127926 AAATGAACAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.58, C:0.08, G:0.27, T:0.06
Consensus pattern (25 bp):
AAGAAAGGAGAAAAGCAACATGAAT
Found at i:129360 original size:16 final size:17
Alignment explanation
Indices: 129337--129378 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 17
129327 AAAATTTTTT
*
129337 TAAAAAAAAATAATAATAA
1 TAAAATAAAATAAT-A-AA
129356 TAAAATAAAATAATAAA
1 TAAAATAAAATAATAAA
129373 TAAAAT
1 TAAAAT
129379 TTTTTTCATC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 8 0.36
18 1 0.05
19 13 0.59
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
TAAAATAAAATAATAAA
Found at i:129369 original size:13 final size:13
Alignment explanation
Indices: 129343--129378 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
129333 TTTTTAAAAA
129343 AAAATAATAATAAT
1 AAAATAA-AATAAT
129357 AAAATAAAATAAT
1 AAAATAAAATAAT
129370 -AAATAAAAT
1 AAAATAAAAT
129379 TTTTTTCATC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 9 0.41
13 6 0.27
14 7 0.32
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (13 bp):
AAAATAAAATAAT
Found at i:132022 original size:44 final size:43
Alignment explanation
Indices: 131925--132023 Score: 110
Period size: 44 Copynumber: 2.2 Consensus size: 43
131915 TTTCCTCTAA
* *
131925 AAATGAAAAAAAACAAAAATGCAAAAAAATGAAATAAAAAGTGC
1 AAATG-AAAAAAACAAAAATGCAAAAAAATGAAAGAAAAAGAGC
* * *
131969 AAATAGAAAAAAAGAAAAATG-AAAATAATGAAAGAAAAGATGAGG
1 AAAT-GAAAAAAACAAAAATGCAAAAAAATGAAAGAAAA-A-GAGC
132014 AAATGAAAAA
1 AAATGAAAAA
132024 TGGGGCATCC
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
43 15 0.32
44 25 0.53
45 7 0.15
ACGTcount: A:0.71, C:0.03, G:0.15, T:0.11
Consensus pattern (43 bp):
AAATGAAAAAAACAAAAATGCAAAAAAATGAAAGAAAAAGAGC
Found at i:133140 original size:26 final size:26
Alignment explanation
Indices: 133109--133168 Score: 111
Period size: 26 Copynumber: 2.3 Consensus size: 26
133099 TTGTTGATGC
*
133109 TTGCATTTGTATCATTTTACATGCAT
1 TTGCATTCGTATCATTTTACATGCAT
133135 TTGCATTCGTATCATTTTACATGCAT
1 TTGCATTCGTATCATTTTACATGCAT
133161 TTGCATTC
1 TTGCATTC
133169 AGATTACATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.22, C:0.18, G:0.12, T:0.48
Consensus pattern (26 bp):
TTGCATTCGTATCATTTTACATGCAT
Found at i:135667 original size:11 final size:11
Alignment explanation
Indices: 135651--135675 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
135641 AATTTCCTCT
135651 AAAAATGAAAA
1 AAAAATGAAAA
135662 AAAAATGAAAA
1 AAAAATGAAAA
135673 AAA
1 AAA
135676 TGCAAAAGCA
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:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (11 bp):
AAAAATGAAAA
Found at i:137539 original size:89 final size:89
Alignment explanation
Indices: 137409--137578 Score: 270
Period size: 89 Copynumber: 1.9 Consensus size: 89
137399 ATCCCCTTTA
* *
137409 TCCAACCACTAGATAGTACTGATGCATCACCAAGCCTAATTTCCTTGGGGCAACGTGCAGCCCTC
1 TCCAACCACTAGATAGTACTGATGCATCACCAAGCCTAATTTCCTTGGGGCAACGTACAGCCCAC
* *
137474 ACATTCCTAATTATATTCTTTTCC
66 ACATTACTAATCATATTCTTTTCC
* *
137498 TCCAACCACTAGATGGTA-TTAGTGCATCACCAAGCCTAATTTCCTTGGGGCAACGTACAGCCCA
1 TCCAACCACTAGATAGTACTGA-TGCATCACCAAGCCTAATTTCCTTGGGGCAACGTACAGCCCA
137562 CACATTACTAATCATAT
65 CACATTACTAATCATAT
137579 CCTTCCTTGC
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
88 2 0.03
89 72 0.97
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.28
Consensus pattern (89 bp):
TCCAACCACTAGATAGTACTGATGCATCACCAAGCCTAATTTCCTTGGGGCAACGTACAGCCCAC
ACATTACTAATCATATTCTTTTCC
Found at i:137622 original size:89 final size:89
Alignment explanation
Indices: 137431--137615 Score: 239
Period size: 89 Copynumber: 2.1 Consensus size: 89
137421 ATAGTACTGA
* * * * *
137431 TGCATCACCAAGCCTAATTTCCTTGGGGCAACGTGCAGCCCTCACATTCCTAATTATATTCTTTT
1 TGCATCACCAAGCCTAATTTCCTTGGGGCAACGTACAGCCCACACATTACTAATCATATTCTCTT
* * * *
137496 CCTCCAACCACTAGATGGTATTAG
66 CCTCCAAACACCAGAAGATATTAG
137520 TGCATCACCAAGCCTAATTTCCTTGGGGCAACGTACAGCCCACACATTACTAATCATA-TC-CTT
1 TGCATCACCAAGCCTAATTTCCTTGGGGCAACGTACAGCCCACACATTACTAATCATATTCTCTT
* *
137583 CCTTGCCAAATACCAGAAGATATTGG
66 CC-T-CCAAACACCAGAAGATATTAG
137609 TGCATCA
1 TGCATCA
137616 TAAAGCCAAA
Statistics
Matches: 83, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
87 4 0.05
88 3 0.04
89 76 0.92
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.29
Consensus pattern (89 bp):
TGCATCACCAAGCCTAATTTCCTTGGGGCAACGTACAGCCCACACATTACTAATCATATTCTCTT
CCTCCAAACACCAGAAGATATTAG
Found at i:138574 original size:13 final size:13
Alignment explanation
Indices: 138556--138581 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
138546 CAATTTTTTG
138556 TGTATCGATACAT
1 TGTATCGATACAT
138569 TGTATCGATACAT
1 TGTATCGATACAT
138582 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:138593 original size:32 final size:33
Alignment explanation
Indices: 138536--138599 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
138526 TACAAGCCAA
**
138536 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
138569 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
138600 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:139725 original size:127 final size:128
Alignment explanation
Indices: 139530--139764 Score: 348
Period size: 127 Copynumber: 1.8 Consensus size: 128
139520 ACTCAGTCCT
* * * *
139530 GAGAGACTTCCTTTATCAATCATCGGCCCATTGGCTTAGACCCAGGATACTTTATTTGTCAATCG
1 GAGAGACTTCCTTTATCAATCATCGGCCCATCGACTTAGACCCAGGAGACTTTATTTATCAATCG
139595 TCTGCCCATCGGCCTAAACCCGAGAGACTTTTCCATCAATCATCTGCCGATGGGCTTTGACTC
66 TCTGCCCATCGGCCTAAACCCGAGAGACTTTTCCATCAATCATCTGCCGATGGGCTTTGACTC
** *
139658 GAGAGACTT-CTTTATCAATCATTTGCCCATCGACTTAGACCTAGGAGACTTCT-TTTATCAATC
1 GAGAGACTTCCTTTATCAATCATCGGCCCATCGACTTAGACCCAGGAGACTT-TATTTATCAATC
** * *
139721 GTCTGCCCATCGGTTTAGACCCGAGAGACTTTTTCATCAATCAT
65 GTCTGCCCATCGGCCTAAACCCGAGAGACTTTTCCATCAATCAT
139765 TTACCTGTCA
Statistics
Matches: 95, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
127 85 0.89
128 10 0.11
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.31
Consensus pattern (128 bp):
GAGAGACTTCCTTTATCAATCATCGGCCCATCGACTTAGACCCAGGAGACTTTATTTATCAATCG
TCTGCCCATCGGCCTAAACCCGAGAGACTTTTCCATCAATCATCTGCCGATGGGCTTTGACTC
Found at i:139765 original size:85 final size:85
Alignment explanation
Indices: 139396--139897 Score: 349
Period size: 85 Copynumber: 5.9 Consensus size: 85
139386 CCATCAACTC
* ** * * *
139396 AGACCCGGGAGACTTCCTTT-ATCAATCATCTAG-CTGTCAACTTAGACCCAAGAGACTTCCTTT
1 AGACCCGAGAGACTT--TTTCATCAATCATCT-GCCCATCGACTTAGACCTAGGAGACTTCCTTT
* * * * * *
139459 GTCAATCGTCTACCTATCGACTC
63 ATCAATCATCTGCCCATCGGCTT
** * *
139482 AGACCC-AGGAGACTTTTTTGTCAATCATCTGCCCATCGACTCAGTCCT-GAGAGACTTCCTTTA
1 AGACCCGA-GAGACTTTTTCATCAATCATCTGCCCATCGACTTAGACCTAG-GAGACTTCCTTTA
* *
139545 TCAATCATCGGCCCATTGGCTT
64 TCAATCATCTGCCCATCGGCTT
* ** * * * * *
139567 AGACCC-AGGATACTTTATTTGTCAATCGTCTGCCCATCGGCCTAAACC-CGAGAGACTT--TTC
1 AGACCCGA-GAGACTTT-TTCATCAATCATCTGCCCATCGACTTAGACCTAG-GAGACTTCCTT-
* * *
139628 CATCAATCATCTGCCGATGGGCTT
62 TATCAATCATCTGCCCATCGGCTT
* * * *
139652 TGACTCGAGAGACTTCTTT-ATCAATCATTTGCCCATCGACTTAGACCTAGGAGACTTCTTTTAT
1 AGACCCGAGAGACTT-TTTCATCAATCATCTGCCCATCGACTTAGACCTAGGAGACTTCCTTTAT
* *
139716 CAATCGTCTGCCCATCGGTTT
65 CAATCATCTGCCCATCGGCTT
* * ** * * *
139737 AGACCCGAGAGACTTTTTCATCAATCATTTACCTGTC-AGCTTAGACCCAGGAGTCTTCCTTTGT
1 AGACCCGAGAGACTTTTTCATCAATCATCTGCCCATCGA-CTTAGACCTAGGAGACTTCCTTTAT
*** *
139801 CAATCATCTGCTTGTCGACTT
65 CAATCATCTGCCCATCGGCTT
* ** * * * *
139822 AGACCCGAGAGACTTTTCCATCAATCATCTGCCTGTCGGCTTAGACCTTGCAGACTTCCTTTGTC
1 AGACCCGAGAGACTTTTTCATCAATCATCTGCCCATCGACTTAGACCTAGGAGACTTCCTTTATC
*
139887 AATCATTTGCC
66 AATCATCTGCC
139898 TATCAATCAT
Statistics
Matches: 333, Mismatches: 68, Indels: 31
0.77 0.16 0.07
Matches are distributed among these distances:
84 39 0.12
85 243 0.73
86 51 0.15
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.31
Consensus pattern (85 bp):
AGACCCGAGAGACTTTTTCATCAATCATCTGCCCATCGACTTAGACCTAGGAGACTTCCTTTATC
AATCATCTGCCCATCGGCTT
Found at i:139806 original size:170 final size:166
Alignment explanation
Indices: 139396--139892 Score: 428
Period size: 170 Copynumber: 2.9 Consensus size: 166
139386 CCATCAACTC
* * * *
139396 AGACCCGGGAGACTTCCTTTATCAATCATCTAGCTGTCAACTTAGACCCAAGAGACTTCCTTTGT
1 AGACCCGAGAGACTT--TTTATCAATCATCTACCTGTCAGCTTAGACCCAGGAGACTTCCTTTGT
* * * * * * *
139461 CAATCGTCTACCTATCGACTCAGACCCAGGAGACTTTTTTGTCAATCATCTGCCCATCGACTCAG
64 CAATCATCTGCCGATCGACTTAGACCGA-GAGAC-TTTTTATCAATCATCTGCCCATCGACTTAG
* *
139526 TCCTGAGAGACTTCCTTTATCAATCATCGGCCCATTGGCTT
127 ACCTG-GAGACTTCCTTTATCAATCATCGGCCCATCGGCTT
* * * * ** * * *
139567 AGACCC-AGGATACTTTATTTGTCAATCGTCTGCCCATCGGCCTAAACCC-GAGAGACTT--TTC
1 AGACCCGA-GAGAC-TT-TTTATCAATCATCTACCTGTCAGCTTAGACCCAG-GAGACTTCCTT-
** * * * *
139628 CATCAATCATCTGCCGATGGGCTTTGACTCGAGAGACTTCTTTATCAATCATTTGCCCATCGACT
61 TGTCAATCATCTGCCGATCGACTTAGAC-CGAGAGACTT-TTTATCAATCATCTGCCCATCGACT
* * * *
139693 TAGACCTAGGAGACTTCTTTTATCAATCGTCTGCCCATCGGTTT
124 TAGACCT-GGAGACTTCCTTTATCAATCATCGGCCCATCGGCTT
* *
139737 AGACCCGAGAGACTTTTTCATCAATCATTTACCTGTCAGCTTAGACCCAGGAGTCTTCCTTTGTC
1 AGACCCGAGAGACTTTTT-ATCAATCATCTACCTGTCAGCTTAGACCCAGGAGACTTCCTTTGTC
* * ** *
139802 AATCATCTGCTTG-TCGACTTAGACCCGAGAGACTTTTCCATCAATCATCTGCCTGTCGGCTTAG
65 AATCATCTGC-CGATCGACTTAGA-CCGAGAGACTTTT-TATCAATCATCTGCCCATCGACTTAG
* *
139866 ACCTTGCAGACTTCCTTTGTCAATCAT
127 ACC-TGGAGACTTCCTTTATCAATCAT
139893 TTGCCTATCA
Statistics
Matches: 251, Mismatches: 59, Indels: 33
0.73 0.17 0.10
Matches are distributed among these distances:
168 3 0.01
169 34 0.14
170 164 0.65
171 48 0.19
172 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.31
Consensus pattern (166 bp):
AGACCCGAGAGACTTTTTATCAATCATCTACCTGTCAGCTTAGACCCAGGAGACTTCCTTTGTCA
ATCATCTGCCGATCGACTTAGACCGAGAGACTTTTTATCAATCATCTGCCCATCGACTTAGACCT
GGAGACTTCCTTTATCAATCATCGGCCCATCGGCTT
Found at i:139845 original size:127 final size:127
Alignment explanation
Indices: 139380--139868 Score: 339
Period size: 128 Copynumber: 3.8 Consensus size: 127
139370 TTCATCTTTT
* * * * ** *
139380 ATCTACCCATCAACTCAGACCCGGGAGACTTCCTTTATCAATCATCTAG-CTGTCAACTTAGACC
1 ATCTACCGATCAGCTTAGACCCGAGAGACTT-CTTTATCAATCATCT-GCCCATCGACTTAGACC
* * ** * * * * ***
139444 CAAGAGACTTCCTT-TGTCAATCGTCTACCTATCGACTCAGACCC-AGGAGACTTTTTTGTCAAT
64 GAGGAGACTT-CTTCCATCAATCGTCTGCCCATCGGCTTAGACCCGA-GAGACTTTTCCATCAAT
139507 C
127 C
* * * * * * * *
139508 ATCTGCCCATC-GACTCAGTCCTGAGAGACTTCCTTTATCAATCATCGGCCCATTGGCTTAGACC
1 ATCTACCGATCAG-CTTAGACCCGAGAGACTT-CTTTATCAATCATCTGCCCATCGACTTAGACC
* * *** * *
139572 CAGGATACTT-TATTTGTCAATCGTCTGCCCATCGGCCTAAACCCGAGAGACTTTTCCATCAATC
64 GAGGAGACTTCT-TCCATCAATCGTCTGCCCATCGGCTTAGACCCGAGAGACTTTTCCATCAATC
* ** * * * *
139636 ATCTGCCGATGGGCTTTGACTCGAGAGACTTCTTTATCAATCATTTGCCCATCGACTTAGACCTA
1 ATCTACCGATCAGCTTAGACCCGAGAGACTTCTTTATCAATCATCTGCCCATCGACTTAGACCGA
** * *
139701 GGAGACTTCTTTTATCAATCGTCTGCCCATCGGTTTAGACCCGAGAGACTTTTTCATCAATC
66 GGAGACTTCTTCCATCAATCGTCTGCCCATCGGCTTAGACCCGAGAGACTTTTCCATCAATC
* * * ***
139763 ATTTACCTG-TCAGCTTAGACCC-AGGAGTCTTCCTTTGTCAATCATCTGCTTGTCGACTTAGAC
1 ATCTACC-GATCAGCTTAGACCCGA-GAGACTT-CTTTATCAATCATCTGCCCATCGACTTAGA-
* **
139826 CCGA-GAGACTT-TTCCATCAATCATCTGCCTGTCGGCTTAGACC
62 CCGAGGAGACTTCTTCCATCAATCGTCTGCCCATCGGCTTAGACC
139869 TTGCAGACTT
Statistics
Matches: 291, Mismatches: 59, Indels: 23
0.78 0.16 0.06
Matches are distributed among these distances:
126 2 0.01
127 131 0.45
128 153 0.53
129 5 0.02
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.31
Consensus pattern (127 bp):
ATCTACCGATCAGCTTAGACCCGAGAGACTTCTTTATCAATCATCTGCCCATCGACTTAGACCGA
GGAGACTTCTTCCATCAATCGTCTGCCCATCGGCTTAGACCCGAGAGACTTTTCCATCAATC
Found at i:139859 original size:42 final size:42
Alignment explanation
Indices: 139396--139868 Score: 235
Period size: 43 Copynumber: 11.1 Consensus size: 42
139386 CCATCAACTC
* * *
139396 AGACCCGGGAGACTTCCTTTATCAATCATCTAG-CTGTCAACTT
1 AGACCCGAGAGACTT-CTTCATCAATCATCT-GCCTGTCGACTT
* ** * * * *
139439 AGACCCAAGAGACTTCCTTTGTCAATCGTCTACCTATCGACTC
1 AGACCCGAGAGACTT-CTTCATCAATCATCTGCCTGTCGACTT
* ** ** *
139482 AGACCC-AGGAGACTTTTTTGTCAATCATCTGCCCATCGACTC
1 AGACCCGA-GAGACTTCTTCATCAATCATCTGCCTGTCGACTT
* * * * ** * *
139524 AGTCCTGAGAGACTTCCTTTATCAATCATCGGCCCATTGGCTT
1 AGACCCGAGAGACTT-CTTCATCAATCATCTGCCTGTCGACTT
* * ** * ** * *
139567 AGACCC-AGGATACTTTATTTGTCAATCGTCTGCCCATCGGCCT
1 AGACCCGA-GAGAC-TTCTTCATCAATCATCTGCCTGTCGACTT
* * *
139610 AAACCCGAGAGACTT-TTCCATCAATCATCTGCC-GATGGGCTT
1 AGACCCGAGAGACTTCTT-CATCAATCATCTGCCTG-TCGACTT
* * * * **
139652 TGACTCGAGAGACTTCTTTATCAATCATTTGCCCATCGACTT
1 AGACCCGAGAGACTTCTTCATCAATCATCTGCCTGTCGACTT
* * * ** **
139694 AGA-CCTAGGAGACTTCTTTTATCAATCGTCTGCCCATCGGTTT
1 AGACCCGA-GAGACTTC-TTCATCAATCATCTGCCTGTCGACTT
* * *
139737 AGACCCGAGAGACTTTTTCATCAATCATTTACCTGTC-AGCTT
1 AGACCCGAGAGACTTCTTCATCAATCATCTGCCTGTCGA-CTT
* ** *
139779 AGACCC-AGGAGTCTTCCTTTGTCAATCATCTGCTTGTCGACTT
1 AGACCCGA-GAGACTT-CTTCATCAATCATCTGCCTGTCGACTT
*
139822 AGACCCGAGAGACTT-TTCCATCAATCATCTGCCTGTCGGCTT
1 AGACCCGAGAGACTTCTT-CATCAATCATCTGCCTGTCGACTT
139864 AGACC
1 AGACC
139869 TTGCAGACTT
Statistics
Matches: 336, Mismatches: 74, Indels: 41
0.75 0.16 0.09
Matches are distributed among these distances:
41 7 0.02
42 149 0.44
43 172 0.51
44 8 0.02
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.31
Consensus pattern (42 bp):
AGACCCGAGAGACTTCTTCATCAATCATCTGCCTGTCGACTT
Found at i:139905 original size:15 final size:15
Alignment explanation
Indices: 139885--139916 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
139875 ACTTCCTTTG
139885 TCAATCATTTGCCTA
1 TCAATCATTTGCCTA
139900 TCAATCATTTGCCTA
1 TCAATCATTTGCCTA
139915 TC
1 TC
139917 TACTCAAACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.25, C:0.28, G:0.06, T:0.41
Consensus pattern (15 bp):
TCAATCATTTGCCTA
Found at i:140069 original size:42 final size:42
Alignment explanation
Indices: 140023--140160 Score: 136
Period size: 43 Copynumber: 3.2 Consensus size: 42
140013 GGGAGAATCC
* * *
140023 TTTATCATTCGTTTACCCGTTGGCTTTGACTTAGGAGACAT-T
1 TTTATCAATCGTTT-CCCGTTGGCTTAGACTTAGGAGACTTCT
* * **
140065 TTTATCAATCGTCTTCCCATCGGCTTAGAACCGA-GAGACTTCT
1 TTTATCAATCGT-TTCCCGTTGGCTTAG-ACTTAGGAGACTTCT
* *
140108 TTTATCAATCGTTTGTCCGTTGGCTTAGACTTGGGAGACTTCT
1 TTTATCAATCGTTT-CCCGTTGGCTTAGACTTAGGAGACTTCT
*
140151 TTTATTAATC
1 TTTATCAATC
140161 ATCTGCCCGT
Statistics
Matches: 77, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
42 31 0.40
43 46 0.60
ACGTcount: A:0.20, C:0.21, G:0.18, T:0.41
Consensus pattern (42 bp):
TTTATCAATCGTTTCCCGTTGGCTTAGACTTAGGAGACTTCT
Found at i:140113 original size:85 final size:86
Alignment explanation
Indices: 139898--140308 Score: 255
Period size: 85 Copynumber: 4.8 Consensus size: 86
139888 ATCATTTGCC
* * * * * * * * *
139898 TATCAATCATTTGCCTATCTACTCA-AACCTAGGAGACTTCTTTTATCCA-CGTCTACTCGTCGG
1 TATCAATCATCTGCCCATCGACTTAGAACCGA-GAGACTTCTTTTATCAATCGTTTACCCGTTGG
** *
139961 CTTAGACCCAAGAGAC-TCCTTT
65 CTTAGACTTAGGAGACAT-CTTT
* ** * * * * * * *
139983 TATCAATCGTCTGCCTGTCAACTCAGACCCGGGAGA-ATCCTTTATCATTCGTTTACCCGTTGGC
1 TATCAATCATCTGCCCATCGACTTAGAACCGAGAGACTTCTTTTATCAATCGTTTACCCGTTGGC
*
140047 TTTGACTTAGGAGACAT-TTT
66 TTAGACTTAGGAGACATCTTT
* * * **
140067 TATCAATCGTCTTCCCATCGGCTTAGAACCGAGAGACTTCTTTTATCAATCGTTTGTCCGTTGGC
1 TATCAATCATCTGCCCATCGACTTAGAACCGAGAGACTTCTTTTATCAATCGTTTACCCGTTGGC
* *
140132 TTAGACTTGGGAGACTTCTTT
66 TTAGACTTAGGAGACATCTTT
* * * ** * * *
140153 TATTAATCATCTGCCCGTCGACTTAGACCCGAGAGACTT-TTCCATCAATCATCTT-CCTGTCGG
1 TATCAATCATCTGCCCATCGACTTAGAACCGAGAGACTTCTTTTATCAATCGT-TTACCCGTTGG
* * * * *
140216 ATTAGACTTCGAAGACTTTTTT
65 CTTAGACTTAGGAGACATCTTT
* * * * ** * * *
140238 TGTCAATCATTTGCCAATCGACTTAG-ACTCGGGAGACTT-TTCCATCAATCGTCTACCTGTCGG
1 TATCAATCATCTGCCCATCGACTTAGAAC-CGAGAGACTTCTTTTATCAATCGTTTACCCGTTGG
140301 CTTAGACT
65 CTTAGACT
140309 CGAGAGATTT
Statistics
Matches: 258, Mismatches: 60, Indels: 16
0.77 0.18 0.05
Matches are distributed among these distances:
84 41 0.16
85 175 0.68
86 42 0.16
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (86 bp):
TATCAATCATCTGCCCATCGACTTAGAACCGAGAGACTTCTTTTATCAATCGTTTACCCGTTGGC
TTAGACTTAGGAGACATCTTT
Found at i:140116 original size:43 final size:43
Alignment explanation
Indices: 139930--140326 Score: 204
Period size: 42 Copynumber: 9.3 Consensus size: 43
139920 TCAAACCTAG
* * * * * *
139930 GAGACTTCTTTTATCCA-CGTCTACTCGTCGGCTTAGACCCAA
1 GAGACTTCTTTTATCAATCATCTTCCCGTCGGCTTAGACTCGA
* * * * ** * * *
139972 GAGACTCCTTTTATCAATCGTCTGCCTGTCAACTCAGACCCGG
1 GAGACTTCTTTTATCAATCATCTTCCCGTCGGCTTAGACTCGA
* * * * * * *
140015 GAGA-ATCCTTTATCATTCGT-TTACCCGTTGGCTTTGACT-TA
1 GAGACTTCTTTTATCAATCATCTT-CCCGTCGGCTTAGACTCGA
* * *
140056 GGAGACAT-TTTTATCAATCGTCTTCCCATCGGCTTAGAAC-CGA
1 -GAGACTTCTTTTATCAATCATCTTCCCGTCGGCTTAG-ACTCGA
* * * * *
140099 GAGACTTCTTTTATCAATCGT-TTGTCCGTTGGCTTAGACTTGG
1 GAGACTTCTTTTATCAATCATCTT-CCCGTCGGCTTAGACTCGA
* * * *
140142 GAGACTTCTTTTATTAATCATCTGCCCGTCGACTTAGACCCGA
1 GAGACTTCTTTTATCAATCATCTTCCCGTCGGCTTAGACTCGA
** * *
140185 GAGACTT-TTCCATCAATCATCTTCCTGTCGGATTAGACTTCGA
1 GAGACTTCTTTTATCAATCATCTTCCCGTCGGCTTAGAC-TCGA
* * ** * *
140228 -AGACTTTTTTTGTCAATCAT-TTGCCAATCGACTTAGACTCGG
1 GAGACTTCTTTTATCAATCATCTT-CCCGTCGGCTTAGACTCGA
** * * *
140270 GAGACTT-TTCCATCAATCGTCTACCTGTCGGCTTAGACTCGA
1 GAGACTTCTTTTATCAATCATCTTCCCGTCGGCTTAGACTCGA
* *
140312 GAGATTTCCTTTATC
1 GAGACTTCTTTTATC
140327 TTTCGTCTGT
Statistics
Matches: 264, Mismatches: 74, Indels: 33
0.71 0.20 0.09
Matches are distributed among these distances:
41 1 0.00
42 136 0.52
43 126 0.48
44 1 0.00
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.35
Consensus pattern (43 bp):
GAGACTTCTTTTATCAATCATCTTCCCGTCGGCTTAGACTCGA
Found at i:140461 original size:16 final size:15
Alignment explanation
Indices: 140429--140472 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 15
140419 GAAATTTTTT
140429 TAAAAAATAATAATAA
1 TAAAAAATAA-AATAA
140445 TAATAAAATAAAATAA
1 TAA-AAAATAAAATAA
140461 TAAATAAATAAA
1 TAAA-AAATAAA
140473 TTCTTTTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 1 0.04
16 18 0.69
17 7 0.27
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (15 bp):
TAAAAAATAAAATAA
Found at i:147559 original size:13 final size:13
Alignment explanation
Indices: 147541--147566 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
147531 ATAATTCCCC
147541 TGTATCGATACAA
1 TGTATCGATACAA
147554 TGTATCGATACAA
1 TGTATCGATACAA
147567 AGAATGATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:147603 original size:18 final size:18
Alignment explanation
Indices: 147580--147638 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
147570 ATGATGTATC
147580 GATACATTGAATTTTCTA
1 GATACATTGAATTTTCTA
** * * *
147598 GATACAAAGAATGATGTATC
1 GATACATTGAAT--TTTCTA
147618 GATACATTGAATTTTCTA
1 GATACATTGAATTTTCTA
147636 GAT
1 GAT
147639 GTATCGATAC
Statistics
Matches: 29, Mismatches: 10, Indels: 4
0.67 0.23 0.09
Matches are distributed among these distances:
18 16 0.55
20 13 0.45
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.37
Consensus pattern (18 bp):
GATACATTGAATTTTCTA
Found at i:147611 original size:38 final size:38
Alignment explanation
Indices: 147560--147638 Score: 158
Period size: 38 Copynumber: 2.1 Consensus size: 38
147550 ACAATGTATC
147560 GATACAAAGAATGATGTATCGATACATTGAATTTTCTA
1 GATACAAAGAATGATGTATCGATACATTGAATTTTCTA
147598 GATACAAAGAATGATGTATCGATACATTGAATTTTCTA
1 GATACAAAGAATGATGTATCGATACATTGAATTTTCTA
147636 GAT
1 GAT
147639 GTATCGATAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.34
Consensus pattern (38 bp):
GATACAAAGAATGATGTATCGATACATTGAATTTTCTA
Found at i:147629 original size:20 final size:20
Alignment explanation
Indices: 147553--147623 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
147543 TATCGATACA
147553 ATGTATCGATACAAAGAATG
1 ATGTATCGATACAAAGAATG
**
147573 ATGTATCGATACATTGAAT-
1 ATGTATCGATACAAAGAATG
* * *
147592 -TTTCTAGATACAAAGAATG
1 ATGTATCGATACAAAGAATG
147611 ATGTATCGATACA
1 ATGTATCGATACA
147624 TTGAATTTTC
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
18 13 0.33
20 26 0.67
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAAAGAATG
Found at i:147810 original size:8 final size:8
Alignment explanation
Indices: 147797--147828 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
147787 CATCATTCAA
147797 CACAAAAT
1 CACAAAAT
147805 CACAAAAT
1 CACAAAAT
147813 CACAAAAT
1 CACAAAAT
147821 CACAAAAT
1 CACAAAAT
147829 TTAAGCAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.62, C:0.25, G:0.00, T:0.12
Consensus pattern (8 bp):
CACAAAAT
Found at i:149689 original size:15 final size:15
Alignment explanation
Indices: 149669--149698 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
149659 TGTTCATCAA
149669 TTTCATTTGGAGCTT
1 TTTCATTTGGAGCTT
*
149684 TTTCATTTTGAGCTT
1 TTTCATTTGGAGCTT
149699 CCTCAATTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.13, G:0.17, T:0.57
Consensus pattern (15 bp):
TTTCATTTGGAGCTT
Found at i:151553 original size:22 final size:20
Alignment explanation
Indices: 151504--151555 Score: 59
Period size: 22 Copynumber: 2.5 Consensus size: 20
151494 ATCATGCAAG
*
151504 TTTTTATTTTTCTTAGCTAAT
1 TTTTTA-TTTTCTTAGCAAAT
*
151525 TTATTATTTTCATTAGCCAAAT
1 TTTTTATTTTC-TTAG-CAAAT
151547 TTTTTATTT
1 TTTTTATTT
151556 CAACTTGCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 5 0.19
21 9 0.35
22 12 0.46
ACGTcount: A:0.23, C:0.10, G:0.04, T:0.63
Consensus pattern (20 bp):
TTTTTATTTTCTTAGCAAAT
Found at i:153834 original size:32 final size:33
Alignment explanation
Indices: 153771--153838 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
153761 TGTTACAAGG
**
153771 CAATGTATCGATACATTTTTTAGTGTATCGATA
1 CAATGTATCGATACATACTTTAGTGTATCGATA
*
153804 CAATGTATCGATACGTACTTT-GTGTATCGATA
1 CAATGTATCGATACATACTTTAGTGTATCGATA
153836 CAA
1 CAA
153839 GTTTGGCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 14 0.44
33 18 0.56
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (33 bp):
CAATGTATCGATACATACTTTAGTGTATCGATA
Found at i:156295 original size:13 final size:13
Alignment explanation
Indices: 156277--156301 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
156267 CATTTTATGG
156277 TGTATCGATACAA
1 TGTATCGATACAA
156290 TGTATCGATACA
1 TGTATCGATACA
156302 TACTATGTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:156317 original size:32 final size:33
Alignment explanation
Indices: 156254--156321 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
156244 CGTTACAAGC
**
156254 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
156287 CAATGTATCGATACATACTAT-GTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
156319 CAA
1 CAA
156322 GTTTAGCTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 14 0.42
33 19 0.58
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (33 bp):
CAATGTATCGATACATACTATGGTGTATCGATA
Found at i:156417 original size:20 final size:20
Alignment explanation
Indices: 156375--156424 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
156365 TCTTTTTCAA
*
156375 GTATCGATACAATGCAACAT
1 GTATCGATACAATGAAACAT
* **
156395 GTATCGATACAATTAAATGT
1 GTATCGATACAATGAAACAT
156415 GTATCGATAC
1 GTATCGATAC
156425 TTTTTAGTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (20 bp):
GTATCGATACAATGAAACAT
Found at i:157099 original size:75 final size:75
Alignment explanation
Indices: 156976--157126 Score: 302
Period size: 75 Copynumber: 2.0 Consensus size: 75
156966 CCCTTAATAA
156976 AGCAATTTTAATAAATTCGCATTCTCCCCCTTAATCAAAAGCACTTATCTCTTTCTCCCCCTTAA
1 AGCAATTTTAATAAATTCGCATTCTCCCCCTTAATCAAAAGCACTTATCTCTTTCTCCCCCTTAA
157041 TCAAAAATTT
66 TCAAAAATTT
157051 AGCAATTTTAATAAATTCGCATTCTCCCCCTTAATCAAAAGCACTTATCTCTTTCTCCCCCTTAA
1 AGCAATTTTAATAAATTCGCATTCTCCCCCTTAATCAAAAGCACTTATCTCTTTCTCCCCCTTAA
157116 TCAAAAATTT
66 TCAAAAATTT
157126 A
1 A
157127 TTTGCACACA
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 76 1.00
ACGTcount: A:0.32, C:0.28, G:0.04, T:0.36
Consensus pattern (75 bp):
AGCAATTTTAATAAATTCGCATTCTCCCCCTTAATCAAAAGCACTTATCTCTTTCTCCCCCTTAA
TCAAAAATTT
Found at i:163142 original size:65 final size:65
Alignment explanation
Indices: 163054--163185 Score: 194
Period size: 65 Copynumber: 2.0 Consensus size: 65
163044 TCCTGAGGCT
* * *
163054 AGTTATTCGACACCTACACTAAAATTAGTCAAGGTACTTAAACCATTTCTATATAAGAGTAACAA
1 AGTTATTCGACACCTACACTAAAATTAGTCAAGGTACCTAAACCATTCCCATATAAGAGTAACAA
* * *
163119 AGTTCTTCGACACCTAC-CATAAAATTAGTCAAGGTACCTCAACCATTCCCGTATAAGAGTAACA
1 AGTTATTCGACACCTACAC-TAAAATTAGTCAAGGTACCTAAACCATTCCCATATAAGAGTAACA
163183 A
65 A
163184 AG
1 AG
163186 CTATCCCTTG
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
64 1 0.02
65 59 0.98
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.27
Consensus pattern (65 bp):
AGTTATTCGACACCTACACTAAAATTAGTCAAGGTACCTAAACCATTCCCATATAAGAGTAACAA
Found at i:170302 original size:28 final size:28
Alignment explanation
Indices: 170130--170304 Score: 181
Period size: 28 Copynumber: 6.2 Consensus size: 28
170120 CATGACTCAA
* * *
170130 TGGCACCTTCTCAAAGCCCAAAAGTTAG
1 TGGCACCCTCTCAAAGCCCACAAGTCAG
* * * * *
170158 TGGCACCTTTTTAAATCCCACAAGTCAA
1 TGGCACCCTCTCAAAGCCCACAAGTCAG
* *
170186 TGGCACCCTCTCAAAGCCCAGAAG-CTG
1 TGGCACCCTCTCAAAGCCCACAAGTCAG
*
170213 ATAGCATCCCCTCTCAAAGCCCACAAGTCAG
1 -TGGCA--CCCTCTCAAAGCCCACAAGTCAG
* *
170244 TGACACCCTCTCAAAGCCCACAAGTTAG
1 TGGCACCCTCTCAAAGCCCACAAGTCAG
* *
170272 TGGCACCCTCTCAAAGCCCATAAGTCGG
1 TGGCACCCTCTCAAAGCCCACAAGTCAG
170300 TGGCA
1 TGGCA
170305 ACCTTTTTAT
Statistics
Matches: 120, Mismatches: 23, Indels: 8
0.79 0.15 0.05
Matches are distributed among these distances:
27 1 0.01
28 96 0.80
30 21 0.17
31 2 0.02
ACGTcount: A:0.30, C:0.34, G:0.17, T:0.19
Consensus pattern (28 bp):
TGGCACCCTCTCAAAGCCCACAAGTCAG
Done.