Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2003
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: 169224
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
File 1 of 2
Found at i:814 original size:48 final size:48
Alignment explanation
Indices: 756--861 Score: 167
Period size: 48 Copynumber: 2.2 Consensus size: 48
746 ATTTAGCAGC
* * *
756 TTTTACTTTTTCAAATTTCAGTTGCTTTTTCCTTGTGTTTTGGACTGA
1 TTTTAATTTTTCAAATTTCAGTTCCTTTTTCCGTGTGTTTTGGACTGA
* *
804 TTTTAATTTTTCAGATTTCAGTTCCTTTTTCCGTGTGTTTTGGATTGA
1 TTTTAATTTTTCAAATTTCAGTTCCTTTTTCCGTGTGTTTTGGACTGA
852 TTTTAATTTT
1 TTTTAATTTT
862 AATATTATTT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 53 1.00
ACGTcount: A:0.15, C:0.12, G:0.14, T:0.58
Consensus pattern (48 bp):
TTTTAATTTTTCAAATTTCAGTTCCTTTTTCCGTGTGTTTTGGACTGA
Found at i:3584 original size:20 final size:21
Alignment explanation
Indices: 3543--3597 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
3533 ACAATAAGGC
* *
3543 AATGTAACGATACATTAGTG-
1 AATGTATCGATACATCAGTGA
3563 AATGTATCGATACATGCA-TGA
1 AATGTATCGATACAT-CAGTGA
*
3584 AATATATCGATACA
1 AATGTATCGATACA
3598 GGACCATTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 16 0.53
21 14 0.47
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (21 bp):
AATGTATCGATACATCAGTGA
Found at i:7555 original size:27 final size:27
Alignment explanation
Indices: 7517--7574 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
7507 CTGTTTTGTG
*
7517 TAATGCTAATAACATTATTAACAAATT
1 TAATACTAATAACATTATTAACAAATT
*
7544 TAATACTAATAACATTATTAGCAAATT
1 TAATACTAATAACATTATTAACAAATT
7571 TAAT
1 TAAT
7575 TTTAAATTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.48, C:0.10, G:0.03, T:0.38
Consensus pattern (27 bp):
TAATACTAATAACATTATTAACAAATT
Found at i:10873 original size:21 final size:21
Alignment explanation
Indices: 10855--10914 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
10845 TATTAAAAGT
*
10855 TACATTTTTTCATCCAAAAAA
1 TACATTCTTTCATCCAAAAAA
* **
10876 TGCATTCTTTCATCCAACTAA
1 TACATTCTTTCATCCAAAAAA
*
10897 TATA-TCATTTCATCCAAA
1 TACATTC-TTTCATCCAAA
10915 TACATATTTT
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
20 2 0.06
21 29 0.94
ACGTcount: A:0.37, C:0.23, G:0.02, T:0.38
Consensus pattern (21 bp):
TACATTCTTTCATCCAAAAAA
Found at i:11206 original size:16 final size:16
Alignment explanation
Indices: 11185--11228 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
11175 TAACTTTTAG
11185 TATAAGTAATTAATTA
1 TATAAGTAATTAATTA
11201 TATAAGT-A--AATT-
1 TATAAGTAATTAATTA
*
11213 TATAACTAATTAATTA
1 TATAAGTAATTAATTA
11229 GTTATATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 8
0.72 0.03 0.25
Matches are distributed among these distances:
12 6 0.26
13 5 0.22
15 5 0.22
16 7 0.30
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (16 bp):
TATAAGTAATTAATTA
Found at i:12433 original size:30 final size:28
Alignment explanation
Indices: 12397--12467 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 28
12387 TCACATATAT
12397 AAACTTTTAAAAGTCA-GATAAAAAACTTGA
1 AAACTTTTAAAA-TCATGATAAAAAA--TGA
* *
12427 AAACTTTTAAAATCATTGATATACAATGA
1 AAACTTTTAAAATCA-TGATAAAAAATGA
12456 AAACTTTTAAAA
1 AAACTTTTAAAA
12468 AATCATCAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
29 18 0.49
30 12 0.32
31 7 0.19
ACGTcount: A:0.52, C:0.10, G:0.07, T:0.31
Consensus pattern (28 bp):
AAACTTTTAAAATCATGATAAAAAATGA
Found at i:13453 original size:16 final size:18
Alignment explanation
Indices: 13422--13455 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
13412 AGATAATTTT
13422 TAAAATAAATTATAAATA
1 TAAAATAAATTATAAATA
13440 TAAAAT-AA-TATAAATA
1 TAAAATAAATTATAAATA
13456 CAATACAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 2 0.12
18 6 0.38
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
TAAAATAAATTATAAATA
Found at i:14212 original size:21 final size:17
Alignment explanation
Indices: 14191--14232 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
14181 ACGTCTATTA
*
14191 TAATTA-ATTAT-TATT
1 TAATTATATTATATTTT
14206 TAATTATATTATATTTT
1 TAATTATATTATATTTT
*
14223 TAATTTTATT
1 TAATTATATT
14233 TTTTATTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 6 0.26
16 5 0.22
17 12 0.52
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TAATTATATTATATTTT
Found at i:14226 original size:17 final size:16
Alignment explanation
Indices: 14186--14232 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
14176 TACGTACGTC
14186 TATTATAATTA-ATTAT
1 TATT-TAATTATATTAT
14202 TATTTAATTATATTAT
1 TATTTAATTATATTAT
* *
14218 ATTTTTAATTTTATT
1 -TATTTAATTATATT
14233 TTTTATTGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 6 0.22
16 9 0.33
17 12 0.44
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TATTTAATTATATTAT
Found at i:14629 original size:27 final size:26
Alignment explanation
Indices: 14576--14629 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
14566 CACATCATAA
* * *
14576 ATAATATAAAAAAAGTAAAATATGAC
1 ATAATATAAAAAAAATAAAACACGAC
*
14602 ATAATATAAAAAAAATCTAAACACGAC
1 ATAATATAAAAAAAAT-AAAACACGAC
14629 A
1 A
14630 CAAATAGATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
26 15 0.65
27 8 0.35
ACGTcount: A:0.65, C:0.09, G:0.06, T:0.20
Consensus pattern (26 bp):
ATAATATAAAAAAAATAAAACACGAC
Found at i:15361 original size:82 final size:82
Alignment explanation
Indices: 15269--15425 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 82
15259 ATTTATATAC
*
15269 TCTTTTAATCTCGAACTTAACTTTAGTTATCAACTAATTAAAATTATTTTTGGCTTGACTTTATC
1 TCTTTAAATCTCGAACTTAACTTTAGTTATCAACTAATTAAAATTATTTTTGGCTTGACTTTATC
15334 TATACAAGAAAATGTAT
66 TATACAAGAAAATGTAT
* * * * * * *
15351 TCTTTAAATCTTGAACTTCACTTTAGTTGTCAAGTAATTAAGATTATTTTTGGCTTGATTTTATT
1 TCTTTAAATCTCGAACTTAACTTTAGTTATCAACTAATTAAAATTATTTTTGGCTTGACTTTATC
15416 TATACAAGAA
66 TATACAAGAA
15426 TAGGTGTATG
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
82 67 1.00
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.45
Consensus pattern (82 bp):
TCTTTAAATCTCGAACTTAACTTTAGTTATCAACTAATTAAAATTATTTTTGGCTTGACTTTATC
TATACAAGAAAATGTAT
Found at i:19652 original size:20 final size:20
Alignment explanation
Indices: 19624--19698 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
19614 TTTTACCCAG
*
19624 ATGTATCGATACATTTTTTA
1 ATGTATCGATACATTTTTCA
* * * *
19644 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
19664 ATGTATCGATATATTCTTCA
1 ATGTATCGATACATTTTTCA
19684 ATGTATCGATACATT
1 ATGTATCGATACATT
19699 CTGTCTTTTT
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:25339 original size:13 final size:13
Alignment explanation
Indices: 25306--25351 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
25296 GAAAGAATTG
25306 AAGAGGGATAC--
1 AAGAGGGATACTT
*
25317 AAGAGAGGATGCTT
1 AAGAG-GGATACTT
25331 AAGAGGGATACTT
1 AAGAGGGATACTT
*
25344 GAGAGGGA
1 AAGAGGGA
25352 GGAGGGAGCC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 5 0.17
12 5 0.17
13 14 0.48
14 5 0.17
ACGTcount: A:0.39, C:0.07, G:0.39, T:0.15
Consensus pattern (13 bp):
AAGAGGGATACTT
Found at i:27902 original size:7 final size:7
Alignment explanation
Indices: 27892--27916 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
27882 TATTAATTTA
27892 TTTTATT
1 TTTTATT
27899 TTTTATT
1 TTTTATT
27906 TTTTATT
1 TTTTATT
27913 TTTT
1 TTTT
27917 CAATAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTATT
Found at i:28011 original size:9 final size:9
Alignment explanation
Indices: 27985--28020 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
27975 AAATGTTATG
27985 ATATAA-AT
1 ATATAATAT
27993 ATAT-ATAT
1 ATATAATAT
28001 ATATAATAT
1 ATATAATAT
28010 ATATAATAT
1 ATATAATAT
28019 AT
1 AT
28021 GTGTTACTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 1 0.04
8 10 0.38
9 15 0.58
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
ATATAATAT
Found at i:29502 original size:20 final size:20
Alignment explanation
Indices: 29477--29520 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
29467 AAAATATTAC
*
29477 ATTTA-TGAGTATGTATATAT
1 ATTTATTGA-TATATATATAT
*
29497 ATTTATTTATATATATATAT
1 ATTTATTGATATATATATAT
29517 ATTT
1 ATTT
29521 GCATGCATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (20 bp):
ATTTATTGATATATATATAT
Found at i:29511 original size:16 final size:16
Alignment explanation
Indices: 29490--29520 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
29480 TATGAGTATG
*
29490 TATATATATTTATTTA
1 TATATATATATATTTA
29506 TATATATATATATTT
1 TATATATATATATTT
29521 GCATGCATGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TATATATATATATTTA
Found at i:30307 original size:12 final size:12
Alignment explanation
Indices: 30260--30314 Score: 58
Period size: 12 Copynumber: 4.5 Consensus size: 12
30250 TGCAATTAAT
*
30260 TATATAAATAAA
1 TATATTAATAAA
* *
30272 TTTATGTAATTAA
1 TATAT-TAATAAA
30285 TA-ATTATATAAA
1 TATATTA-ATAAA
30297 TATATTAATAAA
1 TATATTAATAAA
30309 TATATT
1 TATATT
30315 TATATAGAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
11 2 0.06
12 23 0.66
13 10 0.29
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (12 bp):
TATATTAATAAA
Found at i:31242 original size:19 final size:17
Alignment explanation
Indices: 31220--31283 Score: 64
Period size: 17 Copynumber: 3.9 Consensus size: 17
31210 AAAATTACAT
31220 TTAATATTTATAATTTTTA
1 TTAATATTT-T-ATTTTTA
31239 TTAATATTTTATTTTTA
1 TTAATATTTTATTTTTA
* *
31256 TT--TA--TGAGTTTTA
1 TTAATATTTTATTTTTA
31269 TTAATATTTTATTTT
1 TTAATATTTTATTTT
31284 CTTCAATAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
13 9 0.24
15 4 0.11
17 14 0.38
18 1 0.03
19 9 0.24
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (17 bp):
TTAATATTTTATTTTTA
Found at i:31260 original size:30 final size:30
Alignment explanation
Indices: 31224--31283 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
31214 TTACATTTAA
*
31224 TATTTATAATTTTTATTAATATTTTATTTT
1 TATTTATAAGTTTTATTAATATTTTATTTT
*
31254 TATTTATGAGTTTTATTAATATTTTATTTT
1 TATTTATAAGTTTTATTAATATTTTATTTT
31284 CTTCAATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.68
Consensus pattern (30 bp):
TATTTATAAGTTTTATTAATATTTTATTTT
Found at i:31548 original size:24 final size:24
Alignment explanation
Indices: 31520--31565 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
31510 ATGATTATTT
*
31520 TTGTTTGTAAAAAATGGTGGCTTG
1 TTGTTTGTAAAAAATAGTGGCTTG
* *
31544 TTGTTTGTCAAAATTAGTGGCT
1 TTGTTTGTAAAAAATAGTGGCT
31566 AATTTTTATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.24, C:0.07, G:0.26, T:0.43
Consensus pattern (24 bp):
TTGTTTGTAAAAAATAGTGGCTTG
Found at i:31636 original size:13 final size:13
Alignment explanation
Indices: 31618--31663 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
31608 AGGCTCCCTA
31618 ATCCCTCTCTTGT
1 ATCCCTCTCTTGT
* *
31631 ATCCCTCT-TAAGC
1 ATCCCTCTCT-TGT
31644 AT-CCTCTCTTGT
1 ATCCCTCTCTTGT
31656 ATCCCTCT
1 ATCCCTCT
31664 TCAATTCTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
12 9 0.35
13 17 0.65
ACGTcount: A:0.13, C:0.39, G:0.07, T:0.41
Consensus pattern (13 bp):
ATCCCTCTCTTGT
Found at i:36128 original size:24 final size:26
Alignment explanation
Indices: 36069--36128 Score: 70
Period size: 24 Copynumber: 2.4 Consensus size: 26
36059 ACCCTTTGTA
* * *
36069 TTTGTCAAATATGGTGGTTATTTTTG
1 TTTGTCAAAAATGATGGTTATTGTTG
*
36095 TTTGTAAAAAATGATGG-T-TTGTTG
1 TTTGTCAAAAATGATGGTTATTGTTG
36119 TTTGTCAAAA
1 TTTGTCAAAA
36129 TTAGTGGCTA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
24 14 0.48
25 1 0.03
26 14 0.48
ACGTcount: A:0.27, C:0.03, G:0.22, T:0.48
Consensus pattern (26 bp):
TTTGTCAAAAATGATGGTTATTGTTG
Found at i:37829 original size:3 final size:3
Alignment explanation
Indices: 37821--37845 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
37811 CTATTTTGTT
37821 TGC TGC TGC TGC TGC TGC TGC TGC T
1 TGC TGC TGC TGC TGC TGC TGC TGC T
37846 TCTGAAAACG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.32, T:0.36
Consensus pattern (3 bp):
TGC
Found at i:38817 original size:216 final size:216
Alignment explanation
Indices: 38595--39033 Score: 736
Period size: 216 Copynumber: 2.0 Consensus size: 216
38585 AAAAACTCAG
* * *
38595 CTTATCCGAGAATAGTCTCTCTGGTGGCATTCCAGAAGAGATTGGATATTTGAGATCCCTTAT-G
1 CTTATCCGAGAATAGTCTCTCTGGTGGCATTCCAGAAGAGATTGGAAATTTAAGATCCCTT-TCA
* *
38659 GAGCTTTATTTGTCTCAAAATAATTTGACGGGTCCAATCCCAACTTCAATTGGAAACTTGACGAA
65 GAGCTTTATTTGTCTCAAAATAATCTCACGGGTCCAATCCCAACTTCAATTGGAAACTTGACGAA
* *
38724 TATATCTGTTCTTTACCTTCATACCAGCAAACTCTCAGGTTATATTCCTCAAGAGATTGGATTCC
130 TATATCTGTTCTTTACCTTCATACCAACAAACTCTCAGGTTATATTCCTCAAGAGATCGGATTCC
38789 TAAAACATCTCCAAGAGCTTGA
195 TAAAACATCTCCAAGAGCTTGA
*
38811 CTTATCCGAGAATAGTCTCTCTGGTGGCATTCCAGAAGAGATTGGAAATTTAAGATCTCTTTCAG
1 CTTATCCGAGAATAGTCTCTCTGGTGGCATTCCAGAAGAGATTGGAAATTTAAGATCCCTTTCAG
* * *
38876 AGCTTTATTTGTCTCGAAATAATCTCACGGGTCCAATCCCAGCTTCAATTGGAAACTTGATGAAT
66 AGCTTTATTTGTCTCAAAATAATCTCACGGGTCCAATCCCAACTTCAATTGGAAACTTGACGAAT
*
38941 ATATCTGTTCTTTACCTTCATACCAACAAACTCTCAGGTTATATTCCTCAAGAGATCGGATTCTT
131 ATATCTGTTCTTTACCTTCATACCAACAAACTCTCAGGTTATATTCCTCAAGAGATCGGATTCCT
*
39006 GAAACATCTCCAAGAGCTTGA
196 AAAACATCTCCAAGAGCTTGA
*
39027 CATATCC
1 CTTATCC
39034 CATAATAATC
Statistics
Matches: 208, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
215 1 0.00
216 207 1.00
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (216 bp):
CTTATCCGAGAATAGTCTCTCTGGTGGCATTCCAGAAGAGATTGGAAATTTAAGATCCCTTTCAG
AGCTTTATTTGTCTCAAAATAATCTCACGGGTCCAATCCCAACTTCAATTGGAAACTTGACGAAT
ATATCTGTTCTTTACCTTCATACCAACAAACTCTCAGGTTATATTCCTCAAGAGATCGGATTCCT
AAAACATCTCCAAGAGCTTGA
Found at i:38996 original size:360 final size:359
Alignment explanation
Indices: 38674--39385 Score: 982
Period size: 360 Copynumber: 2.0 Consensus size: 359
38664 TTATTTGTCT
* * * **
38674 CAAAATAATTTGACGGGTCCAATCCCAACTTCAATTGGAAACTTGACGAATATATCTGTTCTTTA
1 CAAAATAATCTCACGGGTCCAATCCCAACTTCAATAGGAAACTTGACGAATATATCCCTTCTTTA
* * *
38739 CCTTCATA-CCAGCAAACTCTCAGGTTATATTCCTCAAGAGATTGGATTCCTAAAACATCTCCA-
66 CCTTCA-AGCCAACAAACTCTCAGGTTACATCCCTCAAGAGATTGGATTCCTAAAACATCTCCAG
* *
38802 AGAGCT-TGACTTATCCGAGAATAGTCTCTCTGGTGGCATTCCAGAAGAGATTGGAAATTTAAGA
130 A-AACTCAG-CTTATCCGAGAATAGTCTCTCTGGTGGCATTCCAGAAGAGATTGGAAATTTAAGA
* * *
38866 TCTCTT-TCAGAGCTTTATTTGTCTCGAAATAATCTCACGGGTCCAATCCCAGCTTCAATTGGAA
193 TCCCTTAT-AGAGCTTTATTTGTCTCAAAATAATCTCACGGGTCCAATCCCAACTTCAATTGGAA
*
38930 ACTTGATGAATATATCTGTTCTTTACCTTCATACCAACAAACTCTCAGGTTATATTCCTCAAGAG
257 ACTTGACGAATATATCTGTTCTTTACCTTCATACCAACAAACTCTCAGGTTATATTCCTCAAGAG
*
38995 ATCGGATTCTTGAAACATCTCCAAGAGCTTGACATATCC
322 ATTGGATTCTTG-AACATCTCCAAGAGCTTGACATATCC
* * * * ** * *
39034 CATAATAATCTCATGGGTTCTATCCCAACTTCAATAGGAAACTTGGTGCATTTATCCCTTCTTTA
1 CAAAATAATCTCACGGGTCCAATCCCAACTTCAATAGGAAACTTGACGAATATATCCCTTCTTTA
* * ** * * *
39099 CCTTCAAGCCAACAAACTCTCTGGTTCCATCCCTCAAGAGATTGGATTGTTGAAGCATCTTCAGA
66 CCTTCAAGCCAACAAACTCTCAGGTTACATCCCTCAAGAGATTGGATTCCTAAAACATCTCCAGA
* * * *
39164 AACTCAGCTTGTCCGAGAATAGTCTCTCTGGTGTCATTCCAGAAGAGATTGGATATTTGAGATCC
131 AACTCAGCTTATCCGAGAATAGTCTCTCTGGTGGCATTCCAGAAGAGATTGGAAATTTAAGATCC
* * *
39229 CTTATGGAGCTTTATTTGTCTCAAAATAATTTGACGGGTCCAATCCCAACTTCAATTGGAAACTT
196 CTTATAGAGCTTTATTTGTCTCAAAATAATCTCACGGGTCCAATCCCAACTTCAATTGGAAACTT
*
39294 GACGAATATATCTGTTCTTTACCTTCATACCAGCAAACTCTCAGGTTATATTCCTCAAGAGATTG
261 GACGAATATATCTGTTCTTTACCTTCATACCAACAAACTCTCAGGTTATATTCCTCAAGAGATTG
**
39359 GATTCCTAAAACATCTCCAAGAGCTTG
326 GATT-CTTGAACATCTCCAAGAGCTTG
39386 TCTTATCCGA
Statistics
Matches: 307, Mismatches: 40, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
359 1 0.00
360 301 0.98
361 5 0.02
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (359 bp):
CAAAATAATCTCACGGGTCCAATCCCAACTTCAATAGGAAACTTGACGAATATATCCCTTCTTTA
CCTTCAAGCCAACAAACTCTCAGGTTACATCCCTCAAGAGATTGGATTCCTAAAACATCTCCAGA
AACTCAGCTTATCCGAGAATAGTCTCTCTGGTGGCATTCCAGAAGAGATTGGAAATTTAAGATCC
CTTATAGAGCTTTATTTGTCTCAAAATAATCTCACGGGTCCAATCCCAACTTCAATTGGAAACTT
GACGAATATATCTGTTCTTTACCTTCATACCAACAAACTCTCAGGTTATATTCCTCAAGAGATTG
GATTCTTGAACATCTCCAAGAGCTTGACATATCC
Found at i:39066 original size:144 final size:144
Alignment explanation
Indices: 38893--39158 Score: 363
Period size: 144 Copynumber: 1.8 Consensus size: 144
38883 TTTGTCTCGA
* * **
38893 AATAATCTCACGGGTCCAATCCCAGCTTCAATTGGAAACTTGATGAATATATCTGTTCTTTACCT
1 AATAATCTCACGGGTCCAATCCCAACTTCAATAGGAAACTTGATGAATATATCCCTTCTTTACCT
* *
38958 TCATA-CCAACAAACTCTCAGGTTATATTCCTCAAGAGATCGGATTCTTGAAACATCTCCAAGAG
66 TCA-AGCCAACAAACTCTCAGGTTACATCCCTCAAGAGATCGGATTCTTGAAACATCTCCAAGAG
39022 CTTGACATATCCCAT
130 CTTGACATATCCCAT
* * * * * *
39037 AATAATCTCATGGGTTCTATCCCAACTTCAATAGGAAACTTGGTGCATTTATCCCTTCTTTACCT
1 AATAATCTCACGGGTCCAATCCCAACTTCAATAGGAAACTTGATGAATATATCCCTTCTTTACCT
* * * * *
39102 TCAAGCCAACAAACTCTCTGGTTCCATCCCTCAAGAGATTGGATTGTTGAAGCATCT
66 TCAAGCCAACAAACTCTCAGGTTACATCCCTCAAGAGATCGGATTCTTGAAACATCT
39159 TCAGAAACTC
Statistics
Matches: 104, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
143 1 0.01
144 103 0.99
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (144 bp):
AATAATCTCACGGGTCCAATCCCAACTTCAATAGGAAACTTGATGAATATATCCCTTCTTTACCT
TCAAGCCAACAAACTCTCAGGTTACATCCCTCAAGAGATCGGATTCTTGAAACATCTCCAAGAGC
TTGACATATCCCAT
Found at i:39379 original size:576 final size:576
Alignment explanation
Indices: 38270--40879 Score: 4677
Period size: 576 Copynumber: 4.5 Consensus size: 576
38260 TTCATACCTA
* * * * * * * *
38270 AAGAGCTTGGATATTTGAGATCTCTTTCAGAACTTTATTTATCTC-ACAACAATTTGATGGGTCC
1 AAGAGATTGGAAATTTGAGATCTCTTTCAGAGCTTTATTTGTCTCGA-AATAATCTCACGGGTCC
* * *
38334 AATACCAGCTTCAATTGGAAACTTGATGAATATATCTGTTCTTTACCTTCATACCAACAACCTTT
65 AATCCCAGCTTCAATTGGAAACTTGATGAATATATCTGTTCTTTACCTTCATACCAACAAACTCT
* ** * *
38399 CAGGTTATATTCCTCAAGAGATTGGATTCCCGAAACATCTCCAAAAGCTTGACTTATCCCATAAT
130 CAGGTTATATTCCTCAAGAGATCGGATTCTTGAAACATCTCCAAGAGCTTGACATATCCCATAAT
* *
38464 AATCTCATGGGTTCTATCCCAACTTCAATAGAAAACTTGGTGCATTTATCCCTTCTTTGCCTTCA
195 AATCTCATGGGTTCTATCCCAACTTCAATAGGAAACTTGGTGCATTTATCCCTTCTTTACCTTCA
* * *
38529 AGACAACAAACTCTCTGGTTCCATCCCTCAAGAGATTGGATTGTTGAAGCACCTTCAAAAACTCA
260 AGCCAACAAACTCTCTGGTTCCATCCCTCAAGAGATTGGATTGTTGAAGCATCTTCAGAAACTCA
38594 GCTTATCCGAGAATAGTCTCTCTGGTGGCATTCCAGAAGAGATTGGATATTTGAGATCCCTTATG
325 GCTTATCCGAGAATAGTCTCTCTGGTGGCATTCCAGAAGAGATTGGATATTTGAGATCCCTTATG
38659 GAGCTTTATTTGTCTCAAAATAATTTGACGGGTCCAATCCCAACTTCAATTGGAAACTTGACGAA
390 GAGCTTTATTTGTCTCAAAATAATTTGACGGGTCCAATCCCAACTTCAATTGGAAACTTGACGAA
38724 TATATCTGTTCTTTACCTTCATACCAGCAAACTCTCAGGTTATATTCCTCAAGAGATTGGATTCC
455 TATATCTGTTCTTTACCTTCATACCAGCAAACTCTCAGGTTATATTCCTCAAGAGATTGGATTCC
38789 TAAAACATCTCCAAGAGCTTGACTTATCCGAGAATAGTCTCTCTGGTGGCATTCCAG
520 TAAAACATCTCCAAGAGCTTGACTTATCCGAGAATAGTCTCTCTGGTGGCATTCCAG
*
38846 AAGAGATTGGAAATTTAAGATCTCTTTCAGAGCTTTATTTGTCTCGAAATAATCTCACGGGTCCA
1 AAGAGATTGGAAATTTGAGATCTCTTTCAGAGCTTTATTTGTCTCGAAATAATCTCACGGGTCCA
38911 ATCCCAGCTTCAATTGGAAACTTGATGAATATATCTGTTCTTTACCTTCATACCAACAAACTCTC
66 ATCCCAGCTTCAATTGGAAACTTGATGAATATATCTGTTCTTTACCTTCATACCAACAAACTCTC
38976 AGGTTATATTCCTCAAGAGATCGGATTCTTGAAACATCTCCAAGAGCTTGACATATCCCATAATA
131 AGGTTATATTCCTCAAGAGATCGGATTCTTGAAACATCTCCAAGAGCTTGACATATCCCATAATA
39041 ATCTCATGGGTTCTATCCCAACTTCAATAGGAAACTTGGTGCATTTATCCCTTCTTTACCTTCAA
196 ATCTCATGGGTTCTATCCCAACTTCAATAGGAAACTTGGTGCATTTATCCCTTCTTTACCTTCAA
39106 GCCAACAAACTCTCTGGTTCCATCCCTCAAGAGATTGGATTGTTGAAGCATCTTCAGAAACTCAG
261 GCCAACAAACTCTCTGGTTCCATCCCTCAAGAGATTGGATTGTTGAAGCATCTTCAGAAACTCAG
* *
39171 CTTGTCCGAGAATAGTCTCTCTGGTGTCATTCCAGAAGAGATTGGATATTTGAGATCCCTTATGG
326 CTTATCCGAGAATAGTCTCTCTGGTGGCATTCCAGAAGAGATTGGATATTTGAGATCCCTTATGG
39236 AGCTTTATTTGTCTCAAAATAATTTGACGGGTCCAATCCCAACTTCAATTGGAAACTTGACGAAT
391 AGCTTTATTTGTCTCAAAATAATTTGACGGGTCCAATCCCAACTTCAATTGGAAACTTGACGAAT
39301 ATATCTGTTCTTTACCTTCATACCAGCAAACTCTCAGGTTATATTCCTCAAGAGATTGGATTCCT
456 ATATCTGTTCTTTACCTTCATACCAGCAAACTCTCAGGTTATATTCCTCAAGAGATTGGATTCCT
*
39366 AAAACATCTCCAAGAGCTTGTCTTATCCGAGAATAGTCTCTCTGGTGGCATTCCAG
521 AAAACATCTCCAAGAGCTTGACTTATCCGAGAATAGTCTCTCTGGTGGCATTCCAG
39422 AAGAGATTGGAAATTTGAGATCTCTTTCAGAGCTTTATTTGTCTCGAAATAATCTCACGGGTCCA
1 AAGAGATTGGAAATTTGAGATCTCTTTCAGAGCTTTATTTGTCTCGAAATAATCTCACGGGTCCA
39487 ATCCCAGCTTCAATTGGAAACTTGATGAATATATCTGTTCTTTACCTTCATACCAACAAACTCTC
66 ATCCCAGCTTCAATTGGAAACTTGATGAATATATCTGTTCTTTACCTTCATACCAACAAACTCTC
39552 AGGTTATATTCCTCAAGAGATCGGATTCTTGAAACATCTCCAAGAGCTTGACATATCCCATAATA
131 AGGTTATATTCCTCAAGAGATCGGATTCTTGAAACATCTCCAAGAGCTTGACATATCCCATAATA
39617 ATCTCATGGGTTCTATCCCAACTTCAATAGGAAACTTGGTGCATTTATCCCTTCTTTACCTTCAA
196 ATCTCATGGGTTCTATCCCAACTTCAATAGGAAACTTGGTGCATTTATCCCTTCTTTACCTTCAA
39682 GCCAACAAACTCTCTGGTTCCATCCCTCAAGAGATTGGATTGTTGAAGCATCTTCAGAAACTCAG
261 GCCAACAAACTCTCTGGTTCCATCCCTCAAGAGATTGGATTGTTGAAGCATCTTCAGAAACTCAG
*
39747 CTTATCCGAGAATAGTCTCTCTGGTGTCATTCCAGAAGAGATTGGATATTTGAGATCCCTTATGG
326 CTTATCCGAGAATAGTCTCTCTGGTGGCATTCCAGAAGAGATTGGATATTTGAGATCCCTTATGG
39812 AGCTTTATTTGTCTCAAAATAATTTGACGGGTCCAATCCCAACTTCAATTGGAAACTTGACGAAT
391 AGCTTTATTTGTCTCAAAATAATTTGACGGGTCCAATCCCAACTTCAATTGGAAACTTGACGAAT
*
39877 ATATCTGTTCTTTACCTTCGTACCAGCAAACTCTCAGGTTATATTCCTCAAGAGATTGGATTCCT
456 ATATCTGTTCTTTACCTTCATACCAGCAAACTCTCAGGTTATATTCCTCAAGAGATTGGATTCCT
*
39942 AAAACATCTCCAAGAGCTTGTCTTATCCGAGAATAGTCTCTCTGGTGGCATTCCAG
521 AAAACATCTCCAAGAGCTTGACTTATCCGAGAATAGTCTCTCTGGTGGCATTCCAG
39998 AAGAGATTGGAAATTTGAGATCTCTTTCAGAGCTTTATTTGTCTCGAAATAATCTCACGGGTCCA
1 AAGAGATTGGAAATTTGAGATCTCTTTCAGAGCTTTATTTGTCTCGAAATAATCTCACGGGTCCA
*
40063 ATCCCAGCTTCAATTGGAAACTTGATGAACATATCTGTTCTTTACCTTCATACCAACAAACTCTC
66 ATCCCAGCTTCAATTGGAAACTTGATGAATATATCTGTTCTTTACCTTCATACCAACAAACTCTC
40128 AGGTTATATTCCTCAAGAGATCGGATTCTTGAAACATCTCCAAGAGCTTGACATATCCCATAATA
131 AGGTTATATTCCTCAAGAGATCGGATTCTTGAAACATCTCCAAGAGCTTGACATATCCCATAATA
40193 ATCTCATGGGTTCTATCCCAACTTCAATAGGAAACTTGGTGCATTTATCCCTTCTTTACCTTCAA
196 ATCTCATGGGTTCTATCCCAACTTCAATAGGAAACTTGGTGCATTTATCCCTTCTTTACCTTCAA
40258 GCCAACAAACTCTCTGGTTCCATCCCTCAAGAGATTGGATTGTTGAAGCATCTTCAGAAACTCAG
261 GCCAACAAACTCTCTGGTTCCATCCCTCAAGAGATTGGATTGTTGAAGCATCTTCAGAAACTCAG
*
40323 ATTATCCGAGAATAGTCTCTCTGGTGGCATTCCAGAAGAGATTGGATATTTGAGATCCCTTATGG
326 CTTATCCGAGAATAGTCTCTCTGGTGGCATTCCAGAAGAGATTGGATATTTGAGATCCCTTATGG
*
40388 AGCTTTATTTGTCTCAAAATAATTTGACGGGTCCAATCCCAACTTCAATTGGAAACTTGACGAAC
391 AGCTTTATTTGTCTCAAAATAATTTGACGGGTCCAATCCCAACTTCAATTGGAAACTTGACGAAT
*
40453 ATATCTGTTCTTTACCTTCGTACCAGCAAACTCTCAGGTTATATTCCTCAAGAGATTGGATTCCT
456 ATATCTGTTCTTTACCTTCATACCAGCAAACTCTCAGGTTATATTCCTCAAGAGATTGGATTCCT
40518 AAAACATCTCCAAGAGCTTGACTTATCCGAGAATAGTCTCTCTGGTGGCATTCCAG
521 AAAACATCTCCAAGAGCTTGACTTATCCGAGAATAGTCTCTCTGGTGGCATTCCAG
40574 AAGAGATTGGAAATTTGAGATCTCTTTCAGAGCTTTATTTGTCTCGAAATAATCTCACGGGTCCA
1 AAGAGATTGGAAATTTGAGATCTCTTTCAGAGCTTTATTTGTCTCGAAATAATCTCACGGGTCCA
* *
40639 ATCCCAACTTCAATTGGAAACTTGACGAATATATCTGTTCTTTACCTTCATACCAACAAACTCTC
66 ATCCCAGCTTCAATTGGAAACTTGATGAATATATCTGTTCTTTACCTTCATACCAACAAACTCTC
* * * * * *
40704 AGGTTATATTCCTCAAGAGATCGGATTATTGAAGCATCTCTATGATCTTGA-ATTATCCTATAAT
131 AGGTTATATTCCTCAAGAGATCGGATTCTTGAAACATCTCCAAGAGCTTGACA-TATCCCATAAT
* * * * * ** * * **
40768 AATCTCAGGGGTCCAATCCCAATTTCAATTGGAAACTTGACGAATATATCTGTTCTTTACCTTCA
195 AATCTCATGGGTTCTATCCCAACTTCAATAGGAAACTTGGTGCATTTATCCCTTCTTTACCTTCA
* ** *
40833 TA-CCAACAAACTCTCAGGTTATATTCCTCAAGAGATTGGATTGTTGA
260 -AGCCAACAAACTCTCTGGTTCCATCCCTCAAGAGATTGGATTGTTGA
40880 GATCTCTTGT
Statistics
Matches: 1974, Mismatches: 57, Indels: 6
0.97 0.03 0.00
Matches are distributed among these distances:
575 1 0.00
576 1971 1.00
577 2 0.00
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (576 bp):
AAGAGATTGGAAATTTGAGATCTCTTTCAGAGCTTTATTTGTCTCGAAATAATCTCACGGGTCCA
ATCCCAGCTTCAATTGGAAACTTGATGAATATATCTGTTCTTTACCTTCATACCAACAAACTCTC
AGGTTATATTCCTCAAGAGATCGGATTCTTGAAACATCTCCAAGAGCTTGACATATCCCATAATA
ATCTCATGGGTTCTATCCCAACTTCAATAGGAAACTTGGTGCATTTATCCCTTCTTTACCTTCAA
GCCAACAAACTCTCTGGTTCCATCCCTCAAGAGATTGGATTGTTGAAGCATCTTCAGAAACTCAG
CTTATCCGAGAATAGTCTCTCTGGTGGCATTCCAGAAGAGATTGGATATTTGAGATCCCTTATGG
AGCTTTATTTGTCTCAAAATAATTTGACGGGTCCAATCCCAACTTCAATTGGAAACTTGACGAAT
ATATCTGTTCTTTACCTTCATACCAGCAAACTCTCAGGTTATATTCCTCAAGAGATTGGATTCCT
AAAACATCTCCAAGAGCTTGACTTATCCGAGAATAGTCTCTCTGGTGGCATTCCAG
Found at i:39397 original size:216 final size:215
Alignment explanation
Indices: 39037--39601 Score: 776
Period size: 216 Copynumber: 2.6 Consensus size: 215
39027 CATATCCCAT
* * * * * * * **
39037 AATAATCTCATGGGTTCTATCCCAACTTCAATAGGAAACTTGGTGCATTTATCCCTTCTTTACCT
1 AATAATCTCACGGGTCCAATCCCAACTTCAATTGGAAACTTGATGAATATATCTGTTCTTTACCT
* ** * * * *
39102 TCA-AGCCAACAAACTCTCTGGTTCCATCCCTCAAGAGATTGGATTGTTGAAGCATCTTC-AGAA
66 TCATA-CCAACAAACTCTCAGGTTATATTCCTCAAGAGATTGGATTCTTGAAACATCTCCAAG-A
* * * * *
39165 ACTCAGCTTGTCCGAGAATAGTCTCTCTGGTGTCATTCCAGAAGAGATTGGATATTTGAGATCCC
129 GCT-TGCTTATCCGAGAATAGTCTCTCTGGTGGCATTCCAGAAGAGATTGGAAATTTGAGATCCC
*
39230 TTAT-GGAGCTTTATTTGTCTCAA
193 TT-TCAGAGCTTTATTTGTCTCAA
* * *
39253 AATAATTTGACGGGTCCAATCCCAACTTCAATTGGAAACTTGACGAATATATCTGTTCTTTACCT
1 AATAATCTCACGGGTCCAATCCCAACTTCAATTGGAAACTTGATGAATATATCTGTTCTTTACCT
* * *
39318 TCATACCAGCAAACTCTCAGGTTATATTCCTCAAGAGATTGGATTCCTAAAACATCTCCAAGAGC
66 TCATACCAACAAACTCTCAGGTTATATTCCTCAAGAGATTGGATTCTTGAAACATCTCCAAGAGC
*
39383 TTGTCTTATCCGAGAATAGTCTCTCTGGTGGCATTCCAGAAGAGATTGGAAATTTGAGATCTCTT
131 TTG-CTTATCCGAGAATAGTCTCTCTGGTGGCATTCCAGAAGAGATTGGAAATTTGAGATCCCTT
*
39448 TCAGAGCTTTATTTGTCTCGA
195 TCAGAGCTTTATTTGTCTCAA
*
39469 AATAATCTCACGGGTCCAATCCCAGCTTCAATTGGAAACTTGATGAATATATCTGTTCTTTACCT
1 AATAATCTCACGGGTCCAATCCCAACTTCAATTGGAAACTTGATGAATATATCTGTTCTTTACCT
*
39534 TCATACCAACAAACTCTCAGGTTATATTCCTCAAGAGATCGGATTCTTGAAACATCTCCAAGAGC
66 TCATACCAACAAACTCTCAGGTTATATTCCTCAAGAGATTGGATTCTTGAAACATCTCCAAGAGC
39599 TTG
131 TTG
39602 ACATATCCCA
Statistics
Matches: 307, Mismatches: 38, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
215 2 0.01
216 302 0.98
217 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (215 bp):
AATAATCTCACGGGTCCAATCCCAACTTCAATTGGAAACTTGATGAATATATCTGTTCTTTACCT
TCATACCAACAAACTCTCAGGTTATATTCCTCAAGAGATTGGATTCTTGAAACATCTCCAAGAGC
TTGCTTATCCGAGAATAGTCTCTCTGGTGGCATTCCAGAAGAGATTGGAAATTTGAGATCCCTTT
CAGAGCTTTATTTGTCTCAA
Found at i:39572 original size:360 final size:359
Alignment explanation
Indices: 39250--39961 Score: 991
Period size: 360 Copynumber: 2.0 Consensus size: 359
39240 TTATTTGTCT
* * * **
39250 CAAAATAATTTGACGGGTCCAATCCCAACTTCAATTGGAAACTTGACGAATATATCTGTTCTTTA
1 CAAAATAATCTCACGGGTCCAATCCCAACTTCAATAGGAAACTTGACGAATATATCCCTTCTTTA
* * *
39315 CCTTCATA-CCAGCAAACTCTCAGGTTATATTCCTCAAGAGATTGGATTCCTAAAACATCTCCA-
66 CCTTCA-AGCCAACAAACTCTCAGGTTACATCCCTCAAGAGATTGGATTCCTAAAACATCTCCAG
* *
39378 AGAGCT-TGTCTTATCCGAGAATAGTCTCTCTGGTGGCATTCCAGAAGAGATTGGAAATTTGAGA
130 A-AACTCAG-CTTATCCGAGAATAGTCTCTCTGGTGGCATTCCAGAAGAGATTGGAAATTTGAGA
* * *
39442 TCTCTT-TCAGAGCTTTATTTGTCTCGAAATAATCTCACGGGTCCAATCCCAGCTTCAATTGGAA
193 TCCCTTAT-AGAGCTTTATTTGTCTCAAAATAATCTCACGGGTCCAATCCCAACTTCAATTGGAA
*
39506 ACTTGATGAATATATCTGTTCTTTACCTTCATACCAACAAACTCTCAGGTTATATTCCTCAAGAG
257 ACTTGACGAATATATCTGTTCTTTACCTTCATACCAACAAACTCTCAGGTTATATTCCTCAAGAG
*
39571 ATCGGATTCTTGAAACATCTCCAAGAGCTTGACATATCC
322 ATTGGATTCTTG-AACATCTCCAAGAGCTTGACATATCC
* * * * ** * *
39610 CATAATAATCTCATGGGTTCTATCCCAACTTCAATAGGAAACTTGGTGCATTTATCCCTTCTTTA
1 CAAAATAATCTCACGGGTCCAATCCCAACTTCAATAGGAAACTTGACGAATATATCCCTTCTTTA
* * ** * * *
39675 CCTTCAAGCCAACAAACTCTCTGGTTCCATCCCTCAAGAGATTGGATTGTTGAAGCATCTTCAGA
66 CCTTCAAGCCAACAAACTCTCAGGTTACATCCCTCAAGAGATTGGATTCCTAAAACATCTCCAGA
* *
39740 AACTCAGCTTATCCGAGAATAGTCTCTCTGGTGTCATTCCAGAAGAGATTGGATATTTGAGATCC
131 AACTCAGCTTATCCGAGAATAGTCTCTCTGGTGGCATTCCAGAAGAGATTGGAAATTTGAGATCC
* * *
39805 CTTATGGAGCTTTATTTGTCTCAAAATAATTTGACGGGTCCAATCCCAACTTCAATTGGAAACTT
196 CTTATAGAGCTTTATTTGTCTCAAAATAATCTCACGGGTCCAATCCCAACTTCAATTGGAAACTT
* *
39870 GACGAATATATCTGTTCTTTACCTTCGTACCAGCAAACTCTCAGGTTATATTCCTCAAGAGATTG
261 GACGAATATATCTGTTCTTTACCTTCATACCAACAAACTCTCAGGTTATATTCCTCAAGAGATTG
**
39935 GATTCCTAAAACATCTCCAAGAGCTTG
326 GATT-CTTGAACATCTCCAAGAGCTTG
39962 TCTTATCCGA
Statistics
Matches: 308, Mismatches: 39, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
359 1 0.00
360 302 0.98
361 5 0.02
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (359 bp):
CAAAATAATCTCACGGGTCCAATCCCAACTTCAATAGGAAACTTGACGAATATATCCCTTCTTTA
CCTTCAAGCCAACAAACTCTCAGGTTACATCCCTCAAGAGATTGGATTCCTAAAACATCTCCAGA
AACTCAGCTTATCCGAGAATAGTCTCTCTGGTGGCATTCCAGAAGAGATTGGAAATTTGAGATCC
CTTATAGAGCTTTATTTGTCTCAAAATAATCTCACGGGTCCAATCCCAACTTCAATTGGAAACTT
GACGAATATATCTGTTCTTTACCTTCATACCAACAAACTCTCAGGTTATATTCCTCAAGAGATTG
GATTCTTGAACATCTCCAAGAGCTTGACATATCC
Found at i:39642 original size:144 final size:144
Alignment explanation
Indices: 39469--39734 Score: 363
Period size: 144 Copynumber: 1.8 Consensus size: 144
39459 TTTGTCTCGA
* * **
39469 AATAATCTCACGGGTCCAATCCCAGCTTCAATTGGAAACTTGATGAATATATCTGTTCTTTACCT
1 AATAATCTCACGGGTCCAATCCCAACTTCAATAGGAAACTTGATGAATATATCCCTTCTTTACCT
* *
39534 TCATA-CCAACAAACTCTCAGGTTATATTCCTCAAGAGATCGGATTCTTGAAACATCTCCAAGAG
66 TCA-AGCCAACAAACTCTCAGGTTACATCCCTCAAGAGATCGGATTCTTGAAACATCTCCAAGAG
39598 CTTGACATATCCCAT
130 CTTGACATATCCCAT
* * * * * *
39613 AATAATCTCATGGGTTCTATCCCAACTTCAATAGGAAACTTGGTGCATTTATCCCTTCTTTACCT
1 AATAATCTCACGGGTCCAATCCCAACTTCAATAGGAAACTTGATGAATATATCCCTTCTTTACCT
* * * * *
39678 TCAAGCCAACAAACTCTCTGGTTCCATCCCTCAAGAGATTGGATTGTTGAAGCATCT
66 TCAAGCCAACAAACTCTCAGGTTACATCCCTCAAGAGATCGGATTCTTGAAACATCT
39735 TCAGAAACTC
Statistics
Matches: 104, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
143 1 0.01
144 103 0.99
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (144 bp):
AATAATCTCACGGGTCCAATCCCAACTTCAATAGGAAACTTGATGAATATATCCCTTCTTTACCT
TCAAGCCAACAAACTCTCAGGTTACATCCCTCAAGAGATCGGATTCTTGAAACATCTCCAAGAGC
TTGACATATCCCAT
Found at i:39969 original size:216 final size:214
Alignment explanation
Indices: 39613--40177 Score: 756
Period size: 216 Copynumber: 2.6 Consensus size: 214
39603 CATATCCCAT
* * * * * * * **
39613 AATAATCTCATGGGTTCTATCCCAACTTCAATAGGAAACTTGGTGCATTTATCCCTTCTTTACCT
1 AATAATCTCACGGGTCCAATCCCAACTTCAATTGGAAACTTGATGAATATATCTGTTCTTTACCT
* * ** * * * * *
39678 TCAAGCCAACAAACTCTCTGGTTCCATCCCTCAAGAGATTGGATTGTTGAAGCATCTTC-AGAAA
66 TCTA-CCAACAAACTCTCAGGTTATATTCCTCAAGAGATTGGATTCTTGAAACATCTCCAAG-AG
* * *
39742 CTCAGCTTATCCGAGAATAGTCTCTCTGGTGTCATTCCAGAAGAGATTGGATATTTGAGATCCCT
129 CT-TGCTTATCCGAGAATAGTCTCTCTGGTGGCATTCCAGAAGAGATTGGAAATTTGAGATCCCT
*
39807 TAT-GGAGCTTTATTTGTCTCAA
193 T-TCAGAGCTTTATTTGTCTCAA
* * *
39829 AATAATTTGACGGGTCCAATCCCAACTTCAATTGGAAACTTGACGAATATATCTGTTCTTTACCT
1 AATAATCTCACGGGTCCAATCCCAACTTCAATTGGAAACTTGATGAATATATCTGTTCTTTACCT
* * *
39894 TCGTACCAGCAAACTCTCAGGTTATATTCCTCAAGAGATTGGATTCCTAAAACATCTCCAAGAGC
66 TC-TACCAACAAACTCTCAGGTTATATTCCTCAAGAGATTGGATTCTTGAAACATCTCCAAGAGC
*
39959 TTGTCTTATCCGAGAATAGTCTCTCTGGTGGCATTCCAGAAGAGATTGGAAATTTGAGATCTCTT
130 TTG-CTTATCCGAGAATAGTCTCTCTGGTGGCATTCCAGAAGAGATTGGAAATTTGAGATCCCTT
*
40024 TCAGAGCTTTATTTGTCTCGA
194 TCAGAGCTTTATTTGTCTCAA
* *
40045 AATAATCTCACGGGTCCAATCCCAGCTTCAATTGGAAACTTGATGAACATATCTGTTCTTTACCT
1 AATAATCTCACGGGTCCAATCCCAACTTCAATTGGAAACTTGATGAATATATCTGTTCTTTACCT
*
40110 TCATACCAACAAACTCTCAGGTTATATTCCTCAAGAGATCGGATTCTTGAAACATCTCCAAGAGC
66 TC-TACCAACAAACTCTCAGGTTATATTCCTCAAGAGATTGGATTCTTGAAACATCTCCAAGAGC
40175 TTG
130 TTG
40178 ACATATCCCA
Statistics
Matches: 305, Mismatches: 40, Indels: 8
0.86 0.11 0.02
Matches are distributed among these distances:
215 2 0.01
216 300 0.98
217 3 0.01
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (214 bp):
AATAATCTCACGGGTCCAATCCCAACTTCAATTGGAAACTTGATGAATATATCTGTTCTTTACCT
TCTACCAACAAACTCTCAGGTTATATTCCTCAAGAGATTGGATTCTTGAAACATCTCCAAGAGCT
TGCTTATCCGAGAATAGTCTCTCTGGTGGCATTCCAGAAGAGATTGGAAATTTGAGATCCCTTTC
AGAGCTTTATTTGTCTCAA
Found at i:40148 original size:360 final size:359
Alignment explanation
Indices: 39826--40545 Score: 989
Period size: 360 Copynumber: 2.0 Consensus size: 359
39816 TTATTTGTCT
* * * **
39826 CAAAATAATTTGACGGGTCCAATCCCAACTTCAATTGGAAACTTGACGAATATATCTGTTCTTTA
1 CAAAATAATCTCACGGGTCCAATCCCAACTTCAATAGGAAACTTGACGAATATATCCCTTCTTTA
* * * *
39891 CCTTCGTA-CCAGCAAACTCTCAGGTTATATTCCTCAAGAGATTGGATTCCTAAAACATCTCCA-
66 CCTTC-AAGCCAACAAACTCTCAGGTTACATCCCTCAAGAGATTGGATTCCTAAAACATCTCCAG
* * *
39954 AGAGCT-TGTCTTATCCGAGAATAGTCTCTCTGGTGGCATTCCAGAAGAGATTGGAAATTTGAGA
130 A-AACTCAG-ATTATCCGAGAATAGTCTCTCTGGTGGCATTCCAGAAGAGATTGGAAATTTGAGA
* * *
40018 TCTCTT-TCAGAGCTTTATTTGTCTCGAAATAATCTCACGGGTCCAATCCCAGCTTCAATTGGAA
193 TCCCTTAT-AGAGCTTTATTTGTCTCAAAATAATCTCACGGGTCCAATCCCAACTTCAATTGGAA
*
40082 ACTTGATGAACATATCTGTTCTTTACCTTCATACCAACAAACTCTCAGGTTATATTCCTCAAGAG
257 ACTTGACGAACATATCTGTTCTTTACCTTCATACCAACAAACTCTCAGGTTATATTCCTCAAGAG
*
40147 ATCGGATTCTTGAAACATCTCCAAGAGCTTGACATATCC
322 ATTGGATTCTTG-AACATCTCCAAGAGCTTGACATATCC
* * * * ** * *
40186 CATAATAATCTCATGGGTTCTATCCCAACTTCAATAGGAAACTTGGTGCATTTATCCCTTCTTTA
1 CAAAATAATCTCACGGGTCCAATCCCAACTTCAATAGGAAACTTGACGAATATATCCCTTCTTTA
* * ** * * *
40251 CCTTCAAGCCAACAAACTCTCTGGTTCCATCCCTCAAGAGATTGGATTGTTGAAGCATCTTCAGA
66 CCTTCAAGCCAACAAACTCTCAGGTTACATCCCTCAAGAGATTGGATTCCTAAAACATCTCCAGA
*
40316 AACTCAGATTATCCGAGAATAGTCTCTCTGGTGGCATTCCAGAAGAGATTGGATATTTGAGATCC
131 AACTCAGATTATCCGAGAATAGTCTCTCTGGTGGCATTCCAGAAGAGATTGGAAATTTGAGATCC
* * *
40381 CTTATGGAGCTTTATTTGTCTCAAAATAATTTGACGGGTCCAATCCCAACTTCAATTGGAAACTT
196 CTTATAGAGCTTTATTTGTCTCAAAATAATCTCACGGGTCCAATCCCAACTTCAATTGGAAACTT
* *
40446 GACGAACATATCTGTTCTTTACCTTCGTACCAGCAAACTCTCAGGTTATATTCCTCAAGAGATTG
261 GACGAACATATCTGTTCTTTACCTTCATACCAACAAACTCTCAGGTTATATTCCTCAAGAGATTG
** *
40511 GATTCCTAAAACATCTCCAAGAGCTTGACTTATCC
326 GATT-CTTGAACATCTCCAAGAGCTTGACATATCC
40546 GAGAATAGTC
Statistics
Matches: 314, Mismatches: 41, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
359 1 0.00
360 308 0.98
361 5 0.02
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (359 bp):
CAAAATAATCTCACGGGTCCAATCCCAACTTCAATAGGAAACTTGACGAATATATCCCTTCTTTA
CCTTCAAGCCAACAAACTCTCAGGTTACATCCCTCAAGAGATTGGATTCCTAAAACATCTCCAGA
AACTCAGATTATCCGAGAATAGTCTCTCTGGTGGCATTCCAGAAGAGATTGGAAATTTGAGATCC
CTTATAGAGCTTTATTTGTCTCAAAATAATCTCACGGGTCCAATCCCAACTTCAATTGGAAACTT
GACGAACATATCTGTTCTTTACCTTCATACCAACAAACTCTCAGGTTATATTCCTCAAGAGATTG
GATTCTTGAACATCTCCAAGAGCTTGACATATCC
Found at i:40212 original size:144 final size:144
Alignment explanation
Indices: 40045--40310 Score: 354
Period size: 144 Copynumber: 1.8 Consensus size: 144
40035 TTTGTCTCGA
* * **
40045 AATAATCTCACGGGTCCAATCCCAGCTTCAATTGGAAACTTGATGAACATATCTGTTCTTTACCT
1 AATAATCTCACGGGTCCAATCCCAACTTCAATAGGAAACTTGATGAACATATCCCTTCTTTACCT
* *
40110 TCATA-CCAACAAACTCTCAGGTTATATTCCTCAAGAGATCGGATTCTTGAAACATCTCCAAGAG
66 TCA-AGCCAACAAACTCTCAGGTTACATCCCTCAAGAGATCGGATTCTTGAAACATCTCCAAGAG
40174 CTTGACATATCCCAT
130 CTTGACATATCCCAT
* * * * * **
40189 AATAATCTCATGGGTTCTATCCCAACTTCAATAGGAAACTTGGTGCATTTATCCCTTCTTTACCT
1 AATAATCTCACGGGTCCAATCCCAACTTCAATAGGAAACTTGATGAACATATCCCTTCTTTACCT
* * * * *
40254 TCAAGCCAACAAACTCTCTGGTTCCATCCCTCAAGAGATTGGATTGTTGAAGCATCT
66 TCAAGCCAACAAACTCTCAGGTTACATCCCTCAAGAGATCGGATTCTTGAAACATCT
40311 TCAGAAACTC
Statistics
Matches: 103, Mismatches: 18, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
143 1 0.01
144 102 0.99
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (144 bp):
AATAATCTCACGGGTCCAATCCCAACTTCAATAGGAAACTTGATGAACATATCCCTTCTTTACCT
TCAAGCCAACAAACTCTCAGGTTACATCCCTCAAGAGATCGGATTCTTGAAACATCTCCAAGAGC
TTGACATATCCCAT
Found at i:40546 original size:216 final size:216
Alignment explanation
Indices: 40189--40730 Score: 723
Period size: 216 Copynumber: 2.5 Consensus size: 216
40179 CATATCCCAT
* * * * ** * ** **
40189 AATAATCTCATGGGTTCTATCCCAACTTCAATAGGAAACTTGGTGCATTTATCCCTTCTTTACCT
1 AATAATCTCACGGGTCCAATCCCAACTTCAATTGGAAACTTGACGAACATATCTGTTCTTTACCT
* ** * * ** * * *
40254 TCA-AGCCAACAAACTCTCTGGTTCCATCCCTCAAGAGATTGGATTGTTGAAGCATCTTC-AGAA
66 TCATA-CCAACAAACTCTCAGGTTATATTCCTCAAGAGATCGGATTCCTAAAACATCTCCAAG-A
* * *
40317 ACTCAGA-TTATCCGAGAATAGTCTCTCTGGTGGCATTCCAGAAGAGATTGGATATTTGAGATCC
129 GCT-TGACTTATCCGAGAATAGTCTCTCTGGTGGCATTCCAGAAGAGATTGGAAATTTGAGATCC
*
40381 CTTAT-GGAGCTTTATTTGTCTCAA
193 CTT-TCAGAGCTTTATTTGTCTCAA
* *
40405 AATAATTTGACGGGTCCAATCCCAACTTCAATTGGAAACTTGACGAACATATCTGTTCTTTACCT
1 AATAATCTCACGGGTCCAATCCCAACTTCAATTGGAAACTTGACGAACATATCTGTTCTTTACCT
* * *
40470 TCGTACCAGCAAACTCTCAGGTTATATTCCTCAAGAGATTGGATTCCTAAAACATCTCCAAGAGC
66 TCATACCAACAAACTCTCAGGTTATATTCCTCAAGAGATCGGATTCCTAAAACATCTCCAAGAGC
*
40535 TTGACTTATCCGAGAATAGTCTCTCTGGTGGCATTCCAGAAGAGATTGGAAATTTGAGATCTCTT
131 TTGACTTATCCGAGAATAGTCTCTCTGGTGGCATTCCAGAAGAGATTGGAAATTTGAGATCCCTT
*
40600 TCAGAGCTTTATTTGTCTCGA
196 TCAGAGCTTTATTTGTCTCAA
*
40621 AATAATCTCACGGGTCCAATCCCAACTTCAATTGGAAACTTGACGAATATATCTGTTCTTTACCT
1 AATAATCTCACGGGTCCAATCCCAACTTCAATTGGAAACTTGACGAACATATCTGTTCTTTACCT
40686 TCATACCAACAAACTCTCAGGTTATATTCCTCAAGAGATCGGATT
66 TCATACCAACAAACTCTCAGGTTATATTCCTCAAGAGATCGGATT
40731 ATTGAAGCAT
Statistics
Matches: 286, Mismatches: 36, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
215 3 0.01
216 280 0.98
217 3 0.01
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.32
Consensus pattern (216 bp):
AATAATCTCACGGGTCCAATCCCAACTTCAATTGGAAACTTGACGAACATATCTGTTCTTTACCT
TCATACCAACAAACTCTCAGGTTATATTCCTCAAGAGATCGGATTCCTAAAACATCTCCAAGAGC
TTGACTTATCCGAGAATAGTCTCTCTGGTGGCATTCCAGAAGAGATTGGAAATTTGAGATCCCTT
TCAGAGCTTTATTTGTCTCAA
Found at i:40897 original size:144 final size:144
Alignment explanation
Indices: 40621--40886 Score: 482
Period size: 144 Copynumber: 1.9 Consensus size: 144
40611 TTTGTCTCGA
40621 AATAATCTCACGGGTCCAATCCCAACTTCAATTGGAAACTTGACGAATATATCTGTTCTTTACCT
1 AATAATCTCACGGGTCCAATCCCAACTTCAATTGGAAACTTGACGAATATATCTGTTCTTTACCT
40686 TCATACCAACAAACTCTCAGGTTATATTCCTCAAGAGATCGGATTATTGAAGCATCTCTATGATC
66 TCATACCAACAAACTCTCAGGTTATATTCCTCAAGAGATCGGATTATTGAAGCATCTCTATGATC
40751 TTGAATTATCCTAT
131 TTGAATTATCCTAT
* *
40765 AATAATCTCAGGGGTCCAATCCCAATTTCAATTGGAAACTTGACGAATATATCTGTTCTTTACCT
1 AATAATCTCACGGGTCCAATCCCAACTTCAATTGGAAACTTGACGAATATATCTGTTCTTTACCT
* *
40830 TCATACCAACAAACTCTCAGGTTATATTCCTCAAGAGATTGGATTGTTG-AG-ATCTCT
66 TCATACCAACAAACTCTCAGGTTATATTCCTCAAGAGATCGGATTATTGAAGCATCTCT
40887 TGTAGATCTT
Statistics
Matches: 118, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
142 6 0.05
143 2 0.02
144 110 0.93
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (144 bp):
AATAATCTCACGGGTCCAATCCCAACTTCAATTGGAAACTTGACGAATATATCTGTTCTTTACCT
TCATACCAACAAACTCTCAGGTTATATTCCTCAAGAGATCGGATTATTGAAGCATCTCTATGATC
TTGAATTATCCTAT
Found at i:42727 original size:2 final size:2
Alignment explanation
Indices: 42720--42750 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
42710 TGCATCTTTG
*
42720 TC TC TC TC CC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
42751 ATATATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
TC
Found at i:42755 original size:2 final size:2
Alignment explanation
Indices: 42750--42778 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
42740 TCTCTCTCTC
42750 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
42779 TCCTTGAATT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:44118 original size:20 final size:20
Alignment explanation
Indices: 44095--44141 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
44085 TAAATGTGTT
44095 GATACATGTGTAAATATATC
1 GATACATGTGTAAATATATC
* * * *
44115 GATACATTTTTCAATGTATC
1 GATACATGTGTAAATATATC
44135 GATACAT
1 GATACAT
44142 CTAGTTAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (20 bp):
GATACATGTGTAAATATATC
Found at i:50198 original size:30 final size:30
Alignment explanation
Indices: 50162--50220 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
50152 CTTTTTGGAC
*
50162 TGGATTTGAATTAGAA-GGACCGTTCTAAAG
1 TGGATTTGAATTA-AACAGACCGTTCTAAAG
*
50192 TGGATTTTAATTAAACAGACCGTTCTAAA
1 TGGATTTGAATTAAACAGACCGTTCTAAA
50221 TAGGATAGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 24 0.92
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (30 bp):
TGGATTTGAATTAAACAGACCGTTCTAAAG
Found at i:51632 original size:26 final size:26
Alignment explanation
Indices: 51596--51647 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
51586 AATGTGAAGG
51596 CAGTATCGCACCTACCATTTGTTACA
1 CAGTATCGCACCTACCATTTGTTACA
51622 CAGTATCGCACCTACCATTTGTTACA
1 CAGTATCGCACCTACCATTTGTTACA
51648 ACTATACTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.31, G:0.12, T:0.31
Consensus pattern (26 bp):
CAGTATCGCACCTACCATTTGTTACA
Found at i:52940 original size:20 final size:20
Alignment explanation
Indices: 52878--52940 Score: 99
Period size: 20 Copynumber: 3.1 Consensus size: 20
52868 GTGTCAATAT
52878 ATTTTTCAATGTATCGATAC
1 ATTTTTCAATGTATCGATAC
* * *
52898 ATGTATGAATGTATCGATAC
1 ATTTTTCAATGTATCGATAC
52918 ATTTTTCAATGTATCGATAC
1 ATTTTTCAATGTATCGATAC
52938 ATT
1 ATT
52941 CTGTCTTTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.43
Consensus pattern (20 bp):
ATTTTTCAATGTATCGATAC
Found at i:63157 original size:27 final size:27
Alignment explanation
Indices: 63127--63196 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
63117 GGTTGAAAAC
63127 GGGGTTGGAGTGTCCCTTCGAAAGAAT
1 GGGGTTGGAGTGTCCCTTCGAAAGAAT
*
63154 GGGGTTGGAGTGTCCCTTCGGAAGAAT
1 GGGGTTGGAGTGTCCCTTCGAAAGAAT
63181 GGGGTTGGAGTGTCCC
1 GGGGTTGGAGTGTCCC
63197 CGATGAATAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.17, C:0.16, G:0.41, T:0.26
Consensus pattern (27 bp):
GGGGTTGGAGTGTCCCTTCGAAAGAAT
Found at i:64448 original size:20 final size:20
Alignment explanation
Indices: 64425--64463 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
64415 AAGGTGCTGG
*
64425 ACATGCTATAAATGCATGAA
1 ACATGCTAAAAATGCATGAA
*
64445 ACATGGTAAAAATGCATGA
1 ACATGCTAAAAATGCATGA
64464 TCAAGGTTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.13, G:0.18, T:0.23
Consensus pattern (20 bp):
ACATGCTAAAAATGCATGAA
Found at i:65439 original size:20 final size:20
Alignment explanation
Indices: 65414--65451 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
65404 GGATCGATAC
65414 AATGTATCGATACATTTCGT
1 AATGTATCGATACATTTCGT
65434 AATGTATCGATACATTTC
1 AATGTATCGATACATTTC
65452 CTTGGCAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (20 bp):
AATGTATCGATACATTTCGT
Found at i:65489 original size:13 final size:13
Alignment explanation
Indices: 65471--65522 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
65461 AGCTTCGTAG
65471 CGATACATTGTAT
1 CGATACATTGTAT
65484 CGATACAACACTTATGTAT
1 CGAT---ACA-TT--GTAT
65503 CGATACATTGTAT
1 CGATACATTGTAT
65516 CGATACA
1 CGATACA
65523 AATTGTTGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 15 0.45
15 2 0.06
16 6 0.18
17 2 0.06
19 8 0.24
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:66482 original size:39 final size:39
Alignment explanation
Indices: 66410--66569 Score: 115
Period size: 39 Copynumber: 3.9 Consensus size: 39
66400 GTGATAAAGA
* * *
66410 TGCCAATATGCTGATTCACA-GCCAACGATATTGGGCTTG
1 TGCCAATGTGCTGATTCA-AGGCCAGCGACATTGGGCTTG
* *
66449 TGCTAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGC-T-----T---G
* * *
66497 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTG
* * * *
66536 TACCAATGTACTGATTTAAGGCCAGCTACATTGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGG
66570 ACTCAAGACG
Statistics
Matches: 95, Mismatches: 16, Indels: 20
0.73 0.12 0.15
Matches are distributed among these distances:
38 1 0.01
39 57 0.60
40 1 0.01
42 1 0.01
45 1 0.01
47 1 0.01
48 33 0.35
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (39 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTG
Found at i:66651 original size:49 final size:49
Alignment explanation
Indices: 66583--67428 Score: 875
Period size: 49 Copynumber: 17.9 Consensus size: 49
66573 CAAGACGGAA
*
66583 AAGG-GCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAA-AGTG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA-TG
* * * * *
66631 AAGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
*
66680 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* * * * * *
66729 -AGGTGCTAATGTGCTGATTCAAGGCTAGCTACATTGGACTTAAAGATA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
*
66777 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTT----A--
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* * * * *
66820 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAGTTAAAGATA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
*
66869 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* * *
66912 AAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
*
66961 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* * *
67004 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* * * * **
67053 AA--TGCCAATGTGTTGATTCAAGGCCAACGACATTGGGTTTTAAAGATGACG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATT-GGACTTAAAGAT---G
*
67104 AAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* * * * *
67153 AAGGTGCCAATGTGCTGAGTCAAAGCCAGCGAAATTGGACTTAAAGAAG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* * * * * *
67202 AA--TGCCAATGTGTTGATTCAAGGCCAACGACATTGG-GTT-----TA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* * ** *
67243 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGACG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
*
67292 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
** * * *
67335 AAGGTGCCAAGGTGCTGATTCAAGGCCAACAATATCGGACTTAAAGATG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
*
67384 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
67429 AGGGTTGCCA
Statistics
Matches: 672, Mismatches: 85, Indels: 81
0.80 0.10 0.10
Matches are distributed among these distances:
41 2 0.00
43 186 0.28
44 2 0.00
45 4 0.01
46 2 0.00
47 62 0.09
48 54 0.08
49 319 0.47
50 1 0.00
51 3 0.00
52 10 0.01
53 27 0.04
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (49 bp):
AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
Found at i:66886 original size:92 final size:92
Alignment explanation
Indices: 66402--67428 Score: 1017
Period size: 92 Copynumber: 11.0 Consensus size: 92
66392 TGAGAAAAGT
* * * *
66402 GATAAAGATGCCAATATGCTGATTCACA-GCCAACGATATTGGGCTT----GTGCTAATGTGCTG
1 GATAAAGGTGCCAATATGCTGATTCA-AGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTG
* *
66462 ATTCAAGGCCAGCGACATTGGTCTTAAA
65 ATTCAAGGCCAGCTACATTGGACTTAAA
* * *
66490 GAT-AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT--A--TACCAATGTACTGA
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGA
* *
66550 TTTAAGGCCAGCTACATTGGACTCAAGA
66 TTCAAGGCCAGCTACATTGGACTTAA-A
*
66578 CGGA-AAAGG-GCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAAGTGAAGATGCCAA
1 --GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AAA--G--G-TGCCAA
66641 TGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA
58 TGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA
*
66676 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAGGTGCTAATGT
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA----AGGTGCCAATGT
*
66741 GCTGATTCAAGGCTAGCTACATTGGACTTAAA
61 GCTGATTCAAGGCCAGCTACATTGGACTTAAA
*
66773 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGGTGCCAATGTGCTGA
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGA
*
66838 TTCAAGGCCAGCTACATTGGAGTTAAA
66 TTCAAGGCCAGCTACATTGGACTTAAA
* *
66865 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATATGCTGA
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGA
66930 TTCAAGGCCAGCTACATTGGACTTAAA
66 TTCAAGGCCAGCTACATTGGACTTAAA
*
66957 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGA
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGA
67022 TTCAAGGCCAGCTACATTGGACTTAAA
66 TTCAAGGCCAGCTACATTGGACTTAAA
* * * * * * * *
67049 GATGAA--TGCCAATGTGTTGATTCAAGGCCAACGACATTGGGTTTTAAAGATGACGAAGGCGCC
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATT-GG------A-CTTA--AAGGTGCC
* * *
67112 AATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
56 AATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA
* * * * *
67149 GATGAAGGTGCCAATGTGCTGAGTCAAAGCCAGCGAAATTGGACTTAAAGAAGAATGCCAATGTG
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG--G--TGCCAATGTG
* * * *
67214 TTGATTCAAGGCCAACGACATTGG-GTT---
62 CTGATTCAAGGCCAGCTACATTGGACTTAAA
* * ** *
67241 --TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGACGAAGATGCCAATA
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-G--G-TGCCAATG
* *
67304 TGCTGATTCAAGGCCAGCGATATTGGAC-T---
60 TGCTGATTCAAGGCCAGCTACATTGGACTTAAA
** * * * *
67333 --TAAAGGTGCCAAGGTGCTGATTCAAGGCCAACAATATCGGACTTAAAGATGAAGATGCCAATA
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-G--G-TGCCAATG
* *
67396 TGCTGATTCAAGGCCAGCGATATTGGACTTAAA
60 TGCTGATTCAAGGCCAGCTACATTGGACTTAAA
67429 AGGGTTGCCA
Statistics
Matches: 822, Mismatches: 71, Indels: 84
0.84 0.07 0.09
Matches are distributed among these distances:
86 1 0.00
87 71 0.09
88 4 0.00
89 35 0.04
90 71 0.09
91 4 0.00
92 345 0.42
93 5 0.01
94 3 0.00
95 3 0.00
96 33 0.04
97 90 0.11
98 43 0.05
99 36 0.04
100 48 0.06
101 2 0.00
102 28 0.03
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (92 bp):
GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGA
TTCAAGGCCAGCTACATTGGACTTAAA
Found at i:66903 original size:22 final size:22
Alignment explanation
Indices: 66878--66943 Score: 52
Period size: 22 Copynumber: 3.0 Consensus size: 22
66868 AAAGGTGCCA
66878 ATATGCTGATTCAAGGCCAGCT
1 ATATGCTGATTCAAGGCCAGCT
*
66900 ATAT--TGGACTTAAAGGTGCCA---
1 ATATGCT-GA-TTCAA-G-GCCAGCT
66921 ATATGCTGATTCAAGGCCAGCT
1 ATATGCTGATTCAAGGCCAGCT
66943 A
1 A
66944 CATTGGACTT
Statistics
Matches: 33, Mismatches: 2, Indels: 18
0.62 0.04 0.34
Matches are distributed among these distances:
19 4 0.12
20 2 0.06
21 10 0.30
22 11 0.33
23 2 0.06
24 4 0.12
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (22 bp):
ATATGCTGATTCAAGGCCAGCT
Found at i:66936 original size:21 final size:21
Alignment explanation
Indices: 66869--66936 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
66859 GTTAAAGATA
66869 AAGGTGCCAATATGCTGATTC
1 AAGGTGCCAATATGCTGATTC
* ** *
66890 AA-G-GCCAGCTATATTGGACTTA
1 AAGGTGCCA-ATATGCT-GA-TTC
66912 AAGGTGCCAATATGCTGATTC
1 AAGGTGCCAATATGCTGATTC
66933 AAGG
1 AAGG
66937 CCAGCTACAT
Statistics
Matches: 34, Mismatches: 8, Indels: 10
0.65 0.15 0.19
Matches are distributed among these distances:
19 4 0.12
20 5 0.15
21 10 0.29
22 6 0.18
23 5 0.15
24 4 0.12
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (21 bp):
AAGGTGCCAATATGCTGATTC
Found at i:67513 original size:32 final size:31
Alignment explanation
Indices: 67427--67505 Score: 113
Period size: 33 Copynumber: 2.5 Consensus size: 31
67417 ATTGGACTTA
67427 AAAGGGTTGCCATCGACTTGTGTGGGCTTTAG
1 AAAGGGTTGCCA-CGACTTGTGTGGGCTTTAG
*
67459 AGAATGGTTGCCACCGACTTGTGTGGGCTTTAG
1 A-AAGGGTTGCCA-CGACTTGTGTGGGCTTTAG
*
67492 AAAGGGCTGCCACG
1 AAAGGGTTGCCACG
67506 GAGTTGTGGA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
31 2 0.05
32 10 0.24
33 30 0.71
ACGTcount: A:0.20, C:0.19, G:0.34, T:0.27
Consensus pattern (31 bp):
AAAGGGTTGCCACGACTTGTGTGGGCTTTAG
Found at i:67596 original size:27 final size:26
Alignment explanation
Indices: 67559--67611 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 26
67549 TTTCAAAAAG
*
67559 AAAAAGGTGCCACGGAGTTGTGGACT
1 AAAAAGGTGCCACAGAGTTGTGGACT
67585 AAAAAGGGTGCCACAGAGTTGTGGACT
1 AAAAA-GGTGCCACAGAGTTGTGGACT
67612 TTGGAAAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 5 0.20
27 20 0.80
ACGTcount: A:0.32, C:0.15, G:0.34, T:0.19
Consensus pattern (26 bp):
AAAAAGGTGCCACAGAGTTGTGGACT
Found at i:67622 original size:61 final size:64
Alignment explanation
Indices: 67499--67645 Score: 183
Period size: 61 Copynumber: 2.3 Consensus size: 64
67489 TAGAAAGGGC
* *
67499 TGCCACGGAGTTGTGGACTTGAAAGGAAAAGGTGCCACGGAGTTATGGATTTTCAAAAAGAAAAA
1 TGCCACGGAGTTGTGGAC-T-AAA-GAAAAGGTGCCACAGAGTTATGGACTTTCAAAAAGAAAAA
67564 GG
63 GG
* * **
67566 TGCCACGGAGTTGTGGACT-AA-AAAGGGTGCCACAGAGTTGTGGACTTT-GGAAAGAAAAAGG
1 TGCCACGGAGTTGTGGACTAAAGAAAAGGTGCCACAGAGTTATGGACTTTCAAAAAGAAAAAGG
*
67627 TGCCACGAAGTTGTGGACT
1 TGCCACGGAGTTGTGGACT
67646 TTGAAGAAAA
Statistics
Matches: 73, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
61 29 0.40
62 23 0.32
64 2 0.03
66 1 0.01
67 18 0.25
ACGTcount: A:0.33, C:0.14, G:0.33, T:0.21
Consensus pattern (64 bp):
TGCCACGGAGTTGTGGACTAAAGAAAAGGTGCCACAGAGTTATGGACTTTCAAAAAGAAAAAGG
Found at i:67631 original size:34 final size:31
Alignment explanation
Indices: 67499--67686 Score: 154
Period size: 32 Copynumber: 5.9 Consensus size: 31
67489 TAGAAAGGGC
*
67499 TGCCACGGAGTTGTGGAC-TTGAAAGGAAAAGG
1 TGCCAC-GAGTTGTGGACTTTG-AAGAAAAAGG
* * *
67531 TGCCACGGAGTTATGGATTTTCAAAAAGAAAAAGG
1 TGCCAC-GAGTTGTGGACTTT---GAAGAAAAAGG
*
67566 TGCCACGGAGTTGTGGAC--T--A-AAAAGGG
1 TGCCAC-GAGTTGTGGACTTTGAAGAAAAAGG
67593 TGCCACAGAGTTGTGGACTTTGGAAAGAAAAAGG
1 TGCCAC-GAGTTGTGGACTTT-G-AAGAAAAAGG
**
67627 TGCCACGAAGTTGTGGACTTTGAAGAAAAAAA
1 TGCCACG-AGTTGTGGACTTTGAAGAAAAAGG
* *
67659 TGCCACTAGTCGTGGACTTTGAAGAAAA
1 TGCCACGAGTTGTGGACTTTGAAGAAAA
67687 GATGTCACTG
Statistics
Matches: 131, Mismatches: 13, Indels: 25
0.78 0.08 0.15
Matches are distributed among these distances:
27 23 0.18
28 1 0.01
29 1 0.01
31 20 0.15
32 30 0.23
33 6 0.05
34 25 0.19
35 25 0.19
ACGTcount: A:0.35, C:0.13, G:0.30, T:0.21
Consensus pattern (31 bp):
TGCCACGAGTTGTGGACTTTGAAGAAAAAGG
Found at i:67663 original size:32 final size:31
Alignment explanation
Indices: 67593--67686 Score: 116
Period size: 31 Copynumber: 2.9 Consensus size: 31
67583 CTAAAAAGGG
**
67593 TGCCACAGAGTTGTGGACTTTGGAAAGAAAAAGG
1 TGCCACA-AGTTGTGGACTTT-G-AAGAAAAAAA
67627 TGCCACGAAGTTGTGGACTTTGAAGAAAAAAA
1 TGCCAC-AAGTTGTGGACTTTGAAGAAAAAAA
* *
67659 TGCCACTAGTCGTGGACTTTGAAGAAAA
1 TGCCACAAGTTGTGGACTTTGAAGAAAA
67687 GATGTCACTG
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
31 20 0.36
32 14 0.25
33 1 0.02
34 19 0.35
35 1 0.02
ACGTcount: A:0.36, C:0.14, G:0.28, T:0.22
Consensus pattern (31 bp):
TGCCACAAGTTGTGGACTTTGAAGAAAAAAA
Found at i:67677 original size:31 final size:31
Alignment explanation
Indices: 67605--67708 Score: 111
Period size: 31 Copynumber: 3.3 Consensus size: 31
67595 CCACAGAGTT
* * *
67605 GTGGACTTTGGAAAGAAAAAGGTGCCACGAAGTT
1 GTGGACTTT-G-AAGAAAAAGATGCCAC-TAGTC
*
67639 GTGGACTTTGAAGAAAAAAATGCCACTAGTC
1 GTGGACTTTGAAGAAAAAGATGCCACTAGTC
* *
67670 GTGGACTTTGAAG-AAAAGATGTCACTGACTC
1 GTGGACTTTGAAGAAAAAGATGCCACT-AGTC
67701 GTGGACTT
1 GTGGACTT
67709 AGAAAAGAGA
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
30 11 0.18
31 27 0.44
32 14 0.23
33 1 0.02
34 9 0.15
ACGTcount: A:0.34, C:0.14, G:0.28, T:0.24
Consensus pattern (31 bp):
GTGGACTTTGAAGAAAAAGATGCCACTAGTC
Found at i:75443 original size:13 final size:13
Alignment explanation
Indices: 75425--75450 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
75415 ACAAAGATCC
75425 ATGTATCGATACA
1 ATGTATCGATACA
75438 ATGTATCGATACA
1 ATGTATCGATACA
75451 TTTCGTAATG
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:75462 original size:20 final size:20
Alignment explanation
Indices: 75437--75494 Score: 116
Period size: 20 Copynumber: 2.9 Consensus size: 20
75427 GTATCGATAC
75437 AATGTATCGATACATTTCGT
1 AATGTATCGATACATTTCGT
75457 AATGTATCGATACATTTCGT
1 AATGTATCGATACATTTCGT
75477 AATGTATCGATACATTTC
1 AATGTATCGATACATTTC
75495 CTTGGCAGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.40
Consensus pattern (20 bp):
AATGTATCGATACATTTCGT
Found at i:81816 original size:29 final size:29
Alignment explanation
Indices: 81774--81880 Score: 142
Period size: 29 Copynumber: 3.7 Consensus size: 29
81764 CGTTCATCTA
81774 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* * *
81803 TTCAAAGCTCACAAGTTAGTGGCACCCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
81832 TTCAAAGCCCACAAATCAGTAGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* * *
81861 TCCAAAGCCCATAAATCAGT
1 TTCAAAGCCCACAAGTCAGT
81881 CGCCCACAAG
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 68 1.00
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.24
Consensus pattern (29 bp):
TTCAAAGCCCACAAGTCAGTGGCACTCTT
Found at i:81958 original size:28 final size:28
Alignment explanation
Indices: 81882--82775 Score: 1086
Period size: 28 Copynumber: 30.7 Consensus size: 28
81872 TAAATCAGTC
81882 GCCCACAAGTCAGTGGCACTCCTTTCAAA
1 GCCCACAAGTCAGTGGCAC-CCTTTCAAA
*
81911 GCCCATGCAAGTGAGTGGCACCCTTTCAAA
1 GCCCA--CAAGTCAGTGGCACCCTTTCAAA
*
81941 GCCCACAAGTCAGTGGCACTCTTTTCAAA
1 GCCCACAAGTCAGTGGCAC-CCTTTCAAA
* * *
81970 GCCCACGCAAATGAGTGGCACCTTTTCAAA
1 GCCCA--CAAGTCAGTGGCACCCTTTCAAA
* *
82000 GCCCACAAGTCAGGGGCACTCTTTTCAAA
1 GCCCACAAGTCAGTGGCAC-CCTTTCAAA
*
82029 GCCCACAAGTCAGTGGCATCCTTTCAAA
1 GCCCACAAGTCAGTGGCACCCTTTCAAA
82057 GCCCACAAGTCAGTGGCACCCTTTCAAA
1 GCCCACAAGTCAGTGGCACCCTTTCAAA
*
82085 GCCCATGCAAGTCAGTGGCACTCTTTTCAAA
1 GCCCA--CAAGTCAGTGGCAC-CCTTTCAAA
82116 GCCCACAAGTCAGTGGCACCCTTTCAAA
1 GCCCACAAGTCAGTGGCACCCTTTCAAA
**
82144 GCCCACAAGTCAGTGGCACTTTTTTCAAA
1 GCCCACAAGTCAGTGGCAC-CCTTTCAAA
*
82173 GCCCACGCAAGTGAGTGGCACCCTTTCAAA
1 GCCCA--CAAGTCAGTGGCACCCTTTCAAA
* *
82203 GCCCACAAGTTAGTGGCACTCTTTTCAAA
1 GCCCACAAGTCAGTGGCAC-CCTTTCAAA
* * *
82232 TCCCACGCAAGTTAGTGGCACCTTTTCAAA
1 GCCCA--CAAGTCAGTGGCACCCTTTCAAA
*
82262 GCCCACAAGTCAGTGGCATCCTTTCAAA
1 GCCCACAAGTCAGTGGCACCCTTTCAAA
*
82290 GCCCACAAGTCAGTGGCACTCTTTTCAAA
1 GCCCACAAGTCAGTGGCAC-CCTTTCAAA
82319 GCCCACAAGTCAGTGGCACCCTTTCAAA
1 GCCCACAAGTCAGTGGCACCCTTTCAAA
*
82347 GCCCACAAGTCAGTGGCACTCTTTTCAAA
1 GCCCACAAGTCAGTGGCAC-CCTTTCAAA
*
82376 GCCCACGCAAGTGAGTGGCACCCTTTCAAA
1 GCCCA--CAAGTCAGTGGCACCCTTTCAAA
* *
82406 GCCCACAAGTTAGTGGCACTCTTTTCAAA
1 GCCCACAAGTCAGTGGCAC-CCTTTCAAA
* * *
82435 TCCCACGCAAGTTAGTGGCACCTTTTCAAA
1 GCCCA--CAAGTCAGTGGCACCCTTTCAAA
*
82465 GCCCACAAGTCAGTGGCATCCTTTCAAA
1 GCCCACAAGTCAGTGGCACCCTTTCAAA
*
82493 GCCCACAAGTCAGTGGCACTCTTTTCAAA
1 GCCCACAAGTCAGTGGCAC-CCTTTCAAA
* **
82522 GCCCACAAGTTAGTGGCATTCTTTCAAA
1 GCCCACAAGTCAGTGGCACCCTTTCAAA
*
82550 GCACACAAGTCAGTGGCACCCTTTCAAA
1 GCCCACAAGTCAGTGGCACCCTTTCAAA
82578 GCCCACGCAAGTCAGTGGCACCCTTTCAAA
1 GCCCA--CAAGTCAGTGGCACCCTTTCAAA
*
82608 GCCCACAAGTCAGTGGCACTCTTTTCAAA
1 GCCCACAAGTCAGTGGCAC-CCTTTCAAA
* *
82637 GCCCATAAGTTAGTGGCACCCTTTCAAA
1 GCCCACAAGTCAGTGGCACCCTTTCAAA
* * *
82665 GCCTACAAGTTAGTGGCACCCTTTTAAA
1 GCCCACAAGTCAGTGGCACCCTTTCAAA
* **
82693 GCCCACAAGTGAGTGGCACTATTTTCAAA
1 GCCCACAAGTCAGTGGCAC-CCTTTCAAA
* *
82722 GCCCACACGAGTCAATGGCAACTCTTTTCAAA
1 GCCCACA--AGTCAGTGGC-AC-CCTTTCAAA
*
82754 GCCCACACAAGTTAGTGGCACC
1 G-CC-CACAAGTCAGTGGCACC
82776 ATTTTTTTTT
Statistics
Matches: 766, Mismatches: 67, Indels: 63
0.85 0.07 0.07
Matches are distributed among these distances:
28 319 0.42
29 197 0.26
30 122 0.16
31 102 0.13
32 20 0.03
33 2 0.00
34 4 0.01
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (28 bp):
GCCCACAAGTCAGTGGCACCCTTTCAAA
Found at i:81974 original size:59 final size:57
Alignment explanation
Indices: 81882--82774 Score: 1109
Period size: 59 Copynumber: 15.3 Consensus size: 57
81872 TAAATCAGTC
*
81882 GCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCATGCAAGTGAGTGGCACCCTTTCAAA
1 GCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCA--CAAGTCAGTGGCACCCTTTCAAA
* * * *
81941 GCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACGCAAATGAGTGGCACCTTTTCAAA
1 GCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCA--CAAGTCAGTGGCACCCTTTCAAA
* * *
82000 GCCCACAAGTCAGGGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAA
1 GCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAA
*
82057 GCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCATGCAAGTCAGTGGCACTCTTTTCAAA
1 GCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCA--CAAGTCAGTGGCAC-CCTTTCAAA
**
82116 GCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTTTTTTCAAA
1 GCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAA
* * *
82173 GCCCACGCAAGTGAGTGGCAC-CCTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAA
1 GCCCA--CAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAA
* * * *
82232 TCCCACGCAAGTTAGTGGCAC-CTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAA
1 GCCCA--CAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAA
*
82290 GCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAA
1 GCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAA
* *
82347 GCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACGCAAGTGAGTGGCACCCTTTCAAA
1 GCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCA--CAAGTCAGTGGCACCCTTTCAAA
* * * * *
82406 GCCCACAAGTTAGTGGCACTCTTTTCAAATCCCACGCAAGTTAGTGGCACCTTTTCAAA
1 GCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCA--CAAGTCAGTGGCACCCTTTCAAA
*
82465 GCCCACAAGTCAGTGGCA-TCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAA
1 GCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAA
* * *
82522 GCCCACAAGTTAGTGGCA-TTCTTTCAAAGCACACAAGTCAGTGGCACCCTTTCAAA
1 GCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAA
*
82578 GCCCACGCAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAA
1 GCCCA--CAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAA
* * * * *
82637 GCCCATAAGTTAGTGGCAC-CCTTTCAAAGCCTACAAGTTAGTGGCACCCTTTTAAA
1 GCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAA
* ** * *
82693 GCCCACAAGTGAGTGGCACTATTTTCAAAGCCCACACGAGTCAATGGCAACTCTTTTCAAA
1 GCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACA--AGTCAGTGGC-AC-CCTTTCAAA
*
82754 GCCCACACAAGTTAGTGGCAC
1 G-CC-CACAAGTCAGTGGCAC
82775 CATTTTTTTT
Statistics
Matches: 755, Mismatches: 59, Indels: 36
0.89 0.07 0.04
Matches are distributed among these distances:
56 76 0.10
57 239 0.32
58 76 0.10
59 337 0.45
60 2 0.00
61 8 0.01
62 2 0.00
63 15 0.02
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (57 bp):
GCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAA
Found at i:82301 original size:203 final size:201
Alignment explanation
Indices: 81882--82774 Score: 1376
Period size: 203 Copynumber: 4.4 Consensus size: 201
81872 TAAATCAGTC
* *
81882 GCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCATGCAAGTGAGTGGCACCCTTTCAAAGCCCAC
1 GCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCA--CAAGTCAGTGGCACCCTTTCAAAGCCCAC
* *
81947 AAGTCAGTGGCACTCTTTTCAAAGCCCACGCAAATGAGTGGCACCTTTTCAAAGCCCACAAGTCA
64 AAGTCAGTGGCACTCTTTTCAAAGCCCACGCAAGTGAGTGGCACCCTTTCAAAGCCCACAAGTCA
* *
82012 GGGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCAC
129 GTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCAC
82076 CCTTTCAAA
193 CCTTTCAAA
82085 GCCCATGCAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCAC
1 GCCCA--CAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCAC
* *
82150 AAGTCAGTGGCACTTTTTTCAAAGCCCACGCAAGTGAGTGGCACCCTTTCAAAGCCCACAAGTTA
64 AAGTCAGTGGCACTCTTTTCAAAGCCCACGCAAGTGAGTGGCACCCTTTCAAAGCCCACAAGTCA
*
82215 GTGGCACTCTTTTCAAATCCCACGCAAGTTAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCA
129 GTGGCACTCTTTTCAAAGCCCA--CAAGTTAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCA
*
82280 TCCTTTCAAA
192 CCCTTTCAAA
82290 GCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAA
1 GCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAA
*
82355 GTCAGTGGCACTCTTTTCAAAGCCCACGCAAGTGAGTGGCACCCTTTCAAAGCCCACAAGTTAGT
66 GTCAGTGGCACTCTTTTCAAAGCCCACGCAAGTGAGTGGCACCCTTTCAAAGCCCACAAGTCAGT
* *
82420 GGCACTCTTTTCAAATCCCACGCAAGTTAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATC
131 GGCACTCTTTTCAAAGCCCA--CAAGTTAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACC
82485 CTTTCAAA
194 CTTTCAAA
* ** *
82493 GCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCATTCTTTCAAAGCACACAA
1 GCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAA
* *
82558 GTCAGTGGCAC-CCTTTCAAAGCCCACGCAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGT
66 GTCAGTGGCACTCTTTTCAAAGCCCACGCAAGTGAGTGGCACCCTTTCAAAGCCCACAAGTCAGT
* * * *
82622 GGCACTCTTTTCAAAGCCCATAAGTTAGTGGCACCCTTTCAAAGCCTACAAGTTAGTGGCACCCT
131 GGCACTCTTTTCAAAGCCCACAAGTTAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACCCT
*
82687 TTTAAA
196 TTCAAA
* * * *
82693 GCCCACAAGTGAGTGGCACTATTTTCAAAGCCCACACGAGTCAATGGCAACTCTTTTCAAAGCCC
1 GCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACA--AGTCAGTGGC-AC-CCTTTCAAAG-CC
*
82758 ACACAAGTTAGTGGCAC
61 -CACAAGTCAGTGGCAC
82775 CATTTTTTTT
Statistics
Matches: 645, Mismatches: 34, Indels: 19
0.92 0.05 0.03
Matches are distributed among these distances:
200 79 0.12
202 77 0.12
203 384 0.60
204 10 0.02
205 80 0.12
206 15 0.02
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (201 bp):
GCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAA
GTCAGTGGCACTCTTTTCAAAGCCCACGCAAGTGAGTGGCACCCTTTCAAAGCCCACAAGTCAGT
GGCACTCTTTTCAAAGCCCACAAGTTAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACCCT
TTCAAA
Found at i:83366 original size:20 final size:20
Alignment explanation
Indices: 83336--83413 Score: 75
Period size: 20 Copynumber: 3.9 Consensus size: 20
83326 TTTTTACCCG
* * *
83336 AATGCATCGATATATTTTTC
1 AATGTATCGATACATTTTTA
* * * *
83356 AATATATCGATACATGTATG
1 AATGTATCGATACATTTTTA
* *
83376 AATGTATCGATATATTCTTA
1 AATGTATCGATACATTTTTA
83396 AATGTATCGATACATTTT
1 AATGTATCGATACATTTT
83414 ATCTTTTTAC
Statistics
Matches: 44, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.42
Consensus pattern (20 bp):
AATGTATCGATACATTTTTA
Found at i:83390 original size:40 final size:40
Alignment explanation
Indices: 83335--83410 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
83325 ATTTTTACCC
* *
83335 GAATGCATCGATATATTTTTCAATATATCGATACATGTAT
1 GAATGCATCGATATATTCTTAAATATATCGATACATGTAT
* *
83375 GAATGTATCGATATATTCTTAAATGTATCGATACAT
1 GAATGCATCGATATATTCTTAAATATATCGATACAT
83411 TTTATCTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.39
Consensus pattern (40 bp):
GAATGCATCGATATATTCTTAAATATATCGATACATGTAT
Found at i:91543 original size:15 final size:15
Alignment explanation
Indices: 91523--91551 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
91513 GAATGGTCAA
91523 GATCATATTTGACAG
1 GATCATATTTGACAG
91538 GATCATATTTGACA
1 GATCATATTTGACA
91552 TTATGCCTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.34
Consensus pattern (15 bp):
GATCATATTTGACAG
Found at i:95485 original size:19 final size:20
Alignment explanation
Indices: 95461--95508 Score: 53
Period size: 23 Copynumber: 2.3 Consensus size: 20
95451 TCTAATGTCA
95461 ATATAT-CTAATAATTATTC
1 ATATATACTAATAATTATTC
*
95480 ATATATTAAACTAATAATTATTT
1 ATATA-T--ACTAATAATTATTC
95503 ATATAT
1 ATATAT
95509 TAAATATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 5 0.21
20 1 0.04
22 1 0.04
23 17 0.71
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (20 bp):
ATATATACTAATAATTATTC
Found at i:95517 original size:21 final size:23
Alignment explanation
Indices: 95467--95521 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 23
95457 GTCAATATAT
95467 CTAATAATTATTCATATATTAAA
1 CTAATAATTATTCATATATTAAA
*
95490 CTAATAATTATTTATATATTAAA
1 CTAATAATTATTCATATATTAAA
95513 -T-ATAATTAT
1 CTAATAATTAT
95522 AATATAATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 8 0.26
22 1 0.03
23 22 0.71
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (23 bp):
CTAATAATTATTCATATATTAAA
Found at i:95534 original size:21 final size:20
Alignment explanation
Indices: 95470--95537 Score: 55
Period size: 21 Copynumber: 3.1 Consensus size: 20
95460 AATATATCTA
* *
95470 ATAATTATTCATATATTAAACT
1 ATAATTA-T-ATATAATAAAAT
* *
95492 AATAATTATTTATATATTAAAT
1 -ATAATTATATATA-ATAAAAT
95514 ATAATTATAATATAATAAAAT
1 ATAATTAT-ATATAATAAAAT
95535 ATA
1 ATA
95538 TAAATAATTG
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
21 21 0.57
22 9 0.24
23 7 0.19
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (20 bp):
ATAATTATATATAATAAAAT
Found at i:96235 original size:12 final size:12
Alignment explanation
Indices: 96220--96247 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
96210 ATATAATTTT
96220 AAAATTAAAATC
1 AAAATTAAAATC
96232 AAAATTAAAATC
1 AAAATTAAAATC
96244 AAAA
1 AAAA
96248 CCAAAACCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.21
Consensus pattern (12 bp):
AAAATTAAAATC
Found at i:96241 original size:18 final size:18
Alignment explanation
Indices: 96218--96253 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
96208 ATATATAATT
* *
96218 TTAAAATTAAAATCAAAA
1 TTAAAATCAAAACCAAAA
96236 TTAAAATCAAAACCAAAA
1 TTAAAATCAAAACCAAAA
96254 CCAAATTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.67, C:0.11, G:0.00, T:0.22
Consensus pattern (18 bp):
TTAAAATCAAAACCAAAA
Found at i:96668 original size:81 final size:80
Alignment explanation
Indices: 96516--96668 Score: 209
Period size: 81 Copynumber: 1.9 Consensus size: 80
96506 ATAATATATT
* * * *
96516 AAAAAAAATTTTACAAATACAAACACATGTAATTTTTAAAAATTTATATTTATAATTGATAAATG
1 AAAAAAAATTTTAAAAATACAAACACATGCAATTTTTAAAAATTTAAATTTATAATTCATAAATG
96581 AGTATATTTGTAATG
66 AGTATATTTGTAATG
* * *
96596 AAAATAAATTTTAAAAATTACAAACACATGCAATTTTTTAAAATTTAAATTTA-AATTTCATACA
1 AAAAAAAATTTTAAAAA-TACAAACACATGCAATTTTTAAAAATTTAAATTTATAA-TTCATAAA
*
96660 TGATTATAT
64 TGAGTATAT
96669 ATTTGTAAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
80 17 0.27
81 46 0.73
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.39
Consensus pattern (80 bp):
AAAAAAAATTTTAAAAATACAAACACATGCAATTTTTAAAAATTTAAATTTATAATTCATAAATG
AGTATATTTGTAATG
Found at i:97362 original size:20 final size:19
Alignment explanation
Indices: 97337--97382 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
97327 CGTCACTCTA
* *
97337 ATTTTTTTGATTTTTTTGTT
1 ATTTTTTT-ATATTTTGGTT
97357 ATTTTTTTATATTTTGGTT
1 ATTTTTTTATATTTTGGTT
97376 -TTTTTTT
1 ATTTTTTT
97383 TTGTAACTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 7 0.29
19 9 0.38
20 8 0.33
ACGTcount: A:0.11, C:0.00, G:0.09, T:0.80
Consensus pattern (19 bp):
ATTTTTTTATATTTTGGTT
Found at i:100645 original size:21 final size:22
Alignment explanation
Indices: 100601--100654 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
100591 AGACATATTT
100601 AAAATGCATGAAACATAATAAA
1 AAAATGCATGAAACATAATAAA
100623 AAAATGCATGAAACATAAT-AA
1 AAAATGCATGAAACATAATAAA
100644 AAAATGCATGA
1 AAAATGCATGA
100655 TTAAAAGCTA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 13 0.41
22 19 0.59
ACGTcount: A:0.61, C:0.09, G:0.11, T:0.19
Consensus pattern (22 bp):
AAAATGCATGAAACATAATAAA
Found at i:102886 original size:30 final size:30
Alignment explanation
Indices: 102791--103893 Score: 505
Period size: 32 Copynumber: 37.3 Consensus size: 30
102781 ACTTGTATGA
* * *
102791 GCTTTGAAAAGAGTTACCACCGACTAGTATGG
1 GCTTTGAAAAGAGTTACTACTGACT--TGTGG
*
102823 GCTTTGAAAAGAGTTACCACTGACTCGTGTGG
1 GCTTTGAAAAGAGTTACTACTGACT--TGTGG
* * *
102855 GCCTTGAAAAGAGTTACTATTGGCTTGTGG
1 GCTTTGAAAAGAGTTACTACTGACTTGTGG
*
102885 GCTTTGAAAAGAG-TGCTACTGACTTGTGG
1 GCTTTGAAAAGAGTTACTACTGACTTGTGG
* * * *
102914 GTTTTGAAAAGAG-TGCCACTAACTTGTGG
1 GCTTTGAAAAGAGTTACTACTGACTTGTGG
* * *
102943 GCTTT-AAAAG-G-TGCCACTGACTTGTAG
1 GCTTTGAAAAGAGTTACTACTGACTTGTGG
* * *
102970 GCTTTG-AAAG-GGTGCCACTGACTTGTGG
1 GCTTTGAAAAGAGTTACTACTGACTTGTGG
* * *
102998 GCTTTGAAAA-A--TGCCACTGACTTGTGA
1 GCTTTGAAAAGAGTTACTACTGACTTGTGG
* *
103025 GCTTTGAAAAGAG-TGCTACTAACTTGTGG
1 GCTTTGAAAAGAGTTACTACTGACTTGTGG
* * *
103054 GCTTTG-AAAG-GGTGCCACTGACTTGTGG
1 GCTTTGAAAAGAGTTACTACTGACTTGTGG
* * *
103082 GCTTT-AAAA-AGGTGCCACTGACTTGTGG
1 GCTTTGAAAAGAGTTACTACTGACTTGTGG
* * *
103110 GCTTTG-AAAG-GATGCCACTGACTTGTGG
1 GCTTTGAAAAGAGTTACTACTGACTTGTGG
* *
103138 GCTTTGAAAAGAG-TGCCACTGACTTGTGG
1 GCTTTGAAAAGAGTTACTACTGACTTGTGG
* * *
103167 GCTTTG-AAAG-GGTACCACTGACTTATGG
1 GCTTTGAAAAGAGTTACTACTGACTTGTGG
* *
103195 GCTTTGAAAAG-G-TGCCACTGACTTGTGG
1 GCTTTGAAAAGAGTTACTACTGACTTGTGG
103223 GCTTTGAAAAGAGTTACTACTGACTTGTATGG
1 GCTTTGAAAAGAGTTACTACTGACTTG--TGG
* * * *
103255 GCTTT-AAAAG-GGTGCCACCGACTTGTGG
1 GCTTTGAAAAGAGTTACTACTGACTTGTGG
* * * ** *
103283 GCTTTG-AAAGGGTATGCCACCAACTTTTGG
1 GCTTTGAAAAGAGT-TACTACTGACTTGTGG
* * * * *
103313 GCTTCG-AAAG-GATGCCACTAACTTGTGG
1 GCTTTGAAAAGAGTTACTACTGACTTGTGG
* * * *
103341 TCTTTTG--AAGAGATGCCACTGACTTGTGG
1 GC-TTTGAAAAGAGTTACTACTGACTTGTGG
* **
103370 GCTTTGAAAAGAGTTACCACCAACTTATGTGG
1 GCTTTGAAAAGAGTTACTACTGAC-T-TGTGG
* * *
103402 GCTTTG-AAAG-GGTGCCACTGACTTGTGG
1 GCTTTGAAAAGAGTTACTACTGACTTGTGG
103430 GCTTTTGAAAAGA-TGT-C-ACTGACTTGTGG
1 GC-TTTGAAAAGAGT-TACTACTGACTTGTGG
* * *
103459 GCTTTGAAAAGAGTTGCCATTGACTTGTGTGG
1 GCTTTGAAAAGAGTTACTACTGAC-T-TGTGG
* * * *
103491 GCTTTGAGAAG-GATGCCACTGACTTGTGG
1 GCTTTGAAAAGAGTTACTACTGACTTGTGG
* * * *
103520 GCTTTGAAAAGA--TGCCACTGATTTGTAG
1 GCTTTGAAAAGAGTTACTACTGACTTGTGG
* * *
103548 GCTTTGAGAAG-GATACCACTGACTTGTGG
1 GCTTTGAAAAGAGTTACTACTGACTTGTGG
* * * * *
103577 GCTTTGAAATGGGTTGCCACCGACTTATGTGG
1 GCTTTGAAAAGAGTTACTACTGAC-T-TGTGG
* * * * * * *
103609 GCTTTTAAATGGGTTGCCACCGATTTGTATGG
1 GCTTTGAAAAGAGTTACTACTGACTTG--TGG
* * * *
103641 GCTTTGAAATGGGTTACCACCGACTTGTGTGG
1 GCTTTGAAAAGAGTTACTACTGAC-T-TGTGG
* * * * *
103673 GCTTTGAAATGGGTTGCCACCGACTTGTGTGG
1 GCTTTGAAAAGAGTTACTACTGAC-T-TGTGG
* * * * **
103705 GCTTTGAAATGGGTTGCCACCAACTTGTGTGG
1 GCTTTGAAAAGAGTTACTACTGAC-T-TGTGG
* * *
103737 GCTTTGAAAAGGGTTACCACCGACTTGTGTGG
1 GCTTTGAAAAGAGTTACTACTGAC-T-TGTGG
* * * * *
103769 GCTTTCAAATGAGTTGCCACCGACTTGTGTAG
1 GCTTTGAAAAGAGTTACTACTGACTTGTG--G
* *
103801 GCTTTGAAATA-A--TGCCACTGACTTGTGG
1 GCTTTGAAA-AGAGTTACTACTGACTTGTGG
* * * *
103829 GC-TTAAAAAGGAG-TGCCACTGATTTGTGG
1 GCTTTGAAAA-GAGTTACTACTGACTTGTGG
* * * *
103858 GCTTTG-GAAG-GGTGCCACTGACTTGTGG
1 GCTTTGAAAAGAGTTACTACTGACTTGTGG
*
103886 GCTGTGAA
1 GCTTTGAA
103894 GGGGTGCCAC
Statistics
Matches: 920, Mismatches: 95, Indels: 115
0.81 0.08 0.10
Matches are distributed among these distances:
26 1 0.00
27 58 0.06
28 252 0.27
29 197 0.21
30 125 0.14
31 25 0.03
32 259 0.28
33 1 0.00
34 2 0.00
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (30 bp):
GCTTTGAAAAGAGTTACTACTGACTTGTGG
Found at i:102919 original size:29 final size:29
Alignment explanation
Indices: 102766--103912 Score: 956
Period size: 28 Copynumber: 38.8 Consensus size: 29
102756 CTTTTTTTAA
* * *
102766 AAAAAAGTGCCACTAACTTGTATGAGCTTTG
1 AAAAGAGTGCCACTGACTTG--TGGGCTTTG
* * *
102797 AAAAGAGTTACCACCGACTAGTATGGGCTTTG
1 AAAAGAG-TGCCACTGACT--TGTGGGCTTTG
* *
102829 AAAAGAGTTACCACTGACTCGTGTGGGCCTTG
1 AAAAGAG-TGCCACTGACT--TGTGGGCTTTG
* * * *
102861 AAAAGAGTTACTATTGGCTTGTGGGCTTTG
1 AAAAGAG-TGCCACTGACTTGTGGGCTTTG
* *
102891 AAAAGAGTGCTACTGACTTGTGGGTTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
*
102920 AAAAGAGTGCCACTAACTTGTGGGCTTT-
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
*
102948 AAAAG-GTGCCACTGACTTGTAGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
*
102976 -AAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
*
103004 AAAA-A-TGCCACTGACTTGTGAGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
* *
103031 AAAAGAGTGCTACTAACTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
* *
103060 -AAAGGGTGCCACTGACTTGTGGGCTTTA
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
103088 AAAAG-GTGCCACTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
*
103116 AAAGGA-TGCCACTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
103144 AAAAGAGTGCCACTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
* * *
103173 -AAAGGGTACCACTGACTTATGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
103201 AAAAG-GTGCCACTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
* *
103229 AAAAGAGTTACTACTGACTTGTATGGGCTTT-
1 AAAAGAG-TGCCACTGACTTG--TGGGCTTTG
* *
103260 AAAAGGGTGCCACCGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
* ** * *
103289 -AAAGGGTATGCCACCAACTTTTGGGCTTCG
1 AAAAGAG--TGCCACTGACTTGTGGGCTTTG
* * *
103319 AAAGGA-TGCCACTAACTTGTGGTCTTTTG
1 AAAAGAGTGCCACTGACTTGTGGGC-TTTG
*
103348 AAGAGA-TGCCACTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
* **
103376 AAAAGAGTTACCACCAACTTATGTGGGCTTTG
1 AAAAGAG-TGCCACTGAC-T-TGTGGGCTTTG
*
103408 -AAAGGGTGCCACTGACTTGTGGGCTTTTG
1 AAAAGAGTGCCACTGACTTGTGGGC-TTTG
*
103437 AAAAGA-TGTCACTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
*
103465 AAAAGAGTTGCCATTGACTTGTGTGGGCTTTG
1 AAAAGAG-TGCCACTGAC-T-TGTGGGCTTTG
*
103497 AGAAG-GATGCCACTGACTTGTGGGCTTTG
1 AAAAGAG-TGCCACTGACTTGTGGGCTTTG
* *
103526 AAAAGA-TGCCACTGATTTGTAGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
* *
103554 AGAAG-GATACCACTGACTTGTGGGCTTTG
1 AAAAGAG-TGCCACTGACTTGTGGGCTTTG
* * * *
103583 AAATGGGTTGCCACCGACTTATGTGGGCTTTT
1 AAAAGAG-TGCCACTGAC-T-TGTGGGCTTTG
* * * *
103615 AAATGGGTTGCCACCGATTTGTATGGGCTTTG
1 AAAAGAG-TGCCACTGACTTG--TGGGCTTTG
* * * *
103647 AAATGGGTTACCACCGACTTGTGTGGGCTTTG
1 AAAAGAG-TGCCACTGAC-T-TGTGGGCTTTG
* * *
103679 AAATGGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAAGAG-TGCCACTGAC-T-TGTGGGCTTTG
* * **
103711 AAATGGGTTGCCACCAACTTGTGTGGGCTTTG
1 AAAAGAG-TGCCACTGAC-T-TGTGGGCTTTG
* * * *
103743 AAAAGGGTTACCACCGACTTGTGTGGGCTTTC
1 AAAAGAG-TGCCACTGAC-T-TGTGGGCTTTG
* *
103775 AAATGAGTTGCCACCGACTTGTGTAGGCTTTG
1 AAAAGAG-TGCCACTGACTTGTG--GGCTTTG
*
103807 AAATA-A-TGCCACTGACTTGTGGGC-TTA
1 AAA-AGAGTGCCACTGACTTGTGGGCTTTG
*
103834 AAAAGGAGTGCCACTGATTTGTGGGCTTTG
1 AAAA-GAGTGCCACTGACTTGTGGGCTTTG
* * *
103864 -GAAGGGTGCCACTGACTTGTGGGCTGTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
* * *
103892 -AAGGGGTGCCACTGAGTTGTG
1 AAAAGAGTGCCACTGACTTGTG
103913 AACTTTAAAG
Statistics
Matches: 954, Mismatches: 114, Indels: 99
0.82 0.10 0.08
Matches are distributed among these distances:
26 1 0.00
27 54 0.06
28 279 0.29
29 197 0.21
30 115 0.12
31 35 0.04
32 269 0.28
33 1 0.00
34 3 0.00
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (29 bp):
AAAAGAGTGCCACTGACTTGTGGGCTTTG
Found at i:103992 original size:28 final size:28
Alignment explanation
Indices: 102879--104084 Score: 341
Period size: 28 Copynumber: 41.4 Consensus size: 28
102869 TACTATTGGC
* * * *
102879 TTGTGGGCTTTGAAAAGAGTGCTACTGAC
1 TTGTGGACTTT-AAAAGGGTGCCACTGAG
** * * *
102908 TTGTGGGTTTTGAAAAGAGTGCCACTAAC
1 TTGTGGACTTT-AAAAGGGTGCCACTGAG
* *
102937 TTGTGGGCTTTAAAA-GGTGCCACTGAC
1 TTGTGGACTTTAAAAGGGTGCCACTGAG
* *
102964 TTGTAGG-CTTTGAAAGGGTGCCACTGAC
1 TTGT-GGACTTTAAAAGGGTGCCACTGAG
* * *
102992 TTGTGGGCTTTGAAAA--ATGCCACTGAC
1 TTGTGGACTTT-AAAAGGGTGCCACTGAG
* * * *
103019 TTGT-GAGCTTTGAAAAGAGTGCTACTAAC
1 TTGTGGA-CTTT-AAAAGGGTGCCACTGAG
* * *
103048 TTGTGGGCTTTGAAAGGGTGCCACTGAC
1 TTGTGGACTTTAAAAGGGTGCCACTGAG
* * *
103076 TTGTGGGCTTTAAAAAGGTGCCACTGAC
1 TTGTGGACTTTAAAAGGGTGCCACTGAG
* * * *
103104 TTGTGGGCTTTGAAAGGATGCCACTGAC
1 TTGTGGACTTTAAAAGGGTGCCACTGAG
* * *
103132 TTGTGGGCTTTGAAAAGAGTGCCACTGAC
1 TTGTGGACTTT-AAAAGGGTGCCACTGAG
* * * *
103161 TTGTGGGCTTTGAAAGGGTACCACTGAC
1 TTGTGGACTTTAAAAGGGTGCCACTGAG
* * *
103189 TTATGGGCTTTGAAAA-GGTGCCACTGAC
1 TTGTGGACTTT-AAAAGGGTGCCACTGAG
* * * * *
103217 TTGTGGGCTTTGAAAAGAGTTACTACTGAC
1 TTGTGGACTTT-AAAAG-GGTGCCACTGAG
* * *
103247 TTGTATGGGCTTTAAAAGGGTGCCACCGAC
1 TTG--TGGACTTTAAAAGGGTGCCACTGAG
* * ** *
103277 TTGTGGGCTTTGAAAGGGTATGCCACCAAC
1 TTGTGGACTTTAAAAGGG--TGCCACTGAG
* * ** * * *
103307 TTTTGGGCTTCGAAAGGATGCCACTAAC
1 TTGTGGACTTTAAAAGGGTGCCACTGAG
* ** * *
103335 TTGTGGTCTTTTGAAGAGATGCCACTGAC
1 TTGTGGACTTTAAAAG-GGTGCCACTGAG
* * * ** *
103364 TTGTGGGCTTTGAAAAGAGTTACCACCAACT
1 TTGTGGACTTT-AAAAG-GGTGCCACTGA-G
* * *
103395 TATGTGGGCTTTGAAAGGGTGCCACTGAC
1 T-TGTGGACTTTAAAAGGGTGCCACTGAG
* * * *
103424 TTGTGGGCTTTTGAAAA-GATGTCACTGAC
1 TTGTGGAC-TTT-AAAAGGGTGCCACTGAG
* * * *
103453 TTGTGGGCTTTGAAAAGAGTTGCCATTGACT
1 TTGTGGACTTT-AAAAG-GGTGCCACTGA-G
* * * *
103484 TGTGTGGGCTTTGAGAAGGATGCCACTGAC
1 T-TGTGGACTTT-AAAAGGGTGCCACTGAG
* * *
103514 TTGTGGGCTTTGAAAA-GATGCCACTGAT
1 TTGTGGACTTT-AAAAGGGTGCCACTGAG
* * * *
103542 TTGTAGG-CTTTGAGAAGGATACCACTGAC
1 TTGT-GGACTTT-AAAAGGGTGCCACTGAG
* * * *
103571 TTGTGGGCTTTGAAATGGGTTGCCACCGACT
1 TTGTGGACTTT-AAAAGGG-TGCCACTGA-G
* * * *
103602 TATGTGGGCTTTTAAATGGGTTGCCACCGAT
1 T-TGTGGAC-TTTAAAAGGG-TGCCACTGAG
* * * * *
103633 TTGTATGGGCTTTGAAATGGGTTACCACCGACT
1 TTG--TGGACTTT-AAAAGGG-TGCCACTGA-G
* * * *
103666 TGTGTGGGCTTTGAAATGGGTTGCCACCGACT
1 T-TGTGGACTTT-AAAAGGG-TGCCACTGA-G
* * ** *
103698 TGTGTGGGCTTTGAAATGGGTTGCCACCAACT
1 T-TGTGGACTTT-AAAAGGG-TGCCACTGA-G
* * * *
103730 TGTGTGGGCTTTGAAAAGGGTTACCACCGACT
1 T-TGTGGACTTT-AAAAGGG-TGCCACTGA-G
* * * * *
103762 TGTGTGGGCTTTCAAATGAGTTGCCACCGAC
1 T-TGTGGACTTT-AAAAG-GGTGCCACTGAG
* * *** *
103793 TTGTGTAGGCTTTGAAATAATGCCACTGAC
1 TTGTG--GACTTTAAAAGGGTGCCACTGAG
* * *
103823 TTGTGGGCTTAAAAAGGAGTGCCACTGAT
1 TTGTGGACTTTAAAAGG-GTGCCACTGAG
* ** *
103852 TTGTGGGCTTTGGAAGGGTGCCACTGAC
1 TTGTGGACTTTAAAAGGGTGCCACTGAG
* * * *
103880 TTGTGGGCTGTGAAGGGGTGCCACTGAG
1 TTGTGGACTTTAAAAGGGTGCCACTGAG
* *
103908 TTGTGAACTTT-AAAGGGTGCCACGGAG
1 TTGTGGACTTTAAAAGGGTGCCACTGAG
* ** * *
103935 TTATGGAC-TTAAAA-AATGTCACAGAG
1 TTGTGGACTTTAAAAGGGTGCCACTGAG
*
103961 TTGTGGACTTTAAAAGGGTGCCACAGAG
1 TTGTGGACTTTAAAAGGGTGCCACTGAG
* * * *
103989 TTGTAGACTTTAAAAGGATACCACCGAG
1 TTGTGGACTTTAAAAGGGTGCCACTGAG
* * *
104017 TTATGGA-TTTAAAAGGATGCCACGGAG
1 TTGTGGACTTTAAAAGGGTGCCACTGAG
** *
104044 TTGTGGACTTTGAAAAGAAATGCCACTGAA
1 TTGTGGACTTT-AAAAG-GGTGCCACTGAG
*
104074 TTGTAGACTTT
1 TTGTGGACTTT
104085 GAAGAGGTAA
Statistics
Matches: 982, Mismatches: 147, Indels: 95
0.80 0.12 0.08
Matches are distributed among these distances:
26 18 0.02
27 99 0.10
28 316 0.32
29 193 0.20
30 124 0.13
31 29 0.03
32 195 0.20
33 6 0.01
34 2 0.00
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
TTGTGGACTTTAAAAGGGTGCCACTGAG
Found at i:105913 original size:20 final size:19
Alignment explanation
Indices: 105871--105923 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
105861 GTTACAAGCA
*
105871 ATGTATCGATACAATTCATC
1 ATGTATCGATAC-ATTCACC
*
105891 ATGTATCGATACATTGTACC
1 ATGTATCGATACATT-CACC
*
105911 ATGTATTGATACA
1 ATGTATCGATACA
105924 AACAGTGGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 3 0.10
20 26 0.90
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (19 bp):
ATGTATCGATACATTCACC
Found at i:105985 original size:20 final size:20
Alignment explanation
Indices: 105957--106010 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
105947 CAATCTCATA
*
105957 TATCGATACAATTGTCCATG
1 TATCGATACAATTGTACATG
* *
105977 TATCTATACAA-TGAACATG
1 TATCGATACAATTGTACATG
105996 TATCGATAC-ATTGTA
1 TATCGATACAATTGTA
106011 TCGATACAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
18 1 0.04
19 17 0.61
20 10 0.36
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (20 bp):
TATCGATACAATTGTACATG
Found at i:106012 original size:13 final size:13
Alignment explanation
Indices: 105994--106018 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
105984 ACAATGAACA
105994 TGTATCGATACAT
1 TGTATCGATACAT
106007 TGTATCGATACA
1 TGTATCGATACA
106019 AAGCATAATA
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:106626 original size:21 final size:22
Alignment explanation
Indices: 106564--106666 Score: 115
Period size: 20 Copynumber: 4.9 Consensus size: 22
106554 AGTTATCGTT
* *
106564 TTTCTCCCCCTTAATTAAAGAA
1 TTTCTCCCCCTTAATCAAAAAA
* **
106586 TTTCTCCCCCTCAAAAAAAAAA
1 TTTCTCCCCCTTAATCAAAAAA
106608 TTT-TCCCCCTTAATC-AAAAA
1 TTTCTCCCCCTTAATCAAAAAA
* *
106628 TTTCTCCGCTTTAA--AAAAAA
1 TTTCTCCCCCTTAATCAAAAAA
106648 TTTCTCCCCCTTAATCAAA
1 TTTCTCCCCCTTAATCAAA
106667 GCATATCTCT
Statistics
Matches: 66, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
20 25 0.38
21 17 0.26
22 24 0.36
ACGTcount: A:0.36, C:0.29, G:0.02, T:0.33
Consensus pattern (22 bp):
TTTCTCCCCCTTAATCAAAAAA
Found at i:108426 original size:22 final size:20
Alignment explanation
Indices: 108380--108426 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 20
108370 TTTTGTTGTT
108380 AATTTTGATGAAAAATGAAA
1 AATTTTGATGAAAAATGAAA
*
108400 GATTTTGAAGTGAAAAAT-AAGA
1 AATTTTG-A-TGAAAAATGAA-A
108422 AATTT
1 AATTT
108427 GTAAAGGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 6 0.27
21 3 0.14
22 13 0.59
ACGTcount: A:0.51, C:0.00, G:0.17, T:0.32
Consensus pattern (20 bp):
AATTTTGATGAAAAATGAAA
Found at i:108565 original size:13 final size:13
Alignment explanation
Indices: 108547--108573 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
108537 ATAGTAACCC
108547 ATGTATCGATACA
1 ATGTATCGATACA
108560 ATGTATCGATACA
1 ATGTATCGATACA
108573 A
1 A
108574 GGAATATTGT
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:114767 original size:20 final size:21
Alignment explanation
Indices: 114742--114795 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
114732 GTTACAAGCA
*
114742 ATGTATCGATACAATT-CATC
1 ATGTATCGATACAATTGCACC
*
114762 ATGTATCGATAC-ATTGTACC
1 ATGTATCGATACAATTGCACC
114782 ATGTATCGATACAA
1 ATGTATCGATACAA
114796 ATAGTGGTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 3 0.10
20 26 0.87
21 1 0.03
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACAATTGCACC
Found at i:114868 original size:19 final size:19
Alignment explanation
Indices: 114828--114896 Score: 86
Period size: 20 Copynumber: 3.5 Consensus size: 19
114818 CAATCTCATA
**
114828 TATCGATACAATTGTCCATG
1 TATCGATACAA-TGAACATG
114848 TATCGATACAATGAACATG
1 TATCGATACAATGAACATG
114867 TATCGATACAATGCATA-ATG
1 TATCGATACAATG-A-ACATG
114887 TATCGATACA
1 TATCGATACA
114897 TCTGGGTGTG
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
19 19 0.42
20 25 0.56
21 1 0.02
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.30
Consensus pattern (19 bp):
TATCGATACAATGAACATG
Found at i:115383 original size:45 final size:46
Alignment explanation
Indices: 115332--115432 Score: 115
Period size: 45 Copynumber: 2.2 Consensus size: 46
115322 GCATTCATGT
*
115332 CCTTTTTTTTGGATTTTTGTTGTTTC-T-TTTT-TA-TTTTGCTTTTG-
1 CCTTTTTTTT-GATTTTT-CT-TTTCGTATTTTATACTTTTGCTTTTGA
115376 CACTTTTTTTT-ATTTTTCTTTTCGTATTTTATACTTTTGCTTTTGA
1 C-CTTTTTTTTGATTTTTCTTTTCGTATTTTATACTTTTGCTTTTGA
115422 CCTTTTTTTTG
1 CCTTTTTTTTG
115433 TCATTTTGAA
Statistics
Matches: 49, Mismatches: 1, Indels: 12
0.79 0.02 0.19
Matches are distributed among these distances:
41 4 0.08
42 2 0.04
43 10 0.20
44 3 0.06
45 29 0.59
46 1 0.02
ACGTcount: A:0.08, C:0.12, G:0.10, T:0.70
Consensus pattern (46 bp):
CCTTTTTTTTGATTTTTCTTTTCGTATTTTATACTTTTGCTTTTGA
Found at i:115384 original size:23 final size:23
Alignment explanation
Indices: 115358--115431 Score: 73
Period size: 23 Copynumber: 3.3 Consensus size: 23
115348 TTGTTGTTTC
115358 TTTTTTATTTTGCTTTTGCACTT
1 TTTTTTATTTTGCTTTTGCACTT
* * *
115381 TTTTTTATTTTTCTTTT-C-GTA
1 TTTTTTATTTTGCTTTTGCACTT
*
115402 TTTTATACTTTTGCTTTTG-ACCTT
1 TTTTTTA-TTTTGCTTTTGCA-CTT
115426 TTTTTT
1 TTTTTT
115432 GTCATTTTGA
Statistics
Matches: 39, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
21 7 0.18
22 10 0.26
23 16 0.41
24 6 0.15
ACGTcount: A:0.09, C:0.12, G:0.07, T:0.72
Consensus pattern (23 bp):
TTTTTTATTTTGCTTTTGCACTT
Found at i:120363 original size:13 final size:13
Alignment explanation
Indices: 120345--120371 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
120335 ACATGCTGCT
120345 TTGTATCGATACA
1 TTGTATCGATACA
120358 TTGTATCGATACA
1 TTGTATCGATACA
120371 T
1 T
120372 GTTCATTGTA
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:120368 original size:33 final size:32
Alignment explanation
Indices: 120326--120390 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
120316 CACACCCAAA
*
120326 TGTATCGATACATGCTGCTTTGTATCGATACAT
1 TGTATCGATACATG-TGCATTGTATCGATACAT
*
120359 TGTATCGATACATGTTCATTGTATCGATACAT
1 TGTATCGATACATGTGCATTGTATCGATACAT
120391 GGACAAATGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 16 0.53
33 14 0.47
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (32 bp):
TGTATCGATACATGTGCATTGTATCGATACAT
Found at i:120477 original size:13 final size:13
Alignment explanation
Indices: 120456--120486 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
120446 CGATACATGG
*
120456 TACAATGTATCGA
1 TACATTGTATCGA
120469 TACATTGTATCGA
1 TACATTGTATCGA
120482 TACAT
1 TACAT
120487 GAAGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:120482 original size:33 final size:32
Alignment explanation
Indices: 120440--120506 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 32
120430 CTATCACTAT
120440 TTGTATCGATACATG-GTACAATGTATCGATACA
1 TTGTATCGATACATGAG-A-AATGTATCGATACA
120473 TTGTATCGATACATGAAGAAATGTATCGATACA
1 TTGTATCGATACATG-AGAAATGTATCGATACA
120506 T
1 T
120507 GGCTTGTAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (32 bp):
TTGTATCGATACATGAGAAATGTATCGATACA
Found at i:128567 original size:37 final size:37
Alignment explanation
Indices: 128518--128658 Score: 230
Period size: 37 Copynumber: 3.8 Consensus size: 37
128508 AAATGGGAGA
128518 AGATAATCGTTTAAGGGGGAGAATTTTTTAAAAGAGG
1 AGATAATCGTTTAAGGGGGAGAATTTTTTAAAAGAGG
128555 AGATAATCGTTTAA-GGGGAGAATTTTTTAAAAGGAGG
1 AGATAATCGTTTAAGGGGGAGAATTTTTTAAAA-GAGG
* * *
128592 AGATAATCGTTTAAGAGGGAGAATTTTTTAAAGGAAG
1 AGATAATCGTTTAAGGGGGAGAATTTTTTAAAAGAGG
128629 AGATAATCGTTTAAGGGGGAGAATATTTTT
1 AGATAATCGTTTAAGGGGGAGAAT-TTTTT
128659 TAAGGGGAGA
Statistics
Matches: 97, Mismatches: 4, Indels: 5
0.92 0.04 0.05
Matches are distributed among these distances:
36 18 0.19
37 58 0.60
38 21 0.22
ACGTcount: A:0.38, C:0.03, G:0.28, T:0.31
Consensus pattern (37 bp):
AGATAATCGTTTAAGGGGGAGAATTTTTTAAAAGAGG
Found at i:129226 original size:13 final size:13
Alignment explanation
Indices: 129208--129234 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
129198 ACATGCTGCT
129208 TTGTATCGATACA
1 TTGTATCGATACA
129221 TTGTATCGATACA
1 TTGTATCGATACA
129234 T
1 T
129235 GTTCATTGTA
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:129231 original size:33 final size:32
Alignment explanation
Indices: 129189--129253 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
129179 CACACCCAGA
*
129189 TGTATCGATACATGCTGCTTTGTATCGATACAT
1 TGTATCGATACATG-TGCATTGTATCGATACAT
*
129222 TGTATCGATACATGTTCATTGTATCGATACAT
1 TGTATCGATACATGTGCATTGTATCGATACAT
129254 GGACAAATTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 16 0.53
33 14 0.47
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (32 bp):
TGTATCGATACATGTGCATTGTATCGATACAT
Found at i:129265 original size:21 final size:19
Alignment explanation
Indices: 129218--129275 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 19
129208 TTGTATCGAT
*
129218 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
*
129237 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
129256 ACAAATTGTATCGATACATG
1 AC--ATTGTATCGATACATG
129276 AAACTGGCAG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 18 0.53
21 16 0.47
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:131315 original size:78 final size:79
Alignment explanation
Indices: 130941--131638 Score: 700
Period size: 79 Copynumber: 8.9 Consensus size: 79
130931 ATGAGGTTAG
* * * * * * *
130941 AGTATCCCTTCAAAAATAACAGAGTTGGAGTATCCCTGATGGTAAAAAATC-AGTGTTTTAGAAA
1 AGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAATCGA-TGTTTTGGAAA
* *
131005 TAAAACCGGGATTGG
65 TAAAACCGGGGTTGA
* * * * * *
131020 AGTATCCCCTTGGAAATAACGGGGTTTGAGTATCCCCGATGGTGGAAAAT-TATTGTTTAGGAAA
1 AGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAATCGA-TGTTTTGGAAA
131084 TAAAACCGGGGTTGA
65 TAAAACCGGGGTTGA
** * **
131099 AGTA-CCCCTTCGAAAATAACGGGGTTGGAGTATCCCTAATGGTGAAAAATCGGTGTTTTAAAAA
1 AGTATCCCC-TCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTTGGAAA
*
131163 TAAAACCAGGGTT-A
65 TAAAACCGGGGTTGA
* * *
131177 GAGTATCCTCTCGAAAATAACGGGGTTCGAGTATCCCCAATGGTGAAAAATC-AGTGTTTTGGAA
1 -AGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAATCGA-TGTTTTGGAA
* *
131241 ATAAAATCGGAGTTGA
64 ATAAAACCGGGGTTGA
* * * * * *
131257 AATAT-CCCTCGAAAATAACAGGGTCGGAGTATCCCCGATGGTGGAAAATCGATATTTTGAAAAT
1 AGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTTGGAAAT
** *
131321 AAAATTGGGGTTGG
66 AAAACCGGGGTTGA
* * * *
131335 AGTATCCCCTC-AGAAATAATGGGGTTGGAGTAT-CTCGATGATGAAAAATCGATGTTTTAGAAA
1 AGTATCCCCTCGA-AAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTTGGAAA
* *
131398 TAAAACCGGGTTTGG
65 TAAAACCGGGGTTGA
* * * *
131413 AGTATCCCCTC-AGAAATAACGGAGTTGGAGTATCCCC-ATAGTGGAAAATCGGTGTTTTGGAAA
1 AGTATCCCCTCGA-AAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTTGGAAA
* *
131476 TAAATCCGGGGTTGG
65 TAAAACCGGGGTTGA
* * ** * * *
131491 AGTATCCCCTTGAAAATGACAAGGTTGGAGTATCCTCGATGGCGAAAAATTGATGTTTTGGAAAT
1 AGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTTGGAAAT
*
131556 AAAACTGGGGTT-A
66 AAAACCGGGGTTGA
* * * *
131569 GAGTATCCCCTCGAAAATAACGGGGTTGAAGTATCCCCGATGGTGGAAAATCGGTATTTTAGG-A
1 -AGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTT-GGAA
131633 ATAAAA
64 ATAAAA
131639 TATAAACGAA
Statistics
Matches: 508, Mismatches: 96, Indels: 30
0.80 0.15 0.05
Matches are distributed among these distances:
78 200 0.39
79 302 0.59
80 6 0.01
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (79 bp):
AGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTTGGAAAT
AAAACCGGGGTTGA
Found at i:131352 original size:157 final size:158
Alignment explanation
Indices: 130941--131628 Score: 741
Period size: 157 Copynumber: 4.4 Consensus size: 158
130931 ATGAGGTTAG
* * * ** *
130941 AGTATCCCTTCAAAAATAACAGAGTTGGAGTATCCCTGATGGTAAAAAATCAGTGTTTT-AGAAA
1 AGTATCCC-TCGAAAATAACAGGGTTGGAGTATCCCCGATGGTGGAAAATCGGTGTTTTGA-AAA
* * * * *
131005 TAAAACCGGGATTGGAGTATCCCCTTGGAAATAACGGGGTTTGAGTATCCCCGATGGTGGAAAAT
64 TAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAAT
* * *
131070 TA-TTGTTTAGGAAATAAAACCGGGGTTGA
129 CAGATGTTTTGGAAATAAAACCGGGGTTGA
* * ** * *
131099 AGTACCCCTTCGAAAATAACGGGGTTGGAGTATCCCTAATGGTGAAAAATCGGTGTTTTAAAAAT
1 AGTATCCC-TCGAAAATAACAGGGTTGGAGTATCCCCGATGGTGGAAAATCGGTGTTTTGAAAAT
* * * * *
131164 AAAACCAGGGTTAGAGTATCCTCTCGAAAATAACGGGGTTCGAGTATCCCCAATGGTGAAAAATC
65 AAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAATC
* *
131229 AG-TGTTTTGGAAATAAAATCGGAGTTGA
130 AGATGTTTTGGAAATAAAACCGGGGTTGA
* * * *
131257 AATATCCCTCGAAAATAACAGGGTCGGAGTATCCCCGATGGTGGAAAATCGATATTTTGAAAATA
1 AGTATCCCTCGAAAATAACAGGGTTGGAGTATCCCCGATGGTGGAAAATCGGTGTTTTGAAAATA
** * * *
131322 AAATTGGGGTTGGAGTATCCCCTC-AGAAATAATGGGGTTGGAGTAT-CTCGATGATGAAAAATC
66 AAACCGGGGTTGGAGTATCCCCTCGA-AAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAATC
* * *
131385 -GATGTTTTAGAAATAAAACCGGGTTTGG
130 AGATGTTTTGGAAATAAAACCGGGGTTGA
* *
131413 AGTATCCCCTC-AGAAATAAC-GGAGTTGGAGTATCCCC-ATAGTGGAAAATCGGTGTTTTGGAA
1 AGTAT-CCCTCGA-AAATAACAGG-GTTGGAGTATCCCCGATGGTGGAAAATCGGTGTTTTGAAA
* * * ** * *
131475 ATAAATCCGGGGTTGGAGTATCCCCTTGAAAATGACAAGGTTGGAGTATCCTCGATGGCGAAAAA
63 ATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAA
* *
131540 T-TGATGTTTTGGAAATAAAACTGGGGTT-A
128 TCAGATGTTTTGGAAATAAAACCGGGGTTGA
* * *
131569 GAGTATCCCCTCGAAAATAACGGGGTTGAAGTATCCCCGATGGTGGAAAATCGGTATTTT
1 -AGTAT-CCCTCGAAAATAACAGGGTTGGAGTATCCCCGATGGTGGAAAATCGGTGTTTT
131629 AGGAATAAAA
Statistics
Matches: 448, Mismatches: 68, Indels: 28
0.82 0.12 0.05
Matches are distributed among these distances:
155 1 0.00
156 103 0.23
157 180 0.40
158 163 0.36
159 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (158 bp):
AGTATCCCTCGAAAATAACAGGGTTGGAGTATCCCCGATGGTGGAAAATCGGTGTTTTGAAAATA
AAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAATCA
GATGTTTTGGAAATAAAACCGGGGTTGA
Found at i:133978 original size:50 final size:48
Alignment explanation
Indices: 133900--134037 Score: 159
Period size: 50 Copynumber: 2.8 Consensus size: 48
133890 GTTAAAAATG
* * *
133900 CCTAAATGTATCGATACATTGAGAAATGTATCGATACATCTGGGTAAAA
1 CCTAAATGTATCGATACAATGA-AAATGTATCAATACATCTAGGTAAAA
* *
133949 CCTAGAATGTATCGATACAATGAATAATGTATTAATACATCTAGGTGAAAC
1 CCTA-AATGTATCGATACAATGAA-AATGTATCAATACATCTAGGT-AAAA
* * *
134000 CCAAAATATATCGATAAAATGAAGAATGTATCAATACA
1 CCTAAATGTATCGATACAATGAA-AATGTATCAATACA
134038 AATTGTGAAA
Statistics
Matches: 76, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
49 5 0.07
50 65 0.86
51 6 0.08
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.28
Consensus pattern (48 bp):
CCTAAATGTATCGATACAATGAAAATGTATCAATACATCTAGGTAAAA
Found at i:134676 original size:15 final size:15
Alignment explanation
Indices: 134653--134689 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
134643 GTGCTTTTTT
*
134653 CTGAATGGCTTCTTC
1 CTGAGTGGCTTCTTC
*
134668 TTGAGTGGCTTCTTC
1 CTGAGTGGCTTCTTC
134683 CTGAGTG
1 CTGAGTG
134690 ACTTTATCTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.11, C:0.22, G:0.27, T:0.41
Consensus pattern (15 bp):
CTGAGTGGCTTCTTC
Found at i:137187 original size:23 final size:23
Alignment explanation
Indices: 137161--137204 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
137151 CCCTAACAAA
137161 CAAACAAAACAAAAAA-AAAAACT
1 CAAA-AAAACAAAAAACAAAAACT
*
137184 CAAAAAAATAAAAAACAAAAA
1 CAAAAAAACAAAAAACAAAAA
137205 AAAAACCTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.82, C:0.14, G:0.00, T:0.05
Consensus pattern (23 bp):
CAAAAAAACAAAAAACAAAAACT
Found at i:137191 original size:17 final size:15
Alignment explanation
Indices: 137166--137209 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
137156 ACAAACAAAC
137166 AAAAC-AAAAAAAAA
1 AAAACAAAAAAAAAA
** *
137180 AACTCAAAAAAATAA
1 AAAACAAAAAAAAAA
137195 AAAACAAAAAAAAAA
1 AAAACAAAAAAAAAA
137210 CCTATAAAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
14 3 0.13
15 20 0.87
ACGTcount: A:0.86, C:0.09, G:0.00, T:0.05
Consensus pattern (15 bp):
AAAACAAAAAAAAAA
Found at i:137218 original size:12 final size:10
Alignment explanation
Indices: 137174--137232 Score: 52
Period size: 9 Copynumber: 5.8 Consensus size: 10
137164 ACAAAACAAA
137174 AAAAAAAACT
1 AAAAAAAACT
*
137184 CAAAAAAA-T
1 AAAAAAAACT
137193 AAAAAACAA--
1 AAAAAA-AACT
137202 AAAAAAAACCT
1 AAAAAAAA-CT
137213 ATAAAAAAGACT
1 A-AAAAAA-ACT
137225 AAAAAAAA
1 AAAAAAAA
137233 GTATATTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
8 2 0.05
9 12 0.29
10 10 0.24
11 7 0.17
12 9 0.22
13 1 0.02
ACGTcount: A:0.80, C:0.10, G:0.02, T:0.08
Consensus pattern (10 bp):
AAAAAAAACT
Found at i:140554 original size:77 final size:77
Alignment explanation
Indices: 140436--140600 Score: 240
Period size: 77 Copynumber: 2.1 Consensus size: 77
140426 ATCAATGTAT
* **
140436 ACAAATTAAGAGAAAATTCTAAAAGAAATCATAAATTACAATTATAATTTGTGAATCTCCACAAG
1 ACAAATTAAGAGAAAATTCTAAAAGAAATCATAAATAACAATTATAATTTACGAATCTCCACAAG
140501 AAACTAAAGTAC
66 AAACTAAAGTAC
* * **
140513 ACAAATTAAGAGAAAATTCTAAAAGGAATCATAAGTAACAATTATAATTTACGGCTCTCCACAAG
1 ACAAATTAAGAGAAAATTCTAAAAGAAATCATAAATAACAATTATAATTTACGAATCTCCACAAG
* *
140578 AAATTAAAGTCC
66 AAACTAAAGTAC
*
140590 ATAAATTAAGA
1 ACAAATTAAGA
140601 AAGAATGACA
Statistics
Matches: 78, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
77 78 1.00
ACGTcount: A:0.51, C:0.13, G:0.10, T:0.25
Consensus pattern (77 bp):
ACAAATTAAGAGAAAATTCTAAAAGAAATCATAAATAACAATTATAATTTACGAATCTCCACAAG
AAACTAAAGTAC
Found at i:141625 original size:26 final size:26
Alignment explanation
Indices: 141589--141638 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
141579 AACTTGATGT
141589 CCTCATCAAACCAAATACAAAATAAA
1 CCTCATCAAACCAAATACAAAATAAA
141615 CCTCATCAAACCAAATACAAAATA
1 CCTCATCAAACCAAATACAAAATA
141639 GATAGAACGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.56, C:0.28, G:0.00, T:0.16
Consensus pattern (26 bp):
CCTCATCAAACCAAATACAAAATAAA
Found at i:143274 original size:2 final size:2
Alignment explanation
Indices: 143267--143306 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
143257 AATGACTAAG
* * *
143267 TA TA TA TA TA TA TA TA TA TA TA TA TG TG TG 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
143307 CCTGTTGATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.50
Consensus pattern (2 bp):
TA
Found at i:143741 original size:16 final size:16
Alignment explanation
Indices: 143722--143757 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
143712 TTTAAAAAAT
*
143722 AAATAATTTAAATTTA
1 AAATAATTGAAATTTA
143738 AAATAATTGAAATTTA
1 AAATAATTGAAATTTA
143754 AAAT
1 AAAT
143758 TTCTAAGGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (16 bp):
AAATAATTGAAATTTA
Found at i:144374 original size:2 final size:2
Alignment explanation
Indices: 144367--144417 Score: 66
Period size: 2 Copynumber: 25.0 Consensus size: 2
144357 TTAATGTTGC
* * *
144367 AT AT AT AT AT AT AT AT AT AT AT AT GT AT GT AT GAT AT CT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT
144410 AT AT AT AT
1 AT AT AT AT
144418 GTATGTATGT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
2 40 0.95
3 2 0.05
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (2 bp):
AT
Found at i:144412 original size:31 final size:31
Alignment explanation
Indices: 144369--144486 Score: 106
Period size: 31 Copynumber: 4.0 Consensus size: 31
144359 AATGTTGCAT
144369 ATATATATATATATATATATATGTATGTATG
1 ATATATATATATATATATATATGTATGTATG
* *
144400 ATATCTATATATATATATGTATGTATGTAT-
1 ATATATATATATATATATATATGTATGTATG
* * *
144430 A-AT-TATA-ATACAGTTTA-ATGT-TGCAT-
1 ATATATATATATATA-TATATATGTATGTATG
* * *
144456 ATATATATATATATGTATGTATTTATGTATG
1 ATATATATATATATATATATATGTATGTATG
144487 TAAAAGAGGG
Statistics
Matches: 68, Mismatches: 12, Indels: 14
0.72 0.13 0.15
Matches are distributed among these distances:
26 5 0.07
27 10 0.15
28 12 0.18
29 8 0.12
30 5 0.07
31 28 0.41
ACGTcount: A:0.38, C:0.03, G:0.11, T:0.48
Consensus pattern (31 bp):
ATATATATATATATATATATATGTATGTATG
Found at i:145703 original size:45 final size:45
Alignment explanation
Indices: 145599--145715 Score: 139
Period size: 46 Copynumber: 2.6 Consensus size: 45
145589 CTTCATCCTC
* *
145599 AATTTAATTTTTATTACAAAATTACTCACAGTTATCATTAACCCTT
1 AATTTAATTTTTATTACAAAATTAC-CACAATTATCATCAACCCTT
** *
145645 AATTTGTTTTTTATTACAAATTTACCATCAATTAGT-ATCAACCCTT
1 AATTTAATTTTTATTACAAAATTACCA-CAATTA-TCATCAACCCTT
*
145691 -ATTTCATTTTTATTACAAAATTACC
1 AATTTAATTTTTATTACAAAATTACC
145716 CAAATTGATT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
45 24 0.39
46 36 0.59
47 1 0.02
ACGTcount: A:0.35, C:0.17, G:0.03, T:0.45
Consensus pattern (45 bp):
AATTTAATTTTTATTACAAAATTACCACAATTATCATCAACCCTT
Found at i:146714 original size:17 final size:16
Alignment explanation
Indices: 146666--146720 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 16
146656 TAAAAAATTG
*
146666 TATATGTATATTATAAT
1 TATAT-TATATTTTAAT
146683 TA-ATTAT-TATTTAAT
1 TATATTATAT-TTTAAT
146698 TATATTATATCTTTAAT
1 TATATTATAT-TTTAAT
*
146715 TTTATT
1 TATATT
146721 TTTATAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
14 1 0.03
15 10 0.31
16 7 0.22
17 14 0.44
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (16 bp):
TATATTATATTTTAAT
Found at i:147113 original size:16 final size:16
Alignment explanation
Indices: 147094--147126 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
147084 CATGAGAAAA
147094 ATAAT-TAAAATATAAT
1 ATAATATAAAA-ATAAT
147110 ATAATATAAAAATAAT
1 ATAATATAAAAATAAT
147126 A
1 A
147127 AGAACACGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
ATAATATAAAAATAAT
Found at i:148267 original size:2 final size:2
Alignment explanation
Indices: 148218--148250 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
148208 CTCATCTTGG
148218 AT AT 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 AT AT A
148251 AAATAAAATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:149712 original size:2 final size:2
Alignment explanation
Indices: 149705--149744 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
149695 AGATCACTTC
149705 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
149745 GTATGTATAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:150028 original size:77 final size:80
Alignment explanation
Indices: 149879--150029 Score: 209
Period size: 82 Copynumber: 1.9 Consensus size: 80
149869 CTATTTATAT
* * * *
149879 ATTCTTTTAATCTTGAACTTAACTTTAGTTATCAAGTAATTAAAATTATTTTTGGCTTGATTTTA
1 ATTCTTTAAATCTTGAACTTAACTTTAGCTATCAAGTAATT-AAATGA-TTTTGGCCTGATTTTA
149944 TTTATACAAGAATATTC
64 TTTATACAAGAATATTC
* *
149961 ATTCTTTAAATCTTGAACTTAATTTTAGCTGTCAAGTAATT-AA-GA-TTTGGCCTGATTTTATT
1 ATTCTTTAAATCTTGAACTTAACTTTAGCTATCAAGTAATTAAATGATTTTGGCCTGATTTTATT
150023 TATACAA
66 TATACAA
150030 TATATATATA
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
77 23 0.37
79 1 0.02
80 2 0.03
82 37 0.59
ACGTcount: A:0.32, C:0.11, G:0.10, T:0.47
Consensus pattern (80 bp):
ATTCTTTAAATCTTGAACTTAACTTTAGCTATCAAGTAATTAAATGATTTTGGCCTGATTTTATT
TATACAAGAATATTC
Found at i:150036 original size:2 final size:2
Alignment explanation
Indices: 150029--150055 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
150019 TATTTATACA
150029 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
150056 GATAGATAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:150718 original size:29 final size:28
Alignment explanation
Indices: 150665--150719 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
150655 TAATATATAT
* *
150665 AAACTTTTAAAAATTATAGATTAATAAA
1 AAACTTTAAAAAATTATAGACTAATAAA
*
150693 AAACTTATAAAAAATTATGGACTAATA
1 AAACTT-TAAAAAATTATAGACTAATA
150720 GCGAAAACTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 6 0.26
29 17 0.74
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.33
Consensus pattern (28 bp):
AAACTTTAAAAAATTATAGACTAATAAA
Found at i:152047 original size:16 final size:16
Alignment explanation
Indices: 152028--152101 Score: 55
Period size: 16 Copynumber: 4.6 Consensus size: 16
152018 GGTTCAGGTG
*
152028 ATTTTGAGTTCGGGTC
1 ATTTTGAGTTCGGATC
* *
152044 ATTTTGACTTTGGATC
1 ATTTTGAGTTCGGATC
*
152060 ACTTT-AGATTCAGG-TC
1 ATTTTGAG-TTC-GGATC
152076 ATTTT-AGGTTCGGATC
1 ATTTTGA-GTTCGGATC
*
152092 ATTTCGAGTT
1 ATTTTGAGTT
152102 TGAGTTTTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
15 3 0.07
16 38 0.84
17 4 0.09
ACGTcount: A:0.19, C:0.14, G:0.23, T:0.45
Consensus pattern (16 bp):
ATTTTGAGTTCGGATC
Found at i:153195 original size:16 final size:16
Alignment explanation
Indices: 153186--153252 Score: 71
Period size: 16 Copynumber: 4.2 Consensus size: 16
153176 TCATTTTGGG
*
153186 TTCGGGTCATTTCCGA
1 TTCGGGTCATTTCAGA
* *
153202 TTCGAGTCATTTCAGG
1 TTCGGGTCATTTCAGA
* *
153218 TTCGGATCATTTTAGA
1 TTCGGGTCATTTCAGA
* *
153234 TTTGGGTCATTTCAAA
1 TTCGGGTCATTTCAGA
153250 TTC
1 TTC
153253 AGATAATTTT
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.19, C:0.18, G:0.21, T:0.42
Consensus pattern (16 bp):
TTCGGGTCATTTCAGA
Found at i:153220 original size:32 final size:32
Alignment explanation
Indices: 153175--153247 Score: 83
Period size: 32 Copynumber: 2.3 Consensus size: 32
153165 AATTATTCAG
** * *
153175 GTCATTTTGGGTTCGGGTCATTTCCGATTCGA
1 GTCATTTCAGGTTCGGATCATTTCAGATTCGA
* * *
153207 GTCATTTCAGGTTCGGATCATTTTAGATTTGG
1 GTCATTTCAGGTTCGGATCATTTCAGATTCGA
153239 GTCATTTCA
1 GTCATTTCA
153248 AATTCAGATA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.16, C:0.16, G:0.25, T:0.42
Consensus pattern (32 bp):
GTCATTTCAGGTTCGGATCATTTCAGATTCGA
Found at i:155754 original size:13 final size:13
Alignment explanation
Indices: 155736--155769 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
155726 AAAGAATTGA
155736 AGAGGGATACAAG
1 AGAGGGATACAAG
155749 AGAGGGATACAAG
1 AGAGGGATACAAG
155762 AGAGGGAT
1 AGAGGGAT
155770 GAGGGATACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.44, C:0.06, G:0.41, T:0.09
Consensus pattern (13 bp):
AGAGGGATACAAG
Done.