Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold159
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: 552906
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 499 characters in sequence are not A, C, G, or T
File 1 of 4
Found at i:215 original size:2 final size:2
Alignment explanation
Indices: 208--238 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
198 TATTAATGCA
208 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 A
239 ATGGTATGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:682 original size:20 final size:19
Alignment explanation
Indices: 646--686 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
636 TGAAAAAAAA
646 TAGATTTAAATTAAAAAATT
1 TAGATTTAAATT-AAAAATT
* *
666 TAGATTTAGATTTAAAATT
1 TAGATTTAAATTAAAAATT
685 TA
1 TA
687 AAATTTTTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (19 bp):
TAGATTTAAATTAAAAATT
Found at i:1467 original size:24 final size:24
Alignment explanation
Indices: 1440--1537 Score: 71
Period size: 23 Copynumber: 4.2 Consensus size: 24
1430 AACGTTTATT
1440 ATTATTATTTTAATAAAATTAAAA
1 ATTATTATTTTAATAAAATTAAAA
**
1464 ATTA-TA-TTTAATTAACTTTAAAA
1 ATTATTATTTTAA-TAAAATTAAAA
* **
1487 AAT-TTACATTAAT-AAATTAAAA
1 ATTATTATTTTAATAAAATTAAAA
* *
1509 TATTAATTATTTT-TTAAAATAAAAA
1 -ATT-ATTATTTTAATAAAATTAAAA
1534 ATTA
1 ATTA
1538 AATTAAAAAG
Statistics
Matches: 56, Mismatches: 11, Indels: 15
0.68 0.13 0.18
Matches are distributed among these distances:
22 12 0.21
23 19 0.34
24 12 0.21
25 13 0.23
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (24 bp):
ATTATTATTTTAATAAAATTAAAA
Found at i:1512 original size:115 final size:112
Alignment explanation
Indices: 1347--1575 Score: 379
Period size: 115 Copynumber: 2.0 Consensus size: 112
1337 TTTTAATTAA
*
1347 AAAAATAATATTTAATTAACTTTTAAAAATACATTAATAAATTAAAATATTAATTATTTTTTAAA
1 AAAAATAATATTTAATTAACTTTAAAAAATACATTAATAAATTAAAATATTAATTATTTTTTAAA
*
1412 ATAAAAAA-TAAATTAAAAAACGTTTATTATTATTATTTTAATAAAATT
66 ATAAAAAATTAAATTAAAAAAC-ATTATTATTATT-TTTTAATAAAATT
*
1460 AAAAATTATATTTAATTAACTTTAAAAAATTTACATTAATAAATTAAAATATTAATTATTTTTTA
1 AAAAATAATATTTAATTAACTTTAAAAAA--TACATTAATAAATTAAAATATTAATTATTTTTTA
*
1525 AAATAAAAAATTAAATTAAAAAGCATTATTATTATTTTTTAATAAAATT
64 AAATAAAAAATTAAATTAAAAAACATTATTATTATTTTTTAATAAAATT
1574 AA
1 AA
1576 TTAAATTTAA
Statistics
Matches: 109, Mismatches: 4, Indels: 5
0.92 0.03 0.04
Matches are distributed among these distances:
113 27 0.25
114 15 0.14
115 55 0.50
116 12 0.11
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.43
Consensus pattern (112 bp):
AAAAATAATATTTAATTAACTTTAAAAAATACATTAATAAATTAAAATATTAATTATTTTTTAAA
ATAAAAAATTAAATTAAAAAACATTATTATTATTTTTTAATAAAATT
Found at i:1559 original size:41 final size:42
Alignment explanation
Indices: 1509--1588 Score: 112
Period size: 41 Copynumber: 1.9 Consensus size: 42
1499 TAAATTAAAA
1509 TATTAATTATTTTTTAAAATAAAA-AATTAAA-TTAAAAAGCAT
1 TATTAATTATTTTTT--AATAAAATAATTAAATTTAAAAAGCAT
1551 TATT-ATTATTTTTTAATAAAATTAATTAAATTTAAAAA
1 TATTAATTATTTTTTAATAAAA-TAATTAAATTTAAAAA
1589 ATTTAATAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
39 7 0.20
41 17 0.49
42 11 0.31
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (42 bp):
TATTAATTATTTTTTAATAAAATAATTAAATTTAAAAAGCAT
Found at i:1580 original size:54 final size:56
Alignment explanation
Indices: 1522--1631 Score: 138
Period size: 55 Copynumber: 2.0 Consensus size: 56
1512 TAATTATTTT
*
1522 TTAAA-ATAAAAAATTAAATTAAA-AA-GCATT-ATTATTATTTTTTAATAAAATTAA
1 TTAAATATAAAAAATTAAA-TAAATAATACATTAATTATTATTTTTT-ATAAAATTAA
* * *
1576 TTAAATTTAAAAAATTTAATAAATAATATATTAATTATTATTTTTTATAAAATTAA
1 TTAAATATAAAAAATTAAATAAATAATACATTAATTATTATTTTTTATAAAATTAA
1632 AAATAATATT
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
54 9 0.19
55 13 0.27
56 13 0.27
57 13 0.27
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.45
Consensus pattern (56 bp):
TTAAATATAAAAAATTAAATAAATAATACATTAATTATTATTTTTTATAAAATTAA
Found at i:1594 original size:19 final size:18
Alignment explanation
Indices: 1562--1599 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
1552 ATTATTATTT
1562 TTTAATAAAATTAATTAAA
1 TTTAATAAAATTAA-TAAA
1581 TTTAA-AAAATTTAATAAA
1 TTTAATAAAA-TTAATAAA
1599 T
1 T
1600 AATATATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TTTAATAAAATTAATAAA
Found at i:1659 original size:31 final size:32
Alignment explanation
Indices: 1565--1662 Score: 101
Period size: 34 Copynumber: 2.9 Consensus size: 32
1555 ATTATTTTTT
*
1565 AATAAAATTAATTAAA-TTTAAAAAATTTAATA
1 AATAATATTAATTAAATTTTAAAAAA-TTAATA
* *
1597 AATAATATATTAATTATTATTTTTTATAAAATTAA-A
1 AAT-A-ATATTAATTA--A-ATTTTAAAAAATTAATA
1633 AATAATATTAATTAAATTTTAAAAAATTAA
1 AATAATATTAATTAAATTTTAAAAAATTAA
1663 GCTATGATTT
Statistics
Matches: 55, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
31 13 0.24
32 4 0.07
33 1 0.02
34 19 0.35
35 1 0.02
36 5 0.09
37 4 0.07
38 8 0.15
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (32 bp):
AATAATATTAATTAAATTTTAAAAAATTAATA
Found at i:2362 original size:20 final size:20
Alignment explanation
Indices: 2339--2413 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 20
2329 AAGTACCTAG
2339 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
2359 ATGTATCGATATATATATGA
1 ATGTATCGATACATTTTTCA
*
2379 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
*
2399 ATGTATCAATACATT
1 ATGTATCGATACATT
2414 CTGTCTTTTT
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:5730 original size:11 final size:11
Alignment explanation
Indices: 5714--5750 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
5704 TTATTACTTT
5714 TTATTTATAAA
1 TTATTTATAAA
* *
5725 TTATTTTTAAT
1 TTATTTATAAA
5736 TTATTTATAAA
1 TTATTTATAAA
5747 TTAT
1 TTAT
5751 ACAAATTTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTATTTATAAA
Found at i:8836 original size:16 final size:16
Alignment explanation
Indices: 8815--8846 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
8805 TGTTGTACGG
8815 CTCCATACACCATGGA
1 CTCCATACACCATGGA
8831 CTCCATACACCATGGA
1 CTCCATACACCATGGA
8847 GTTGTATGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.38, G:0.12, T:0.19
Consensus pattern (16 bp):
CTCCATACACCATGGA
Found at i:9665 original size:13 final size:13
Alignment explanation
Indices: 9647--9672 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9637 CAATTTTTTG
9647 TGTATCGATACAT
1 TGTATCGATACAT
9660 TGTATCGATACAT
1 TGTATCGATACAT
9673 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:10420 original size:21 final size:21
Alignment explanation
Indices: 10379--10422 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
10369 CTCCCCTTTA
* *
10379 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
10400 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
10421 TC
1 TC
10423 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:12245 original size:13 final size:13
Alignment explanation
Indices: 12227--12265 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
12217 ATAATCACCC
12227 TGTATCGATACAA
1 TGTATCGATACAA
12240 TGTATCGATACAA
1 TGTATCGATACAA
*
12253 TGTATTGATACAA
1 TGTATCGATACAA
12266 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:14363 original size:15 final size:15
Alignment explanation
Indices: 14343--14373 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
14333 ATTTCGTTTG
*
14343 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
14358 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
14373 G
1 G
14374 GGCATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:16205 original size:21 final size:21
Alignment explanation
Indices: 16176--16220 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
16166 AAGTTTTCAT
*
16176 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
16196 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
16218 TTT
1 TTT
16221 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:18448 original size:13 final size:13
Alignment explanation
Indices: 18430--18455 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18420 CAATTTTTTG
18430 TGTATCGATACAT
1 TGTATCGATACAT
18443 TGTATCGATACAT
1 TGTATCGATACAT
18456 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:19768 original size:88 final size:91
Alignment explanation
Indices: 19499--20047 Score: 550
Period size: 88 Copynumber: 6.1 Consensus size: 91
19489 TGTAATATTC
** * ** *
19499 ACAATCAATCAACTTTTCAGCTTTTCT-ATCAAAAGGAATCTGATTCTCA-ATATAATTTATGCA
1 ACAATCAATCAACTTTTC-TTTTTTTTAAT-AAAAAAAATCTGATTCTCAGATATAATTCATGCA
* *
19562 TTAGTCTAATCTTTACAGTGTCTTAC--TT
64 TTAGTCTAATCTTTGCA--GTCTGACATTT
* * ** * * *
19590 ATAATCAACCAACTTTTCTTTTTTTTACCAAAAGAAATCCGATTCTCATG-TACAATTCATGCAT
1 ACAATCAATCAACTTTTCTTTTTTTTAATAAAAAAAATCTGATTCTCA-GATATAATTCATGCAT
* *
19654 TAGTCTAATCCTTGCAGTCTAACATTT
65 TAGTCTAATCTTTGCAGTCTGACATTT
* *
19681 ACAATCAATCAACTTTTC-TTTTTTTAAT-AAAAAAAT-TGATTTTCAGATATAATTCATGCACT
1 ACAATCAATCAACTTTTCTTTTTTTTAATAAAAAAAATCTGATTCTCAGATATAATTCATGCATT
* * *
19743 AGTCTAATCTTTACACTCTGGCATTT
66 AGTCTAATCTTTGCAGTCTGACATTT
* *
19769 ACAATCAATTAACTTTTCTTTTTTTTCATAAAAAAGAATCTGATTCTCAGATATAATTCATGCAT
1 ACAATCAATCAACTTTTCTTTTTTTTAATAAAAAA-AATCTGATTCTCAGATATAATTCATGCAT
* * *
19834 TACTCTAATATTTGCAGTTTGACATTT
65 TAGTCTAATCTTTGCAGTCTGACATTT
** * * *
19861 AGGATCACTCAACTTTTCTTTTTTTTTTCTATAAAAAAAAT-TGATTCTCAAATATAATTCATGC
1 ACAATCAATCAACTTTTC--TTTTTTTT-AATAAAAAAAATCTGATTCTCAGATATAATTCATGC
* * *
19925 ATTAGTTTAATCCTTGTAGTCTGACATTT
63 ATTAGTCTAATCTTTGCAGTCTGACATTT
* *
19954 ATAATCAATCAACTTTTC--TTTTTTCATAAAAAAAATCTGATTCTCAGATATAA-TCTATGCAT
1 ACAATCAATCAACTTTTCTTTTTTTTAATAAAAAAAATCTGATTCTCAGATATAATTC-ATGCAT
*
20016 TAGTCTATTTCTTAT--AGTCTGACATTT
65 TAGTCTA-ATCTT-TGCAGTCTGACATTT
20043 ACAAT
1 ACAAT
20048 TTATACATTA
Statistics
Matches: 382, Mismatches: 59, Indels: 36
0.80 0.12 0.08
Matches are distributed among these distances:
87 1 0.00
88 71 0.19
89 71 0.19
90 38 0.10
91 64 0.17
92 58 0.15
93 60 0.16
94 11 0.03
95 8 0.02
ACGTcount: A:0.33, C:0.17, G:0.08, T:0.42
Consensus pattern (91 bp):
ACAATCAATCAACTTTTCTTTTTTTTAATAAAAAAAATCTGATTCTCAGATATAATTCATGCATT
AGTCTAATCTTTGCAGTCTGACATTT
Found at i:19861 original size:180 final size:180
Alignment explanation
Indices: 19499--20047 Score: 578
Period size: 182 Copynumber: 3.0 Consensus size: 180
19489 TGTAATATTC
** * ** *
19499 ACAATCAATCAACTTTTCAGCTTTTCTATCAAAAGGAATCTGATTCTCAATATAATTTATGCATT
1 ACAATCAATCAACTTTTC-TTTTTTTTAT-AAAAAAAAT-TGATTCTCAATATAATTCATGCATT
* * **
19564 AGTCTAATCTTTACAGTGTCTTAC--TTATAATCAACCAACTTTTCTTTTTTTT-A-CCAAAAGA
63 AGTCTAATCTTTACA--GTCTGACATTTATAATCAATCAACTTTTCTTTTTTTTCATAAAAAAG-
* * *
19625 AATCCGATTCTCATG-TACAATTCATGCATTAGTCTAATCCTTGCAGTCTAACATTT
125 AATCTGATTCTCA-GATATAATTCATGCATTAGTCTAATACTTGCAGTCTAACATTT
* * *
19681 ACAATCAATCAACTTTTCTTTTTTTAAT-AAAAAAATTGATTTTCAGATATAATTCATGCACTAG
1 ACAATCAATCAACTTTTCTTTTTTTTATAAAAAAAATTGATTCTCA-ATATAATTCATGCATTAG
* * * *
19745 TCTAATCTTTACACTCTGGCATTTACAATCAATTAACTTTTCTTTTTTTTCATAAAAAAGAATCT
65 TCTAATCTTTACAGTCTGACATTTATAATCAATCAACTTTTCTTTTTTTTCATAAAAAAGAATCT
* * * *
19810 GATTCTCAGATATAATTCATGCATTACTCTAATATTTGCAGTTTGACATTT
130 GATTCTCAGATATAATTCATGCATTAGTCTAATACTTGCAGTCTAACATTT
** *
19861 AGGATCACTCAACTTTTCTTTTTTTTTTCTATAAAAAAAATTGATTCTCAAATATAATTCATGCA
1 ACAATCAATCAACTTTTC---TTTTTTT-TATAAAAAAAATTGATTCTC-AATATAATTCATGCA
* * **
19926 TTAGTTTAATCCTTGTAGTCTGACATTTATAATCAATCAACTTTTC--TTTTTTCATAAAAAA-A
61 TTAGTCTAATCTTTACAGTCTGACATTTATAATCAATCAACTTTTCTTTTTTTTCATAAAAAAGA
* * ** *
19988 ATCTGATTCTCAGATATAA-TCTATGCATTAGTCTATTTCTTATAGTCTGACATTT
126 ATCTGATTCTCAGATATAATTC-ATGCATTAGTCTAATACTTGCAGTCTAACATTT
20043 ACAAT
1 ACAAT
20048 TTATACATTA
Statistics
Matches: 307, Mismatches: 47, Indels: 26
0.81 0.12 0.07
Matches are distributed among these distances:
177 4 0.01
178 8 0.03
179 61 0.20
180 63 0.21
181 13 0.04
182 67 0.22
183 22 0.07
184 2 0.01
185 66 0.21
186 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.08, T:0.42
Consensus pattern (180 bp):
ACAATCAATCAACTTTTCTTTTTTTTATAAAAAAAATTGATTCTCAATATAATTCATGCATTAGT
CTAATCTTTACAGTCTGACATTTATAATCAATCAACTTTTCTTTTTTTTCATAAAAAAGAATCTG
ATTCTCAGATATAATTCATGCATTAGTCTAATACTTGCAGTCTAACATTT
Found at i:19924 original size:93 final size:91
Alignment explanation
Indices: 19499--20047 Score: 561
Period size: 89 Copynumber: 6.1 Consensus size: 91
19489 TGTAATATTC
*** ** *
19499 ACAATCAATCAACTTTTC-AGCTTTTCTATCAAAAGGAATCTGATTCTCA-ATATAATTTATGCA
1 ACAATCAATCAACTTTTCTTTTTTTTC-AT-AAAAAAAATCTGATTCTCAGATATAATTCATGCA
* *
19562 TTAGTCTAATCTTTACAGTGTCTTAC--TT
64 TTAGTCTAATCTTTGCA--GTCTGACATTT
* * * * * *
19590 ATAATCAACCAACTTTTCTTTTTTTT-ACCAAAAGAAATCCGATTCTCATG-TACAATTCATGCA
1 ACAATCAATCAACTTTTCTTTTTTTTCA-TAAAAAAAATCTGATTCTCA-GATATAATTCATGCA
* *
19653 TTAGTCTAATCCTTGCAGTCTAACATTT
64 TTAGTCTAATCTTTGCAGTCTGACATTT
* * *
19681 ACAATCAATCAACTTTTC-TTTTTTTAAT-AAAAAAAT-TGATTTTCAGATATAATTCATGCACT
1 ACAATCAATCAACTTTTCTTTTTTTTCATAAAAAAAATCTGATTCTCAGATATAATTCATGCATT
* * *
19743 AGTCTAATCTTTACACTCTGGCATTT
66 AGTCTAATCTTTGCAGTCTGACATTT
*
19769 ACAATCAATTAACTTTTCTTTTTTTTCATAAAAAAGAATCTGATTCTCAGATATAATTCATGCAT
1 ACAATCAATCAACTTTTCTTTTTTTTCATAAAAAA-AATCTGATTCTCAGATATAATTCATGCAT
* * *
19834 TACTCTAATATTTGCAGTTTGACATTT
65 TAGTCTAATCTTTGCAGTCTGACATTT
** * *
19861 AGGATCACTCAACTTTTCTTTTTTTTTTCTATAAAAAAAAT-TGATTCTCAAATATAATTCATGC
1 ACAATCAATCAACTTTTC--TTTTTTTTC-ATAAAAAAAATCTGATTCTCAGATATAATTCATGC
* * *
19925 ATTAGTTTAATCCTTGTAGTCTGACATTT
63 ATTAGTCTAATCTTTGCAGTCTGACATTT
*
19954 ATAATCAATCAACTTTTC--TTTTTTCATAAAAAAAATCTGATTCTCAGATATAA-TCTATGCAT
1 ACAATCAATCAACTTTTCTTTTTTTTCATAAAAAAAATCTGATTCTCAGATATAATTC-ATGCAT
*
20016 TAGTCTATTTCTTAT--AGTCTGACATTT
65 TAGTCTA-ATCTT-TGCAGTCTGACATTT
20043 ACAAT
1 ACAAT
20048 TTATACATTA
Statistics
Matches: 384, Mismatches: 55, Indels: 40
0.80 0.11 0.08
Matches are distributed among these distances:
87 1 0.00
88 71 0.18
89 72 0.19
90 33 0.09
91 65 0.17
92 62 0.16
93 60 0.16
94 12 0.03
95 8 0.02
ACGTcount: A:0.33, C:0.17, G:0.08, T:0.42
Consensus pattern (91 bp):
ACAATCAATCAACTTTTCTTTTTTTTCATAAAAAAAATCTGATTCTCAGATATAATTCATGCATT
AGTCTAATCTTTGCAGTCTGACATTT
Found at i:19938 original size:273 final size:272
Alignment explanation
Indices: 19520--20022 Score: 664
Period size: 273 Copynumber: 1.8 Consensus size: 272
19510 ACTTTTCAGC
* * * * *
19520 TTTTCTATCAAAAGGAATCTGATTCTCAATATAATTTATGCATTAGTCTAATCTTTACAGTGTCT
1 TTTTCTATAAAAAAGAATCTGATTCTCAATATAATTCATGCATTACTCTAATATTTACAGTGTCT
* * **
19585 TACTTATAATCAACCAACTTTTCTTTTTTTTACCAAAAGAAATCCGATTCTCATGTACAATTCAT
66 GACTTATAATCAACCAACTTTTCTTTTTTTTACCAAAAAAAATCCGATTCTCAAATACAATTCAT
19650 GCATTAGTCTAATCCTTGCAGTCTAACATTTACAATCAATCAACTTTTCTTTTTTTAAT-AAAAA
131 GCATTAGTCTAATCCTTGCAGTCTAACATTTACAATCAATCAACTTTTC-TTTTTTAATAAAAAA
*
19714 AAT-TGATTTTCAGATATAAT-TCATGCACTAGTCTAATCTTTACACTCTGGCATTTACAATCAA
195 AATCTGATTCTCAGATATAATCT-ATGCACTAGTCTAATCTTTACACTCTGGCATTTACAATCAA
19777 TTAACTTTTCTTTT
259 TTAACTTTTCTTTT
*
19791 TTTTC-ATAAAAAAGAATCTGATTCTCAGATATAATTCATGCATTACTCTAATATTTGCAGT-T-
1 TTTTCTATAAAAAAGAATCTGATTCTCA-ATATAATTCATGCATTACTCTAATATTTACAGTGTC
* * *
19853 TGACATT-TAGGATC-ACTCAACTTTTCTTTTTTTTTTCTATAAAAAAAAT-TGATTCTCAAATA
65 TGAC-TTATA--ATCAAC-CAACTTTTC-TTTTTTTTAC--CAAAAAAAATCCGATTCTCAAATA
* * * * * *
19915 TAATTCATGCATTAGTTTAATCCTTGTAGTCTGACATTTATAATCAATCAACTTTTCTTTTTTCA
123 CAATTCATGCATTAGTCTAATCCTTGCAGTCTAACATTTACAATCAATCAACTTTTCTTTTTTAA
*
19980 TAAAAAAAATCTGATTCTCAGATATAATCTATGCATTAGTCTA
188 TAAAAAAAATCTGATTCTCAGATATAATCTATGCACTAGTCTA
20023 TTTCTTATAG
Statistics
Matches: 200, Mismatches: 21, Indels: 19
0.83 0.09 0.08
Matches are distributed among these distances:
269 5 0.03
270 25 0.12
271 46 0.23
272 17 0.09
273 70 0.35
274 36 0.18
275 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.08, T:0.42
Consensus pattern (272 bp):
TTTTCTATAAAAAAGAATCTGATTCTCAATATAATTCATGCATTACTCTAATATTTACAGTGTCT
GACTTATAATCAACCAACTTTTCTTTTTTTTACCAAAAAAAATCCGATTCTCAAATACAATTCAT
GCATTAGTCTAATCCTTGCAGTCTAACATTTACAATCAATCAACTTTTCTTTTTTAATAAAAAAA
ATCTGATTCTCAGATATAATCTATGCACTAGTCTAATCTTTACACTCTGGCATTTACAATCAATT
AACTTTTCTTTT
Found at i:27255 original size:20 final size:21
Alignment explanation
Indices: 27221--27259 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
27211 TTACAAATTT
27221 CTTCATTTTTACTTCAAAACA
1 CTTCATTTTTACTTCAAAACA
27242 CTTCATTTTT-CTTCAAAA
1 CTTCATTTTTACTTCAAAA
27260 TCACCAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (21 bp):
CTTCATTTTTACTTCAAAACA
Found at i:29709 original size:20 final size:19
Alignment explanation
Indices: 29663--29725 Score: 83
Period size: 19 Copynumber: 3.3 Consensus size: 19
29653 TTGTATCGAT
*
29663 ACATTGTATCTATACATGA
1 ACATTGTATCAATACATGA
*
29682 TCATTGTATCAATACATGA
1 ACATTGTATCAATACATGA
*
29701 ACAATTGTATCGATACATGA
1 AC-ATTGTATCAATACATGA
29721 A-ATTG
1 ACATTG
29726 GCAGTAGTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
18 4 0.10
19 18 0.46
20 17 0.44
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (19 bp):
ACATTGTATCAATACATGA
Found at i:29773 original size:20 final size:20
Alignment explanation
Indices: 29748--29819 Score: 86
Period size: 20 Copynumber: 4.0 Consensus size: 20
29738 CTACCACTGT
29748 TTGTATCGATACATGGTATA
1 TTGTATCGATACATGGTATA
29768 TTGTATCGATAC-------A
1 TTGTATCGATACATGGTATA
29781 TTGTATCGATACATGGTATA
1 TTGTATCGATACATGGTATA
*
29801 TTGTATCGATACATTGTAT
1 TTGTATCGATACATGGTAT
29820 CGATACATGA
Statistics
Matches: 44, Mismatches: 1, Indels: 14
0.75 0.02 0.24
Matches are distributed among these distances:
13 13 0.30
20 31 0.70
ACGTcount: A:0.29, C:0.11, G:0.18, T:0.42
Consensus pattern (20 bp):
TTGTATCGATACATGGTATA
Found at i:29783 original size:13 final size:13
Alignment explanation
Indices: 29767--29849 Score: 73
Period size: 13 Copynumber: 7.3 Consensus size: 13
29757 TACATGGTAT
29767 ATTGTATCGATAC
1 ATTGTATCGATAC
29780 ATTGTATCGATAC
1 ATTGTATCGATAC
*
29793 A-TG----G-TAT
1 ATTGTATCGATAC
29800 ATTGTATCGATAC
1 ATTGTATCGATAC
29813 ATTGTATCGATAC
1 ATTGTATCGATAC
29826 A-TG-AT-G--A-
1 ATTGTATCGATAC
29833 ATTGTATCGATAC
1 ATTGTATCGATAC
29846 ATTG
1 ATTG
29850 CTTGTAATGG
Statistics
Matches: 56, Mismatches: 2, Indels: 24
0.68 0.02 0.29
Matches are distributed among these distances:
7 4 0.07
8 6 0.11
9 2 0.04
10 2 0.04
11 2 0.04
12 6 0.11
13 34 0.61
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.39
Consensus pattern (13 bp):
ATTGTATCGATAC
Found at i:29790 original size:33 final size:33
Alignment explanation
Indices: 29748--29849 Score: 179
Period size: 33 Copynumber: 3.1 Consensus size: 33
29738 CTACCACTGT
29748 TTGTATCGATACATGGTATATTGTATCGATACA
1 TTGTATCGATACATGGTATATTGTATCGATACA
29781 TTGTATCGATACATGGTATATTGTATCGATACA
1 TTGTATCGATACATGGTATATTGTATCGATACA
*
29814 TTGTATCGATACATGATGA-ATTGTATCGATACA
1 TTGTATCGATACATGGT-ATATTGTATCGATACA
29847 TTG
1 TTG
29850 CTTGTAATGG
Statistics
Matches: 67, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
33 66 0.99
34 1 0.01
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (33 bp):
TTGTATCGATACATGGTATATTGTATCGATACA
Found at i:29905 original size:72 final size:72
Alignment explanation
Indices: 29815--29991 Score: 336
Period size: 72 Copynumber: 2.5 Consensus size: 72
29805 ATCGATACAT
* *
29815 TGTATCGATACATGATGAATTGTATCGATACATTGCTTGTAATGGCTATAAACATCTATAATTTC
1 TGTATCGATACATTATGAATTGTATCGATACATTGCTTGTAATGGCTATAAACAGCTATAATTTC
29880 AAATCAA
66 AAATCAA
29887 TGTATCGATACATTATGAATTGTATCGATACATTGCTTGTAATGGCTATAAACAGCTATAATTTC
1 TGTATCGATACATTATGAATTGTATCGATACATTGCTTGTAATGGCTATAAACAGCTATAATTTC
29952 AAATCAA
66 AAATCAA
29959 TGTATCGATACATTATGAATTGTATCGATACAT
1 TGTATCGATACATTATGAATTGTATCGATACAT
29992 GGCTATGAGA
Statistics
Matches: 103, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
72 103 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.37
Consensus pattern (72 bp):
TGTATCGATACATTATGAATTGTATCGATACATTGCTTGTAATGGCTATAAACAGCTATAATTTC
AAATCAA
Found at i:30850 original size:15 final size:16
Alignment explanation
Indices: 30830--30860 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
30820 TTTTTTTATG
30830 AAAATAAAAAA-TTTT
1 AAAATAAAAAAGTTTT
30845 AAAATAAAAAAGTTTT
1 AAAATAAAAAAGTTTT
30861 TTATTATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (16 bp):
AAAATAAAAAAGTTTT
Found at i:30941 original size:124 final size:122
Alignment explanation
Indices: 30660--30992 Score: 444
Period size: 124 Copynumber: 2.7 Consensus size: 122
30650 TTGAGCTTTC
*
30660 AAAAATTTATATTAACAAATTAAAATATT-A--ATTA-TTTTTTAAAATAAAAAAATTTAAATAA
1 AAAAATTTACATTAACAAATTAAAATATTAATTATTATTTTTTTAAAAT-AAAAAATTT---T-A
* * *
30721 AAATAAAAAGGGTTTATTATTATTATTTTTAATAAAATTAAAAATAATATTTAATTAAGTTTA
61 AAATAAAAA-AGTTTTTTATTATAATTTTTAATAAAATTAAAAATAATATTTAATTAAGTTTA
*
30784 AAAAA-TTACAGTAACAAATTAAAATATTAATTATTATTTTTTTATGAAAATAAAAAATTTTAAA
1 AAAAATTTACATTAACAAATTAAAATATTAATTATTA-TTTTTT-T-AAAATAAAAAATTTTAAA
30848 ATAAAAAAGTTTTTTATTATAATTTTTAATAAAA-TAAAAATAATATTTAATTAAGTTTA
63 ATAAAAAAGTTTTTTATTATAATTTTTAATAAAATTAAAAATAATATTTAATTAAGTTTA
* *
30907 AAAAATTTACATTAATAAATTAAAATATTAATTATTATGTTTTTTAAAATAAAAAATTTTAAATT
1 AAAAATTTACATTAACAAATTAAAATATTAATTATTAT-TTTTTTAAAATAAAAAATTTTAAAAT
** *
30972 TTAAAATTTTTTTATTATAAT
65 AAAAAAGTTTTTTATTATAAT
30993 AATATTTTTT
Statistics
Matches: 189, Mismatches: 11, Indels: 20
0.86 0.05 0.09
Matches are distributed among these distances:
122 37 0.20
123 53 0.28
124 64 0.34
125 10 0.05
126 5 0.03
128 5 0.03
129 10 0.05
130 5 0.03
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.44
Consensus pattern (122 bp):
AAAAATTTACATTAACAAATTAAAATATTAATTATTATTTTTTTAAAATAAAAAATTTTAAAATA
AAAAAGTTTTTTATTATAATTTTTAATAAAATTAAAAATAATATTTAATTAAGTTTA
Found at i:31015 original size:19 final size:18
Alignment explanation
Indices: 30970--31022 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
30960 AAATTTTAAA
30970 TTTTAAA-ATTTTTTTAT
1 TTTTAAATATTTTTTTAT
* *
30987 TATAATAATATTTTTTTATT
1 TTTTA-AATATTTTTTTA-T
31007 TTTTAAATATATTTTT
1 TTTTAAATAT-TTTTT
31023 GAGAAAACAT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
17 3 0.11
18 2 0.07
19 14 0.50
20 9 0.32
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTAAATATTTTTTTAT
Found at i:31342 original size:24 final size:25
Alignment explanation
Indices: 31308--31361 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
31298 TCTTTAAATG
*
31308 TTTTTTTAATTT-GTT-AATATAAT
1 TTTTTTTAATTTAATTAAATATAAT
*
31331 TTTTTTTAAATTTAATTAAATATCAT
1 TTTTTTT-AATTTAATTAAATATAAT
31357 TTTTT
1 TTTTT
31362 ATTTTATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 7 0.27
24 5 0.19
25 2 0.08
26 12 0.46
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (25 bp):
TTTTTTTAATTTAATTAAATATAAT
Found at i:31466 original size:111 final size:116
Alignment explanation
Indices: 31311--31684 Score: 444
Period size: 111 Copynumber: 3.2 Consensus size: 116
31301 TTAAATGTTT
31311 TTTTAATTTGTTAATATAATTTTTTTTAAATTTAATTAAATATCATTTTTTATTTTATTAAAAAA
1 TTTTAATTTGTTAATATAA-TTTTTTTAAATTTAATTAAATATCATTTTTTATTTTATTAAAAAA
31376 TAATAATAATAAA-TACTT-TTT-A-TTTTTA-TAAAAACATAAAAATTAATA
65 TAATAATAATAAACTACTTATTTAATTTTTTATTAAAAACA-AAAAATTAATA
*
31424 TTTTAATTTGTTAATGTAA-TTTTTTAAATTTAATTAAATATCATTTTTTATTTTATTAAAAAAT
1 TTTTAATTTGTTAATATAATTTTTTTAAATTTAATTAAATATCATTTTTTATTTTATTAAAAAAT
** *** *
31488 AATAATAATAAACCCTTTTTAATTTAATTTTTTATTTTTAACAAATAATTAATA
66 AATAATAATAAA--CTACTT-ATTTAATTTTTTATTAAAAACAAAAAATTAATA
* * * *
31542 TTTTAATTTATTAATATAATTTTTTTAAAGTTAATTAAATATTATTTTTAATTTTATTAAAAAAT
1 TTTTAATTTGTTAATATAATTTTTTTAAATTTAATTAAATATCATTTTTTATTTTATTAAAAAAT
* ** * *
31607 AATAATAAT---GTTTTTAATTTAATTTTTTATTTTAAAA-AAATAATTAATA
66 AATAATAATAAACTACTT-ATTTAATTTTTTA-TTAAAAACAAAAAATTAATA
* *
31656 TTTTAATTTATTAATGTAAATTTTTTTAA
1 TTTTAATTTGTTAATAT-AATTTTTTTAA
31685 TACATTATTA
Statistics
Matches: 234, Mismatches: 16, Indels: 20
0.87 0.06 0.07
Matches are distributed among these distances:
111 57 0.24
113 18 0.08
114 50 0.21
115 16 0.07
116 3 0.01
117 1 0.00
118 33 0.14
119 56 0.24
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (116 bp):
TTTTAATTTGTTAATATAATTTTTTTAAATTTAATTAAATATCATTTTTTATTTTATTAAAAAAT
AATAATAATAAACTACTTATTTAATTTTTTATTAAAAACAAAAAATTAATA
Found at i:31547 original size:38 final size:38
Alignment explanation
Indices: 31504--31665 Score: 124
Period size: 38 Copynumber: 4.3 Consensus size: 38
31494 AATAAACCCT
*
31504 TTTTAATTTAATTTTTTATTTTTAACAAATAATTAATA
1 TTTTAATTTAATTTTTTATTTTTAAAAAATAATTAATA
* * * **
31542 TTTTAATTT-ATTAATATAATTTTTTTAAAGTTAATTAAATA
1 TTTTAATTTAATT--TTTTA-TTTTTAAAAAATAATT-AATA
*
31583 TTATT--TTTAA--TTTTA---TTAAAAAATAATAATAATGT
1 TT-TTAATTTAATTTTTTATTTTTAAAAAATAAT--TAAT-A
*
31618 TTTTAATTTAATTTTTTATTTTAAAAAAATAATTAATA
1 TTTTAATTTAATTTTTTATTTTTAAAAAATAATTAATA
31656 TTTTAATTTA
1 TTTTAATTTA
31666 TTAATGTAAA
Statistics
Matches: 94, Mismatches: 14, Indels: 32
0.67 0.10 0.23
Matches are distributed among these distances:
33 9 0.10
34 5 0.05
35 3 0.03
36 5 0.05
37 6 0.06
38 24 0.26
39 7 0.07
40 15 0.16
41 18 0.19
42 2 0.02
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (38 bp):
TTTTAATTTAATTTTTTATTTTTAAAAAATAATTAATA
Found at i:31556 original size:41 final size:40
Alignment explanation
Indices: 31511--31670 Score: 117
Period size: 41 Copynumber: 4.1 Consensus size: 40
31501 CCTTTTTAAT
*
31511 TTAATTTTTTATTTTTAACAAATAATTAATATTTTAATTTA
1 TTAATTTTTTATTTTTAAAAAATAATTAATATTTT-ATTTA
** ** *
31552 TTAATATAATT-TTTTT-AAAGTTAATTAA-ATATTATTT-
1 TTAAT-TTTTTATTTTTAAAAAATAATTAATATTTTATTTA
*
31589 TTAA--TTTTA---TTAAAAAATAA-TAATAATGTTT-TTAA
1 TTAATTTTTTATTTTTAAAAAATAATTAAT-AT-TTTATTTA
*
31624 TTTAATTTTTTATTTTAAAAAAATAATTAATATTTTAATTTA
1 -TTAATTTTTTATTTTTAAAAAATAATTAATATTTT-ATTTA
31666 TTAAT
1 TTAAT
31671 GTAAATTTTT
Statistics
Matches: 89, Mismatches: 14, Indels: 32
0.66 0.10 0.24
Matches are distributed among these distances:
32 5 0.06
33 6 0.07
34 6 0.07
35 2 0.02
36 4 0.04
37 4 0.04
38 9 0.10
39 4 0.04
40 12 0.13
41 27 0.30
42 10 0.11
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (40 bp):
TTAATTTTTTATTTTTAAAAAATAATTAATATTTTATTTA
Found at i:31600 original size:22 final size:21
Alignment explanation
Indices: 31542--31602 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 21
31532 ATAATTAATA
31542 TTTTAATTTATTAATATAATTT
1 TTTTAATTTATTAA-ATAATTT
*
31564 TTTTAAAGTTAATTAAAT-ATTAT
1 TTTT-AA-TTTATTAAATAATT-T
31587 TTTTAATTTTATTAAA
1 TTTTAA-TTTATTAAA
31603 AAATAATAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
22 17 0.52
23 9 0.27
24 7 0.21
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (21 bp):
TTTTAATTTATTAAATAATTT
Found at i:31613 original size:119 final size:114
Alignment explanation
Indices: 31416--31684 Score: 405
Period size: 114 Copynumber: 2.3 Consensus size: 114
31406 AAAACATAAA
* * *
31416 AATTAATATTTTAATTTGTTAATGTAA-TTTTTTAAATTTAATTAAATATCATTTTTTATTTTAT
1 AATTAATATTTTAATTTATTAATGTAATTTTTTTAAAGTTAATTAAATATCATTTTTAATTTTAT
* *
31480 TAAAAAATAATAATAATAAACCCTTTTTAATTTAATTTTTTATTTTTAACAAAT
66 TAAAAAATAATAATAAT-----CTTTTTAATTTAATTTTTTATTTTAAAAAAAT
* *
31534 AATTAATATTTTAATTTATTAATATAATTTTTTTAAAGTTAATTAAATATTATTTTTAATTTTAT
1 AATTAATATTTTAATTTATTAATGTAATTTTTTTAAAGTTAATTAAATATCATTTTTAATTTTAT
*
31599 TAAAAAATAATAATAATGTTTTTAATTTAATTTTTTATTTTAAAAAAAT
66 TAAAAAATAATAATAATCTTTTTAATTTAATTTTTTATTTTAAAAAAAT
31648 AATTAATATTTTAATTTATTAATGTAAATTTTTTTAA
1 AATTAATATTTTAATTTATTAATGT-AATTTTTTTAA
31685 TACATTATTA
Statistics
Matches: 140, Mismatches: 9, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
114 53 0.38
115 11 0.08
118 25 0.18
119 51 0.36
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (114 bp):
AATTAATATTTTAATTTATTAATGTAATTTTTTTAAAGTTAATTAAATATCATTTTTAATTTTAT
TAAAAAATAATAATAATCTTTTTAATTTAATTTTTTATTTTAAAAAAAT
Found at i:31911 original size:22 final size:22
Alignment explanation
Indices: 31858--31911 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
31848 AAAGTTGTAA
* *
31858 TTATGTTTAATATTCATTAAAT
1 TTATATTTAATATTAATTAAAT
* *
31880 TTATAATTAATATTAATCTAATT
1 TTATATTTAATATTAAT-TAAAT
31903 TTAT-TTTAA
1 TTATATTTAA
31912 AAGTTTATGT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 18 0.69
23 8 0.31
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.56
Consensus pattern (22 bp):
TTATATTTAATATTAATTAAAT
Found at i:32194 original size:15 final size:15
Alignment explanation
Indices: 32150--32201 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 15
32140 AAAAATTTTT
*
32150 AAATTTAAAAATC-A
1 AAATTTTAAAATCTA
*
32164 TAAATTTT-ATATCTA
1 -AAATTTTAAAATCTA
32179 AAATTTTAAAATCT-
1 AAATTTTAAAATCTA
32193 AAATTTTAA
1 AAATTTTAA
32202 TTTTAAAACG
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
14 20 0.62
15 12 0.38
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (15 bp):
AAATTTTAAAATCTA
Found at i:32208 original size:28 final size:29
Alignment explanation
Indices: 32143--32209 Score: 84
Period size: 28 Copynumber: 2.3 Consensus size: 29
32133 TCCAAACAAA
*
32143 AATTTTTAAATTTAAAAATCATAAATTTT
1 AATTTTAAAATTTAAAAATCATAAATTTT
* *
32172 -ATATCTAAAATTTTAAAATC-TAAATTTT
1 AAT-TTTAAAATTTAAAAATCATAAATTTT
32200 AATTTTAAAA
1 AATTTTAAAA
32210 CGCAACCTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
28 16 0.50
29 16 0.50
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.46
Consensus pattern (29 bp):
AATTTTAAAATTTAAAAATCATAAATTTT
Found at i:35309 original size:15 final size:14
Alignment explanation
Indices: 35265--35313 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 14
35255 TAAACTTATC
35265 AAAAGCAATTCATA
1 AAAAGCAATTCATA
*
35279 AAAA-CAA-TCTAGA
1 AAAAGCAATTC-ATA
35292 AAATAGCAATTCAT-
1 AAA-AGCAATTCATA
35306 AAAAGCAA
1 AAAAGCAA
35314 GGCAACATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
12 2 0.07
13 13 0.45
14 8 0.28
15 4 0.14
16 2 0.07
ACGTcount: A:0.59, C:0.14, G:0.08, T:0.18
Consensus pattern (14 bp):
AAAAGCAATTCATA
Found at i:40351 original size:50 final size:50
Alignment explanation
Indices: 40292--40432 Score: 151
Period size: 50 Copynumber: 2.8 Consensus size: 50
40282 GTATTTACAG
*
40292 GGCTTGACCTCCTTATAGAAGTGCCAACTAATGTGGACTTAGATTATAT-A
1 GGCTTGACCTCCTTATA-AAGTGCCAACTAATATGGACTTAGATTATATAA
* * * * * * *
40342 GGCTTGACCTTCC-GATACAAGTGCTAGCTAATATAGATTTGGATTCTATAA
1 GGCTTGACC-TCCTTATA-AAGTGCCAACTAATATGGACTTAGATTATATAA
*
40393 GGCTTGACCTCTTTATAAAGGTGCCAACTAATATGGACTT
1 GGCTTGACCTCCTTATAAA-GTGCCAACTAATATGGACTT
40433 TGGGTTCTTT
Statistics
Matches: 72, Mismatches: 15, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
50 40 0.56
51 32 0.44
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (50 bp):
GGCTTGACCTCCTTATAAAGTGCCAACTAATATGGACTTAGATTATATAA
Found at i:40501 original size:103 final size:99
Alignment explanation
Indices: 40264--40519 Score: 244
Period size: 103 Copynumber: 2.5 Consensus size: 99
40254 TATATGGTTC
* * *
40264 CAGCTAATGTGGATTTTGGTATTTACAGGGCTTGACCTCCTTATAGAAGTGCCAACTAATGTGGA
1 CAGCTAATATGGATTTT-G-ATCTACAGGGCTTGACCTCCTTATAGAAGTGCCAACTAATATGGA
40329 CTTAGATTATATAGGCTTGACCTTCCGATACAAGTG
64 CTTAGATTATATAGGCTTGACCTTCCGATACAAGTG
* * * * *
40365 CTAGCTAATATAGATTTGGATTCTATAAGGCTTGACCTCTTTATA-AAGGTGCCAACTAATATGG
1 C-AGCTAATATGGATTTTGA-TCTACAGGGCTTGACCTCCTTATAGAA-GTGCCAACTAATATGG
* * * * * *** *
40429 ACTTTGGGTTCTTTAGGGCTTTACCTTTTTATACAGGTG
63 AC-TTAGATTATATA-GGCTTGACCTTCCGATACAAGTG
* * *
40468 TCAGCTAATATGGATTTTGACTCTACAGGGCTTGAGCTCCCTATACAAGTGC
1 -CAGCTAATATGGATTTTGA-TCTACAGGGCTTGACCTCCTTATAGAAGTGC
40520 TAGTTGATGT
Statistics
Matches: 123, Mismatches: 25, Indels: 12
0.77 0.16 0.08
Matches are distributed among these distances:
100 3 0.02
101 39 0.32
102 21 0.17
103 57 0.46
104 3 0.02
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (99 bp):
CAGCTAATATGGATTTTGATCTACAGGGCTTGACCTCCTTATAGAAGTGCCAACTAATATGGACT
TAGATTATATAGGCTTGACCTTCCGATACAAGTG
Found at i:40672 original size:103 final size:101
Alignment explanation
Indices: 40292--40712 Score: 289
Period size: 103 Copynumber: 4.1 Consensus size: 101
40282 GTATTTACAG
* * * * * **
40292 GGCTTGACCTCCTTATAGAAGTGCCAACTAATGTGGA-CTTAGATTATATAGGCTTGACCT-TCC
1 GGCTTGACCTCCTTATACAAGTGCCAACTAATATGGAGTTTGGGTCCTATAGGCTTGACCTCTCC
40355 GATACAAGTGCTAGCTAATATAGATTTGGA-TTCTATAA
66 -ATACAAGTGCTAGCTAATATAGATTT-GACTT-TATAA
* * * * * *
40393 GGCTTGACCTCTTTATA-AAGGTGCCAACTAATATGGACTTTGGGTTCTTTAGGGCTTTACCTTT
1 GGCTTGACCTCCTTATACAA-GTGCCAACTAATATGGAGTTTGGGTCCTATA-GGCTTGACCTCT
** * * * * *
40457 TTATACAGGTG-TCAGCTAATATGGATTTTGACTCTACAG
64 CCATACAAGTGCT-AGCTAATATAGA-TTTGACTTTATAA
* * * ** * * * *
40496 GGCTTGAGCTCCCTATACAAGTGCTAGTTGATGTGGAGTTAGGG-CTCTATAGAGCTTGAGCTCT
1 GGCTTGACCTCCTTATACAAGTGCCAACTAATATGGAGTTTGGGTC-CTATAG-GCTTGACCTCT
** * *
40560 ATACACAAGTGCTAGCTAATGTAGACTTTGACTTTATAA
64 CCATACAAGTGCTAGCTAATATAGA-TTTGACTTTATAA
* **
40599 TGCTTGACCTTTTTATACAAGTGCCAACTAATATGGAGTTTGGGTCCTATAGTGCTTGACCTCTC
1 GGCTTGACCTCCTTATACAAGTGCCAACTAATATGGAGTTTGGGTCCTATAG-GCTTGACCTCTC
* * * * * * *
40664 CATTCAAGT-ATAAGCTAGTATGGACTTGGACTCTATAG
65 CATACAAGTGCT-AGCTAATATAGA-TTTGACTTTATAA
40702 GGCTTGACCTC
1 GGCTTGACCTC
40713 ATAATATAGA
Statistics
Matches: 242, Mismatches: 65, Indels: 24
0.73 0.20 0.07
Matches are distributed among these distances:
100 2 0.01
101 32 0.13
102 11 0.05
103 188 0.78
104 9 0.04
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.34
Consensus pattern (101 bp):
GGCTTGACCTCCTTATACAAGTGCCAACTAATATGGAGTTTGGGTCCTATAGGCTTGACCTCTCC
ATACAAGTGCTAGCTAATATAGATTTGACTTTATAA
Found at i:40738 original size:206 final size:206
Alignment explanation
Indices: 40287--40738 Score: 472
Period size: 206 Copynumber: 2.2 Consensus size: 206
40277 TTTTGGTATT
* * ** * ** * *
40287 TACAGGGCTTGACCTCCTTATAGAAGTGCCAACTAATGTGGACTTA-GATTATATAG-GCTTGAC
1 TACAGGGCTTGACCTCCATATACAAGTGCCAGTTAATGTGGAGTTAGGGCTCTATAGAGCTTGAG
*
40350 CTTCCGAT--ACAAGTGCTAGCTAATATAGATTTGGATTCTATAAGGCTTGACCTCTTTATAAAG
66 C-T-CTATACACAAGTGCTAGCTAATATAGATTTGGATTCTATAAGGCTTGACCTCTTTATAAAG
* * * * ** * * *
40413 GTGCCAACTAATATGGACTTTGGGTTCTTTAGGGCTTTACCTTTTTATACAGGTGTCAGCTAATA
129 GTGCCAACTAATATGGACTTTGGGTCCTATAGGGCTTGACCTCTCCATACAAGTATAAGCTAATA
* *
40478 TGGATTTTGACTC
194 TGGACTTGGACTC
* * * *
40491 TACAGGGCTTGAGCTCCCTATACAAGTGCTAGTTGATGTGGAGTTAGGGCTCTATAGAGCTTGAG
1 TACAGGGCTTGACCTCCATATACAAGTGCCAGTTAATGTGGAGTTAGGGCTCTATAGAGCTTGAG
* * *
40556 CTCTATACACAAGTGCTAGCTAATGTAGACTTT-GACTT-TATAATGCTTGACCTTTTTATACAA
66 CTCTATACACAAGTGCTAGCTAATATAGA-TTTGGA-TTCTATAAGGCTTGACCTCTTTATA-AA
* * * *
40619 -GTGCCAACTAATATGGAGTTTGGGTCCTATAGTGCTTGACCTCTCCATTCAAGTATAAGCTAGT
128 GGTGCCAACTAATATGGACTTTGGGTCCTATAGGGCTTGACCTCTCCATACAAGTATAAGCTAAT
40683 ATGGACTTGGACTC
193 ATGGACTTGGACTC
* *
40697 TATAGGGCTTGACCT-CATAATA-TAGATGCCAGTTAATGTGGA
1 TACAGGGCTTGACCTCCAT-ATACAAG-TGCCAGTTAATGTGGA
40739 TTTTGGTATC
Statistics
Matches: 202, Mismatches: 37, Indels: 16
0.79 0.15 0.06
Matches are distributed among these distances:
204 41 0.20
205 12 0.06
206 142 0.70
207 7 0.03
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.34
Consensus pattern (206 bp):
TACAGGGCTTGACCTCCATATACAAGTGCCAGTTAATGTGGAGTTAGGGCTCTATAGAGCTTGAG
CTCTATACACAAGTGCTAGCTAATATAGATTTGGATTCTATAAGGCTTGACCTCTTTATAAAGGT
GCCAACTAATATGGACTTTGGGTCCTATAGGGCTTGACCTCTCCATACAAGTATAAGCTAATATG
GACTTGGACTC
Found at i:40853 original size:47 final size:48
Alignment explanation
Indices: 40767--40890 Score: 146
Period size: 47 Copynumber: 2.6 Consensus size: 48
40757 TTGACATCCT
* * *
40767 TATATAGGTGCCAGCTAGTGTGAACTTAGTTTCTGTAGGGACTT-C-CC
1 TATATAGGTGCCAGCTAGTGTGGACTTAGATTCTCTAGGG-CTTACTCC
40814 TATATAGGTGCCAGCTAGTGTGGACTT-GCATTCTCTAGGGCTTGACCTCC
1 TATATAGGTGCCAGCTAGTGTGGACTTAG-ATTCTCTAGGGCTT-A-CTCC
* *
40864 TATATAGGTGCCAGCTAATATGGACTT
1 TATATAGGTGCCAGCTAGTGTGGACTT
40891 TGGGTTCTAT
Statistics
Matches: 67, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
46 4 0.06
47 35 0.52
49 1 0.01
50 27 0.40
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (48 bp):
TATATAGGTGCCAGCTAGTGTGGACTTAGATTCTCTAGGGCTTACTCC
Found at i:41060 original size:103 final size:102
Alignment explanation
Indices: 40810--41170 Score: 310
Period size: 103 Copynumber: 3.5 Consensus size: 102
40800 TGTAGGGACT
* * * * *
40810 TCCCTATATAGGTGCCAGCTAGTGTGGACTTGCATTCTCTAGGGCTTGACCTCCTATATAGGTGC
1 TCCCTATACAGGTGCCAGCTAGTGTGGACTTGGATTCTATAAGGCTTGACCTCCTATACAGGTGC
** * * *
40875 CAGCTAATATGGACTTTGGGTTCTATAGGGCTTGATC
66 CAGCTAATATAAACTTTGGGTTCTATAGAGCTTAACC
* * * * * * * * * *
40912 TCCCTATACAGTTTCTAGCTAGTATGGATTTAGATTTTATGAGGCTTGTCCTCTCTATACATGTG
1 TCCCTATACAGGTGCCAGCTAGTGTGGACTTGGATTCTATAAGGCTTGACCTC-CTATACAGGTG
* * * *
40977 CCCGTTAATGTAAACTTTGGGTTTTATAGAGCTTAACC
65 CCAGCTAATATAAACTTTGGGTTCTATAGAGCTTAACC
* * *
41015 TCCCTATGCAGGTGCCAACTAGTGTAGACTTGGATTCTATAAGGCTTGACCTCCCTATACAGGTG
1 TCCCTATACAGGTGCCAGCTAGTGTGGACTTGGATTCTATAAGGCTTGACCT-CCTATACAGGTG
* ** * * * *
41080 CTAGCTAATATGGACATTGAGTTCTATA-AGGTTTGACC
65 CCAGCTAATATAAACTTTGGGTTCTATAGA-GCTTAACC
* * * * ** *
41118 TCCTTATATAGGTGCCAACTACTACGGACTTGGATTTCTATAGGGCTTGACCT
1 TCCCTATACAGGTGCCAGCTAGTGTGGACTTGGA-TTCTATAAGGCTTGACCT
41171 ATATATAGAG
Statistics
Matches: 199, Mismatches: 56, Indels: 6
0.76 0.21 0.02
Matches are distributed among these distances:
102 41 0.21
103 140 0.70
104 18 0.09
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.35
Consensus pattern (102 bp):
TCCCTATACAGGTGCCAGCTAGTGTGGACTTGGATTCTATAAGGCTTGACCTCCTATACAGGTGC
CAGCTAATATAAACTTTGGGTTCTATAGAGCTTAACC
Found at i:41199 original size:52 final size:50
Alignment explanation
Indices: 40292--41200 Score: 260
Period size: 52 Copynumber: 17.8 Consensus size: 50
40282 GTATTTACAG
* * * * * *
40292 GGCTTGACCTCCTTATAGAAGTGCCAACTAATGTGGACTTAGATTATAT-A
1 GGCTTGACCT-CTTATACAGGTGCCAACTAGTATGGACTTGGATTCTATAA
** * * * * * *
40342 GGCTTGACCTTCCGATACAAGTGCTAGCTAATATAGATTTGGATTCTATAA
1 GGCTTGACC-TCTTATACAGGTGCCAACTAGTATGGACTTGGATTCTATAA
* * * * *
40393 GGCTTGACCTCTTTATAAAGGTGCCAACTAATATGGACTTTGGGTTCTTTAG
1 GGCTTGACCTC-TTATACAGGTGCCAACTAGTATGGAC-TTGGATTCTATAA
* * * * * * * * * *
40445 GGCTTTACCTTTTTATACAGGTGTCAGCTAATATGGATTTTGACTCTACAG
1 GGCTTGACC-TCTTATACAGGTGCCAACTAGTATGGACTTGGATTCTATAA
* * * * * * * * **
40496 GGCTTGAGCTCCCTATACAAGTG-CTAGTTGATGTGGAGTTAGGGCTCTAT-A
1 GGCTTGACCT-CTTATACAGGTGCCAACTAG-TATGGACTT-GGATTCTATAA
* * * * * * * * *
40547 GAGCTTGAGCTCTATACACAAGTGCTAGCTAATGTAGACTTTGACTT-TATAA
1 G-GCTTGACCTCT-TATACAGGTGCCAACTAGTATGGACTTGGA-TTCTATAA
* * * * * * *
40599 TGCTTGACCTTTTTATACAAGTGCCAACTAATATGGAGTTTGGGTCCTAT-A
1 GGCTTGACC-TCTTATACAGGTGCCAACTAGTATGGA-CTTGGATTCTATAA
* * * ** * *
40650 GTGCTTGACCTCTCCATTCAAGT-ATAAGCTAGTATGGACTTGGACTCTATAG
1 G-GCTTGACCTCT-TATACAGGTGCCAA-CTAGTATGGACTTGGATTCTATAA
* * * ** * * * *
40702 GGCTTGACCTCATAATATAGATGCCAGTTAATGTGGATTTTGG-TATCTATTA
1 GGCTTGACCTC-TTATACAGGTGCCAACTAGTATGGA-CTTGGAT-TCTATAA
* * * * * * * * *
40754 GGCTTGACATCCTTATATAGGTGCCAGCTAGTGTGAACTTAGTTTCTGTAG
1 GGCTTGACCT-CTTATACAGGTGCCAACTAGTATGGACTTGGATTCTATAA
* * * * * *
40805 GGACTT--CC-C-TATATAGGTGCCAGCTAGTGTGGACTTGCATTCTCTAG
1 GG-CTTGACCTCTTATACAGGTGCCAACTAGTATGGACTTGGATTCTATAA
* * * * * *
40852 GGCTTGACCTCCTATATAGGTGCCAGCTAATATGGACTTTGGGTTCTATAG
1 GGCTTGACCTCTTATACAGGTGCCAACTAGTATGGAC-TTGGATTCTATAA
* * * * * * * * * *
40903 GGCTTGATCTCCCTATACAGTTTCTAGCTAGTATGGATTTAGATTTTATGA
1 GGCTTGACCT-CTTATACAGGTGCCAACTAGTATGGACTTGGATTCTATAA
* * *** * * ** * *
40954 GGCTTGTCCTCTCTATACATGTGCCCGTTAATGTAAACTTTGGGTTTTAT-A
1 GGCTTGACCTCT-TATACAGGTGCCAACTAGTATGGAC-TTGGATTCTATAA
* * * * *
41005 GAGCTTAACCTCCCTATGCAGGTGCCAACTAGTGTAGACTTGGATTCTATAA
1 G-GCTTGACCT-CTTATACAGGTGCCAACTAGTATGGACTTGGATTCTATAA
* * * *
41057 GGCTTGACCTCCCTATACAGGTGCTAGCTAATATGGACATT-GAGTTCTATAA
1 GGCTTGACCT-CTTATACAGGTGCCAACTAGTATGGAC-TTGGA-TTCTATAA
* * * * *
41109 GGTTTGACCTCCTTATATAGGTGCCAACTACTACGGACTTGGATTTCTATAG
1 GGCTTGACCT-CTTATACAGGTGCCAACTAGTATGGACTTGGA-TTCTATAA
* * *
41161 GGCTTGACCTATATATAGAGGTGCCAACTAGTGTGGACTT
1 GGCTTGACCTCT-TATACAGGTGCCAACTAGTATGGACTT
41201 ATATTTGGAT
Statistics
Matches: 633, Mismatches: 184, Indels: 82
0.70 0.20 0.09
Matches are distributed among these distances:
46 3 0.00
47 35 0.06
48 3 0.00
49 1 0.00
50 67 0.11
51 231 0.36
52 289 0.46
53 4 0.01
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.35
Consensus pattern (50 bp):
GGCTTGACCTCTTATACAGGTGCCAACTAGTATGGACTTGGATTCTATAA
Found at i:42250 original size:16 final size:16
Alignment explanation
Indices: 42217--42263 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
42207 CAATTGTATG
*
42217 TGAGTACGAATGCCCA
1 TGAGTACGAATGCACA
*
42233 TGAGTACGAATGGACA
1 TGAGTACGAATGCACA
* *
42249 TGAATAGGAATGCAC
1 TGAGTACGAATGCAC
42264 GAGCATGAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.36, C:0.17, G:0.28, T:0.19
Consensus pattern (16 bp):
TGAGTACGAATGCACA
Found at i:43835 original size:22 final size:21
Alignment explanation
Indices: 43810--43853 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
43800 CTGTTCTTGA
43810 TTTTGCTTTTATTTTGTTTTTT
1 TTTTGCTTTTATTTT-TTTTTT
*
43832 TTTTGCTTTTCTTTTTTTTTT
1 TTTTGCTTTTATTTTTTTTTT
43853 T
1 T
43854 CATTTTGAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.02, C:0.07, G:0.07, T:0.84
Consensus pattern (21 bp):
TTTTGCTTTTATTTTTTTTTT
Found at i:44306 original size:20 final size:20
Alignment explanation
Indices: 44281--44330 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
44271 TTTACCCAGA
*
44281 TGTATCGATATATTATTCAT
1 TGTATCGATAGATTATTCAT
44301 TGTATCGATAGATTATTCAT
1 TGTATCGATAGATTATTCAT
44321 TGTATCGATA
1 TGTATCGATA
44331 CATTGTATCG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.30, C:0.10, G:0.14, T:0.46
Consensus pattern (20 bp):
TGTATCGATAGATTATTCAT
Found at i:44336 original size:13 final size:13
Alignment explanation
Indices: 44318--44347 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
44308 ATAGATTATT
44318 CATTGTATCGATA
1 CATTGTATCGATA
44331 CATTGTATCGATA
1 CATTGTATCGATA
44344 CATT
1 CATT
44348 CTAAATGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:44362 original size:19 final size:19
Alignment explanation
Indices: 44334--44385 Score: 68
Period size: 20 Copynumber: 2.7 Consensus size: 19
44324 ATCGATACAT
44334 TGTATCGATACATTCTAAA
1 TGTATCGATACATTCTAAA
* * *
44353 TGTATGGATACATTTTTCAA
1 TGTATCGATACA-TTCTAAA
44373 TGTATCGATACAT
1 TGTATCGATACAT
44386 CCAGGCATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (19 bp):
TGTATCGATACATTCTAAA
Found at i:46829 original size:28 final size:28
Alignment explanation
Indices: 46762--46829 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
46752 AATCGAGGAT
* * *
46762 ACTCCAACCCCATTATTTTCGCGGGAAT
1 ACTCCAACCCCGTTATTTTCGAGGGAAA
** *
46790 ACTGTAATCCCGTTATTTTCGAGGGAAA
1 ACTCCAACCCCGTTATTTTCGAGGGAAA
46818 ACTCCAACCCCG
1 ACTCCAACCCCG
46830 ATTTTATTTC
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.26
Consensus pattern (28 bp):
ACTCCAACCCCGTTATTTTCGAGGGAAA
Found at i:46892 original size:79 final size:78
Alignment explanation
Indices: 46801--47377 Score: 572
Period size: 79 Copynumber: 7.3 Consensus size: 78
46791 CTGTAATCCC
* * *
46801 GTTATTTTCGAGGGAAAACTCCAACCCCGATTTTATTTCCAAAATACTAATTTTTCATAATCGAG
1 GTTATTTTCGAGGG-ATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTTCACAATCG-G
*
46866 GG-TACTCCAATCCT
64 GGATACTCCAACCCT
* * * *
46880 GTTATTTCCGAGGGGATACTCCAACCACGATTTTATTTCCAAAACACTAATATTTCATAATCGGG
1 GTTATTTTCGA-GGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTTCACAATCGGG
46945 GATACTCCAA-CCT
65 GATACTCCAACCCT
* * * * * *
46958 CATTATTTTTGAAGGGATACTCCAACCCTGATTTTATTTTCAAAACACTGATTTTTCACAATCGA
1 -GTTATTTTCG-AGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTTCACAATCGG
**
47023 GTTTACTCCAA-CCT
64 GGATACTCCAACCCT
* * *
47037 CGTTA-TTTCTGAGGGGATACTCTAACCCCGATTTTATTTCCAAAATAAC-AAATTTTCACAATC
1 -GTTATTTTC-GA-GGGATACTCCAACCCCGATTTTATTTCCAAAA-CACTAATTTTTCACAATC
*
47100 GGGGATACTCCAACCCC
62 GGGGATACTCCAACCCT
* * *
47117 ATTATTTTCGAGTGGATACTCCAACCCCGATTTTATTTTCAAAACATCT-GTTTTTCACAATCGG
1 GTTATTTTCGAG-GGATACTCCAACCCCGATTTTATTTCCAAAACA-CTAATTTTTCACAATCGG
*
47181 GGATACTCCAACCCC
64 GGATACTCCAACCCT
* * * * * **
47196 GTTATTTTTGAGAGGATACTCTAACTCCGATTTTATTTCTAAAATACCGATTTTTCACAATCGGG
1 GTTATTTTCGAG-GGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTTCACAATCGGG
*
47261 GGTACTCCAACCCT
65 GATACTCCAACCCT
* ** ** * ** * *
47275 ATTATTTTCGAAGGGATACTCCAACCTTGATTTTATTTTTAGAACGTTGATTTTTCACAATCGAG
1 GTTATTTTCG-AGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTTCACAATCGGG
* *
47340 GATACTCCAGCCCC
65 GATACTCCAACCCT
* **
47354 GTTATTTTTGAAAGATACTCCAAC
1 GTTATTTTCGAGGGATACTCCAAC
47378 TTTATCTCCA
Statistics
Matches: 417, Mismatches: 67, Indels: 29
0.81 0.13 0.06
Matches are distributed among these distances:
78 25 0.06
79 378 0.91
80 14 0.03
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.34
Consensus pattern (78 bp):
GTTATTTTCGAGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTTCACAATCGGGG
ATACTCCAACCCT
Found at i:47215 original size:237 final size:236
Alignment explanation
Indices: 46798--47312 Score: 657
Period size: 237 Copynumber: 2.2 Consensus size: 236
46788 ATACTGTAAT
* * * *
46798 CCCGTTATTTTCGAGGGAAAACTCCAACCCCGATTTTATTTCCAAAATACTAATTTTTCATAATC
1 CCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAATACTAAATTTTCACAATC
* **
46863 GAGGGTACTCCAATCCTGTTATTTCCGAGGGGATACTCCAACCACGATTTTATTTCCAAAACACT
66 GAGGGTACTCCAACCCCATTATTTCCGAGGGGATACTCCAACCACGATTTTATTTCCAAAACACT
* *
46928 AATATTTCATAATCGGGGATACTCCAACCTCATTATTTTTGAAGGGATACTCCAAC-CCTGATTT
131 AATATTTCACAATCGGGGATACTCCAACCCCATTATTTTTGAAGGGATACTCCAACTCC-GATTT
* **
46992 TATTT-TCAAAACACTGATTTTTCACAATCGAGTTTACTCCAA
195 TATTTCT-AAAACACCGATTTTTCACAATCGAGGGTACTCCAA
*
47034 CCTCGTTA-TTTCTGAGGGGATACTCTAACCCCGATTTTATTTCCAAAATAAC-AAATTTTCACA
1 CC-CGTTATTTTC-GAGGGGATACTCCAACCCCGATTTTATTTCCAAAAT-ACTAAATTTTCACA
* * * *
47097 ATCG-GGGATACTCCAACCCCATTATTTTCGAGTGGATACTCCAACCCCGATTTTATTTTCAAAA
63 ATCGAGGG-TACTCCAACCCCATTATTTCCGAGGGGATACTCCAACCACGATTTTATTTCCAAAA
* * * *
47161 CATCT-GTTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTTG-AGAGGATACTCTAACTCC
127 CA-CTAATATTTCACAATCGGGGATACTCCAACCCCATTATTTTTGAAG-GGATACTCCAACTCC
* *
47224 GATTTTATTTCTAAAATACCGATTTTTCACAATCGGGGGTACTCCAA
190 GATTTTATTTCTAAAACACCGATTTTTCACAATCGAGGGTACTCCAA
* * **
47271 CCCTATTATTTTCGAAGGGATACTCCAACCTTGATTTTATTT
1 CCC-GTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTT
47313 TTAGAACGTT
Statistics
Matches: 241, Mismatches: 28, Indels: 19
0.84 0.10 0.07
Matches are distributed among these distances:
236 12 0.05
237 218 0.90
238 11 0.05
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.35
Consensus pattern (236 bp):
CCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAATACTAAATTTTCACAATC
GAGGGTACTCCAACCCCATTATTTCCGAGGGGATACTCCAACCACGATTTTATTTCCAAAACACT
AATATTTCACAATCGGGGATACTCCAACCCCATTATTTTTGAAGGGATACTCCAACTCCGATTTT
ATTTCTAAAACACCGATTTTTCACAATCGAGGGTACTCCAA
Found at i:47354 original size:158 final size:158
Alignment explanation
Indices: 46802--47378 Score: 698
Period size: 158 Copynumber: 3.7 Consensus size: 158
46792 TGTAATCCCG
* * * * * * *
46802 TTATTTTCG-AGGGAAAACTCCAACCCCGATTTTATTTCCAAAATACTAATTTTTCATAATCGAG
1 TTATTTTCGAAGGG-ATACTCCAACCCTGATTTTATTTTCAAAACATTGATTTTTCACAATCGAG
* * * * * * *
46866 GGTACTCCAATCCTGTTATTTCCGAGGGGATACTCCAAC-CACGATTTTATTTCCAAAACACTAA
65 GATACTCCAACCCCGTTATTTCTGAGAGGATACTCCAACTC-CGATTTTATTTCCAAAATACCAA
* *
46930 TATTTCATAATCGGGGATACTCCAA-CCTCA
129 TTTTTCACAATCGGGGATACTCCAACCCT-A
* * *
46960 TTATTTTTGAAGGGATACTCCAACCCTGATTTTATTTTCAAAACACTGATTTTTCACAATCGAGT
1 TTATTTTCGAAGGGATACTCCAACCCTGATTTTATTTTCAAAACATTGATTTTTCACAATCGAGG
* * * * * * *
47025 TTACTCCAACCTCGTTATTTCTGAGGGGATACTCTAACCCCGATTTTATTTCCAAAATAACAAAT
66 ATACTCCAACCCCGTTATTTCTGAGAGGATACTCCAACTCCGATTTTATTTCCAAAATACCAATT
*
47090 TTTCACAATCGGGGATACTCCAACCCCA
131 TTTCACAATCGGGGATACTCCAACCCTA
* *
47118 TTATTTTCG-AGTGGATACTCCAACCCCGATTTTATTTTCAAAACATCTG-TTTTTCACAATCGG
1 TTATTTTCGAAG-GGATACTCCAACCCTGATTTTATTTTCAAAACAT-TGATTTTTCACAATCGA
* * * *
47181 GGATACTCCAACCCCGTTATTTTTGAGAGGATACTCTAACTCCGATTTTATTTCTAAAATACCGA
64 GGATACTCCAACCCCGTTATTTCTGAGAGGATACTCCAACTCCGATTTTATTTCCAAAATACCAA
*
47246 TTTTTCACAATCGGGGGTACTCCAACCCTA
129 TTTTTCACAATCGGGGATACTCCAACCCTA
* * * *
47276 TTATTTTCGAAGGGATACTCCAACCTTGATTTTATTTTTAGAACGTTGATTTTTCACAATCGAGG
1 TTATTTTCGAAGGGATACTCCAACCCTGATTTTATTTTCAAAACATTGATTTTTCACAATCGAGG
* * *
47341 ATACTCCAGCCCCGTTATTTTTGA-AAGATACTCCAACT
66 ATACTCCAACCCCGTTATTTCTGAGAGGATACTCCAACT
47379 TTATCTCCAA
Statistics
Matches: 366, Mismatches: 46, Indels: 15
0.86 0.11 0.04
Matches are distributed among these distances:
157 16 0.04
158 339 0.93
159 11 0.03
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (158 bp):
TTATTTTCGAAGGGATACTCCAACCCTGATTTTATTTTCAAAACATTGATTTTTCACAATCGAGG
ATACTCCAACCCCGTTATTTCTGAGAGGATACTCCAACTCCGATTTTATTTCCAAAATACCAATT
TTTCACAATCGGGGATACTCCAACCCTA
Found at i:50913 original size:20 final size:20
Alignment explanation
Indices: 50869--51105 Score: 102
Period size: 20 Copynumber: 10.8 Consensus size: 20
50859 ATCATTCTTT
* *
50869 AATGTATCGATACATGTATG
1 AATGTATCGATACATTTATC
* *
50889 GATGTATCGATACATTTTTC
1 AATGTATCGATACATTTATC
*
50909 AATGTATTGATACATTCTATC
1 AATGTATCGATACATT-TATC
*
50930 TTTTTACCTAGATGTATCGATACATTTTTC
1 -----A---A--TGTATCGATACATTTATC
* *
50960 AATGTATCGATACATGTATG
1 AATGTATCGATACATTTATC
* *
50980 ACTGTATTGATACATTCT-TC
1 AATGTATCGATACATT-TATC
*
51000 AATGTATTGATACATTCTATCTTCTTACCC
1 AATGTATCGATACATT-TA------T---C
51030 AGATGTATCGATACATTT-TC
1 A-ATGTATCGATACATTTATC
* * *
51050 AATGTATCGATACGTGTATG
1 AATGTATCGATACATTTATC
*
51070 ATTGTATCGATACATTCT-TC
1 AATGTATCGATACATT-TATC
51090 AATGTATCGATACATT
1 AATGTATCGATACATT
51106 CTGTGTTTTT
Statistics
Matches: 166, Mismatches: 26, Indels: 50
0.69 0.11 0.21
Matches are distributed among these distances:
19 14 0.08
20 108 0.65
21 5 0.03
22 1 0.01
23 1 0.01
25 1 0.01
26 1 0.01
27 1 0.01
29 1 0.01
30 6 0.04
31 27 0.16
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.42
Consensus pattern (20 bp):
AATGTATCGATACATTTATC
Found at i:50965 original size:51 final size:49
Alignment explanation
Indices: 50889--51156 Score: 198
Period size: 40 Copynumber: 5.7 Consensus size: 49
50879 TACATGTATG
*
50889 GATGTATCGATACATTTTTCAATGTATTGATACATTCTATCTTTTTACCTA
1 GATGTATCGATACATTTTTCAATGTATCGATACATTCTATC-TTTTACC-A
* *
50940 GATGTATCGATACATTTTTCAATGTATCGATACA-TGTA----TGA-C-
1 GATGTATCGATACATTTTTCAATGTATCGATACATTCTATCTTTTACCA
* * *
50982 --TGTATTGATACATTCTTCAATGTATTGATACATTCTATCTTCTTACCCA
1 GATGTATCGATACATTTTTCAATGTATCGATACATTCTATCTT-TTA-CCA
* *
51031 GATGTATCGATACA-TTTTCAATGTATCGATAC-GTGTA-----T----
1 GATGTATCGATACATTTTTCAATGTATCGATACATTCTATCTTTTACCA
* * * * *
51069 GATTGTATCGATACATTCTTCAATGTATCGATACATTCTGTGTTTTTTTCCCT
1 GA-TGTATCGATACATTTTTCAATGTATCGATACATTC--T-ATCTTTTACCA
*
51122 GATGTATCGATATATTTTTCAATGTATCGATACAT
1 GATGTATCGATACATTTTTCAATGTATCGATACAT
51157 CTAGTTAAAA
Statistics
Matches: 172, Mismatches: 19, Indels: 51
0.71 0.08 0.21
Matches are distributed among these distances:
38 2 0.01
39 12 0.07
40 46 0.27
41 4 0.02
43 2 0.01
44 1 0.01
45 2 0.01
46 2 0.01
48 1 0.01
49 4 0.02
50 19 0.11
51 44 0.26
52 31 0.18
53 2 0.01
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.44
Consensus pattern (49 bp):
GATGTATCGATACATTTTTCAATGTATCGATACATTCTATCTTTTACCA
Found at i:51028 original size:91 final size:90
Alignment explanation
Indices: 50861--51156 Score: 427
Period size: 91 Copynumber: 3.3 Consensus size: 90
50851 GGTAGAGGAT
*
50861 CATTCTTT-AATGTATCGATACATGTATGGATGTATCGATACATTTTTCAATGTATTGATACATT
1 CATT-TTTCAATGTATCGATACATGTAT-GATGTATCGATACATTCTTCAATGTATTGATACATT
50925 CTATCTTTTTACCTAGATGTATCGATA
64 CTATCTTTTTACCTAGATGTATCGATA
*
50952 CATTTTTCAATGTATCGATACATGTATGACTGTATTGATACATTCTTCAATGTATTGATACATTC
1 CATTTTTCAATGTATCGATACATGTATGA-TGTATCGATACATTCTTCAATGTATTGATACATTC
* *
51017 TATCTTCTTACCCAGATGTATCGATA
65 TATCTTTTTACCTAGATGTATCGATA
* *
51043 CA-TTTTCAATGTATCGATACGTGTATGATTGTATCGATACATTCTTCAATGTATCGATACATTC
1 CATTTTTCAATGTATCGATACATGTATGA-TGTATCGATACATTCTTCAATGTATTGATACATTC
* * *
51107 TGTGTTTTTTTCCCT-GATGTATCGATA
65 --TATCTTTTTACCTAGATGTATCGATA
*
51134 TATTTTTCAATGTATCGATACAT
1 CATTTTTCAATGTATCGATACAT
51157 CTAGTTAAAA
Statistics
Matches: 185, Mismatches: 15, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
90 63 0.34
91 95 0.51
92 27 0.15
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.44
Consensus pattern (90 bp):
CATTTTTCAATGTATCGATACATGTATGATGTATCGATACATTCTTCAATGTATTGATACATTCT
ATCTTTTTACCTAGATGTATCGATA
Found at i:51106 original size:20 final size:20
Alignment explanation
Indices: 50941--51107 Score: 108
Period size: 20 Copynumber: 8.8 Consensus size: 20
50931 TTTTACCTAG
*
50941 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTCTTCA
* *
50961 ATGTATCGATACATGT-ATGA
1 ATGTATCGATACAT-TCTTCA
* *
50981 CTGTATTGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
*
51001 ATGTATTGATACATTC-T--
1 ATGTATCGATACATTCTTCA
* *
51018 ATCT-TC-TTAC---C--CA
1 ATGTATCGATACATTCTTCA
51031 GATGTATCGATACATT-TTCA
1 -ATGTATCGATACATTCTTCA
* * *
51051 ATGTATCGATACGTGT-ATGA
1 ATGTATCGATACAT-TCTTCA
*
51071 TTGTATCGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
51091 ATGTATCGATACATTCT
1 ATGTATCGATACATTCT
51108 GTGTTTTTTT
Statistics
Matches: 113, Mismatches: 20, Indels: 28
0.70 0.12 0.17
Matches are distributed among these distances:
12 1 0.01
14 3 0.03
15 5 0.04
16 4 0.04
17 3 0.03
19 16 0.14
20 80 0.71
21 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTCTTCA
Found at i:57819 original size:27 final size:27
Alignment explanation
Indices: 57783--57858 Score: 143
Period size: 27 Copynumber: 2.8 Consensus size: 27
57773 TTTTTGATTG
*
57783 AAAACGGGGTTGGAGTGTCCCCTCGGA
1 AAAATGGGGTTGGAGTGTCCCCTCGGA
57810 AAAATGGGGTTGGAGTGTCCCCTCGGA
1 AAAATGGGGTTGGAGTGTCCCCTCGGA
57837 AAAATGGGGTTGGAGTGTCCCC
1 AAAATGGGGTTGGAGTGTCCCC
57859 GATGAATAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.22, C:0.20, G:0.37, T:0.21
Consensus pattern (27 bp):
AAAATGGGGTTGGAGTGTCCCCTCGGA
Found at i:60045 original size:52 final size:52
Alignment explanation
Indices: 59960--60084 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
59950 ATATGAAAAG
* *
59960 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
60012 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
60064 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
60085 AAGATCAGTG
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:60097 original size:52 final size:51
Alignment explanation
Indices: 59960--60104 Score: 211
Period size: 52 Copynumber: 2.8 Consensus size: 51
59950 ATATGAAAAG
*
59960 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
* *
60012 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
*
60064 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
60105 ATGTATCAAT
Statistics
Matches: 85, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 83 0.98
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAT
Found at i:60199 original size:13 final size:13
Alignment explanation
Indices: 60181--60205 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60171 GAAAAAAATA
60181 TGTATCGATACAT
1 TGTATCGATACAT
60194 TGTATCGATACA
1 TGTATCGATACA
60206 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:61229 original size:49 final size:49
Alignment explanation
Indices: 61078--61521 Score: 488
Period size: 49 Copynumber: 9.1 Consensus size: 49
61068 TGAGAAAAGT
* * * * * * *
61078 GATAAAAATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAA
1 GATAAAGATGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAA
* * * * *
61127 GATGAGAAAAAGGATGTCAACGTGCTGATTCAAGGCCTGCTACATTGAACTTAAA
1 GAT-----AAA-GATGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAA
* * * * * *
61182 GATGAAGATGCCAATATGCTGATTCAAGGCCAACGATATCGGGCTTAAA
1 GATAAAGATGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAA
61231 G-----G-TGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAA
1 GATAAAGATGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAA
* * * *
61274 GATAAAGGTGCCAATGTGCTGAGTCTAGGCCAGCTACATTGGACTTAAA
1 GATAAAGATGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAA
* *
61323 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA
1 GATAAAGATGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAA
* * * *
61372 GATAAAGGTGCCAATGTGCTGAGTGAAGGCCAGCTACATTGGACTTAAA
1 GATAAAGATGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAA
* *
61421 GATAAA-AGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
1 GATAAAGA-TGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAA
* *
61470 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA
1 GATAAAGATGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAA
61519 GAT
1 GAT
61522 GAAAAAAGTG
Statistics
Matches: 336, Mismatches: 45, Indels: 28
0.82 0.11 0.07
Matches are distributed among these distances:
43 37 0.11
44 1 0.00
48 1 0.00
49 258 0.77
50 2 0.01
54 3 0.01
55 34 0.10
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (49 bp):
GATAAAGATGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAA
Found at i:61251 original size:43 final size:43
Alignment explanation
Indices: 61190--61274 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 43
61180 AAGATGAAGA
*
61190 TGCCAATATGCTGATTCAAGGCCAACGATATCGGGCTTAAAGG
1 TGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGG
* * * *
61233 TGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 TGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAG
61275 ATAAAGGTGC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (43 bp):
TGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGG
Found at i:61436 original size:147 final size:147
Alignment explanation
Indices: 61148--61521 Score: 580
Period size: 147 Copynumber: 2.6 Consensus size: 147
61138 GGATGTCAAC
* * * * *
61148 GTGCTGATTCAAGGCCTGCTACATTGAACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCC
* * * * * *
61213 AACGATATCGGGC-T-----TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTA
66 AGCTATATTGGACTTAAAGATAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTA
*
61272 AAGATAAAGGTGCCAAT
131 AAGATAAAAGTGCCAAT
*
61289 GTGCTGAGTCTAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCC
*
61354 AGCTATATTGGACTTAAAGATAAAGGTGCCAATGTGCTGAGTGAAGGCCAGCTACATTGGACTTA
66 AGCTATATTGGACTTAAAGATAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTA
61419 AAGATAAAAGTGCCAAT
131 AAGATAAAAGTGCCAAT
61436 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCC
61501 AGCTATATTGGACTTAAAGAT
66 AGCTATATTGGACTTAAAGAT
61522 GAAAAAAGTG
Statistics
Matches: 212, Mismatches: 15, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
141 68 0.32
142 1 0.00
147 143 0.67
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.25
Consensus pattern (147 bp):
GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCC
AGCTATATTGGACTTAAAGATAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTA
AAGATAAAAGTGCCAAT
Found at i:61561 original size:27 final size:27
Alignment explanation
Indices: 61529--61734 Score: 90
Period size: 34 Copynumber: 6.8 Consensus size: 27
61519 GATGAAAAAA
* *
61529 GTGCCACGGAGTTTTGGGCTTAAAAGG
1 GTGCCACAGAGTTGTGGGCTTAAAAGG
*
61556 GTGCCACAGAGTTGTGGGCTTAGAAGG
1 GTGCCACAGAGTTGTGGGCTTAAAAGG
* * *
61583 AAAAAGAATGCCACGGAG-TGTGCGCTTAGAAGGAAAAAGA
1 -----G--TGCCACAGAGTTGTGGGCTT------AA-AAGG
* *
61623 GTGCCACGGAGTTGTGGGCTTTAAAAAGA
1 GTGCCACAGAGTTGTGGGC-TT-AAAAGG
*
61652 GTGCCACGGAGTTGTGGGCTTTGAAAAGAAG
1 GTGCCACAGAGTTGTGGGC-TT-AAAAG--G
* *
61683 AAGATGCCACGGAGTTGTGGGCTTTAAAAGA
1 --G-TGCCACAGAGTTGTGGGC-TTAAAAGG
61714 GTGCCACAGAGTTGTGGGCTT
1 GTGCCACAGAGTTGTGGGCTT
61735 TGAAAAGAAG
Statistics
Matches: 145, Mismatches: 13, Indels: 42
0.73 0.06 0.21
Matches are distributed among these distances:
27 26 0.18
28 17 0.12
29 32 0.22
30 2 0.01
32 1 0.01
33 24 0.17
34 36 0.25
35 3 0.02
39 1 0.01
40 3 0.02
ACGTcount: A:0.29, C:0.14, G:0.35, T:0.22
Consensus pattern (27 bp):
GTGCCACAGAGTTGTGGGCTTAAAAGG
Found at i:61595 original size:34 final size:33
Alignment explanation
Indices: 61557--61930 Score: 295
Period size: 34 Copynumber: 11.7 Consensus size: 33
61547 CTTAAAAGGG
* *
61557 TGCCACAGAGTTGTGGGCTTAGAAGGAAAAAGAA
1 TGCCACGGAGTTGTGGGCTTTGAA-GAAAAAGAA
* * *
61591 TGCCACGGAG-TGTGCGCTTAGAAGGAAAAAGAG
1 TGCCACGGAGTTGTGGGCTTTGAA-GAAAAAGAA
*
61624 TGCCACGGAGTTGTGGGCTTT----AAAAAGAG
1 TGCCACGGAGTTGTGGGCTTTGAAGAAAAAGAA
*
61653 TGCCACGGAGTTGTGGGCTTTGAA-AAGAAGAAGA
1 TGCCACGGAGTTGTGGGCTTTGAAGAAAAAG-A-A
*
61687 TGCCACGGAGTTGTGGGCTTT-----AAAAGAG
1 TGCCACGGAGTTGTGGGCTTTGAAGAAAAAGAA
* *
61715 TGCCACAGAGTTGTGGGCTTTGAA-AAGAAGAA
1 TGCCACGGAGTTGTGGGCTTTGAAGAAAAAGAA
* *
61747 GGTGCCATGGAGTTGTGGGCTTTGAAAAGAAAAAG-G
1 --TGCCACGGAGTTGTGGGCTTTG--AAGAAAAAGAA
*
61783 TGCCACGGAGTTGTGGGCTTTAAAGGAAAAAG--
1 TGCCACGGAGTTGTGGGCTTTGAA-GAAAAAGAA
61815 TGCCACGGAGTTGTGGGCTTTGAAG-AAAA-AA
1 TGCCACGGAGTTGTGGGCTTTGAAGAAAAAGAA
* * * *
61846 TGCCACTGAGTCGTGGACTTTG-AG-ACAA-AA
1 TGCCACGGAGTTGTGGGCTTTGAAGAAAAAGAA
* * * * *
61876 TGCCACTGAGTCGTGGACTTTAAAG-AAAAGGA
1 TGCCACGGAGTTGTGGGCTTTGAAGAAAAAGAA
* * *
61908 TGCCACTGAGTCGTGGACTTTGA
1 TGCCACGGAGTTGTGGGCTTTGA
61931 GTAGAGATTG
Statistics
Matches: 293, Mismatches: 27, Indels: 42
0.81 0.07 0.12
Matches are distributed among these distances:
28 20 0.07
29 30 0.10
30 36 0.12
31 25 0.09
32 58 0.20
33 39 0.13
34 78 0.27
36 2 0.01
37 5 0.02
ACGTcount: A:0.31, C:0.14, G:0.33, T:0.22
Consensus pattern (33 bp):
TGCCACGGAGTTGTGGGCTTTGAAGAAAAAGAA
Found at i:61690 original size:96 final size:96
Alignment explanation
Indices: 61513--61868 Score: 383
Period size: 96 Copynumber: 3.7 Consensus size: 96
61503 CTATATTGGA
* * *
61513 CTTAAAGATGAAAAAAGTGCCACGGAGTTTTGGGC-TT--AAAAGGGTGCCACAGAGTTGTGGGC
1 CTTAAAG--GAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAAGAGTGCCACGGAGTTGTGGGC
* * *
61575 TTAG-AAGGAAAAAGAATGCCACGGAG-TGTGCG
64 TTTGAAAAGAAAAAG-ATGCCACGGAGTTGTGGG
61607 CTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAAGAGTGCCACGGAGTTGTGGGC
1 CTTA-AAGGAAAAA-AGTGCCACGGAGTTGTGGGCTTTGAAAAAGAGTGCCACGGAGTTGTGGGC
*
61671 TTTGAAAAGAAGAAGATGCCACGGAGTTGTGGG
64 TTTGAAAAGAAAAAGATGCCACGGAGTTGTGGG
* * * *
61704 CTT----TAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCATGGAGTTGTGG
1 CTTAAAGGAAAAAAGTGCCACGGAGTTGTGGGCTTTG-AAA-AAG-A-GTGCCACGGAGTTGTGG
*
61765 GCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGG
62 GCTTTGAAAAGAAAAAGATGCCACGGAGTTGTGGG
* * * * *
61800 CTTTAAAGG-AAAAAGTGCCACGGAGTTGTGGGCTTTGAAGAAAAAATGCCACTGAGTCGTGGAC
1 C-TTAAAGGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAA-AAAGAGTGCCACGGAGTTGTGGGC
61864 TTTGA
64 TTTGA
61869 GACAAAATGC
Statistics
Matches: 223, Mismatches: 22, Indels: 31
0.81 0.08 0.11
Matches are distributed among these distances:
91 22 0.10
92 4 0.02
93 9 0.04
94 26 0.12
95 6 0.03
96 87 0.39
97 37 0.17
98 1 0.00
99 4 0.02
100 27 0.12
ACGTcount: A:0.31, C:0.13, G:0.34, T:0.22
Consensus pattern (96 bp):
CTTAAAGGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAAGAGTGCCACGGAGTTGTGGGCTT
TGAAAAGAAAAAGATGCCACGGAGTTGTGGG
Found at i:61712 original size:62 final size:63
Alignment explanation
Indices: 61583--61868 Score: 321
Period size: 62 Copynumber: 4.5 Consensus size: 63
61573 GCTTAGAAGG
* * * *
61583 AAAAAGAATGCCACGGAG-TGTGCGCTTAG-AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGA-TGCCACGGAGTTGTGGGCTTT
*
61645 AAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGATGCCACGGAGTTGTGGGCTTT
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGATGCCACGGAGTTGTGGGCTTT
* * * *
61708 -AAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCATGGAGTTGTGGGCTTT
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGATGCCACGGAGTTGTGGGCTTT
* *
61770 GAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAGGAAAAAG-TGCCACGGAGTTGTGGGC
1 ---AA-AAAGA-GTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGATGCCACGGAGTTGTGGGC
61833 TTT
61 TTT
* * * * *
61836 GAAGAAAAAATGCCACTGAGTCGTGGACTTTGA
1 -AA-AAAGAGTGCCACGGAGTTGTGGGCTTTGA
61869 GACAAAATGC
Statistics
Matches: 197, Mismatches: 18, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
62 76 0.39
63 48 0.24
64 18 0.09
66 21 0.11
67 13 0.07
68 21 0.11
ACGTcount: A:0.31, C:0.13, G:0.34, T:0.22
Consensus pattern (63 bp):
AAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGATGCCACGGAGTTGTGGGCTTT
Found at i:61912 original size:159 final size:158
Alignment explanation
Indices: 61525--61930 Score: 402
Period size: 159 Copynumber: 2.6 Consensus size: 158
61515 TAAAGATGAA
** * ** * * *
61525 AAAAGTGCCACGGAGTTTTGGGC-TTAAAAGGGTGCCACAGAGTTGTGGGC-TTAGAAGGAAAAA
1 AAAA-TGCCACGGAGTCGTGGACTTTAAAAGAATGCCACAGAGTCGTGGACTTTA-AAAG-AAAA
* * * * * *
61588 GAATGCCACGGAG-TGTGCGCTTAG-AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG
63 GGATGCCATGGAGTTGTGGGCTTTGAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAA
61651 AGTGCCACGGAGTTGTGGGCTTTGAAAAGAAG
128 AGTGCCACGGAGTTGTGGGCTTTG-AAAGAAG
* * * * * *
61683 AAGATGCCACGGAGTTGTGGGCTTTAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGAAG
1 AAAATGCCACGGAGTCGTGGACTTTAAAAGAATGCCACAGAGTCGTGGACTTT-AAAAGAA-AAG
61748 G-TGCCATGGAGTTGTGGGCTTTGAAAAGAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAGGAA
64 GATGCCATGGAGTTGTGGGCTTTGAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AA--AA
61811 AAAGTGCCACGGAGTTGTGGGCTTTG-AAGAA-
126 AAAGTGCCACGGAGTTGTGGGCTTTGAAAGAAG
* *
61842 AAAATGCCACTGAGTCGTGGACTTTGAGACAA-AATGCCACTGAGTCGTGGACTTT-AAAGAAAA
1 AAAATGCCACGGAGTCGTGGACTTT-A-A-AAGAATGCCACAGAGTCGTGGACTTTAAAAGAAAA
* *
61905 GGATGCCACT-GAGTCGTGGACTTTGA
63 GGATGCCA-TGGAGTTGTGGGCTTTGA
61931 GTAGAGATTG
Statistics
Matches: 214, Mismatches: 20, Indels: 27
0.82 0.08 0.10
Matches are distributed among these distances:
157 17 0.08
158 44 0.21
159 85 0.40
160 19 0.09
161 20 0.09
162 29 0.14
ACGTcount: A:0.31, C:0.14, G:0.33, T:0.22
Consensus pattern (158 bp):
AAAATGCCACGGAGTCGTGGACTTTAAAAGAATGCCACAGAGTCGTGGACTTTAAAAGAAAAGGA
TGCCATGGAGTTGTGGGCTTTGAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAAAGT
GCCACGGAGTTGTGGGCTTTGAAAGAAG
Found at i:61919 original size:62 final size:61
Alignment explanation
Indices: 61810--61990 Score: 220
Period size: 62 Copynumber: 2.9 Consensus size: 61
61800 CTTTAAAGGA
* * * *
61810 AAAAGTGCCACGGAGTTGTGGGCTTTGAAGAAAAAATGCCACTGAGTCGTGGACTTTGAG-AC
1 AAAA-TGCCACTGAGTCGTGGACTTT-AAGAAAAGATGCCACTGAGTCGTGGACTTTGAGTAC
*
61872 AAAATGCCACTGAGTCGTGGACTTTAAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAGTAG
1 AAAATGCCACTGAGTCGTGGACTTT-AAGAAAA-GATGCCACTGAGTCGTGGACTTTGAGTAC
* * * * *
61935 AGATTGCCACTGAGTCGTGGACTTTGAGAAGAGATTGCCACTGATTCGTGGACTTT
1 AAAATGCCACTGAGTCGTGGACTTTAAGAAAAGA-TGCCACTGAGTCGTGGACTTT
61991 AAAAAGGTAT
Statistics
Matches: 105, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
61 27 0.26
62 54 0.51
63 24 0.23
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (61 bp):
AAAATGCCACTGAGTCGTGGACTTTAAGAAAAGATGCCACTGAGTCGTGGACTTTGAGTAC
Found at i:61929 original size:93 final size:94
Alignment explanation
Indices: 61783--61993 Score: 259
Period size: 93 Copynumber: 2.3 Consensus size: 94
61773 AAGAAAAAGG
* * * * *
61783 TGCCACGGAGTTGTGGGCTTTAAAGGAAAAAGTGCCACGGAGTTGTGGGCTTTGAAG-AAAAAAT
1 TGCCACTGAGTCGTGGACTTTAAAGGAAAAAGTGCCACGGAGTCGTGGACTTTG-AGTAAAAAAT
61847 GCCACTGAGTCGTGGACTTTGAGACA-A-AA
65 GCCACTGAGTCGTGGACTTTGAGA-AGAGAA
* * * * *
61876 TGCCACTGAGTCGTGGACTTTAAA-GAAAAGGATGCCACTGAGTCGTGGACTTTGAGTAGAGATT
1 TGCCACTGAGTCGTGGACTTTAAAGGAAAAAG-TGCCACGGAGTCGTGGACTTTGAGTAAAAAAT
*
61940 GCCACTGAGTCGTGGACTTTGAGAAGAGAT
65 GCCACTGAGTCGTGGACTTTGAGAAGAGAA
*
61970 TGCCACTGATTCGTGGACTTTAAA
1 TGCCACTGAGTCGTGGACTTTAAA
61994 AAGGTATTTG
Statistics
Matches: 102, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
92 9 0.09
93 69 0.68
94 24 0.24
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.25
Consensus pattern (94 bp):
TGCCACTGAGTCGTGGACTTTAAAGGAAAAAGTGCCACGGAGTCGTGGACTTTGAGTAAAAAATG
CCACTGAGTCGTGGACTTTGAGAAGAGAA
Found at i:61946 original size:31 final size:31
Alignment explanation
Indices: 61815--61990 Score: 198
Period size: 31 Copynumber: 5.7 Consensus size: 31
61805 AAGGAAAAAG
* * * * *
61815 TGCCACGGAGTTGTGGGCTTTGAAGAA-AAAA
1 TGCCACTGAGTCGTGGACTTTG-AGAAGAGAT
*
61846 TGCCACTGAGTCGTGGACTTTGAGACA-A-AA
1 TGCCACTGAGTCGTGGACTTTGAGA-AGAGAT
* *
61876 TGCCACTGAGTCGTGGACTTTAAAGAAAAGGA-
1 TGCCACTGAGTCGTGGACTTT-GAGAAGA-GAT
*
61908 TGCCACTGAGTCGTGGACTTTGAGTAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
61939 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
*
61970 TGCCACTGATTCGTGGACTTT
1 TGCCACTGAGTCGTGGACTTT
61991 AAAAAGGTAT
Statistics
Matches: 130, Mismatches: 9, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
30 29 0.22
31 79 0.61
32 21 0.16
33 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
Found at i:62118 original size:8 final size:8
Alignment explanation
Indices: 62095--62132 Score: 58
Period size: 8 Copynumber: 4.6 Consensus size: 8
62085 GATGCAAATA
62095 ATGATGTT
1 ATGATGTT
62103 ATTGATGTT
1 A-TGATGTT
62112 ATGATGTT
1 ATGATGTT
*
62120 ATGATGTC
1 ATGATGTT
62128 ATGAT
1 ATGAT
62133 TACAGCACAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
8 20 0.71
9 8 0.29
ACGTcount: A:0.26, C:0.03, G:0.24, T:0.47
Consensus pattern (8 bp):
ATGATGTT
Found at i:63204 original size:16 final size:15
Alignment explanation
Indices: 63185--63219 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
63175 TGATTTTGCC
63185 TTTGCACCCTTTTTTT
1 TTTG-ACCCTTTTTTT
*
63201 TTTGACTCTTTTTTT
1 TTTGACCCTTTTTTT
63216 TTTG
1 TTTG
63220 TTTTTGACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.06, C:0.17, G:0.09, T:0.69
Consensus pattern (15 bp):
TTTGACCCTTTTTTT
Found at i:63230 original size:19 final size:19
Alignment explanation
Indices: 63194--63250 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 19
63184 CTTTGCACCC
*
63194 TTTTT-TTTTTGACTCTTTTT
1 TTTTTGTTTTTGA--CTTTTG
63214 TTTTTGTTTTTGACTTTTG
1 TTTTTGTTTTTGACTTTTG
* *
63233 TTTGTGTGTTT-ACTTTTG
1 TTTTTGTTTTTGACTTTTG
63251 ACTGTTCCGG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 7 0.21
19 14 0.42
20 5 0.15
21 7 0.21
ACGTcount: A:0.05, C:0.07, G:0.14, T:0.74
Consensus pattern (19 bp):
TTTTTGTTTTTGACTTTTG
Found at i:63242 original size:21 final size:21
Alignment explanation
Indices: 63199--63243 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
63189 CACCCTTTTT
* *
63199 TTTTTGACTCTTTTTTTTTTG
1 TTTTTGACTCTTTTTTGTGTG
63220 TTTTTGACT-TTTGTTTGTGTG
1 TTTTTGACTCTTT-TTTGTGTG
63241 TTT
1 TTT
63244 ACTTTTGACT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.04, C:0.07, G:0.16, T:0.73
Consensus pattern (21 bp):
TTTTTGACTCTTTTTTGTGTG
Found at i:70175 original size:52 final size:52
Alignment explanation
Indices: 70090--70214 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
70080 ATATGAAAAG
* *
70090 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
70142 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
70194 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
70215 AAGATCAGTG
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:70227 original size:52 final size:51
Alignment explanation
Indices: 70090--70234 Score: 211
Period size: 52 Copynumber: 2.8 Consensus size: 51
70080 ATATGAAAAG
*
70090 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
* *
70142 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
*
70194 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
70235 ATGTATTGAT
Statistics
Matches: 85, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 83 0.98
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAT
Found at i:70329 original size:13 final size:13
Alignment explanation
Indices: 70311--70335 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
70301 CAAAAAAATA
70311 TGTATCGATACAT
1 TGTATCGATACAT
70324 TGTATCGATACA
1 TGTATCGATACA
70336 ATATTTTATG
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:72240 original size:20 final size:20
Alignment explanation
Indices: 72215--72309 Score: 131
Period size: 20 Copynumber: 4.8 Consensus size: 20
72205 TTTTCACAAT
72215 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
*
72235 TTGTATCAATACATTGTTCA
1 TTGTATCGATACATTGTTCA
*
72255 TTGTATCAATACATTGCTT-A
1 TTGTATCGATACATTG-TTCA
72275 TTGTATCGATACATT-TTACA
1 TTGTATCGATACATTGTT-CA
*
72295 ATGTATCGATACATT
1 TTGTATCGATACATT
72310 CAGGCATTTT
Statistics
Matches: 69, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
18 2 0.03
20 65 0.94
21 2 0.03
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (20 bp):
TTGTATCGATACATTGTTCA
Found at i:74734 original size:51 final size:51
Alignment explanation
Indices: 74576--74742 Score: 167
Period size: 51 Copynumber: 3.3 Consensus size: 51
74566 GATTTTTATC
* * ** * *
74576 TCGGGGATACTTCAACCCCG-TTCCATTTCCAAAACATCAATTTTTCTTAA
1 TCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTTCATAA
* * * ** **
74626 TCGGGGATACCCCAACTCCGATTTTATTT-CAAAAGCAGCGATTTACCGCAA
1 TCGGGGATACTCCAACTCCGATTTTATTTCCAAAA-CACCAATTTTTCATAA
**
74677 TCGGGGATACTCCAACTTTGATTTTATTTCCAAAACACCAATTTTTCATAA
1 TCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTTCATAA
*
74728 TTGGGGATACTCCAA
1 TCGGGGATACTCCAA
74743 TCCCGTTATT
Statistics
Matches: 93, Mismatches: 21, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
50 22 0.24
51 66 0.71
52 5 0.05
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (51 bp):
TCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTTCATAA
Found at i:74939 original size:51 final size:50
Alignment explanation
Indices: 74868--75038 Score: 175
Period size: 51 Copynumber: 3.3 Consensus size: 50
74858 TATTTTCGAA
74868 GGGATACTCCAACCCCGATTTTATTTCTAAAATACCAAATTTTCACAATCG
1 GGGATACTCCAACCCCGATTTTATTTCTAAAATA-CAAATTTTCACAATCG
* * * *** *
74919 GGGATACTCCAACTCTGATTTTATTTCCAAAATATTGATTTCTCATAATCGG
1 GGGATACTCCAACCCCGATTTTATTTCTAAAATACAAATTT-TCACAATC-G
* ** *
74971 GGGATACTTCAACCCCGACCTTATTCCT-AAAT-CATAGATTTTTCACAATCG
1 GGGATACTCCAACCCCGATTTTATTTCTAAAATACA-A-A-TTTTCACAATCG
75022 GGGATACTCCAACCCCG
1 GGGATACTCCAACCCCG
75039 TTATTTTCGA
Statistics
Matches: 96, Mismatches: 19, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
50 4 0.04
51 59 0.61
52 30 0.31
53 3 0.03
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.32
Consensus pattern (50 bp):
GGGATACTCCAACCCCGATTTTATTTCTAAAATACAAATTTTCACAATCG
Found at i:75170 original size:80 final size:79
Alignment explanation
Indices: 75017--75199 Score: 233
Period size: 80 Copynumber: 2.3 Consensus size: 79
75007 GATTTTTCAC
* *
75017 AATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTTCAAAA
1 AATCGGGGATACTCCAACCCTGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTTTCAAAA
* ** *
75082 TATTGATTTTTTTAT
66 CACCGA-TTTTCTAT
* * **
75097 AATCAGGGATACTCCAACCCTGTTATTTCCGAGGGGATACTCCAATCCCGATTTTA-TTTCTGGA
1 AATCGGGGATACTCCAACCCTGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTTTC-AAA
75161 ACACCGATTTTCTAT
65 ACACCGATTTTCTAT
**
75176 AATCGGGGATACTCCGGCCCTGTT
1 AATCGGGGATACTCCAACCCTGTT
75200 GTTATCTCAA
Statistics
Matches: 89, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
79 32 0.36
80 57 0.64
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (79 bp):
AATCGGGGATACTCCAACCCTGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTTTCAAAA
CACCGATTTTCTAT
Found at i:81000 original size:16 final size:16
Alignment explanation
Indices: 80975--81012 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
80965 TTTCTTTTTT
80975 AAAA-AAAAAACAAAA
1 AAAAGAAAAAACAAAA
* *
80990 CAAAGAAAAAAGAAAA
1 AAAAGAAAAAACAAAA
81006 AAAAGAA
1 AAAAGAA
81013 TCTGCTTAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 3 0.16
16 16 0.84
ACGTcount: A:0.87, C:0.05, G:0.08, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAAACAAAA
Found at i:82096 original size:100 final size:94
Alignment explanation
Indices: 81963--82152 Score: 247
Period size: 100 Copynumber: 2.0 Consensus size: 94
81953 TATCTAAACC
* *
81963 TTCTCCTTCCACTTTTCAATCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTT
1 TTCTCCTTCCACCTTTCAATCCTCAAAGAGCAGGACGCC---T--TTTTAAAGCCCACACAAGTT
*
82028 GGTGGCA-TTTCCTAGTCCTCAAAGAGCAGGATGCT
61 GGTGGCACCTT-C-AGTCCTCAAAGAGCAGGATGCT
* * *
82063 TTCTCCTTTCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTTAAAGCCCACACGAGTTGGTGG
1 TTCTCCTTCCACCTTTCAATCCTCAAAGAGCAGGACGCCTTTTTAAAGCCCACACAAGTTGGTGG
*
82128 CACCTTCAGTCCTCAAAGAGTAGGA
66 CACCTTCAGTCCTCAAAGAGCAGGA
82153 CGCCTCTTAA
Statistics
Matches: 82, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
94 17 0.21
95 27 0.33
96 2 0.02
97 1 0.01
100 35 0.43
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.29
Consensus pattern (94 bp):
TTCTCCTTCCACCTTTCAATCCTCAAAGAGCAGGACGCCTTTTTAAAGCCCACACAAGTTGGTGG
CACCTTCAGTCCTCAAAGAGCAGGATGCT
Found at i:82157 original size:55 final size:55
Alignment explanation
Indices: 82075--82899 Score: 813
Period size: 55 Copynumber: 14.4 Consensus size: 55
82065 CTCCTTTCAC
*
82075 CTTTCAGTCCTCAAAGAGCAGGACGCCTTTTTAAAGCCCACACGAGTTGGTGGCA
1 CTTTCAGTCCTCAAAGAGCAGGACGCCTTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
82130 CCTTCAGTCCTCAAAGAGTAGGACGCC-TCTTAAAGCCCACACAAGTTGGTGGCA
1 CTTTCAGTCCTCAAAGAGCAGGACGCCTTTTTAAAGCCCACACAAGTTGGTGGCA
* *
82184 TTTTCTAGTCCTCAAAGAGCAGGACGACTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CTTTC-AGTCCTCAAAGAGCAGGACG-C-CTT--TTT-AAAGCCCACACAAGTTGGTGGCA
* *
82245 CTTTTTTAGTCCTCAAATAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 C--TTTCAGTCCTCAAAGAGCAGGACGCC--TT--TTT-AAAGCCCACACAAGTTGGTGGCA
*
82307 TTTTCTAGTCCTCAAAGAGCAGGACGCC-TTTTAAAGCCCACACAAGTTGGTGGCA
1 CTTTC-AGTCCTCAAAGAGCAGGACGCCTTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
82362 CTTTTGTAGTCCTCAAAGAGCGGGATGCCTTTTCCTTTCAGAGCCCACACAAGTTGGTGGAA
1 C-TTT-CAGTCCTCAAAGAGCAGGACGCC--TT--TTT-AAAGCCCACACAAGTTGGTGGCA
* * * *
82424 TTTTCCAGTCCTCAAAGAGTAGGACG-CTTTTCAAAGCCCACACAAGTTGGGGGCA
1 CTTT-CAGTCCTCAAAGAGCAGGACGCCTTTTTAAAGCCCACACAAGTTGGTGGCA
*
82479 CTTTTCAGTCCTCAAAGAGCAGGACGCC-TTTTAAAGCCCACACATGTTGGTGGCA
1 C-TTTCAGTCCTCAAAGAGCAGGACGCCTTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
82534 CTTCCCAGCCCTCAAAGAGCAGGACG--TTTTTCAAAGCCCGCACAAGTTGGTGGCA
1 CTT-TCAGTCCTCAAAGAGCAGGACGCCTTTTT-AAAGCCCACACAAGTTGGTGGCA
* *
82589 CCTTCCATTCCTCAAAGAGCAGGACGCCTTTCCTTTTTAAAGCCCACACAAGTTGGTGGCA
1 -CTTTCAGTCCTCAAAGAGCAGGACG-----CCTTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
82650 CTTCCCAGTCCTCATAGAGCAGGATGCC-TTTCAAAGCCCACACGAGTTGGTGGCA
1 CTT-TCAGTCCTCAAAGAGCAGGACGCCTTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * *
82705 TTTTCTAGTCCTCAAAAAGTAGGACGCC-TCTTAAAGCCCACGCAATTTGGTGGCA
1 CTTTC-AGTCCTCAAAGAGCAGGACGCCTTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
82760 TTTTCCAGTCCTCAAAGAGCAGGACG-CTTTTCAAAGCCCGCACAAGTTGGTAGCA
1 CTTT-CAGTCCTCAAAGAGCAGGACGCCTTTTTAAAGCCCACACAAGTTGGTGGCA
* * ** *
82815 CCTTCTAGTCCTTAAAGAGCAGGACGCCTTTCCTTTTCAAAGCCCACATGAGTTGGTAGCA
1 CTTTC-AGTCCTCAAAGAGCAGGACGCC--T--TTTT-AAAGCCCACACAAGTTGGTGGCA
*
82876 CTTTTTAGTCCTCAAAGAGCAGGA
1 C-TTTCAGTCCTCAAAGAGCAGGA
82900 TGCAGTTTAT
Statistics
Matches: 647, Mismatches: 78, Indels: 84
0.80 0.10 0.10
Matches are distributed among these distances:
54 37 0.06
55 324 0.50
56 40 0.06
58 5 0.01
59 1 0.00
60 12 0.02
61 147 0.23
62 78 0.12
63 3 0.00
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (55 bp):
CTTTCAGTCCTCAAAGAGCAGGACGCCTTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:82717 original size:226 final size:226
Alignment explanation
Indices: 82079--82902 Score: 995
Period size: 226 Copynumber: 3.6 Consensus size: 226
82069 TTTCACCTTT
*
82079 CAGTCCTCAAAGAGCAGGACGCCTTTTTAAAGCCCACACGAGTTGGTGGCACCTT-CAGTCCTCA
1 CAGTCCTCAAAGAGCAGGACGCC-TTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCA
* * *
82143 AAGAGTAGGACGCC--T-C-TT-AAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAG
65 AAGAGCAGGACGCCTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAG
* * *
82203 CAGGACGACTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTTTAGTCCTCAAATAGCAG
130 CA-G--GA---TGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAAAGCAG
*
82268 GACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTC
189 GACGCC---T--TTT-AAAGCCCACACATGTTGGTGGCATTTTC
* * **
82312 TAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTGTAGTCCTCA
1 CAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTCCAGTCCTCA
* * * * *
82377 AAGAGCGGGATGCCTTTTCCTTTCAGAGCCCACACAAGTTGGTGGAATTTTCCAGTCCTCAAAGA
65 AAGAGCAGGACGCC-TTTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGA
* * * * *
82442 GTAGGACGCTTTTCAAAGCCCACACAAGTTGGGGGCACTTTTC-AGTCCTCAAAGAGCAGGACGC
129 GCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAAAGCAGGACGC
* *
82506 CTTTTAAAGCCCACACATGTTGGTGGCACTTCC
194 CTTTTAAAGCCCACACATGTTGGTGGCATTTTC
* * * *
82539 CAGCCCTCAAAGAGCAGGACG-TTTTTCAAAGCCCGCACAAGTTGGTGGCACCTTCCATTCCTCA
1 CAGTCCTCAAAGAGCAGGACGCCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCA
* * *
82603 AAGAGCAGGACGCCTTTCCTTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCATAGA
65 AAGAGCAGGACGCCTTTCC-TTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGA
* *
82668 GCAGGATGCCTTTCAAAGCCCACACGAGTTGGTGGCA-TTTTCTAGTCCTCAAAAAGTAGGACGC
129 GCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAAAGCAGGACGC
* *
82732 CTCTTAAAGCCCACGCAAT-TTGGTGGCATTTTC
194 CTTTTAAAGCCCACAC-ATGTTGGTGGCATTTTC
* * * *
82765 CAGTCCTCAAAGAGCAGGACG-CTTTTCAAAGCCCGCACAAGTTGGTAGCACCTTCTAGTCCTTA
1 CAGTCCTCAAAGAGCAGGACGCCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCA
** * **
82829 AAGAGCAGGACGCCTTTCCTTTTCAAAGCCCACATGAGTTGGTAGCACTTTTTAGTCCTCAAAGA
65 AAGAGCAGGACGCCTTTCC-TTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGA
82894 GCAGGATGC
129 GCAGGATGC
82903 AGTTTATTTT
Statistics
Matches: 518, Mismatches: 61, Indels: 31
0.85 0.10 0.05
Matches are distributed among these distances:
225 10 0.02
226 265 0.51
227 69 0.13
228 3 0.01
230 1 0.00
232 27 0.05
233 45 0.09
234 51 0.10
237 3 0.01
238 1 0.00
239 3 0.01
240 40 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (226 bp):
CAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAA
AGAGCAGGACGCCTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGC
AGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAAAGCAGGACGCCT
TTTAAAGCCCACACATGTTGGTGGCATTTTC
Found at i:82971 original size:42 final size:42
Alignment explanation
Indices: 82883--82972 Score: 101
Period size: 42 Copynumber: 2.1 Consensus size: 42
82873 GCACTTTTTA
* * *
82883 GTCCTCAAAGAGCAGGATGCAGTTTATTTTCCTCTTTCTTTC
1 GTCCTCAAAGAGCAGGACGCAGTTTATTTCCCTCTTTCCTTC
* * * *
82925 GTCCTCAAAGAGCAGGACGTATTTTGTTTCCCTTTTTTCCTT-
1 GTCCTCAAAGAGCAGGACGCAGTTTATTTCCC-TCTTTCCTTC
82967 GTCCTC
1 GTCCTC
82973 GAAAAACGGG
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
42 33 0.82
43 7 0.17
ACGTcount: A:0.17, C:0.26, G:0.17, T:0.41
Consensus pattern (42 bp):
GTCCTCAAAGAGCAGGACGCAGTTTATTTCCCTCTTTCCTTC
Found at i:83853 original size:21 final size:21
Alignment explanation
Indices: 83827--83868 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
83817 AGCTACTGCC
83827 AAGGAAATGTATCAATACATT
1 AAGGAAATGTATCAATACATT
* *
83848 AAGGAAGTGTATCGATACATT
1 AAGGAAATGTATCAATACATT
83869 GTATCGATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.29
Consensus pattern (21 bp):
AAGGAAATGTATCAATACATT
Found at i:83873 original size:13 final size:13
Alignment explanation
Indices: 83855--83880 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
83845 ATTAAGGAAG
83855 TGTATCGATACAT
1 TGTATCGATACAT
83868 TGTATCGATACAT
1 TGTATCGATACAT
83881 CGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:86303 original size:52 final size:52
Alignment explanation
Indices: 86245--86372 Score: 168
Period size: 52 Copynumber: 2.5 Consensus size: 52
86235 TCAATTGTTT
* *
86245 ATAATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTTCC
1 ATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTCC
* * *
86296 TTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTC
1 -ATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTCC
* * *
86349 ACAAGCGAGGATACTCCAACCCCG
1 ATAATCGGGGATACTCCAACCCCG
86373 TTACCTCCAA
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
52 50 0.77
53 15 0.23
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.29
Consensus pattern (52 bp):
ATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTCC
Found at i:86443 original size:51 final size:51
Alignment explanation
Indices: 86383--86606 Score: 249
Period size: 51 Copynumber: 4.4 Consensus size: 51
86373 TTACCTCCAA
* * ***
86383 GGGGATACTCCAACCCC-AGCTTTATTTCCAAAATATTGA-TTTCTCATAATC
1 GGGGATACTCCAACCCCGA-TTTTATTTCCAAAACACCAATTTTCT-ATAATC
* * *
86434 GGGGATACTCCAACCCCGATTTTATTTCTAAAACACTAATTTTCTACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCTATAATC
* *
86485 GGGGATACTCCAACCCC-AGTTTTATTTTCAAAACACCAATTTTCCTTTAATC
1 GGGGATACTCCAACCCCGA-TTTTATTTCCAAAACACCAATTTT-CTATAATC
* * *
86537 AGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTT-TCAAAATC
1 GGGGATACTCCAACCCCGATTTTATTTCC-AAAACACCAATTTTCT-ATAATC
86589 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
86607 TTATTTCTAA
Statistics
Matches: 148, Mismatches: 18, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
50 1 0.01
51 76 0.51
52 56 0.38
53 15 0.10
ACGTcount: A:0.31, C:0.27, G:0.11, T:0.31
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCTATAATC
Found at i:86562 original size:52 final size:51
Alignment explanation
Indices: 86422--86604 Score: 219
Period size: 52 Copynumber: 3.5 Consensus size: 51
86412 AAAATATTGA
* *
86422 TTTCTCATAATCGGGGATACTCCAACCCCGATTTTA-TTTCTAAAACACTAAT
1 TTTCT-ATAATCGGGGATACTCCAA-CCCGATTTTATTTTCAAAAACACCAAT
* *
86474 TTTCTACAATCGGGGATACTCCAACCCCAGTTTTATTTTC-AAAACACCAAT
1 TTTCTATAATCGGGGATACTCCAACCCGA-TTTTATTTTCAAAAACACCAAT
* * *
86525 TTTCCTTTAATCAGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
1 TTT-CTATAATCGGGGATACTCCAAC-CCGATTTTATTTTCAAAAACACCAAT
*
86578 TTT-TCAAAATCGGGGATACTCCAACCC
1 TTTCT-ATAATCGGGGATACTCCAACCC
86605 CGTTATTTCT
Statistics
Matches: 114, Mismatches: 11, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
50 4 0.04
51 39 0.34
52 54 0.47
53 17 0.15
ACGTcount: A:0.31, C:0.27, G:0.10, T:0.32
Consensus pattern (51 bp):
TTTCTATAATCGGGGATACTCCAACCCGATTTTATTTTCAAAAACACCAAT
Found at i:86564 original size:103 final size:103
Alignment explanation
Indices: 86383--86605 Score: 290
Period size: 102 Copynumber: 2.2 Consensus size: 103
86373 TTACCTCCAA
* *** *
86383 GGGGATACTCCAACCCCAGCTTTATTTCCAAAATATTGATTTCTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCAGCTTTATTTCCAAAACACCAATTTCTCATAATCAGGGATACTCCAAC
* * *
86448 CCCGATTTTATTT-CTAAAACACTAA-TTTTCTACAATC
66 CCCGATTTTATTTCCAAAAACACCAATTTTTC-AAAATC
* * *
86485 GGGGATACTCCAACCCCAGTTTTATTTTCAAAACACCAATTT-TCCTTTAATCAGGGATACTCCA
1 GGGGATACTCCAACCCCAGCTTTATTTCCAAAACACCAATTTCT-C-ATAATCAGGGATACTCCA
*
86549 ACTCCGATTTTATTTCCAAAAACACCAATTTTTCAAAATC
64 ACCCCGATTTTATTTCCAAAAACACCAATTTTTCAAAATC
86589 GGGGATACTCCAACCCC
1 GGGGATACTCCAACCCC
86606 GTTATTTCTA
Statistics
Matches: 105, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
101 1 0.01
102 37 0.35
103 30 0.29
104 32 0.30
105 5 0.05
ACGTcount: A:0.31, C:0.27, G:0.11, T:0.31
Consensus pattern (103 bp):
GGGGATACTCCAACCCCAGCTTTATTTCCAAAACACCAATTTCTCATAATCAGGGATACTCCAAC
CCCGATTTTATTTCCAAAAACACCAATTTTTCAAAATC
Found at i:86673 original size:234 final size:234
Alignment explanation
Indices: 86247--86685 Score: 702
Period size: 234 Copynumber: 1.9 Consensus size: 234
86237 AATTGTTTAT
* *
86247 AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
1 AATCGGGGATACTCCAACCCCAGTTTTATTTTCAAAACACCAATTTTCCTTTAATCAGGGATACT
*
86312 CCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAAGCGAGGATACTCCAACCCCGTTAC
66 CCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCAAAAGCGAGGATACTCCAACCCCGTTAC
* * * *
86377 CTCCAAGGGGATACTCCAACCCCAGCTTTATTTCCAAAATATTGATTTCTCATAATCGGGGATAC
131 CTCCAAGGGGATACTCCAACCCCAGATTTATTTCCAAAATATCGATTTCTCACAACCGGGGATAC
86442 TCCAACCCCGATTTTATTTCTAAAACACTAATTTTCTAC
196 TCCAACCCCGATTTTATTTCTAAAACACTAATTTTCTAC
86481 AATCGGGGATACTCCAACCCCAGTTTTATTTTCAAAACACCAATTTTCCTTTAATCAGGGATACT
1 AATCGGGGATACTCCAACCCCAGTTTTATTTTCAAAACACCAATTTTCCTTTAATCAGGGATACT
* * *
86546 CCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCAAAATCGGGGATACTCCAACCCCGTTAT
66 CCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCAAAAGCGAGGATACTCCAACCCCGTTAC
* * * * * *
86611 TTCTAAGGGGATATTCCAATCCC-GATTTCATTTCC-TAATCATCGATTTTTCACAACCGGGGAT
131 CTCCAAGGGGATACTCCAACCCCAGATTT-ATTTCCAAAAT-ATCGATTTCTCACAACCGGGGAT
86674 ACTCCAACCCCG
194 ACTCCAACCCCG
86686 TTATTTTCAA
Statistics
Matches: 187, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
233 7 0.04
234 180 0.96
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.31
Consensus pattern (234 bp):
AATCGGGGATACTCCAACCCCAGTTTTATTTTCAAAACACCAATTTTCCTTTAATCAGGGATACT
CCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCAAAAGCGAGGATACTCCAACCCCGTTAC
CTCCAAGGGGATACTCCAACCCCAGATTTATTTCCAAAATATCGATTTCTCACAACCGGGGATAC
TCCAACCCCGATTTTATTTCTAAAACACTAATTTTCTAC
Found at i:93808 original size:13 final size:13
Alignment explanation
Indices: 93787--93819 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
93777 GAGAAAATGT
93787 AAAAAAACAAA-A
1 AAAAAAACAAAGA
93799 AAATAAAACAAAGA
1 AAA-AAAACAAAGA
93813 AAAAAAA
1 AAAAAAA
93820 AGGAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 3 0.16
13 12 0.63
14 4 0.21
ACGTcount: A:0.88, C:0.06, G:0.03, T:0.03
Consensus pattern (13 bp):
AAAAAAACAAAGA
Found at i:95034 original size:57 final size:55
Alignment explanation
Indices: 94892--95195 Score: 428
Period size: 55 Copynumber: 5.5 Consensus size: 55
94882 CCTTTCACCC
* *
94892 TTTAGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTT
* *
94947 TTTAGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA--CTT
* *
95004 TTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACATAAGTTGGTGGCACCT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTT
* * * *
95059 TTCAATCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA--CTT
* * *
95116 TTTAGTCCTCAAAGAGCAGAATGCCTTTTAAAGCCCACACAAGTTGGTGGCACTT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTT
***
95171 ACCAGTCCTCAAAGAGCAGGACGCC
1 TTTAGTCCTCAAAGAGCAGGACGCC
95196 CTCTCCTTTC
Statistics
Matches: 221, Mismatches: 24, Indels: 8
0.87 0.09 0.03
Matches are distributed among these distances:
55 121 0.55
57 100 0.45
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (55 bp):
TTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTT
Found at i:95089 original size:112 final size:112
Alignment explanation
Indices: 94892--95195 Score: 502
Period size: 112 Copynumber: 2.7 Consensus size: 112
94882 CCTTTCACCC
* *
94892 TTTAGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTC
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTC
*
94957 AAAGAGTAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTT
66 AAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTT
* *
95004 TTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACATAAGTTGGTGGCACCTTTCAATCCTC
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTC
*
95069 AAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTT
66 AAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTT
* * * *
95116 TTTAGTCCTCAAAGAGCAGAATGCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTACCAGTCCT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-TCAGTCCT
95180 CAAAGAGCAGGACGCC
65 CAAAGAGCAGGACGCC
95196 CTCTCCTTTC
Statistics
Matches: 178, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
111 3 0.02
112 175 0.98
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (112 bp):
TTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTC
AAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTT
Found at i:95365 original size:61 final size:61
Alignment explanation
Indices: 95212--95469 Score: 327
Period size: 61 Copynumber: 4.3 Consensus size: 61
95202 TTTCGCCCTT
*
95212 TAGTCCTCAAAGAGCAGGATG-C---CT-TTT-AAAGCCCACACAAATTGGTGGCACTTTTC
1 TAGTCCTCAAAGAGCAGGATGCCTTTCTCTTTCAAAGCCCACACAAGTTGGTGGCAC-TTTC
* *
95268 TAGTCCTCAAAGAGTAGGATGCCTTT-TCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTC
1 TAGTCCTCAAAGAGCAGGATGCCTTTCT-CTTTCAAAGCCCACACAAGTTGGTGGCACTTTC
* * * *
95329 CAATCCTCAAAGAGCAGGATG-CTTTCTCTTTGCAAAGCCCACACAAGTTGGTGACACCTTC
1 TAGTCCTCAAAGAGCAGGATGCCTTTCTCTTT-CAAAGCCCACACAAGTTGGTGGCACTTTC
* * *
95390 TAGTCCTCAAAGAGCAGGACGCCTTTC-CTTTTCAAAGCCCACACGAGTTGGTAGCACTTTC
1 TAGTCCTCAAAGAGCAGGATGCCTTTCTC-TTTCAAAGCCCACACAAGTTGGTGGCACTTTC
95451 TAGTCCTCAAAGAGCAGGA
1 TAGTCCTCAAAGAGCAGGA
95470 CGCATTTTAT
Statistics
Matches: 175, Mismatches: 16, Indels: 17
0.84 0.08 0.08
Matches are distributed among these distances:
56 20 0.11
57 1 0.01
59 1 0.01
60 8 0.05
61 115 0.66
62 30 0.17
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (61 bp):
TAGTCCTCAAAGAGCAGGATGCCTTTCTCTTTCAAAGCCCACACAAGTTGGTGGCACTTTC
Found at i:95503 original size:42 final size:42
Alignment explanation
Indices: 95453--95643 Score: 195
Period size: 42 Copynumber: 4.5 Consensus size: 42
95443 GCACTTTCTA
*
95453 GTCCTCAAAGAGCAGGACGCATTTTATTTTCCTCTTTCTTTT
1 GTCCTCAAAGAGCAGGACGCACTTTATTTTCCTCTTTCTTTT
* * * * * *
95495 GTCCTCAAAGAACAGAACACACTTCATTCCTTTCTTTTCTCTTTT
1 GTCCTCAAAGAGCAGGACGCACTTTATT--TTCCTCTT-TCTTTT
*
95540 GTCCTCAAAAAGCAGGACGCACTTTATTTTTCCTCTTTCTTTT
1 GTCCTCAAAGAGCAGGACGCACTTTA-TTTTCCTCTTTCTTTT
* * * * *
95583 GTCTTCAAAGAGCAGGACGCATTTTGTTTTCCTTTTTCCTTT
1 GTCCTCAAAGAGCAGGACGCACTTTATTTTCCTCTTTCTTTT
* *
95625 ATCCTCGAAA-AGTAGGACG
1 GTCCTC-AAAGAGCAGGACG
95644 TACTCTTTTT
Statistics
Matches: 121, Mismatches: 23, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
42 49 0.40
43 31 0.26
44 12 0.10
45 27 0.22
46 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.14, T:0.40
Consensus pattern (42 bp):
GTCCTCAAAGAGCAGGACGCACTTTATTTTCCTCTTTCTTTT
Found at i:96418 original size:20 final size:20
Alignment explanation
Indices: 96395--96517 Score: 78
Period size: 20 Copynumber: 6.8 Consensus size: 20
96385 ATACATTTTG
*
96395 CATTGTATCAATACATTGCT
1 CATTGTATCGATACATTGCT
96415 CATTGTATCGATA-A-----
1 CATTGTATCGATACATTGCT
*
96429 -ATTGTATTGATACATTGCT
1 CATTGTATCGATACATTGCT
*
96448 CATTATATCGATACA-T--T
1 CATTGTATCGATACATTGCT
*
96465 -A---TATCAATACATTGCT
1 CATTGTATCGATACATTGCT
*
96481 CATTGTATCGATACATT-TT
1 CATTGTATCGATACATTGCT
*
96500 ACAATGTATCGATACATT
1 -CATTGTATCGATACATT
96518 CAGGCATTTT
Statistics
Matches: 80, Mismatches: 8, Indels: 30
0.68 0.07 0.25
Matches are distributed among these distances:
13 20 0.25
14 2 0.03
16 2 0.03
17 2 0.03
19 3 0.04
20 51 0.64
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.41
Consensus pattern (20 bp):
CATTGTATCGATACATTGCT
Found at i:96464 original size:13 final size:13
Alignment explanation
Indices: 96448--96477 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
96438 ATACATTGCT
*
96448 CATTATATCGATA
1 CATTATATCAATA
96461 CATTATATCAATA
1 CATTATATCAATA
96474 CATT
1 CATT
96478 GCTCATTGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.17, G:0.03, T:0.40
Consensus pattern (13 bp):
CATTATATCAATA
Found at i:96494 original size:33 final size:33
Alignment explanation
Indices: 96395--96497 Score: 161
Period size: 33 Copynumber: 3.1 Consensus size: 33
96385 ATACATTTTG
96395 CATTGTATCAATACATTGCTCATTGTATCGATA
1 CATTGTATCAATACATTGCTCATTGTATCGATA
* ** *
96428 AATTGTATTGATACATTGCTCATTATATCGATA
1 CATTGTATCAATACATTGCTCATTGTATCGATA
*
96461 CATTATATCAATACATTGCTCATTGTATCGATA
1 CATTGTATCAATACATTGCTCATTGTATCGATA
96494 CATT
1 CATT
96498 TTACAATGTA
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 61 1.00
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.41
Consensus pattern (33 bp):
CATTGTATCAATACATTGCTCATTGTATCGATA
Found at i:98980 original size:51 final size:51
Alignment explanation
Indices: 98826--98989 Score: 159
Period size: 51 Copynumber: 3.2 Consensus size: 51
98816 TCATCTCAGA
* * ** * * **
98826 GATACTCCAACCCCGGTTCCATTTTCAAAACATCAATTTTTCTTAATCGGG
1 GATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTTCACAATCGGG
* * * * * * *
98877 GATACCCCAACTCTGATTTTATTTCTAAAGCAGCGA-TTTACAGCAATCGGG
1 GATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTTCA-CAATCGGG
*
98928 GATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTTCACAATTGGG
1 GATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTTCACAATCGGG
*
98979 GATACTTCAAC
1 GATACTCCAAC
98990 CCCGTTATTT
Statistics
Matches: 88, Mismatches: 23, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
50 4 0.05
51 79 0.90
52 5 0.06
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.32
Consensus pattern (51 bp):
GATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTTCACAATCGGG
Found at i:99017 original size:28 final size:28
Alignment explanation
Indices: 98976--99073 Score: 94
Period size: 28 Copynumber: 3.5 Consensus size: 28
98966 TTTCACAATT
*
98976 GGGGATACTTCAACCCCGTTATTTTTGA
1 GGGGATACTCCAACCCCGTTATTTTTGA
* * * *
99004 GGGGGTACTCCAACTCCATTATTCATT--
1 GGGGATACTCCAACCCCGTTATT-TTTGA
*
99031 GGGGATACTCCAATCCCGTTATTTTTGA
1 GGGGATACTCCAACCCCGTTATTTTTGA
*
99059 -GGAATTACTCCAACC
1 GGGGA-TACTCCAACC
99074 TCGATTTTAT
Statistics
Matches: 54, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
26 2 0.04
27 22 0.41
28 28 0.52
29 2 0.04
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.33
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATTTTTGA
Found at i:99369 original size:78 final size:78
Alignment explanation
Indices: 99198--99385 Score: 202
Period size: 79 Copynumber: 2.4 Consensus size: 78
99188 CCTAAATCAT
* * *
99198 CAATTTTTCACAATCGAGGATACTCCAACCCCGTTATTTTCGAGGAGATACTCCAACCCTGATTT
1 CAATTTTCCATAATCG-GGATACTCCAACCCCGTTATTTTCGAGGAGATACTCCAACCCCGATTT
*
99263 TATTTTCAAAATAC
65 TATTTTCAAAACAC
** * * *
99277 TGATTTTCTATAATCAGGGATACTCCAACCCTGTTA-TTTCTGAGGGGATACT-CAACCCCGATT
1 CAATTTTCCATAATC-GGGATACTCCAACCCCGTTATTTTC-GAGGAGATACTCCAACCCCGATT
**
99340 TTA-TTTCTGGAACAC
64 TTATTTTC-AAAACAC
* *
99355 CAATTTTCCATAATCGGGGTACTCCGACCCC
1 CAATTTTCCATAATCGGGATACTCCAACCCC
99386 ATTGTTATCT
Statistics
Matches: 89, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
77 17 0.19
78 33 0.37
79 38 0.43
80 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.32
Consensus pattern (78 bp):
CAATTTTCCATAATCGGGATACTCCAACCCCGTTATTTTCGAGGAGATACTCCAACCCCGATTTT
ATTTTCAAAACAC
Found at i:107263 original size:8 final size:8
Alignment explanation
Indices: 107250--107312 Score: 76
Period size: 8 Copynumber: 8.0 Consensus size: 8
107240 CCTTCATACC
107250 CAAAAAAA
1 CAAAAAAA
107258 CAAAAAAAA
1 C-AAAAAAA
107267 CAAAAAAA
1 CAAAAAAA
107275 CAAAAAAA
1 CAAAAAAA
107283 C-AAAAAA
1 CAAAAAAA
* *
107290 CCAAGAAA
1 CAAAAAAA
*
107298 -AAAATAA
1 CAAAAAAA
107305 CAAAAAAA
1 CAAAAAAA
107313 TTGAAAGGGG
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
7 11 0.23
8 28 0.60
9 8 0.17
ACGTcount: A:0.84, C:0.13, G:0.02, T:0.02
Consensus pattern (8 bp):
CAAAAAAA
Found at i:108571 original size:28 final size:28
Alignment explanation
Indices: 108532--108717 Score: 167
Period size: 28 Copynumber: 6.3 Consensus size: 28
108522 ACGTTCATCT
* *
108532 CTTT-AAAGCCCATAAGTCAATGGCACC
1 CTTTCAAAGCCCACAAGTCAGTGGCACC
108559 CTTTCAAAGCCCACAAGTCAGTGGCACC
1 CTTTCAAAGCCCACAAGTCAGTGGCACC
* *
108587 CTTTCAAAACCCACAAGTCAGTAGCACTC
1 CTTTCAAAGCCCACAAGTCAGTGGCAC-C
* *
108616 TTTTCAAAGCCCACACGAGTCGGTGGCAACTC
1 CTTTCAAAGCCCACA--AGTCAGTGGC-AC-C
* * *
108648 TTTTCAAAGCCCACAGAAATTAGTGGCACC
1 CTTTCAAAGCCCAC--AAGTCAGTGGCACC
* *
108678 CTTTAAAAGCCCACGCAAGTCGGTGGCAACC
1 CTTTCAAAGCCCA--CAAGTCAGTGGC-ACC
108709 CTTTTCAAA
1 C-TTTCAAA
108718 TCACCACTGT
Statistics
Matches: 131, Mismatches: 17, Indels: 17
0.79 0.10 0.10
Matches are distributed among these distances:
27 4 0.03
28 46 0.35
29 14 0.11
30 20 0.15
31 14 0.11
32 32 0.24
34 1 0.01
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.22
Consensus pattern (28 bp):
CTTTCAAAGCCCACAAGTCAGTGGCACC
Found at i:108699 original size:62 final size:58
Alignment explanation
Indices: 108552--108717 Score: 174
Period size: 62 Copynumber: 2.8 Consensus size: 58
108542 CATAAGTCAA
* * *
108552 TGGCACCCTTTCAAAGCCCA-CAAGTCAGTGGC-ACCCTTTCAAAACCCACAAGTCAG
1 TGGCACCCTTTCAAAGCCCACCAAGTCGGTGGCAACCTTTTCAAAACCCACAAATCAG
* * * * *
108608 TAGCACTCTTTTCAAAGCCCACACGAGTCGGTGGCAACTCTTTTCAAAGCCCACAGAAATTAG
1 TGGCAC-CCTTTCAAAGCCCAC-CAAGTCGGTGGCAAC-CTTTTCAAAACCCAC--AAATCAG
*
108671 TGGCACCCTTTAAAAGCCCACGCAAGTCGGTGGCAACCCTTTTCAAA
1 TGGCACCCTTTCAAAGCCCAC-CAAGTCGGTGGCAA-CCTTTTCAAA
108718 TCACCACTGT
Statistics
Matches: 89, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
56 5 0.06
57 13 0.15
59 10 0.11
60 2 0.02
61 13 0.15
62 35 0.39
63 11 0.12
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.21
Consensus pattern (58 bp):
TGGCACCCTTTCAAAGCCCACCAAGTCGGTGGCAACCTTTTCAAAACCCACAAATCAG
Found at i:108824 original size:49 final size:49
Alignment explanation
Indices: 108768--108902 Score: 216
Period size: 49 Copynumber: 2.8 Consensus size: 49
108758 GACACCTTTA
*
108768 TTAGCCCAATGTCGTTGGCCTTGAATTAGCACATTGGTCCACTTTTCCC
1 TTAGCCCAATGTCGCTGGCCTTGAATTAGCACATTGGTCCACTTTTCCC
* * * *
108817 TTAGCCCAATGTCGCCGGCCTTGAATCAGCATATTGGTCCATTTTTCCC
1 TTAGCCCAATGTCGCTGGCCTTGAATTAGCACATTGGTCCACTTTTCCC
*
108866 TTAGCCCAATGCCGCTGGCCTTGAATTAGCACATTGG
1 TTAGCCCAATGTCGCTGGCCTTGAATTAGCACATTGG
108903 CACTCCTCTC
Statistics
Matches: 77, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 77 1.00
ACGTcount: A:0.19, C:0.29, G:0.20, T:0.32
Consensus pattern (49 bp):
TTAGCCCAATGTCGCTGGCCTTGAATTAGCACATTGGTCCACTTTTCCC
Found at i:109501 original size:20 final size:20
Alignment explanation
Indices: 109449--109696 Score: 97
Period size: 20 Copynumber: 11.3 Consensus size: 20
109439 AGTAGAGGAT
109449 CATTCTTCAATGTATCGATA
1 CATTCTTCAATGTATCGATA
* **
109469 CATGT-ATGGATGTATCGATA
1 CAT-TCTTCAATGTATCGATA
*
109489 CATTCTTCAATGTATTGATA
1 CATTCTTCAATGTATCGATA
*
109509 CATTCTATCTTTTTACCCAGATGTATTGATA
1 CA---T-TC---TT---CA-ATGTATCGATA
*
109540 CATTTTTCAATGTATCGATA
1 CATTCTTCAATGTATCGATA
* * *
109560 CATGT-ATGACTGTATCGATA
1 CAT-TCTTCAATGTATCGATA
*
109580 CATTCTTCAATGTATTGATA
1 CATTCTTCAATGTATCGATA
*
109600 CATTCTATTTTTTTACCCAGACGTATCGATA
1 CATTC-------TT---CA-ATGTATCGATA
*
109631 CATTTTTCAATGTATCGATA
1 CATTCTTCAATGTATCGATA
* * * *
109651 CATGT-ATGACTATATCGATA
1 CAT-TCTTCAATGTATCGATA
*
109671 CATTTTTCAATGTATCGATA
1 CATTCTTCAATGTATCGATA
109691 CATTCT
1 CATTCT
109697 GTGTTTTTTT
Statistics
Matches: 171, Mismatches: 29, Indels: 56
0.67 0.11 0.22
Matches are distributed among these distances:
19 3 0.02
20 118 0.69
21 7 0.04
23 1 0.01
24 6 0.04
27 5 0.03
28 1 0.01
30 4 0.02
31 26 0.15
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (20 bp):
CATTCTTCAATGTATCGATA
Found at i:109553 original size:51 final size:50
Alignment explanation
Indices: 109477--109746 Score: 211
Period size: 51 Copynumber: 5.7 Consensus size: 50
109467 TACATGTATG
*
109477 GATGTATCGATACATTCTTCAATGTATTGATACATTCTATCTTTTTACCCA
1 GATGTATCGATACATTCTTCAATGTATCGATACATTCTAT-TTTTTACCCA
* * * *
109528 GATGTATTGATACATTTTTCAATGTATCGATACA-TGTA----TGA--C-
1 GATGTATCGATACATTCTTCAATGTATCGATACATTCTATTTTTTACCCA
*
109570 --TGTATCGATACATTCTTCAATGTATTGATACATTCTATTTTTTTACCCA
1 GATGTATCGATACATTCTTCAATGTATCGATACATTCTA-TTTTTTACCCA
* * * *
109619 GACGTATCGATACATTTTTCAATGTATCGATACA-TGTA----TGA--C-
1 GATGTATCGATACATTCTTCAATGTATCGATACATTCTATTTTTTACCCA
* * * *
109661 --TATATCGATACATTTTTCAATGTATCGATACATTCTGTGTTTTTTTCCCA
1 GATGTATCGATACATTCTTCAATGTATCGATACATTC--TATTTTTTACCCA
* * *
109711 AATGTATCGATATATTTTTCAATGTATCGATACATT
1 GATGTATCGATACATTCTTCAATGTATCGATACATT
109747 TAGTTAAAAT
Statistics
Matches: 173, Mismatches: 23, Indels: 45
0.72 0.10 0.19
Matches are distributed among these distances:
40 59 0.34
41 4 0.02
43 3 0.02
45 4 0.02
46 2 0.01
47 1 0.01
48 1 0.01
49 1 0.01
50 6 0.03
51 60 0.35
52 32 0.18
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.43
Consensus pattern (50 bp):
GATGTATCGATACATTCTTCAATGTATCGATACATTCTATTTTTTACCCA
Found at i:109589 original size:40 final size:40
Alignment explanation
Indices: 109530--109693 Score: 168
Period size: 40 Copynumber: 3.8 Consensus size: 40
109520 TTTACCCAGA
*
109530 TGTATTGATACATTTTTCAATGTATCGATACATGTATGAC
1 TGTATCGATACATTTTTCAATGTATCGATACATGTATGAC
* * *
109570 TGTATCGATACATTCTTCAATGTATTGATACATTCTATTTTTTTACCCAGAC
1 TGTATCGATACATTTTTCAATGTATCGATACA-TGTA------T-----GAC
109622 -GTATCGATACATTTTTCAATGTATCGATACATGTATGAC
1 TGTATCGATACATTTTTCAATGTATCGATACATGTATGAC
*
109661 TATATCGATACATTTTTCAATGTATCGATACAT
1 TGTATCGATACATTTTTCAATGTATCGATACAT
109694 TCTGTGTTTT
Statistics
Matches: 103, Mismatches: 8, Indels: 26
0.75 0.06 0.19
Matches are distributed among these distances:
39 3 0.03
40 60 0.58
41 3 0.03
44 1 0.01
47 1 0.01
50 3 0.03
51 29 0.28
52 3 0.03
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.42
Consensus pattern (40 bp):
TGTATCGATACATTTTTCAATGTATCGATACATGTATGAC
Found at i:109613 original size:91 final size:91
Alignment explanation
Indices: 109449--109745 Score: 470
Period size: 91 Copynumber: 3.3 Consensus size: 91
109439 AGTAGAGGAT
*
109449 CATTCTTCAATGTATCGATACATGTATGGA-TGTATCGATACATTCTTCAATGTATTGATACATT
1 CATTTTTCAATGTATCGATACATGTAT-GACTGTATCGATACATTCTTCAATGTATTGATACATT
* *
109513 CTATCTTTTTACCCAGATGTATTGATA
65 CTATTTTTTTACCCAGATGTATCGATA
109540 CATTTTTCAATGTATCGATACATGTATGACTGTATCGATACATTCTTCAATGTATTGATACATTC
1 CATTTTTCAATGTATCGATACATGTATGACTGTATCGATACATTCTTCAATGTATTGATACATTC
*
109605 TATTTTTTTACCCAGACGTATCGATA
66 TATTTTTTTACCCAGATGTATCGATA
* * *
109631 CATTTTTCAATGTATCGATACATGTATGACTATATCGATACATTTTTCAATGTATCGATACATTC
1 CATTTTTCAATGTATCGATACATGTATGACTGTATCGATACATTCTTCAATGTATTGATACATTC
* * *
109696 TGTGTTTTTTTCCCAAATGTATCGATA
66 TAT-TTTTTTACCCAGATGTATCGATA
*
109723 TATTTTTCAATGTATCGATACAT
1 CATTTTTCAATGTATCGATACAT
109746 TTAGTTAAAA
Statistics
Matches: 192, Mismatches: 12, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
90 2 0.01
91 148 0.77
92 42 0.22
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.43
Consensus pattern (91 bp):
CATTTTTCAATGTATCGATACATGTATGACTGTATCGATACATTCTTCAATGTATTGATACATTC
TATTTTTTTACCCAGATGTATCGATA
Found at i:110745 original size:19 final size:19
Alignment explanation
Indices: 110721--110788 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 19
110711 AATTCAACAA
110721 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
110740 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
*
110755 --TATATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
110772 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
110789 TTAGCTACTG
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
13 10 0.24
15 2 0.05
17 2 0.05
19 27 0.66
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:110766 original size:32 final size:32
Alignment explanation
Indices: 110725--110785 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
110715 CAACAATTTG
*
110725 TATCGATACATAAGTTTTGTATCGATACAATA
1 TATCGATACATAAGTATTGTATCGATACAATA
110757 TATCGATACATAAGTATTGTATCGATACA
1 TATCGATACATAAGTATTGTATCGATACA
110786 TAATTAGCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (32 bp):
TATCGATACATAAGTATTGTATCGATACAATA
Found at i:110846 original size:13 final size:13
Alignment explanation
Indices: 110828--110853 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
110818 CATTTTTCTA
110828 TGTATCGATACAT
1 TGTATCGATACAT
110841 TGTATCGATACAT
1 TGTATCGATACAT
110854 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Done.