Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 12876159
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 43 of 54
Found at i:10349349 original size:32 final size:32
Alignment explanation
Indices: 10349288--10349380 Score: 116
Period size: 32 Copynumber: 2.8 Consensus size: 32
10349278 ACGCGAAACC
* **
10349288 AAAATTGCAACGCGAAATGAAAATCGCAAC-AA
1 AAAATCGCAACGCGAAA-CCAAATCGCAACGAA
*
10349320 AAGAATCGCAACGCGAAACCAAATCGCAACGAC
1 AA-AATCGCAACGCGAAACCAAATCGCAACGAA
10349353 AAAATCGCAACGCGAAACCAAAATCGCA
1 AAAATCGCAACGCGAAACC-AAATCGCA
10349381 TTGCGATTTT
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
32 29 0.54
33 25 0.46
ACGTcount: A:0.49, C:0.26, G:0.16, T:0.09
Consensus pattern (32 bp):
AAAATCGCAACGCGAAACCAAATCGCAACGAA
Found at i:10349398 original size:19 final size:19
Alignment explanation
Indices: 10349376--10349548 Score: 168
Period size: 19 Copynumber: 9.6 Consensus size: 19
10349366 GAAACCAAAA
*
10349376 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
10349395 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
10349411 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
10349428 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
10349444 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
10349461 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
**
10349480 TCGCGTTGCGATTTTTGTT
1 TCGCGTTGCGATTTTCATT
* *
10349499 TCTCGTTGCGATTATCATT
1 TCGCGTTGCGATTTTCATT
*
10349518 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
10349538 TCGTGTTGCGA
1 TCGCGTTGCGA
10349549 AAGTAAACTA
Statistics
Matches: 127, Mismatches: 16, Indels: 21
0.77 0.10 0.13
Matches are distributed among these distances:
14 15 0.12
16 11 0.09
17 11 0.09
19 78 0.61
20 12 0.09
ACGTcount: A:0.11, C:0.19, G:0.23, T:0.47
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:10349417 original size:14 final size:14
Alignment explanation
Indices: 10349398--10349454 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
10349388 TTTCATTTCG
10349398 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
10349412 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
10349429 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
10349445 CGTTGCGATT
1 CGTTGCGATT
10349455 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:10349506 original size:38 final size:38
Alignment explanation
Indices: 10349376--10349548 Score: 168
Period size: 33 Copynumber: 4.8 Consensus size: 38
10349366 GAAACCAAAA
*
10349376 TCGCATTGCGATTTTCATTTCGCGTTGCGA-T-TC-TT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTATCATT
* *
10349411 T--CGTTGCGATTTTCATTTCGCATTGCGA-T-TC-TG
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTATCATT
* **
10349444 T--CGTTGCGATTTTCATTTCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTATCATT
** *
10349480 TCGCGTTGCGATTTTTGTTTCTCGTTGCGATTATCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTATCATT
* *
10349518 TCGCGTTGCGATTTTAAGTTTCGTGTTGCGA
1 TCGCGTTGCGATTTTCA-TTTCGCGTTGCGA
10349549 AAGTAAACTA
Statistics
Matches: 116, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
33 56 0.48
34 1 0.01
35 2 0.02
36 2 0.02
38 44 0.38
39 11 0.09
ACGTcount: A:0.11, C:0.19, G:0.23, T:0.47
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTATCATT
Found at i:10351491 original size:14 final size:14
Alignment explanation
Indices: 10351472--10351507 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
10351462 ATTGTTTAAT
10351472 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
10351486 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
10351500 TGATTTGT
1 TGATTTGT
10351508 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:10351622 original size:19 final size:19
Alignment explanation
Indices: 10351598--10351718 Score: 145
Period size: 19 Copynumber: 6.8 Consensus size: 19
10351588 GCATTATGTT
10351598 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAATGC
10351617 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAATGC
*
10351634 G--A-GAGAATCGCAATGC
1 GAAATGAAAATCGCAATGC
10351650 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAATGC
*
10351667 G--A-GAGAATCGCAATGC
1 GAAATGAAAATCGCAATGC
10351683 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAATGC
10351702 GGAAATGAAAATCGCAA
1 -GAAATGAAAATCGCAA
10351719 CGAGAGAATC
Statistics
Matches: 87, Mismatches: 4, Indels: 21
0.78 0.04 0.19
Matches are distributed among these distances:
14 20 0.23
15 2 0.02
16 4 0.05
17 4 0.05
18 2 0.02
19 39 0.45
20 16 0.18
ACGTcount: A:0.47, C:0.17, G:0.23, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAATGC
Found at i:10351644 original size:14 final size:14
Alignment explanation
Indices: 10351625--10351679 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
10351615 GCGAAATGAA
10351625 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
10351639 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
10351658 AATCGCAACGAGAG
1 AATCGCAACGAGAG
10351672 AATCGCAA
1 AATCGCAA
10351680 TGCGAAATGA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:10351648 original size:33 final size:33
Alignment explanation
Indices: 10351606--10351698 Score: 186
Period size: 33 Copynumber: 2.8 Consensus size: 33
10351596 TTGAAATGAA
10351606 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
10351639 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
10351672 AATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAA
10351699 TGCGGAAATG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.13
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAG
Found at i:10351755 original size:19 final size:19
Alignment explanation
Indices: 10351727--10351968 Score: 265
Period size: 19 Copynumber: 13.7 Consensus size: 19
10351717 AACGAGAGAA
*
10351727 TCGCAATGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
10351746 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
10351765 TCCGCATTGCGA--TTC-TC
1 T-CGCATTGCGATTTTCATT
10351782 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
10351799 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
10351818 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
10351834 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
10351851 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
10351870 TCCGCATTGCGA--TTC-TC
1 T-CGCATTGCGATTTTCATT
10351887 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
10351904 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
10351923 TCCGCATTGCGA-TTTCA--
1 T-CGCATTGCGATTTTCATT
*
10351940 T-G--TTGGGATTTTCATT
1 TCGCATTGCGATTTTCATT
10351956 TCGCATTGCGATT
1 TCGCATTGCGATT
10351969 CTCTCGTTGC
Statistics
Matches: 190, Mismatches: 9, Indels: 48
0.77 0.04 0.19
Matches are distributed among these distances:
13 5 0.03
14 23 0.12
15 1 0.01
16 18 0.09
17 21 0.11
18 6 0.03
19 86 0.45
20 30 0.16
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:10351809 original size:33 final size:33
Alignment explanation
Indices: 10351751--10351916 Score: 167
Period size: 33 Copynumber: 4.8 Consensus size: 33
10351741 TCATTTCGCA
10351751 TTGCGATTTTCATTTCCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTT-CGCATTGCGATTCTCTCG
*
10351785 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
* * * * *
10351821 CATTGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCA
1 --TTGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCG
10351856 TTGCGATTTTCATTTCCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTT-CGCATTGCGATTCTCTCG
10351890 TTGCGATTTTCATTTCGCATTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATT
10351917 TTCATTTCCG
Statistics
Matches: 108, Mismatches: 12, Indels: 25
0.74 0.08 0.17
Matches are distributed among these distances:
31 4 0.04
32 6 0.06
33 34 0.31
34 33 0.31
35 5 0.05
36 4 0.04
37 2 0.02
38 8 0.07
39 3 0.03
40 9 0.08
ACGTcount: A:0.13, C:0.23, G:0.17, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:10351938 original size:33 final size:32
Alignment explanation
Indices: 10351796--10351982 Score: 144
Period size: 33 Copynumber: 5.5 Consensus size: 32
10351786 TGCGATTTTC
10351796 ATTTCGCATTGCGATTTTCATTTCGCATTGCG
1 ATTTCGCATTGCGATTTTCATTTCGCATTGCG
* *
10351828 ATTCTCTCGTTGCGATTTTCATTTCGCATTGCG
1 ATT-TCGCATTGCGATTTTCATTTCGCATTGCG
* * *
10351861 ATTTTCATTTCCGCATTGCGATTCTCTCGTTGCG-ATTTTC-
1 ------ATTT-CGCATTGCGATT-T-TCATTTCGCA-TTGCG
10351901 ATTTCGCATTGCGATTTTCATTTCCGCATTGCG
1 ATTTCGCATTGCGATTTTCATTT-CGCATTGCG
*** *
10351934 ATTTCATGTTGGGATTTTCATTTCGCATTGCG
1 ATTTCGCATTGCGATTTTCATTTCGCATTGCG
* *
10351966 ATTCTCTCGTTGCGATT
1 ATT-TCGCATTGCGATT
10351983 GTAATTTCCG
Statistics
Matches: 123, Mismatches: 17, Indels: 29
0.73 0.10 0.17
Matches are distributed among these distances:
31 4 0.03
32 21 0.17
33 69 0.56
34 4 0.03
38 1 0.01
39 13 0.11
40 2 0.02
41 9 0.07
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.45
Consensus pattern (32 bp):
ATTTCGCATTGCGATTTTCATTTCGCATTGCG
Found at i:10351950 original size:105 final size:105
Alignment explanation
Indices: 10351733--10351968 Score: 431
Period size: 105 Copynumber: 2.2 Consensus size: 105
10351723 AGAATCGCAA
10351733 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCAT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCAT
10351798 TTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
66 TTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
10351838 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCAT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCAT
10351903 TTCGCATTGCGATTTTCATTTCCGCATTGCGATT-TCAT-GT
66 TTCGCATTGCGATTTTCATTT-CGCATTGCGATTCTC-TCGT
*
10351943 TGGGATTTTCATTTCGCATTGCGATT
1 TGCGATTTTCATTTCGCATTGCGATT
10351969 CTCTCGTTGC
Statistics
Matches: 128, Mismatches: 1, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
105 115 0.90
106 13 0.10
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (105 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCAT
TTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
Found at i:10351990 original size:52 final size:53
Alignment explanation
Indices: 10351733--10351968 Score: 433
Period size: 53 Copynumber: 4.5 Consensus size: 53
10351723 AGAATCGCAA
10351733 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
10351786 TGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
10351838 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
10351891 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATT-TCAT-GT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTC-TCGT
*
10351943 TGGGATTTTCATTTCGCATTGCGATT
1 TGCGATTTTCATTTCGCATTGCGATT
10351969 CTCTCGTTGC
Statistics
Matches: 180, Mismatches: 1, Indels: 5
0.97 0.01 0.03
Matches are distributed among these distances:
52 81 0.45
53 99 0.55
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (53 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
Found at i:10354283 original size:12 final size:12
Alignment explanation
Indices: 10354266--10354290 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10354256 TCTTCGGGGA
10354266 CTTTTTCTTCTT
1 CTTTTTCTTCTT
10354278 CTTTTTCTTCTT
1 CTTTTTCTTCTT
10354290 C
1 C
10354291 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:10354498 original size:24 final size:24
Alignment explanation
Indices: 10354464--10354510 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
10354454 CTGAAACATC
10354464 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
10354488 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
10354511 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:10355231 original size:20 final size:20
Alignment explanation
Indices: 10355203--10355431 Score: 253
Period size: 20 Copynumber: 11.4 Consensus size: 20
10355193 AAATTTCAGT
* * *
10355203 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
10355223 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
10355243 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
10355263 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
10355283 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
10355303 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
10355323 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
10355343 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
10355363 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
10355383 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
10355403 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
10355423 GTTGCGATT
1 GTTGCGATT
10355432 CTGGAAAATC
Statistics
Matches: 185, Mismatches: 22, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
20 184 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:10366925 original size:25 final size:24
Alignment explanation
Indices: 10366870--10366925 Score: 58
Period size: 26 Copynumber: 2.2 Consensus size: 24
10366860 AGATTTTATA
* * *
10366870 TTAGAAGATAAAATTTTTAAAATT
1 TTAGAAGAGAAAACTTATAAAATT
*
10366894 TAAAGAAGAGATAAACTTATAAAATT
1 T-TAGAAGAGA-AAACTTATAAAATT
10366920 TTAGAA
1 TTAGAA
10366926 AGTGAAAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
24 1 0.04
25 11 0.44
26 13 0.52
ACGTcount: A:0.54, C:0.02, G:0.11, T:0.34
Consensus pattern (24 bp):
TTAGAAGAGAAAACTTATAAAATT
Found at i:10369383 original size:21 final size:21
Alignment explanation
Indices: 10369354--10369393 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10369344 GCTTATAGAG
* *
10369354 TTATGATTTATGGTTTAAGAT
1 TTATAATTTAGGGTTTAAGAT
10369375 TTATAATTTAGGGTTTAAG
1 TTATAATTTAGGGTTTAAG
10369394 TTAGGAGTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (21 bp):
TTATAATTTAGGGTTTAAGAT
Found at i:10373600 original size:20 final size:20
Alignment explanation
Indices: 10373572--10373628 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
10373562 ATATTGTCCA
10373572 GGGGTACAGATTCCCCCCAG
1 GGGGTACAGATTCCCCCCAG
*
10373592 GGGGAACAGATTCCCCCCAG
1 GGGGTACAGATTCCCCCCAG
*
10373612 GGGGTACCGATTCCCCC
1 GGGGTACAGATTCCCCC
10373629 TGTCTAACGG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.19, C:0.37, G:0.30, T:0.14
Consensus pattern (20 bp):
GGGGTACAGATTCCCCCCAG
Found at i:10376436 original size:20 final size:21
Alignment explanation
Indices: 10376371--10376451 Score: 76
Period size: 21 Copynumber: 3.9 Consensus size: 21
10376361 CAGATTGTCC
** *
10376371 AGGGGGTATAGATTCACCCC-
1 AGGGGGTACCGATTCCCCCCA
* * *
10376391 AGGGGGAACAGATTTTCCCCCA
1 AGGGGGTACCGA-TTCCCCCCA
*
10376413 A-GGGGTACCGATTCCCCCCC
1 AGGGGGTACCGATTCCCCCCA
10376433 AGGGGGTACCGATTCCCCC
1 AGGGGGTACCGATTCCCCC
10376452 TATCTAACGG
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
20 18 0.36
21 31 0.62
22 1 0.02
ACGTcount: A:0.21, C:0.33, G:0.28, T:0.17
Consensus pattern (21 bp):
AGGGGGTACCGATTCCCCCCA
Found at i:10378171 original size:41 final size:41
Alignment explanation
Indices: 10378123--10378418 Score: 258
Period size: 41 Copynumber: 7.3 Consensus size: 41
10378113 TTTTTTCAAC
* *
10378123 AAACGCCGCAATAGGGTGGTAATTTAGTGGCGTTTTTATAT
1 AAACGCCGCAATAGAGTTGTAATTTAGTGGCGTTTTTATAT
*
10378164 AAACGCCGCAATAGAGTTGT--TTATAGTGGCGTTTTCTA-AA
1 AAACGCCGCAATAGAGTTGTAATT-TAGTGGCGTTTT-TATAT
* * *
10378204 AAACACCGCAATAGAGTAGTAATTTAGCGGCGTTTTTATAT
1 AAACGCCGCAATAGAGTTGTAATTTAGTGGCGTTTTTATAT
* *
10378245 AAACGCCGCAATAGAGTTGT--TTATAGTGGTG-TTTTACAAT
1 AAACGCCGCAATAGAGTTGTAATT-TAGTGGCGTTTTTA-TAT
* * *
10378285 AAACGCCGCAA-ATGGGTCGTACA-TTAGTGGCATTTTTATAT
1 AAACGCCGCAATA-GAGTTGTA-ATTTAGTGGCGTTTTTATAT
* *
10378326 AAACGCCGCAATAGAGTTGT--TTATAGTGGCG-TTTTACAAG
1 AAACGCCGCAATAGAGTTGTAATT-TAGTGGCGTTTTTA-TAT
* * * *
10378366 AAACGCCGCAA-ATGGGTCGTACA-TTAGTGGCGTTTTTCTGT
1 AAACGCCGCAATA-GAGTTGTA-ATTTAGTGGCGTTTTTATAT
10378407 AAACGCCGCAAT
1 AAACGCCGCAAT
10378419 TGATTTTAAC
Statistics
Matches: 205, Mismatches: 28, Indels: 43
0.74 0.10 0.16
Matches are distributed among these distances:
39 17 0.08
40 81 0.40
41 93 0.45
42 14 0.07
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.31
Consensus pattern (41 bp):
AAACGCCGCAATAGAGTTGTAATTTAGTGGCGTTTTTATAT
Found at i:10378217 original size:81 final size:81
Alignment explanation
Indices: 10378109--10378418 Score: 414
Period size: 81 Copynumber: 3.8 Consensus size: 81
10378099 AAACTTTAGC
* * *
10378109 GGCGTTTTTTCAACAAACGCCGC-AATAGGGTGGTA-ATTTAGTGGCGTTTTTATATAAACGCCG
1 GGCG-TTTTACAAAAAACGCCGCAAAT-GGGTCGTACA-TTAGTGGCGTTTTTATATAAACGCCG
10378172 CAATAGAGTTGTTTATAGT
63 CAATAGAGTTGTTTATAGT
* * * *
10378191 GGCGTTTT-CTAAAAAACACCGC-AATAGAGTAGTA-ATTTAGCGGCGTTTTTATATAAACGCCG
1 GGCGTTTTAC-AAAAAACGCCGCAAAT-GGGTCGTACA-TTAGTGGCGTTTTTATATAAACGCCG
10378253 CAATAGAGTTGTTTATAGT
63 CAATAGAGTTGTTTATAGT
* * *
10378272 GGTGTTTTACAATAAACGCCGCAAATGGGTCGTACATTAGTGGCATTTTTATATAAACGCCGCAA
1 GGCGTTTTACAAAAAACGCCGCAAATGGGTCGTACATTAGTGGCGTTTTTATATAAACGCCGCAA
10378337 TAGAGTTGTTTATAGT
66 TAGAGTTGTTTATAGT
* * *
10378353 GGCGTTTTACAAGAAACGCCGCAAATGGGTCGTACATTAGTGGCGTTTTTCTGTAAACGCCGCAA
1 GGCGTTTTACAAAAAACGCCGCAAATGGGTCGTACATTAGTGGCGTTTTTATATAAACGCCGCAA
10378418 T
66 T
10378419 TGATTTTAAC
Statistics
Matches: 207, Mismatches: 17, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
80 1 0.00
81 197 0.95
82 9 0.04
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (81 bp):
GGCGTTTTACAAAAAACGCCGCAAATGGGTCGTACATTAGTGGCGTTTTTATATAAACGCCGCAA
TAGAGTTGTTTATAGT
Found at i:10387465 original size:21 final size:21
Alignment explanation
Indices: 10387447--10387508 Score: 88
Period size: 21 Copynumber: 3.0 Consensus size: 21
10387437 ATGAAGCAAG
10387447 GGAAGCAGAGAGAGCAGCAGC
1 GGAAGCAGAGAGAGCAGCAGC
**
10387468 GGAAGCAGCTAGAGCAGCAGC
1 GGAAGCAGAGAGAGCAGCAGC
* *
10387489 GGAAGTAGAGAGAGAAGCAG
1 GGAAGCAGAGAGAGCAGCAG
10387509 TGCAGCACAG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.39, C:0.16, G:0.42, T:0.03
Consensus pattern (21 bp):
GGAAGCAGAGAGAGCAGCAGC
Found at i:10387539 original size:21 final size:22
Alignment explanation
Indices: 10387495--10387544 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 22
10387485 CAGCGGAAGT
*
10387495 AGAGAGAGAAGCAGTGCAGCAC
1 AGAGAGAGAAGCAGTGCAGAAC
10387517 AGAGAGAGGAAGC-G-GCAGAAC
1 AGAGAGA-GAAGCAGTGCAGAAC
10387538 AGAGAGA
1 AGAGAGA
10387545 AGTAATATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 13 0.50
22 8 0.31
23 5 0.19
ACGTcount: A:0.44, C:0.14, G:0.40, T:0.02
Consensus pattern (22 bp):
AGAGAGAGAAGCAGTGCAGAAC
Found at i:10387933 original size:43 final size:44
Alignment explanation
Indices: 10387878--10387981 Score: 124
Period size: 43 Copynumber: 2.4 Consensus size: 44
10387868 AATATACCAT
*
10387878 ACAT-TTAGCGGCGTTTGT-GATAAAAACGCCGCGAAATCTCAAG
1 ACATATTAGCGGCGTTT-TCGACAAAAACGCCGCGAAATCTCAAG
* * *
10387921 ACATATTA-CGGCGTTTTCGACGAAAATGCCGCTAAATCTCAAG
1 ACATATTAGCGGCGTTTTCGACAAAAACGCCGCGAAATCTCAAG
*
10387964 ACATATTCTGCGGCGTTT
1 ACATATT-AGCGGCGTTT
10387982 GTAGGAAAAC
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
42 1 0.02
43 40 0.77
44 3 0.06
45 8 0.15
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (44 bp):
ACATATTAGCGGCGTTTTCGACAAAAACGCCGCGAAATCTCAAG
Found at i:10388032 original size:42 final size:42
Alignment explanation
Indices: 10387942--10388111 Score: 162
Period size: 43 Copynumber: 4.0 Consensus size: 42
10387932 CGTTTTCGAC
* * *
10387942 GAAAATGCCGCTAAATCTCAAGACATATTCTGCGGCGTTTGTAG
1 GAAAACGCCGCTAAATATC-A-ACATCTTCTGCGGCGTTTGTAG
* * *
10387986 GAAAACACCGCTAAATATCAACATCTTCTACGACGTTTGTAG
1 GAAAACGCCGCTAAATATCAACATCTTCTGCGGCGTTTGTAG
* * * * *
10388028 GAAAAACGCCGGTAAAAATAAACATCTACTGCGGCGTTTGTGAA
1 G-AAAACGCCGCTAAATATCAACATCTTCTGCGGCGTTTGT-AG
* **
10388072 GAAAACGCCGCTAAACATCAACGCCTAT-TGCGGCGTTTGT
1 GAAAACGCCGCTAAATATCAACATCT-TCTGCGGCGTTTGT
10388112 CTGCCAAATG
Statistics
Matches: 103, Mismatches: 20, Indels: 7
0.79 0.15 0.05
Matches are distributed among these distances:
42 20 0.19
43 65 0.63
44 18 0.17
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (42 bp):
GAAAACGCCGCTAAATATCAACATCTTCTGCGGCGTTTGTAG
Found at i:10388104 original size:43 final size:43
Alignment explanation
Indices: 10387885--10388111 Score: 121
Period size: 43 Copynumber: 5.3 Consensus size: 43
10387875 CATACATTTA
* *
10387885 GCGGCGTTTGTGATA-AAAACGCCGCGAAATC-TCAA-GACATATT
1 GCGGCGTTTGTGA-AGAAAACGCCGCTAAA-CATCAACG-CCTATT
* * * *
10387928 ACGGCGTTT-TCGACGAAAATGCCGCTAAATC-TCAA-GACATATTCT
1 GCGGCGTTTGT-GAAGAAAACGCCGCTAAA-CATCAACG-CCTA-T-T
* * * **
10387973 GCGGCGTTTGT-AGGAAAACACCGCTAAATATCAACATCT-TCT
1 GCGGCGTTTGTGAAGAAAACGCCGCTAAACATCAACGCCTAT-T
* * * * * * ** *
10388015 ACGACGTTTGT-AGGAAAAACGCCGGTAAAAATAAACATCTACT
1 GCGGCGTTTGTGAAG-AAAACGCCGCTAAACATCAACGCCTATT
10388058 GCGGCGTTTGTGAAGAAAACGCCGCTAAACATCAACGCCTATT
1 GCGGCGTTTGTGAAGAAAACGCCGCTAAACATCAACGCCTATT
10388101 GCGGCGTTTGT
1 GCGGCGTTTGT
10388112 CTGCCAAATG
Statistics
Matches: 146, Mismatches: 28, Indels: 20
0.75 0.14 0.10
Matches are distributed among these distances:
42 16 0.11
43 98 0.67
44 22 0.15
45 9 0.06
46 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (43 bp):
GCGGCGTTTGTGAAGAAAACGCCGCTAAACATCAACGCCTATT
Found at i:10388173 original size:43 final size:43
Alignment explanation
Indices: 10388073--10388175 Score: 134
Period size: 43 Copynumber: 2.4 Consensus size: 43
10388063 GTTTGTGAAG
* * *
10388073 AAAACGCCGCTAAACATCAACGCCTATTGCGGCGTTTGTCTGC
1 AAAACGCCGCTAAATATCAACACCTATTGCGGCATTTGTCTGC
* * ** *
10388116 CAAATGCCATTAAATATCAACACCTATTGCGGCATTTTTCTGC
1 AAAACGCCGCTAAATATCAACACCTATTGCGGCATTTGTCTGC
10388159 AAAACGCCGCTAAATAT
1 AAAACGCCGCTAAATAT
10388176 ACGGCGTTTG
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (43 bp):
AAAACGCCGCTAAATATCAACACCTATTGCGGCATTTGTCTGC
Found at i:10390701 original size:77 final size:79
Alignment explanation
Indices: 10390615--10390761 Score: 185
Period size: 77 Copynumber: 1.9 Consensus size: 79
10390605 TTAATAAATT
**
10390615 TCTTATTTAATTAATT-AAAATTAAATAT-ACATT-AAAGACTTATAATCTGAATTACAATC-TT
1 TCTTATTTAATT-ATTCAAAATTAAATATCA-ATTAAAAGACTTATAATCAAAATTACAATCTTT
10390676 TAATGTTTATTTAAAA
64 TAATGTTTATTTAAAA
** * * *
10390692 TCTTATTTAATTATTCCGAATTAAATATCAATTAAAAGAGTTGTAATCAAAATTACATTCTTTTA
1 TCTTATTTAATTATTCAAAATTAAATATCAATTAAAAGACTTATAATCAAAATTACAATCTTTTA
10390757 ATGTT
66 ATGTT
10390762 ACTTACTATA
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
76 3 0.05
77 25 0.42
78 22 0.37
79 9 0.15
ACGTcount: A:0.41, C:0.09, G:0.05, T:0.44
Consensus pattern (79 bp):
TCTTATTTAATTATTCAAAATTAAATATCAATTAAAAGACTTATAATCAAAATTACAATCTTTTA
ATGTTTATTTAAAA
Found at i:10402664 original size:20 final size:22
Alignment explanation
Indices: 10402617--10402676 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 22
10402607 TTGCTAAGAC
10402617 AGTATCGATACCATACACTATAGT
1 AGTATCGATA-C-TACACTATAGT
10402641 AGTATCGATACTAC-CTAT-GT
1 AGTATCGATACTACACTATAGT
* *
10402661 AGTACCAATACTACAC
1 AGTATCGATACTACAC
10402677 CTTTGGTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
20 14 0.42
21 5 0.15
22 3 0.09
23 1 0.03
24 10 0.30
ACGTcount: A:0.37, C:0.23, G:0.12, T:0.28
Consensus pattern (22 bp):
AGTATCGATACTACACTATAGT
Found at i:10408558 original size:20 final size:20
Alignment explanation
Indices: 10408510--10408560 Score: 59
Period size: 22 Copynumber: 2.5 Consensus size: 20
10408500 CTACTAGCCT
*
10408510 ATATCGATATTGTTCTTATCA
1 ATATCGATAATGTTC-TATCA
10408531 AGTATCGATAATGTTC-ATCCA
1 A-TATCGATAATGTTCTAT-CA
10408552 ATATCGATA
1 ATATCGATA
10408561 CTACTTGAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 10 0.37
21 4 0.15
22 13 0.48
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (20 bp):
ATATCGATAATGTTCTATCA
Found at i:10409017 original size:2 final size:2
Alignment explanation
Indices: 10409010--10409097 Score: 83
Period size: 2 Copynumber: 45.0 Consensus size: 2
10409000 AAATTTTCAA
*
10409010 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * * *
10409052 AT GT -T TT GT -T TT GAT -T AT AT AT AT AT AT AC AC AT AT AT AT
1 AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10409092 AT AT AT
1 AT AT AT
10409098 TGTTTTTCAA
Statistics
Matches: 75, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
1 3 0.04
2 71 0.95
3 1 0.01
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10410761 original size:2 final size:2
Alignment explanation
Indices: 10410754--10410778 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10410744 TCTTCACACC
10410754 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
10410779 CTTTTGACCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10411225 original size:24 final size:21
Alignment explanation
Indices: 10411193--10411247 Score: 67
Period size: 20 Copynumber: 2.5 Consensus size: 21
10411183 TTGTCTTAGC
*
10411193 AGTATCGATACCATACACTATAGT
1 AGTACCGATACC-TAC-CTAT-GT
10411217 AGTACCGATA-CTACCTATGT
1 AGTACCGATACCTACCTATGT
10411237 AGTACCGATAC
1 AGTACCGATAC
10411248 TACTCCTTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
20 12 0.41
21 4 0.14
22 3 0.10
23 1 0.03
24 9 0.31
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.27
Consensus pattern (21 bp):
AGTACCGATACCTACCTATGT
Found at i:10411240 original size:20 final size:21
Alignment explanation
Indices: 10411210--10411250 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
10411200 ATACCATACA
10411210 CTATAGTAGTACCGATACTAC
1 CTATAGTAGTACCGATACTAC
10411231 CTAT-GTAGTACCGATACTAC
1 CTATAGTAGTACCGATACTAC
10411251 TCCTTTGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (21 bp):
CTATAGTAGTACCGATACTAC
Found at i:10411388 original size:15 final size:15
Alignment explanation
Indices: 10411368--10411399 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
10411358 TCAAATTATT
10411368 TAAATTTATAACAGG
1 TAAATTTATAACAGG
10411383 TAAATTTATAACAGG
1 TAAATTTATAACAGG
10411398 TA
1 TA
10411400 GTATCGATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.12, T:0.34
Consensus pattern (15 bp):
TAAATTTATAACAGG
Found at i:10413996 original size:2 final size:2
Alignment explanation
Indices: 10413989--10414019 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
10413979 ATACACTTAA
10413989 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
10414020 AAAGGGATGG
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:10419055 original size:27 final size:28
Alignment explanation
Indices: 10418827--10419095 Score: 107
Period size: 27 Copynumber: 9.7 Consensus size: 28
10418817 CTGAATCCAT
** * *
10418827 AGCACCTCTGTGCTAGAATTA-ACGATTG
1 AGCACCTCTGTGCTTCAA-TAGAGGACTG
*
10418855 AGCACCTCTGTGCTTCAATCGA-GAGCTG
1 AGCACCTCTGTGCTTCAATAGAGGA-CTG
* *
10418883 A-CACCTCTGTG-TAGCCAA-A-AGTGATTG
1 AGCACCTCTGTGCT--TCAATAGAG-GACTG
* *
10418910 AGCACCTCTGTGCTTCAATCGAGAACTG
1 AGCACCTCTGTGCTTCAATAGAGGACTG
* * * * *
10418938 A-CACCTCTCTGCAGTTAAAAAAAAATGACTG
1 AGCACCTCTGTGC--TT--CAATAGAGGACTG
* *
10418969 AGCACCTCTGTGCTTCAGTCG-GGAGCT-
1 AGCACCTCTGTGCTTCAATAGAGGA-CTG
* * * * * *
10418996 AACACCTCTATG-TAGCTA-AGACGATTG
1 AGCACCTCTGTGCT-TCAATAGAGGACTG
10419023 AGCACCTCTGTGCTTCAATAGAGGACTG
1 AGCACCTCTGTGCTTCAATAGAGGACTG
** *
10419051 A-CACCTCTGTGCAGCCAA-A-ATGACTG
1 AGCACCTCTGTGC-TTCAATAGAGGACTG
10419077 AGCACCTCTGTGCTTCAAT
1 AGCACCTCTGTGCTTCAAT
10419096 CTAAAATCTG
Statistics
Matches: 173, Mismatches: 44, Indels: 49
0.65 0.17 0.18
Matches are distributed among these distances:
26 15 0.09
27 79 0.46
28 54 0.31
29 5 0.03
30 2 0.01
31 8 0.05
32 10 0.06
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (28 bp):
AGCACCTCTGTGCTTCAATAGAGGACTG
Found at i:10419055 original size:54 final size:55
Alignment explanation
Indices: 10418850--10419150 Score: 290
Period size: 54 Copynumber: 5.5 Consensus size: 55
10418840 TAGAATTAAC
*
10418850 GATTGAGCACCTCTGTGCTTCAATCGA-GAGCTGACACCTCTGTGTAGCCAAAAGT
1 GATTGAGCACCTCTGTGCTTCAATCGAGGAGCTGACACCTCTGTGCAGCCAAAA-T
* * **
10418905 GATTGAGCACCTCTGTGCTTCAATCGA-GAACTGACACCTCTCTGCAGTTAAAAAAAAAT
1 GATTGAGCACCTCTGTGCTTCAATCGAGGAGCTGACACCTCTGTGCAG-----CCAAAAT
* * * * * * * *
10418964 GACTGAGCACCTCTGTGCTTCAGTCG-GGAGCTAACACCTCTATGTAGCTAAGAC
1 GATTGAGCACCTCTGTGCTTCAATCGAGGAGCTGACACCTCTGTGCAGCCAAAAT
*
10419018 GATTGAGCACCTCTGTGCTTCAATAGAGGA-CTGACACCTCTGTGCAGCCAAAAT
1 GATTGAGCACCTCTGTGCTTCAATCGAGGAGCTGACACCTCTGTGCAGCCAAAAT
* * ** * * * *
10419072 GACTGAGCACCTCTGTGCTTCAATCTAAAATCTGGA-ACCTCTGTGCA-CTAGAAG
1 GATTGAGCACCTCTGTGCTTCAATCGAGGAGCT-GACACCTCTGTGCAGCCAAAAT
*
10419126 GATTGAGCACCTCTGTGCTACAATC
1 GATTGAGCACCTCTGTGCTTCAATC
10419151 TAAAATCAAG
Statistics
Matches: 203, Mismatches: 34, Indels: 19
0.79 0.13 0.07
Matches are distributed among these distances:
54 96 0.47
55 60 0.30
56 2 0.01
59 41 0.20
60 4 0.02
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (55 bp):
GATTGAGCACCTCTGTGCTTCAATCGAGGAGCTGACACCTCTGTGCAGCCAAAAT
Found at i:10420441 original size:20 final size:20
Alignment explanation
Indices: 10420397--10420734 Score: 232
Period size: 20 Copynumber: 16.6 Consensus size: 20
10420387 AATGACCAAT
*
10420397 AAAATCGCAACGCGATATA-
1 AAAATCGCAACGCGATTTAG
10420416 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
** ***
10420436 AAAATCGCAACGTTAAAAAG
1 AAAATCGCAACGCGATTTAG
**
10420456 AAAATCGCAACG-G-TCAAAAG
1 AAAATCGCAACGCGAT--TTAG
* **
10420476 AAAATCGCAACGCGAGCTTCC
1 AAAATCGCAACGCGA-TTTAG
**
10420497 AAGTTCGCAACGCGATTTAGAAG
1 AAAATCGCAACGCGATTT---AG
* * *
10420520 AAAATCGCAATGCGATTGAT
1 AAAATCGCAACGCGATTTAG
* * *
10420540 AGAATCGCAATGCGATTTAT
1 AAAATCGCAACGCGATTTAG
* * *
10420560 AGAATCGCAATGCGATTGAG
1 AAAATCGCAACGCGATTTAG
* * *
10420580 AGAGTCGCAACGCGATCTAGAAG
1 AAAATCGCAACGCGAT-T--TAG
* * *
10420603 AAAATCGCAATGCGACTGAG
1 AAAATCGCAACGCGATTTAG
* * * *
10420623 AGAATCGCAATGCGACTGAG
1 AAAATCGCAACGCGATTTAG
* * *
10420643 AGAATCGCAATGCGATTTAT
1 AAAATCGCAACGCGATTTAG
* *
10420663 AGAATCGCAACGCGATTGAG
1 AAAATCGCAACGCGATTTAG
*
10420683 AGAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
10420703 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
10420723 AAAATCGCAACG
1 AAAATCGCAACG
10420735 GTCAAAAGAA
Statistics
Matches: 263, Mismatches: 44, Indels: 23
0.80 0.13 0.07
Matches are distributed among these distances:
19 18 0.07
20 201 0.76
21 15 0.06
22 1 0.00
23 28 0.11
ACGTcount: A:0.39, C:0.20, G:0.23, T:0.18
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTAG
Found at i:10420575 original size:40 final size:40
Alignment explanation
Indices: 10420501--10420732 Score: 266
Period size: 40 Copynumber: 5.7 Consensus size: 40
10420491 GCTTCCAAGT
*
10420501 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGATAGAA
1 TCGCAACGCGATTTAG-AG--AATCGCAATGCGATTGAGAGAA
* * *
10420544 TCGCAATGCGATTTATAGAATCGCAATGCGATTGAGAGAG
1 TCGCAACGCGATTTAGAGAATCGCAATGCGATTGAGAGAA
* *
10420584 TCGCAACGCGATCTAGAAGAAAATCGCAATGCGACTGAGAGAA
1 TCGCAACGCGATTTAG-AG--AATCGCAATGCGATTGAGAGAA
* * * * *
10420627 TCGCAATGCGACTGAGAGAATCGCAATGCGATTTATAGAA
1 TCGCAACGCGATTTAGAGAATCGCAATGCGATTGAGAGAA
* * * *
10420667 TCGCAACGCGATTGAGAGAATCGCAACGCGATTTAGAAAA
1 TCGCAACGCGATTTAGAGAATCGCAATGCGATTGAGAGAA
*
10420707 TCGCAACGCGATTTAGAAAATCGCAA
1 TCGCAACGCGATTTAGAGAATCGCAA
10420733 CGGTCAAAAG
Statistics
Matches: 163, Mismatches: 23, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
40 111 0.68
41 2 0.01
42 4 0.02
43 46 0.28
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.20
Consensus pattern (40 bp):
TCGCAACGCGATTTAGAGAATCGCAATGCGATTGAGAGAA
Found at i:10420612 original size:83 final size:82
Alignment explanation
Indices: 10420501--10420732 Score: 306
Period size: 83 Copynumber: 2.8 Consensus size: 82
10420491 GCTTCCAAGT
* *
10420501 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGATAGAATCGCAATGCGATTTATAGAATC
1 TCGCAACGCGA-TTAGAAGAAAATCGCAATGCGATTGAGAGAATCGCAATGCGATTTAGAGAATC
*
10420566 GCAATGCGATTGAGAGAG
65 GCAATGCGATTGAGAGAA
* * *
10420584 TCGCAACGCGATCTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGACTGAGAGAATC
1 TCGCAACGCGAT-TAGAAGAAAATCGCAATGCGATTGAGAGAATCGCAATGCGATTTAGAGAATC
* *
10420649 GCAATGCGATTTATAGAA
65 GCAATGCGATTGAGAGAA
* * * * * *
10420667 TCGCAACGCGATT-G-AGAGAATCGCAACGCGATTTAGAAAATCGCAACGCGATTTAGAAAATCG
1 TCGCAACGCGATTAGAAGAAAATCGCAATGCGATTGAGAGAATCGCAATGCGATTTAGAGAATCG
10420730 CAA
66 CAA
10420733 CGGTCAAAAG
Statistics
Matches: 131, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
80 43 0.33
81 1 0.01
82 2 0.02
83 85 0.65
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.20
Consensus pattern (82 bp):
TCGCAACGCGATTAGAAGAAAATCGCAATGCGATTGAGAGAATCGCAATGCGATTTAGAGAATCG
CAATGCGATTGAGAGAA
Found at i:10420854 original size:5 final size:5
Alignment explanation
Indices: 10420826--10420871 Score: 65
Period size: 5 Copynumber: 8.6 Consensus size: 5
10420816 CGTATTACCA
10420826 CGACC ACGACC ACGACC ACGACC CGACC CGACC CGACC CGACC CGA
1 CGACC -CGACC -CGACC -CGACC CGACC CGACC CGACC CGACC CGA
10420872 GACGGCGGCG
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 23 0.57
6 17 0.43
ACGTcount: A:0.26, C:0.54, G:0.20, T:0.00
Consensus pattern (5 bp):
CGACC
Found at i:10421563 original size:6 final size:6
Alignment explanation
Indices: 10421542--10421590 Score: 84
Period size: 6 Copynumber: 8.5 Consensus size: 6
10421532 TCTCGTCTCG
10421542 GGTCG- GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
10421588 GGT
1 GGT
10421591 AATACGTGTC
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 10 0.23
6 33 0.77
ACGTcount: A:0.00, C:0.16, G:0.53, T:0.31
Consensus pattern (6 bp):
GGTCGT
Found at i:10421693 original size:20 final size:20
Alignment explanation
Indices: 10421668--10421711 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
10421658 TTTTTAACTA
*
10421668 TTCTTTTGACCGTTGCGATT
1 TTCTTTTGAACGTTGCGATT
*
10421688 TTCTTTTTAACGTTGCGATT
1 TTCTTTTGAACGTTGCGATT
10421708 TTCT
1 TTCT
10421712 AAATCGTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.18, G:0.16, T:0.55
Consensus pattern (20 bp):
TTCTTTTGAACGTTGCGATT
Found at i:10421722 original size:20 final size:20
Alignment explanation
Indices: 10421698--10421891 Score: 163
Period size: 20 Copynumber: 9.4 Consensus size: 20
10421688 TTCTTTTTAA
*
10421698 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTCTCTAAATCG
* *
10421718 TGTTGCGATTCTCTCAATCG
1 CGTTGCGATTCTCTAAATCG
* * *
10421738 CATTGCGATTCTCTCAGTCG
1 CGTTGCGATTCTCTAAATCG
* * *
10421758 CATTGCGATTCTCTCAGTCG
1 CGTTGCGATTCTCTAAATCG
* *
10421778 CATTGCGATTTTCTTCTAGATCG
1 CGTTGCGA--TTC-TCTAAATCG
* *
10421801 CGTTGCGACTCTCTCAATCG
1 CGTTGCGATTCTCTAAATCG
* *
10421821 CATTGCGATTCTATAAATCG
1 CGTTGCGATTCTCTAAATCG
* * *
10421841 CATTGCGATTCTATCAATCG
1 CGTTGCGATTCTCTAAATCG
*
10421861 CATTGCGATTTTCTTCTAAATCG
1 CGTTGCGA--TTC-TCTAAATCG
10421884 CGTTGCGA
1 CGTTGCGA
10421892 ACTTGGAAGC
Statistics
Matches: 147, Mismatches: 21, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
20 112 0.76
21 2 0.01
22 6 0.04
23 27 0.18
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.37
Consensus pattern (20 bp):
CGTTGCGATTCTCTAAATCG
Found at i:10421744 original size:40 final size:40
Alignment explanation
Indices: 10421700--10421874 Score: 215
Period size: 40 Copynumber: 4.3 Consensus size: 40
10421690 CTTTTTAACG
**
10421700 TTGCGATTTTCTAAATCGTGTTGCGATTCTCTCAATCGCA
1 TTGCGATTTTCTAAATCGCATTGCGATTCTCTCAATCGCA
* * * *
10421740 TTGCGATTCTCTCAGTCGCATTGCGATTCTCTCAGTCGCA
1 TTGCGATTTTCTAAATCGCATTGCGATTCTCTCAATCGCA
* * *
10421780 TTGCGATTTTCTTCTAGATCGCGTTGCGACTCTCTCAATCGCA
1 TTGCGA--TT-TTCTAAATCGCATTGCGATTCTCTCAATCGCA
* * *
10421823 TTGCGATTCTATAAATCGCATTGCGATTCTATCAATCGCA
1 TTGCGATTTTCTAAATCGCATTGCGATTCTCTCAATCGCA
10421863 TTGCGATTTTCT
1 TTGCGATTTTCT
10421875 TCTAAATCGC
Statistics
Matches: 111, Mismatches: 21, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
40 76 0.68
41 2 0.02
42 2 0.02
43 31 0.28
ACGTcount: A:0.19, C:0.25, G:0.18, T:0.38
Consensus pattern (40 bp):
TTGCGATTTTCTAAATCGCATTGCGATTCTCTCAATCGCA
Found at i:10421817 original size:83 final size:83
Alignment explanation
Indices: 10421708--10421891 Score: 296
Period size: 83 Copynumber: 2.2 Consensus size: 83
10421698 CGTTGCGATT
* * * * * *
10421708 TTCTAAATCGTGTTGCGATTCTCTCAATCGCATTGCGATTCTCTCAGTCGCATTGCGATTCTCTC
1 TTCTAAATCGCGTTGCGACTCTCTCAATCGCATTGCGATTCTATAAATCGCATTGCGATTCTATC
*
10421773 AGTCGCATTGCGATTTTC
66 AATCGCATTGCGATTTTC
*
10421791 TTCTAGATCGCGTTGCGACTCTCTCAATCGCATTGCGATTCTATAAATCGCATTGCGATTCTATC
1 TTCTAAATCGCGTTGCGACTCTCTCAATCGCATTGCGATTCTATAAATCGCATTGCGATTCTATC
10421856 AATCGCATTGCGATTTTC
66 AATCGCATTGCGATTTTC
10421874 TTCTAAATCGCGTTGCGA
1 TTCTAAATCGCGTTGCGA
10421892 ACTTGGAAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
83 92 1.00
ACGTcount: A:0.20, C:0.26, G:0.18, T:0.37
Consensus pattern (83 bp):
TTCTAAATCGCGTTGCGACTCTCTCAATCGCATTGCGATTCTATAAATCGCATTGCGATTCTATC
AATCGCATTGCGATTTTC
Found at i:10421907 original size:21 final size:21
Alignment explanation
Indices: 10421881--10421933 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
10421871 TTCTTCTAAA
10421881 TCGCGTTGCGAACTTGGAAGC
1 TCGCGTTGCGAACTTGGAAGC
*
10421902 TCGCGTTGCGAGCTTGGAAGC
1 TCGCGTTGCGAACTTGGAAGC
10421923 TCGCGTTGCGA
1 TCGCGTTGCGA
10421934 TTTTCTTTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.15, C:0.25, G:0.36, T:0.25
Consensus pattern (21 bp):
TCGCGTTGCGAACTTGGAAGC
Found at i:10421951 original size:20 final size:20
Alignment explanation
Indices: 10421926--10421979 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
10421916 TGGAAGCTCG
*
10421926 CGTTGCGATTTTCTTTTGAC
1 CGTTGCGATTTTCTTTTGAA
*
10421946 CGTTGCGATTTTCTTTTTAA
1 CGTTGCGATTTTCTTTTGAA
10421966 CGTTGCGATTTTCT
1 CGTTGCGATTTTCT
10421980 AAATCGCGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.11, C:0.19, G:0.19, T:0.52
Consensus pattern (20 bp):
CGTTGCGATTTTCTTTTGAA
Found at i:10422006 original size:19 final size:20
Alignment explanation
Indices: 10421966--10422016 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
10421956 TTCTTTTTAA
*
10421966 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCGAAATCG
*
10421986 CGTTGCGATTTT-GATATCG
1 CGTTGCGATTTTCGAAATCG
10422005 CGTTGCGATTTT
1 CGTTGCGATTTT
10422017 ATTGGTCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.16, C:0.18, G:0.24, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTTTCGAAATCG
Found at i:10422270 original size:23 final size:21
Alignment explanation
Indices: 10422221--10422267 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
10422211 CATATATTCT
* *
10422221 AAAATC-T-AATATCTAAAAC
1 AAAATCTTGAATATCCAAAAA
10422240 AAAATCTTGAATATCCAAAAA
1 AAAATCTTGAATATCCAAAAA
10422261 AAAATCT
1 AAAATCT
10422268 CTTTCAGTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 6 0.25
20 1 0.04
21 17 0.71
ACGTcount: A:0.57, C:0.15, G:0.02, T:0.26
Consensus pattern (21 bp):
AAAATCTTGAATATCCAAAAA
Found at i:10432931 original size:28 final size:29
Alignment explanation
Indices: 10432900--10432956 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 29
10432890 ATTAATAATT
*
10432900 TATTATATATTATAAAAATATAA-TATAA
1 TATTAAATATTATAAAAATATAATTATAA
*
10432928 TATTAAATATTATAATAATATAATTATAA
1 TATTAAATATTATAAAAATATAATTATAA
10432957 CAATAAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 21 0.81
29 5 0.19
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (29 bp):
TATTAAATATTATAAAAATATAATTATAA
Found at i:10432931 original size:48 final size:47
Alignment explanation
Indices: 10432872--10432969 Score: 119
Period size: 48 Copynumber: 2.1 Consensus size: 47
10432862 TATGAAATTA
* * **
10432872 ATAAATAATATT-AATTTTATTAATAAT-TTATTATATATTATAAAAAT
1 ATAAATAATATTAAATATTA-TAATAATATAATTATA-ACAATAAAAAT
10432919 ATAATATAATATTAAATATTATAATAATATAATTATAACAATAAAAAT
1 ATAA-ATAATATTAAATATTATAATAATATAATTATAACAATAAAAAT
10432967 ATA
1 ATA
10432970 GCATTATATT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
47 4 0.09
48 27 0.61
49 13 0.30
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (47 bp):
ATAAATAATATTAAATATTATAATAATATAATTATAACAATAAAAAT
Found at i:10436439 original size:11 final size:11
Alignment explanation
Indices: 10436423--10436483 Score: 52
Period size: 11 Copynumber: 5.4 Consensus size: 11
10436413 ATCTTCTTGC
10436423 ATTTTCTTGAT
1 ATTTTCTTGAT
*
10436434 ATTTTCTTAAT
1 ATTTTCTTGAT
*
10436445 CATATCTTCTTG-C
1 -AT-T-TTCTTGAT
10436458 ATTTTCTTGAT
1 ATTTTCTTGAT
* *
10436469 ATTATCTTGAA
1 ATTTTCTTGAT
10436480 ATTT
1 ATTT
10436484 CCTCCTTCAA
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
10 6 0.15
11 23 0.59
12 4 0.10
13 1 0.03
14 5 0.13
ACGTcount: A:0.23, C:0.13, G:0.07, T:0.57
Consensus pattern (11 bp):
ATTTTCTTGAT
Found at i:10436451 original size:35 final size:35
Alignment explanation
Indices: 10436405--10436476 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
10436395 CTTTTGGGCA
*
10436405 TTAATCATATCTTCTTGCATTTTCTTGATATTTTC
1 TTAATCATATCTTCTTGCATTTTCTTGATATTATC
10436440 TTAATCATATCTTCTTGCATTTTCTTGATATTATC
1 TTAATCATATCTTCTTGCATTTTCTTGATATTATC
10436475 TT
1 TT
10436477 GAAATTTCCT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.21, C:0.17, G:0.06, T:0.57
Consensus pattern (35 bp):
TTAATCATATCTTCTTGCATTTTCTTGATATTATC
Found at i:10440651 original size:7 final size:7
Alignment explanation
Indices: 10440636--10440667 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
10440626 TAATAAATAG
10440636 AAATG-A
1 AAATGCA
10440642 AAATGCA
1 AAATGCA
10440649 AAATGCA
1 AAATGCA
10440656 AAATGCA
1 AAATGCA
10440663 AAATG
1 AAATG
10440668 AGAAAATGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.20
7 20 0.80
ACGTcount: A:0.59, C:0.09, G:0.16, T:0.16
Consensus pattern (7 bp):
AAATGCA
Found at i:10440854 original size:2 final size:2
Alignment explanation
Indices: 10440847--10440875 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
10440837 AAAATGAATA
10440847 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10440876 ACAAAATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10440963 original size:2 final size:2
Alignment explanation
Indices: 10440956--10440984 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
10440946 GGCCCATAGA
10440956 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10440985 GAGATTTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10457876 original size:23 final size:23
Alignment explanation
Indices: 10457850--10457933 Score: 127
Period size: 23 Copynumber: 3.7 Consensus size: 23
10457840 TACCCCATAA
10457850 GGGAACCGATTCCCCCTTTGAAT
1 GGGAACCGATTCCCCCTTTGAAT
* *
10457873 GGGAACCGATTCCCCC--TGTAG
1 GGGAACCGATTCCCCCTTTGAAT
*
10457894 GGGAATCGATTCCCCCTTTGAAT
1 GGGAACCGATTCCCCCTTTGAAT
10457917 GGGAACCGATTCCCCCT
1 GGGAACCGATTCCCCCT
10457934 GTAGGGAAAT
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
21 18 0.34
23 35 0.66
ACGTcount: A:0.20, C:0.32, G:0.24, T:0.24
Consensus pattern (23 bp):
GGGAACCGATTCCCCCTTTGAAT
Found at i:10457904 original size:44 final size:44
Alignment explanation
Indices: 10457850--10457953 Score: 181
Period size: 44 Copynumber: 2.4 Consensus size: 44
10457840 TACCCCATAA
*
10457850 GGGAACCGATTCCCCCTTTGAATGGGAACCGATTCCCCCTGTAG
1 GGGAATCGATTCCCCCTTTGAATGGGAACCGATTCCCCCTGTAG
10457894 GGGAATCGATTCCCCCTTTGAATGGGAACCGATTCCCCCTGTAG
1 GGGAATCGATTCCCCCTTTGAATGGGAACCGATTCCCCCTGTAG
* *
10457938 GGAAATCGATACCCCC
1 GGGAATCGATTCCCCC
10457954 ATGGGGTTCT
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 57 1.00
ACGTcount: A:0.22, C:0.32, G:0.24, T:0.22
Consensus pattern (44 bp):
GGGAATCGATTCCCCCTTTGAATGGGAACCGATTCCCCCTGTAG
Found at i:10457952 original size:21 final size:20
Alignment explanation
Indices: 10457830--10457953 Score: 88
Period size: 23 Copynumber: 5.8 Consensus size: 20
10457820 TATTTGGCAG
* * *
10457830 AGGGAATCGATACCCCAT-A
1 AGGGAATCGATTCCCCCTGT
* *
10457849 AGGGAACCGATTCCCCCTTTGA
1 AGGGAATCGATTCCCCC--TGT
*
10457871 ATGGGAACCGATTCCCCCTGT
1 A-GGGAATCGATTCCCCCTGT
*
10457892 AGGGGAATCGATTCCCCCTTTGA
1 A-GGGAATCGATTCCCCC--TGT
*
10457915 ATGGGAACCGATTCCCCCTGT
1 A-GGGAATCGATTCCCCCTGT
*
10457936 AGGGAAATCGATACCCCC
1 AGGG-AATCGATTCCCCC
10457954 ATGGGGTTCT
Statistics
Matches: 86, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
19 14 0.16
20 3 0.03
21 33 0.38
22 2 0.02
23 34 0.40
ACGTcount: A:0.25, C:0.31, G:0.23, T:0.21
Consensus pattern (20 bp):
AGGGAATCGATTCCCCCTGT
Found at i:10460540 original size:40 final size:40
Alignment explanation
Indices: 10460485--10460566 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
10460475 TGCAGGTTTA
*
10460485 TAATACACTTCGGTGTATATGGTGTGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
10460525 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
10460565 TA
1 TA
10460567 GCACTACGGT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
Found at i:10460767 original size:48 final size:44
Alignment explanation
Indices: 10460671--10460789 Score: 148
Period size: 48 Copynumber: 2.6 Consensus size: 44
10460661 GTAACCGTGC
* *
10460671 AAATAAGCTTATGAGCTTACGGAATAATGGCAAGTATATTGGAA
1 AAATAAGCTTACGAGCTTATGGAATAATGGCAAGTATATTGGAA
* * *
10460715 AAATAAGCTTACGAGCTTATGGAATTTTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAA---T-AATGGCAAGTATATTGGAA
*
10460763 AAATAAGCTTACGAGCTTATGGGATAA
1 AAATAAGCTTACGAGCTTATGGAATAA
10460790 ATGGTAAGAG
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
44 24 0.37
45 1 0.02
47 1 0.02
48 39 0.60
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.31
Consensus pattern (44 bp):
AAATAAGCTTACGAGCTTATGGAATAATGGCAAGTATATTGGAA
Found at i:10463596 original size:17 final size:16
Alignment explanation
Indices: 10463573--10463667 Score: 70
Period size: 17 Copynumber: 5.6 Consensus size: 16
10463563 AATATATTAT
*
10463573 AAGAAGAATAAAAGAA
1 AAGAAGAAGAAAAGAA
*
10463589 ACAGAAGAAGAAAAAAA
1 A-AGAAGAAGAAAAGAA
10463606 ATAGAA-AATGAAAATGAA
1 A-AGAAGAA-GAAAA-GAA
10463624 AACGAAGAAGAAAA-AA
1 AA-GAAGAAGAAAAGAA
10463640 AATGAA-AACGAGAAAGAA
1 AA-GAAGAA-GA-AAAGAA
*
10463658 AAGAAAAAGA
1 AAGAAGAAGA
10463668 GAAAAAAATG
Statistics
Matches: 65, Mismatches: 5, Indels: 17
0.75 0.06 0.20
Matches are distributed among these distances:
15 2 0.03
16 12 0.18
17 32 0.49
18 17 0.26
19 2 0.03
ACGTcount: A:0.73, C:0.03, G:0.19, T:0.05
Consensus pattern (16 bp):
AAGAAGAAGAAAAGAA
Found at i:10463618 original size:6 final size:5
Alignment explanation
Indices: 10463582--10463664 Score: 60
Period size: 6 Copynumber: 14.8 Consensus size: 5
10463572 TAAGAAGAAT
*
10463582 AAAAG AAACAG AAGAAG AAAAA AAATAG AAAATG AAAATG AAAACG AAGAAG
1 AAAAG AAA-AG AA-AAG AAAAG AAA-AG AAAA-G AAAA-G AAAA-G AA-AAG
10463634 AAAA- AAAATG AAAACG AGAAAG AAAAG AAAA
1 AAAAG AAAA-G AAAA-G A-AAAG AAAAG AAAA
10463665 AGAGAAAAAA
Statistics
Matches: 66, Mismatches: 4, Indels: 16
0.77 0.05 0.19
Matches are distributed among these distances:
4 4 0.06
5 19 0.29
6 37 0.56
7 6 0.09
ACGTcount: A:0.73, C:0.04, G:0.18, T:0.05
Consensus pattern (5 bp):
AAAAG
Found at i:10463641 original size:22 final size:23
Alignment explanation
Indices: 10463608--10463664 Score: 82
Period size: 22 Copynumber: 2.5 Consensus size: 23
10463598 GAAAAAAAAT
10463608 AGAAAATGAAAATGAAAACGA-AGA
1 AGAAAA-GAAAATGAAAACGAGA-A
10463632 AGAAAA-AAAATGAAAACGAGAA
1 AGAAAAGAAAATGAAAACGAGAA
10463654 AGAAAAGAAAA
1 AGAAAAGAAAA
10463665 AGAGAAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
22 20 0.65
23 5 0.16
24 6 0.19
ACGTcount: A:0.72, C:0.04, G:0.19, T:0.05
Consensus pattern (23 bp):
AGAAAAGAAAATGAAAACGAGAA
Found at i:10463641 original size:28 final size:27
Alignment explanation
Indices: 10463596--10463665 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 27
10463586 GAAACAGAAG
* *
10463596 AAGAAAAAAAATAGAAAATGAAAATGA-A
1 AAGAAAAGAAA-A-AAAATGAAAACGAGA
10463624 AACGAAGAAGAAAAAAAATGAAAACGAGA
1 AA-GAA-AAGAAAAAAAATGAAAACGAGA
10463653 AAGAAAAGAAAAA
1 AAGAAAAGAAAAA
10463666 GAGAAAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
27 8 0.22
28 17 0.46
29 7 0.19
30 5 0.14
ACGTcount: A:0.74, C:0.03, G:0.17, T:0.06
Consensus pattern (27 bp):
AAGAAAAGAAAAAAAATGAAAACGAGA
Found at i:10463647 original size:34 final size:34
Alignment explanation
Indices: 10463583--10463677 Score: 115
Period size: 34 Copynumber: 2.8 Consensus size: 34
10463573 AAGAAGAATA
*
10463583 AAAG-AAACAGAAGAAGAAAAAAAATAGAAAATGA-
1 AAAGAAAAC-GAAGAAGAAAAAAAAT-GAAAACGAG
10463617 AAATGAAAACGAAGAAGAAAAAAAATGAAAACGAG
1 AAA-GAAAACGAAGAAGAAAAAAAATGAAAACGAG
*
10463652 AAAGAAAA-GAAAAAGAGAAAAAAATG
1 AAAGAAAACGAAGAAGA-AAAAAAATG
10463678 GGAGATGAAA
Statistics
Matches: 55, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
33 7 0.13
34 24 0.44
35 20 0.36
36 4 0.07
ACGTcount: A:0.73, C:0.03, G:0.19, T:0.05
Consensus pattern (34 bp):
AAAGAAAACGAAGAAGAAAAAAAATGAAAACGAG
Found at i:10463675 original size:11 final size:11
Alignment explanation
Indices: 10463582--10463667 Score: 68
Period size: 12 Copynumber: 7.5 Consensus size: 11
10463572 TAAGAAGAAT
10463582 AAAAGAAACAGA
1 AAAAGAAA-AGA
*
10463594 AGAAGAAAA-A
1 AAAAGAAAAGA
10463604 AAATAGAAAATGA
1 AAA-AGAAAA-GA
*
10463617 AAATGAAAACGA
1 AAAAGAAAA-GA
*
10463629 AGAAGAAAA-A
1 AAAAGAAAAGA
*
10463639 AAATGAAAACGA
1 AAAAGAAAA-GA
*
10463651 GAAAGAAAAGA
1 AAAAGAAAAGA
10463662 AAAAGA
1 AAAAGA
10463668 GAAAAAAATG
Statistics
Matches: 58, Mismatches: 11, Indels: 11
0.73 0.14 0.14
Matches are distributed among these distances:
10 11 0.19
11 14 0.24
12 29 0.50
13 4 0.07
ACGTcount: A:0.73, C:0.03, G:0.19, T:0.05
Consensus pattern (11 bp):
AAAAGAAAAGA
Found at i:10467217 original size:40 final size:40
Alignment explanation
Indices: 10467162--10467243 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
10467152 TGCAGGTTTA
10467162 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
10467202 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
10467242 TA
1 TA
10467244 GCACTACGGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
Found at i:10467444 original size:48 final size:48
Alignment explanation
Indices: 10467348--10467509 Score: 251
Period size: 48 Copynumber: 3.5 Consensus size: 48
10467338 GTAACCGTGC
* * * * *
10467348 AAATAAGCTTATGAGCTTACGGAA---T-AATGGCAAGTATATTGGAA
1 AAATAAGCTTACGAGCTTATGGAATTTTAAATGGTAAGTATTTTGGTA
10467392 AAATAAGCTTACGAGCTTATGGAATTTTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAATTTTAAATGGTAAGTATTTTGGTA
10467440 AAATAAGCTTACGAGCTTATGGAATTTTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAATTTTAAATGGTAAGTATTTTGGTA
10467488 AAATAAGCTTACGAGCTTATGG
1 AAATAAGCTTACGAGCTTATGG
10467510 GATAAATGGT
Statistics
Matches: 109, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
44 22 0.20
47 1 0.01
48 86 0.79
ACGTcount: A:0.37, C:0.08, G:0.22, T:0.33
Consensus pattern (48 bp):
AAATAAGCTTACGAGCTTATGGAATTTTAAATGGTAAGTATTTTGGTA
Found at i:10470906 original size:19 final size:20
Alignment explanation
Indices: 10470882--10470920 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
10470872 CCCGTGAACA
*
10470882 GTAGGGGG-ATCGGTTCCCT
1 GTAGGGGGTATCGGTACCCT
10470901 GTAGGGGGTATCGGTACCCT
1 GTAGGGGGTATCGGTACCCT
10470921 AAAATCATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.13, C:0.21, G:0.41, T:0.26
Consensus pattern (20 bp):
GTAGGGGGTATCGGTACCCT
Found at i:10493931 original size:302 final size:302
Alignment explanation
Indices: 10493385--10493977 Score: 1168
Period size: 302 Copynumber: 2.0 Consensus size: 302
10493375 TTCAAAACTT
*
10493385 GGTGTAATTTCTTTAAAATGGTGCTGCTGTAGTACATCGAACAATAGCCCGTCATGTTTTCAAGT
1 GGTGTAATTCCTTTAAAATGGTGCTGCTGTAGTACATCGAACAATAGCCCGTCATGTTTTCAAGT
10493450 ATTTCAACTTGAATAATTTTTTTCTGAATGCTCAATAATTGTTCAAGTTTTCATCACTTCATATG
66 ATTTCAACTTGAATAATTTTTTTCTGAATGCTCAATAATTGTTCAAGTTTTCATCACTTCATATG
*
10493515 CAAATGCTCCATGATTAGCTGGATGTGAACTGAAGGTATGATATGATATCGACATTCGTAGTGCA
131 CAAATGCTCCATAATTAGCTGGATGTGAACTGAAGGTATGATATGATATCGACATTCGTAGTGCA
10493580 CTTATTTCTTGGTTTCTTATTGTAGTTGGTGGAGATGTTCTTTGGGGGTTTGGTGTGTATTGTGT
196 CTTATTTCTTGGTTTCTTATTGTAGTTGGTGGAGATGTTCTTTGGGGGTTTGGTGTGTATTGTGT
10493645 TACAAGATATAAATCAAGGTCATGCCATGCCTAGATTACATG
261 TACAAGATATAAATCAAGGTCATGCCATGCCTAGATTACATG
10493687 GGTGTAATTCCTTTAAAATGGTGCTGCTGTAGTACATCGAACAATAGCCCGTCATGTTTTCAAGT
1 GGTGTAATTCCTTTAAAATGGTGCTGCTGTAGTACATCGAACAATAGCCCGTCATGTTTTCAAGT
10493752 ATTTCAACTTGAATAATTTTTTTCTGAATGCTCAATAATTGTTCAAGTTTTCATCACTTCATATG
66 ATTTCAACTTGAATAATTTTTTTCTGAATGCTCAATAATTGTTCAAGTTTTCATCACTTCATATG
10493817 CAAATGCTCCATAATTAGCTGGATGTGAACTGAAGGTATGATATGATATCGACATTCGTAGTGCA
131 CAAATGCTCCATAATTAGCTGGATGTGAACTGAAGGTATGATATGATATCGACATTCGTAGTGCA
10493882 CTTATTTCTTGGTTTCTTATTGTAGTTGGTGGAGATGTTCTTTGGGGGTTTGGTGTGTATTGTGT
196 CTTATTTCTTGGTTTCTTATTGTAGTTGGTGGAGATGTTCTTTGGGGGTTTGGTGTGTATTGTGT
10493947 TACAAGATATAAATCAAGGTCATGCCATGCC
261 TACAAGATATAAATCAAGGTCATGCCATGCC
10493978 GGTCATGCCA
Statistics
Matches: 289, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
302 289 1.00
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.39
Consensus pattern (302 bp):
GGTGTAATTCCTTTAAAATGGTGCTGCTGTAGTACATCGAACAATAGCCCGTCATGTTTTCAAGT
ATTTCAACTTGAATAATTTTTTTCTGAATGCTCAATAATTGTTCAAGTTTTCATCACTTCATATG
CAAATGCTCCATAATTAGCTGGATGTGAACTGAAGGTATGATATGATATCGACATTCGTAGTGCA
CTTATTTCTTGGTTTCTTATTGTAGTTGGTGGAGATGTTCTTTGGGGGTTTGGTGTGTATTGTGT
TACAAGATATAAATCAAGGTCATGCCATGCCTAGATTACATG
Found at i:10493983 original size:14 final size:14
Alignment explanation
Indices: 10493964--10493991 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
10493954 TATAAATCAA
10493964 GGTCATGCCATGCC
1 GGTCATGCCATGCC
10493978 GGTCATGCCATGCC
1 GGTCATGCCATGCC
10493992 TAGATTACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.36, G:0.29, T:0.21
Consensus pattern (14 bp):
GGTCATGCCATGCC
Found at i:10494858 original size:2 final size:2
Alignment explanation
Indices: 10494851--10494922 Score: 144
Period size: 2 Copynumber: 36.0 Consensus size: 2
10494841 GCACATATGG
10494851 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
10494893 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
10494923 GTACATGCAC
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 70 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:10499634 original size:15 final size:13
Alignment explanation
Indices: 10499598--10499623 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10499588 AACAGCTTGA
10499598 ATTAATATAATTT
1 ATTAATATAATTT
10499611 ATTAATATAATTT
1 ATTAATATAATTT
10499624 TTATAATTAT
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTAATATAATTT
Found at i:10500873 original size:17 final size:16
Alignment explanation
Indices: 10500851--10500893 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 16
10500841 CCCGTCCTTT
10500851 TTATATTATTATTTATA
1 TTATATTATTA-TTATA
*
10500868 TTATATTATCATTATA
1 TTATATTATTATTATA
*
10500884 AT-TATTATTA
1 TTATATTATTA
10500894 ATAAATAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 7 0.30
16 6 0.26
17 10 0.43
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (16 bp):
TTATATTATTATTATA
Found at i:10501190 original size:18 final size:18
Alignment explanation
Indices: 10501167--10501216 Score: 91
Period size: 18 Copynumber: 2.8 Consensus size: 18
10501157 TCGACCGCCA
10501167 CCTCCAACTGCTCCACTG
1 CCTCCAACTGCTCCACTG
*
10501185 CCTCCAACTGCTCCGCTG
1 CCTCCAACTGCTCCACTG
10501203 CCTCCAACTGCTCC
1 CCTCCAACTGCTCC
10501217 CCAAATGCTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.14, C:0.52, G:0.12, T:0.22
Consensus pattern (18 bp):
CCTCCAACTGCTCCACTG
Found at i:10501216 original size:9 final size:9
Alignment explanation
Indices: 10501168--10501216 Score: 57
Period size: 9 Copynumber: 5.4 Consensus size: 9
10501158 CGACCGCCAC
10501168 CTCCAACTG
1 CTCCAACTG
10501177 CTCC-ACTG
1 CTCCAACTG
10501185 CCTCCAACTG
1 -CTCCAACTG
*
10501195 CTCC-GCTG
1 CTCCAACTG
10501203 CCTCCAACTG
1 -CTCCAACTG
10501213 CTCC
1 CTCC
10501217 CCAAATGCTC
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
8 7 0.21
9 20 0.59
10 7 0.21
ACGTcount: A:0.14, C:0.51, G:0.12, T:0.22
Consensus pattern (9 bp):
CTCCAACTG
Found at i:10502071 original size:17 final size:18
Alignment explanation
Indices: 10502045--10502079 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
10502035 TCATTGTCTT
*
10502045 ATATTTATAT-ATATTTA
1 ATATTAATATCATATTTA
10502062 ATATTAATATCATATTTA
1 ATATTAATATCATATTTA
10502080 GTCCTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (18 bp):
ATATTAATATCATATTTA
Found at i:10505542 original size:20 final size:20
Alignment explanation
Indices: 10505517--10505555 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
10505507 CCGTTGTAGC
*
10505517 CAGGGTGTATGGATACACTG
1 CAGGGTGTATCGATACACTG
10505537 CAGGGTGTATCGATACACT
1 CAGGGTGTATCGATACACT
10505556 AGTGTATGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.26
Consensus pattern (20 bp):
CAGGGTGTATCGATACACTG
Found at i:10505582 original size:20 final size:19
Alignment explanation
Indices: 10505520--10505582 Score: 53
Period size: 20 Copynumber: 3.4 Consensus size: 19
10505510 TTGTAGCCAG
*
10505520 GGTGTATGGATACACTGCA-G
1 GGTGTATGGATACA-T-CATA
*
10505540 GGTGTATCGATACA-C-TA
1 GGTGTATGGATACATCATA
10505557 -GTGTATGGATACAGTCATA
1 GGTGTATGGATACA-TCATA
10505576 GGTGTAT
1 GGTGTAT
10505583 CGGTATACTA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
16 12 0.34
17 1 0.03
18 1 0.03
19 2 0.06
20 19 0.54
ACGTcount: A:0.27, C:0.13, G:0.30, T:0.30
Consensus pattern (19 bp):
GGTGTATGGATACATCATA
Found at i:10505680 original size:36 final size:36
Alignment explanation
Indices: 10505625--10505725 Score: 166
Period size: 36 Copynumber: 2.8 Consensus size: 36
10505615 TCACAGGTGC
* *
10505625 ATGGATACACCTGCAGGGTGTATAGATACACCAGTGT
1 ATGGATACA-CTGCAGGGTGTATCGATACACCAGTAT
*
10505662 ATGGATACACTGCAGGGTGTATCGATACACTAGTAT
1 ATGGATACACTGCAGGGTGTATCGATACACCAGTAT
10505698 ATGGATACACTGCAGGGTGTATCGATAC
1 ATGGATACACTGCAGGGTGTATCGATAC
10505726 CCTTTGACAC
Statistics
Matches: 61, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
36 52 0.85
37 9 0.15
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.26
Consensus pattern (36 bp):
ATGGATACACTGCAGGGTGTATCGATACACCAGTAT
Found at i:10505683 original size:20 final size:20
Alignment explanation
Indices: 10505620--10505725 Score: 102
Period size: 16 Copynumber: 5.7 Consensus size: 20
10505610 AGCAGTCACA
*
10505620 GGTGCATGGATACACCTGCAG
1 GGTGTATGGATACA-CTGCAG
*
10505641 GGTGTATAGATACAC--CA-
1 GGTGTATGGATACACTGCAG
10505658 -GTGTATGGATACACTGCAG
1 GGTGTATGGATACACTGCAG
*
10505677 GGTGTATCGATACACT--A-
1 GGTGTATGGATACACTGCAG
*
10505694 -GTATATGGATACACTGCAG
1 GGTGTATGGATACACTGCAG
*
10505713 GGTGTATCGATAC
1 GGTGTATGGATAC
10505726 CCTTTGACAC
Statistics
Matches: 69, Mismatches: 8, Indels: 17
0.73 0.09 0.18
Matches are distributed among these distances:
16 26 0.38
18 6 0.09
20 25 0.36
21 12 0.17
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.25
Consensus pattern (20 bp):
GGTGTATGGATACACTGCAG
Found at i:10505974 original size:21 final size:18
Alignment explanation
Indices: 10505950--10506006 Score: 69
Period size: 18 Copynumber: 3.0 Consensus size: 18
10505940 ATGTTTAATA
10505950 AAAAAGATACCAATTGTT
1 AAAAAGATACCAATTGTT
**
10505968 AACAAAAGGATATAAATTGTT
1 -A-AAAA-GATACCAATTGTT
10505989 AAAAAGATACCAATTGTT
1 AAAAAGATACCAATTGTT
10506007 GGAAAATATA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
18 11 0.34
19 5 0.16
20 5 0.16
21 11 0.34
ACGTcount: A:0.51, C:0.09, G:0.12, T:0.28
Consensus pattern (18 bp):
AAAAAGATACCAATTGTT
Found at i:10509155 original size:16 final size:18
Alignment explanation
Indices: 10509107--10509178 Score: 60
Period size: 20 Copynumber: 3.9 Consensus size: 18
10509097 TCACAGCCAT
10509107 GGTGTATGGATACACTGCA
1 GGTGTATGGATACACT-CA
**
10509126 GGGTGTATCAATACACT-A
1 -GGTGTATGGATACACTCA
10509144 -GTGTATGGATACACTCATA
1 GGTGTATGGATACACTC--A
10509163 GGTGTATCGG-TACACT
1 GGTGTAT-GGATACACT
10509179 ATTAGAGTTC
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
16 13 0.30
18 1 0.02
19 1 0.02
20 26 0.60
21 2 0.05
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (18 bp):
GGTGTATGGATACACTCA
Found at i:10509167 original size:36 final size:36
Alignment explanation
Indices: 10509108--10509179 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
10509098 CACAGCCATG
*
10509108 GTGTATGGATACACTGCAGGGTGTATCAATACACTA
1 GTGTATGGATACACTGCAAGGTGTATCAATACACTA
**
10509144 GTGTATGGATACACT-CATAGGTGTATCGGTACACTA
1 GTGTATGGATACACTGCA-AGGTGTATCAATACACTA
10509180 TTAGAGTTCG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
35 2 0.06
36 30 0.94
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (36 bp):
GTGTATGGATACACTGCAAGGTGTATCAATACACTA
Found at i:10509279 original size:20 final size:20
Alignment explanation
Indices: 10509254--10509296 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
10509244 AATGTATAGG
10509254 TACACTACAGGGTATATCGA
1 TACACTACAGGGTATATCGA
* *
10509274 TACACTACAGGGTGTATGGA
1 TACACTACAGGGTATATCGA
10509294 TAC
1 TAC
10509297 CCTTTGACAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.26
Consensus pattern (20 bp):
TACACTACAGGGTATATCGA
Found at i:10510856 original size:137 final size:136
Alignment explanation
Indices: 10510610--10511082 Score: 642
Period size: 137 Copynumber: 3.4 Consensus size: 136
10510600 AAAAGGGATT
* *
10510610 GTGTTATCACAAATATCTTTAAAGATGGCCAGATGTCCTCATCATGAAGGAACAATGCCATCTAC
1 GTGTTATCACAAATATCTTTAAAGATGGCCAGATGTCCTCATCAAGAAGGAACAATGTCATCTAC
* *
10510675 CAATCAGAACTCCTCATCACGAAGGAGCCGTATCATCCTTAGATAATCAGATGTCCTCATCACGA
66 CAATCAGAACTCCTCATCACGAAGGAGCAGCATCATCCTTAGATAA-CAGATGTCCTCATCACGA
10510740 AGGAACC
130 AGGAACC
* * * *
10510747 GTGTTATCTA-AAATATCTTTAATGATGGTCAGATGTCCTCATCACGAAGGAACAATGTCATCTG
1 GTGTTATC-ACAAATATCTTTAAAGATGGCCAGATGTCCTCATCAAGAAGGAACAATGTCATCTA
* * * *
10510811 CCAATCAGAACTCCTCATCACGAAAGAGTAGCATCATCCTCAGATAACCAAATGTCCTCATCACG
65 CCAATCAGAACTCCTCATCACGAAGGAGCAGCATCATCCTTAGATAA-CAGATGTCCTCATCACG
*
10510876 AATGAACC
129 AAGGAACC
* * * *
10510884 ATGTTATCTCAAATATCTTTAAAGATGGCCAGATGTCCTCATCAAGAAGGAACAATTTCATCCAC
1 GTGTTATCACAAATATCTTTAAAGATGGCCAGATGTCCTCATCAAGAAGGAACAATGTCATCTAC
* * * *
10510949 CAATTAGAACTCCTCATCATGAAGGAGCAACATCATCCTTAGATAACAAGATGTCTTCATCACGA
66 CAATCAGAACTCCTCATCACGAAGGAGCAGCATCATCCTTAGATAAC-AGATGTCCTCATCACGA
*
10511014 AGGAACT
130 AGGAACC
** * * * *
10511021 GTGTTATCACTATTTATCTCTAAACATGACCAAATGTCCTCATCAAGAAGGAACAATGTCAT
1 GTGTTATCAC-AAATATCTTTAAAGATGGCCAGATGTCCTCATCAAGAAGGAACAATGTCAT
10511083 ACACCATTTT
Statistics
Matches: 292, Mismatches: 40, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
136 1 0.00
137 246 0.84
138 45 0.15
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (136 bp):
GTGTTATCACAAATATCTTTAAAGATGGCCAGATGTCCTCATCAAGAAGGAACAATGTCATCTAC
CAATCAGAACTCCTCATCACGAAGGAGCAGCATCATCCTTAGATAACAGATGTCCTCATCACGAA
GGAACC
Found at i:10511256 original size:12 final size:12
Alignment explanation
Indices: 10511239--10511276 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
10511229 TCTCATCCTT
10511239 TTTATATTATTA
1 TTTATATTATTA
*
10511251 TTTATATTACTA
1 TTTATATTATTA
10511263 -TTATAATTATTA
1 TTTAT-ATTATTA
10511275 TT
1 TT
10511277 AATAAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
11 4 0.18
12 17 0.77
13 1 0.05
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (12 bp):
TTTATATTATTA
Found at i:10511579 original size:18 final size:18
Alignment explanation
Indices: 10511558--10511600 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
10511548 ACCGCCGCCC
10511558 CTAACTGATCCGCCACCT
1 CTAACTGATCCGCCACCT
10511576 CTAACTGATCCGCCACCT
1 CTAACTGATCCGCCACCT
*
10511594 CCAACTG
1 CTAACTG
10511601 CTCCCCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.23, C:0.44, G:0.12, T:0.21
Consensus pattern (18 bp):
CTAACTGATCCGCCACCT
Found at i:10514858 original size:2 final size:2
Alignment explanation
Indices: 10514851--10514879 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
10514841 CATATCGTAA
10514851 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10514880 GTTTACGAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10519691 original size:24 final size:24
Alignment explanation
Indices: 10519664--10519723 Score: 59
Period size: 24 Copynumber: 2.4 Consensus size: 24
10519654 AATGTTAAAC
10519664 TAATCCAAATTAAATTAC-AAAAGA
1 TAATCCAAATTAAATT-CTAAAAGA
** *
10519688 TAATTTAAATTTAATTCTAAAAGA
1 TAATCCAAATTAAATTCTAAAAGA
10519712 TAAATCCTAAAT
1 T-AATCC-AAAT
10519724 CTTGAATTTG
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
23 1 0.04
24 20 0.71
25 3 0.11
26 4 0.14
ACGTcount: A:0.53, C:0.10, G:0.03, T:0.33
Consensus pattern (24 bp):
TAATCCAAATTAAATTCTAAAAGA
Found at i:10523196 original size:8 final size:8
Alignment explanation
Indices: 10523183--10523208 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
10523173 AAATGATATA
10523183 AAAATAAT
1 AAAATAAT
10523191 AAAATAAT
1 AAAATAAT
10523199 AAAATAAT
1 AAAATAAT
10523207 AA
1 AA
10523209 TAAAAACATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (8 bp):
AAAATAAT
Found at i:10523494 original size:23 final size:23
Alignment explanation
Indices: 10523459--10523506 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
10523449 ATCAAGTACA
*
10523459 ATAATATATTAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
*
10523482 ATAATGTAATAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
10523505 AT
1 AT
10523507 TGACATATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.38
Consensus pattern (23 bp):
ATAATATAATAGGTAGCGCTTAT
Found at i:10524457 original size:182 final size:180
Alignment explanation
Indices: 10524145--10524782 Score: 1001
Period size: 182 Copynumber: 3.5 Consensus size: 180
10524135 ACTTTTTTAC
* *
10524145 TACCGATTTTGTCATTTCGAGACTGATTTTGTCATA-TTTTACCTGTTATATTGTTATGGATCGA
1 TACCGGTTTTGTCATTTCGAGACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
*
10524209 TACATTTTTATAAAGTATCGACACTTTATTGACGTTATAACTTCTTTTCTTTTAAA-TTCTAAAA
66 TACATTTTTATAAAGTATCGACACTTTATT-A-GTTATAACTTCTTCTCTTTTAAATTTC-AAAA
* *
10524273 GTGTCGATACTTATAATAAAGTATTGACACTTTCAACATATCTGGTAGCTCTT
128 GTGTCGATACTTATAATAAAGTATCGACACTATCAACATATCTGGTAGCTCTT
* *
10524326 TACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATACTTTTACCTGTTATATTGTTATGGATCGA
1 TACCGGTTTTGTCATTTCGAGACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
*
10524391 TACATTTTTATAAAGTATCGACACTTTATTAGTGCTATAACTTCTTCTCTATTAAATTTCAAAAG
66 TACATTTTTATAAAGTATCGACACTTTATTAGT--TATAACTTCTTCTCTTTTAAATTTCAAAAG
*
10524456 TGTCGATACTTATAATAAAGTATCGACACTATCAACATATATGGTAGCTCTT
129 TGTCGATACTTATAATAAAGTATCGACACTATCAACATATCTGGTAGCTCTT
* * *
10524508 TACCGGTTTTGTCATTTCGAGATCGGTTTTGTCATATTTTTACTTGTTATATTGTTATGGATCGA
1 TACCGGTTTTGTCATTTCGAGACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
*
10524573 TACATTTTTATAAAGTATCGACACTTTATTAGTATTATAACTTCTTCTCTTTTAAATTCCAAAAG
66 TACATTTTTATAAAGTATCGACACTTTATTAG--TTATAACTTCTTCTCTTTTAAATTTCAAAAG
** *
10524638 TGTCGATACTTATAATAAAGTATCGACACTATCAACATATCCAGTAACTCTT
129 TGTCGATACTTATAATAAAGTATCGACACTATCAACATATCTGGTAGCTCTT
* ** * *
10524690 TACCTGTTTTGTCATTTATAGACCGATTTTGTCATTTTTTTTACCTGTTAGATTGTTATGGATCG
1 TACCGGTTTTGTCATTTCGAGACCGATTTTGTCA-TATTTTTACCTGTTATATTGTTATGGATCG
10524755 ATACATTTTTATAAAGTATCGACACTTT
65 ATACATTTTTATAAAGTATCGACACTTT
10524783 CAATATATCC
Statistics
Matches: 425, Mismatches: 25, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
180 2 0.00
181 34 0.08
182 330 0.78
183 58 0.14
184 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.44
Consensus pattern (180 bp):
TACCGGTTTTGTCATTTCGAGACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
TACATTTTTATAAAGTATCGACACTTTATTAGTTATAACTTCTTCTCTTTTAAATTTCAAAAGTG
TCGATACTTATAATAAAGTATCGACACTATCAACATATCTGGTAGCTCTT
Found at i:10524850 original size:113 final size:113
Alignment explanation
Indices: 10524652--10525003 Score: 557
Period size: 113 Copynumber: 3.1 Consensus size: 113
10524642 GATACTTATA
* * * * *
10524652 ATAAAGTATCGACACTATCAACATATCC-AGTAACTCTTTACCTGTTTTGTCATTTATAGACCGA
1 ATAAAGTATCGACACTTTCAATATATCCGA-TAGCGCTTTACCTGTTTTGTCATTTATAGACCGG
*
10524716 TTTTGTCATTTTTTTTACCTGTTAGATTGTTATGGATCGATACATTTTT
65 TTTTGTCATTTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
10524765 ATAAAGTATCGACACTTTCAATATATCCGATAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGATAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* * *
10524830 TTTGACATTTTTTTTTCCTGTTATATTGTTATGGATTGATACATTTTT
66 TTTGTCATTTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
*
10524878 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGATAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* * *
10524943 TTTGTCA--TTTTTTACCTGTTATATTGTTATCGATCAATATATTTTT
66 TTTGTCATTTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
10524989 ATAAAGTATCGACAC
1 ATAAAGTATCGACAC
10525004 AAACCGACAA
Statistics
Matches: 222, Mismatches: 16, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
111 49 0.22
113 172 0.77
114 1 0.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (113 bp):
ATAAAGTATCGACACTTTCAATATATCCGATAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
TTTGTCATTTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
Found at i:10525828 original size:31 final size:31
Alignment explanation
Indices: 10525760--10525835 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 31
10525750 TTTAAATAGT
* *
10525760 TATTATATTTTATATTAATATATTTATGTAAA
1 TATTAT-TTTTATATTAAAATATATATGTAAA
* *
10525792 TATTATTTTTTTATTAAAATA-ATATTTAAA
1 TATTATTTTTATATTAAAATATATATGTAAA
10525822 TAATTATTATTTAT
1 T-ATTATT-TTTAT
10525836 TTAGAATTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
30 8 0.22
31 19 0.51
32 10 0.27
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (31 bp):
TATTATTTTTATATTAAAATATATATGTAAA
Found at i:10525830 original size:34 final size:31
Alignment explanation
Indices: 10525750--10525838 Score: 88
Period size: 34 Copynumber: 2.7 Consensus size: 31
10525740 TTAGTATTTT
* *
10525750 TTTAAATAGTTATTATATTTTATATTAATATA
1 TTTAAATAATTATTAT-TTTTTTATTAATATA
** *
10525782 TTTATGTAAATATTATTTTTTTATTAAAATAATA
1 TTTAAATAATTATTATTTTTTTATT--AAT-ATA
*
10525816 TTTAAATAATTATTATTTATTTA
1 TTTAAATAATTATTATTTTTTTA
10525839 GAATTATTAA
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
31 8 0.18
32 12 0.27
33 3 0.07
34 22 0.49
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (31 bp):
TTTAAATAATTATTATTTTTTTATTAATATA
Found at i:10526001 original size:17 final size:17
Alignment explanation
Indices: 10525979--10526032 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
10525969 AATGTTAATA
10525979 TTTAAATTTATTTTTAT
1 TTTAAATTTATTTTTAT
* * * *
10525996 TTTAAAGTTATTATGAA
1 TTTAAATTTATTTTTAT
* *
10526013 TTTATATTAATTTTTAT
1 TTTAAATTTATTTTTAT
10526030 TTT
1 TTT
10526033 TTATAATGTA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (17 bp):
TTTAAATTTATTTTTAT
Found at i:10527614 original size:21 final size:21
Alignment explanation
Indices: 10527601--10527707 Score: 103
Period size: 21 Copynumber: 5.1 Consensus size: 21
10527591 GCCCACCAGT
*
10527601 TTACATTCTGAGCCCGCAGGG
1 TTACATTCTGAGCCCCCAGGG
* *
10527622 TTACATTCTGAGCTCGCAGGG
1 TTACATTCTGAGCCCCCAGGG
* *
10527643 TTACATTCCGAGCCCGCAGGG
1 TTACATTCTGAGCCCCCAGGG
10527664 TTACATTCCT-AGCCCGCCA-GG
1 TTACATT-CTGAGCCC-CCAGGG
* *
10527685 TTACATGCCT-AGCCCGCAGGG
1 TTACAT-TCTGAGCCCCCAGGG
10527706 TT
1 TT
10527708 TTATACCGTA
Statistics
Matches: 75, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
20 2 0.03
21 70 0.93
22 3 0.04
ACGTcount: A:0.19, C:0.31, G:0.26, T:0.24
Consensus pattern (21 bp):
TTACATTCTGAGCCCCCAGGG
Found at i:10527647 original size:42 final size:42
Alignment explanation
Indices: 10527590--10527707 Score: 143
Period size: 42 Copynumber: 2.8 Consensus size: 42
10527580 TCATATGCCA
* *
10527590 AGCCCACCAGTTTACATTCTGAGCCCGCAGGGTTACATT-CT
1 AGCCCGCCAGGTTACATTCTGAGCCCGCAGGGTTACATTCCT
* *
10527631 GAGCTCG-CAGGGTTACATTCCGAGCCCGCAGGGTTACATTCCT
1 -AGCCCGCCA-GGTTACATTCTGAGCCCGCAGGGTTACATTCCT
*
10527674 AGCCCGCCAGGTTACATGCCT-AGCCCGCAGGGTT
1 AGCCCGCCAGGTTACAT-TCTGAGCCCGCAGGGTT
10527708 TTATACCGTA
Statistics
Matches: 65, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
41 2 0.03
42 58 0.89
43 5 0.08
ACGTcount: A:0.19, C:0.32, G:0.25, T:0.23
Consensus pattern (42 bp):
AGCCCGCCAGGTTACATTCTGAGCCCGCAGGGTTACATTCCT
Found at i:10528258 original size:28 final size:28
Alignment explanation
Indices: 10528226--10528304 Score: 97
Period size: 28 Copynumber: 2.8 Consensus size: 28
10528216 GATAAATGTT
* *
10528226 TTTAAAATACAAATTATATTATTCAAAA
1 TTTAAAATAAAAATAATATTATTCAAAA
*
10528254 TTTAAAATAAAAATAATATTATTCGAAA
1 TTTAAAATAAAAATAATATTATTCAAAA
*
10528282 TTTAAATTTAAAATATAA-ATTAT
1 TTTAAA-ATAAAA-ATAATATTAT
10528305 AGTATTCGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
28 31 0.69
29 10 0.22
30 4 0.09
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (28 bp):
TTTAAAATAAAAATAATATTATTCAAAA
Found at i:10528289 original size:34 final size:34
Alignment explanation
Indices: 10528251--10528320 Score: 113
Period size: 34 Copynumber: 2.1 Consensus size: 34
10528241 ATATTATTCA
*
10528251 AAATTTAAAATAAAAATAATATTATTCGAAATTT
1 AAATTTAAAATAAAAATAATAGTATTCGAAATTT
* *
10528285 AAATTTAAAATATAAATTATAGTATTCGAAATTT
1 AAATTTAAAATAAAAATAATAGTATTCGAAATTT
10528319 AA
1 AA
10528321 CATTAAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.54, C:0.03, G:0.04, T:0.39
Consensus pattern (34 bp):
AAATTTAAAATAAAAATAATAGTATTCGAAATTT
Found at i:10528316 original size:28 final size:28
Alignment explanation
Indices: 10528226--10528329 Score: 93
Period size: 28 Copynumber: 3.5 Consensus size: 28
10528216 GATAAATGTT
* *
10528226 TTTAAAATACAAATTATATTATTCAAAA
1 TTTAAAATATAAATTATATTATTCGAAA
* *
10528254 TTTAAAATAAAAATAATATTATTCGAAATTTAAA
1 TTTAAAATATAAATTATATTATTCG------AAA
*
10528288 TTTAAAATATAAATTATAGTATTCGAAA
1 TTTAAAATATAAATTATATTATTCGAAA
*
10528316 TTTAACAT-TAAATT
1 TTTAAAATATAAATT
10528330 TCAACTTAAT
Statistics
Matches: 63, Mismatches: 7, Indels: 13
0.76 0.08 0.16
Matches are distributed among these distances:
27 6 0.10
28 32 0.51
34 25 0.40
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (28 bp):
TTTAAAATATAAATTATATTATTCGAAA
Found at i:10528327 original size:34 final size:32
Alignment explanation
Indices: 10528227--10528327 Score: 111
Period size: 34 Copynumber: 3.2 Consensus size: 32
10528217 ATAAATGTTT
* *
10528227 TTAAAATACAAATTATATTATTCAAAATTTAAA
1 TTAAAATATAAATTATA-TATTCGAAATTTAAA
*
10528260 ATAAAA-AT-AA-TAT-TATTCGAAATTTAAA
1 TTAAAATATAAATTATATATTCGAAATTTAAA
10528288 TTTAAAATATAAATTATAGTATTCGAAATTTAACA
1 -TTAAAATATAAATTATA-TATTCGAAATTTAA-A
10528323 TTAAA
1 TTAAA
10528328 TTTCAACTTA
Statistics
Matches: 57, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
28 14 0.25
29 5 0.09
30 5 0.09
31 4 0.07
32 4 0.07
33 5 0.09
34 19 0.33
35 1 0.02
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (32 bp):
TTAAAATATAAATTATATATTCGAAATTTAAA
Found at i:10530026 original size:128 final size:128
Alignment explanation
Indices: 10529710--10530082 Score: 579
Period size: 128 Copynumber: 2.9 Consensus size: 128
10529700 CTGATTTACT
*
10529710 GATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTAAC
1 GATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGAC
* * * *** *
10529775 AAAATAATGGAAGGCGCCCCCCCCCCCCGGGAATGCGCCTTCAAGTCCCCT-GAGAAATAATAGG
66 AAAATAATGGAAGGCG-----CGCCCCCGGGAACGCGCCTTCATGT-GAATAGTGAAATAATAGG
*
10529839 TACT
125 TACG
10529843 GATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGAC
1 GATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGAC
10529908 AAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACG
66 AAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACG
*
10529971 GATATATCTAGTGCCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCT-TGAC
1 GATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGAC
*
10530035 AAAATAATGGAAGGCGCGCCCCCGGGAACGCTCCTTCATGTGAATAGT
66 AAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGT
10530083 ACTCCGATTA
Statistics
Matches: 228, Mismatches: 11, Indels: 8
0.92 0.04 0.03
Matches are distributed among these distances:
127 52 0.23
128 96 0.42
133 80 0.35
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.22
Consensus pattern (128 bp):
GATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGAC
AAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACG
Found at i:10530166 original size:8 final size:8
Alignment explanation
Indices: 10530153--10530193 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
10530143 TCACAAGCTT
10530153 TCAAATTC
1 TCAAATTC
10530161 TCAAATTC
1 TCAAATTC
* *
10530169 CCAAACTC
1 TCAAATTC
10530177 T-AAATTC
1 TCAAATTC
10530184 TCAAATTC
1 TCAAATTC
10530192 TC
1 TC
10530194 TGAAAATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:10536289 original size:15 final size:16
Alignment explanation
Indices: 10536269--10536298 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10536259 TCAGTGAAAT
10536269 TACATC-AAATTTTTC
1 TACATCAAAATTTTTC
10536284 TACATCAAAATTTTT
1 TACATCAAAATTTTT
10536299 TTATATCTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.37, C:0.17, G:0.00, T:0.47
Consensus pattern (16 bp):
TACATCAAAATTTTTC
Found at i:10542222 original size:106 final size:106
Alignment explanation
Indices: 10542043--10543207 Score: 1558
Period size: 106 Copynumber: 11.2 Consensus size: 106
10542033 CTCGAGAGTA
* * *
10542043 AATTTCAACTTCTCAACGAAGGATCTT-GAATCCAAGACAACACAAGTTCAACTTCACGACGAAG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCC-AGACAACACAAGTTCAACTTCACGACGAAG
* * *
10542107 GGACCGCTGGTTGTCAATAAACAATTTCTCGATTTCAGAGTC
65 GGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCC
*
10542149 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGG
*
10542214 GACCGCTGGTTGTCAACAAAC-ATTTCCCAATTTCAGAGCC
66 GACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCC
* **
10542254 AATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGTACAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGG
** * * * *
10542319 GACCGCTGACTGTCAACAAACAACTTCTCAAATTCAGAGCC
66 GACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCC
* * * *
10542360 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGGCAACGCAAGTTCAACTTCACAACAAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGG
10542425 GACCGCTGGTTGTCAAT--A-AA-----CAATTTC----CC
66 GACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCC
* * *
10542454 AATTTCAACTTCACAGCGAAGGATATTGAACTCAAGACAACACAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGG
*
10542519 GACCGTTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCC
66 GACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCC
10542560 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGG
* * *
10542625 GACCGTTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCC
66 GACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCC
* *
10542666 AATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGG
*
10542731 GACCGCTGGTTGTCAATAAACAATTTCCCAATTTCGGAGCC
66 GACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCC
* *
10542772 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGGCAACACAAGTTCAACTTCACGACGGAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGG
10542837 GACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCC
66 GACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCC
* * * * * * *
10542878 AATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAGCACGAGCTCAACTTCATGGCGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGG
* * ** *
10542943 GGCGGCTGACTGTCAACAAACAA-----C---TTC----CC
66 GACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCC
* * *
10542972 AATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGG
* * * * *
10543037 GACCGCTGGTTGTCAACAAAGAACTTCCCAATTTCAGTGTC
66 GACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCC
* * *
10543078 AATTTCAACTTCACAGCGAAAGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGG
* * *
10543143 GACCGCTGGTTGTCAACAAA-AA-TTCCCAGTTCCAGAGCC
66 GACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCC
* * * *
10543182 GATTCCAACTTCACGACGAATGATAT
1 AATTTCAACTTCACAACGAAGGATAT
10543208 CGTGCCCAAT
Statistics
Matches: 943, Mismatches: 90, Indels: 54
0.87 0.08 0.05
Matches are distributed among these distances:
94 154 0.16
96 1 0.00
97 2 0.00
98 9 0.01
99 1 0.00
101 1 0.00
102 10 0.01
103 2 0.00
104 35 0.04
105 98 0.10
106 625 0.66
107 5 0.01
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.22
Consensus pattern (106 bp):
AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGG
GACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCC
Found at i:10542621 original size:306 final size:308
Alignment explanation
Indices: 10542043--10543207 Score: 1493
Period size: 306 Copynumber: 3.7 Consensus size: 308
10542033 CTCGAGAGTA
* * *
10542043 AATTTCAACTTCTCAACGAAGGATCTT-GAATCCAAGACAACACAAGTTCAACTTCACGACGAAG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCC-AGACAACACAAGTTCAACTTCACGACGAAG
* *
10542107 GGACCGCTGGTTGTCAATAAACAATTTCTCGATTTCAGAGTCAATTTCAACTTCACAACGAAGGA
65 GGACCGCTGGTTGTCAAT--ACAA---C-CAATTTC---GCCAATTTCAACTTCACAACGAAGGA
*
10542172 TATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAAC-A
121 TATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAA
*
10542236 TTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGTACAAGT
186 TTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGT
10542301 TCAACTTCACGACGAAGGGACCGCTGACTGTCAACAAACAACTTCTCAAATTCAGAGCC
251 TCAACTTCACGACGAAGGGACCGCTGACTGTCAACAAACAACTTCTC-AATTCAGAGCC
* * * *
10542360 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGGCAACGCAAGTTCAACTTCACAACAAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGG
* *
10542425 GACCGCTGGTTGTCAATA-AA-CAATTTC-CCAATTTCAACTTCACAGCGAAGGATATTGAACTC
66 GACCGCTGGTTGTCAATACAACCAATTTCGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
* * *
10542487 AAGACAACACAAGTTCAACTTCACGACGAAGGGACCGTTGGTTGTCAATAAACAATTTCCCAATT
131 CAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATT
* *
10542552 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCAC
196 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGTTCAACTTCAC
* ** *
10542617 GACGAAGGGACCGTTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCC
261 GACGAAGGGACCGCTGACTGTCAACAAACAACTTCTCAA-TTCAGAGCC
* *
10542666 AATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGG
10542731 GACCGCTGGTTGTCAATAAACAATTTCCCAATTTCGGAGCCAATTTCAACTTCACAACGAAGGAT
66 GACCGCTGGTTGTCAAT--ACAA----CCAATTTC---GCCAATTTCAACTTCACAACGAAGGAT
* * *
10542796 ATTGGACTCCAGGCAACACAAGTTCAACTTCACGACGGAGGGACCGCTGGTTGTCAATAAACAAT
122 ATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAT
* * *
10542861 TTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAGCACGAGCT
187 TTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGTT
* * * *
10542926 CAACTTCATGGCGAAGGGGCGGCTGACTGTCAACAAACAA-----C--TTC----CC
252 CAACTTCACGACGAAGGGACCGCTGACTGTCAACAAACAACTTCTCAATTCAGAGCC
* * *
10542972 AATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGG
* * * * *
10543037 GACCGCTGGTTGTCAACAAAGAACTTCCCAATTTCAGTGTCAATTTCAACTTCACAGCGAAAGAT
66 GACCGCTGGTTGTC-A-ATACAA----CCAATTTC---GCCAATTTCAACTTCACAACGAAGGAT
*
10543102 ATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAA-AA-
122 ATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAT
* * * * * *
10543165 TTCCCAGTTCCAGAGCCGATTCCAACTTCACGACGAATGATAT
187 TTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATAT
10543208 CGTGCCCAAT
Statistics
Matches: 763, Mismatches: 68, Indels: 47
0.87 0.08 0.05
Matches are distributed among these distances:
304 36 0.05
305 85 0.11
306 366 0.48
307 1 0.00
308 2 0.00
309 8 0.01
310 3 0.00
313 1 0.00
314 9 0.01
315 1 0.00
317 69 0.09
318 182 0.24
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.22
Consensus pattern (308 bp):
AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGG
GACCGCTGGTTGTCAATACAACCAATTTCGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
CAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATT
TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGTTCAACTTCAC
GACGAAGGGACCGCTGACTGTCAACAAACAACTTCTCAATTCAGAGCC
Found at i:10542857 original size:412 final size:413
Alignment explanation
Indices: 10542043--10543207 Score: 1644
Period size: 412 Copynumber: 2.8 Consensus size: 413
10542033 CTCGAGAGTA
* * *
10542043 AATTTCAACTTCTCAACGAAGGATCTTGAA-TCCAAGACAACACAAGTTCAACTTCACGACGAAG
1 AATTTCAACTTCACAGCGAAGGATATTGAACT-CAAGACAACACAAGTTCAACTTCACGACGAAG
*
10542107 GGACCGCTGGTTGTCAATAAACAATTTCTCGATTTCAGAGTCAATTTCAACTTCACAACGAAGGA
65 GGACCGCTGGTTGTCAATAAACAATTTC-C-ATTTCAGAGCCAATTTCAACTTCACAACGAAGGA
10542172 TATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAAC-A
128 TATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAA
* * **
10542236 TTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGTACAAGT
193 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGT
** * *
10542301 TCAACTTCACGACGAAGGGACCGCTGACTGTCAACAAACAACTTCTCAAATTCAGAGCCAATTTC
258 TCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAA-TTCCCAATTTCAGAGCCAATTTC
*
10542366 AACTTCACAACGAAGGATATTGGACTCCAGGCAACGCAAGTTCAACTTCACAACAAAGGGACCGC
322 AACTTCACAACGAAGGATATTGGACTCCAGGCAACACAAGTTCAACTTCACAACAAAGGGACCGC
10542431 TGGTTGTCAAT-A-AA-CAATTTC-CC
387 TGGTTGTCAATAACAATCAATTTCACC
10542454 AATTTCAACTTCACAGCGAAGGATATTGAACTCAAGACAACACAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGAACTCAAGACAACACAAGTTCAACTTCACGACGAAGG
*
10542519 GACCGTTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGAT
66 GACCGCTGGTTGTCAATAAACAATTT-CC-ATTTCAGAGCCAATTTCAACTTCACAACGAAGGAT
* * *
10542584 ATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGTTGGTTGTCAATAAACAAC
129 ATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAC
*
10542649 TTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTT
194 TTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTT
* *
10542714 CAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCGGAGCCAATTTCA
259 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAA-TTCCCAATTTCAGAGCCAATTTCA
* **
10542779 ACTTCACAACGAAGGATATTGGACTCCAGGCAACACAAGTTCAACTTCACGACGGAGGGACCGCT
323 ACTTCACAACGAAGGATATTGGACTCCAGGCAACACAAGTTCAACTTCACAACAAAGGGACCGCT
10542844 GGTTGTCAATAAACAATTTCCCAATTTCAGAGCC
388 GGTTGTCAAT-AACAA--T--CAATTTC--A-CC
* * * * * *
10542878 AATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAGCACGAGCTCAACTTCATGGCGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGAACTCAAGACAACACAAGTTCAACTTCACGACGAAGG
* * ** * *
10542943 GGCGGCTGACTGTCAACAAACAA----C--TTC----CCAATTTCAACTTCACAGCGAAGGATAT
66 GACCGCTGGTTGTCAATAAACAATTTCCATTTCAGAGCCAATTTCAACTTCACAACGAAGGATAT
* *
10542998 TGGACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAAGAACTT
131 TGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTT
* * * * *
10543063 CCCAATTTCAGTGTCAATTTCAACTTCACAGCGAAAGATATTGGACTCCAGACAACGCAAGTTCA
196 CCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTCA
* * * *
10543128 ACTTCACGACGAAGGGACCGCTGGTTGTCAACAAA-AATTCCCAGTTCCAGAGCCGATTCCAACT
261 ACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTCCCAATTTCAGAGCCAATTTCAACT
* *
10543192 TCACGACGAATGATAT
326 TCACAACGAAGGATAT
10543208 CGTGCCCAAT
Statistics
Matches: 682, Mismatches: 57, Indels: 31
0.89 0.07 0.04
Matches are distributed among these distances:
410 36 0.05
411 181 0.27
412 373 0.55
414 1 0.00
415 2 0.00
416 3 0.00
419 1 0.00
420 7 0.01
424 78 0.11
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.22
Consensus pattern (413 bp):
AATTTCAACTTCACAGCGAAGGATATTGAACTCAAGACAACACAAGTTCAACTTCACGACGAAGG
GACCGCTGGTTGTCAATAAACAATTTCCATTTCAGAGCCAATTTCAACTTCACAACGAAGGATAT
TGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTT
CCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTCA
ACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTCCCAATTTCAGAGCCAATTTCAACT
TCACAACGAAGGATATTGGACTCCAGGCAACACAAGTTCAACTTCACAACAAAGGGACCGCTGGT
TGTCAATAACAATCAATTTCACC
Found at i:10548940 original size:106 final size:106
Alignment explanation
Indices: 10548761--10549925 Score: 1551
Period size: 106 Copynumber: 11.2 Consensus size: 106
10548751 CTCGAGAGTA
* * *
10548761 AATTTCAACTTCTCAACGAAGGATCTT-GAATCCAAGACAACACAAGTTCAACTTCACGACGAAG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCC-AGACAACACAAGTTCAACTTCACGACGAAG
* *
10548825 GGACCGCTGGTTGTCAATAAACAATTTCTCGATTTCAGAGTC
65 GGACCGCTGGTTGTCAATAAACAATTTCTCAATTTCAGAGCC
*
10548867 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGG
* *
10548932 GACCGCTGGTTGTCAACAAAC-ATTTCCCAATTTCAGAGCC
66 GACCGCTGGTTGTCAATAAACAATTTCTCAATTTCAGAGCC
* **
10548972 AATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGTACAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGG
** * * *
10549037 GACCGCTGACTGTCAACAAACAACTTCTCAAATTCAGAGCC
66 GACCGCTGGTTGTCAATAAACAATTTCTCAATTTCAGAGCC
* * *
10549078 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGGCAACGCAAGTTCAACTTCACAACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGG
10549143 GACCGCTGGTTGTCAAT--A-AA-----CAATTTC----CC
66 GACCGCTGGTTGTCAATAAACAATTTCTCAATTTCAGAGCC
* * *
10549172 AATTTCAACTTCACAGCGAAGGATATTGAACTCAAGACAACACAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGG
*
10549237 GACCGTTGGTTGTCAATAAACAATTTCTCAATTTCAGAGCC
66 GACCGCTGGTTGTCAATAAACAATTTCTCAATTTCAGAGCC
10549278 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGG
*
10549343 GACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCC
66 GACCGCTGGTTGTCAATAAACAATTTCTCAATTTCAGAGCC
* *
10549384 AATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGG
* *
10549449 GACCGCTGGTTGTCAATAAACAATTTCCCAATTTCGGAGCC
66 GACCGCTGGTTGTCAATAAACAATTTCTCAATTTCAGAGCC
* *
10549490 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGGCAACACAAGTTCAACTTCACGACGGAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGG
*
10549555 GACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCC
66 GACCGCTGGTTGTCAATAAACAATTTCTCAATTTCAGAGCC
* * * * * *
10549596 AATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACGAGCTCAACTTCATGGCGAATG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAA-G
* ** *
10549661 GG-CGGCTGACTGTCAACAAACAA-----C---TTC----CC
65 GGACCGCTGGTTGTCAATAAACAATTTCTCAATTTCAGAGCC
* * * *
10549690 AATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACGCAAGTTCAACTTCACGATGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGG
* * * * * *
10549755 GACCGCTGGTTGTCAACAAAGAACTTCCCAATTTCAGTGTC
66 GACCGCTGGTTGTCAATAAACAATTTCTCAATTTCAGAGCC
* * *
10549796 AATTTCAACTTCACAGCGAAAGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGG
* * * *
10549861 GACCGCTGGTTGTCAACAAA-AA-TTCCCAGTTCCAGAGCC
66 GACCGCTGGTTGTCAATAAACAATTTCTCAATTTCAGAGCC
* * * *
10549900 GATTCCAACTTCACGACGAATGATAT
1 AATTTCAACTTCACAACGAAGGATAT
10549926 CGTGCCCAAT
Statistics
Matches: 944, Mismatches: 87, Indels: 58
0.87 0.08 0.05
Matches are distributed among these distances:
93 3 0.00
94 150 0.16
96 1 0.00
97 2 0.00
98 9 0.01
99 1 0.00
101 1 0.00
102 10 0.01
103 2 0.00
104 35 0.04
105 98 0.10
106 624 0.66
107 8 0.01
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGG
GACCGCTGGTTGTCAATAAACAATTTCTCAATTTCAGAGCC
Found at i:10549345 original size:306 final size:308
Alignment explanation
Indices: 10548761--10549925 Score: 1495
Period size: 306 Copynumber: 3.7 Consensus size: 308
10548751 CTCGAGAGTA
* * *
10548761 AATTTCAACTTCTCAACGAAGGATCTT-GAATCCAAGACAACACAAGTTCAACTTCACGACGAAG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCC-AGACAACACAAGTTCAACTTCACGACGAAG
* *
10548825 GGACCGCTGGTTGTCAATAAACAATTTCTCGATTTCAGAGTCAATTTCAACTTCACAACGAAGGA
65 GGACCGCTGGTTGTCAAT--ACAA---C-CAATTTC---GCCAATTTCAACTTCACAACGAAGGA
*
10548890 TATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAAC-A
121 TATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAA
*
10548954 TTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGTACAAGT
186 TTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGT
10549019 TCAACTTCACGACGAAGGGACCGCTGACTGTCAACAAACAACTTCTCAAATTCAGAGCC
251 TCAACTTCACGACGAAGGGACCGCTGACTGTCAACAAACAACTTCTC-AATTCAGAGCC
* * *
10549078 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGGCAACGCAAGTTCAACTTCACAACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGG
* *
10549143 GACCGCTGGTTGTCAATA-AA-CAATTTC-CCAATTTCAACTTCACAGCGAAGGATATTGAACTC
66 GACCGCTGGTTGTCAATACAACCAATTTCGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
* * * *
10549205 AAGACAACACAAGTTCAACTTCACGACGAAGGGACCGTTGGTTGTCAATAAACAATTTCTCAATT
131 CAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATT
* *
10549270 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCAC
196 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGTTCAACTTCAC
** *
10549335 GACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCC
261 GACGAAGGGACCGCTGACTGTCAACAAACAACTTCTCAA-TTCAGAGCC
* *
10549384 AATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGG
10549449 GACCGCTGGTTGTCAATAAACAATTTCCCAATTTCGGAGCCAATTTCAACTTCACAACGAAGGAT
66 GACCGCTGGTTGTCAAT--ACAA----CCAATTTC---GCCAATTTCAACTTCACAACGAAGGAT
* * *
10549514 ATTGGACTCCAGGCAACACAAGTTCAACTTCACGACGGAGGGACCGCTGGTTGTCAATAAACAAT
122 ATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAT
* *
10549579 TTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACGAGCT
187 TTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGTT
* * *
10549644 CAACTTCATGGCGAATGGG-CGGCTGACTGTCAACAAACAA-----C--TTC----CC
252 CAACTTCACGACGAA-GGGACCGCTGACTGTCAACAAACAACTTCTCAATTCAGAGCC
* * * *
10549690 AATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACGCAAGTTCAACTTCACGATGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGG
* * * * *
10549755 GACCGCTGGTTGTCAACAAAGAACTTCCCAATTTCAGTGTCAATTTCAACTTCACAGCGAAAGAT
66 GACCGCTGGTTGTC-A-ATACAA----CCAATTTC---GCCAATTTCAACTTCACAACGAAGGAT
*
10549820 ATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAA-AA-
122 ATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAT
* * * * * *
10549883 TTCCCAGTTCCAGAGCCGATTCCAACTTCACGACGAATGATAT
187 TTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATAT
10549926 CGTGCCCAAT
Statistics
Matches: 766, Mismatches: 64, Indels: 49
0.87 0.07 0.06
Matches are distributed among these distances:
304 37 0.05
305 85 0.11
306 366 0.48
307 1 0.00
308 2 0.00
309 8 0.01
310 3 0.00
313 1 0.00
314 9 0.01
315 1 0.00
317 70 0.09
318 180 0.23
319 3 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (308 bp):
AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGG
GACCGCTGGTTGTCAATACAACCAATTTCGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
CAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATT
TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGTTCAACTTCAC
GACGAAGGGACCGCTGACTGTCAACAAACAACTTCTCAATTCAGAGCC
Found at i:10549578 original size:412 final size:414
Alignment explanation
Indices: 10548761--10549925 Score: 1657
Period size: 412 Copynumber: 2.8 Consensus size: 414
10548751 CTCGAGAGTA
* *
10548761 AATTTCAACTTCTCAACGAAGGATCTTGAA-TCCAAGACAACACAAGTTCAACTTCACGACGAAG
1 AATTTCAACTTCACAACGAAGGATATTGAACT-CAAGACAACACAAGTTCAACTTCACGACGAAG
*
10548825 GGACCGCTGGTTGTCAATAAACAATTTCTCGATTTCAGAGTCAATTTCAACTTCACAACGAAGGA
65 GGACCGCTGGTTGTCAATAAACAATTTCTC-ATTTCAGAGCCAATTTCAACTTCACAACGAAGGA
10548890 TATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAAC-A
129 TATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAA
* * **
10548954 TTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGTACAAGT
194 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGT
** * *
10549019 TCAACTTCACGACGAAGGGACCGCTGACTGTCAACAAACAACTTCTCAAATTCAGAGCCAATTTC
259 TCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAA-TTCCCAATTTCAGAGCCAATTTC
*
10549084 AACTTCACAACGAAGGATATTGGACTCCAGGCAACGCAAGTTCAACTTCACAACGAAGGGACCGC
323 AACTTCACAACGAAGGATATTGGACTCCAGGCAACACAAGTTCAACTTCACAACGAAGGGACCGC
10549149 TGGTTGTCAAT-A-AA-CAATTTC-CC
388 TGGTTGTCAATAACAATCAATTTCACC
*
10549172 AATTTCAACTTCACAGCGAAGGATATTGAACTCAAGACAACACAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGAACTCAAGACAACACAAGTTCAACTTCACGACGAAGG
*
10549237 GACCGTTGGTTGTCAATAAACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGAT
66 GACCGCTGGTTGTCAATAAACAATTTCTC-ATTTCAGAGCCAATTTCAACTTCACAACGAAGGAT
* *
10549302 ATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAAC
130 ATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAC
*
10549367 TTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTT
195 TTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTT
* *
10549432 CAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCGGAGCCAATTTCA
260 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAA-TTCCCAATTTCAGAGCCAATTTCA
* *
10549497 ACTTCACAACGAAGGATATTGGACTCCAGGCAACACAAGTTCAACTTCACGACGGAGGGACCGCT
324 ACTTCACAACGAAGGATATTGGACTCCAGGCAACACAAGTTCAACTTCACAACGAAGGGACCGCT
10549562 GGTTGTCAATAAACAATTTCCCAATTTCAGAGCC
389 GGTTGTCAAT-AACAA--T--CAATTTC--A-CC
* * * * * *
10549596 AATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACGAGCTCAACTTCATGGCGAATG
1 AATTTCAACTTCACAACGAAGGATATTGAACTCAAGACAACACAAGTTCAACTTCACGACGAA-G
* ** * *
10549661 GG-CGGCTGACTGTCAACAAACAA-----C--TTC----CCAATTTCAACTTCACAGCGAAGGAT
65 GGACCGCTGGTTGTCAATAAACAATTTCTCATTTCAGAGCCAATTTCAACTTCACAACGAAGGAT
* * *
10549714 ATTGGACTCGAGACAACGCAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAACAAAGAAC
130 ATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAC
* * * * *
10549779 TTCCCAATTTCAGTGTCAATTTCAACTTCACAGCGAAAGATATTGGACTCCAGACAACGCAAGTT
195 TTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTT
* * * *
10549844 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAA-AATTCCCAGTTCCAGAGCCGATTCCAA
260 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTCCCAATTTCAGAGCCAATTTCAA
* *
10549908 CTTCACGACGAATGATAT
325 CTTCACAACGAAGGATAT
10549926 CGTGCCCAAT
Statistics
Matches: 684, Mismatches: 55, Indels: 31
0.89 0.07 0.04
Matches are distributed among these distances:
410 36 0.05
411 184 0.27
412 373 0.55
414 1 0.00
415 2 0.00
416 3 0.00
419 1 0.00
420 7 0.01
424 74 0.11
425 3 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (414 bp):
AATTTCAACTTCACAACGAAGGATATTGAACTCAAGACAACACAAGTTCAACTTCACGACGAAGG
GACCGCTGGTTGTCAATAAACAATTTCTCATTTCAGAGCCAATTTCAACTTCACAACGAAGGATA
TTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACT
TCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTC
AACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTCCCAATTTCAGAGCCAATTTCAAC
TTCACAACGAAGGATATTGGACTCCAGGCAACACAAGTTCAACTTCACAACGAAGGGACCGCTGG
TTGTCAATAACAATCAATTTCACC
Found at i:10552656 original size:2 final size:2
Alignment explanation
Indices: 10552649--10552676 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10552639 TAACCATACA
10552649 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10552677 TCTTTTCACG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10553683 original size:24 final size:24
Alignment explanation
Indices: 10553651--10553700 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
10553641 CCAAAGGTAA
10553651 TCCAATAAAAAAGTATGCAGTTAC
1 TCCAATAAAAAAGTATGCAGTTAC
10553675 TCCAATAAAAAAGTATGCAGTTAC
1 TCCAATAAAAAAGTATGCAGTTAC
10553699 TC
1 TC
10553701 ACTTCTATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (24 bp):
TCCAATAAAAAAGTATGCAGTTAC
Found at i:10555509 original size:164 final size:164
Alignment explanation
Indices: 10555332--10555660 Score: 640
Period size: 164 Copynumber: 2.0 Consensus size: 164
10555322 TTTCTGGAAC
10555332 CCACGGTGGTTGTTCTTCGTGTTCATGAAAAACACATGAACACTTTGAGAGAAAATGGAAAATGG
1 CCACGGTGGTTGTTCTTCGTGTTCATGAAAAACACATGAACACTTTGAGAGAAAATGGAAAATGG
*
10555397 GGGGTTTTGGTGTTGAGAAGTGAAAAATGAAAGTTTTAAAAAAAATATTGGCTTATATACTAAGC
66 GGGGTTTCGGTGTTGAGAAGTGAAAAATGAAAGTTTTAAAAAAAATATTGGCTTATATACTAAGC
10555462 CCATGATACCCGCTGACCCGACCCATAACACACG
131 CCATGATACCCGCTGACCCGACCCATAACACACG
10555496 CCACGGTGGTTGTTCTTCGTGTTCATGAAAAACACATGAACACTTTGAGAGAAAATGGAAAATGG
1 CCACGGTGGTTGTTCTTCGTGTTCATGAAAAACACATGAACACTTTGAGAGAAAATGGAAAATGG
10555561 GGGGTTTCGGTGTTGAGAAGTGAAAAATGAAAGTTTTAAAAAAAATATTGGCTTATATACTAAGC
66 GGGGTTTCGGTGTTGAGAAGTGAAAAATGAAAGTTTTAAAAAAAATATTGGCTTATATACTAAGC
*
10555626 CCATGATACCCGCTTACCCGACCCATAACACACG
131 CCATGATACCCGCTGACCCGACCCATAACACACG
10555660 C
1 C
10555661 AACCCGCGTG
Statistics
Matches: 163, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
164 163 1.00
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.26
Consensus pattern (164 bp):
CCACGGTGGTTGTTCTTCGTGTTCATGAAAAACACATGAACACTTTGAGAGAAAATGGAAAATGG
GGGGTTTCGGTGTTGAGAAGTGAAAAATGAAAGTTTTAAAAAAAATATTGGCTTATATACTAAGC
CCATGATACCCGCTGACCCGACCCATAACACACG
Found at i:10555926 original size:20 final size:22
Alignment explanation
Indices: 10555903--10555942 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
10555893 TTCTTTATTC
10555903 TTTATTCT-TT-TTGTTTTTTT
1 TTTATTCTATTATTGTTTTTTT
*
10555923 TTTATTTTATTATTGTTTTT
1 TTTATTCTATTATTGTTTTT
10555943 CCAACATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 2 0.12
22 8 0.47
ACGTcount: A:0.10, C:0.03, G:0.05, T:0.82
Consensus pattern (22 bp):
TTTATTCTATTATTGTTTTTTT
Done.