Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004822.1 Hibiscus syriacus cultivar Beakdansim tig00010867_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: 272678
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
File 1 of 2
Found at i:615 original size:65 final size:63
Alignment explanation
Indices: 478--635 Score: 194
Period size: 65 Copynumber: 2.4 Consensus size: 63
468 TGCACTAAGA
* * *
478 GTGCATCGATGCATACAATGCATTCGATGTTTCAAAATAGCCTGATTGTATCGATGCATGGCTG
1 GTGCATCGATGCATA-AATGCATTCGATGTTTCAAAATACCCTGAGTGCATCGATGCATGGCTG
* *
542 GTGCATCGATACATCAAATGCATTCGATGTTTTCTTAAA-ACCCTGAGTGCATCGATGCATGG-T
1 GTGCATCGATGCAT-AAATGCATTCGATG-TTTC-AAAATACCCTGAGTGCATCGATGCATGGCT
*
605 AT
63 -G
607 GTGCATCGATGCATGAAATGCATTCGATG
1 GTGCATCGATGCAT-AAATGCATTCGATG
636 CTCAATTTAT
Statistics
Matches: 82, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
64 27 0.33
65 52 0.63
66 3 0.04
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (63 bp):
GTGCATCGATGCATAAATGCATTCGATGTTTCAAAATACCCTGAGTGCATCGATGCATGGCTG
Found at i:676 original size:65 final size:65
Alignment explanation
Indices: 527--677 Score: 171
Period size: 65 Copynumber: 2.3 Consensus size: 65
517 GCCTGATTGT
* * *** *
527 ATCGATGCATGGCTGGTGCATCGATACATCAAATGCATTCGATGTTTTCTTAAAACCCTGAGTGC
1 ATCGATGCATGGTTGGTGCATCGATACATCAAATGCATTCGATGCTCAATTAAAACCATGAGTGC
* * * **
592 ATCGATGCATGGTAT-GTGCATCGATGCATGAAATGCATTCGATGCTCAATTTATTCCATG-GTG
1 ATCGATGCATGGT-TGGTGCATCGATACATCAAATGCATTCGATGCTCAATTAAAACCATGAGTG
655 C
65 C
656 ATCGATGCATGGATTGGTGCAT
1 ATCGATGCATGG-TTGGTGCAT
678 TGGTGCATCA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
64 17 0.24
65 54 0.75
66 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (65 bp):
ATCGATGCATGGTTGGTGCATCGATACATCAAATGCATTCGATGCTCAATTAAAACCATGAGTGC
Found at i:2397 original size:21 final size:20
Alignment explanation
Indices: 2371--2484 Score: 86
Period size: 21 Copynumber: 5.5 Consensus size: 20
2361 ACCTTTCATT
2371 GTTCAAGAGGCCTCTCCTATC
1 GTTCAAGAGGCC-CTCCTATC
*
2392 GTTCAAGAGGCCC-CTATCATC
1 GTTCAAGAGGCCCTC-CT-ATC
* * *
2413 CTTCAAGAGGCCCCTCCCACC
1 GTTCAAGAGG-CCCTCCTATC
**
2434 GTTCAAGAGGCCCTTGTCATC
1 GTTCAAGAGGCCCTCCT-ATC
* * *
2455 GTTCAAGAAGTCCCTCCCACC
1 GTTCAAG-AGGCCCTCCTATC
2476 GTTCAAGAG
1 GTTCAAGAG
2485 CCCGATTCAC
Statistics
Matches: 72, Mismatches: 15, Indels: 13
0.72 0.15 0.13
Matches are distributed among these distances:
19 1 0.01
20 8 0.11
21 53 0.74
22 9 0.12
23 1 0.01
ACGTcount: A:0.22, C:0.36, G:0.19, T:0.23
Consensus pattern (20 bp):
GTTCAAGAGGCCCTCCTATC
Found at i:2437 original size:42 final size:42
Alignment explanation
Indices: 2372--2484 Score: 154
Period size: 42 Copynumber: 2.7 Consensus size: 42
2362 CCTTTCATTG
* * *
2372 TTCAAGAGGCCTCTCCTATCGTTCAAGAGGCCCCTATCATCC
1 TTCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCCTATCATCC
* * *
2414 TTCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCTTGTCATCG
1 TTCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCCTATCATCC
* *
2456 TTCAAGAAGTCCCTCCCACCGTTCAAGAG
1 TTCAAGAGGCCCCTCCCACCGTTCAAGAG
2485 CCCGATTCAC
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.22, C:0.36, G:0.19, T:0.23
Consensus pattern (42 bp):
TTCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCCTATCATCC
Found at i:3874 original size:20 final size:20
Alignment explanation
Indices: 3750--3868 Score: 159
Period size: 20 Copynumber: 6.0 Consensus size: 20
3740 AGGTACACAT
*
3750 TCGCAACGCGAAAATCAAAC
1 TCGCAACGCGAAAGTCAAAC
*
3770 TCGTAAC-CTGAAAGTCAAAC
1 TCGCAACGC-GAAAGTCAAAC
*
3790 TCGCAACGTGAAAGTCAAAC
1 TCGCAACGCGAAAGTCAAAC
*
3810 TCGCAATGCGAAAGTCAAAC
1 TCGCAACGCGAAAGTCAAAC
* *
3830 TCGCAACGCGAAAGTAAAAT
1 TCGCAACGCGAAAGTCAAAC
*
3850 TCGCAACGCGAAATTCAAA
1 TCGCAACGCGAAAGTCAAA
3869 TGCGCATTGC
Statistics
Matches: 86, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
19 1 0.01
20 85 0.99
ACGTcount: A:0.42, C:0.25, G:0.18, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGAAAGTCAAAC
Found at i:4178 original size:18 final size:18
Alignment explanation
Indices: 4155--4190 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
4145 AAGCTGGTTG
4155 TGATTGGGATTTTGATTT
1 TGATTGGGATTTTGATTT
*
4173 TGATTGTGATTTTGATTT
1 TGATTGGGATTTTGATTT
4191 CCTTTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.00, G:0.25, T:0.58
Consensus pattern (18 bp):
TGATTGGGATTTTGATTT
Found at i:6658 original size:12 final size:12
Alignment explanation
Indices: 6637--6670 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
6627 GGTTGTGGGT
*
6637 TTTGAGATTGTG
1 TTTGATATTGTG
6649 TTTGATATTGTG
1 TTTGATATTGTG
*
6661 TTTGGTATTG
1 TTTGATATTG
6671 GAAATGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:7467 original size:18 final size:19
Alignment explanation
Indices: 7440--7506 Score: 73
Period size: 20 Copynumber: 3.5 Consensus size: 19
7430 AAAACATTTG
* *
7440 TGTTGAGAAAATAAAA-CC
1 TGTTGCGAAATTAAAATCC
*
7458 TGTTGCGAAATTAAAATTCG
1 TGTTGCGAAATTAAAA-TCC
*
7478 TGTTGCGAAATTAAAATTCG
1 TGTTGCGAAATTAAAA-TCC
7498 TGTTGCGAA
1 TGTTGCGAA
7507 TTCAAAAATC
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
18 14 0.32
20 30 0.68
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.31
Consensus pattern (19 bp):
TGTTGCGAAATTAAAATCC
Found at i:7493 original size:38 final size:39
Alignment explanation
Indices: 7439--7528 Score: 96
Period size: 40 Copynumber: 2.3 Consensus size: 39
7429 CAAAACATTT
* * *
7439 GTGTTGAGAAAATAAAA-CCTGTTGCGAAATT-AAAATTC
1 GTGTTGCGAAATTAAAATCCTGTTGCG-AATTCAAAAATC
*
7477 GTGTTGCGAAATTAAAATTCGTGTTGCGAATTCAAAAATC
1 GTGTTGCGAAATTAAAA-TCCTGTTGCGAATTCAAAAATC
*
7517 GAGTTGC-AAATT
1 GTGTTGCGAAATT
7529 TGAAATTCAG
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
38 15 0.34
39 9 0.20
40 20 0.45
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (39 bp):
GTGTTGCGAAATTAAAATCCTGTTGCGAATTCAAAAATC
Found at i:7552 original size:21 final size:20
Alignment explanation
Indices: 7458--7550 Score: 114
Period size: 20 Copynumber: 4.6 Consensus size: 20
7448 AAATAAAACC
*
7458 TGTTGCGAAATTAAAATTCG
1 TGTTGCGAATTTAAAATTCG
*
7478 TGTTGCGAAATTAAAATTCG
1 TGTTGCGAATTTAAAATTCG
* *
7498 TGTTGCGAATTCAAAAATCG
1 TGTTGCGAATTTAAAATTCG
* * *
7518 AGTTGCAAATTTGAAATTCAG
1 TGTTGCGAATTTAAAATTC-G
7539 TGTTGCGAATTT
1 TGTTGCGAATTT
7551 GACTTCTGCG
Statistics
Matches: 62, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
20 51 0.82
21 11 0.18
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.35
Consensus pattern (20 bp):
TGTTGCGAATTTAAAATTCG
Found at i:7585 original size:20 final size:20
Alignment explanation
Indices: 7562--7630 Score: 86
Period size: 20 Copynumber: 3.4 Consensus size: 20
7552 ACTTCTGCGA
7562 TGCGATTTACAGATTCGCGT
1 TGCGATTTACAGATTCGCGT
*
7582 TGCGATTTACATATTCGCGT
1 TGCGATTTACAGATTCGCGT
* *
7602 TGCGAAATTAGAG-TTCGCGT
1 TGCG-ATTTACAGATTCGCGT
7622 TGCGGATTT
1 TGC-GATTT
7631 GTTGGTCATT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
20 36 0.86
21 6 0.14
ACGTcount: A:0.20, C:0.17, G:0.26, T:0.36
Consensus pattern (20 bp):
TGCGATTTACAGATTCGCGT
Found at i:8876 original size:2 final size:2
Alignment explanation
Indices: 8869--8901 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
8859 CCCGGTTTAT
8869 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8902 TTTTTTTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9004 original size:39 final size:39
Alignment explanation
Indices: 8919--9029 Score: 104
Period size: 39 Copynumber: 2.8 Consensus size: 39
8909 TTATTTATAA
* * *
8919 TTCTCAAATCATTTCAC-TCTAACATTCAAAATTCCTAAT
1 TTCTTAAATTATTTCACAT-TAACATTCTAAATTCCTAAT
* *
8958 TTCTTAAATT-TTATCACCA-TAACATTCTAAATTCTTAGT
1 TTCTTAAATTATT-TCA-CATTAACATTCTAAATTCCTAAT
*
8997 ATT-TTAAATTATTTCATATTAACATTCTAAATT
1 -TTCTTAAATTATTTCACATTAACATTCTAAATT
9030 ATTTTTTAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
38 3 0.05
39 52 0.87
40 5 0.08
ACGTcount: A:0.36, C:0.18, G:0.01, T:0.45
Consensus pattern (39 bp):
TTCTTAAATTATTTCACATTAACATTCTAAATTCCTAAT
Found at i:14642 original size:3 final size:3
Alignment explanation
Indices: 14634--14665 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
14624 GTAGGCTTTC
14634 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
14666 TACCGATTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:15501 original size:24 final size:23
Alignment explanation
Indices: 15474--15538 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 23
15464 GTTCGTGAAC
15474 GTTCAGTTATGTTCGTTCAGTTAT
1 GTTC-GTTATGTTCGTTCAGTTAT
* * *
15498 GTTCGTTTCTGTTTGTTCCGTTAT
1 GTTCG-TTATGTTCGTTCAGTTAT
15522 GTTCGGTTATGTTCGTT
1 GTTC-GTTATGTTCGTT
15539 TATGTTCATT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
23 1 0.03
24 32 0.94
25 1 0.03
ACGTcount: A:0.09, C:0.14, G:0.23, T:0.54
Consensus pattern (23 bp):
GTTCGTTATGTTCGTTCAGTTAT
Found at i:15515 original size:14 final size:14
Alignment explanation
Indices: 15473--15504 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
15463 CGTTCGTGAA
15473 CGTTCAGTTATGTT
1 CGTTCAGTTATGTT
15487 CGTTCAGTTATGTT
1 CGTTCAGTTATGTT
15501 CGTT
1 CGTT
15505 TCTGTTTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.12, C:0.16, G:0.22, T:0.50
Consensus pattern (14 bp):
CGTTCAGTTATGTT
Found at i:15556 original size:34 final size:34
Alignment explanation
Indices: 15488--15558 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 34
15478 AGTTATGTTC
* ** *
15488 GTTCAGTTATGTTCGTTTCTGTTTGTTCCGTTAT
1 GTTCAGTTATGTTCGTTTATGTTCATTCAGTTAT
* *
15522 GTTCGGTTATGTTCGTTTATGTTCATTCATTTAT
1 GTTCAGTTATGTTCGTTTATGTTCATTCAGTTAT
15556 GTT
1 GTT
15559 TAAGCCAATC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.11, C:0.13, G:0.20, T:0.56
Consensus pattern (34 bp):
GTTCAGTTATGTTCGTTTATGTTCATTCAGTTAT
Found at i:16169 original size:16 final size:16
Alignment explanation
Indices: 16150--16215 Score: 66
Period size: 16 Copynumber: 4.3 Consensus size: 16
16140 TTCGAGTTCG
*
16150 TTTATGTTCGTATTTA
1 TTTATGTTCGTGTTTA
* **
16166 TTTATGTTTGTGTTCG
1 TTTATGTTCGTGTTTA
*
16182 TTTATGTT-GTGTTTG
1 TTTATGTTCGTGTTTA
16197 TTTATGTTC--GTTTA
1 TTTATGTTCGTGTTTA
16211 TTTAT
1 TTTAT
16216 TAAATAAACG
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
14 9 0.21
15 14 0.33
16 20 0.47
ACGTcount: A:0.12, C:0.05, G:0.18, T:0.65
Consensus pattern (16 bp):
TTTATGTTCGTGTTTA
Found at i:16302 original size:16 final size:16
Alignment explanation
Indices: 16278--16310 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
16268 AAAGACATTT
*
16278 TGTTTGTTTATGTTCG
1 TGTTCGTTTATGTTCG
16294 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
16310 T
1 T
16311 TTATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.09, G:0.24, T:0.61
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:24937 original size:6 final size:6
Alignment explanation
Indices: 24926--24950 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
24916 ATTTAAGAAA
24926 ATAAAG ATAAAG ATAAAG ATAAAG A
1 ATAAAG ATAAAG ATAAAG ATAAAG A
24951 AGACACAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (6 bp):
ATAAAG
Found at i:25088 original size:34 final size:34
Alignment explanation
Indices: 25043--25109 Score: 84
Period size: 34 Copynumber: 1.9 Consensus size: 34
25033 AATATGAATT
*
25043 ACAATTTCTCTC-GATCTAACAAGGAGAAAACAATA
1 ACAATTTCTCTCTGA--TAAAAAGGAGAAAACAATA
25078 ACAA-TTCTCTCTTGATAAAAAGGAGAAAACAA
1 ACAATTTCTCTC-TGATAAAAAGGAGAAAACAA
25110 CTCTCAAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
34 23 0.79
35 4 0.14
36 2 0.07
ACGTcount: A:0.48, C:0.18, G:0.12, T:0.22
Consensus pattern (34 bp):
ACAATTTCTCTCTGATAAAAAGGAGAAAACAATA
Found at i:36104 original size:24 final size:24
Alignment explanation
Indices: 36072--36126 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
36062 ATGATTTAAA
*
36072 TTGATTTATTCGGTTTAATTCAGT
1 TTGAATTATTCGGTTTAATTCAGT
36096 TTGAATTATTCGGTTTAATTCAGT
1 TTGAATTATTCGGTTTAATTCAGT
36120 TTGAATT
1 TTGAATT
36127 TTTTTAATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.24, C:0.07, G:0.16, T:0.53
Consensus pattern (24 bp):
TTGAATTATTCGGTTTAATTCAGT
Found at i:37958 original size:20 final size:20
Alignment explanation
Indices: 37905--37952 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
37895 TTGTTCCCTA
37905 ATAATCTTTTATTCCCACTG
1 ATAATCTTTTATTCCCACTG
*
37925 GTAATCTTTTATTCCCACTG
1 ATAATCTTTTATTCCCACTG
37945 ATAATCTT
1 ATAATCTT
37953 ACATTCAGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.25, C:0.23, G:0.06, T:0.46
Consensus pattern (20 bp):
ATAATCTTTTATTCCCACTG
Found at i:38412 original size:2 final size:2
Alignment explanation
Indices: 38405--38432 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
38395 TATTTGTAAG
38405 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
38433 CATCAATGAA
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:39953 original size:16 final size:17
Alignment explanation
Indices: 39926--39961 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
39916 GATATGAGAA
39926 AAATTCAATTTAAATTT
1 AAATTCAATTTAAATTT
*
39943 AAATT-AATTTAATTTT
1 AAATTCAATTTAAATTT
39959 AAA
1 AAA
39962 ATAACCTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
AAATTCAATTTAAATTT
Found at i:41053 original size:2 final size:2
Alignment explanation
Indices: 41046--41079 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
41036 GCTGGTAGGA
41046 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
41080 TGACAAGAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:41718 original size:29 final size:28
Alignment explanation
Indices: 41653--41720 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 28
41643 AAAGTAAAAT
41653 ATTTTTATTATATTATAATTAATTAATA
1 ATTTTTATTATATTATAATTAATTAATA
* * *
41681 ATTTATTATTTTATTA-AATTTATTGTACTA
1 ATTT-TTATTATATTATAA-TTAAT-TAATA
41711 ATTTTTATTA
1 ATTTTTATTA
41721 CTTTTTGCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
28 6 0.18
29 19 0.58
30 8 0.24
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (28 bp):
ATTTTTATTATATTATAATTAATTAATA
Found at i:41872 original size:27 final size:23
Alignment explanation
Indices: 41842--41897 Score: 67
Period size: 26 Copynumber: 2.3 Consensus size: 23
41832 TTGCGAATGT
41842 TTTATTTATTTAATTTGTTAGTATTA
1 TTTATTT-TTTAATTTG-TA-TATTA
*
41868 GTTTATATTTTAATTTGTATATTA
1 -TTTATTTTTTAATTTGTATATTA
41892 TTTATT
1 TTTATT
41898 AAATTATGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 5 0.19
24 5 0.19
25 2 0.07
26 9 0.33
27 6 0.22
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.66
Consensus pattern (23 bp):
TTTATTTTTTAATTTGTATATTA
Found at i:43387 original size:21 final size:21
Alignment explanation
Indices: 43363--43435 Score: 87
Period size: 21 Copynumber: 3.5 Consensus size: 21
43353 CACTCCCATA
*
43363 TCAGATGTCACCGCAGTCGA-G
1 TCAGATGCCACCGCAG-CGAGG
*
43384 TCAGATGCCACCGCAGCTAGG
1 TCAGATGCCACCGCAGCGAGG
*
43405 TCAGATGCCACCGCAGCTG-GC
1 TCAGATGCCACCGCAGC-GAGG
43426 TCAGATGCCA
1 TCAGATGCCA
43436 ACGCCGGAGG
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
20 2 0.04
21 44 0.96
ACGTcount: A:0.23, C:0.33, G:0.27, T:0.16
Consensus pattern (21 bp):
TCAGATGCCACCGCAGCGAGG
Found at i:43898 original size:2 final size:2
Alignment explanation
Indices: 43891--43945 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
43881 TTTATTTAAT
43891 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
43933 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
43946 TATTTATTTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:49763 original size:36 final size:36
Alignment explanation
Indices: 49703--49885 Score: 237
Period size: 36 Copynumber: 4.9 Consensus size: 36
49693 TGCAAACGAT
49703 TTTTGAAAATACATATATAATATATAGTTTTTAAAACA
1 TTTTG-AAA-ACATATATAATATATAGTTTTTAAAACA
49741 CTTTTGAAAAC-TATATAATATATAGTTTTTAAAACA
1 -TTTTGAAAACATATATAATATATAGTTTTTAAAACA
*
49777 TTTT-AGAAA-ATATATAATATATAATTTTTAAAATCA
1 TTTTGA-AAACATATATAATATATAGTTTTTAAAA-CA
*
49813 TTTTGAAAACTTATATAATATATAGTTTTTGAAAACA
1 TTTTGAAAACATATATAATATATAGTTTTT-AAAACA
*
49850 TTTTTGAAAACATATATATAATATATAATTTTTAAA
1 -TTTTGAAAAC--ATATATAATATATAGTTTTTAAA
49886 TTTTTTTAAA
Statistics
Matches: 130, Mismatches: 5, Indels: 18
0.85 0.03 0.12
Matches are distributed among these distances:
34 1 0.01
35 29 0.22
36 34 0.26
37 23 0.18
38 17 0.13
39 8 0.06
40 18 0.14
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (36 bp):
TTTTGAAAACATATATAATATATAGTTTTTAAAACA
Found at i:49855 original size:12 final size:12
Alignment explanation
Indices: 49838--49862 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
49828 TAATATATAG
49838 TTTTTGAAAACA
1 TTTTTGAAAACA
49850 TTTTTGAAAACA
1 TTTTTGAAAACA
49862 T
1 T
49863 ATATATAATA
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:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (12 bp):
TTTTTGAAAACA
Found at i:49889 original size:36 final size:36
Alignment explanation
Indices: 49674--49904 Score: 186
Period size: 35 Copynumber: 6.2 Consensus size: 36
49664 ATCTATATAT
** *
49674 ATATATATATATTATAGTTTGCAAACGATTTTTGAAAATA
1 ATATATA-ATA-TATAGTTTTTAAA--ATTTTTGAAAACA
*
49714 CATATATAATATATAGTTTTTAAAACACTTTTGAAAAC-
1 -ATATATAATATATAGTTTTT-AAA-ATTTTTGAAAACA
* *
49752 -TATATAATATATAGTTTTTAAAACATTTT-AGAA-A
1 ATATATAATATATAGTTTTTAAAA-TTTTTGAAAACA
*
49786 ATATATAATATATAATTTTTAAAATCATTTTGAAAAC-
1 ATATATAATATATAGTTTTTAAAAT--TTTTGAAAACA
*
49823 TTATATAATATATAGTTTTTGAAAACATTTTTGAAAACA
1 ATATATAATATATAGTTTTT--AAA-ATTTTTGAAAACA
* * *
49862 TATATATAATATATAATTTTTAAATTTTTTTAAAA-A
1 -ATATATAATATATAGTTTTTAAAATTTTTGAAAACA
*
49898 TTATATA
1 ATATATA
49905 GTATTTAAAA
Statistics
Matches: 160, Mismatches: 17, Indels: 32
0.77 0.08 0.15
Matches are distributed among these distances:
34 4 0.03
35 35 0.22
36 24 0.15
37 30 0.19
38 13 0.08
39 21 0.13
40 26 0.16
41 7 0.04
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (36 bp):
ATATATAATATATAGTTTTTAAAATTTTTGAAAACA
Found at i:49950 original size:31 final size:31
Alignment explanation
Indices: 49889--49947 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
49879 TTTTAAATTT
49889 TTTTAAAAATTATATAGTATTTAAAAAAACA
1 TTTTAAAAATTATATAGTATTTAAAAAAACA
49920 TTTTAAAAATTATATAGT-TTTAAAAAAA
1 TTTTAAAAATTATATAGTATTTAAAAAAA
49948 ACAAATTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 10 0.36
31 18 0.64
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (31 bp):
TTTTAAAAATTATATAGTATTTAAAAAAACA
Found at i:50042 original size:23 final size:25
Alignment explanation
Indices: 49997--50045 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
49987 AGAAAAAACA
*
49997 TTTTTAAAAATTTATATTATATATT
1 TTTTTAAAAATTAATATTATATATT
*
50022 TTTTTAAAAA-TAAT-TTTTATATT
1 TTTTTAAAAATTAATATTATATATT
50045 T
1 T
50046 ATTAATATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 9 0.41
24 3 0.14
25 10 0.45
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (25 bp):
TTTTTAAAAATTAATATTATATATT
Found at i:50069 original size:3 final size:3
Alignment explanation
Indices: 50044--50094 Score: 52
Period size: 3 Copynumber: 17.7 Consensus size: 3
50034 ATTTTTATAT
* * * *
50044 TTA TTA ATA TTA TTA ATA ATA TTA TTA TTA TT- TT- TTA TTA TTC TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
50090 TTA TT
1 TTA TT
50095 GATTTATTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
2 4 0.10
3 37 0.90
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:57699 original size:31 final size:31
Alignment explanation
Indices: 57661--57845 Score: 309
Period size: 31 Copynumber: 6.0 Consensus size: 31
57651 CCCGAAGGAC
* *
57661 CAGTCCATA-GATTCCGAAGAACCTAGGTAAA
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
*
57692 CAGTCCATATGTCCTGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
57723 TAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
57754 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
57785 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
57816 CAGTCCATATGTCCTGAAGAACATAGGTAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAA
57846 CCCTCGACCC
Statistics
Matches: 146, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
31 145 0.99
32 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.21
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:61803 original size:73 final size:73
Alignment explanation
Indices: 61723--62011 Score: 275
Period size: 73 Copynumber: 4.1 Consensus size: 73
61713 AATTTACTCA
* * * *
61723 AAACAAATTTTTGTCTCTCTCTTAAGATAGTTTCTCTTGAAACAAATTT-TCTCTCTTGAGATAG
1 AAACAAA-TTTTGTCTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTGTCTCTCTTGAGACAG
61787 TTTCCCTTG
65 TTTCCCTTG
* *
61796 AAACAAATTTTG--TCTCTCTTGAGACAGTTTCCCTTGAAACAAA-----ATCT-TTGA-ATATG
1 AAACAAATTTTGTCTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTGTCTCTCTTGAGACA-G
61852 TGTT-CCTTG
65 T-TTCCCTTG
* ** * *
61861 AAACAAATTTCGTCTC-C-CTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACA
1 AAACAAATTTTGTCTCTCTCTTGAGACAGTTTCCCTTGAAAC-AA-ATTTGTCTCTCTTGAGACA
* * *
61924 TTTTCTCTCG
64 GTTTCCCTTG
61934 AAACAAATTTTGTCTCTCT-TT-AGACAGTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACA
1 AAACAAATTTTGTCTCTCTCTTGAGACAGTTTCCCTTGAAACAAA--TTTGTCTCTCTTGAGACA
*
61997 GTTTCTCTTG
64 GTTTCCCTTG
62007 AAACA
1 AAACA
62012 CCAACCTTTG
Statistics
Matches: 177, Mismatches: 21, Indels: 36
0.76 0.09 0.15
Matches are distributed among these distances:
64 3 0.02
65 42 0.24
66 8 0.05
67 2 0.01
70 28 0.16
72 12 0.07
73 77 0.44
74 5 0.03
ACGTcount: A:0.26, C:0.20, G:0.13, T:0.40
Consensus pattern (73 bp):
AAACAAATTTTGTCTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTGTCTCTCTTGAGACAGT
TTCCCTTG
Found at i:61812 original size:36 final size:36
Alignment explanation
Indices: 61723--61838 Score: 164
Period size: 36 Copynumber: 3.2 Consensus size: 36
61713 AATTTACTCA
* *
61723 AAACAAATTTTTGTCTCTCTCTTAAGATAGTTTCTCTTG
1 AAACAAA-TTTTG--TCTCTCTTGAGATAGTTTCCCTTG
61762 AAACAAA-TTT-TCTCTCTTGAGATAGTTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGAGATAGTTTCCCTTG
*
61796 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGAGATAGTTTCCCTTG
61832 AAACAAA
1 AAACAAA
61839 ATCTTTGAAT
Statistics
Matches: 72, Mismatches: 3, Indels: 7
0.88 0.04 0.09
Matches are distributed among these distances:
34 29 0.40
35 3 0.04
36 30 0.42
37 3 0.04
39 7 0.10
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.40
Consensus pattern (36 bp):
AAACAAATTTTGTCTCTCTTGAGATAGTTTCCCTTG
Found at i:61937 original size:102 final size:99
Alignment explanation
Indices: 61758--61940 Score: 258
Period size: 102 Copynumber: 1.8 Consensus size: 99
61748 GATAGTTTCT
* *
61758 CTTGAAACAAATTTTCTCTCTTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
1 CTTGAAACAAATTTTCTCCCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
*
61823 TTTCCCTTGAAACAAAATCTTTGAATATGTGTTC
66 TTTCCCTCGAAACAAAATCTTTGAATATGTGTTC
** * *
61857 CTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGA
1 CTTGAAACAAATTT--TCTCCCTTGAGACAGTTTCCCTTGAAAC-AAATTTTGTCTCTCTTGAGA
* *
61922 CATTTTCTCTCGAAACAAA
63 CAGTTTCCCTCGAAACAAA
61941 TTTTGTCTCT
Statistics
Matches: 72, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
99 14 0.19
101 23 0.32
102 35 0.49
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.39
Consensus pattern (99 bp):
CTTGAAACAAATTTTCTCCCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
TTTCCCTCGAAACAAAATCTTTGAATATGTGTTC
Found at i:61952 original size:36 final size:36
Alignment explanation
Indices: 61857--62011 Score: 211
Period size: 37 Copynumber: 4.2 Consensus size: 36
61847 ATATGTGTTC
* *
61857 CTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCT
1 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCT
* * * *
61893 TTTGGAACTAAGTTTTGTCTCTCTTGAGACATTTTCT
1 CTTGAAAC-AAATTTTGTCTCTCTTGAGACAGTTTCT
* * *
61930 CTCGAAACAAATTTTGTCTCTCTTTAGACAGTTTCC
1 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCT
61966 CTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCT
1 CTTGAAACAAA-TTTTGTCTCTCTTGAGACAGTTTCT
62003 CTTGAAACA
1 CTTGAAACA
62012 CCAACCTTTG
Statistics
Matches: 101, Mismatches: 16, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
36 40 0.40
37 61 0.60
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (36 bp):
CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCT
Found at i:62105 original size:34 final size:34
Alignment explanation
Indices: 62064--62153 Score: 128
Period size: 37 Copynumber: 2.6 Consensus size: 34
62054 CCTGGAGACA
62064 GTTTCTCTTGAAACACAAAAAAACCTTTG-AAAT
1 GTTTCTCTTGAAACACAAAAAAACCTTTGAAAAT
*
62097 CGTTTCTCTTGAAACATAAAAAAAAAACCTTTGAAAAT
1 -GTTTCTCTTGAAAC---ACAAAAAAACCTTTGAAAAT
62135 GTTTCTCTTGAAACACAAA
1 GTTTCTCTTGAAACACAAA
62154 GACCTTTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
34 18 0.36
37 28 0.56
38 4 0.08
ACGTcount: A:0.43, C:0.18, G:0.09, T:0.30
Consensus pattern (34 bp):
GTTTCTCTTGAAACACAAAAAAACCTTTGAAAAT
Found at i:62357 original size:84 final size:85
Alignment explanation
Indices: 62207--62398 Score: 208
Period size: 84 Copynumber: 2.3 Consensus size: 85
62197 TGCAGTATAA
* * * * *
62207 CTCAAGGCTAGAAGGGTTATCTGCTAACCAAATACCTTCGAGTTCGACTACGCTCAGCTCAAAGG
1 CTCAAGGCAAGAAGGGCTATCTGCTAACCAAAGACCTTCGAGTTCGACTACACTCAACTCAAAGG
* *
62272 CACATC-ATTTGCAACATAG
66 CAAATCAATTTACAACATAG
* * * * * * *
62291 CTTAAGTCGAGAAGGGCTATCTG-TCAACCAAAGACCTTCGAGTTCGATTATATTCAACTCAGAG
1 CTCAAGGCAAGAAGGGCTATCTGCT-AACCAAAGACCTTCGAGTTCGACTACACTCAACTCAAAG
*
62355 GCAAATCAAATTTACAGCATAG
65 GCAAATC-AATTTACAACATAG
*
62377 CTCAAGGCAATAAGGGCTATCT
1 CTCAAGGCAAGAAGGGCTATCT
62399 ATTAATTAAA
Statistics
Matches: 87, Mismatches: 18, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
83 1 0.01
84 57 0.66
86 29 0.33
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.24
Consensus pattern (85 bp):
CTCAAGGCAAGAAGGGCTATCTGCTAACCAAAGACCTTCGAGTTCGACTACACTCAACTCAAAGG
CAAATCAATTTACAACATAG
Found at i:62983 original size:37 final size:36
Alignment explanation
Indices: 62942--63195 Score: 239
Period size: 36 Copynumber: 7.1 Consensus size: 36
62932 ATATATATCT
* **
62942 ATATATTATATAG-TTTGCAAACGATTTTTGAAAATACA
1 ATATAATATATAGTTTTTAAAAC-ATTTTTGAAAAT--A
* *
62980 TATATAATATATAGTTTTTAAAACACTTTTGAATACT-
1 -ATATAATATATAGTTTTTAAAACATTTTTGAA-AATA
*
63017 ATATAATATATAGTTTTTAAAACATTTTAGAAAAT-
1 ATATAATATATAGTTTTTAAAACATTTTTGAAAATA
63052 ATATAATATATAGTTTTTAAAATCA-TTTTGAAAAATA
1 ATATAATATATAGTTTTTAAAA-CATTTTTG-AAAATA
63089 ATATAATATATAGTTTTTGAAAACATTTTTGAAAA-A
1 ATATAATATATAGTTTTT-AAAACATTTTTGAAAATA
63125 GTATATAATATATAGTTTTTGAAAAC----TT----AT-
1 --ATATAATATATAGTTTTT-AAAACATTTTTGAAAATA
* *
63155 ATATAATATATAATTTTTAAAACATTTTTGAAAATT
1 ATATAATATATAGTTTTTAAAACATTTTTGAAAATA
63191 ATATA
1 ATATA
63196 GTTTTTAAAA
Statistics
Matches: 186, Mismatches: 10, Indels: 41
0.78 0.04 0.17
Matches are distributed among these distances:
27 5 0.03
28 17 0.09
30 1 0.01
31 2 0.01
34 2 0.01
35 30 0.16
36 43 0.23
37 24 0.13
38 33 0.18
39 20 0.11
40 9 0.05
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.44
Consensus pattern (36 bp):
ATATAATATATAGTTTTTAAAACATTTTTGAAAATA
Found at i:63027 original size:36 final size:35
Alignment explanation
Indices: 62979--63195 Score: 254
Period size: 36 Copynumber: 6.2 Consensus size: 35
62969 TTGAAAATAC
*
62979 ATATATAATATATAGTTTTTAAAACACTTTTGAATA
1 ATATATAATATATAGTTTTTAAAACA-TTTTGAAAA
*
63015 CTATATAATATATAGTTTTTAAAACATTTT-AGAAA
1 ATATATAATATATAGTTTTTAAAACATTTTGA-AAA
63050 ATATATAATATATAGTTTTTAAAATCATTTTGAAAA
1 ATATATAATATATAGTTTTTAAAA-CATTTTGAAAA
63086 ATAATATAATATATAGTTTTTGAAAACATTTTTGAAAA
1 AT-ATATAATATATAGTTTTT-AAAACA-TTTTGAAAA
63124 AGTATATAATATATAGTTTTTGAAAAC---TT-----
1 A-TATATAATATATAGTTTTT-AAAACATTTTGAAAA
*
63153 ATATATAATATATAATTTTTAAAACATTTTTGAAAA
1 ATATATAATATATAGTTTTTAAAACA-TTTTGAAAA
*
63189 TTATATA
1 ATATATA
63196 GTTTTTAAAA
Statistics
Matches: 160, Mismatches: 5, Indels: 32
0.81 0.03 0.16
Matches are distributed among these distances:
27 5 0.03
28 18 0.11
29 1 0.01
31 2 0.01
34 3 0.02
35 29 0.18
36 42 0.26
37 21 0.13
38 38 0.24
39 1 0.01
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (35 bp):
ATATATAATATATAGTTTTTAAAACATTTTGAAAA
Found at i:63081 original size:110 final size:110
Alignment explanation
Indices: 62967--63168 Score: 293
Period size: 110 Copynumber: 1.8 Consensus size: 110
62957 TGCAAACGAT
*
62967 TTTTGAAAATACATATATAATATATAGTTTTT-AAAACACTTTTG-AATACTATATAATATATAG
1 TTTTGAAAA-ACA-ATATAATATATAGTTTTTGAAAACACTTTTGAAAAACTATATAATATATAG
*
63030 TTTTT-AAAACATTTTAGAAAATATATAATATATAGTTTTTAAAATCA
64 TTTTTGAAAAC-TTATAGAAAATATATAATATATAGTTTTTAAAATCA
* * *
63077 TTTTGAAAAATAATATAATATATAGTTTTTGAAAACATTTTTGAAAAAGTATATAATATATAGTT
1 TTTTGAAAAACAATATAATATATAGTTTTTGAAAACACTTTTGAAAAACTATATAATATATAGTT
* *
63142 TTTGAAAACTTATATATAATATATAAT
66 TTTGAAAACTTATAGAAAATATATAAT
63169 TTTTAAAACA
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
108 18 0.22
109 13 0.16
110 46 0.56
111 5 0.06
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (110 bp):
TTTTGAAAAACAATATAATATATAGTTTTTGAAAACACTTTTGAAAAACTATATAATATATAGTT
TTTGAAAACTTATAGAAAATATATAATATATAGTTTTTAAAATCA
Found at i:63143 original size:26 final size:26
Alignment explanation
Indices: 63113--63176 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 26
63103 TTTTGAAAAC
63113 ATTTTTGAAAA-AGTATATAATATATA
1 ATTTTTGAAAATA-TATATAATATATA
*
63139 GTTTTTGAAAACTTATATATAATATATA
1 ATTTTTGAAAA--TATATATAATATATA
63167 ATTTTT-AAAA
1 ATTTTTGAAAA
63177 CATTTTTGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
26 10 0.30
27 4 0.12
28 18 0.55
29 1 0.03
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (26 bp):
ATTTTTGAAAATATATATAATATATA
Found at i:63238 original size:32 final size:31
Alignment explanation
Indices: 63161--63257 Score: 128
Period size: 31 Copynumber: 3.2 Consensus size: 31
63151 TTATATATAA
*
63161 TATATAATTTTT--AAAACATTTTTGAAAAT
1 TATATAGTTTTTAAAAAACATTTTTGAAAAT
*
63190 TATATAGTTTTTAAAAAACATTTTTAAAAAT
1 TATATAGTTTTTAAAAAACATTTTTGAAAAT
* *
63221 TATATAGTTTTTTAAAAACCAATTTTGAAAAT
1 TATATAG-TTTTTAAAAAACATTTTTGAAAAT
63253 T-TATA
1 TATATA
63258 AATAATATAT
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
29 11 0.18
31 27 0.45
32 22 0.37
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.46
Consensus pattern (31 bp):
TATATAGTTTTTAAAAAACATTTTTGAAAAT
Found at i:63343 original size:3 final size:3
Alignment explanation
Indices: 63335--63385 Score: 66
Period size: 3 Copynumber: 16.7 Consensus size: 3
63325 CTTTTTATAT
* * *
63335 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTC TTT TTA TTA TTC
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
63381 TTA TT
1 TTA TT
63386 GTTGATTTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
3 40 0.95
4 2 0.05
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:69441 original size:21 final size:21
Alignment explanation
Indices: 69417--69462 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
69407 AAGCGACATT
69417 GCCATATGGATTGTTCGTGGA
1 GCCATATGGATTGTTCGTGGA
69438 GCCATATGGATTGTTCGTGGA
1 GCCATATGGATTGTTCGTGGA
69459 GCCA
1 GCCA
69463 CATTGATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.20, C:0.17, G:0.33, T:0.30
Consensus pattern (21 bp):
GCCATATGGATTGTTCGTGGA
Found at i:70347 original size:19 final size:19
Alignment explanation
Indices: 70318--70368 Score: 84
Period size: 19 Copynumber: 2.7 Consensus size: 19
70308 ATGTAATTAG
*
70318 TGTACCAATACACCTGGGA
1 TGTACCGATACACCTGGGA
*
70337 TGTACTGATACACCTGGGA
1 TGTACCGATACACCTGGGA
70356 TGTACCGATACAC
1 TGTACCGATACAC
70369 TTGGTCAACT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (19 bp):
TGTACCGATACACCTGGGA
Found at i:74126 original size:12 final size:12
Alignment explanation
Indices: 74109--74133 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
74099 TTGTAAACAC
74109 ACATGACGTTGG
1 ACATGACGTTGG
74121 ACATGACGTTGG
1 ACATGACGTTGG
74133 A
1 A
74134 GAACCATCAT
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:0.28, C:0.16, G:0.32, T:0.24
Consensus pattern (12 bp):
ACATGACGTTGG
Found at i:80654 original size:3 final size:3
Alignment explanation
Indices: 80646--80670 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
80636 AATCAGGGTT
80646 TTG TTG TTG TTG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG T
80671 AATAACTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:81241 original size:20 final size:20
Alignment explanation
Indices: 81213--81265 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
81203 GATTTTCCAG
* *
81213 AATCGCAACGCGAATATGA-A
1 AATCACAACGCGAACAT-ATA
81233 AATCACAACGCGAACATATA
1 AATCACAACGCGAACATATA
*
81253 AATCACAATGCGA
1 AATCACAACGCGA
81266 TTCTGACTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 1 0.03
20 28 0.97
ACGTcount: A:0.47, C:0.23, G:0.15, T:0.15
Consensus pattern (20 bp):
AATCACAACGCGAACATATA
Found at i:81318 original size:20 final size:20
Alignment explanation
Indices: 81274--81488 Score: 211
Period size: 20 Copynumber: 10.6 Consensus size: 20
81264 GATTCTGACT
* * *
81274 ATCGCAACGAGTATTCGTAAA
1 ATCGCAACGCGAATACGT-AA
* *
81295 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGCGAATACGTAA
81315 ATCGCAACGAC-AATACGTAAA
1 ATCGCAACG-CGAATACGT-AA
* * *
81336 ATCGCAACGCGTATCCATAA
1 ATCGCAACGCGAATACGTAA
*
81356 ATCGCAACGAGAATACGTAA
1 ATCGCAACGCGAATACGTAA
*
81376 ATCGCAACGAGAATACGTAA
1 ATCGCAACGCGAATACGTAA
*
81396 ATCGCAACGCGTAT-CTGTAA
1 ATCGCAACGCGAATAC-GTAA
* *
81416 ATCGCAACGAGAATATGTAA
1 ATCGCAACGCGAATACGTAA
* * *
81436 ATCGCAATGCGTATCCGTAA
1 ATCGCAACGCGAATACGTAA
81456 ATCGCAACGAC-AATACGTAAA
1 ATCGCAACG-CGAATACGT-AA
81477 ATCGCAACGCGA
1 ATCGCAACGCGA
81489 TTTTTAAAGC
Statistics
Matches: 162, Mismatches: 24, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
19 1 0.01
20 116 0.72
21 45 0.28
ACGTcount: A:0.39, C:0.24, G:0.19, T:0.19
Consensus pattern (20 bp):
ATCGCAACGCGAATACGTAA
Found at i:81425 original size:60 final size:60
Alignment explanation
Indices: 81274--81464 Score: 240
Period size: 60 Copynumber: 3.1 Consensus size: 60
81264 GATTCTGACT
* * * * *
81274 ATCGCAACGAGTAT-TCGTAAAATCGCAACGCGTATCCGTAAATCGCAACGACAATACGTAAA
1 ATCGCAACGCGTATCT-GT-AAATCGCAACGAGAATACGTAAATCGCAACGAGAATACGT-AA
**
81336 ATCGCAACGCGTATCCATAAATCGCAACGAGAATACGTAAATCGCAACGAGAATACGTAA
1 ATCGCAACGCGTATCTGTAAATCGCAACGAGAATACGTAAATCGCAACGAGAATACGTAA
* * * * *
81396 ATCGCAACGCGTATCTGTAAATCGCAACGAGAATATGTAAATCGCAATGCGTATCCGTAA
1 ATCGCAACGCGTATCTGTAAATCGCAACGAGAATACGTAAATCGCAACGAGAATACGTAA
81456 ATCGCAACG
1 ATCGCAACG
81465 ACAATACGTA
Statistics
Matches: 114, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
60 64 0.56
61 36 0.32
62 14 0.12
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.19
Consensus pattern (60 bp):
ATCGCAACGCGTATCTGTAAATCGCAACGAGAATACGTAAATCGCAACGAGAATACGTAA
Found at i:81759 original size:27 final size:27
Alignment explanation
Indices: 81702--81755 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
81692 CATCTCCGAC
***
81702 GAAATCCCTCACAACCATTCACGGTCT
1 GAAATCCCTCACAACCATTCACGAAAT
*
81729 GAAATCCCTCACAATCATTCA-GAAAT
1 GAAATCCCTCACAACCATTCACGAAAT
81755 G
1 G
81756 GAAAATCAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
26 3 0.13
27 20 0.87
ACGTcount: A:0.35, C:0.31, G:0.11, T:0.22
Consensus pattern (27 bp):
GAAATCCCTCACAACCATTCACGAAAT
Found at i:82083 original size:20 final size:20
Alignment explanation
Indices: 82046--82084 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
82036 TTCTAAACTT
**
82046 AAAATCGCAACATGAAAATA
1 AAAATCGCAACACAAAAATA
82066 AAAATCGCAACACAAAAAT
1 AAAATCGCAACACAAAAAT
82085 GACTATCGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.62, C:0.18, G:0.08, T:0.13
Consensus pattern (20 bp):
AAAATCGCAACACAAAAATA
Found at i:82172 original size:20 final size:19
Alignment explanation
Indices: 82114--82202 Score: 66
Period size: 20 Copynumber: 4.8 Consensus size: 19
82104 CAAAATTGCA
82114 TTGCGATTTTCATTT-CGC
1 TTGCGATTTTCATTTCCGC
*
82132 GTTGCGA--TTC-TCT-CG-
1 -TTGCGATTTTCATTTCCGC
82147 TTGCGATTTTCATTTCCGC
1 TTGCGATTTTCATTTCCGC
**
82166 ATTGCGATAGTCATTCTCTCG-
1 -TTGCGATTTTCATT-TC-CGC
82187 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
82203 AACCAAAAGA
Statistics
Matches: 56, Mismatches: 6, Indels: 16
0.72 0.08 0.21
Matches are distributed among these distances:
14 6 0.11
16 7 0.12
17 5 0.09
18 2 0.04
19 8 0.14
20 24 0.43
21 2 0.04
22 2 0.04
ACGTcount: A:0.12, C:0.24, G:0.18, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCCGC
Found at i:84059 original size:94 final size:94
Alignment explanation
Indices: 83898--84277 Score: 638
Period size: 94 Copynumber: 4.1 Consensus size: 94
83888 TAGATTGCTT
* *
83898 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
83963 ATTTGTCTTTTGTTTTATCTTTTGGTTG-A
66 ATTTGTC-TTTGTTTTGTCTTTTGGTTGAA
* *
83992 AGTAAATTTATTCGGTTGCTGCCAATTCTACTAAACTGTGTATTCTTTAACAGTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
84057 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* *
84086 AGTAAATTTGTTCGGTTGCTGCGAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
84151 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* * * *
84180 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAATACTCTAAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
84245 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
84273 AGTAA
1 AGTAA
84278 TGCAATCCAT
Statistics
Matches: 272, Mismatches: 13, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
93 25 0.09
94 247 0.91
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.47
Consensus pattern (94 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:84381 original size:19 final size:19
Alignment explanation
Indices: 84325--84458 Score: 108
Period size: 19 Copynumber: 7.4 Consensus size: 19
84315 TAGTTTACTT
* *
84325 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
* **
84345 TCGCAACGTGAAAAATGACTA
1 TCGCAACGCG--AAATGAAAA
84366 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
84385 TCGCAA--CG--A-GAGAA
1 TCGCAACGCGAAATGAAAA
84399 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
84418 TCGCAA--CG--A-GAGAA
1 TCGCAACGCGAAATGAAAA
84432 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
84451 TCGCAACG
1 TCGCAACG
84459 ACAAAATCGC
Statistics
Matches: 90, Mismatches: 12, Indels: 25
0.71 0.09 0.20
Matches are distributed among these distances:
14 20 0.22
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 35 0.39
20 8 0.09
21 12 0.13
22 3 0.03
ACGTcount: A:0.45, C:0.22, G:0.21, T:0.12
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:84402 original size:14 final size:14
Alignment explanation
Indices: 84383--84439 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
84373 GCGAAATGAA
84383 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
84397 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
84416 AATCGCAACGAGAG
1 AATCGCAACGAGAG
84430 AATCGCAACG
1 AATCGCAACG
84440 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:84407 original size:33 final size:33
Alignment explanation
Indices: 84365--84489 Score: 214
Period size: 33 Copynumber: 3.8 Consensus size: 33
84355 AAAAATGACT
84365 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
84398 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
* *
84431 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
**
84464 ATCGCAACGCGAAACCAAAATCGCAA
1 ATCGCAACGCGAAATGAAAATCGCAA
84490 TGTGAAACTA
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 88 1.00
ACGTcount: A:0.46, C:0.24, G:0.21, T:0.09
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
Found at i:84484 original size:19 final size:18
Alignment explanation
Indices: 84325--84489 Score: 68
Period size: 19 Copynumber: 9.3 Consensus size: 18
84315 TAGTTTACTT
*
84325 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC--AAAA
*
84345 TCGCAACGTGAAA-AATGACTA
1 TCGCAACGCGAAACAA--A--A
*
84366 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAA-CAAAA
* *
84385 TCGCAA--CG--AGAGAA
1 TCGCAACGCGAAACAAAA
*
84399 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAA-CAAAA
* *
84418 TCGCAA--CG--AGAGAA
1 TCGCAACGCGAAACAAAA
*
84432 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAA-CAAAA
84451 TCGCAA--CG--ACAAAA
1 TCGCAACGCGAAACAAAA
84465 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAA-CAAAA
84484 TCGCAA
1 TCGCAA
84490 TGTGAAACTA
Statistics
Matches: 116, Mismatches: 8, Indels: 43
0.69 0.05 0.26
Matches are distributed among these distances:
14 30 0.26
15 3 0.03
16 6 0.05
17 8 0.07
18 3 0.03
19 39 0.34
20 11 0.09
21 14 0.12
23 2 0.02
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (18 bp):
TCGCAACGCGAAACAAAA
Found at i:84563 original size:19 final size:19
Alignment explanation
Indices: 84503--84590 Score: 62
Period size: 19 Copynumber: 4.8 Consensus size: 19
84493 GAAACTATAA
*
84503 TCGCGTTACGATTTTCATT
1 TCGCGTTGCGATTTTCATT
84522 TCGCGTTTG-GA--TTC---
1 TCGCG-TTGCGATTTTCATT
*
84536 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
84555 TCGCGTTGCGATAGTCATTTT
1 TCGCGTTGCGATTTTCA--TT
*
84576 TCACGTTGCGATTTT
1 TCGCGTTGCGATTTT
84591 AAGTTCCAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 16
0.68 0.11 0.21
Matches are distributed among these distances:
13 3 0.06
14 6 0.12
16 3 0.06
17 3 0.06
19 21 0.40
20 2 0.04
21 14 0.27
ACGTcount: A:0.12, C:0.20, G:0.20, T:0.47
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:86478 original size:14 final size:14
Alignment explanation
Indices: 86459--86485 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
86449 ATTGTTTAAT
86459 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
86473 TGATTTGTAAAAG
1 TGATTTGTAAAAG
86486 TTAATTTGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:86492 original size:14 final size:14
Alignment explanation
Indices: 86461--86494 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
86451 TGTTTAATTG
*
86461 ATTTGTAAAAGATG
1 ATTTGTAAAAGATA
*
86475 ATTTGTAAAAGTTA
1 ATTTGTAAAAGATA
86489 ATTTGT
1 ATTTGT
86495 TTAATTGATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.44
Consensus pattern (14 bp):
ATTTGTAAAAGATA
Found at i:86623 original size:19 final size:19
Alignment explanation
Indices: 86601--86692 Score: 87
Period size: 19 Copynumber: 5.4 Consensus size: 19
86591 AAAAATGACT
86601 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
86620 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
*
86634 ATCACAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
86653 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
86667 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
86686 ATCGCAA
1 ATCGCAA
86693 CGACAAAATC
Statistics
Matches: 57, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
14 19 0.33
15 2 0.04
16 4 0.07
17 4 0.07
18 2 0.04
19 26 0.46
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:86647 original size:33 final size:33
Alignment explanation
Indices: 86601--86713 Score: 190
Period size: 33 Copynumber: 3.4 Consensus size: 33
86591 AAAAATGACT
86601 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
86634 ATCACAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
86667 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
86700 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
86714 CTAAATTCGC
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 75 1.00
ACGTcount: A:0.47, C:0.20, G:0.21, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:86834 original size:20 final size:19
Alignment explanation
Indices: 86799--86855 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 19
86789 ATTGCGATTT
*
86799 TCATTTCGCATTGCGATAG
1 TCATTTCGCGTTGCGATAG
*
86818 TCATTTCCGCGTTGCGATAT
1 TCATTT-CGCGTTGCGATAG
*
86838 TCTAATTCGCGTTGCGAT
1 TC-ATTTCGCGTTGCGAT
86856 TTTCACGTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
19 6 0.18
20 24 0.73
21 3 0.09
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.39
Consensus pattern (19 bp):
TCATTTCGCGTTGCGATAG
Found at i:86866 original size:14 final size:14
Alignment explanation
Indices: 86847--86874 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
86837 TTCTAATTCG
86847 CGTTGCGATTTTCA
1 CGTTGCGATTTTCA
86861 CGTTGCGATTTTCA
1 CGTTGCGATTTTCA
86875 TTTCGCATTG
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:0.21, G:0.21, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTTTCA
Found at i:86886 original size:33 final size:33
Alignment explanation
Indices: 86723--86888 Score: 163
Period size: 33 Copynumber: 4.8 Consensus size: 33
86713 ACTAAATTCG
*
86723 CGTTGCGATTTTCATTTCGC-CTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
* * *
86755 CGTTGCGATTTTCATTTTGCTTTGTGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
* *
86788 CATTGCGATTTTCATTTCGCATTGCGATAGTCATTTCCG
1 CGTTGCGATTTTCATTTCGCATTGCGAT--TC---T-CT
* * * * *
86827 CGTTGCGATATTCTAATTCGCGTTGCGATTTTCA
1 CGTTGCGATTTTC-ATTTCGCATTGCGATTCTCT
86861 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
86889 AGACATTAAG
Statistics
Matches: 109, Mismatches: 17, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
32 19 0.17
33 47 0.43
34 13 0.12
35 3 0.03
38 2 0.02
39 12 0.11
40 13 0.12
ACGTcount: A:0.14, C:0.22, G:0.19, T:0.45
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:89351 original size:24 final size:24
Alignment explanation
Indices: 89317--89370 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
89307 CTGAAAAATC
89317 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
89341 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
89365 ATCAAA
1 ATCAAA
89371 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:89384 original size:24 final size:24
Alignment explanation
Indices: 89317--89384 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
89307 CTGAAAAATC
* * *
89317 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
89341 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
89365 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
89385 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:90256 original size:20 final size:20
Alignment explanation
Indices: 90231--90361 Score: 147
Period size: 20 Copynumber: 6.5 Consensus size: 20
90221 GTCAGAATCT
* *
90231 CGTTGCGATTTACGTATTCG
1 CGTTGCGATTTACGGATACG
*
90251 CATTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACG
90271 CGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACG
* *
90291 CGTTGCGATTTTACGTAT-TG
1 CGTTGCGA-TTTACGGATACG
* * *
90311 TCGTTGTGATTTACGAATATG
1 -CGTTGCGATTTACGGATACG
*
90332 CGTTGCGATTTTACGGATACT
1 CGTTGCGA-TTTACGGATACG
90353 CGTTGCGAT
1 CGTTGCGAT
90362 AGTCAGAATC
Statistics
Matches: 95, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
20 61 0.64
21 34 0.36
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.37
Consensus pattern (20 bp):
CGTTGCGATTTACGGATACG
Found at i:90316 original size:41 final size:41
Alignment explanation
Indices: 90230--90383 Score: 163
Period size: 41 Copynumber: 3.8 Consensus size: 41
90220 AGTCAGAATC
* * *
90230 TCGTTGCGATTTACGTATTCGCATTGCGA-TTTACGGATACG
1 TCGTTGCGATTTACGAATACGCGTTGCGATTTTACGGATA-G
* * *
90271 -CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTG
1 TCGTTGCGATTTACGAATACGCGTTGCGATTTTACGGATAG
* * *
90311 TCGTTGTGATTTACGAATATGCGTTGCGATTTTACGGATAC
1 TCGTTGCGATTTACGAATACGCGTTGCGATTTTACGGATAG
*
90352 TCGTTGCGATAGT-CAGAAT-CGCGTTGCGATTT
1 TCGTTGCGAT-TTAC-GAATACGCGTTGCGATTT
90384 ATATGTTCGC
Statistics
Matches: 95, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
40 26 0.27
41 64 0.67
42 5 0.05
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.37
Consensus pattern (41 bp):
TCGTTGCGATTTACGAATACGCGTTGCGATTTTACGGATAG
Found at i:90335 original size:61 final size:62
Alignment explanation
Indices: 90231--90361 Score: 187
Period size: 61 Copynumber: 2.1 Consensus size: 62
90221 GTCAGAATCT
*
90231 CGTTGCGA-TTTACGTATTCGCATTGCGATTTACGGATACGCGTTGCGA-TTTACGGATACG
1 CGTTGCGATTTTACGTATTCGCATTGCGATTTACGAATACGCGTTGCGATTTTACGGATACG
* * * *
90291 CGTTGCGATTTTACGTATT-GTCGTTGTGATTTACGAATATGCGTTGCGATTTTACGGATACT
1 CGTTGCGATTTTACGTATTCG-CATTGCGATTTACGAATACGCGTTGCGATTTTACGGATACG
90353 CGTTGCGAT
1 CGTTGCGAT
90362 AGTCAGAATC
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
60 9 0.14
61 34 0.54
62 20 0.32
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.37
Consensus pattern (62 bp):
CGTTGCGATTTTACGTATTCGCATTGCGATTTACGAATACGCGTTGCGATTTTACGGATACG
Found at i:90393 original size:20 final size:20
Alignment explanation
Indices: 90370--90422 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
90360 ATAGTCAGAA
*
90370 TCGCGTTGCGATTTAT-ATGT
1 TCGCGTTGCGATTT-TCATAT
90390 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCATAT
*
90410 TCGCGTTACGATT
1 TCGCGTTGCGATT
90423 CTGGAAAATC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 1 0.03
20 29 0.97
ACGTcount: A:0.15, C:0.19, G:0.23, T:0.43
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATAT
Found at i:90521 original size:20 final size:19
Alignment explanation
Indices: 90472--90525 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
90462 ATTCTTCAAA
90472 ATCGCGTTGCGATTCTGGG
1 ATCGCGTTGCGATTCTGGG
* **
90491 AACTGATTTGCGATTCTGGAG
1 ATC-GCGTTGCGATTCTGG-G
90512 ATCGCGTTGCGATT
1 ATCGCGTTGCGATT
90526 TTTATTTCGC
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.07
20 22 0.81
21 3 0.11
ACGTcount: A:0.17, C:0.19, G:0.31, T:0.33
Consensus pattern (19 bp):
ATCGCGTTGCGATTCTGGG
Found at i:92901 original size:24 final size:25
Alignment explanation
Indices: 92869--92924 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 25
92859 TTTAATTTAA
* **
92869 TTATATAATTTAATATTATATATAT
1 TTATATAATATAATAAAATATATAT
92894 TTAT-TAATATAATAAAATATATATT
1 TTATATAATATAATAAAATATATA-T
92919 TTATAT
1 TTATAT
92925 TAACAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
24 16 0.62
25 9 0.35
26 1 0.04
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (25 bp):
TTATATAATATAATAAAATATATAT
Found at i:92912 original size:29 final size:28
Alignment explanation
Indices: 92863--92917 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 28
92853 TAAAATTTTA
**
92863 ATTTAATTATATAATTTAATATTATATAT
1 ATTTAATTATATAATAAAATA-TATATAT
92892 ATTT-ATTAATATAATAAAATATATAT
1 ATTTAATT-ATATAATAAAATATATAT
92918 TTTATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 8 0.35
29 15 0.65
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (28 bp):
ATTTAATTATATAATAAAATATATATAT
Found at i:93056 original size:30 final size:30
Alignment explanation
Indices: 92982--93065 Score: 114
Period size: 30 Copynumber: 2.8 Consensus size: 30
92972 TTTTTGAAAA
* * * *
92982 AAATATTTTTTATTGTCATCTTAACTTATT
1 AAATATATTTTATTTTTATCTTAACCTATT
*
93012 AAATATATTTTATTTTTTTCTTAACCTATT
1 AAATATATTTTATTTTTATCTTAACCTATT
*
93042 AAATATATTTTATTTTTATTTTAA
1 AAATATATTTTATTTTTATCTTAA
93066 TGTATATATA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.32, C:0.07, G:0.01, T:0.60
Consensus pattern (30 bp):
AAATATATTTTATTTTTATCTTAACCTATT
Found at i:93195 original size:19 final size:21
Alignment explanation
Indices: 93171--93210 Score: 66
Period size: 19 Copynumber: 2.0 Consensus size: 21
93161 ATTAACTTAA
93171 AATATTTTAT-TAT-TATTTT
1 AATATTTTATATATGTATTTT
93190 AATATTTTATATATGTATTTT
1 AATATTTTATATATGTATTTT
93211 TTGTTAATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.53
20 3 0.16
21 6 0.32
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (21 bp):
AATATTTTATATATGTATTTT
Found at i:98378 original size:7 final size:7
Alignment explanation
Indices: 98366--98398 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
98356 TTATATTATA
98366 ATAGTAT
1 ATAGTAT
98373 ATAGTAT
1 ATAGTAT
98380 ATAGTAT
1 ATAGTAT
*
98387 ATATTAT
1 ATAGTAT
98394 ATAGT
1 ATAGT
98399 TTTGAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.45
Consensus pattern (7 bp):
ATAGTAT
Found at i:100608 original size:20 final size:20
Alignment explanation
Indices: 100579--100623 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
100569 AATTTGCAGA
* *
100579 AAAATTATCCTCAACGGCTC
1 AAAATCATCCCCAACGGCTC
*
100599 CAAATCATCCCCAACGGCTC
1 AAAATCATCCCCAACGGCTC
100619 AAAAT
1 AAAAT
100624 GGCCACAAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.38, C:0.33, G:0.09, T:0.20
Consensus pattern (20 bp):
AAAATCATCCCCAACGGCTC
Found at i:101600 original size:141 final size:141
Alignment explanation
Indices: 101319--101606 Score: 339
Period size: 141 Copynumber: 2.0 Consensus size: 141
101309 TTAGTCCCTT
** *
101319 AATTTAGGGAATAATTTGAATTGGCTCCCGTATTTAACATGCCCAGAGGACCATTTTGATTATTC
1 AATTTAGGGAATAACCTGAATTGGCTCCCGCATTTAACATGCCCAGAGGACCATTTTGATTATTC
* * *
101384 GACTAAATAATTGGTTAAAATAAACGAGGGTTAATTAGAGCCTCCACTTTTTGTTTAATTTCACC
66 GACTAAATAATTGGTTAAAATAAACGAGGGTAAATTAGAACCTCCACTTTTAGTTTAATTTCACC
* *
101449 TCAGTCCTTTA
131 TAAATCCTTTA
** * * *
101460 AATTTAGGGAATAACCTGAATTGGCTTTCGCATTTAATATGTCCAGAGGACTATTTTGATTATTC
1 AATTTAGGGAATAACCTGAATTGGCTCCCGCATTTAACATGCCCAGAGGACCATTTTGATTATTC
* * ** * *
101525 GACTAAATAGTTGTTTAAAATAAATTAGGGATAATATTAGAACCTCTA-TTTTAGTTTTA-TTC-
66 GACTAAATAATTGGTTAAAATAAACGAGGG-TAA-ATTAGAACCTCCACTTTTAGTTTAATTTCA
*
101587 CTCTAAATTCTTTA
129 C-CTAAATCCTTTA
*
101601 ATTTTA
1 AATTTA
101607 TAATTGACAC
Statistics
Matches: 123, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
140 1 0.01
141 100 0.81
142 11 0.09
143 11 0.09
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.39
Consensus pattern (141 bp):
AATTTAGGGAATAACCTGAATTGGCTCCCGCATTTAACATGCCCAGAGGACCATTTTGATTATTC
GACTAAATAATTGGTTAAAATAAACGAGGGTAAATTAGAACCTCCACTTTTAGTTTAATTTCACC
TAAATCCTTTA
Found at i:102995 original size:31 final size:31
Alignment explanation
Indices: 102960--103018 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
102950 CAATGATTGG
*
102960 AAAAGTTTAAGTACCAAAAGGGTAATTTCCC
1 AAAAGTTTAAGGACCAAAAGGGTAATTTCCC
* * *
102991 AAAAGTTTAGGGACCCAAAGTGTAATTT
1 AAAAGTTTAAGGACCAAAAGGGTAATTT
103019 TCAAAATTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.27
Consensus pattern (31 bp):
AAAAGTTTAAGGACCAAAAGGGTAATTTCCC
Found at i:104242 original size:19 final size:20
Alignment explanation
Indices: 104199--104244 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
104189 TATTATGCTG
* *
104199 GAAATTTATGTTAGAGTGTT
1 GAAATTGATGTTAGAATGTT
104219 GAAATTGATGTTAGAATG-T
1 GAAATTGATGTTAGAATGTT
104238 GAAATTG
1 GAAATTG
104245 GGTTATTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.35, C:0.00, G:0.26, T:0.39
Consensus pattern (20 bp):
GAAATTGATGTTAGAATGTT
Found at i:109093 original size:44 final size:45
Alignment explanation
Indices: 109030--109119 Score: 173
Period size: 44 Copynumber: 2.0 Consensus size: 45
109020 TCATATTCTG
109030 ATTCGGAAATTGTGTTAAAAGTTACAATATG-TAAAGTCTGGTAA
1 ATTCGGAAATTGTGTTAAAAGTTACAATATGTTAAAGTCTGGTAA
109074 ATTCGGAAATTGTGTTAAAAGTTACAATATGTTAAAGTCTGGTAA
1 ATTCGGAAATTGTGTTAAAAGTTACAATATGTTAAAGTCTGGTAA
109119 A
1 A
109120 AATTCAATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
44 31 0.69
45 14 0.31
ACGTcount: A:0.39, C:0.07, G:0.20, T:0.34
Consensus pattern (45 bp):
ATTCGGAAATTGTGTTAAAAGTTACAATATGTTAAAGTCTGGTAA
Found at i:110382 original size:141 final size:141
Alignment explanation
Indices: 110127--110411 Score: 554
Period size: 141 Copynumber: 2.0 Consensus size: 141
110117 GAAATGATTA
110127 AGAACATGTTTGAAAATATGGTATGATTTTGAAATGCAAGTGTTCTAGTGAGATTTTGGATATTT
1 AGAACATGTTTGAAAATATGGTATGATTTTGAAATGCAAGTGTTCTAGTGAGATTTTGGATATTT
110192 AGGAGTAGTAAATTGAGAAAAGTTGATTTTGATGAATGAAGTTGAGTTTAAAGGCATAAAAAGGA
66 AGGAGTAGTAAATTGAGAAAAGTTGATTTTGATGAATGAAGTTGAGTTTAAAGGCAT-AAAAGGA
110257 GATAAAAGTAGG
130 GATAAAAGTAGG
110269 AGAACATGTTTGAAAATATGGTATGATTTTG-AATGCAAGTGTTCTAGTGAGATTTTGGATATTT
1 AGAACATGTTTGAAAATATGGTATGATTTTGAAATGCAAGTGTTCTAGTGAGATTTTGGATATTT
110333 AGGAGTAGTAAATTGAGAAAAGTTGATTTTGATGAATGAAGTTGAGTTTAAAGGCATAAAAGGAG
66 AGGAGTAGTAAATTGAGAAAAGTTGATTTTGATGAATGAAGTTGAGTTTAAAGGCATAAAAGGAG
110398 ATAAAAGTAGG
131 ATAAAAGTAGG
110409 AGA
1 AGA
110412 TTTAGGTAAG
Statistics
Matches: 143, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
140 22 0.15
141 90 0.63
142 31 0.22
ACGTcount: A:0.39, C:0.03, G:0.26, T:0.32
Consensus pattern (141 bp):
AGAACATGTTTGAAAATATGGTATGATTTTGAAATGCAAGTGTTCTAGTGAGATTTTGGATATTT
AGGAGTAGTAAATTGAGAAAAGTTGATTTTGATGAATGAAGTTGAGTTTAAAGGCATAAAAGGAG
ATAAAAGTAGG
Found at i:110661 original size:18 final size:18
Alignment explanation
Indices: 110635--110682 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
110625 ATGTCGAAAT
*
110635 GGTAACGGTACCGAAGTG
1 GGTATCGGTACCGAAGTG
110653 GGTATCGGTACCGAAGTG
1 GGTATCGGTACCGAAGTG
*
110671 GGTATCGATACC
1 GGTATCGGTACC
110683 ATAGAAGGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.25, C:0.19, G:0.35, T:0.21
Consensus pattern (18 bp):
GGTATCGGTACCGAAGTG
Found at i:111059 original size:14 final size:14
Alignment explanation
Indices: 111036--111065 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
111026 TTTCAATATT
111036 TTATTCAAGCTATA
1 TTATTCAAGCTATA
*
111050 TTATTTAAGCTATA
1 TTATTCAAGCTATA
111064 TT
1 TT
111066 TGTTGATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.33, C:0.10, G:0.07, T:0.50
Consensus pattern (14 bp):
TTATTCAAGCTATA
Found at i:114166 original size:19 final size:19
Alignment explanation
Indices: 114142--114179 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
114132 ATTGATGTAC
114142 ATTGAGAGTCATAGGTGCA
1 ATTGAGAGTCATAGGTGCA
114161 ATTGAGAGTCATAGGTGCA
1 ATTGAGAGTCATAGGTGCA
114180 TTTCAACATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.32, T:0.26
Consensus pattern (19 bp):
ATTGAGAGTCATAGGTGCA
Found at i:137292 original size:153 final size:150
Alignment explanation
Indices: 137027--137333 Score: 546
Period size: 153 Copynumber: 2.0 Consensus size: 150
137017 AAAAAACCCT
137027 AAATAAGGCTTAGGAATCGCAAAAAAAAACCCCTGAACACTCTAGTTTGGTCCTAAATCAAAAAT
1 AAATAAGGCTTAGGAATCGCAAAAAAAAACCCCTGAACACTCTAGTTTGGTCCTAAATCAAAAAT
137092 AAAGCTTAAAGACTTATAGTTTCATCTAACACCATAAAAAACATAATCTTTACAATAATAACATC
66 AAAGCTTAAAGACTTATAGTTTCATCTAACACCATAAAAAACATAATCTTTACAATAATAACATC
137157 -AT-AGGCATGAATCAAGAA
131 AATAAGGCATGAATCAAGAA
137175 AAATAAGGCTTAGGAATCGCAAAAAAAAACCCCTTGAACACTCTAGTTTGGTCCTAAATCAACAA
1 AAATAAGGCTTAGGAATCGCAAAAAAAAACCCC-TGAACACTCTAGTTTGGTCCTAAATCAA-AA
137240 ATAAAGCTTAAAGAAGTCTTATAGTTTCATCTAACACCATAAAAAACATAATCTTTACAATAATA
64 ATAAAGCTTAAAG-A--CTTATAGTTTCATCTAACACCATAAAAAACATAATCTTTACAATAATA
137305 ACATCATATAAGGCATGAATCAAGAA
126 ACATCA-ATAAGGCATGAATCAAGAA
137331 AAA
1 AAA
137334 CCCTTAAATA
Statistics
Matches: 151, Mismatches: 0, Indels: 8
0.95 0.00 0.05
Matches are distributed among these distances:
148 33 0.22
149 28 0.19
150 15 0.10
151 1 0.01
153 53 0.35
155 2 0.01
156 19 0.13
ACGTcount: A:0.47, C:0.18, G:0.11, T:0.24
Consensus pattern (150 bp):
AAATAAGGCTTAGGAATCGCAAAAAAAAACCCCTGAACACTCTAGTTTGGTCCTAAATCAAAAAT
AAAGCTTAAAGACTTATAGTTTCATCTAACACCATAAAAAACATAATCTTTACAATAATAACATC
AATAAGGCATGAATCAAGAA
Found at i:140601 original size:22 final size:22
Alignment explanation
Indices: 140563--140619 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 22
140553 TTTTAAAATT
* *
140563 AATAATA-AAATTTTTATAGTA
1 AATAATATTAATTATTATAGTA
* *
140584 AATAATATTAATTATTATATTC
1 AATAATATTAATTATTATAGTA
140606 AATAAT-TATAATTA
1 AATAATAT-TAATTA
140620 ATCATTTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 8 0.27
22 22 0.73
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (22 bp):
AATAATATTAATTATTATAGTA
Found at i:140702 original size:13 final size:13
Alignment explanation
Indices: 140679--140712 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
140669 ATATCATAAA
*
140679 ATAATTTTTAAAT
1 ATAATTTTAAAAT
140692 ACTAATTTTAAAAT
1 A-TAATTTTAAAAT
140706 ATAATTT
1 ATAATTT
140713 ATTTAGGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (13 bp):
ATAATTTTAAAAT
Found at i:143837 original size:139 final size:138
Alignment explanation
Indices: 143587--144263 Score: 957
Period size: 139 Copynumber: 4.9 Consensus size: 138
143577 TCAAGTTGGG
* * *
143587 ATGTCAGTACCTATTATGTTTGAGAGGACTTGGAAAAGTGGTGAAAGCACGTTCCCGGGGACATG
1 ATGTCAGTACCTATTATGTTTGAGAGGACTTGGCAAAGTGGTGAAAGCGCGTTCCCGGGGGC--G
* **
143652 -A-ATTCTGTTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCCCTGG
64 CACCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCCCT-G
*
143715 GGGCACTATTC
128 GGGAACTATTC
** *
143726 ATGTCAGTACCTATTATGTTTGAGAGGACTTGGCAAAGTGGTGAAAGAACGATCCCGGGGGCGCA
1 ATGTCAGTACCTATTATGTTTGAGAGGACTTGGCAAAGTGGTGAAAGCGCGTTCCCGGGGGCGCA
*
143791 CCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCCTTGGGG
66 CCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCCCT-GGG
143856 GAACTATTC
130 GAACTATTC
* * * *
143865 ATGTCAGTACCTATTATGTTTGAGTGGACTTGGAAAAGTGGTGAAAGGGCGTTCCCGGGGGCGCG
1 ATGTCAGTACCTATTATGTTTGAGAGGACTTGGCAAAGTGGTGAAAGCGCGTTCCCGGGGGCGCA
* *
143930 CCTTCCATTATTTTGTTAGAGAATATGTTATCATTGTCCTATTATGTCACTCATGTCCCCTGGGG
66 CCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCCCTGGGG
143995 AACTATTC
131 AACTATTC
* *
144003 ATGTCAGTACCTATTATGTTTGAGGGGACTTGGCAAAGTGGTGAAAGTGCGTTCCCGGGGGCGCA
1 ATGTCAGTACCTATTATGTTTGAGAGGACTTGGCAAAGTGGTGAAAGCGCGTTCCCGGGGGCGCA
* * * * *
144068 CTTTTCATTATTTTATCAGAGAATATGTTATCATTACCCTATTATGTCACTCATGTCCCC-AGGG
66 CCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCCCTGGGG
*
144132 AACTATTT
131 AACTATTC
* * * * * * *
144140 ATGTCAGTCCCTATTATGTTTTAGGGGACTTGACAAAGTGATGAAAGCGCGTTTCCGGGGG-GCG
1 ATGTCAGTACCTATTATGTTTGAGAGGACTTGGCAAAGTGGTGAAAGCGCGTTCCCGGGGGCGCA
* * * * *
144204 CCTTCGATTGTTATATCAAAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCCC
66 CCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCCC
144264 CGGAGACGCA
Statistics
Matches: 492, Mismatches: 44, Indels: 7
0.91 0.08 0.01
Matches are distributed among these distances:
136 55 0.11
137 66 0.13
138 128 0.26
139 243 0.49
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (138 bp):
ATGTCAGTACCTATTATGTTTGAGAGGACTTGGCAAAGTGGTGAAAGCGCGTTCCCGGGGGCGCA
CCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCCCTGGGG
AACTATTC
Found at i:144120 original size:277 final size:276
Alignment explanation
Indices: 143587--144263 Score: 1000
Period size: 277 Copynumber: 2.5 Consensus size: 276
143577 TCAAGTTGGG
* * **
143587 ATGTCAGTACCTATTATGTTTGAGAGGACTTGGAAAAGTGGTGAAAGCACGTTCCCGGGGACATG
1 ATGTCAGTACCTATTATGTTTGAGAGGACTTGGAAAAGTGGTGAAAGCGCGTTCCCGGGGGCGCG
** **
143652 AATTCTGTTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCCCTGGGG
66 CCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCCCTGGGG
*
143717 GCACTATTCATGTCAGTACCTATTATGTTTGAGAGGACTTGGCAAAGTGGTGAAAGAACGATCCC
131 GAACTATTCATGTCAGTACCTATTATGTTTGAGAGGACTTGGCAAAGTGGTGAAAGAACGATCCC
* *
143782 GGGGGCGCACCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGT
196 GGGGGCGCACCTTCCATTATTTTATCAGAGAATATGTTATCATTACCCTATTATGTCACTCATGT
**
143847 CCCTTGGGGGAACTATTC
261 CCC--CAGGGAACTATTC
* *
143865 ATGTCAGTACCTATTATGTTTGAGTGGACTTGGAAAAGTGGTGAAAGGGCGTTCCCGGGGGCGCG
1 ATGTCAGTACCTATTATGTTTGAGAGGACTTGGAAAAGTGGTGAAAGCGCGTTCCCGGGGGCGCG
* *
143930 CCTTCCATTATTTTGTTAGAGAATATGTTATCATTGTCCTATTATGTCACTCATGTCCCCT-GGG
66 CCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCCCTGGGG
* ** *
143994 GAACTATTCATGTCAGTACCTATTATGTTTGAGGGGACTTGGCAAAGTGGTGAAAGTGCGTTCCC
131 GAACTATTCATGTCAGTACCTATTATGTTTGAGAGGACTTGGCAAAGTGGTGAAAGAACGATCCC
* *
144059 GGGGGCGCACTTTTCATTATTTTATCAGAGAATATGTTATCATTACCCTATTATGTCACTCATGT
196 GGGGGCGCACCTTCCATTATTTTATCAGAGAATATGTTATCATTACCCTATTATGTCACTCATGT
*
144124 CCCCAGGGAACTATTT
261 CCCCAGGGAACTATTC
* * * * *
144140 ATGTCAGTCCCTATTATGTTTTAGGGGACTT-GACAAAGTGATGAAAGCGCGTTTCCGGGGG-GC
1 ATGTCAGTACCTATTATGTTTGAGAGGACTTGGA-AAAGTGGTGAAAGCGCGTTCCCGGGGGCGC
* * * * *
144203 GCCTTCGATTGTTATATCAAAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCCC
65 GCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCCC
144264 CGGAGACGCA
Statistics
Matches: 361, Mismatches: 37, Indels: 6
0.89 0.09 0.01
Matches are distributed among these distances:
274 58 0.16
275 62 0.17
277 127 0.35
278 114 0.32
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (276 bp):
ATGTCAGTACCTATTATGTTTGAGAGGACTTGGAAAAGTGGTGAAAGCGCGTTCCCGGGGGCGCG
CCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCCCTGGGG
GAACTATTCATGTCAGTACCTATTATGTTTGAGAGGACTTGGCAAAGTGGTGAAAGAACGATCCC
GGGGGCGCACCTTCCATTATTTTATCAGAGAATATGTTATCATTACCCTATTATGTCACTCATGT
CCCCAGGGAACTATTC
Found at i:144729 original size:34 final size:34
Alignment explanation
Indices: 144688--144760 Score: 128
Period size: 34 Copynumber: 2.1 Consensus size: 34
144678 TTAAGTTAAA
* *
144688 TTTAATGTTAAATTTTGAATACTATAATTTGTAT
1 TTTAATGTTAAATTTCGAATACTATAATTTATAT
144722 TTTAATGTTAAATTTCGAATACTATAATTTATAT
1 TTTAATGTTAAATTTCGAATACTATAATTTATAT
144756 TTTAA
1 TTTAA
144761 AATATTTAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.37, C:0.04, G:0.07, T:0.52
Consensus pattern (34 bp):
TTTAATGTTAAATTTCGAATACTATAATTTATAT
Found at i:145341 original size:42 final size:42
Alignment explanation
Indices: 145274--145355 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
145264 ATAAAACCCT
* *
145274 GCGGGATAGGCATGTAACCTGGCGGGCTAGGCATGTAACCTG
1 GCGGGATAGGAATGTAACCTGGCGGGCTAGGAATGTAACCTG
*
145316 GCGGGATAGGAATGTTACCCT-GCGGGCTAGGAATGTAACC
1 GCGGGATAGGAATG-TAACCTGGCGGGCTAGGAATGTAACC
145356 CTGTGGTGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 31 0.86
43 5 0.14
ACGTcount: A:0.23, C:0.21, G:0.37, T:0.20
Consensus pattern (42 bp):
GCGGGATAGGAATGTAACCTGGCGGGCTAGGAATGTAACCTG
Found at i:145356 original size:21 final size:21
Alignment explanation
Indices: 145268--145358 Score: 105
Period size: 21 Copynumber: 4.3 Consensus size: 21
145258 GGTGTCATAA
*
145268 AACCCTGCGGGATAGGCATGT
1 AACCCTGCGGGATAGGAATGT
* *
145289 AA-CCTGGCGGGCTAGGCATGT
1 AACCCT-GCGGGATAGGAATGT
145310 AA-CCTGGCGGGATAGGAATGT
1 AACCCT-GCGGGATAGGAATGT
* *
145331 TACCCTGCGGGCTAGGAATGT
1 AACCCTGCGGGATAGGAATGT
145352 AACCCTG
1 AACCCTG
145359 TGGTGATGAC
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
20 3 0.05
21 56 0.90
22 3 0.05
ACGTcount: A:0.23, C:0.23, G:0.34, T:0.20
Consensus pattern (21 bp):
AACCCTGCGGGATAGGAATGT
Found at i:145385 original size:42 final size:42
Alignment explanation
Indices: 145339--145445 Score: 108
Period size: 42 Copynumber: 2.5 Consensus size: 42
145329 GTTACCCTGC
* *
145339 GGGCTAGGAATGTAACCCTGTGGTGATGACATATGAACTGGT
1 GGGCTAGGAATGTAACCCTGTGGAGATGACATATGAACTGGA
* * * * *
145381 GGGCTTGGTATAT-ACCCTTGAGGAGATGGCATATGAACTGGA
1 GGGCTAGGAATGTAACCC-TGTGGAGATGACATATGAACTGGA
* * *
145423 GGGCTGGGCATGTACCCCTGTGG
1 GGGCTAGGAATGTAACCCTGTGG
145446 CATCATCATC
Statistics
Matches: 51, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
41 4 0.08
42 44 0.86
43 3 0.06
ACGTcount: A:0.22, C:0.17, G:0.36, T:0.25
Consensus pattern (42 bp):
GGGCTAGGAATGTAACCCTGTGGAGATGACATATGAACTGGA
Found at i:147558 original size:60 final size:61
Alignment explanation
Indices: 147460--147598 Score: 174
Period size: 60 Copynumber: 2.3 Consensus size: 61
147450 GGATGGAACA
* * * * * * *
147460 TCCCCTGGGATGTGCCTTACCCCCGTGTCATCCGACTCAGC-AAAGCCC-TGTGAAAGCGCG
1 TCCCCAGGGATGCGCCTTACCCACGTGGCATCCAACTCAGCAAAAACCCAGGT-AAAGCGCG
* *
147520 TCCCCGGGGATGCGCCTTACCCACGTGGCATCCAACTCAGCAAAAACCCAGGTAAAGCGTG
1 TCCCCAGGGATGCGCCTTACCCACGTGGCATCCAACTCAGCAAAAACCCAGGTAAAGCGCG
147581 TCCCCAGGGATGCGCCTT
1 TCCCCAGGGATGCGCCTT
147599 TGTGCCACCT
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
60 36 0.53
61 30 0.44
62 2 0.03
ACGTcount: A:0.21, C:0.36, G:0.25, T:0.18
Consensus pattern (61 bp):
TCCCCAGGGATGCGCCTTACCCACGTGGCATCCAACTCAGCAAAAACCCAGGTAAAGCGCG
Found at i:150853 original size:32 final size:32
Alignment explanation
Indices: 150807--150869 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
150797 TTGATATGAG
* *
150807 TATTGATACGAGTATCTATACTCCAAGAACAT
1 TATTGATACAAGTATCGATACTCCAAGAACAT
*
150839 TATTGATACAAGTATCGATATTCCAAGAACA
1 TATTGATACAAGTATCGATACTCCAAGAACA
150870 ATATCAATAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (32 bp):
TATTGATACAAGTATCGATACTCCAAGAACAT
Found at i:154189 original size:76 final size:76
Alignment explanation
Indices: 154097--154884 Score: 1443
Period size: 76 Copynumber: 10.4 Consensus size: 76
154087 GATGACTTAA
*
154097 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
154162 AGGCTTTTTGG
66 AGGCTTTTTGG
*
154173 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCTGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
154238 AGGCTTTTTGG
66 AGGCTTTTTGG
** *
154249 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGACTTTGAAAACATCAAAAAGCTCTCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
154314 AGGCTTTTTGG
66 AGGCTTTTTGG
* * * *
154325 AAACATCATGCACTGCAGAAGTTACAGATGGCCCTAAGGTTTTGAAAACATCAAAAAGCCCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
154390 AGGC-TTTTGG
66 AGGCTTTTTGG
*
154400 AAACATCATGCGCTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
154465 AGGCTTTTTGG
66 AGGCTTTTTGG
*
154476 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCAA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
*
154541 AGGCTTTTTAG
66 AGGCTTTTTGG
154552 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
154617 AGGCTTTTTGG
66 AGGCTTTTTGG
*
154628 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
154693 AGGCTTTTTGG
66 AGGCTTTTTGG
154704 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
154769 AGGCTTTTTGG
66 AGGCTTTTTGG
154780 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
154845 AGGCTTTTTGG
66 AGGCTTTTTGG
*
154856 AAACATCATGCACTGTAGGACTTACAGAT
1 AAACATCATGCACTGCAGGACTTACAGAT
154885 ATGGGAAATA
Statistics
Matches: 685, Mismatches: 26, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
75 70 0.10
76 615 0.90
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (76 bp):
AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
AGGCTTTTTGG
Found at i:155586 original size:22 final size:22
Alignment explanation
Indices: 155561--155619 Score: 82
Period size: 26 Copynumber: 2.5 Consensus size: 22
155551 CATAAAGCTT
155561 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
155583 TCATCTTTAAAGAAAAAGAGAATCTA
1 TCATCTTT---G-AAAAGAGAATCTA
155609 TCATCTTTGAA
1 TCATCTTTGAA
155620 GAGTGTAGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
22 10 0.30
23 1 0.03
25 1 0.03
26 21 0.64
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:155600 original size:26 final size:26
Alignment explanation
Indices: 155570--155621 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
155560 TTCATCTTTG
155570 AAAAGAGAATCTATCATCTTTAAAGA
1 AAAAGAGAATCTATCATCTTTAAAGA
*
155596 AAAAGAGAATCTATCATCTTTGAAGA
1 AAAAGAGAATCTATCATCTTTAAAGA
155622 GTGTAGATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.48, C:0.12, G:0.13, T:0.27
Consensus pattern (26 bp):
AAAAGAGAATCTATCATCTTTAAAGA
Found at i:158351 original size:114 final size:114
Alignment explanation
Indices: 158151--158364 Score: 320
Period size: 114 Copynumber: 1.9 Consensus size: 114
158141 GATCATGCAG
* * * *
158151 TTCATCTTTCAATTCCAATGATTAGTTCTGGGGTTCCTACCGAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTAGTTCTGGGGTTCATACCAAACCAGATCAAATAACTCAAAGA
*
158216 ACACTTCCAGAAGATGATATTGGGTTTCCTTATTTATACTATGAACAAA
66 ACACTTCCAGAAGATGATATTGGGTCTCCTTATTTATACTATGAACAAA
* * * * *
158265 TTCATCTTTTAAATCTAATGATTGGTTTTGGGGTTCATACCAAATCAGATCAAATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTAGTTCTGGGGTTCATACCAAACCAGATCAAATAACTCAAAGA
* *
158330 ACACTTCCAGAAGATGCTATTGGGTCTCTTTATTT
66 ACACTTCCAGAAGATGATATTGGGTCTCCTTATTT
158365 CTATTACGAG
Statistics
Matches: 88, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
114 88 1.00
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.35
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATGATTAGTTCTGGGGTTCATACCAAACCAGATCAAATAACTCAAAGA
ACACTTCCAGAAGATGATATTGGGTCTCCTTATTTATACTATGAACAAA
Found at i:167550 original size:26 final size:27
Alignment explanation
Indices: 167498--167553 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
167488 GAAAACAATC
*
167498 AATAAAATTAAAATGATAGGTACAAAT
1 AATAAAATTAAAATGATAGGTAAAAAT
*
167525 AATAAAA-TAAAACTTATA-GTAAAAAT
1 AATAAAATTAAAA-TGATAGGTAAAAAT
167551 AAT
1 AAT
167554 TAGTAATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.62, C:0.04, G:0.07, T:0.27
Consensus pattern (27 bp):
AATAAAATTAAAATGATAGGTAAAAAT
Found at i:170710 original size:31 final size:32
Alignment explanation
Indices: 170675--170738 Score: 112
Period size: 31 Copynumber: 2.0 Consensus size: 32
170665 AGAGATGTGG
*
170675 TCTGAATTCATCAATTGCAGAG-TTGATAGAT
1 TCTGAATTCATCAATTGCAGAGTTTGACAGAT
170706 TCTGAATTCATCAATTGCAGAGTTTGACAGAT
1 TCTGAATTCATCAATTGCAGAGTTTGACAGAT
170738 T
1 T
170739 TTATATGTGC
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 22 0.71
32 9 0.29
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (32 bp):
TCTGAATTCATCAATTGCAGAGTTTGACAGAT
Found at i:171065 original size:114 final size:114
Alignment explanation
Indices: 170931--171139 Score: 357
Period size: 114 Copynumber: 1.8 Consensus size: 114
170921 CATTCAATTC
* * *
170931 TAATGATTGGTTCTGGGGTTCCTACCGAACCAGATCAGATAACTCAAAGAACATTTCCAGAAGAT
1 TAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGAT
170996 -ACAATTGGGTCTCCTTATTTCTACTATGAGCAAATTCATCTTTAAAATA
66 GA-AATTGGGTCTCCTTATTTCTACTATGAGCAAATTCATCTTTAAAATA
*
171045 TAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGAT
1 TAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGAT
*
171110 GATATTGGGTCTCCTTATTTCTACTATGAG
66 GAAATTGGGTCTCCTTATTTCTACTATGAG
171140 AACGTGGCAC
Statistics
Matches: 89, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
114 88 0.99
115 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.32
Consensus pattern (114 bp):
TAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGAT
GAAATTGGGTCTCCTTATTTCTACTATGAGCAAATTCATCTTTAAAATA
Found at i:176036 original size:7 final size:7
Alignment explanation
Indices: 176001--176041 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
175991 TTTTCATATA
176001 TGCATTT
1 TGCATTT
176008 T-CATTT
1 TGCATTT
176014 TGCATCTT
1 TGCAT-TT
176022 TGCATTT
1 TGCATTT
*
176029 TTCATTT
1 TGCATTT
176036 TGCATT
1 TGCATT
176042 CATACTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 6 0.20
7 17 0.57
8 7 0.23
ACGTcount: A:0.15, C:0.17, G:0.10, T:0.59
Consensus pattern (7 bp):
TGCATTT
Found at i:180469 original size:114 final size:114
Alignment explanation
Indices: 180268--180489 Score: 345
Period size: 114 Copynumber: 1.9 Consensus size: 114
180258 CACGTTCTCG
* * *
180268 TAGTAGAAATAAAGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGATTT
1 TAGTAGAAATAAAGAAACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTC
* *
180333 GGTATGAACCCCAAAACCAATCATTAGATTTGAAAGATGAATTTGTTCA
66 GGTAGGAACCCCAAAACCAATCATTAGAATTGAAAGATGAATTTGTTCA
* * *
180382 TAGTATAAATAAGGAAACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTC
1 TAGTAGAAATAAAGAAACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTC
* * *
180447 GGTAGGAACCCCAGAACTAATCATTGGAATTGAAAGATGAATT
66 GGTAGGAACCCCAAAACCAATCATTAGAATTGAAAGATGAATT
180490 GCATGATCGT
Statistics
Matches: 97, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
114 97 1.00
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (114 bp):
TAGTAGAAATAAAGAAACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTC
GGTAGGAACCCCAAAACCAATCATTAGAATTGAAAGATGAATTTGTTCA
Found at i:183077 original size:22 final size:23
Alignment explanation
Indices: 183024--183081 Score: 82
Period size: 25 Copynumber: 2.5 Consensus size: 23
183014 ATCTACACTC
183024 TTCAAAGATGATAGATTCTCATTTT
1 TTCAAAGATGATAGATTCTC--TTT
*
183049 TTTAAAGATGATAGATTCTC-TT
1 TTCAAAGATGATAGATTCTCTTT
183071 TTCAAAGATGA
1 TTCAAAGATGA
183082 AAGCTTTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
22 12 0.39
25 19 0.61
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.41
Consensus pattern (23 bp):
TTCAAAGATGATAGATTCTCTTT
Found at i:183856 original size:76 final size:76
Alignment explanation
Indices: 183758--184546 Score: 1443
Period size: 76 Copynumber: 10.4 Consensus size: 76
183748 TATTTCCCAT
*
183758 ATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
1 ATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
183823 ACCTTAGGGTC
66 ACCTTAGGGTC
*
183834 ATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGTTTTTTGATGTTTTCAAA
1 ATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
183899 ACCTTAGGGTC
66 ACCTTAGGGTC
*
183910 ATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGATTTTTGATGTTTTCAAA
1 ATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
*
183975 GCCTTAGGGTC
66 ACCTTAGGGTC
*
183986 ATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAATCCTTCGGGAGCTTTTTGATGTTTTCAAA
1 ATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
184051 ACCTTAGGGTC
66 ACCTTAGGGTC
* *
184062 ATCTGTAAGTACTGCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
1 ATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
*
184127 ACTTTAGGGTC
66 ACCTTAGGGTC
184138 ATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
1 ATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
184203 ACCTTAGGGTC
66 ACCTTAGGGTC
*
184214 ATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGGGCTTTTTGATGTTTTCAAA
1 ATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
184279 ACCTTAGGGTC
66 ACCTTAGGGTC
* *
184290 ATTTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAAA
1 ATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
*
184355 GCCTTAGGGTC
66 ACCTTAGGGTC
184366 ATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
1 ATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
184431 ACCTTAGGGTC
66 ACCTTAGGGTC
184442 ATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
1 ATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
*
184507 GCCTTAGGGTC
66 ACCTTAGGGTC
* *
184518 ATCTGAAAGTCTTGCAGTGCATGATGTTT
1 ATCTGTAAGTCCTGCAGTGCATGATGTTT
184547 TTAAGACCTC
Statistics
Matches: 688, Mismatches: 25, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 688 1.00
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.35
Consensus pattern (76 bp):
ATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
ACCTTAGGGTC
Found at i:184721 original size:18 final size:18
Alignment explanation
Indices: 184700--184774 Score: 93
Period size: 18 Copynumber: 4.2 Consensus size: 18
184690 TTTTACTTGA
184700 ATTATTATTAAAATTATT
1 ATTATTATTAAAATTATT
184718 ATTATTATTAAATATTATT
1 ATTATTATTAAA-ATTATT
*
184737 ATTA-TATTATATATTA-T
1 ATTATTATTA-AAATTATT
*
184754 ATTATTATT-AAATAATT
1 ATTATTATTAAAATTATT
184771 ATTA
1 ATTA
184775 CAAGCCCAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
16 4 0.08
17 10 0.20
18 25 0.50
19 11 0.22
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
ATTATTATTAAAATTATT
Found at i:184738 original size:31 final size:37
Alignment explanation
Indices: 184700--184774 Score: 104
Period size: 36 Copynumber: 2.1 Consensus size: 37
184690 TTTTACTTGA
184700 ATTATTAT-TAA-A-ATTATTATTATTATTAAAT-ATT
1 ATTATTATATAATATATTA-TATTATTATTAAATAATT
*
184734 ATTATTATATTATATATTATATTATTATTAAATAATT
1 ATTATTATATAATATATTATATTATTATTAAATAATT
184771 ATTA
1 ATTA
184775 CAAGCCCAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
34 8 0.22
35 2 0.06
36 15 0.42
37 11 0.31
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (37 bp):
ATTATTATATAATATATTATATTATTATTAAATAATT
Found at i:184774 original size:3 final size:3
Alignment explanation
Indices: 184700--184763 Score: 69
Period size: 3 Copynumber: 21.3 Consensus size: 3
184690 TTTTACTTGA
** *
184700 ATT ATT ATT AAA ATT ATT ATT ATT ATT AAAT ATT ATT ATT A-T ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT
184745 ATAT ATT A-T ATT ATT ATT A
1 AT-T ATT ATT ATT ATT ATT A
184764 AATAATTATT
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
2 4 0.08
3 42 0.82
4 5 0.10
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:186305 original size:109 final size:109
Alignment explanation
Indices: 186169--186432 Score: 349
Period size: 109 Copynumber: 2.4 Consensus size: 109
186159 TATTATTATG
** * *
186169 TTTAGTTATTTATTTATTTTTTAAATATTGAAGGAAAGAGCTGTCTGAAAACAACTAGAAGTAAT
1 TTTA-TTATTTATTTATTTTTTAAATATCAAAAGAAAAAGCTG-CTGAAAACAACTAGAA-TAA-
186234 TTTCTAAGATTTTTAAATAAATAAAT-TCTTAC-ATATTAAAAT-TTT
62 TTTCTAAGATTTTTAAATAAATAAATATCTTACTATATTAAAATATTT
* *
186279 TTTATTATTTATTTATTTTATT-AATATCAAAAGAAAAAGCTGCTTAAAACAACTAGAATCATTT
1 TTTATTATTTATTTATTTT-TTAAATATCAAAAGAAAAAGCTGCTGAAAACAACTAGAATAATTT
*
186343 CTAATATTTTTAAATAAATAAATATCTTACTATATTAAAATAATTTTT
65 CTAAGATTTTTAAATAAATAAATATCTTACTATATTAAAAT-A--TTT
186391 TATTATTATTTATTTATTTTTT-AATATCAAAAGAAAAAGCTG
1 T-TTATTATTTATTTATTTTTTAAATATCAAAAGAAAAAGCTG
186433 TCTTAAAAAC
Statistics
Matches: 139, Mismatches: 7, Indels: 14
0.87 0.04 0.09
Matches are distributed among these distances:
106 25 0.18
107 8 0.06
108 25 0.18
109 31 0.22
110 6 0.04
112 26 0.19
113 18 0.13
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.45
Consensus pattern (109 bp):
TTTATTATTTATTTATTTTTTAAATATCAAAAGAAAAAGCTGCTGAAAACAACTAGAATAATTTC
TAAGATTTTTAAATAAATAAATATCTTACTATATTAAAATATTT
Found at i:186470 original size:113 final size:108
Alignment explanation
Indices: 186169--186489 Score: 382
Period size: 113 Copynumber: 2.9 Consensus size: 108
186159 TATTATTATG
** * * * *
186169 TTTAGTTATTTATTTATTTTTTAAATATTGAAGGAAAGAGCTGTCTGAAAACAACTAGAAGTAAT
1 TTTA-TTATTTATTTATTTTTT-AATATCAAAAGAAAAAGCTGTCT-TAAACAACTAGAAGTCAT
*
186234 TTTCTAAGATTTTTAAATAAATAAAT-TCTTAC-ATATTAAAATTTT
63 TTT-TAATATTTTTAAATAAATAAATATCTTACTATATTAAAATTTT
186279 TTTATTATTTATTTATTTTATTAATATCAAAAGAAAAAGCTG-CTTAAAACAACTAGAA-TCATT
1 TTTATTATTTATTTATTTT-TTAATATCAAAAGAAAAAGCTGTCTT-AAACAACTAGAAGTCATT
*
186342 TCTAATATTTTTAAATAAATAAATATCTTACTATATTAAAATAATTTTT
64 TTTAATATTTTTAAATAAATAAATATCTTACTATATT--AA-AA-TTTT
*
186391 TATTATTATTTATTTATTTTTTAATATCAAAAGAAAAAGCTGTCTTAAA-AACTTAGAAGTCCTT
1 T-TTATTATTTATTTATTTTTTAATATCAAAAGAAAAAGCTGTCTTAAACAAC-TAGAAGTCATT
* * * *
186455 TTTGATATTTCTAAATAAATAAATATTTTATTATA
64 TTTAATATTTTTAAATAAATAAATATCTTACTATA
186490 CATATTAATA
Statistics
Matches: 185, Mismatches: 14, Indels: 21
0.84 0.06 0.10
Matches are distributed among these distances:
106 21 0.11
107 11 0.06
108 19 0.10
109 31 0.17
110 8 0.04
111 5 0.03
112 35 0.19
113 55 0.30
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (108 bp):
TTTATTATTTATTTATTTTTTAATATCAAAAGAAAAAGCTGTCTTAAACAACTAGAAGTCATTTT
TAATATTTTTAAATAAATAAATATCTTACTATATTAAAATTTT
Done.