Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 195 of 313
Found at i:59845630 original size:6 final size:6
Alignment explanation
Indices: 59845577--59845628 Score: 86
Period size: 6 Copynumber: 8.7 Consensus size: 6
59845567 TTTTACAGTC
* *
59845577 TCTTGT TCTTGT TCTTGT TCTTGT TCTTGT TCTTGT TCTTCT TCTTCT
1 TCTTGT TCTTGT TCTTGT TCTTGT TCTTGT TCTTGT TCTTGT TCTTGT
59845625 TCTT
1 TCTT
59845629 CTCCGTTATT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.00, C:0.21, G:0.12, T:0.67
Consensus pattern (6 bp):
TCTTGT
Found at i:59846099 original size:25 final size:23
Alignment explanation
Indices: 59846059--59846104 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
59846049 AATTGTAATT
59846059 TATATTTTATTATTTAATATAGA
1 TATATTTTATTATTTAATATAGA
*
59846082 TATATTTTTAATTATTTATTATA
1 TATA-TTTT-ATTATTTAATATA
59846105 TTATAATGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 4 0.20
24 4 0.20
25 12 0.60
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (23 bp):
TATATTTTATTATTTAATATAGA
Found at i:59846493 original size:24 final size:24
Alignment explanation
Indices: 59846466--59846515 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
59846456 TCATAATATT
*
59846466 TTTTATAAAT-ATTTTAATTATTTA
1 TTTTAT-AATCATTTTAATTATCTA
59846490 TTTTATAATCATTTTAATTATCTA
1 TTTTATAATCATTTTAATTATCTA
59846514 TT
1 TT
59846516 GTAATTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 3 0.12
24 21 0.88
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (24 bp):
TTTTATAATCATTTTAATTATCTA
Found at i:59849820 original size:11 final size:11
Alignment explanation
Indices: 59849799--59849855 Score: 53
Period size: 11 Copynumber: 5.0 Consensus size: 11
59849789 AACTAATCCT
59849799 CTCTCAAATTTC
1 CTCT-AAATTTC
59849811 CTCTAAATTTC
1 CTCTAAATTTC
* *
59849822 CTCTCAATTTG
1 CTCTAAATTTC
59849833 CTCTCAAA-TTC
1 CTCT-AAATTTC
*
59849844 CTTCCAAATTTC
1 C-TCTAAATTTC
59849856 TCTTAACTCC
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
11 26 0.70
12 11 0.30
ACGTcount: A:0.25, C:0.32, G:0.02, T:0.42
Consensus pattern (11 bp):
CTCTAAATTTC
Found at i:59849858 original size:22 final size:24
Alignment explanation
Indices: 59849799--59849858 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 24
59849789 AACTAATCCT
59849799 CTCTCAAATTTC-CTCTAAATTTC
1 CTCTCAAATTTCTCTCTAAATTTC
59849822 CTCTC-AATTTGCTCTC-AAA-TTC
1 CTCTCAAATTT-CTCTCTAAATTTC
59849844 CT-TCCAAATTTCTCT
1 CTCT-CAAATTTCTCT
59849859 TAACTCCCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
21 1 0.03
22 15 0.45
23 14 0.42
24 3 0.09
ACGTcount: A:0.23, C:0.32, G:0.02, T:0.43
Consensus pattern (24 bp):
CTCTCAAATTTCTCTCTAAATTTC
Found at i:59851006 original size:7 final size:7
Alignment explanation
Indices: 59850994--59851019 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
59850984 TAGTCGATTG
59850994 GTATTTA
1 GTATTTA
59851001 GTATTTA
1 GTATTTA
59851008 GTATTTA
1 GTATTTA
59851015 GTATT
1 GTATT
59851020 ATGTATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:59852209 original size:23 final size:22
Alignment explanation
Indices: 59852179--59852820 Score: 605
Period size: 23 Copynumber: 28.8 Consensus size: 22
59852169 GAGTTATTAC
59852179 TTAAAAACCCTAAACCCTTAAAA
1 TTAAAAACCCTAAACCCTT-AAA
*
59852202 TTAAAAACCCTAAACCCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
** *
59852224 TTAAAAACCCTAAACTAATTTAA
1 TTAAAAACCCTAAAC-CCTTAAA
*
59852247 TTAAAAACCCTAAACTCTTAAAA
1 TTAAAAACCCTAAACCCTT-AAA
*
59852270 TTAAAAACCCTAAACCCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
* *
59852292 TTAAAAA-CCTTAACCCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
** *
59852313 TTAAAAACCCTAAACTAATTTAA
1 TTAAAAACCCTAAAC-CCTTAAA
*
59852336 TTAAAAACCCTAAACCCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
* *
59852358 TTAAAAA-CCTTAACCCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
59852379 TTAAAAACCCT-AACCCTTAAA
1 TTAAAAACCCTAAACCCTTAAA
*
59852400 TTAAAAATCCTAAACCCTTAAAA
1 TTAAAAACCCTAAACCCTT-AAA
* *
59852423 TTAAAAACCTTAAACCCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
** *
59852445 TTAAAAACCCTAAACTAATTTAA
1 TTAAAAACCCTAAAC-CCTTAAA
*
59852468 TTAAAAACCCAAAACCCTTAAAA
1 TTAAAAACCCTAAACCCTT-AAA
*
59852491 ATAAAAACCCTAAACCC-TAAA
1 TTAAAAACCCTAAACCCTTAAA
** * * *
59852512 CCATAAA-CCTTAACCCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
** *
59852533 TTAAAAACCCTAAACTAATTTAA
1 TTAAAAACCCTAAAC-CCTTAAA
*
59852556 TTAAAAACCTTAAACCCTTAAA
1 TTAAAAACCCTAAACCCTTAAA
*
59852578 CTTAAAAACCCT-AACCCTTAAC
1 -TTAAAAACCCTAAACCCTTAAA
** *
59852600 TTAAAAACCCTAAACTAATTTAA
1 TTAAAAACCCTAAAC-CCTTAAA
*
59852623 TT-AAAACCCTAAATCCTTAAAA
1 TTAAAAACCCTAAACCCTT-AAA
** * * *
59852645 TTTGAAACCCAAAACCATTAAC
1 TTAAAAACCCTAAACCCTTAAA
*
59852667 TTAAAAACCCTAAGCCCTTAAAA
1 TTAAAAACCCTAAACCCTT-AAA
* * *
59852690 TTAAAAACCCTAAGCCTTTAAC
1 TTAAAAACCCTAAACCCTTAAA
** *
59852712 TTAAAAACCCTAAACTAATTTAA
1 TTAAAAACCCTAAAC-CCTTAAA
*
59852735 TTAAAAACCTTAAACCCTTAAAA
1 TTAAAAACCCTAAACCCTT-AAA
*
59852758 TTAAAAACCCTAAACCCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
* ** *
59852780 TTAAAAACCCGAAACAAATTTAA
1 TTAAAAACCCTAAAC-CCTTAAA
*
59852803 TTAAAAACCATAAACCCT
1 TTAAAAACCCTAAACCCT
59852821 AAAAACCCTA
Statistics
Matches: 501, Mismatches: 97, Indels: 43
0.78 0.15 0.07
Matches are distributed among these distances:
20 8 0.02
21 86 0.17
22 161 0.32
23 246 0.49
ACGTcount: A:0.49, C:0.25, G:0.01, T:0.25
Consensus pattern (22 bp):
TTAAAAACCCTAAACCCTTAAA
Found at i:59852227 original size:45 final size:44
Alignment explanation
Indices: 59852177--59852820 Score: 622
Period size: 45 Copynumber: 14.5 Consensus size: 44
59852167 TTGAGTTATT
59852177 ACTTAAAAACCCTAAACCCTTAAAATTAAAAACCCTAAACCCTTA
1 ACTTAAAAACCCTAAACCCTT-AAATTAAAAACCCTAAACCCTTA
** * *
59852222 ACTTAAAAACCCTAAACTAATTTAATTAAAAACCCTAAACTCTTAA
1 ACTTAAAAACCCTAAAC-CCTTAAATTAAAAACCCTAAACCCTT-A
* * *
59852268 AATTAAAAACCCTAAACCCTTAACTTAAAAA-CCTTAACCCTTA
1 ACTTAAAAACCCTAAACCCTTAAATTAAAAACCCTAAACCCTTA
** *
59852311 ACTTAAAAACCCTAAACTAATTTAATTAAAAACCCTAAACCCTTA
1 ACTTAAAAACCCTAAAC-CCTTAAATTAAAAACCCTAAACCCTTA
* *
59852356 ACTTAAAAA-CCTTAACCCTTAACTTAAAAACCCT-AACCCTTA
1 ACTTAAAAACCCTAAACCCTTAAATTAAAAACCCTAAACCCTTA
* * *
59852398 AATTAAAAATCCTAAACCCTTAAAATTAAAAACCTTAAACCCTTA
1 ACTTAAAAACCCTAAACCCTT-AAATTAAAAACCCTAAACCCTTA
** * *
59852443 ACTTAAAAACCCTAAACTAATTTAATTAAAAACCCAAAACCCTTAA
1 ACTTAAAAACCCTAAAC-CCTTAAATTAAAAACCCTAAACCCTT-A
** ** * *
59852489 AAATAAAAACCCTAAACCC-TAAACCATAAA-CCTTAACCCTTA
1 ACTTAAAAACCCTAAACCCTTAAATTAAAAACCCTAAACCCTTA
** * *
59852531 ACTTAAAAACCCTAAACTAATTTAATTAAAAACCTTAAACCCTTAA
1 ACTTAAAAACCCTAAAC-CCTTAAATTAAAAACCCTAAACCCTT-A
* **
59852577 ACTTAAAAACCCT-AACCCTTAACTTAAAAACCCTAAACTAATTTA
1 ACTTAAAAACCCTAAACCCTTAAATTAAAAACCCTAAAC--CCTTA
* ** * *
59852622 A-TT-AAAACCCTAAATCCTTAAAATTTGAAACCCAAAACCATTA
1 ACTTAAAAACCCTAAACCCTT-AAATTAAAAACCCTAAACCCTTA
* * *
59852665 ACTTAAAAACCCTAAGCCCTTAAAATTAAAAACCCTAAGCCTTTA
1 ACTTAAAAACCCTAAACCCTT-AAATTAAAAACCCTAAACCCTTA
** * *
59852710 ACTTAAAAACCCTAAACTAATTTAATTAAAAACCTTAAACCCTTAA
1 ACTTAAAAACCCTAAAC-CCTTAAATTAAAAACCCTAAACCCTT-A
* * * **
59852756 AATTAAAAACCCTAAACCCTTAACTTAAAAACCCGAAACAAATTTA
1 ACTTAAAAACCCTAAACCCTTAAATTAAAAACCCTAAAC--CCTTA
*
59852802 A-TTAAAAACCATAAACCCT
1 ACTTAAAAACCCTAAACCCT
59852821 AAAAACCCTA
Statistics
Matches: 485, Mismatches: 91, Indels: 46
0.78 0.15 0.07
Matches are distributed among these distances:
42 32 0.07
43 62 0.13
44 78 0.16
45 237 0.49
46 74 0.15
47 2 0.00
ACGTcount: A:0.49, C:0.25, G:0.01, T:0.25
Consensus pattern (44 bp):
ACTTAAAAACCCTAAACCCTTAAATTAAAAACCCTAAACCCTTA
Found at i:59852719 original size:221 final size:220
Alignment explanation
Indices: 59852179--59852772 Score: 811
Period size: 221 Copynumber: 2.7 Consensus size: 220
59852169 GAGTTATTAC
59852179 TTAAAAACCCTAAACCCTTAAAATTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACTAATT
1 TTAAAAACCCTAAACCCTTAAAATTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACTAATT
* *
59852244 TAATTAAAAACCCTAAACTCTTAAAATTAAAAACCCTAAACCCTTAACTTAAAAACCTTAACCCT
66 TAATTAAAAACCCTAAAC-CTTAAAATTAAAAACCCTAAACCCTAAACTCAAAAACCTTAACCCT
*
59852309 TAACTTAAAAACCCTAAACTAATTTAATTAAAAACCCTAAACCCTTAACTTAAAAACCTTAACCC
130 TAACTTAAAAACCCTAAACTAATTTAATTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCC
**
59852374 TTAACTTAAAAACCCTAACCCTTAAA
195 TTAACTTAAAAACCCTAACAATTAAA
* *
59852400 TTAAAAATCCTAAACCCTTAAAATTAAAAACCTTAAACCCTTAACTTAAAAACCCTAAACTAATT
1 TTAAAAACCCTAAACCCTTAAAATTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACTAATT
* * *
59852465 TAATTAAAAACCCAAAACCCTTAAAAATAAAAACCCTAAACCCTAAAC-CATAAACCTTAACCCT
66 TAATTAAAAACCCTAAA-CCTTAAAATTAAAAACCCTAAACCCTAAACTCAAAAACCTTAACCCT
*
59852529 TAACTTAAAAACCCTAAACTAATTTAATTAAAAACCTTAAACCCTTAAACTTAAAAACCCTAACC
130 TAACTTAAAAACCCTAAACTAATTTAATTAAAAACCCTAAACCCTT-AACTTAAAAACCCTAACC
*
59852594 CTTAACTTAAAAACCCTAAACTAATTTAA
194 CTTAACTTAAAAACCCT-AAC-AATTAAA
* ** * * * **
59852623 TT-AAAACCCTAAATCCTTAAAATTTGAAACCCAAAACCATTAACTTAAAAACCCTAAGC-CCTT
1 TTAAAAACCCTAAACCCTTAAAATTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACTAATT
* * * * * *
59852686 AAAATTAAAAACCCTAAGCCTTTAACTTAAAAACCCTAAA--CTAATTTAATTAAAAACCTTAAA
66 -TAATTAAAAACCCTAAACCTTAAAATTAAAAACCCTAAACCCTAA---ACTCAAAAACCTT-AA
*
59852749 CCCTTAAAATTAAAAACCCTAAAC
126 CCCTT-AACTTAAAAACCCTAAAC
59852773 CCTTAACTTA
Statistics
Matches: 330, Mismatches: 32, Indels: 18
0.87 0.08 0.05
Matches are distributed among these distances:
219 4 0.01
220 59 0.18
221 161 0.49
222 68 0.21
223 14 0.04
224 7 0.02
225 17 0.05
ACGTcount: A:0.49, C:0.25, G:0.01, T:0.25
Consensus pattern (220 bp):
TTAAAAACCCTAAACCCTTAAAATTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACTAATT
TAATTAAAAACCCTAAACCTTAAAATTAAAAACCCTAAACCCTAAACTCAAAAACCTTAACCCTT
AACTTAAAAACCCTAAACTAATTTAATTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCCT
TAACTTAAAAACCCTAACAATTAAA
Found at i:59852779 original size:68 final size:69
Alignment explanation
Indices: 59852177--59852825 Score: 596
Period size: 68 Copynumber: 9.7 Consensus size: 69
59852167 TTGAGTTATT
** * * * *
59852177 ACTTAAAAACCCTAAACCCTTAAAATTAAAAACCCTAAACCCTT-AACTTAAAAACCCTAAACTA
1 ACTTAAAAACCCTAAACAATTTAACTTAAAAACCCTAAACCCTTAAAATTAAAAACCCTAAAC-C
* *
59852241 ATTTA
65 CTTAA
** * * * *
59852246 A-TTAAAAACCCTAAACTCTTAAAATTAAAAACCCTAAACCCTT-AACTTAAAAA-CCTTAACCC
1 ACTTAAAAACCCTAAACAATTTAACTTAAAAACCCTAAACCCTTAAAATTAAAAACCCTAAACCC
59852308 TT-A
66 TTAA
* *
59852311 ACTTAAAAACCCTAAACTAATTTAA-TTAAAAACCCTAAACCCTT-AACTTAAAAA-CCTTAACC
1 ACTTAAAAACCCTAAAC-AATTTAACTTAAAAACCCTAAACCCTTAAAATTAAAAACCCTAAACC
59852373 CTT-A
65 CTTAA
** * * *
59852377 ACTTAAAAACCCT-AAC-CCTTAAATTAAAAATCCTAAACCCTTAAAATTAAAAACCTTAAACCC
1 ACTTAAAAACCCTAAACAATTTAACTTAAAAACCCTAAACCCTTAAAATTAAAAACCCTAAACCC
59852440 TT-A
66 TTAA
* *
59852443 ACTTAAAAACCCTAAACTAATTTAA-TTAAAAACCCAAAACCCTTAAAAATAAAAACCCTAAACC
1 ACTTAAAAACCCTAAAC-AATTTAACTTAAAAACCCTAAACCCTTAAAATTAAAAACCCTAAACC
59852507 C-TAA
65 CTTAA
* * * ** ** * *
59852511 AC-CATAAA-CCTTAAC-CCTTAACTTAAAAACCCTAAACTAATT-TAATTAAAAACCTTAAACC
1 ACTTAAAAACCCTAAACAATTTAACTTAAAAACCCTAAAC-CCTTAAAATTAAAAACCCTAAACC
59852572 CTTAA
65 CTTAA
** ** * *
59852577 ACTTAAAAACCCT-AAC-CCTTAACTTAAAAACCCTAAACTAATT-TAATT-AAAACCCTAAATC
1 ACTTAAAAACCCTAAACAATTTAACTTAAAAACCCTAAAC-CCTTAAAATTAAAAACCCTAAACC
59852638 CTTAA
65 CTTAA
* ** * * * *
59852643 AATTTGAAACCCAAAACCA-TTAACTTAAAAACCCTAAGCCCTTAAAATTAAAAACCCT-AAGCC
1 ACTTAAAAACCCTAAACAATTTAACTTAAAAACCCTAAACCCTTAAAATTAAAAACCCTAAACCC
*
59852706 TTTA
66 TTAA
*
59852710 ACTTAAAAACCCTAAACTAATTTAA-TTAAAAACCTTAAACCCTTAAAATTAAAAACCCTAAACC
1 ACTTAAAAACCCTAAAC-AATTTAACTTAAAAACCCTAAACCCTTAAAATTAAAAACCCTAAACC
59852774 CTT-A
65 CTTAA
* * *
59852778 ACTTAAAAACCCGAAACAAATTTAA-TTAAAAACCATAAACCCTAAAAA
1 ACTTAAAAACCCTAAAC-AATTTAACTTAAAAACCCTAAACCCTTAAAA
59852826 CCCTATTTCT
Statistics
Matches: 502, Mismatches: 57, Indels: 43
0.83 0.09 0.07
Matches are distributed among these distances:
63 4 0.01
64 22 0.04
65 45 0.09
66 134 0.27
67 103 0.21
68 179 0.36
69 15 0.03
ACGTcount: A:0.49, C:0.25, G:0.01, T:0.25
Consensus pattern (69 bp):
ACTTAAAAACCCTAAACAATTTAACTTAAAAACCCTAAACCCTTAAAATTAAAAACCCTAAACCC
TTAA
Found at i:59853667 original size:21 final size:21
Alignment explanation
Indices: 59853614--59853678 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 21
59853604 ATTAATTAAT
* *
59853614 TTTAATAATGTTATCATTAT-
1 TTTAATACTGTTATTATTATG
**
59853634 TTT--TACTACTATTATTATG
1 TTTAATACTGTTATTATTATG
*
59853653 TTTAATACTGTTATTACTATTG
1 TTTAATACTGTTATTATTA-TG
59853675 TTTA
1 TTTA
59853679 TTTTTTTACT
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
18 11 0.32
19 3 0.09
20 3 0.09
21 11 0.32
22 6 0.18
ACGTcount: A:0.29, C:0.08, G:0.06, T:0.57
Consensus pattern (21 bp):
TTTAATACTGTTATTATTATG
Found at i:59853671 original size:27 final size:26
Alignment explanation
Indices: 59853640--59853706 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
59853630 TTATTTTTAC
*
59853640 TACTATTATTATGTTTAATACTGTTAT
1 TACTATTATTAT-TTTAATACTATTAT
* **
59853667 TACTATTGTTTATTTTTTTACTATTAT
1 TACTATT-ATTATTTTAATACTATTAT
*
59853694 TATTATTATTATT
1 TACTATTATTATT
59853707 ACTCTTATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
26 5 0.15
27 24 0.73
28 4 0.12
ACGTcount: A:0.27, C:0.06, G:0.04, T:0.63
Consensus pattern (26 bp):
TACTATTATTATTTTAATACTATTAT
Found at i:59854117 original size:53 final size:54
Alignment explanation
Indices: 59853995--59854130 Score: 224
Period size: 55 Copynumber: 2.5 Consensus size: 54
59853985 TTTCATCTTC
59853995 ATAAACACAT-TA-ATACATACTCATATATATACTTTTTATACTTTATGATTTTA
1 ATAAACA-ATATATATACATACTCATATATATACTTTTTATACTTTATGATTTTA
59854048 ATAAACATATATATATACATACTCATATATATACTTTTTATACTTTATGATTTTA
1 ATAAACA-ATATATATACATACTCATATATATACTTTTTATACTTTATGATTTTA
*
59854103 ATAGAC-ATATATATACATACTCATATAT
1 ATAAACAATATATATACATACTCATATAT
59854131 CTTTTTATGT
Statistics
Matches: 79, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
53 31 0.39
54 2 0.03
55 46 0.58
ACGTcount: A:0.41, C:0.12, G:0.02, T:0.44
Consensus pattern (54 bp):
ATAAACAATATATATACATACTCATATATATACTTTTTATACTTTATGATTTTA
Found at i:59857590 original size:29 final size:30
Alignment explanation
Indices: 59857557--59857613 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
59857547 AACTATAACA
*
59857557 TTTTTCCCA-GTTAGGTACCTAAACTTTTT
1 TTTTTACCATGTTAGGTACCTAAACTTTTT
* *
59857586 TTTTTATCATTTTAGGTACCTAAACTTT
1 TTTTTACCATGTTAGGTACCTAAACTTT
59857614 CATTCAGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 7 0.29
30 17 0.71
ACGTcount: A:0.23, C:0.18, G:0.09, T:0.51
Consensus pattern (30 bp):
TTTTTACCATGTTAGGTACCTAAACTTTTT
Found at i:59859917 original size:44 final size:44
Alignment explanation
Indices: 59859854--59859941 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 44
59859844 TTAATCAGGG
59859854 CGTTACAAGATCCTAAATCCATTTATGGATGTATTCACTCGTGA
1 CGTTACAAGATCCTAAATCCATTTATGGATGTATTCACTCGTGA
* * *
59859898 CGTTACAAGATCCTGAATCCGTTTATGGATGTATTCACTTGTGA
1 CGTTACAAGATCCTAAATCCATTTATGGATGTATTCACTCGTGA
59859942 TGATCATGTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.35
Consensus pattern (44 bp):
CGTTACAAGATCCTAAATCCATTTATGGATGTATTCACTCGTGA
Found at i:59870810 original size:43 final size:44
Alignment explanation
Indices: 59870763--59870865 Score: 131
Period size: 43 Copynumber: 2.4 Consensus size: 44
59870753 CATGTACCAG
** *
59870763 TTTCCCTACTTCCG-TTTGTTTGATGATGCACTATGTGTGTCAA
1 TTTCCCTACTTCCGATTTGCCTGATGATGCACTATGTGTGACAA
* *
59870806 TTTCCCTACTT-TGATTTGCCTGATGATGCACTGTGTGTGACAA
1 TTTCCCTACTTCCGATTTGCCTGATGATGCACTATGTGTGACAA
*
59870849 TTTACCTACTT-CGATTT
1 TTTCCCTACTTCCGATTT
59870866 TATATGATGA
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
42 1 0.02
43 51 0.98
ACGTcount: A:0.17, C:0.21, G:0.17, T:0.44
Consensus pattern (44 bp):
TTTCCCTACTTCCGATTTGCCTGATGATGCACTATGTGTGACAA
Found at i:59872547 original size:18 final size:18
Alignment explanation
Indices: 59872524--59872558 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
59872514 AAAAAATTCG
59872524 TAATAAAAAATAATAAAA
1 TAATAAAAAATAATAAAA
* *
59872542 TAATAAGAGATAATAAA
1 TAATAAAAAATAATAAA
59872559 TACAATATTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (18 bp):
TAATAAAAAATAATAAAA
Found at i:59884718 original size:26 final size:26
Alignment explanation
Indices: 59884689--59884769 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
59884679 GATGAACACG
*
59884689 TGTGTAGTACTATGTGAAGGCTACTA
1 TGTGTAGTACTAAGTGAAGGCTACTA
59884715 TGTGTA-T-CGATAAGT-AATGG-TCAC-A
1 TGTGTAGTAC--TAAGTGAA-GGCT-ACTA
*
59884740 TGTGTGGTACTAAGTGAAGGCTACTA
1 TGTGTAGTACTAAGTGAAGGCTACTA
59884766 TGTG
1 TGTG
59884770 CACCAAGAAG
Statistics
Matches: 44, Mismatches: 2, Indels: 18
0.69 0.03 0.28
Matches are distributed among these distances:
24 1 0.02
25 19 0.43
26 23 0.52
27 1 0.02
ACGTcount: A:0.27, C:0.11, G:0.28, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTAAGTGAAGGCTACTA
Found at i:59884861 original size:102 final size:100
Alignment explanation
Indices: 59884685--59885025 Score: 336
Period size: 102 Copynumber: 3.4 Consensus size: 100
59884675 TATCGATGAA
* * * * * *
59884685 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGTATCGAT-AAGTAATGGTCACATGTGTGGTA
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGGTAAACT-AT-GTTACATGTGTAGTA
* *
59884749 CTAAGTGAAGGCTACTATGTGCACCAAGAAGCTTTGAG
64 CTAAGTGAAGGCTACTATGAGAACCAAGAAGC-TTGAG
* * * *
59884787 CACGTGTGTAGTACTGTGTGAATGCTACCACGTGTCTCGGTAAACTATAGTTATATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGGTAAACTAT-GTTACATGTGTAGTAC
*
59884852 TAAGTGAAGGCTACTATGAGAACTAAGAAGCTTGAG
65 TAAGTGAAGGCTACTATGAGAACCAAGAAGCTTGAG
* * *
59884888 CACGTATGTAGTACTGAGTGAAGGCTACTACGTG-AGTC-GTAAAGCT-TGTTCACGTGTGTAGT
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTA-TCGGTAAA-CTATGTT-ACATGTGTAGT
* * * ** *
59884950 ACTATGTGAAGGCTACTACGTGAATTGTAA-AA-C-TGAT
63 ACTAAGTGAAGGCTACTATGAGAA--CCAAGAAGCTTGAG
* *
59884987 CACGTGTATAGTACTATGTGAAGGCTACTACGTGTATCG
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCG
59885026 AATGATAAAA
Statistics
Matches: 201, Mismatches: 30, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
99 38 0.19
100 38 0.19
101 41 0.20
102 81 0.40
103 3 0.01
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (100 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGGTAAACTATGTTACATGTGTAGTACT
AAGTGAAGGCTACTATGAGAACCAAGAAGCTTGAG
Found at i:59884908 original size:50 final size:48
Alignment explanation
Indices: 59884844--59885017 Score: 149
Period size: 50 Copynumber: 3.5 Consensus size: 48
59884834 TAGTTATATG
59884844 TGTAGTACTAAGTGAAGGCTACTA-TGAGAAC-TAAGAAGCTTGAGCACGTA
1 TGTAGTACT-AGTGAAGGCTACTACTGAG-ACGT-A-AAGCTTGAGCACGTA
* ** *
59884894 TGTAGTACTGAGTGAAGGCTACTACGTGAGTCGTAAAGCTTGTTCACGTG
1 TGTAGTACT-AGTGAAGGCTACTAC-TGAGACGTAAAGCTTGAGCACGTA
* * * *
59884944 TGTAGTACTATGTGAAGGCTACTACGTGA-ATTGTAAAAC-TGATCACGTG
1 TGTAGTACTA-GTGAAGGCTACTAC-TGAGA-CGTAAAGCTTGAGCACGTA
*
59884993 TATAGTACTATGTGAAGGCTACTAC
1 TGTAGTACTA-GTGAAGGCTACTAC
59885018 GTGTATCGAA
Statistics
Matches: 109, Mismatches: 10, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
49 34 0.31
50 68 0.62
51 2 0.02
52 5 0.05
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (48 bp):
TGTAGTACTAGTGAAGGCTACTACTGAGACGTAAAGCTTGAGCACGTA
Found at i:59885009 original size:49 final size:50
Alignment explanation
Indices: 59884685--59885025 Score: 198
Period size: 51 Copynumber: 6.8 Consensus size: 50
59884675 TATCGATGAA
* * * *
59884685 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGTATCGATAAGTAA--TGGT
1 CACGTGTATAGTACTATGTGAAGGCTACTACGTGAATCG-TAA--AACTTGAT
* * * * * * * *
59884736 CACATGTGTGGTACTAAGTGAAGGCTACTATGTGCA-C-CAAGAAGCTTTGAG
1 CACGTGTATAGTACTATGTGAAGGCTACTACGTGAATCGTAA-AA-C-TTGAT
* * * * **
59884787 CACGTGTGTAGTACTGTGTGAATGCTACCACGTGTCTCGGT-AAACTAT-AGT
1 CACGTGTATAGTACTATGTGAAGGCTACTACGTGAATC-GTAAAACT-TGA-T
* ** * * * * *
59884838 TATATGTGTAGTACTAAGTGAAGGCTACTATGAGAA-C-TAAGAAGCTTGAG
1 CACGTGTATAGTACTATGTGAAGGCTACTACGTGAATCGTAA-AA-CTTGAT
* * * * *
59884888 CACGTATGTAGTACTGA-GTGAAGGCTACTACGTGAGTCGTAAAGCTTGTT
1 CACGTGTATAGTACT-ATGTGAAGGCTACTACGTGAATCGTAAAACTTGAT
* *
59884938 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATTGTAAAAC-TGAT
1 CACGTGTATAGTACTATGTGAAGGCTACTACGTGAATCGTAAAACTTGAT
*
59884987 CACGTGTATAGTACTATGTGAAGGCTACTACGTGTATCG
1 CACGTGTATAGTACTATGTGAAGGCTACTACGTGAATCG
59885026 AATGATAAAA
Statistics
Matches: 224, Mismatches: 49, Indels: 36
0.72 0.16 0.12
Matches are distributed among these distances:
47 2 0.01
48 3 0.01
49 41 0.18
50 77 0.34
51 94 0.42
52 6 0.03
53 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (50 bp):
CACGTGTATAGTACTATGTGAAGGCTACTACGTGAATCGTAAAACTTGAT
Found at i:59888732 original size:30 final size:29
Alignment explanation
Indices: 59888696--59888753 Score: 89
Period size: 30 Copynumber: 2.0 Consensus size: 29
59888686 GTAAAGGTGC
* *
59888696 GAGCCTGTTGAAGATAGTAAGCTAGAGTGT
1 GAGCCTGTTGAAGACAGAAAGC-AGAGTGT
59888726 GAGCCTGTTGAAGACAGAAAGCAGAGTG
1 GAGCCTGTTGAAGACAGAAAGCAGAGTG
59888754 CAAGCCTACC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 6 0.23
30 20 0.77
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.21
Consensus pattern (29 bp):
GAGCCTGTTGAAGACAGAAAGCAGAGTGT
Found at i:59890688 original size:50 final size:50
Alignment explanation
Indices: 59890590--59890713 Score: 144
Period size: 50 Copynumber: 2.5 Consensus size: 50
59890580 TATTGAGATT
* * *
59890590 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATAGCGTTGGTACCAAG
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATAGCATGGGCACCAAG
*
59890640 ATGAGAGGTCCTC-CGTAAGACCATGTCTGGGACAT-GACATGGGCACCAAT
1 ATGAGAGGTCC-CACGTAAGACCATGTCTGGGACATAG-CATGGGCACCAAG
** * *
59890690 ATGAGAACTCCCATGTAAAACCAT
1 ATGAGAGGTCCCACGTAAGACCAT
59890714 ATTTGGGATA
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
49 2 0.03
50 60 0.95
51 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.20
Consensus pattern (50 bp):
ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATAGCATGGGCACCAAG
Found at i:59891002 original size:12 final size:12
Alignment explanation
Indices: 59890985--59891023 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
59890975 ATGAATTATT
59890985 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
59890997 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
59891009 TAAGAAAGTAAG
1 TAAGTAAGCAAG
59891021 TAA
1 TAA
59891024 AGAAGAAGCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.56, C:0.05, G:0.21, T:0.18
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:59891011 original size:20 final size:20
Alignment explanation
Indices: 59890986--59891034 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
59890976 TGAATTATTT
59890986 AAGTAAGCAAGTAAGTAAAC
1 AAGTAAGCAAGTAAGTAAAC
* *
59891006 AAGTAAGAAAGTAAGTAAAG
1 AAGTAAGCAAGTAAGTAAAC
59891026 AAG-AAGCAA
1 AAGTAAGCAA
59891035 AGACCATGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.59, C:0.06, G:0.22, T:0.12
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:59895800 original size:31 final size:31
Alignment explanation
Indices: 59895772--59895832 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
59895762 TTTAGTCATT
*
59895772 GAACTATTTGAAAGTTTTCATTTAAGTCACC
1 GAACTATTTAAAAGTTTTCATTTAAGTCACC
* *
59895803 GAGCTATTTAAAAGTTTTTATTTAAGTCAC
1 GAACTATTTAAAAGTTTTCATTTAAGTCAC
59895833 TGGATTATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (31 bp):
GAACTATTTAAAAGTTTTCATTTAAGTCACC
Found at i:59900977 original size:21 final size:22
Alignment explanation
Indices: 59900935--59900977 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
59900925 CCTCGTAAAA
* *
59900935 TGATTATTTTTAATAAACGATT
1 TGATTATTATTAAAAAACGATT
*
59900957 TGATT-TTATTAAAAAATGATT
1 TGATTATTATTAAAAAACGATT
59900978 CTGGTTCACG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.49
Consensus pattern (22 bp):
TGATTATTATTAAAAAACGATT
Found at i:59901983 original size:12 final size:12
Alignment explanation
Indices: 59901968--59901999 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
59901958 CAAATAATAC
59901968 AAATAATAAGTA
1 AAATAATAAGTA
*
59901980 AAATATTAAGTA
1 AAATAATAAGTA
59901992 AAATAATA
1 AAATAATA
59902000 TATATATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (12 bp):
AAATAATAAGTA
Found at i:59908942 original size:146 final size:146
Alignment explanation
Indices: 59908678--59908971 Score: 588
Period size: 146 Copynumber: 2.0 Consensus size: 146
59908668 CCAAGACCTT
59908678 GTCTTTATCTTAATTGAATTATAATTTTTTTTGTTAAAAGAAAGTAATAAAATAGTTGTTTAGTT
1 GTCTTTATCTTAATTGAATTATAATTTTTTTTGTTAAAAGAAAGTAATAAAATAGTTGTTTAGTT
59908743 CAGTTTAGGTTATGATTATTTGGTTTTCAATGTTCATTCATGGTAATGAGTTTTGAAGTAAAAAA
66 CAGTTTAGGTTATGATTATTTGGTTTTCAATGTTCATTCATGGTAATGAGTTTTGAAGTAAAAAA
59908808 ATATCCTAATTTGATA
131 ATATCCTAATTTGATA
59908824 GTCTTTATCTTAATTGAATTATAATTTTTTTTGTTAAAAGAAAGTAATAAAATAGTTGTTTAGTT
1 GTCTTTATCTTAATTGAATTATAATTTTTTTTGTTAAAAGAAAGTAATAAAATAGTTGTTTAGTT
59908889 CAGTTTAGGTTATGATTATTTGGTTTTCAATGTTCATTCATGGTAATGAGTTTTGAAGTAAAAAA
66 CAGTTTAGGTTATGATTATTTGGTTTTCAATGTTCATTCATGGTAATGAGTTTTGAAGTAAAAAA
59908954 ATATCCTAATTTGATA
131 ATATCCTAATTTGATA
59908970 GT
1 GT
59908972 TAAGTGAAAC
Statistics
Matches: 148, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
146 148 1.00
ACGTcount: A:0.33, C:0.05, G:0.15, T:0.46
Consensus pattern (146 bp):
GTCTTTATCTTAATTGAATTATAATTTTTTTTGTTAAAAGAAAGTAATAAAATAGTTGTTTAGTT
CAGTTTAGGTTATGATTATTTGGTTTTCAATGTTCATTCATGGTAATGAGTTTTGAAGTAAAAAA
ATATCCTAATTTGATA
Found at i:59909820 original size:15 final size:16
Alignment explanation
Indices: 59909785--59909824 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
59909775 CCACAAAATT
59909785 AAGATTAATTTATAGG
1 AAGATTAATTTATAGG
*
59909801 AAGATTCATTTATA-G
1 AAGATTAATTTATAGG
59909816 AAGA-TAATT
1 AAGATTAATT
59909825 AAATTATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 4 0.18
15 5 0.23
16 13 0.59
ACGTcount: A:0.45, C:0.03, G:0.15, T:0.38
Consensus pattern (16 bp):
AAGATTAATTTATAGG
Found at i:59910064 original size:56 final size:60
Alignment explanation
Indices: 59909909--59910070 Score: 174
Period size: 63 Copynumber: 2.7 Consensus size: 60
59909899 TATTATTTTT
* *
59909909 CTAATATTATATATTATGATTTTTATT-AATTCATATTTTAATAATAATTATATTAAGAATGTTA
1 CTAA-ATTATATATTATTA-CTTTATTAAATT-ATA-TTTAATAATAATTATATTAAGAATG-TA
* *
59909973 CTAAATTATATATTATTATCTTTATCAAATTATATTTAATAATAATTATATTAAAGTATG-A
1 CTAAATTATATATTATTA-CTTTATTAAATTATATTTAATAATAATTATATT-AAGAATGTA
*
59910034 TTAAA-T-TAT-TTATTA-TTTATTAAATTATATTTAATAA
1 CTAAATTATATATTATTACTTTATTAAATTATATTTAATAA
59910071 AAATCCTATT
Statistics
Matches: 90, Mismatches: 6, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
56 21 0.23
58 6 0.07
59 3 0.03
60 1 0.01
61 5 0.06
62 18 0.20
63 28 0.31
64 8 0.09
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (60 bp):
CTAAATTATATATTATTACTTTATTAAATTATATTTAATAATAATTATATTAAGAATGTA
Found at i:59910224 original size:44 final size:46
Alignment explanation
Indices: 59910176--59910264 Score: 112
Period size: 46 Copynumber: 2.0 Consensus size: 46
59910166 ACTTTTATTT
* * *
59910176 CATTCAACCAAACACAA-GAA-TGCT-ATTATAGCTCTATTCCATTC
1 CATTCAACCAAACA-AATGAATTACTGATTACAACTCTATTCCATTC
*
59910220 CATTCAATCAAACAAATGAATTACTGATTACAACTCTATTCCATT
1 CATTCAACCAAACAAATGAATTACTGATTACAACTCTATTCCATT
59910265 ACAACCCTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
43 2 0.05
44 16 0.42
45 3 0.08
46 17 0.45
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (46 bp):
CATTCAACCAAACAAATGAATTACTGATTACAACTCTATTCCATTC
Found at i:59910267 original size:16 final size:16
Alignment explanation
Indices: 59910246--59910280 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
59910236 TGAATTACTG
*
59910246 ATTACAACTCTATTCC
1 ATTACAACCCTATTCC
*
59910262 ATTACAACCCTATTTC
1 ATTACAACCCTATTCC
59910278 ATT
1 ATT
59910281 CCCTCCAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.31, C:0.29, G:0.00, T:0.40
Consensus pattern (16 bp):
ATTACAACCCTATTCC
Found at i:59911415 original size:10 final size:10
Alignment explanation
Indices: 59911400--59911436 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
59911390 ACTAAATTTT
*
59911400 TTAATTATAA
1 TTAATTATAG
*
59911410 TTAATTTTAG
1 TTAATTATAG
59911420 TTAATTATAG
1 TTAATTATAG
59911430 TTAATTA
1 TTAATTA
59911437 AGCTAATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (10 bp):
TTAATTATAG
Found at i:59911496 original size:10 final size:10
Alignment explanation
Indices: 59911481--59911519 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
59911471 ACAAAAGTAA
59911481 AAACAAAGTG
1 AAACAAAGTG
*
59911491 AAACAAAGTAA
1 AAACAAAGT-G
*
59911502 AAACAAAATG
1 AAACAAAGTG
59911512 AAACAAAG
1 AAACAAAG
59911520 CCAATTTCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
10 16 0.67
11 8 0.33
ACGTcount: A:0.69, C:0.10, G:0.13, T:0.08
Consensus pattern (10 bp):
AAACAAAGTG
Found at i:59911499 original size:21 final size:21
Alignment explanation
Indices: 59911474--59911519 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
59911464 TCTAATCACA
*
59911474 AAAGTAAAAACAAAGTGAAAC
1 AAAGTAAAAACAAAATGAAAC
59911495 AAAGTAAAAACAAAATGAAAC
1 AAAGTAAAAACAAAATGAAAC
59911516 AAAG
1 AAAG
59911520 CCAATTTCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.70, C:0.09, G:0.13, T:0.09
Consensus pattern (21 bp):
AAAGTAAAAACAAAATGAAAC
Found at i:59911505 original size:11 final size:11
Alignment explanation
Indices: 59911474--59911508 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
59911464 TCTAATCACA
59911474 AAAGTAAAAAC
1 AAAGTAAAAAC
*
59911485 AAAGT-GAAAC
1 AAAGTAAAAAC
59911495 AAAGTAAAAAC
1 AAAGTAAAAAC
59911506 AAA
1 AAA
59911509 ATGAAACAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.71, C:0.09, G:0.11, T:0.09
Consensus pattern (11 bp):
AAAGTAAAAAC
Found at i:59914873 original size:18 final size:18
Alignment explanation
Indices: 59914852--59914890 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
59914842 TTTTCTGTCT
59914852 AAATTAATGAATTTA-ATA
1 AAATT-ATGAATTTAGATA
*
59914870 AAATTATTAATTTAGATA
1 AAATTATGAATTTAGATA
59914888 AAA
1 AAA
59914891 AATAAGTGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (18 bp):
AAATTATGAATTTAGATA
Found at i:59916049 original size:11 final size:12
Alignment explanation
Indices: 59916015--59916046 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
59916005 ATATTATGCA
59916015 AATGAAACAGGT
1 AATGAAACAGGT
59916027 AA-GAAA-AGGT
1 AATGAAACAGGT
59916037 AATGAAACAG
1 AATGAAACAG
59916047 TAAGTTCATA
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
10 6 0.33
11 8 0.44
12 4 0.22
ACGTcount: A:0.56, C:0.06, G:0.25, T:0.12
Consensus pattern (12 bp):
AATGAAACAGGT
Found at i:59921526 original size:22 final size:22
Alignment explanation
Indices: 59921474--59921529 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
59921464 GCCGCGTAAT
*
59921474 CTGATTATGGCTTTGTGCCAAC
1 CTGATTATGGCTCTGTGCCAAC
* * *
59921496 CTAAATATGGCTCTGTGCCATC
1 CTGATTATGGCTCTGTGCCAAC
*
59921518 TTGATTATGGCT
1 CTGATTATGGCT
59921530 TTATCCCAAT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:59921695 original size:22 final size:22
Alignment explanation
Indices: 59921669--59921714 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
59921659 ACAGTTACCG
59921669 ATAGCTTTGTGCCATCCCGATT
1 ATAGCTTTGTGCCATCCCGATT
*
59921691 ATAGCTTTGTGCCATCCTGATT
1 ATAGCTTTGTGCCATCCCGATT
59921713 AT
1 AT
59921715 GGTTTATAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.20, C:0.24, G:0.17, T:0.39
Consensus pattern (22 bp):
ATAGCTTTGTGCCATCCCGATT
Found at i:59940192 original size:21 final size:21
Alignment explanation
Indices: 59940166--59940221 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
59940156 AACAGCGGTG
*
59940166 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
*
59940187 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
59940208 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
59940222 AACAATGGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.25, C:0.09, G:0.38, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:59943108 original size:39 final size:39
Alignment explanation
Indices: 59943054--59943134 Score: 162
Period size: 39 Copynumber: 2.1 Consensus size: 39
59943044 ATGCAATCGA
59943054 TTTGTTCATCTTTAAAGCTTTACTTGAACTATTGTTTTC
1 TTTGTTCATCTTTAAAGCTTTACTTGAACTATTGTTTTC
59943093 TTTGTTCATCTTTAAAGCTTTACTTGAACTATTGTTTTC
1 TTTGTTCATCTTTAAAGCTTTACTTGAACTATTGTTTTC
59943132 TTT
1 TTT
59943135 TCACTTTAGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (39 bp):
TTTGTTCATCTTTAAAGCTTTACTTGAACTATTGTTTTC
Found at i:59943502 original size:29 final size:29
Alignment explanation
Indices: 59943444--59943659 Score: 369
Period size: 29 Copynumber: 7.3 Consensus size: 29
59943434 GAATAAACCG
59943444 AATACACTACATATATTTTTTTATTTTTAA
1 AATACACTACATATA-TTTTTTATTTTTAA
59943474 AATACACTACATATATTTTTTATTTTTAA
1 AATACACTACATATATTTTTTATTTTTAA
*
59943503 AATACACTACATATAGTTTTTATTTTTAA
1 AATACACTACATATATTTTTTATTTTTAA
59943532 AATACACTACATATATTTTTTATTTTTAA
1 AATACACTACATATATTTTTTATTTTTAA
*
59943561 AATGCACTACATATATTTTTTTATTTTTAA
1 AATACACTACATATA-TTTTTTATTTTTAA
59943591 AATACACTACATATATTTTTTATTTTTAA
1 AATACACTACATATATTTTTTATTTTTAA
*
59943620 AATACACTGCATATATATTTTTTATTTTTAA
1 AATACACT--ACATATATTTTTTATTTTTAA
59943651 AATACACTA
1 AATACACTA
59943660 TGTCAAAACC
Statistics
Matches: 178, Mismatches: 5, Indels: 7
0.94 0.03 0.04
Matches are distributed among these distances:
29 107 0.60
30 43 0.24
31 28 0.16
ACGTcount: A:0.38, C:0.11, G:0.01, T:0.50
Consensus pattern (29 bp):
AATACACTACATATATTTTTTATTTTTAA
Found at i:59943552 original size:59 final size:59
Alignment explanation
Indices: 59943444--59943659 Score: 389
Period size: 59 Copynumber: 3.7 Consensus size: 59
59943434 GAATAAACCG
59943444 AATACACTACATATATTTTTTTATTTTTAAAATACACTACATATATTTTTTATTTTTAA
1 AATACACTACATATATTTTTTTATTTTTAAAATACACTACATATATTTTTTATTTTTAA
*
59943503 AATACACTACATATA-GTTTTTATTTTTAAAATACACTACATATATTTTTTATTTTTAA
1 AATACACTACATATATTTTTTTATTTTTAAAATACACTACATATATTTTTTATTTTTAA
*
59943561 AATGCACTACATATATTTTTTTATTTTTAAAATACACTACATATATTTTTTATTTTTAA
1 AATACACTACATATATTTTTTTATTTTTAAAATACACTACATATATTTTTTATTTTTAA
*
59943620 AATACACTGCATATATATTTTTTATTTTTAAAATACACTA
1 AATACACTACATATAT-TTTTTTATTTTTAAAATACACTA
59943660 TGTCAAAACC
Statistics
Matches: 150, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
58 56 0.37
59 71 0.47
60 23 0.15
ACGTcount: A:0.38, C:0.11, G:0.01, T:0.50
Consensus pattern (59 bp):
AATACACTACATATATTTTTTTATTTTTAAAATACACTACATATATTTTTTATTTTTAA
Found at i:59943593 original size:88 final size:87
Alignment explanation
Indices: 59943444--59943659 Score: 369
Period size: 88 Copynumber: 2.4 Consensus size: 87
59943434 GAATAAACCG
59943444 AATACACTACATATATTTTTTTATTTTTAAAATACACTACATATATTTTTTATTTTTAAAATACA
1 AATACACTACATATA-TTTTTTATTTTTAAAATACACTACATATATTTTTTATTTTTAAAATACA
59943509 CTACATATAGTTTTTATTTTTAA
65 CTACATATAGTTTTTATTTTTAA
*
59943532 AATACACTACATATATTTTTTATTTTTAAAATGCACTACATATATTTTTTTATTTTTAAAATACA
1 AATACACTACATATATTTTTTATTTTTAAAATACACTACATATA-TTTTTTATTTTTAAAATACA
*
59943597 CTACATATATTTTTTATTTTTAA
65 CTACATATAGTTTTTATTTTTAA
*
59943620 AATACACTGCATATATATTTTTTATTTTTAAAATACACTA
1 AATACACT--ACATATATTTTTTATTTTTAAAATACACTA
59943660 TGTCAAAACC
Statistics
Matches: 121, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
87 28 0.23
88 65 0.54
90 28 0.23
ACGTcount: A:0.38, C:0.11, G:0.01, T:0.50
Consensus pattern (87 bp):
AATACACTACATATATTTTTTATTTTTAAAATACACTACATATATTTTTTATTTTTAAAATACAC
TACATATAGTTTTTATTTTTAA
Found at i:59945920 original size:22 final size:22
Alignment explanation
Indices: 59945895--59945980 Score: 77
Period size: 22 Copynumber: 4.0 Consensus size: 22
59945885 CCAAGAACAA
*
59945895 AGCAAAAAAGAGGGGAGAAACT
1 AGCAAAAAAGAAGGGAGAAACT
* * *
59945917 AGCAAAAACG-ATGGACAAACT
1 AGCAAAAAAGAAGGGAGAAACT
* * *
59945938 AG-AAAGAACAAGGGAGAAACC
1 AGCAAAAAAGAAGGGAGAAACT
* *
59945959 AGCAAGAAGGAAGGGAGAAACT
1 AGCAAAAAAGAAGGGAGAAACT
59945981 GCTGTTTTGT
Statistics
Matches: 47, Mismatches: 15, Indels: 4
0.71 0.23 0.06
Matches are distributed among these distances:
20 4 0.09
21 20 0.43
22 23 0.49
ACGTcount: A:0.53, C:0.13, G:0.29, T:0.05
Consensus pattern (22 bp):
AGCAAAAAAGAAGGGAGAAACT
Found at i:59945957 original size:21 final size:21
Alignment explanation
Indices: 59945907--59945980 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 21
59945897 CAAAAAAGAG
*
59945907 GGGAGAAACTAGCAAA-AACGA
1 GGGAGAAACTAG-AAAGAACAA
* *
59945928 TGGACAAACTAGAAAGAACAA
1 GGGAGAAACTAGAAAGAACAA
* * *
59945949 GGGAGAAACCAGCAAGAAGGAA
1 GGGAGAAACTAGAAAGAA-CAA
59945971 GGGAGAAACT
1 GGGAGAAACT
59945981 GCTGTTTTGT
Statistics
Matches: 42, Mismatches: 9, Indels: 3
0.78 0.17 0.06
Matches are distributed among these distances:
20 3 0.07
21 28 0.67
22 11 0.26
ACGTcount: A:0.51, C:0.14, G:0.30, T:0.05
Consensus pattern (21 bp):
GGGAGAAACTAGAAAGAACAA
Found at i:59963825 original size:192 final size:194
Alignment explanation
Indices: 59963301--59963878 Score: 612
Period size: 194 Copynumber: 3.0 Consensus size: 194
59963291 GGCATCTCCG
* * ** * *
59963301 ATACAACAATTTCTCGTCTGAGCTGAATATATATATTTGTGTCAGGTTAGTAGTACAAGCTTAAC
1 ATACAACAATTGCTCGTCTGAGTTGAATATATATATTTGTGTCAGGTTACCAGT-CAAGCCTAAA
* * * * *
59963366 T-TTTATAATGGCACATCCGATTGCTTGTGTAAGCCGAATATATACATGTCAGGTTACTCATCTG
65 TCTTTATAAAGACACATCTGATTGCTTGTCTAAGCTGAATATATACATGTCAGGTTACTCATCTG
** * * * * * * * * * *
59963430 GGCTAAAGGTTTAAAATGGCATTAGGTTACCAGTCTAAGCTAAACTTGAGTTACATATATCTTTG
130 GGCTAAACCTTTAAAACGACATCAGGTTACCAGTCCAGGCTAAACTAGTGTCACATGTATCTTTA
* * * * *
59963495 ATAC-ACTACTTGCTCGTCCGAGTTGAATATATATATTTGTGTCAGGTTACCAATCCAGGCTAAA
1 ATACAAC-AATTGCTCGTCTGAGTTGAATATATATATTTGTGTCAGGTTACCAGTCAAGCCTAAA
* * * * * * * * *
59963559 CCTTTATAAAAACATATTTTATTACTTGTCTAAGTTGAATATATACATGTCAAGTTAC-CTATCC
65 TCTTTATAAAGACACATCTGATTGCTTGTCTAAGCTGAATATATACATGTCAGGTTACTC-ATCT
* * * *
59963623 GGGCTAAACCTTTAAAACCACAACAAGTTTCCAGTCCAGGCTAAA-TAAGTGTCACATGTATCTT
129 GGGCTAAACCTTTAAAACGACATCAGGTTACCAGTCCAGGCTAAACT-AGTGTCACATGTATCTT
59963687 TA
193 TA
*
59963689 ATACAACAATTGCTCGTCTGAGTTG-A-ATATATATTTGTGTCAGGTTACCAGTCTAGCCTAAAT
1 ATACAACAATTGCTCGTCTGAGTTGAATATATATATTTGTGTCAGGTTACCAGTCAAGCCTAAAT
* * * * * *
59963752 CTTTATAACGACACATCTGATTGCTTGTCCAAGCTAAATATATACATGTTAGGTTACTCGTCTGA
66 CTTTATAAAGACACATCTGATTGCTTGTCTAAGCTGAATATATACATGTCAGGTTACTCATCTGG
* *
59963817 GTTAAACCTTTAAAACGACATCAGGTTACCAG-CGCAGGCTAAACTTGTGTCACATGTATCTT
131 GCTAAACCTTTAAAACGACATCAGGTTACCAGTC-CAGGCTAAACTAGTGTCACATGTATCTT
59963879 CTAGTCCACA
Statistics
Matches: 309, Mismatches: 67, Indels: 18
0.78 0.17 0.05
Matches are distributed among these distances:
191 1 0.00
192 134 0.43
193 13 0.04
194 159 0.51
195 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (194 bp):
ATACAACAATTGCTCGTCTGAGTTGAATATATATATTTGTGTCAGGTTACCAGTCAAGCCTAAAT
CTTTATAAAGACACATCTGATTGCTTGTCTAAGCTGAATATATACATGTCAGGTTACTCATCTGG
GCTAAACCTTTAAAACGACATCAGGTTACCAGTCCAGGCTAAACTAGTGTCACATGTATCTTTA
Found at i:59965205 original size:68 final size:68
Alignment explanation
Indices: 59965076--59965218 Score: 198
Period size: 68 Copynumber: 2.1 Consensus size: 68
59965066 TGATTAAACT
* * * * *
59965076 TAATCACTTTAATATTAAATTAGTATAATACTTATCACGATAAATATTAGATTAAATTTAATATT
1 TAATTACTTTAATATTAAATTAATAAAATACTTATCAAGATAAATATTAAATTAAATTTAATATT
59965141 AAGA
66 AA-A
* *
59965145 TAATTACTTTAATATTAAATTAATAAAATAC-TATCAAGATAATTATTAAATTTAATTTAATATT
1 TAATTACTTTAATATTAAATTAATAAAATACTTATCAAGATAAATATTAAATTAAATTTAATATT
59965209 AAA
66 AAA
59965212 TATATTA
1 TA-ATTA
59965219 AAATAATATT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
67 3 0.05
68 35 0.53
69 28 0.42
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.43
Consensus pattern (68 bp):
TAATTACTTTAATATTAAATTAATAAAATACTTATCAAGATAAATATTAAATTAAATTTAATATT
AAA
Found at i:59966569 original size:13 final size:13
Alignment explanation
Indices: 59966551--59966575 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59966541 GAATTTCGCT
59966551 ATGAAAGAAAAAC
1 ATGAAAGAAAAAC
59966564 ATGAAAGAAAAA
1 ATGAAAGAAAAA
59966576 AACACAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.04, G:0.16, T:0.08
Consensus pattern (13 bp):
ATGAAAGAAAAAC
Found at i:59973116 original size:27 final size:27
Alignment explanation
Indices: 59973086--59973175 Score: 103
Period size: 27 Copynumber: 3.3 Consensus size: 27
59973076 CCGACAAACT
59973086 CTGAAGGAATAGTATGTGTGGTGAACA
1 CTGAAGGAATAGTATGTGTGGTGAACA
*
59973113 CTGAAGTG-ATAGTATGTGTGGTGGACA
1 CTGAAG-GAATAGTATGTGTGGTGAACA
* * * *
59973140 CT-AAAGAGATAGTATGTATGATGAACT
1 CTGAAGGA-ATAGTATGTGTGGTGAACA
59973167 CTGAAGGAA
1 CTGAAGGAA
59973176 AATCCCTTAT
Statistics
Matches: 52, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
25 1 0.02
26 2 0.04
27 44 0.85
28 5 0.10
ACGTcount: A:0.34, C:0.08, G:0.31, T:0.27
Consensus pattern (27 bp):
CTGAAGGAATAGTATGTGTGGTGAACA
Found at i:59974872 original size:21 final size:21
Alignment explanation
Indices: 59974848--59974889 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
59974838 GGATTACCTA
*
59974848 CACGGTTGAAAGGAAAGAGTG
1 CACGGTTGAAAGAAAAGAGTG
*
59974869 CACGGTTGAAAGAAAATAGTG
1 CACGGTTGAAAGAAAAGAGTG
59974890 AGTTTACGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.10, G:0.33, T:0.17
Consensus pattern (21 bp):
CACGGTTGAAAGAAAAGAGTG
Found at i:59975026 original size:28 final size:28
Alignment explanation
Indices: 59974983--59975069 Score: 111
Period size: 28 Copynumber: 3.1 Consensus size: 28
59974973 GTAACAATAT
59974983 AGTGTGGGCCTAAGCCCAATACTGTAAC
1 AGTGTGGGCCTAAGCCCAATACTGTAAC
* * *
59975011 AGTGTAGGCCTGAGCCCAATGCTGTAAC
1 AGTGTGGGCCTAAGCCCAATACTGTAAC
* * * *
59975039 AGTTTGGGCCTTAGCCCAATACAGTATC
1 AGTGTGGGCCTAAGCCCAATACTGTAAC
59975067 AGT
1 AGT
59975070 ACAGTGCAAT
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 50 1.00
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.24
Consensus pattern (28 bp):
AGTGTGGGCCTAAGCCCAATACTGTAAC
Found at i:59975201 original size:26 final size:26
Alignment explanation
Indices: 59975172--59975225 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
59975162 AACACACCAA
* *
59975172 TATCGCAGCAAAGCCGCCAGTAATAG
1 TATCACAGCAAAGCCGCCAGTAACAG
* * *
59975198 TATCACAGCGAAGCTGCTAGTAACAG
1 TATCACAGCAAAGCCGCCAGTAACAG
59975224 TA
1 TA
59975226 AATGTGGCAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.19
Consensus pattern (26 bp):
TATCACAGCAAAGCCGCCAGTAACAG
Found at i:59975437 original size:27 final size:27
Alignment explanation
Indices: 59975417--59975611 Score: 225
Period size: 27 Copynumber: 7.2 Consensus size: 27
59975407 GGTATAACAT
59975417 TCATTTTACCCTATAGGGGTATTTCGA
1 TCATTTTACCCTATAGGGGTATTTCGA
* *
59975444 TCATTTAACCCTATAGGGGTATTTTGA
1 TCATTTTACCCTATAGGGGTATTTCGA
*
59975471 TTATTTTACCCTAT-GAGGGTATTTCGA
1 TCATTTTACCCTATAG-GGGTATTTCGA
* * *
59975498 TCATTTCACCATAT-GGAGGTATTTCGG
1 TCATTTTACCCTATAGG-GGTATTTCGA
*
59975525 TCATTTTACCCTATGGGGGTATTTCGA
1 TCATTTTACCCTATAGGGGTATTTCGA
*
59975552 TCATTTTACCCTATAGGGGTATTT-TA
1 TCATTTTACCCTATAGGGGTATTTCGA
* * * * *
59975578 GTCATTATACTCTATGGGGGTATTTTGG
1 -TCATTTTACCCTATAGGGGTATTTCGA
59975606 TCATTT
1 TCATTT
59975612 ATTTACCTCT
Statistics
Matches: 143, Mismatches: 20, Indels: 10
0.83 0.12 0.06
Matches are distributed among these distances:
26 3 0.02
27 138 0.97
28 2 0.01
ACGTcount: A:0.22, C:0.16, G:0.20, T:0.43
Consensus pattern (27 bp):
TCATTTTACCCTATAGGGGTATTTCGA
Found at i:59975477 original size:54 final size:54
Alignment explanation
Indices: 59975417--59975612 Score: 252
Period size: 54 Copynumber: 3.6 Consensus size: 54
59975407 GGTATAACAT
*
59975417 TCATTTTACCCTATAGGGGTATTTCGATCATTTAACCCTATAGGGGTATTTTGA
1 TCATTTTACCCTATGGGGGTATTTCGATCATTTAACCCTATAGGGGTATTTTGA
* * * * * *
59975471 TTATTTTACCCTATGAGGGTATTTCGATCATTTCACCATAT-GGAGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGATCATTTAACCCTATAGG-GGTATTTTGA
*
59975525 TCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATAGGGGTATTTT-A
1 TCATTTTACCCTATGGGGGTATTTCGATCATTTAACCCTATAGGGGTATTTTGA
* * * *
59975578 GTCATTATACTCTATGGGGGTATTTTGGTCATTTA
1 -TCATTTTACCCTATGGGGGTATTTCGATCATTTA
59975613 TTTACCTCTC
Statistics
Matches: 121, Mismatches: 18, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
53 2 0.02
54 117 0.97
55 2 0.02
ACGTcount: A:0.22, C:0.16, G:0.20, T:0.42
Consensus pattern (54 bp):
TCATTTTACCCTATGGGGGTATTTCGATCATTTAACCCTATAGGGGTATTTTGA
Found at i:59977546 original size:21 final size:21
Alignment explanation
Indices: 59977520--59977560 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
59977510 GAACTTCTGA
59977520 GGCATACTCTTAGCTTGTCGT
1 GGCATACTCTTAGCTTGTCGT
59977541 GGCATACTCTTAGCTTGTCG
1 GGCATACTCTTAGCTTGTCG
59977561 CACTCCTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.15, C:0.24, G:0.24, T:0.37
Consensus pattern (21 bp):
GGCATACTCTTAGCTTGTCGT
Found at i:59977986 original size:25 final size:26
Alignment explanation
Indices: 59977932--59977986 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
59977922 ACTTTGTGTT
* *
59977932 ATATGTATGCTTGTGTTTAATTTGAT
1 ATATGTATGCTTGTGTATAATTTGAA
59977958 ATATGTATG-TT-TGTATATATTTGAA
1 ATATGTATGCTTGTGTATA-ATTTGAA
59977983 ATAT
1 ATAT
59977987 TATTGAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 5 0.19
25 12 0.46
26 9 0.35
ACGTcount: A:0.29, C:0.02, G:0.16, T:0.53
Consensus pattern (26 bp):
ATATGTATGCTTGTGTATAATTTGAA
Found at i:59979429 original size:15 final size:15
Alignment explanation
Indices: 59979402--59979447 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
59979392 TTAATTTTAC
59979402 ATTTTACTA-TTATGT
1 ATTTTA-TATTTATGT
*
59979417 ATTTTGTATTTATGT
1 ATTTTATATTTATGT
*
59979432 CTTTTATATTT-TGT
1 ATTTTATATTTATGT
59979446 AT
1 AT
59979448 GCATAGCGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
14 6 0.23
15 20 0.77
ACGTcount: A:0.22, C:0.04, G:0.09, T:0.65
Consensus pattern (15 bp):
ATTTTATATTTATGT
Found at i:59980556 original size:29 final size:29
Alignment explanation
Indices: 59980514--59980579 Score: 123
Period size: 29 Copynumber: 2.3 Consensus size: 29
59980504 AATGGTTGTG
*
59980514 AGAATTGTTCAACTAGAGAATTTGATTAA
1 AGAATTTTTCAACTAGAGAATTTGATTAA
59980543 AGAATTTTTCAACTAGAGAATTTGATTAA
1 AGAATTTTTCAACTAGAGAATTTGATTAA
59980572 AGAATTTT
1 AGAATTTT
59980580 CTTGCAAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.41, C:0.06, G:0.15, T:0.38
Consensus pattern (29 bp):
AGAATTTTTCAACTAGAGAATTTGATTAA
Found at i:59980733 original size:13 final size:13
Alignment explanation
Indices: 59980715--59980739 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59980705 TATTTATTTT
59980715 ATAAATATTAGAA
1 ATAAATATTAGAA
59980728 ATAAATATTAGA
1 ATAAATATTAGA
59980740 TTAAATTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (13 bp):
ATAAATATTAGAA
Found at i:59988509 original size:33 final size:31
Alignment explanation
Indices: 59988472--59988549 Score: 93
Period size: 33 Copynumber: 2.5 Consensus size: 31
59988462 CATAATTGTG
*
59988472 AAATAGTATCAAAATAATGAAAAGACAACAAGA
1 AAATAGTAACAAAATAATGAAAA-A-AACAAGA
* * *
59988505 AAATAGGAACAAAATAATTAAAAAAATAAGA
1 AAATAGTAACAAAATAATGAAAAAAACAAGA
*
59988536 AAATAGTAATAAAA
1 AAATAGTAACAAAA
59988550 AAGCAATTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
31 18 0.46
32 1 0.03
33 20 0.51
ACGTcount: A:0.68, C:0.05, G:0.10, T:0.17
Consensus pattern (31 bp):
AAATAGTAACAAAATAATGAAAAAAACAAGA
Found at i:59989108 original size:25 final size:25
Alignment explanation
Indices: 59988976--59989110 Score: 155
Period size: 25 Copynumber: 5.4 Consensus size: 25
59988966 TGAACGTCTA
*
59988976 CTGCATTGCCATCGACAGTCCTCTG
1 CTGCATCGCCATCGACAGTCCTCTG
* *
59989001 TTGCATCACCATCGACAGTCCTCTG
1 CTGCATCGCCATCGACAGTCCTCTG
* * * *
59989026 CCGCATAGTCATCGAAAGTCCTCTG
1 CTGCATCGCCATCGACAGTCCTCTG
* * *
59989051 -TCGCATTGCCATCGAAAGTCCTCTT
1 CT-GCATCGCCATCGACAGTCCTCTG
*
59989076 CTACATCGCCATCGACAGTCCTCTG
1 CTGCATCGCCATCGACAGTCCTCTG
59989101 CTGCATCGCC
1 CTGCATCGCC
59989111 GTGTAAGTTC
Statistics
Matches: 90, Mismatches: 18, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
25 89 0.99
26 1 0.01
ACGTcount: A:0.19, C:0.36, G:0.18, T:0.27
Consensus pattern (25 bp):
CTGCATCGCCATCGACAGTCCTCTG
Found at i:59989255 original size:26 final size:24
Alignment explanation
Indices: 59989224--59989286 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 24
59989214 ACTTCACCAG
59989224 AAACAACAACCCATAAAAGAAAAA
1 AAACAACAACCCATAAAAGAAAAA
*
59989248 AAA-AACAACCCAGAAAAGAGAAAAA
1 AAACAACAACCCA-TAAA-AGAAAAA
*
59989273 AAACAGCAACCCAT
1 AAACAACAACCCAT
59989287 GCGAGATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
23 9 0.27
24 6 0.18
25 10 0.30
26 8 0.24
ACGTcount: A:0.67, C:0.22, G:0.08, T:0.03
Consensus pattern (24 bp):
AAACAACAACCCATAAAAGAAAAA
Found at i:59989257 original size:23 final size:24
Alignment explanation
Indices: 59989228--59989286 Score: 84
Period size: 23 Copynumber: 2.4 Consensus size: 24
59989218 CACCAGAAAC
59989228 AACAACCCATAAAAGA-AAAAAAA
1 AACAACCCATAAAAGAGAAAAAAA
*
59989251 AACAACCCAGAAAAGAGAAAAAAA
1 AACAACCCATAAAAGAGAAAAAAA
59989275 ACAGCAACCCAT
1 A-A-CAACCCAT
59989287 GCGAGATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
23 15 0.48
24 8 0.26
25 1 0.03
26 7 0.23
ACGTcount: A:0.66, C:0.22, G:0.08, T:0.03
Consensus pattern (24 bp):
AACAACCCATAAAAGAGAAAAAAA
Found at i:59992551 original size:27 final size:28
Alignment explanation
Indices: 59992495--59992576 Score: 87
Period size: 27 Copynumber: 2.9 Consensus size: 28
59992485 TAATATTAAG
* *
59992495 AATTTTATTAAATTATATATTTTTATTA
1 AATTATATTAAATAATATATTTTTATTA
*
59992523 AATTATATTTAATAATA-ATTTTTATTA
1 AATTATATTAAATAATATATTTTTATTA
* *
59992550 AA-TATGATTAAATTATTTATTATTTAT
1 AATTAT-ATTAAATAATATATT-TTTAT
59992577 ATTAATAATC
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
26 3 0.07
27 20 0.44
28 17 0.38
29 5 0.11
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (28 bp):
AATTATATTAAATAATATATTTTTATTA
Found at i:60009416 original size:17 final size:17
Alignment explanation
Indices: 60009394--60009430 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
60009384 GGTTTTGTAC
*
60009394 AAGTTTTAAATTTCAAG
1 AAGTTTGAAATTTCAAG
60009411 AAGTTTGAAATTTCAAG
1 AAGTTTGAAATTTCAAG
60009428 AAG
1 AAG
60009431 GGTTTTCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.43, C:0.05, G:0.16, T:0.35
Consensus pattern (17 bp):
AAGTTTGAAATTTCAAG
Found at i:60015599 original size:10 final size:10
Alignment explanation
Indices: 60015542--60015690 Score: 58
Period size: 10 Copynumber: 15.7 Consensus size: 10
60015532 CCACGTCAGC
60015542 AAATTA-TAA
1 AAATTATTAA
60015551 AAA-TATT-A
1 AAATTATTAA
60015559 AAATT-TTAA
1 AAATTATTAA
*
60015568 AAA-GATATAGA
1 AAATTAT-TA-A
60015579 AAATTA-T-A
1 AAATTATTAA
60015587 AAATTATTAA
1 AAATTATTAA
*
60015597 AAATT-TATATT
1 AAATTAT-TA-A
*
60015608 AAATT-CTAA
1 AAATTATTAA
*
60015617 AAATTATTTTA
1 AAATTA-TTAA
*
60015628 AAA-CA--AA
1 AAATTATTAA
*
60015635 AAATTACTAA
1 AAATTATTAA
60015645 AAATTA-TAA
1 AAATTATTAA
60015654 AAATTA-TAA
1 AAATTATTAA
**
60015663 AAAAAATTAA
1 AAATTATTAA
60015673 GAAATT-TTAA
1 -AAATTATTAA
60015683 GAAATTAT
1 -AAATTAT
60015691 AATAAAAATA
Statistics
Matches: 107, Mismatches: 14, Indels: 36
0.68 0.09 0.23
Matches are distributed among these distances:
7 4 0.04
8 16 0.15
9 33 0.31
10 35 0.33
11 18 0.17
12 1 0.01
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (10 bp):
AAATTATTAA
Found at i:60015604 original size:19 final size:19
Alignment explanation
Indices: 60015545--60015605 Score: 65
Period size: 20 Copynumber: 3.3 Consensus size: 19
60015535 CGTCAGCAAA
60015545 TTATAAAAATATT-AAAAT
1 TTATAAAAATATTAAAAAT
*
60015563 TT-TAAAAAGATATAGAAAA-
1 TTATAAAAATAT-TA-AAAAT
*
60015582 TTATAAAATTATTAAAAAT
1 TTATAAAAATATTAAAAAT
60015601 TTATA
1 TTATA
60015606 TTAAATTCTA
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
17 8 0.23
18 7 0.20
19 9 0.26
20 11 0.31
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (19 bp):
TTATAAAAATATTAAAAAT
Found at i:60015605 original size:29 final size:28
Alignment explanation
Indices: 60015545--60015816 Score: 88
Period size: 29 Copynumber: 9.8 Consensus size: 28
60015535 CGTCAGCAAA
60015545 TTATAAAAA-TATTAAAATT-TTAAAAAG
1 TTATAAAAATTA-TAAAATTATTAAAAAG
* *
60015572 ATATAGAAAATTATAAAATTATTAAAAAT
1 TTATA-AAAATTATAAAATTATTAAAAAG
* * *
60015601 TTATATTAAATTCTAAAAATTATTTTAAAA-
1 TTATA-AAAATTAT-AAAATTA-TTAAAAAG
*
60015631 -CA-AAAAATTACTAAAAATTA-TAAAAA-
1 TTATAAAAATTA-T-AAAATTATTAAAAAG
60015657 TTATAAAAAAAATTA-AGAAATT-TTAAGAAA-
1 TTAT---AAAAATTATA-AAATTATTAA-AAAG
*
60015687 TTATAATAAA-AATAAAA--A--AGAAAA-
1 TTATAA-AAATTATAAAATTATTA-AAAAG
*
60015711 TTATATAAA-TATAAAA-TATT-AAAAG
1 TTATAAAAATTATAAAATTATTAAAAAG
* *
60015736 TTATAAAAAATTATAAAA--AATAGAATA-
1 TTAT-AAAAATTATAAAATTATTA-AAAAG
60015763 TTATAAGAAACTTATAAGAATTA-TAAAAA-
1 TTATAA-AAA-TTATAA-AATTATTAAAAAG
*
60015792 TATTTAAAAATATATAAAATTATTA
1 T-TATAAAAAT-TATAAAATTATTA
60015817 CTTTTTGTTT
Statistics
Matches: 191, Mismatches: 20, Indels: 66
0.69 0.07 0.24
Matches are distributed among these distances:
23 9 0.05
24 14 0.07
25 5 0.03
26 13 0.07
27 30 0.16
28 41 0.21
29 44 0.23
30 20 0.10
31 15 0.08
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.33
Consensus pattern (28 bp):
TTATAAAAATTATAAAATTATTAAAAAG
Found at i:60015655 original size:19 final size:18
Alignment explanation
Indices: 60015542--60015814 Score: 124
Period size: 19 Copynumber: 14.9 Consensus size: 18
60015532 CCACGTCAGC
*
60015542 AAATTATAAAAA-TATTA
1 AAATTATAAAAATTATAA
* *
60015559 AAATTTTAAAAAGATATAGA
1 AAATTATAAAAA-TTATA-A
60015579 AAATTAT-AAAATTATTAA
1 AAATTATAAAAATTA-TAA
* *
60015597 AAATTTATATTAAATTCTAA
1 AAA-TTATA-AAAATTATAA
* *
60015617 AAATTATTTTAAAA-CA-AA
1 AAATTA--TAAAAATTATAA
60015635 AAATTACTAAAAATTATAA
1 AAATTA-TAAAAATTATAA
**
60015654 AAATTATAAAAAAAATTAA
1 AAATTATAAAAATTA-TAA
*
60015673 GAAATTTTAAGAAATTATAA
1 -AAATTATAA-AAATTATAA
* *
60015693 TAAA-AATAAAAA--A-GA
1 -AAATTATAAAAATTATAA
*
60015708 AAATTATATAAA-TAT-A
1 AAATTATAAAAATTATAA
*
60015724 AAA-TATTAAAAGTTATAAA
1 AAATTA-TAAAAATTAT-AA
60015743 AAATTATAAAAA--ATAGA
1 AAATTATAAAAATTATA-A
*
60015760 ATATTATAAGAAACTTATAA
1 AAATTATAA-AAA-TTATAA
* *
60015780 GAATTATAAAAATATTTAA
1 AAATTATAAAAAT-TATAA
60015799 AAA-TATATAAAATTAT
1 AAATTATA-AAAATTAT
60015815 TACTTTTTGT
Statistics
Matches: 194, Mismatches: 33, Indels: 57
0.68 0.12 0.20
Matches are distributed among these distances:
14 3 0.02
15 9 0.05
16 11 0.06
17 30 0.15
18 35 0.18
19 53 0.27
20 40 0.21
21 13 0.07
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.33
Consensus pattern (18 bp):
AAATTATAAAAATTATAA
Found at i:60015749 original size:10 final size:10
Alignment explanation
Indices: 60015632--60015814 Score: 63
Period size: 10 Copynumber: 19.0 Consensus size: 10
60015622 ATTTTAAAAC
60015632 AAAAAATTACT
1 AAAAAATTA-T
60015643 -AAAAATTAT
1 AAAAAATTAT
60015652 -AAAAATTAT
1 AAAAAATTAT
*
60015661 AAAAAA-AATT
1 AAAAAATTA-T
* *
60015671 AAGAAATTTT
1 AAAAAATTAT
*
60015681 AAGAAATTAT
1 AAAAAATTAT
* *
60015691 AATAAAAATAAAA
1 -A-AAAAAT-TAT
60015704 AAGAAAATTAT
1 AA-AAAATTAT
*
60015715 -ATAAA-TAT
1 AAAAAATTAT
60015723 --AAAA-TAT
1 AAAAAATTAT
* *
60015730 TAAAAGTTAT
1 AAAAAATTAT
60015740 AAAAAATTAT
1 AAAAAATTAT
60015750 -AAAAA--AT
1 AAAAAATTAT
* *
60015757 AGAATATTAT
1 AAAAAATTAT
*
60015767 AAGAAACTTAT
1 AA-AAAATTAT
*
60015778 -AAGAATTAT
1 AAAAAATTAT
60015787 AAAAATATT-T
1 AAAAA-ATTAT
60015797 -AAAAA-TAT
1 AAAAAATTAT
*
60015805 ATAAAATTAT
1 AAAAAATTAT
60015815 TACTTTTTGT
Statistics
Matches: 129, Mismatches: 24, Indels: 39
0.67 0.12 0.20
Matches are distributed among these distances:
7 9 0.07
8 8 0.06
9 36 0.28
10 52 0.40
11 12 0.09
12 11 0.09
13 1 0.01
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:60017998 original size:23 final size:23
Alignment explanation
Indices: 60017972--60018065 Score: 125
Period size: 23 Copynumber: 4.1 Consensus size: 23
60017962 AAGTTAGAAG
60017972 AGTGAAGAGACTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* * *
60017995 AGTGAAAAAACTTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAA
*
60018018 AGTGAAGAGACTTGAAGATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* * *
60018041 AGTTAAGAGGCTTGAATATTAAA
1 AGTGAAGAGACTTGAATATGAAA
60018064 AG
1 AG
60018066 ATACACACAT
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 60 1.00
ACGTcount: A:0.48, C:0.04, G:0.24, T:0.23
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAA
Found at i:60022505 original size:23 final size:23
Alignment explanation
Indices: 60022479--60022572 Score: 116
Period size: 23 Copynumber: 4.1 Consensus size: 23
60022469 AAGTTAGAAG
*
60022479 AGTGAAGATACTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* * *
60022502 AGTGAAAAAACTTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAA
* *
60022525 AGTGAAGAGACTTAAAGATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* *
60022548 AGTTAAGAGGCTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
60022571 AG
1 AG
60022573 ATACACACAT
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 59 1.00
ACGTcount: A:0.49, C:0.04, G:0.23, T:0.23
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAA
Found at i:60023463 original size:20 final size:20
Alignment explanation
Indices: 60023438--60023475 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
60023428 AATTACACAA
*
60023438 CAGTCATTCAACTTTCAATT
1 CAGTCACTCAACTTTCAATT
60023458 CAGTCACTCAACTTTCAA
1 CAGTCACTCAACTTTCAA
60023476 AAAACAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (20 bp):
CAGTCACTCAACTTTCAATT
Found at i:60024410 original size:3 final size:3
Alignment explanation
Indices: 60024396--60024432 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
60024386 GTATCTTCAT
* *
60024396 TTC TTA TTC TTC TTC TTC TTC CTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
60024433 ACCCAGCTAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.03, C:0.32, G:0.00, T:0.65
Consensus pattern (3 bp):
TTC
Found at i:60032365 original size:16 final size:16
Alignment explanation
Indices: 60032344--60032402 Score: 66
Period size: 16 Copynumber: 3.6 Consensus size: 16
60032334 ACTATGGAAA
60032344 GAAAATTAAAAAGATG
1 GAAAATTAAAAAGATG
* **
60032360 GAAAATTGAAGGGATG
1 GAAAATTAAAAAGATG
60032376 GAAAATTAGAAAA-ATG
1 GAAAATTA-AAAAGATG
60032392 GAAAATATAAA
1 GAAAAT-TAAA
60032403 TTTTCTTTTC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
16 31 0.89
17 4 0.11
ACGTcount: A:0.59, C:0.00, G:0.22, T:0.19
Consensus pattern (16 bp):
GAAAATTAAAAAGATG
Found at i:60035673 original size:16 final size:16
Alignment explanation
Indices: 60035652--60035683 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
60035642 TTACACACTT
60035652 GCTAGTGCATGAATAA
1 GCTAGTGCATGAATAA
60035668 GCTAGTGCATGAATAA
1 GCTAGTGCATGAATAA
60035684 TATTAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (16 bp):
GCTAGTGCATGAATAA
Found at i:60050081 original size:16 final size:16
Alignment explanation
Indices: 60050055--60050092 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
60050045 TTTTGATTCA
60050055 TTATTTTTTGAAT-TT
1 TTATTTTTTGAATATT
60050070 TTATTGTTTTGAATATT
1 TTATT-TTTTGAATATT
60050087 TTATTT
1 TTATTT
60050093 ATAAATTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.24
16 9 0.43
17 7 0.33
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.71
Consensus pattern (16 bp):
TTATTTTTTGAATATT
Found at i:60051713 original size:5 final size:5
Alignment explanation
Indices: 60051703--60051728 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
60051693 TGAGCATTCG
60051703 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
60051729 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:60052394 original size:17 final size:16
Alignment explanation
Indices: 60052344--60052401 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 16
60052334 AGGTGATAAG
60052344 TAAAAGTTTACGGGAAAAA
1 TAAAAGTTTA-GGG--AAA
*
60052363 TAAAAAGTTTTGGGAAA
1 T-AAAAGTTTAGGGAAA
60052380 TAAAAGTTTGAGGGAAA
1 TAAAAGTTT-AGGGAAA
60052397 GTAAA
1 -TAAA
60052402 TAGGGGGAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
16 8 0.24
17 10 0.29
18 4 0.12
19 4 0.12
20 8 0.24
ACGTcount: A:0.50, C:0.02, G:0.24, T:0.24
Consensus pattern (16 bp):
TAAAAGTTTAGGGAAA
Found at i:60052768 original size:9 final size:9
Alignment explanation
Indices: 60052754--60052790 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
60052744 TATAGTTTGA
60052754 TATTCGAAT
1 TATTCGAAT
60052763 TATTCGAAT
1 TATTCGAAT
*
60052772 TATTCGAGT
1 TATTCGAAT
*
60052781 AATTCGAAT
1 TATTCGAAT
60052790 T
1 T
60052791 CGAAAACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (9 bp):
TATTCGAAT
Found at i:60059645 original size:48 final size:48
Alignment explanation
Indices: 60059574--60059667 Score: 179
Period size: 48 Copynumber: 2.0 Consensus size: 48
60059564 TAGTGCTTCC
60059574 AGCGTTGTCCATTAACTTTAAATGTGACCCCCGTTTTCGTATCTTTAA
1 AGCGTTGTCCATTAACTTTAAATGTGACCCCCGTTTTCGTATCTTTAA
*
60059622 AGCGTTGTCCATTAACTTTAAATGTGACCCTCGTTTTCGTATCTTT
1 AGCGTTGTCCATTAACTTTAAATGTGACCCCCGTTTTCGTATCTTT
60059668 GACATCAATA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.21, C:0.22, G:0.15, T:0.41
Consensus pattern (48 bp):
AGCGTTGTCCATTAACTTTAAATGTGACCCCCGTTTTCGTATCTTTAA
Found at i:60064511 original size:16 final size:17
Alignment explanation
Indices: 60064490--60064522 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
60064480 AGTACACAAA
60064490 TATAATTG-GCTCGCAC
1 TATAATTGAGCTCGCAC
60064506 TATAATTGAGCTCGCAC
1 TATAATTGAGCTCGCAC
60064523 CTAGCATTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.30
Consensus pattern (17 bp):
TATAATTGAGCTCGCAC
Found at i:60066106 original size:13 final size:13
Alignment explanation
Indices: 60066090--60066114 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60066080 TTAGATATAT
60066090 ATTTTATATATTC
1 ATTTTATATATTC
60066103 ATTTTATATATT
1 ATTTTATATATT
60066115 GTATGAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (13 bp):
ATTTTATATATTC
Found at i:60081096 original size:16 final size:15
Alignment explanation
Indices: 60081077--60081124 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 15
60081067 CTATATTTAA
60081077 TATTTTCTATATTATT
1 TATTTT-TATATTATT
60081093 TATTTTTAATATTA-T
1 TATTTTT-ATATTATT
60081108 TATTTTTATAATTATT
1 TATTTTTAT-ATTATT
60081124 T
1 T
60081125 TTAATTTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
14 2 0.07
15 13 0.45
16 14 0.48
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (15 bp):
TATTTTTATATTATT
Found at i:60083659 original size:21 final size:20
Alignment explanation
Indices: 60083633--60083675 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
60083623 GATTCCAAGG
*
60083633 TAACAAAATCATATCTAACGT
1 TAACAAAATCATAT-TAAAGT
60083654 TAACAAAATCATATTAAAGT
1 TAACAAAATCATATTAAAGT
60083674 TA
1 TA
60083676 TAGAAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.51, C:0.14, G:0.05, T:0.30
Consensus pattern (20 bp):
TAACAAAATCATATTAAAGT
Found at i:60086180 original size:74 final size:73
Alignment explanation
Indices: 60086059--60086274 Score: 261
Period size: 74 Copynumber: 2.9 Consensus size: 73
60086049 TTAAAAGCAG
* * * *
60086059 AAATTGAAATTAACTCAACGTGCCTTGAGGCTCAACTTACCTCTCGCAGTATGAGTTGATTTTTT
1 AAATTGAAATTAACTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
60086124 GAAAGACAA
66 GAAA-ACAA
* * * **
60086133 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAATTAACTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTT
* *
60086198 TTTGACAACAG
63 TTTGAAAACAA
* * *
60086209 AAATTGAAATTATCTTAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTT
1 AAATTGAAATTAACTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTT
60086274 T
65 T
60086275 TTGAAAAATA
Statistics
Matches: 120, Mismatches: 18, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
74 56 0.47
76 54 0.45
77 10 0.08
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (73 bp):
AAATTGAAATTAACTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
GAAAACAA
Found at i:60086243 original size:76 final size:76
Alignment explanation
Indices: 60086052--60086294 Score: 280
Period size: 76 Copynumber: 3.2 Consensus size: 76
60086042 TATAAATTTA
* * *
60086052 AAAG-CAGAAATTGAAATTAACTCAACGTG-CCTTGAGGCTCAACTTACCTCTCGCAGTATGAGT
1 AAAGACAGAAATTGAAATTAACTCAGCGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATGAGT
60086115 TGA--TTTTTTG
65 TGATTTTTTTTG
* * * * * **
60086125 AAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 AAAGACAGAAATTGAAATTAACTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
60086190 GATTTTTTTTTG
66 GA-TTTTTTTTG
* * *
60086202 ACA-ACAGAAATTGAAATTATCTTAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAGACAGAAATTGAAATTAACTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
60086266 GAATTTTTTTTG
66 G-ATTTTTTTTG
* * *
60086278 AAAAATATAAATTGAAA
1 AAAGACAGAAATTGAAA
60086295 AGCAGAAATT
Statistics
Matches: 141, Mismatches: 22, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
73 4 0.03
74 50 0.35
75 1 0.01
76 65 0.46
77 21 0.15
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Consensus pattern (76 bp):
AAAGACAGAAATTGAAATTAACTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTTTTG
Found at i:60086361 original size:91 final size:91
Alignment explanation
Indices: 60086206--60086637 Score: 814
Period size: 91 Copynumber: 4.8 Consensus size: 91
60086196 TTTTTGACAA
* * *
60086206 CAGAAATTGAAATTATCTTAGCGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAT
1 CAGAAATTGAAATTACCTCAACGTG-CCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAT
60086270 TTTTTTTGAAAAATATAAATTGAAAAG
65 TTTTTTTGAAAAATATAAATTGAAAAG
60086297 CAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATT
60086362 TTTTTTGAAAAATATAAATTGAAAAG
66 TTTTTTGAAAAATATAAATTGAAAAG
60086388 CAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATT
60086453 TTTTTTGAAAAATATAAATTGAAAAG
66 TTTTTTGAAAAATATAAATTGAAAAG
60086479 CAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATT
60086544 TTTTTTGAAAAATATAAATTGAAAAG
66 TTTTTTGAAAAATATAAATTGAAAAG
60086570 CAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATT
1 CAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATT
60086634 TTTT
66 TTTT
60086638 GAAAGACAAA
Statistics
Matches: 337, Mismatches: 3, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
90 9 0.03
91 328 0.97
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (91 bp):
CAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATT
TTTTTTGAAAAATATAAATTGAAAAG
Found at i:60086513 original size:182 final size:171
Alignment explanation
Indices: 60086206--60088025 Score: 1216
Period size: 146 Copynumber: 11.4 Consensus size: 171
60086196 TTTTTGACAA
* *
60086206 CAGAAATTGAAATTATCTTAGCGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAT
1 CAGAAATTGAAATTACCTCAGCGTG-CCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-AT
60086270 TTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAA
64 TTTTTTTG-----T-TAAATTGAAAA-CAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAA
60086335 CTCACCTCTCGCAATATGAGTTGAATTTTTTTTGAAAAATATAAATTGAAAAG
122 CTCACCTCTCGCAATATGAGTTGAA--TTTTTTG-AAAATATAAATTGAAAAG
*
60086388 CAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATT
60086453 TTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAAC
65 TTTTTTG-----T-TAAATTGAAAA-CAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAAC
60086518 TCACCTCTCGCAATATGAGTTGAATTTTTTTTGAAAAATATAAATTGAAAAG
123 TCACCTCTCGCAATATGAGTTGAA--TTTTTTG-AAAATATAAATTGAAAAG
*
60086570 CAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--T
1 CAGAAATTGAAATTACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
* * * * * * **
60086633 TTTTTG--AAA--G---ACAAAAATTGAAAATACCTCAGCATGTCTTAAGGCTCAACTCATTTCT
66 TTTTTGTTAAATTGAAAACAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCT
* *
60086691 CGTAATATGAGTTG-A---TTT-----T-T---TTGACAA-
131 CGCAATATGAGTTGAATTTTTTGAAAATATAAATTGAAAAG
*
60086718 CAGAAATTGAAATTATCTCAGCGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAT
1 CAGAAATTGAAATTACCTCAGCGTG-CCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-AT
60086782 TTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAA
64 TTTTTTTG-----T-TAAATTGAAAA-CAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAA
60086847 CTCACCTCTCGCAATATGAGTTG-ATTTTTTG-------AAA--G---A-
122 CTCACCTCTCGCAATATGAGTTGAATTTTTTGAAAATATAAATTGAAAAG
* * * * * ** *
60086883 CAAAAATTGAAAATACCTCAGCATGTCTTAAGGCTCAACTCATTTCTCGTAATATGAGTTGA---
1 CAGAAATTGAAATTACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
* * *
60086945 --TTT-TT---TTGACAACAGAAATTGAAATTATCTCAGCGTGTCC-TGAGGCTCAACTCACCTC
66 TTTTTGTTAAATTGAAAACAGAAATTGAAATTACCTCAACGTG-CCTTGAGGCTCAACTCACCTC
60087003 TCGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAAAG
130 TCGCAATATGAGTTGAA-TTTTTTG-AAAATATAAATTGAAAAG
* *
60087047 CAGAAATTGAAATTACCTCAACGTGCTTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---
1 CAGAAATTGAAATTACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
* * **
60087109 TTTTTG----A---CAAACAGAAATTGAAATTACCTCAGCGTGTCC-TGAGGCTCAACTCATTTC
66 TTTTTGTTAAATTGAAAACAGAAATTGAAATTACCTCAACGTG-CCTTGAGGCTCAACTCACCTC
* *
60087166 TCGTAATATGAGTT-AA-TTTTTGAAAA-ATAAATT-AAAACA
130 TCGCAATATGAGTTGAATTTTTTGAAAATATAAATTGAAAA-G
* **
60087205 CAAAAATTGACAA-TACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--
1 CAGAAATTGA-AATTACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
* * **
60087267 -TTTTTG----A---AAAACAGAAATTAAAAATACCTCAGTGTGTCC-TGAGGCTCAACTCACCT
65 TTTTTTGTTAAATTGAAAACAGAAATTGAAATTACCTCAACGTG-CCTTGAGGCTCAACTCACCT
60087323 CTCGCAATATGAGTTG-A-TTTTTG---------A---AAAA-
129 CTCGCAATATGAGTTGAATTTTTTGAAAATATAAATTGAAAAG
* * *
60087351 CAGAAATTAAAAATACCTCAGTGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--
1 CAGAAATTGAAATTACCTCAGCGTG-CCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
* * **
60087413 -TTTTTG----A---AAAACAGAAATTAAAAATACCTCAGTGTGTCC-TGAGGCTCAACTCACCT
65 TTTTTTGTTAAATTGAAAACAGAAATTGAAATTACCTCAACGTG-CCTTGAGGCTCAACTCACCT
60087469 CTCGCAATATGAGTTG-A-TTTTTG---------A---AAAA-
129 CTCGCAATATGAGTTGAATTTTTTGAAAATATAAATTGAAAAG
* * *
60087497 CAGAAATTAAAAATACCTCAGTGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--
1 CAGAAATTGAAATTACCTCAGCGTG-CCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
* * **
60087559 -TTTTTG----A---AAAACAGAAATTAAAAATACCTCAGTGTGTCC-TGAGGCTCAACTCACCT
65 TTTTTTGTTAAATTGAAAACAGAAATTGAAATTACCTCAACGTG-CCTTGAGGCTCAACTCACCT
*
60087615 CTCGCAATATGAGTTG-A-TTTTTGAAAAACATAAATTG--AA-
129 CTCGCAATATGAGTTGAATTTTTTG-AAAATATAAATTGAAAAG
* * * ** *
60087654 CAGAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATAGGAGTTGATTT
1 CAGAAATTGAAATTACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
* * * * * * **
60087719 TTTTT-TGAAA--G---ACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCT
66 TTTTTGTTAAATTGAAAACAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCT
*
60087778 CGCAATAGGAGTTG-A-TTTTT-----T-T---TTG-AAAG
131 CGCAATATGAGTTGAATTTTTTGAAAATATAAATTGAAAAG
* * * * ** *
60087807 ACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATAGGAGTTGATT
1 -CAGAAATTGAAATTACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
* * * * * * **
60087872 TTTTTT-TGAAA--G---ACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTC
65 TTTTTTGTTAAATTGAAAACAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTC
*
60087931 TCGCAATATGAGTTG-A---TTT-----T-T---TTGACAA-
130 TCGCAATATGAGTTGAATTTTTTGAAAATATAAATTGAAAAG
*
60087959 CAGAAATTGAAATTACCTCAGCGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAT
1 CAGAAATTGAAATTACCTCAGCGTG-CCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
60088023 TTT
65 TTT
60088026 GAAAACAGAA
Statistics
Matches: 1457, Mismatches: 100, Indels: 193
0.83 0.06 0.11
Matches are distributed among these distances:
145 2 0.00
146 277 0.19
147 2 0.00
148 116 0.08
149 18 0.01
150 8 0.01
151 67 0.05
152 13 0.01
153 4 0.00
154 135 0.09
156 2 0.00
157 58 0.04
158 135 0.09
159 15 0.01
160 13 0.01
161 59 0.04
162 2 0.00
163 60 0.04
164 56 0.04
165 156 0.11
166 4 0.00
168 4 0.00
169 1 0.00
171 3 0.00
179 7 0.00
181 3 0.00
182 237 0.16
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (171 bp):
CAGAAATTGAAATTACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
TTTTTGTTAAATTGAAAACAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCT
CGCAATATGAGTTGAATTTTTTGAAAATATAAATTGAAAAG
Found at i:60086655 original size:74 final size:73
Alignment explanation
Indices: 60086562--60086786 Score: 290
Period size: 74 Copynumber: 3.0 Consensus size: 73
60086552 AAAATATAAA
* *
60086562 TTGAAAAGCAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAA-CAAAAATTGAAATTACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGA
60086627 GTTGATTTT
65 GTTGATTTT
* * * * ** *
60086636 TTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTAAGGCTCAACTCATTTCTCGTAATATGA
1 TTGAAA-ACAAAAATTGAAATTACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGA
60086701 GTTGATTTTT
65 GTTGA-TTTT
* * *
60086711 TTGACAACAGAAATTGAAATTATCTCAGCGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAACAAAAATTGAAATTACCTCAGCGTG-CCTTGAGGCTCAACTCACCTCTCGCAATATGA
60086775 GTTGAATTTT
65 GTTG-ATTTT
60086785 TT
1 TT
60086787 TTGAAAAATA
Statistics
Matches: 128, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
74 116 0.91
75 12 0.09
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (73 bp):
TTGAAAACAAAAATTGAAATTACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTT
Found at i:60087132 original size:73 final size:73
Alignment explanation
Indices: 60087039--60087191 Score: 220
Period size: 73 Copynumber: 2.1 Consensus size: 73
60087029 AAAATATAAA
*
60087039 TTGAAAAGCAGAAATTGAAATTACCTCAACGTG-CTTTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAGCAGAAATTGAAATTACCTCAACGTGTC-CTGAGGCTCAACTCACCTCTCGCAATATG
*
60087103 AGTTGATTT
65 AGTTAATTT
* ** *
60087112 TTGACAAA-CAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGTAATATG
1 TTGA-AAAGCAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
60087176 AGTTAATTT
65 AGTTAATTT
60087185 TTGAAAA
1 TTGAAAA
60087192 ATAAATTAAA
Statistics
Matches: 72, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
72 3 0.04
73 65 0.90
74 4 0.06
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (73 bp):
TTGAAAAGCAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTAATTT
Found at i:60087327 original size:73 final size:73
Alignment explanation
Indices: 60087216--60088072 Score: 1088
Period size: 73 Copynumber: 11.4 Consensus size: 73
60087206 AAAAATTGAC
* *
60087216 AATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAG
1 AATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAG
60087281 AAATTAAA
66 AAATTAAA
*
60087289 AATACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAG
1 AATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAG
60087354 AAATTAAA
66 AAATTAAA
*
60087362 AATACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAG
1 AATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAG
60087427 AAATTAAA
66 AAATTAAA
*
60087435 AATACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAG
1 AATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAG
60087500 AAATTAAA
66 AAATTAAA
*
60087508 AATACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAG
1 AATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAG
60087573 AAATTAAA
66 AAATTAAA
* *
60087581 AATACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAT
1 AATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAG
60087646 AAATTGAACAGAAATTGA
66 AAATT-------AA---A
* * ** *
60087664 AACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATAGGAGTTGATTTTTTTTTGAAA
1 AA-TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTGAAA
* * *
60087729 GACAAAAATTGAA
61 AACAGAAATTAAA
* * ** * *
60087742 AATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATAGGAGTTGATTTTTTTTTGAAAG
1 AATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTGAAAA
* *
60087807 ACAAAAATTGAA
62 ACAGAAATTAAA
* * ** * *
60087819 AATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATAGGAGTTGATTTTTTTTTGAAAG
1 AATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTGAAAA
* *
60087884 ACAAAAATTGAA
62 ACAGAAATTAAA
* * ** *
60087896 AATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTG-ACAAC
1 AATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAAC
*
60087960 AGAAATTGAA
64 AGAAATTAAA
* *
60087970 ATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTG-AAAACAG
1 AATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAG
*
60088034 AAATTGAA
66 AAATTAAA
* *
60088042 ATTACCTCAGCGTGTCTTGAGGCTCAACTCA
1 AATACCTCAGCGTGTCCTGAGGCTCAACTCA
60088073 TTTTGAACAG
Statistics
Matches: 742, Mismatches: 27, Indels: 31
0.93 0.03 0.04
Matches are distributed among these distances:
72 49 0.07
73 358 0.48
74 58 0.08
75 8 0.01
77 200 0.27
78 3 0.00
80 2 0.00
81 1 0.00
83 3 0.00
84 43 0.06
88 17 0.02
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (73 bp):
AATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAG
AAATTAAA
Found at i:60087784 original size:77 final size:77
Alignment explanation
Indices: 60087657--60088075 Score: 638
Period size: 77 Copynumber: 5.5 Consensus size: 77
60087647 AATTGAACAG
* * *
60087657 AAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATAGGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATAGGAGTTGATTTTTT
60087722 TTTGAAAGACAA
66 TTTGAAAGACAA
60087734 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATAGGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATAGGAGTTGATTTTTT
60087799 TTTGAAAGACAA
66 TTTGAAAGACAA
60087811 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATAGGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATAGGAGTTGATTTTTT
60087876 TTTGAAAGACAA
66 TTTGAAAGACAA
*
60087888 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA--TTTT
1 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATAGGAGTTGATTTTTT
* *
60087951 TTTGACA-ACAG
66 TTTGAAAGACAA
* * * ** * *
60087962 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----AT
1 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATAGGAGTTGATTTTTT
*
60088023 TTTGAAA-ACAG
66 TTTGAAAGACAA
* *
60088034 AAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTT
1 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTT
60088076 TGAACAGAAA
Statistics
Matches: 326, Mismatches: 16, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
72 50 0.15
74 57 0.17
75 10 0.03
77 209 0.64
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.33
Consensus pattern (77 bp):
AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATAGGAGTTGATTTTTT
TTTGAAAGACAA
Found at i:60088086 original size:49 final size:49
Alignment explanation
Indices: 60088029--60088124 Score: 183
Period size: 49 Copynumber: 2.0 Consensus size: 49
60088019 GAATTTTGAA
*
60088029 AACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTTG
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
60088078 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
60088125 CTCGCAATAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (49 bp):
AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
Found at i:60088261 original size:201 final size:195
Alignment explanation
Indices: 60087888--60088276 Score: 611
Period size: 201 Copynumber: 2.0 Consensus size: 195
60087878 TGAAAGACAA
*
60087888 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
* * * *
60087953 TGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
66 TGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGC
*
60088018 TGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTTGAACAG
131 TGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTGAACAG
* *
60088083 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTT
1 AAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG-A--TTT
60088148 TTTTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAA
63 TTTTGAAA-ACAGAAATTGAAAATACCTCAGC--GTG-ACCTGAGGCTCAACTCACCTCTCGCAA
*
60088212 TATGAGCTG-ATTTTGAAAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATT
124 TATGAGCTGAATTTTG-AAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATT
60088276 T
188 T
60088277 CTCGCAATAT
Statistics
Matches: 177, Mismatches: 9, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
195 55 0.31
196 1 0.01
198 10 0.06
199 22 0.12
200 6 0.03
201 81 0.46
202 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (195 bp):
AAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
TGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGC
TGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTGAACAG
Found at i:60088286 original size:72 final size:73
Alignment explanation
Indices: 60088078--60088348 Score: 359
Period size: 72 Copynumber: 3.6 Consensus size: 73
60088068 ACTCATTTTG
60088078 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
60088143 TTTTTTTTTGAAA
66 -----TTTTGAAA
* * * * * ** *
60088156 GACAGAAATTGAAAATACCTCAGCATGTGAAC-CGAGGCTCAACTCACCTCTCGCAATATGAGCT
1 AACAGAAATTGAAATTACCTCA--ACGTG-TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
60088220 G-ATTTTGAAA
63 GAATTTTGAAA
*
60088230 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
60088295 TTTTG-AA
66 TTTTGAAA
*
60088302 AACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTT
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
60088349 TGAACAGAAA
Statistics
Matches: 169, Mismatches: 19, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
71 1 0.01
72 80 0.47
73 6 0.04
74 27 0.16
78 20 0.12
79 1 0.01
80 33 0.20
81 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.31
Consensus pattern (73 bp):
AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
TTTTGAAA
Found at i:60088287 original size:273 final size:270
Alignment explanation
Indices: 60087811--60088501 Score: 1107
Period size: 273 Copynumber: 2.5 Consensus size: 270
60087801 TGAAAGACAA
* * *
60087811 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATAGGAGTTGATTTTTT
1 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATAGGAGTTGATTTTTT
* **
60087876 TTTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATG
66 TTTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTCGAGGCTCAACTCACCTCTCGCAATATG
* * *
60087941 AGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
131 AGCTGA--TTTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCT
60088006 CGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACT
194 CGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACT
60088071 CATTTTGAACAG
259 CATTTTGAACAG
*
60088083 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTT
1 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATAGGAGTTG-ATTTTT
*
60088148 TTTTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAAC-CGAGGCTCAACTCACCTCTCGCAA
65 TTTTGAAAGACAAAAATTGAAAATACCTCAGCATGT---CTCGAGGCTCAACTCACCTCTCGCAA
* * **
60088212 TATGAGCTGA-TTTTGAAAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATT
127 TATGAGCTGATTTTTG-AAAACAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACC
60088276 TCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCA
191 TCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCA
60088341 ACTCATTTTGAACAG
256 ACTCATTTTGAACAG
60088356 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATAGGAGTTGATTTTTT
1 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATAGGAGTTGATTTTTT
** ** *
60088421 TTTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTAAGGCTCAACTCATTTCTCGTAATATG
66 TTTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTCGAGGCTCAACTCACCTCTCGCAATATG
* *
60088486 AGTTAATTTTTGAAAA
131 AGCTGATTTTTGAAAA
60088502 ATAAATTAAA
Statistics
Matches: 388, Mismatches: 24, Indels: 16
0.91 0.06 0.04
Matches are distributed among these distances:
269 1 0.00
270 31 0.08
271 5 0.01
272 100 0.26
273 220 0.57
275 30 0.08
276 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.32
Consensus pattern (270 bp):
AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATAGGAGTTGATTTTTT
TTTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTCGAGGCTCAACTCACCTCTCGCAATATG
AGCTGATTTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCG
CAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCA
TTTTGAACAG
Found at i:60088368 original size:49 final size:49
Alignment explanation
Indices: 60088302--60088397 Score: 183
Period size: 49 Copynumber: 2.0 Consensus size: 49
60088292 GAATTTTGAA
*
60088302 AACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTTG
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
60088351 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
60088398 CTCGCAATAG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (49 bp):
AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
Found at i:60088674 original size:119 final size:118
Alignment explanation
Indices: 60088464--60088696 Score: 324
Period size: 119 Copynumber: 2.0 Consensus size: 118
60088454 GTCTTAAGGC
* * * * *
60088464 TCAACTCATTTCTCGTAATATGAGTTAATTTTTGAAAAATAAATTAAAACACAAAAATTGACAAT
1 TCAACCCACTTCTCGCAATATGAGTTAATTCTTGAAAAATAAATTAAAACACAAAAATTGAAAAT
* *
60088529 ACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATGGGT
66 ACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATGGGT
* * * *
60088582 TCAACCCACTTCTCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAA-ACAGAAATTGAAA
1 TCAACCCACTTCTCGCAATATGAGTTAATTCTTGAA-AA-ATAAATTAAAACACAAAAATTGAAA
* *
60088646 ATACCTTAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
64 ATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
60088697 TTTGAAAAAG
Statistics
Matches: 100, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
118 31 0.31
119 60 0.60
120 9 0.09
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.27
Consensus pattern (118 bp):
TCAACCCACTTCTCGCAATATGAGTTAATTCTTGAAAAATAAATTAAAACACAAAAATTGAAAAT
ACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATGGGT
Found at i:60088768 original size:54 final size:54
Alignment explanation
Indices: 60088668--60088773 Score: 144
Period size: 54 Copynumber: 1.9 Consensus size: 54
60088658 GACCTGAGGC
*
60088668 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* *
60088722 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAATGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
60088774 CAGAAATTAA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
54 33 0.72
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:60088831 original size:140 final size:140
Alignment explanation
Indices: 60088579--60088831 Score: 470
Period size: 140 Copynumber: 1.8 Consensus size: 140
60088569 TGAGTTGATG
* *
60088579 GGTTCAACCCACTTCTCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGA
1 GGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTAA
*
60088644 AAATACCTTAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA
66 AAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA
60088709 GAAATTAAAA
131 GAAATTAAAA
*
60088719 GGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAATGTAAATTGAAAACAGAAATTAA
1 GGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTAA
60088784 AAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
66 AAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
60088832 TTGAAATTAA
Statistics
Matches: 109, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
140 109 1.00
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (140 bp):
GGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTAA
AAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA
GAAATTAAAA
Found at i:60089024 original size:122 final size:124
Alignment explanation
Indices: 60088804--60089050 Score: 374
Period size: 122 Copynumber: 2.0 Consensus size: 124
60088794 GCGTGACCTG
* *
60088804 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGCG
*
60088869 TACCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAATAAAAATTAAA
66 TACCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTG-AAAACAAAAATTAAA
* * * *
60088929 AGGCTTAACTCACCTCTCGCAATATGAG-T-CAATTTAAA-ACATAAACTAAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGCG
* * *
60088991 TGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAA
66 TACCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAACAAAAATTAAA
60089050 A
1 A
60089051 ATACCTCAAC
Statistics
Matches: 112, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
121 15 0.13
122 62 0.55
123 7 0.06
124 1 0.01
125 27 0.24
ACGTcount: A:0.40, C:0.22, G:0.13, T:0.25
Consensus pattern (124 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGCG
TACCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAACAAAAATTAAA
Found at i:60089072 original size:71 final size:70
Alignment explanation
Indices: 60088929--60089103 Score: 228
Period size: 71 Copynumber: 2.5 Consensus size: 70
60088919 AAAAATTAAA
* * * * * *
60088929 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCAGCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
60088993 CCCCG
66 CCCCG
*
60088998 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT-AAAACAAAAACTAAAAATACCTCAACGT
* **
60089063 GTCTTG
65 GCCCCG
60089069 AGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTT
60089104 CCCTTGAAAA
Statistics
Matches: 93, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
69 26 0.28
70 6 0.06
71 61 0.66
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.28
Consensus pattern (70 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
CCCCG
Found at i:60097428 original size:12 final size:12
Alignment explanation
Indices: 60097408--60097443 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
60097398 TGGGATATGC
*
60097408 AATGTATGAATG
1 AATGCATGAATG
60097420 AATGCATGAATG
1 AATGCATGAATG
60097432 AATGCATGAATG
1 AATGCATGAATG
60097444 TCAAAATGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.42, C:0.06, G:0.25, T:0.28
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:60098704 original size:76 final size:76
Alignment explanation
Indices: 60098578--60098719 Score: 257
Period size: 76 Copynumber: 1.9 Consensus size: 76
60098568 TATAGGTGTA
*
60098578 ATCGGACACCTTATAAAATTATTTTAAAACAAAAAGAAGGCCAAATTTAGGTCTACGTGAAAGTC
1 ATCGGACACCTAATAAAATTATTTTAAAACAAAAAGAAGGCCAAATTTAGGTCTACGTGAAAGTC
60098643 CAGAGAAAAAG
66 CAGAGAAAAAG
* *
60098654 ATCGGACACCTAATATAATTATTTTAAAACAAAAGGAAGGCCAAATTTAGGTCTACGTGAAAGTC
1 ATCGGACACCTAATAAAATTATTTTAAAACAAAAAGAAGGCCAAATTTAGGTCTACGTGAAAGTC
60098719 C
66 C
60098720 NNNNNNNNNN
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 63 1.00
ACGTcount: A:0.44, C:0.15, G:0.17, T:0.24
Consensus pattern (76 bp):
ATCGGACACCTAATAAAATTATTTTAAAACAAAAAGAAGGCCAAATTTAGGTCTACGTGAAAGTC
CAGAGAAAAAG
Found at i:60104386 original size:56 final size:56
Alignment explanation
Indices: 60104300--60104519 Score: 440
Period size: 56 Copynumber: 3.9 Consensus size: 56
60104290 TATAAAAGAA
60104300 AACCTATAGTACATTTTGCACCAATATATACAGGTAATTAGATAAGAAAATCGATG
1 AACCTATAGTACATTTTGCACCAATATATACAGGTAATTAGATAAGAAAATCGATG
60104356 AACCTATAGTACATTTTGCACCAATATATACAGGTAATTAGATAAGAAAATCGATG
1 AACCTATAGTACATTTTGCACCAATATATACAGGTAATTAGATAAGAAAATCGATG
60104412 AACCTATAGTACATTTTGCACCAATATATACAGGTAATTAGATAAGAAAATCGATG
1 AACCTATAGTACATTTTGCACCAATATATACAGGTAATTAGATAAGAAAATCGATG
60104468 AACCTATAGTACATTTTGCACCAATATATACAGGTAATTAGATAAGAAAATC
1 AACCTATAGTACATTTTGCACCAATATATACAGGTAATTAGATAAGAAAATC
60104520 TCATCGAATA
Statistics
Matches: 164, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 164 1.00
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.29
Consensus pattern (56 bp):
AACCTATAGTACATTTTGCACCAATATATACAGGTAATTAGATAAGAAAATCGATG
Found at i:60104679 original size:29 final size:29
Alignment explanation
Indices: 60104646--60104706 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
60104636 ATGAAAAATA
60104646 TTGGTGGATCATAGTATTCTGCCTCTATC
1 TTGGTGGATCATAGTATTCTGCCTCTATC
60104675 TTGGTGGATCATAGTATTCTGCCTCTATC
1 TTGGTGGATCATAGTATTCTGCCTCTATC
60104704 TTG
1 TTG
60104707 CAATAACAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.16, C:0.20, G:0.21, T:0.43
Consensus pattern (29 bp):
TTGGTGGATCATAGTATTCTGCCTCTATC
Found at i:60108588 original size:68 final size:68
Alignment explanation
Indices: 60108463--60108595 Score: 160
Period size: 68 Copynumber: 2.0 Consensus size: 68
60108453 AGTCTTGGTG
* * * *
60108463 GACTATATTGGTTGCCATAACCGAGCTATAGTCTTACAGTTTGTAATCCTGTGTTTAATGTCCTG
1 GACTATATTGGTTGCCATAACCCAGCTATAGTCTTACACTTTGTAATCCTATGTTTAATATCCTG
60108528 ACA
66 ACA
* * * * * *
60108531 GACTATATTGGTTGTCATAGCCCATCTATGGTCTTACACTTTGCT-ATCTTATTTTTAATATCCT
1 GACTATATTGGTTGCCATAACCCAGCTATAGTCTTACACTTTG-TAATCCTATGTTTAATATCCT
60108595 G
65 G
60108596 GTGAACTCTA
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
68 53 0.98
69 1 0.02
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.41
Consensus pattern (68 bp):
GACTATATTGGTTGCCATAACCCAGCTATAGTCTTACACTTTGTAATCCTATGTTTAATATCCTG
ACA
Found at i:60114229 original size:16 final size:16
Alignment explanation
Indices: 60114205--60114245 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
60114195 AATTATAATT
60114205 ACATGCATAACCCAAA
1 ACATGCATAACCCAAA
*
60114221 ACATACATAACCCAAA
1 ACATGCATAACCCAAA
60114237 ACATGCATA
1 ACATGCATA
60114246 TAATTACAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.51, C:0.29, G:0.05, T:0.15
Consensus pattern (16 bp):
ACATGCATAACCCAAA
Found at i:60117221 original size:7 final size:7
Alignment explanation
Indices: 60117209--60117239 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
60117199 TCATGAGCAT
60117209 TCTCTTA
1 TCTCTTA
60117216 TCTCTTA
1 TCTCTTA
60117223 TCTCTTA
1 TCTCTTA
60117230 TCTCTTA
1 TCTCTTA
60117237 TCT
1 TCT
60117240 TTTAATCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.13, C:0.29, G:0.00, T:0.58
Consensus pattern (7 bp):
TCTCTTA
Found at i:60119402 original size:14 final size:14
Alignment explanation
Indices: 60119383--60119409 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
60119373 ATTCAATCAA
60119383 AAAAAAATAAAAAT
1 AAAAAAATAAAAAT
60119397 AAAAAAATAAAAA
1 AAAAAAATAAAAA
60119410 GCAAAAGAAA
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:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (14 bp):
AAAAAAATAAAAAT
Found at i:60119421 original size:32 final size:31
Alignment explanation
Indices: 60119380--60119453 Score: 78
Period size: 32 Copynumber: 2.3 Consensus size: 31
60119370 CAGATTCAAT
60119380 CAAAAAAAAATAAAAAT-AAAAAAATAAAAAG
1 CAAAAAAAAATAAAAATCAAAAAAA-AAAAAG
* * *
60119411 CAAAAGAAAAATCAAGATCAAAACAAAAAAAG
1 CAAAA-AAAAATAAAAATCAAAAAAAAAAAAG
*
60119443 AAAAATAAAAA
1 CAAAA-AAAAA
60119454 ATCAAGGTCA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
31 5 0.14
32 25 0.69
33 6 0.17
ACGTcount: A:0.80, C:0.07, G:0.05, T:0.08
Consensus pattern (31 bp):
CAAAAAAAAATAAAAATCAAAAAAAAAAAAG
Found at i:60121346 original size:44 final size:44
Alignment explanation
Indices: 60121291--60121386 Score: 104
Period size: 44 Copynumber: 2.2 Consensus size: 44
60121281 TTTGAGGTCA
* * *
60121291 CAGTGGGGCAGACTGAAGAAGCA-AATCTTATCTCCCTGAGGTTG
1 CAGTGGAGCAGACTGAAGAAG-ATAATCCTATCTCCCTGAAGTTG
* ***
60121335 CAGTGGAGCAGATTGAATTCGATAATCCTATCTCCCTGAAGTTG
1 CAGTGGAGCAGACTGAAGAAGATAATCCTATCTCCCTGAAGTTG
*
60121379 TAGTGGAG
1 CAGTGGAG
60121387 TGGATCGAAG
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
43 1 0.02
44 42 0.98
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (44 bp):
CAGTGGAGCAGACTGAAGAAGATAATCCTATCTCCCTGAAGTTG
Found at i:60122896 original size:25 final size:25
Alignment explanation
Indices: 60122862--60122912 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
60122852 ACTATTATTG
60122862 TTATCATTATAATTAAATTTCATTA
1 TTATCATTATAATTAAATTTCATTA
* * * *
60122887 TTATTATTATTATTATATTTGATTA
1 TTATCATTATAATTAAATTTCATTA
60122912 T
1 T
60122913 ATTTCTACTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (25 bp):
TTATCATTATAATTAAATTTCATTA
Found at i:60124265 original size:14 final size:15
Alignment explanation
Indices: 60124236--60124265 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
60124226 CAAATTTATT
60124236 AATGAATTATTTAAA
1 AATGAATTATTTAAA
60124251 AATGAATTA-TTAAA
1 AATGAATTATTTAAA
60124265 A
1 A
60124266 TATAACATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (15 bp):
AATGAATTATTTAAA
Found at i:60126018 original size:22 final size:22
Alignment explanation
Indices: 60126000--60126053 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
60125990 CATCACTTTT
*
60126000 GTGCTCTCTGTTTAGCACTTCA
1 GTGCTCTCTGCTTAGCACTTCA
*
60126022 GTACTCTCTGCTTAGCACTTCA
1 GTGCTCTCTGCTTAGCACTTCA
60126044 GTGCTCTCTG
1 GTGCTCTCTG
60126054 GTGTGGTGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.13, C:0.30, G:0.19, T:0.39
Consensus pattern (22 bp):
GTGCTCTCTGCTTAGCACTTCA
Found at i:60131301 original size:20 final size:22
Alignment explanation
Indices: 60131252--60131303 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
60131242 TTTCTATTCT
60131252 ATATATGTATATATTGTTTTTA
1 ATATATGTATATATTGTTTTTA
*
60131274 ATTAATATGT-TTTATT-TTTTTA
1 A-T-ATATGTATATATTGTTTTTA
60131296 ATATATGT
1 ATATATGT
60131304 CAAATTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 6 0.22
21 1 0.04
22 8 0.30
23 6 0.22
24 6 0.22
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (22 bp):
ATATATGTATATATTGTTTTTA
Done.