Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr2
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: 43198478
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2088848 characters in sequence are not A, C, G, or T
File 23 of 131
Found at i:7645707 original size:24 final size:25
Alignment explanation
Indices: 7645661--7645707 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
7645651 GTGCGTTTTG
* *
7645661 TCTTTTAGTTAAATGGTGAATTTAA
1 TCTTTTAGTTAAACGGGGAATTTAA
*
7645686 TCTTTTAG-TAAACGGGGCATTT
1 TCTTTTAGTTAAACGGGGAATTT
7645708 TGTAGTTGGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.28, C:0.09, G:0.19, T:0.45
Consensus pattern (25 bp):
TCTTTTAGTTAAACGGGGAATTTAA
Found at i:7646398 original size:24 final size:25
Alignment explanation
Indices: 7646352--7646398 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
7646342 AACAACATTT
* *
7646352 TAATTTTTTAATTTCTAAAATATAC
1 TAATATTTTAATTTATAAAATATAC
*
7646377 TAATATTTT-ATTTATAATATAT
1 TAATATTTTAATTTATAAAATAT
7646399 TAAATTATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.55
Consensus pattern (25 bp):
TAATATTTTAATTTATAAAATATAC
Found at i:7646579 original size:6 final size:6
Alignment explanation
Indices: 7646568--7646596 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
7646558 TGAGAAAATA
7646568 TCAAAG TCAAAG TCAAAG TCAAAG TCAAA
1 TCAAAG TCAAAG TCAAAG TCAAAG TCAAA
7646597 ATACATACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.52, C:0.17, G:0.14, T:0.17
Consensus pattern (6 bp):
TCAAAG
Found at i:7650434 original size:23 final size:23
Alignment explanation
Indices: 7650408--7650452 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
7650398 AAAACATATA
7650408 TAAAAATATAT-TTATTAAAATTT
1 TAAAAATATATATT-TTAAAATTT
*
7650431 TAAATATATATATTTTAAAATT
1 TAAAAATATATATTTTAAAATT
7650453 CAAAAGAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
TAAAAATATATATTTTAAAATTT
Found at i:7655736 original size:26 final size:27
Alignment explanation
Indices: 7655707--7655767 Score: 72
Period size: 25 Copynumber: 2.3 Consensus size: 27
7655697 TATATACTAA
7655707 AAATTTTAATTTTAATTTAA-TTACAC
1 AAATTTTAATTTTAATTTAATTTACAC
** *
7655733 AAA-TAAAATTTTTATTTAATTTACAC
1 AAATTTTAATTTTAATTTAATTTACAC
*
7655759 AATTTTTAA
1 AAATTTTAA
7655768 AAAAATAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
25 13 0.48
26 11 0.41
27 3 0.11
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (27 bp):
AAATTTTAATTTTAATTTAATTTACAC
Found at i:7659812 original size:11 final size:11
Alignment explanation
Indices: 7659790--7659841 Score: 77
Period size: 11 Copynumber: 4.6 Consensus size: 11
7659780 AACTAATCCT
7659790 CTCTCAAATTTC
1 CTCTC-AATTTC
7659802 CTCTCAATTTC
1 CTCTCAATTTC
*
7659813 CTCTAAATTTC
1 CTCTCAATTTC
*
7659824 CTCTCAATTTG
1 CTCTCAATTTC
7659835 CTCTCAA
1 CTCTCAA
7659842 ATCCGTTCCA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
11 32 0.86
12 5 0.14
ACGTcount: A:0.23, C:0.33, G:0.02, T:0.42
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:7659823 original size:22 final size:23
Alignment explanation
Indices: 7659790--7659843 Score: 92
Period size: 22 Copynumber: 2.4 Consensus size: 23
7659780 AACTAATCCT
7659790 CTCTCAAATTTCCTCTCAATTTC
1 CTCTCAAATTTCCTCTCAATTTC
*
7659813 CTCT-AAATTTCCTCTCAATTTG
1 CTCTCAAATTTCCTCTCAATTTC
7659835 CTCTCAAAT
1 CTCTCAAAT
7659844 CCGTTCCAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 21 0.72
23 8 0.28
ACGTcount: A:0.24, C:0.31, G:0.02, T:0.43
Consensus pattern (23 bp):
CTCTCAAATTTCCTCTCAATTTC
Found at i:7659864 original size:11 final size:11
Alignment explanation
Indices: 7659789--7659865 Score: 56
Period size: 11 Copynumber: 6.9 Consensus size: 11
7659779 AAACTAATCC
7659789 TCTCTCAAATT
1 TCTCTCAAATT
7659800 TCCTCTC-AATT
1 T-CTCTCAAATT
7659811 TC-CTCTAAATT
1 TCTCTC-AAATT
7659822 TCCTCTC-AATT
1 T-CTCTCAAATT
7659833 TGCTCTCAAA-T
1 T-CTCTCAAATT
*
7659844 CCGT-TCCAAATT
1 TC-TCT-CAAATT
7659856 TCTCTCAAAT
1 TCTCTCAAAT
7659866 CCATATTTAA
Statistics
Matches: 53, Mismatches: 3, Indels: 20
0.70 0.04 0.26
Matches are distributed among these distances:
9 3 0.06
10 3 0.06
11 33 0.62
12 11 0.21
13 3 0.06
ACGTcount: A:0.25, C:0.31, G:0.03, T:0.42
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:7661763 original size:18 final size:18
Alignment explanation
Indices: 7661736--7661775 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
7661726 CAAGTGTGTT
* *
7661736 TCCTAGCCCTTTTATGTA
1 TCCTAACCCTTATATGTA
*
7661754 TCCTAACCCTTATATGTT
1 TCCTAACCCTTATATGTA
7661772 TCCT
1 TCCT
7661776 TTTTCGAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.30, G:0.07, T:0.45
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:7662385 original size:22 final size:22
Alignment explanation
Indices: 7662347--7663327 Score: 580
Period size: 22 Copynumber: 44.0 Consensus size: 22
7662337 TAAAAACCCT
* *
7662347 AACCCT-AACCATAAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
* * *
7662368 AACACTAAATCCTTAACTTGAA
1 AACCCTAAACCCTTAACTTAAA
7662390 AACCCTAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
*
7662412 AACCCT-AACACTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
*
7662433 AACCCTAAA-CCTTAAAACTTTAA
1 AACCCTAAACCCTT--AACTTAAA
7662456 AACCCTAAACCCTTAACTT-AA
1 AACCCTAAACCCTTAACTTAAA
* * *
7662477 AGCCCTAAACTCTTAATTTAAA
1 AACCCTAAACCCTTAACTTAAA
* *
7662499 AACCCTAAACCCTTAAATTTAA
1 AACCCTAAACCCTTAACTTAAA
* *
7662521 AACCCTAAAACCTTAAATTCATAAATTAA
1 AACCCTAAACCCTT-AA--C-T---TAAA
* ** *
7662550 AAACCCTAACCCTTAACATAAA
1 AACCCTAAACCCTTAACTTAAA
* *
7662572 AACCCTAAACCTTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAA
** * * * *
7662594 AATTCTAAAACCCTAAAATCATA
1 AACCCT-AAACCCTTAACTTAAA
* *
7662617 AACCTTTAAATTAAAACCTTAACACTTAACTTAAA
1 AACC------CTAAACCCTT-A-ACTTAA-----A
*
7662652 AACCATAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
* * * *
7662674 AATCGTGAACCCTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAA
*
7662696 AACCATAAA-CC----C-T-AA
1 AACCCTAAACCCTTAACTTAAA
* *
7662711 AACCCTAAGCCTTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
7662733 AACCCTAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
*
7662755 AACCCT-AACCCTTAACTTTAA
1 AACCCTAAACCCTTAACTTAAA
*
7662776 AACCTTAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
*** * *
7662798 AAATGT-AGCCCTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAA
* *
7662819 AGCCCT-AACCCTTAACTTTAA
1 AACCCTAAACCCTTAACTTAAA
*
7662840 AACCATAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
* *
7662862 AA--TTATAACCCTTAAATTAAA
1 AACCCTA-AACCCTTAACTTAAA
* *
7662883 AGCCCT-AACCCTTAACTTTAA
1 AACCCTAAACCCTTAACTTAAA
7662904 AACCCTAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
** * *
7662926 AACTGTAAACCGTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAA
*
7662948 AACCCTAAAACCTTAAATCATTAACTTA
1 AACCCTAAACCCTT-AA-C-TTAA---A
** * * *
7662976 AAAACTATAACCCTTAAATTAAA
1 AACCCTAAACC-CTTAACTTAAA
* * *
7662999 AACACT-AATCCTTAACTTTAA
1 AACCCTAAACCCTTAACTTAAA
7663020 AACCCTAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
** *
7663042 AACTGT-AACCCTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAA
* ** *
7663063 AGA-CAT-AACTTTTAACTTTAA
1 A-ACCCTAAACCCTTAACTTAAA
7663084 AACCCTAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
** *
7663106 AACTATAAACCCTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAA
* *
7663128 AACCCTAAAACACTAAACCCTTATCTTAAA
1 AACCCT--AA-AC----CCTTAA-CTTAAA
* *
7663158 AACCATAAA-CCTATAACTTTAA
1 AACCCTAAACCCT-TAACTTAAA
*
7663180 AACCCT-AA-CCTTAACTTTAA
1 AACCCTAAACCCTTAACTTAAA
* *
7663200 AACCATATACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
* *
7663222 AACCAT-AACCCTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAA
* *
7663243 TACCCTAAACCCTTAACTTTAA
1 AACCCTAAACCCTTAACTTAAA
* *
7663265 AACCGT-AACCCTTAA-ATAAA
1 AACCCTAAACCCTTAACTTAAA
* *
7663285 AACCCCT-AACACTTAATTTAAA
1 AA-CCCTAAACCCTTAACTTAAA
*
7663307 AACCCT-AACCCTTAATTTAAA
1 AACCCTAAACCCTTAACTTAAA
7663328 TATAATTTGA
Statistics
Matches: 744, Mismatches: 151, Indels: 130
0.73 0.15 0.13
Matches are distributed among these distances:
15 9 0.01
16 2 0.00
20 23 0.03
21 237 0.32
22 334 0.45
23 43 0.06
24 6 0.01
25 6 0.01
26 6 0.01
27 7 0.01
28 22 0.03
29 31 0.04
30 13 0.02
35 5 0.01
ACGTcount: A:0.46, C:0.26, G:0.01, T:0.27
Consensus pattern (22 bp):
AACCCTAAACCCTTAACTTAAA
Found at i:7662426 original size:43 final size:43
Alignment explanation
Indices: 7662347--7663327 Score: 661
Period size: 43 Copynumber: 22.5 Consensus size: 43
7662337 TAAAAACCCT
* * * * *
7662347 AACCCT-AACCATAAACTTAAAAACACTAAATCCTTAACTTGAA
1 AACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAA
*
7662390 AACCCTAAACCCTTAACTTAAAAACCCTAACACTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAA
*
7662433 AACCCTAAA-CCTTAAAACTTTAAAACCCTAAACCCTTAACTT-AA
1 AACCCTAAACCCTT--AACTTAAAAACCCT-AACCCTTAACTTAAA
* * * * *
7662477 AGCCCTAAACTCTTAATTTAAAAACCCTAAACCCTTAAATTTAA
1 AACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAA
* *
7662521 AACCCTAAAACCTTAAATTCATAAATTAAAAACCCTAACCCTTAACATAAA
1 AACCCTAAACCCTT-AA--C-----TTAAAAACCCTAACCCTTAACTTAAA
* * ** *
7662572 AACCCTAAACCTTTAAATTAAAAATTCTAA-----AACCCT-AA
1 AACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAA-CTTAAA
* * * * * *
7662610 AATCATAAACCTTTAAATT-AAAACCTTAACACTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAA
* * * *
7662652 AACCATAAACCCTTAACTTAAAAATCGTGAACCCTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAA
* *
7662696 AACCATAAA-CC----C-T-AAAACCCTAAGCCTTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAA-CCCTTAACTTAAA
*
7662733 AACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTTAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAA
* *** * *
7662776 AACCTTAAACCCTTAACTTAAAAAATGTAGCCCTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAA
* * *
7662819 AGCCCT-AACCCTTAACTTTAAAACCATAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAA
* * * *
7662862 AA--TTATAACCCTTAAATTAAAAGCCCTAACCCTTAACTTTAA
1 AACCCTA-AACCCTTAACTTAAAAACCCTAACCCTTAACTTAAA
** * *
7662904 AACCCTAAACCCTTAACTTAAAAACTGTAAACCGTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAA
** *
7662948 AACCCTAAAACCTTAAATCATTAACTTAAAAACTATAACCCTTAAATTAAA
1 AACCCT-AAACC------C-TTAACTTAAAAACCCTAACCCTTAACTTAAA
* * *
7662999 AACACT-AATCCTTAACTTTAAAACCCTAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAA
** * * ** *
7663042 AACTGT-AACCCTTAAATTAAAAGA-CATAACTTTTAACTTTAA
1 AACCCTAAACCCTTAACTTAAAA-ACCCTAACCCTTAACTTAAA
** *
7663084 AACCCTAAACCCTTAACTTAAAAACTATAAACCCTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAA
* * * *
7663128 AACCCTAAAACACTAAACCCTTATCTTAAAAACCATAAACCTATAACTTTAA
1 AA--C-----C-CTAAACCCTTAACTTAAAAACCCTAACCCT-TAACTTAAA
* *
7663180 AACCCT-AA-CCTTAACTTTAAAACCATATACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCTA-ACCCTTAACTTAAA
* * * *
7663222 AACCAT-AACCCTTAAATTAAATACCCTAAACCCTTAACTTTAA
1 AACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAA
* * * *
7663265 AACCGT-AACCCTTAA-ATAAAAACCCCTAACACTTAATTTAAA
1 AACCCTAAACCCTTAACTTAAAAA-CCCTAACCCTTAACTTAAA
*
7663307 AACCCT-AACCCTTAATTTAAA
1 AACCCTAAACCCTTAACTTAAA
7663328 TATAATTTGA
Statistics
Matches: 750, Mismatches: 124, Indels: 128
0.75 0.12 0.13
Matches are distributed among these distances:
36 2 0.00
37 32 0.04
38 24 0.03
39 3 0.00
41 3 0.00
42 151 0.20
43 276 0.37
44 123 0.16
45 22 0.03
46 1 0.00
49 3 0.00
50 3 0.00
51 50 0.07
52 57 0.08
ACGTcount: A:0.46, C:0.26, G:0.01, T:0.27
Consensus pattern (43 bp):
AACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAA
Found at i:7662521 original size:73 final size:72
Alignment explanation
Indices: 7662444--7662674 Score: 185
Period size: 73 Copynumber: 3.1 Consensus size: 72
7662434 ACCCTAAACC
* * * * **
7662444 TTAAAACTTTAAAACCCTAAACCCTTAACTT-AAAGCCCTAAACTCTTAATTTAAAAACCCTAAA
1 TTAAAACTTTAAAACCCTAAACCCATAAATTAAAAACCCT-AACCCTTAACATAAAAACCCTAAA
7662508 CCCTTAAA
65 CCCTTAAA
** * **
7662516 TTTAAAACCCTAAAACCTTAAATTCATAAATTAAAAACCCTAACCCTTAACATAAAAACCCTAAA
1 -TTAAAACTTTAAAACCCTAAACCCATAAATTAAAAACCCTAACCCTTAACATAAAAACCCTAAA
*
7662581 CCTTTAAA
65 CCCTTAAA
* ** * * *
7662589 TTAAAAATTCTAAAACCCTAAAATCATAAACCTTTAAATTAAAACCTTAACACTTAACTTAAAAA
1 TTAAAACTT-TAAAACCCTAAACCCATAAA---TT--A--AAAACCCTAACCCTTAACATAAAAA
* *
7662654 CCATAAACCCTTAAC
58 CCCTAAACCCTTAAA
7662669 TTAAAA
1 TTAAAA
7662675 ATCGTGAACC
Statistics
Matches: 126, Mismatches: 23, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
72 6 0.05
73 70 0.56
74 7 0.06
76 2 0.02
78 1 0.01
80 40 0.32
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.27
Consensus pattern (72 bp):
TTAAAACTTTAAAACCCTAAACCCATAAATTAAAAACCCTAACCCTTAACATAAAAACCCTAAAC
CCTTAAA
Found at i:7662531 original size:30 final size:30
Alignment explanation
Indices: 7662497--7662558 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
7662487 TCTTAATTTA
* *
7662497 AAAACCCTAAACCCTTAAATTTAAAACCCT
1 AAAACCCTAAACCCATAAATTAAAAACCCT
* **
7662527 AAAACCTTAAATTCATAAATTAAAAACCCT
1 AAAACCCTAAACCCATAAATTAAAAACCCT
7662557 AA
1 AA
7662559 CCCTTAACAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (30 bp):
AAAACCCTAAACCCATAAATTAAAAACCCT
Found at i:7662652 original size:80 final size:79
Alignment explanation
Indices: 7662513--7662756 Score: 239
Period size: 81 Copynumber: 3.0 Consensus size: 79
7662503 CTAAACCCTT
* * *
7662513 AAATT-TAAAACCCTAAAACCTTAAA--TTCATAAATTAAAAACCCTAACCCTTAACATAAAAAC
1 AAATTCTAAAACCCTAAAATCATAAACCTT--TAAATT-AAAACCCTAA-CCTTAACTTAAAAAC
* *
7662575 CCTAAACCTTTAAATTAA
62 CCTAAACCCTTAACTTAA
* *
7662593 AAATTCTAAAACCCTAAAATCATAAACCTTTAAATTAAAACCTTAACACTTAACTTAAAAACCAT
1 AAATTCTAAAACCCTAAAATCATAAACCTTTAAATTAAAACCCTAAC-CTTAACTTAAAAACCCT
7662658 AAACCCTTAACTTAA
65 AAACCCTTAACTTAA
* * * * * *
7662673 AAA-TCGT-GAACCCTTAAATTAAAAACC-ATAAACCCTAAAACCCTAAGCCTTTAACTTAAAAA
1 AAATTC-TAAAACCCTAAAATCATAAACCTTTAAA--TTAAAACCCTAA-CC-TTAACTTAAAAA
7662735 CCCTAAACCCTTAACTTAA
61 CCCTAAACCCTTAACTTAA
7662754 AAA
1 AAA
7662757 CCCTAACCCT
Statistics
Matches: 140, Mismatches: 15, Indels: 17
0.81 0.09 0.10
Matches are distributed among these distances:
78 4 0.03
79 19 0.14
80 57 0.41
81 58 0.41
83 2 0.01
ACGTcount: A:0.50, C:0.24, G:0.01, T:0.25
Consensus pattern (79 bp):
AAATTCTAAAACCCTAAAATCATAAACCTTTAAATTAAAACCCTAACCTTAACTTAAAAACCCTA
AACCCTTAACTTAA
Found at i:7662667 original size:102 final size:102
Alignment explanation
Indices: 7662546--7663327 Score: 352
Period size: 107 Copynumber: 7.5 Consensus size: 102
7662536 AATTCATAAA
* * *
7662546 TTAAAAACCCTAACCCTTAACATAAAAACCCTAAACCTTTAAATTAAAAATTC-TAAAACCCTAA
1 TTAAAAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAAATTAAAAA-CCAT-AAACCCTAA
* *
7662610 AATCATAAACCTTTAAATT-AAAA-CCTTAACACTTAAC
64 AACCATAAACCTTTAAATTAAAAACCCTAAACACTTAAC
* * * *
7662647 TTAAAAACCATAAACCCTTAACTTAAAAATCGTGAACCCTTAAATTAAAAACCATAAACCCTAAA
1 TTAAAAACCCT-AACCCTTAACTTAAAAACCCTAAACCCTTAAATTAAAAACCATAAACCCTAAA
* * * *
7662712 ACCCTAAGCCTTTAACTTAAAAACCCTAAACCCTTAAC
65 ACCATAAACCTTTAAATTAAAAACCCTAAACACTTAAC
* * * *
7662750 TTAAAAACCCTAACCCTTAACTTTAAAACCTTAAACCCTTAACTTAAAAAATGTAGCCCTTAAA-
1 TTAAAAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAAATT--AAAA---A--CCATAAAC
* * * * * * *
7662814 -TTAAAAGCCCT-AACCCTTAACTTTAAAACCATAAACCCTTAAC
59 CCTAAAA-CCATAAACCTTTAAATTAAAAACCCTAAACACTTAAC
*** * * * * *
7662857 TTAAAAATTATAACCCTTAAATTAAAAGCCCT-AACCCTTAACTTTAAAACCCTAAACCCTTAAC
1 TTAAAAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAAATTAAAAACCATAAA-CC----C
** *
7662921 TTAAAAACTGTAAACCGTTAAATTAAAAACCCTAAAACCTTAAATCATTAAC
61 -T-AAAACCATAAACCTTTAAATTAAAAACCCT-AAA-C----A-C-TTAAC
** * * * * * *
7662973 TTAAAAACTATAACCCTTAAATTAAAAACACT-AATCCTTAACTTTAAAACCCTAAACCCTTAAC
1 TTAAAAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAAATTAAAAACCATAAACCC-TAA-
** * * * **
7663037 TTAAAAACTGTAACCCTTAAATTAAAAGA-CAT-AACTTTTAAC
64 --AACCA-T-AAACCTTTAAATTAAAA-ACCCTAAACACTTAAC
* **
7663079 TTTAAAACCCTAAACCCTTAACTTAAAAACTATAAACCCTTAAATT----A--A-AAACCCTAAA
1 TTAAAAACCCT-AACCCTTAACTTAAAAACCCTAAACCCTTAAATTAAAAACCATAAACCCTAAA
* ** *
7663137 A-CACTAAACCCTTATCTTAAAAACCATAAAC-CTATAAC
65 ACCA-TAAACCTTTAAATTAAAAACCCTAAACACT-TAAC
* * * * *
7663175 TTTAAAACCCTAA-CCTTAACTTTAAAACCATATACCCTTAACTTAAAAACCAT-AACCCTTAAA
1 TTAAAAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAAATTAAAAACCATAAACCC-----
* * * * * *
7663238 TTAAATACCCTAAACCCTTAACTTTAAAACCGT-AACCCTTAA-
61 -TAAA-ACCATAAACCTTTAAATTAAAAACCCTAAACACTTAAC
* * * *
7663280 ATAAAAACCCCTAACACTTAATTTAAAAACCCT-AACCCTTAATTTAAA
1 TTAAAAA-CCCTAACCCTTAACTTAAAAACCCTAAACCCTTAAATTAAA
7663328 TATAATTTGA
Statistics
Matches: 538, Mismatches: 84, Indels: 113
0.73 0.11 0.15
Matches are distributed among these distances:
94 28 0.05
95 20 0.04
96 21 0.04
97 2 0.00
98 1 0.00
99 6 0.01
100 9 0.02
101 42 0.08
102 68 0.13
103 22 0.04
104 8 0.01
105 5 0.01
106 54 0.10
107 117 0.22
108 36 0.07
109 9 0.02
110 3 0.01
111 3 0.01
112 1 0.00
113 4 0.01
114 1 0.00
115 20 0.04
116 58 0.11
ACGTcount: A:0.46, C:0.25, G:0.02, T:0.27
Consensus pattern (102 bp):
TTAAAAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAAATTAAAAACCATAAACCCTAAAA
CCATAAACCTTTAAATTAAAAACCCTAAACACTTAAC
Found at i:7662690 original size:64 final size:64
Alignment explanation
Indices: 7662608--7663327 Score: 421
Period size: 64 Copynumber: 11.4 Consensus size: 64
7662598 CTAAAACCCT
* *
7662608 AAAATCATAAACCTTTAAATTAAAA-CCTTAACACTTAACTTAAAAACCATAAACCCTTAACTTA
1 AAAATCAT-AACCCTTAAATTAAAACCCTTAACCCTTAACTTAAAAACCATAAACCCTTAACTTA
* * * * * * *
7662672 AAAATCGTGAACCCTTAAATTAAAAACCATAAACC----C-T-AAAACCCTAAGCCTTTAACTTA
1 AAAATCAT-AACCCTTAAATTAAAACCCTTAACCCTTAACTTAAAAACCATAAACCCTTAACTTA
* * * * *
7662731 AAAACCCTAAACCCTTAACTTAAAAACCC-TAACCCTTAACTTTAAAACCTTAAACCCTTAACTT
1 AAAATCAT-AACCCTTAAATT-AAAACCCTTAACCCTTAACTTAAAAACCATAAACCCTTAACTT
7662795 AA
64 -A
* * *
7662797 AAAAT-GTAGCCCTTAAATTAAAAGCCC-TAACCCTTAACTTTAAAACCATAAACCCTTAACTTA
1 AAAATCATAACCCTTAAATTAAAA-CCCTTAACCCTTAACTTAAAAACCATAAACCCTTAACTTA
* * *
7662860 AAAATTATAACCCTTAAATTAAAAGCCC-TAACCCTTAACTTTAAAACCCTAAACCCTTAACTTA
1 AAAATCATAACCCTTAAATTAAAA-CCCTTAACCCTTAACTTAAAAACCATAAACCCTTAACTTA
* * * *
7662924 AAAA-CTGTAAACCGTTAAATTAAAAACCCTAAAACCTTAAATCATTAACTTAAAAACTAT-AAC
1 AAAATC-AT-AACCCTTAAATT-AAAACCCT-TAACC------C-TTAACTTAAAAACCATAAAC
*
7662987 CCTTAAATTA
55 CCTTAACTTA
* * * ** *
7662997 AAAA-CACTAATCCTTAACTTTAAAACCCTAAACCCTTAACTTAAAAACTGT-AACCCTTAAATT
1 AAAATCA-TAACCCTTAA-ATTAAAACCCTTAACCCTTAACTTAAAAACCATAAACCCTTAACTT
7663060 A
64 A
** * * * *
7663061 AAAGA-CATAACTTTTAACTTTAAAACCCTAAACCCTTAACTTAAAAACTATAAACCCTTAAATT
1 AAA-ATCATAACCCTTAA-ATTAAAACCCTTAACCCTTAACTTAAAAACCATAAACCCTTAACTT
7663125 -
64 A
* * * *
7663125 --AA--A-AACCC------TAAAACACTAAACCCTTATCTTAAAAACCATAAA-CCTATAACTTT
1 AAAATCATAACCCTTAAATTAAAACCCTTAACCCTTAACTTAAAAACCATAAACCCT-TAACTTA
* * * * *
7663178 AAAACCCTAA-CCTTAACTTTAAAA-CCATATACCCTTAACTTAAAAACCAT-AACCCTTAAATT
1 AAAATCATAACCCTTAA-ATTAAAACCCTTA-ACCCTTAACTTAAAAACCATAAACCCTTAACTT
7663240 A
64 A
* * * * * * * * *
7663241 AATACCCTAAACCCTTAACTTTAAAA-CCGTAACCCTTAA-ATAAAAACCCCT-AACACTTAATT
1 AAAATCAT-AACCCTTAA-ATTAAAACCCTTAACCCTTAACTTAAAAA-CCATAAACCCTTAACT
7663303 TA
63 TA
* * *
7663305 AAAACCCTAACCCTTAATTTAAA
1 AAAATCATAACCCTTAAATTAAA
7663328 TATAATTTGA
Statistics
Matches: 547, Mismatches: 63, Indels: 94
0.78 0.09 0.13
Matches are distributed among these distances:
51 3 0.01
52 36 0.07
55 2 0.00
57 2 0.00
58 2 0.00
59 44 0.08
60 8 0.01
61 2 0.00
62 7 0.01
63 42 0.08
64 259 0.47
65 73 0.13
66 9 0.02
67 4 0.01
71 5 0.01
72 15 0.03
73 21 0.04
74 13 0.02
ACGTcount: A:0.46, C:0.25, G:0.02, T:0.27
Consensus pattern (64 bp):
AAAATCATAACCCTTAAATTAAAACCCTTAACCCTTAACTTAAAAACCATAAACCCTTAACTTA
Found at i:7662958 original size:30 final size:30
Alignment explanation
Indices: 7662922--7662980 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
7662912 ACCCTTAACT
* *
7662922 TAAAAACTGTAAACCGTTAAATTAAAAACCC
1 TAAAACCT-TAAACCATTAAATTAAAAACCC
* *
7662953 TAAAACCTTAAATCATTAACTTAAAAAC
1 TAAAACCTTAAACCATTAAATTAAAAAC
7662981 TATAACCCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 17 0.71
31 7 0.29
ACGTcount: A:0.53, C:0.19, G:0.03, T:0.25
Consensus pattern (30 bp):
TAAAACCTTAAACCATTAAATTAAAAACCC
Found at i:7662972 original size:52 final size:51
Alignment explanation
Indices: 7662901--7663006 Score: 149
Period size: 52 Copynumber: 2.1 Consensus size: 51
7662891 CCCTTAACTT
* * * *
7662901 TAAAACCCTAAACCCTTAACTTAAAAACTGTAAACCGTTAAATTAAAAACCC
1 TAAAACCCTAAACCATTAACTTAAAAACTAT-AACCCTTAAATTAAAAACAC
* *
7662953 TAAAACCTTAAATCATTAACTTAAAAACTATAACCCTTAAATTAAAAACAC
1 TAAAACCCTAAACCATTAACTTAAAAACTATAACCCTTAAATTAAAAACAC
7663004 TAA
1 TAA
7663007 TCCTTAACTT
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
51 21 0.44
52 27 0.56
ACGTcount: A:0.51, C:0.22, G:0.02, T:0.25
Consensus pattern (51 bp):
TAAAACCCTAAACCATTAACTTAAAAACTATAACCCTTAAATTAAAAACAC
Found at i:7662977 original size:116 final size:115
Alignment explanation
Indices: 7662837--7663063 Score: 373
Period size: 116 Copynumber: 2.0 Consensus size: 115
7662827 CCCTTAACTT
* * * *
7662837 TAAAACCATAAACCCTTAACTTAAAAATTATAACCCTTAAATTAAAAGCCCTAACCCTTAACTTT
1 TAAAACCATAAACCATTAACTTAAAAACTATAACCCTTAAATTAAAAACACTAACCCTTAACTTT
*
7662902 AAAACCCTAAACCCTTAACTTAAAAACTGTAAACCGTTAAATTAAAAACCC
66 AAAACCCTAAACCCTTAACTTAAAAACTGT-AACCCTTAAATTAAAAACCC
* * *
7662953 TAAAACCTTAAATCATTAACTTAAAAACTATAACCCTTAAATTAAAAACACTAATCCTTAACTTT
1 TAAAACCATAAACCATTAACTTAAAAACTATAACCCTTAAATTAAAAACACTAACCCTTAACTTT
7663018 AAAACCCTAAACCCTTAACTTAAAAACTGTAACCCTTAAATTAAAA
66 AAAACCCTAAACCCTTAACTTAAAAACTGTAACCCTTAAATTAAAA
7663064 GACATAACTT
Statistics
Matches: 103, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
115 15 0.15
116 88 0.85
ACGTcount: A:0.48, C:0.23, G:0.02, T:0.27
Consensus pattern (115 bp):
TAAAACCATAAACCATTAACTTAAAAACTATAACCCTTAAATTAAAAACACTAACCCTTAACTTT
AAAACCCTAAACCCTTAACTTAAAAACTGTAACCCTTAAATTAAAAACCC
Found at i:7662996 original size:180 final size:178
Alignment explanation
Indices: 7662600--7663314 Score: 727
Period size: 180 Copynumber: 4.1 Consensus size: 178
7662590 TAAAAATTCT
* * * * * * * *
7662600 AAAACCCTAAAATCATAAACCTTTAAATTAAAACCT-TAACACTTAACTTAAAAACCATAAACCC
1 AAAACCCTAAAACCTTAAACCCTTAACTTAAAAACTATAACCCTTAAATT-AAAACCCT-AA-CC
* * * * * *
7662664 TTAACTTAAAAATCGTGAACCCTTAAATTAAAAACCATAAACCC------TAAAA-CCCTAAGCC
63 TTAACTTTAAAACCATAAACCCTTAACTTAAAAACTAT-AACCCTTAAATTAAAAGCCCTAA-CC
* * ** *
7662722 TTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTT-
126 CTTAACTTTAAAACCCTAAACCCTTAACTTAAAAACTATAAACCCTTAAATTA
* * *
7662773 -------TAAAACCTTAAACCCTTAACTTAAAAAATGTAGCCCTTAAATTAAAAGCCCTAACCCT
1 AAAACCCTAAAACCTTAAACCCTTAACTTAAAAACTATAACCCTTAAATTAAAA-CCCTAA-CCT
*
7662831 TAACTTTAAAACCATAAACCCTTAACTTAAAAATTATAACCCTTAAATTAAAAGCCCTAACCCTT
64 TAACTTTAAAACCATAAACCCTTAACTTAAAAACTATAACCCTTAAATTAAAAGCCCTAACCCTT
* *
7662896 AACTTTAAAACCCTAAACCCTTAACTTAAAAACTGTAAACCGTTAAATTA
129 AACTTTAAAACCCTAAACCCTTAACTTAAAAACTATAAACCCTTAAATTA
* * *
7662946 AAAACCCTAAAACCTTAAATCATTAACTTAAAAACTATAACCCTTAAATTAAAAACACTAATCCT
1 AAAACCCTAAAACCTTAAACCCTTAACTTAAAAACTATAACCCTTAAATT-AAAACCCTAA-CCT
* * * * **
7663011 TAACTTTAAAACCCTAAACCCTTAACTTAAAAACTGTAACCCTTAAATTAAAAGACATAACTTTT
64 TAACTTTAAAACCATAAACCCTTAACTTAAAAACTATAACCCTTAAATTAAAAGCCCTAACCCTT
7663076 AACTTTAAAACCCTAAACCCTTAACTTAAAAACTATAAACCCTTAAATTA
129 AACTTTAAAACCCTAAACCCTTAACTTAAAAACTATAAACCCTTAAATTA
* * * *
7663126 AAAACCCTAAAACAC-TAAACCCTTATCTTAAAAACCATAAACCTATAACTTTAAAACCCTAACC
1 AAAACCCTAAAAC-CTTAAACCCTTAACTTAAAAACTATAACCCT-TAA-ATTAAAACCCTAACC
* *
7663190 TTAACTTTAAAACCATATACCCTTAACTTAAAAACCATAACCCTTAAATTAAATA-CCCTAAACC
63 TTAACTTTAAAACCATAAACCCTTAACTTAAAAACTATAACCCTTAAATTAAA-AGCCCT-AACC
* * ** * *
7663254 CTTAACTTTAAAACCGT-AACCCTTAA-ATAAAAACCCCT-AACACTTAATTTA
126 CTTAACTTTAAAACCCTAAACCCTTAACTTAAAAA-CTATAAACCCTTAAATTA
7663305 AAAACCCTAA
1 AAAACCCTAA
7663315 CCCTTAATTT
Statistics
Matches: 457, Mismatches: 60, Indels: 44
0.81 0.11 0.08
Matches are distributed among these distances:
165 5 0.01
166 63 0.14
167 13 0.03
171 42 0.09
172 16 0.04
179 27 0.06
180 253 0.55
181 36 0.08
182 2 0.00
ACGTcount: A:0.46, C:0.25, G:0.02, T:0.27
Consensus pattern (178 bp):
AAAACCCTAAAACCTTAAACCCTTAACTTAAAAACTATAACCCTTAAATTAAAACCCTAACCTTA
ACTTTAAAACCATAAACCCTTAACTTAAAAACTATAACCCTTAAATTAAAAGCCCTAACCCTTAA
CTTTAAAACCCTAAACCCTTAACTTAAAAACTATAAACCCTTAAATTA
Found at i:7663144 original size:52 final size:52
Alignment explanation
Indices: 7663081--7663187 Score: 153
Period size: 52 Copynumber: 2.1 Consensus size: 52
7663071 CTTTTAACTT
* *
7663081 TAAAACCCTAAACCCTTAACTTAAAAACTATAAACCCT-TAAATTAAAAACCC
1 TAAAACACTAAACCCTTAACTTAAAAACCATAAA-CCTATAAATTAAAAACCC
* * *
7663133 TAAAACACTAAACCCTTATCTTAAAAACCATAAACCTATAACTTTAAAACCC
1 TAAAACACTAAACCCTTAACTTAAAAACCATAAACCTATAAATTAAAAACCC
7663185 TAA
1 TAA
7663188 CCTTAACTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
51 3 0.06
52 46 0.94
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (52 bp):
TAAAACACTAAACCCTTAACTTAAAAACCATAAACCTATAAATTAAAAACCC
Found at i:7663252 original size:85 final size:85
Alignment explanation
Indices: 7663143--7663329 Score: 218
Period size: 85 Copynumber: 2.2 Consensus size: 85
7663133 TAAAACACTA
** * * *
7663143 AACCCTTATCTTAAAAACCATAAA-CCTATAACTTTAAAACCCTAA-CCTTAACTTTAAAA-CCA
1 AACCCTTAAATTAAATACCATAAACCCT-TAACTTTAAAACCCTAACCCTTAA-ATAAAAACCCA
*
7663205 TATACCCTTAACTTAAAAACCAT
64 TA-ACACTTAACTTAAAAACCAT
* * *
7663228 AACCCTTAAATTAAATACCCTAAACCCTTAACTTTAAAACCGTAACCCTTAAATAAAAACCCCTA
1 AACCCTTAAATTAAATACCATAAACCCTTAACTTTAAAACCCTAACCCTTAAATAAAAACCCATA
* *
7663293 ACACTTAATTTAAAAACCCT
66 ACACTTAACTTAAAAACCAT
*
7663313 AACCCTTAATTTAAATA
1 AACCCTTAAATTAAATA
7663330 TAATTTGATA
Statistics
Matches: 87, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
85 74 0.85
86 13 0.15
ACGTcount: A:0.45, C:0.27, G:0.01, T:0.28
Consensus pattern (85 bp):
AACCCTTAAATTAAATACCATAAACCCTTAACTTTAAAACCCTAACCCTTAAATAAAAACCCATA
ACACTTAACTTAAAAACCAT
Found at i:7670140 original size:126 final size:125
Alignment explanation
Indices: 7669845--7670543 Score: 938
Period size: 127 Copynumber: 5.5 Consensus size: 125
7669835 CCCAAATATG
* * *
7669845 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCATAAATTCTTCTCATATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
* * * * *
7669910 TAGAAGCG-ATTTTATACTATTTGCTCA-AAACATCTCACATCTCAAAATTATTTTTCCAGGAC
66 TTGAAGCGTTTTTTAAACTATTTGCTCAGAAAC--GTCA-A-CTCGAAATTATTTTTCCAGGAC
* *
7669972 CTACTGTAGCAAAAGCGCGTCCATGAGGGCGCGATTTTACAAATTCTTCTCA-AATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTG
* * * * *
7670036 CTTGCAGCATTGTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAAGAC
65 CTTGAAGCGTT-TTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
* * * * *
7670098 CTACTGTAGCAAAAGCGCGTCCATGTGGGTGCAATTTCACAAACTCTTCTCATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
*
7670163 TTGAAGCGGTTTTTTAAACTATTTGCTCAGAAATGTCAACTCGAAATTATTTCTTCCAGGA-
66 TTGAAGC-GTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAGGAC
* *
7670224 CTAACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATGTCACAAATTCTTCTCATAAAGCATCCTT
1 CT-ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTG
* *
7670289 CTTGAAGCGGTTTTTTAAACTATTTGCTCAAAAATGTCAACTCGAAATTATTTCTTCCAGGAC
65 CTTGAAGC-GTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAGGAC
* * *
7670352 CAATTGTAGCAAAAGCGAGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
* *
7670417 TTGAAGTGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTCCAGGAC
66 TTGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
* * * * * * *
7670477 CTACTGTAGCAAAAGCGCGTACACGTGGGCGCGACTTCAAAAATCCTTCTGATAAATCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
7670542 TT
66 TT
7670544 TGATTTAATC
Statistics
Matches: 512, Mismatches: 51, Indels: 20
0.88 0.09 0.03
Matches are distributed among these distances:
125 66 0.13
126 165 0.32
127 255 0.50
128 4 0.01
129 18 0.04
130 4 0.01
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
TTGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
Found at i:7670313 original size:253 final size:251
Alignment explanation
Indices: 7669845--7670543 Score: 958
Period size: 253 Copynumber: 2.8 Consensus size: 251
7669835 CCCAAATATG
* *
7669845 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCATAAATTCTTCTCATATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
* * * * *
7669910 TAGAAGCG-ATTTTATACTATTTGCTCAAAACATCTCACATCTCAAAATTATTTTTCCAGGACCT
66 TTGAAGCGTTTTTTAAACTATTTGCTCAGAA-ATGTCA-A-CTCAAAATTATTTTTCCAGGACCT
* *
7669974 ACTGTAGCAAAAGCGCGTCCATGAGGGCGCGATTTTACAAATTCTTCTCA-AATAGCATCCTGCT
128 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGA-TTCACAAATTCTTCTCATAA-AGCATCCTGCT
* * * *
7670038 TGCAGCATTGTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTTCAAGAC
191 TGAAGCATTGTTTTAAACTATTTGCTCAAAAACGTCAACTCGAAATTATTTCTTCCAAGAC
* * * *
7670098 CTACTGTAGCAAAAGCGCGTCCATGTGGGTGCAATTTCACAAACTCTTCTCATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
*
7670163 TTGAAGCGGTTTTTTAAACTATTTGCTCAGAAATGTCAACTCGAAATTATTTCTTCCAGGA-CTA
66 TTGAAGC-GTTTTTTAAACTATTTGCTCAGAAATGTCAACTCAAAATTATTT-TTCCAGGACCT-
*
7670227 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATGTCACAAATTCTTCTCATAAAGCATCCTTCTT
128 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGAT-TCACAAATTCTTCTCATAAAGCATCCTGCTT
* * *
7670292 GAAGCGGTT-TTTTAAACTATTTGCTCAAAAATGTCAACTCGAAATTATTTCTTCCAGGAC
192 GAAGC-ATTGTTTTAAACTATTTGCTCAAAAACGTCAACTCGAAATTATTTCTTCCAAGAC
* * * *
7670352 CAATTGTAGCAAAAGCGAGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
* *
7670417 TTGAAGTGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTCCAGGACCTACT
66 TTGAAGCGTTTTTTAAACTATTTGCTCAGAAATGTCAACTCAAAATTATTTTTCCAGGACCTACT
* * * * * *
7670482 GTAGCAAAAGCGCGTACACGTGGGCGCGACTTCAAAAATCCTTCTGATAAATCATCCTGCTT
131 GTAGCAAAAGCGCGTCCACGAGGGCGCGA-TTCACAAATTCTTCTCATAAAGCATCCTGCTT
7670544 TGATTTAATC
Statistics
Matches: 396, Mismatches: 40, Indels: 21
0.87 0.09 0.05
Matches are distributed among these distances:
252 79 0.20
253 218 0.55
254 80 0.20
255 19 0.05
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (251 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
TTGAAGCGTTTTTTAAACTATTTGCTCAGAAATGTCAACTCAAAATTATTTTTCCAGGACCTACT
GTAGCAAAAGCGCGTCCACGAGGGCGCGATTCACAAATTCTTCTCATAAAGCATCCTGCTTGAAG
CATTGTTTTAAACTATTTGCTCAAAAACGTCAACTCGAAATTATTTCTTCCAAGAC
Found at i:7670684 original size:18 final size:18
Alignment explanation
Indices: 7670657--7670691 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
7670647 ACTTTTTCCC
*
7670657 TAAAACCCCTAAAAATCT
1 TAAAAACCCTAAAAATCT
7670675 TAAAAACCCTAAAAATC
1 TAAAAACCCTAAAAATC
7670692 CTAACCTGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.26, G:0.00, T:0.20
Consensus pattern (18 bp):
TAAAAACCCTAAAAATCT
Found at i:7672405 original size:53 final size:53
Alignment explanation
Indices: 7672345--7672453 Score: 218
Period size: 53 Copynumber: 2.1 Consensus size: 53
7672335 AACAACTACC
7672345 TGTCAAACATAATATATTAGTTAATAACTAAATTGTTATCAATTTCATTAGCA
1 TGTCAAACATAATATATTAGTTAATAACTAAATTGTTATCAATTTCATTAGCA
7672398 TGTCAAACATAATATATTAGTTAATAACTAAATTGTTATCAATTTCATTAGCA
1 TGTCAAACATAATATATTAGTTAATAACTAAATTGTTATCAATTTCATTAGCA
7672451 TGT
1 TGT
7672454 ATATACCGTG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 56 1.00
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.40
Consensus pattern (53 bp):
TGTCAAACATAATATATTAGTTAATAACTAAATTGTTATCAATTTCATTAGCA
Found at i:7674174 original size:14 final size:14
Alignment explanation
Indices: 7674155--7674184 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
7674145 GAATCAAATT
*
7674155 AATAAAATAATTAC
1 AATAAAACAATTAC
7674169 AATAAAACAATTAC
1 AATAAAACAATTAC
7674183 AA
1 AA
7674185 GTCAAAATAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (14 bp):
AATAAAACAATTAC
Found at i:7677893 original size:20 final size:20
Alignment explanation
Indices: 7677857--7677895 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
7677847 TAAATTTCTA
*
7677857 ATATAAAATATTCATCAATT
1 ATATAAAATACTCATCAATT
*
7677877 ATATAAAATACTGATCAAT
1 ATATAAAATACTCATCAAT
7677896 AAACTTCACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.51, C:0.10, G:0.03, T:0.36
Consensus pattern (20 bp):
ATATAAAATACTCATCAATT
Found at i:7680766 original size:31 final size:32
Alignment explanation
Indices: 7680728--7680787 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 32
7680718 TTTGTTTCTC
7680728 TCCTGTTTCAACCTTCATTGCTG-CACTACAG
1 TCCTGTTTCAACCTTCATTGCTGTCACTACAG
* *
7680759 TCCTGTTTTAGCCTTCATTGCTGTCACTA
1 TCCTGTTTCAACCTTCATTGCTGTCACTA
7680788 TAGTAATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 21 0.81
32 5 0.19
ACGTcount: A:0.17, C:0.30, G:0.13, T:0.40
Consensus pattern (32 bp):
TCCTGTTTCAACCTTCATTGCTGTCACTACAG
Found at i:7683347 original size:16 final size:16
Alignment explanation
Indices: 7683326--7683363 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
7683316 TGAGAATATG
7683326 ATTTACTCAAAAACCA
1 ATTTACTCAAAAACCA
*
7683342 ATTTACTCAAAAACTA
1 ATTTACTCAAAAACCA
7683358 ATTTAC
1 ATTTAC
7683364 GTGAAACCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (16 bp):
ATTTACTCAAAAACCA
Found at i:7687240 original size:15 final size:15
Alignment explanation
Indices: 7687220--7687262 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
7687210 ACAAATGCTA
*
7687220 GCATTTTGAAATGAT
1 GCATTTTAAAATGAT
7687235 GCATTTTAAAATGACT
1 GCATTTTAAAATGA-T
* *
7687251 TCATTTCAAAAT
1 GCATTTTAAAAT
7687263 TCTTCAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 13 0.54
16 11 0.46
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.40
Consensus pattern (15 bp):
GCATTTTAAAATGAT
Found at i:7695436 original size:30 final size:30
Alignment explanation
Indices: 7695357--7695436 Score: 101
Period size: 28 Copynumber: 2.7 Consensus size: 30
7695347 TATGTAAAAG
* *
7695357 TATGAGTCATAAAATTAAATTTGTTTGTTA
1 TATGAGTCATAAAAATAAATTTGTTTATTA
*
7695387 TA--AGTCAAAAAAATAAATTTGTTTATTA
1 TATGAGTCATAAAAATAAATTTGTTTATTA
* *
7695415 TATGAATCATAAAAGTAAATTT
1 TATGAGTCATAAAAATAAATTT
7695437 ATTAATTTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
28 25 0.60
30 17 0.40
ACGTcount: A:0.45, C:0.04, G:0.10, T:0.41
Consensus pattern (30 bp):
TATGAGTCATAAAAATAAATTTGTTTATTA
Found at i:7697422 original size:20 final size:20
Alignment explanation
Indices: 7697387--7697431 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
7697377 TCTCTCTCAA
* * *
7697387 CAAAAAAATTATAAAATTTT
1 CAAAAAAAATAAAAAAATTT
7697407 CAAAAAAAATAAAAAAATTT
1 CAAAAAAAATAAAAAAATTT
7697427 -AAAAA
1 CAAAAA
7697432 TTTTCTAGAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.24
Consensus pattern (20 bp):
CAAAAAAAATAAAAAAATTT
Found at i:7697654 original size:26 final size:26
Alignment explanation
Indices: 7697623--7697676 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
7697613 TTTAACTCAC
* * *
7697623 AATTTCATTTGATTCGACTTGACTCG
1 AATTTCATTTCACTCGACTCGACTCG
*
7697649 AATTTCATTTCACTCGACTCGATTCG
1 AATTTCATTTCACTCGACTCGACTCG
7697675 AA
1 AA
7697677 AAAATTTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.39
Consensus pattern (26 bp):
AATTTCATTTCACTCGACTCGACTCG
Found at i:7698539 original size:21 final size:21
Alignment explanation
Indices: 7698493--7698542 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
7698483 CGTTGTTTTT
*
7698493 AATCTCACTGTTATAGTATCC
1 AATCTCACTGTTACAGTATCC
* *
7698514 TATCTCATTGTTACAGTAAT-C
1 AATCTCACTGTTACAGT-ATCC
7698535 AATCTCAC
1 AATCTCAC
7698543 CATCACCGTT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.38
Consensus pattern (21 bp):
AATCTCACTGTTACAGTATCC
Found at i:7699231 original size:17 final size:18
Alignment explanation
Indices: 7699192--7699231 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
7699182 AATTAGATCA
*
7699192 ATTTATATTTTATATATC
1 ATTTATATTTTAAATATC
7699210 A-TTATA-TTTAAATATC
1 ATTTATATTTTAAATATC
7699226 ATTTAT
1 ATTTAT
7699232 CATTACATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 10 0.50
17 9 0.45
18 1 0.05
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTTATATTTTAAATATC
Found at i:7700168 original size:27 final size:27
Alignment explanation
Indices: 7700112--7700168 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
7700102 CAAGTGAAGA
* * *
7700112 TTCGTCAGTGTTTCGGCAAGCAAGGTG
1 TTCGTCAGTGCTTCAGCAAGCAAGGAG
*
7700139 TTCGTCAGTGCTTCAGCGAA-CTAGGAG
1 TTCGTCAGTGCTTCAGC-AAGCAAGGAG
7700166 TTC
1 TTC
7700169 ACCAAATGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
27 23 0.92
28 2 0.08
ACGTcount: A:0.19, C:0.21, G:0.30, T:0.30
Consensus pattern (27 bp):
TTCGTCAGTGCTTCAGCAAGCAAGGAG
Found at i:7700264 original size:12 final size:13
Alignment explanation
Indices: 7700249--7700278 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
7700239 AAGTTCGCCA
7700249 AAAGAGTTT-AGT
1 AAAGAGTTTCAGT
7700261 AAAGAGTTTCAGT
1 AAAGAGTTTCAGT
7700274 AAAGA
1 AAAGA
7700279 TCAGTAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.53
13 8 0.47
ACGTcount: A:0.47, C:0.03, G:0.23, T:0.27
Consensus pattern (13 bp):
AAAGAGTTTCAGT
Found at i:7700425 original size:27 final size:27
Alignment explanation
Indices: 7700370--7700425 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
7700360 TTCGTTGGTT
** *
7700370 AAGTTGGGAAATGGGGGTTTGCCAGTC
1 AAGTTGGGAAATGGGGGTTCACCAATC
* *
7700397 AAGTTGTGAACTGGGGGTTCACCAATC
1 AAGTTGGGAAATGGGGGTTCACCAATC
7700424 AA
1 AA
7700426 ATTCAAAGGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.27, C:0.14, G:0.34, T:0.25
Consensus pattern (27 bp):
AAGTTGGGAAATGGGGGTTCACCAATC
Found at i:7707081 original size:28 final size:28
Alignment explanation
Indices: 7707040--7707101 Score: 115
Period size: 28 Copynumber: 2.2 Consensus size: 28
7707030 TACAGAAAGT
7707040 AGAACGTCGGTAATGATAATATATGGCAA
1 AGAA-GTCGGTAATGATAATATATGGCAA
7707069 AGAAGTCGGTAATGATAATATATGGCAA
1 AGAAGTCGGTAATGATAATATATGGCAA
7707097 AGAAG
1 AGAAG
7707102 ATAGAAATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 29 0.88
29 4 0.12
ACGTcount: A:0.44, C:0.08, G:0.26, T:0.23
Consensus pattern (28 bp):
AGAAGTCGGTAATGATAATATATGGCAA
Found at i:7707116 original size:28 final size:28
Alignment explanation
Indices: 7707057--7707116 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
7707047 CGGTAATGAT
* * * *
7707057 AATATATGGCAAAGAAGTCGGTAATGAT
1 AATATATGGCAAAGAAGTCAGAAATAAA
7707085 AATATATGGCAAAGAAGAT-AGAAATAAA
1 AATATATGGCAAAGAAG-TCAGAAATAAA
7707113 AATA
1 AATA
7707117 AATAATATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 26 0.96
29 1 0.04
ACGTcount: A:0.53, C:0.05, G:0.20, T:0.22
Consensus pattern (28 bp):
AATATATGGCAAAGAAGTCAGAAATAAA
Found at i:7716222 original size:52 final size:52
Alignment explanation
Indices: 7716144--7716244 Score: 193
Period size: 52 Copynumber: 1.9 Consensus size: 52
7716134 CATGGCTGTT
*
7716144 AGGTCTCAAGATTTAATCTCTCTAAATAGAACTTTGACTACTAACTTGCGTC
1 AGGTCTCAAGATTTAATCTCTCTAAATAGAACTTTAACTACTAACTTGCGTC
7716196 AGGTCTCAAGATTTAATCTCTCTAAATAGAACTTTAACTACTAACTTGC
1 AGGTCTCAAGATTTAATCTCTCTAAATAGAACTTTAACTACTAACTTGC
7716245 AAAGTCTTAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.35
Consensus pattern (52 bp):
AGGTCTCAAGATTTAATCTCTCTAAATAGAACTTTAACTACTAACTTGCGTC
Found at i:7734706 original size:46 final size:46
Alignment explanation
Indices: 7734639--7734728 Score: 153
Period size: 46 Copynumber: 2.0 Consensus size: 46
7734629 ACAATGCTTT
*
7734639 AACTCAGTATGGTTTCCTTCACTGAAACACCATACCTACTTTTCGC
1 AACTCAGTATGGTTTCCTTCACCGAAACACCATACCTACTTTTCGC
* *
7734685 AACTCAGTATGGTTTTCTTCACCGAAGCACCATACCTACTTTTC
1 AACTCAGTATGGTTTCCTTCACCGAAACACCATACCTACTTTTC
7734729 ACAATTTACC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (46 bp):
AACTCAGTATGGTTTCCTTCACCGAAACACCATACCTACTTTTCGC
Found at i:7735191 original size:12 final size:12
Alignment explanation
Indices: 7735174--7735198 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7735164 CTTATTTCTC
7735174 CTGATTTTCTTG
1 CTGATTTTCTTG
7735186 CTGATTTTCTTG
1 CTGATTTTCTTG
7735198 C
1 C
7735199 CCAAACCGTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.20, G:0.16, T:0.56
Consensus pattern (12 bp):
CTGATTTTCTTG
Found at i:7735499 original size:17 final size:17
Alignment explanation
Indices: 7735477--7735513 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
7735467 AAATTCTTTT
7735477 TAAATCACAAAATTCAC
1 TAAATCACAAAATTCAC
7735494 TAAATCACAAAATTCAC
1 TAAATCACAAAATTCAC
7735511 TAA
1 TAA
7735514 TTCAAAAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.54, C:0.22, G:0.00, T:0.24
Consensus pattern (17 bp):
TAAATCACAAAATTCAC
Found at i:7740600 original size:44 final size:44
Alignment explanation
Indices: 7740528--7740664 Score: 175
Period size: 49 Copynumber: 3.0 Consensus size: 44
7740518 TCGTAAATAA
* * **
7740528 GTAATTGGGTTTGAAATTGGGTTGGAGACTCAAAACTTACTTTT
1 GTAATTGAGTTTGAAATTAGGTACGAGACTCAAAACTTACTTTT
*
7740572 GTAATTGAGTTTGAAATTAGATACGAGACTCAAAACTTACAAAACTTTT
1 GTAATTGAGTTTGAAATTAGGTACGAGACTCAAAACTT-----ACTTTT
*
7740621 GTAATTGAGTTTGAAATTAGGTACGAGACTCAAAACTTAATTTT
1 GTAATTGAGTTTGAAATTAGGTACGAGACTCAAAACTTACTTTT
7740665 CACGAGGTGA
Statistics
Matches: 81, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
44 38 0.47
49 43 0.53
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.36
Consensus pattern (44 bp):
GTAATTGAGTTTGAAATTAGGTACGAGACTCAAAACTTACTTTT
Found at i:7740633 original size:49 final size:49
Alignment explanation
Indices: 7740566--7740659 Score: 179
Period size: 49 Copynumber: 1.9 Consensus size: 49
7740556 CTCAAAACTT
7740566 ACTTTTGTAATTGAGTTTGAAATTAGATACGAGACTCAAAACTTACAAA
1 ACTTTTGTAATTGAGTTTGAAATTAGATACGAGACTCAAAACTTACAAA
*
7740615 ACTTTTGTAATTGAGTTTGAAATTAGGTACGAGACTCAAAACTTA
1 ACTTTTGTAATTGAGTTTGAAATTAGATACGAGACTCAAAACTTA
7740660 ATTTTCACGA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (49 bp):
ACTTTTGTAATTGAGTTTGAAATTAGATACGAGACTCAAAACTTACAAA
Found at i:7742498 original size:2 final size:2
Alignment explanation
Indices: 7742491--7742516 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7742481 ATTGAATTCA
7742491 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
7742517 GATTCGAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7742801 original size:17 final size:18
Alignment explanation
Indices: 7742779--7742829 Score: 61
Period size: 17 Copynumber: 2.8 Consensus size: 18
7742769 AATCTTAGAG
7742779 TTCTAATTGTATACAG-C
1 TTCTAATTGTATACAGAC
*
7742796 TTCTAATTGTAT-CTTAGAG
1 TTCTAATTGTATAC--AGAC
7742815 TTCTAATTGTATACA
1 TTCTAATTGTATACA
7742830 NNNNNNNNNN
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
16 1 0.03
17 12 0.41
18 3 0.10
19 12 0.41
20 1 0.03
ACGTcount: A:0.29, C:0.14, G:0.12, T:0.45
Consensus pattern (18 bp):
TTCTAATTGTATACAGAC
Found at i:7742820 original size:19 final size:19
Alignment explanation
Indices: 7742770--7742826 Score: 75
Period size: 19 Copynumber: 3.1 Consensus size: 19
7742760 TGATTATGTA
7742770 ATCTTAGAGTTCTAATTGT
1 ATCTTAGAGTTCTAATTGT
*
7742789 ATAC--AG-CTTCTAATTGT
1 AT-CTTAGAGTTCTAATTGT
7742806 ATCTTAGAGTTCTAATTGT
1 ATCTTAGAGTTCTAATTGT
7742825 AT
1 AT
7742827 ACANNNNNNN
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
16 1 0.03
17 12 0.38
18 4 0.12
19 14 0.44
20 1 0.03
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.46
Consensus pattern (19 bp):
ATCTTAGAGTTCTAATTGT
Found at i:7743105 original size:49 final size:48
Alignment explanation
Indices: 7743033--7743129 Score: 158
Period size: 49 Copynumber: 2.0 Consensus size: 48
7743023 TGAGGGAATT
* *
7743033 CTGTTGAATCCTTTATCATTGCGAGATTAAGCTGACTTAGGTGTTTTTA
1 CTGTTGAATCCGTTATCATTGCGAG-TTAAGCTGACTTAGGCGTTTTTA
*
7743082 CTGTTGAATCCGTTATCATTGCGAGTTAGGCTGACTTAGGCGTTTTTA
1 CTGTTGAATCCGTTATCATTGCGAGTTAAGCTGACTTAGGCGTTTTTA
7743130 AGCAAAGAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
48 21 0.47
49 24 0.53
ACGTcount: A:0.21, C:0.15, G:0.23, T:0.41
Consensus pattern (48 bp):
CTGTTGAATCCGTTATCATTGCGAGTTAAGCTGACTTAGGCGTTTTTA
Found at i:7746065 original size:40 final size:41
Alignment explanation
Indices: 7745972--7746066 Score: 138
Period size: 41 Copynumber: 2.3 Consensus size: 41
7745962 TCTCGGTTTC
* * *
7745972 GCACACTTAGTGCCCGTTATTTAACATCATTATTTAATTTT
1 GCACACTTAGTGCTCGTTATTCAACATCATCATTTAATTTT
* *
7746013 GCATACTTAGTGCTCGTTATTCAACCTCATCATTTAA-TTT
1 GCACACTTAGTGCTCGTTATTCAACATCATCATTTAATTTT
7746053 GCACACTTAGTGCT
1 GCACACTTAGTGCT
7746067 AATCATATAG
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
40 16 0.33
41 32 0.67
ACGTcount: A:0.25, C:0.22, G:0.12, T:0.41
Consensus pattern (41 bp):
GCACACTTAGTGCTCGTTATTCAACATCATCATTTAATTTT
Found at i:7749012 original size:20 final size:18
Alignment explanation
Indices: 7748988--7749039 Score: 54
Period size: 20 Copynumber: 2.8 Consensus size: 18
7748978 TATAATATTT
7748988 TATTAATTTAATATTAAA
1 TATTAATTTAATATTAAA
*
7749006 GTGATT-ATCTTAATTTTAAA
1 -T-ATTAAT-TTAATATTAAA
7749026 T-TTAATTTAATATT
1 TATTAATTTAATATT
7749040 TATCTTGTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
17 9 0.32
18 2 0.07
19 4 0.14
20 13 0.46
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (18 bp):
TATTAATTTAATATTAAA
Found at i:7749080 original size:61 final size:58
Alignment explanation
Indices: 7749015--7749130 Score: 169
Period size: 61 Copynumber: 1.9 Consensus size: 58
7749005 AGTGATTATC
* * *
7749015 TTAATTTTAAATTTAATTTAATATTTATCTTGTAGATAAATATTCTATTAATTTAATAGAT
1 TTAATATTAAATTTAATCTAATATTTATC-T-T-GATAAATATTATATTAATTTAATAGAT
*
7749076 TTAATATTAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAATTTAATA
1 TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATA
7749131 TTGAAGTGAT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
58 22 0.43
59 1 0.02
60 1 0.02
61 27 0.53
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.52
Consensus pattern (58 bp):
TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATAGAT
Found at i:7749143 original size:58 final size:60
Alignment explanation
Indices: 7749021--7749150 Score: 160
Period size: 58 Copynumber: 2.2 Consensus size: 60
7749011 TATCTTAATT
* * *
7749021 TTAAATTTAATTTAATATTTATCTTGTAGATAAATATTCTATTAATTTAATAGATTTAATA
1 TTAAATTTAATCTAATATTTATCTTGTAGATAAATATTATATTAATTTAATA-ATTGAATA
*
7749082 TTAAATTTAATCTAATATTTATC-T-T-GATAAGTATTATATTAATTTAAT-ATTGAAGTGA
1 TTAAATTTAATCTAATATTTATCTTGTAGATAAATATTATATTAATTTAATAATTGAA-T-A
*
7749140 TTAAGTTTAAT
1 TTAAATTTAAT
7749151 TATAGTTGAA
Statistics
Matches: 62, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
56 5 0.08
57 1 0.02
58 32 0.52
59 1 0.02
60 1 0.02
61 22 0.35
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.50
Consensus pattern (60 bp):
TTAAATTTAATCTAATATTTATCTTGTAGATAAATATTATATTAATTTAATAATTGAATA
Found at i:7749268 original size:26 final size:25
Alignment explanation
Indices: 7749239--7749290 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 25
7749229 AGTTGTAGAG
7749239 AGAAAATTTTCTAAAGA-AATTATTTT
1 AGAAAATTTT-TAAAGATAATT-TTTT
* *
7749265 AGAAGATTTTTAGAGATAATTTTTT
1 AGAAAATTTTTAAAGATAATTTTTT
7749290 A
1 A
7749291 TTTAAAACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.42, C:0.02, G:0.12, T:0.44
Consensus pattern (25 bp):
AGAAAATTTTTAAAGATAATTTTTT
Found at i:7752663 original size:6 final size:6
Alignment explanation
Indices: 7752654--7752719 Score: 51
Period size: 6 Copynumber: 10.5 Consensus size: 6
7752644 TAAGTCTAAG
* * * *
7752654 AAAATA AAAATA AAGCAACTA AAAACA AAAACA AAAACA AAAATA AAGATA
1 AAAATA AAAATA AA--AA-TA AAAATA AAAATA AAAATA AAAATA AAAATA
* *
7752705 AAAAGA AAAAGA AAA
1 AAAATA AAAATA AAA
7752720 GAAATAAACT
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
6 44 0.85
7 2 0.04
8 2 0.04
9 4 0.08
ACGTcount: A:0.79, C:0.08, G:0.06, T:0.08
Consensus pattern (6 bp):
AAAATA
Found at i:7752827 original size:19 final size:20
Alignment explanation
Indices: 7752785--7752831 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
7752775 AAAAATACTA
7752785 AAAATAAAAGAAATATAACT
1 AAAATAAAAGAAATATAACT
* *
7752805 -AAATGAAAGAAATA-AATT
1 AAAATAAAAGAAATATAACT
7752823 AAAATAAAA
1 AAAATAAAA
7752832 TTAATATCTA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 3 0.13
19 20 0.87
ACGTcount: A:0.72, C:0.02, G:0.06, T:0.19
Consensus pattern (20 bp):
AAAATAAAAGAAATATAACT
Found at i:7752871 original size:4 final size:4
Alignment explanation
Indices: 7752862--7752953 Score: 63
Period size: 4 Copynumber: 23.8 Consensus size: 4
7752852 TAATAAAACA
* * * *
7752862 AAAT AAAT AAAT AAAT -CAT CAAAA AAAT CAGT AAA- ATAAT -AAT AAAT
1 AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AAAT AAAT A-AAT AAAT AAAT
7752909 -AAT ATAAT AAAT -AAT AAA- AAAT AAAT AAAT AAA- AAAT AAAAT AAA
1 AAAT A-AAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AAA
7752954 GAAAAGGGTA
Statistics
Matches: 69, Mismatches: 8, Indels: 22
0.70 0.08 0.22
Matches are distributed among these distances:
3 18 0.26
4 42 0.61
5 9 0.13
ACGTcount: A:0.73, C:0.03, G:0.01, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:7752923 original size:22 final size:22
Alignment explanation
Indices: 7752853--7752949 Score: 85
Period size: 22 Copynumber: 4.5 Consensus size: 22
7752843 GCATAAGAAT
7752853 AATAA-AACAAAATAAATAAATA
1 AATAATAA-AAAATAAATAAATA
* * * *
7752875 AATCAT-CAAAA-AAATCAGTAA
1 AATAATAAAAAATAAATAAAT-A
*
7752896 AATAATAATAAAT-AATATAATA
1 AATAATAAAAAATAAATA-AATA
7752918 AATAATAAAAAATAAATAAATA
1 AATAATAAAAAATAAATAAATA
*
7752940 AAAAATAAAA
1 AATAATAAAA
7752950 TAAAGAAAAG
Statistics
Matches: 58, Mismatches: 11, Indels: 12
0.72 0.14 0.15
Matches are distributed among these distances:
20 6 0.10
21 10 0.17
22 36 0.62
23 6 0.10
ACGTcount: A:0.73, C:0.04, G:0.01, T:0.22
Consensus pattern (22 bp):
AATAATAAAAAATAAATAAATA
Found at i:7752941 original size:15 final size:15
Alignment explanation
Indices: 7752866--7752958 Score: 75
Period size: 15 Copynumber: 6.1 Consensus size: 15
7752856 AAAACAAAAT
*
7752866 AAATAAATAAATCATCA
1 AAATAAATAAAT-A-AA
* *
7752883 AAA-AAATCAGTAAA
1 AAATAAATAAATAAA
7752897 ATAAT-AATAAATAATA
1 A-AATAAATAAATAA-A
*
7752913 TAATAAAT-AATAAA
1 AAATAAATAAATAAA
7752927 AAATAAATAAATAAA
1 AAATAAATAAATAAA
*
7752942 AAATAAAATAAAGAAA
1 AAAT-AAATAAATAAA
7752958 A
1 A
7752959 GGGTAAAAAG
Statistics
Matches: 62, Mismatches: 8, Indels: 13
0.75 0.10 0.16
Matches are distributed among these distances:
14 10 0.16
15 28 0.45
16 21 0.34
17 3 0.05
ACGTcount: A:0.73, C:0.03, G:0.02, T:0.22
Consensus pattern (15 bp):
AAATAAATAAATAAA
Found at i:7752949 original size:7 final size:7
Alignment explanation
Indices: 7752893--7752949 Score: 60
Period size: 7 Copynumber: 7.7 Consensus size: 7
7752883 AAAAAATCAG
7752893 TAAAATAA
1 TAAAA-AA
*
7752901 TAATAAA
1 TAAAAAA
*
7752908 TAATATAA
1 TAA-AAAA
*
7752916 TAAATAA
1 TAAAAAA
7752923 TAAAAAA
1 TAAAAAA
7752930 TAAATAAA
1 TAAA-AAA
7752938 TAAAAAA
1 TAAAAAA
7752945 TAAAA
1 TAAAA
7752950 TAAAGAAAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
7 27 0.63
8 16 0.37
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (7 bp):
TAAAAAA
Found at i:7753038 original size:19 final size:18
Alignment explanation
Indices: 7753005--7753040 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
7752995 GGGTTACGAC
7753005 GGAGGGTCGTATGTGGGA
1 GGAGGGTCGTATGTGGGA
*
7753023 GGAGGTGTCGTGTGTGGG
1 GGAGG-GTCGTATGTGGG
7753041 TGGGGGCGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.11, C:0.06, G:0.58, T:0.25
Consensus pattern (18 bp):
GGAGGGTCGTATGTGGGA
Found at i:7756165 original size:102 final size:102
Alignment explanation
Indices: 7755989--7756191 Score: 361
Period size: 102 Copynumber: 2.0 Consensus size: 102
7755979 ACCGTAGGCG
* *
7755989 AATGGTGTCGTCAGTGACGCCATTAATTTTGAAAGTATCATAGATTTCTAAAAAATTAGCCAAAT
1 AATGGTGTCATCAGTGACGCCATTAATTTTGAAAGTATCATAGATTTCTAAAAAAATAGCCAAAT
7756054 GAGTATTTGGATCTTCGTCTTGCAAACCATCGAACTA
66 GAGTATTTGGATCTTCGTCTTGCAAACCATCGAACTA
* *
7756091 AATGGTGTCATTAGTGACGCCATTAATTTTGAAAGTATCGTAGATTTCTAAAAAAATAGCCAAAT
1 AATGGTGTCATCAGTGACGCCATTAATTTTGAAAGTATCATAGATTTCTAAAAAAATAGCCAAAT
*
7756156 GAGTATTTGGATCTTCTTCTTGCAAACCATCGAACT
66 GAGTATTTGGATCTTCGTCTTGCAAACCATCGAACT
7756192 GAACAAAATG
Statistics
Matches: 96, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
102 96 1.00
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Consensus pattern (102 bp):
AATGGTGTCATCAGTGACGCCATTAATTTTGAAAGTATCATAGATTTCTAAAAAAATAGCCAAAT
GAGTATTTGGATCTTCGTCTTGCAAACCATCGAACTA
Found at i:7756585 original size:11 final size:11
Alignment explanation
Indices: 7756564--7756601 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
7756554 AATTAGAATG
*
7756564 TAAAAATTAAAC
1 TAAAAA-TAAAA
7756576 TAAAAATAAAA
1 TAAAAATAAAA
7756587 T-AAAATAAAA
1 TAAAAATAAAA
7756597 TAAAA
1 TAAAA
7756602 TGCTAAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
10 10 0.42
11 8 0.33
12 6 0.25
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (11 bp):
TAAAAATAAAA
Found at i:7756586 original size:5 final size:5
Alignment explanation
Indices: 7756578--7756602 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
7756568 AATTAAACTA
7756578 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
7756603 GCTAAATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:7773245 original size:7 final size:7
Alignment explanation
Indices: 7773233--7773257 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
7773223 CGATTATTGG
7773233 ATTTGTA
1 ATTTGTA
7773240 ATTTGTA
1 ATTTGTA
7773247 ATTTGTA
1 ATTTGTA
7773254 ATTT
1 ATTT
7773258 TTTATTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
ATTTGTA
Found at i:7773824 original size:19 final size:19
Alignment explanation
Indices: 7773781--7773830 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 19
7773771 AATTTATTTG
7773781 AATTTTAATTTTAATATAT
1 AATTTTAATTTTAATATAT
*
7773800 -ATTTTTATCTTTAAT-TGAT
1 AATTTTAAT-TTTAATAT-AT
7773819 AATTTTTAATTT
1 AA-TTTTAATTT
7773831 AACTCAAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
18 8 0.32
19 8 0.32
20 3 0.12
21 6 0.24
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (19 bp):
AATTTTAATTTTAATATAT
Found at i:7777963 original size:61 final size:61
Alignment explanation
Indices: 7777868--7777991 Score: 169
Period size: 61 Copynumber: 2.0 Consensus size: 61
7777858 CTCCACCTTA
* * ** * *
7777868 AAATTTTCTTTTACCAAATTTGGTTGGCTAGCTTTAATACAATA-TGAAGTGTTCCGGTCGC
1 AAATTTTCTTTTACCAAAATTGGGTACCTAGCTTTAATACAA-AGTGAAGTGGTCCGATCGC
*
7777929 AAATTTTCTTTTACCAAAATTGGGTACCTAGCTTTAATATAAAGTGAAGTGGTCCGATCGC
1 AAATTTTCTTTTACCAAAATTGGGTACCTAGCTTTAATACAAAGTGAAGTGGTCCGATCGC
7777990 AA
1 AA
7777992 GGTTCTTGAA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
60 1 0.02
61 54 0.98
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (61 bp):
AAATTTTCTTTTACCAAAATTGGGTACCTAGCTTTAATACAAAGTGAAGTGGTCCGATCGC
Found at i:7788581 original size:23 final size:23
Alignment explanation
Indices: 7788555--7788604 Score: 75
Period size: 24 Copynumber: 2.2 Consensus size: 23
7788545 ACAAATATGT
*
7788555 TAAATTT-AAATAATGATACATA
1 TAAATTTCAAATAATAATACATA
7788577 GTAAATTTCAAATAATAATACATA
1 -TAAATTTCAAATAATAATACATA
7788601 TAAA
1 TAAA
7788605 AACTTAAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 11 0.44
24 14 0.56
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.34
Consensus pattern (23 bp):
TAAATTTCAAATAATAATACATA
Found at i:7791134 original size:21 final size:21
Alignment explanation
Indices: 7791108--7791149 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
7791098 AGGACAAAAA
* *
7791108 AATGTTCTTTTTTTGTTTTTT
1 AATGTTATTTTCTTGTTTTTT
7791129 AATGTTATTTTCTTGTTTTTT
1 AATGTTATTTTCTTGTTTTTT
7791150 TCCCCTATTT
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:0.12, C:0.05, G:0.10, T:0.74
Consensus pattern (21 bp):
AATGTTATTTTCTTGTTTTTT
Found at i:7791264 original size:29 final size:30
Alignment explanation
Indices: 7791231--7791294 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 30
7791221 ACTTATTTTA
7791231 TTGTTAATTTTGTTATTA-TTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
*
7791260 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
7791290 TTGTT
1 TTGTT
7791295 TGTTAAGTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 18 0.55
30 15 0.45
ACGTcount: A:0.23, C:0.03, G:0.16, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:7795898 original size:38 final size:36
Alignment explanation
Indices: 7795845--7796011 Score: 113
Period size: 38 Copynumber: 4.4 Consensus size: 36
7795835 TTTGAAAATT
* *
7795845 TTATCAGATCATATTTTTTTAAAATATGTTTTCAAAAA
1 TTATCAGTTCTTA-TTTTTTAAAATAT-TTTTCAAAAA
*
7795883 TTATCAGTTCTTATTTTTTATTAATATTTTT-ATAAAA
1 TTATCAGTTCTTATTTTTTA-AAATATTTTTCA-AAAA
* * * * *
7795920 TTTATCAATT-TGTAAATTTTTAAAATATTTTTTAGAAT
1 -TTATCAGTTCT-T-ATTTTTTAAAATATTTTTCAAAAA
* * * * *
7795958 TTTTTAGTTTTTATTTTTTAAAACTCTTTCTTCAAAAT
1 TTATCAGTTCTTATTTTTTAAAA-TATTT-TTCAAAAA
*
7795996 TTATCTGTTCTTATTT
1 TTATCAGTTCTTATTT
7796012 GATTTTTAAT
Statistics
Matches: 101, Mismatches: 19, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
36 11 0.11
37 27 0.27
38 55 0.54
39 8 0.08
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.57
Consensus pattern (36 bp):
TTATCAGTTCTTATTTTTTAAAATATTTTTCAAAAA
Found at i:7797156 original size:16 final size:16
Alignment explanation
Indices: 7797135--7797176 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
7797125 AACAATTTGA
*
7797135 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
7797151 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
7797167 TAGTTTTAAT
1 TAATTTTAAT
7797177 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:7798318 original size:22 final size:22
Alignment explanation
Indices: 7798293--7798337 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
7798283 ATTCATGTTA
* *
7798293 TTTTTTGTATTTATATATCAAT
1 TTTTTTGTATCTATAAATCAAT
*
7798315 TTTTTTGTCTCTATAAATCAAT
1 TTTTTTGTATCTATAAATCAAT
7798337 T
1 T
7798338 ATTTATCTGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.27, C:0.09, G:0.04, T:0.60
Consensus pattern (22 bp):
TTTTTTGTATCTATAAATCAAT
Found at i:7802008 original size:52 final size:53
Alignment explanation
Indices: 7801945--7802183 Score: 245
Period size: 54 Copynumber: 4.5 Consensus size: 53
7801935 TTTTAATGGA
*
7801945 GGTGTCGGCCATGGGGTGTCCAAAACCT-ATTTTTTTAAAAATTGATAAAAGG
1 GGTGTTGGCCATGGGGTGTCCAAAACCTAATTTTTTTAAAAATTGATAAAAGG
* * **
7801997 GGTGTTGGCCATAGGGTGTCCAAAACCCAATTTTCTTTTTAAATTGATAAAAGG
1 GGTGTTGGCCATGGGGTGTCCAAAACCTAATTTT-TTTAAAAATTGATAAAAGG
** *
7802051 GGTGCCGGCCATGGGGTGTCCAAAACCTAATTTTTTAAAAAAATTGATAAAAGG
1 GGTGTTGGCCATGGGGTGTCCAAAACCTAATTTTTT-TAAAAATTGATAAAAGG
* * * * *
7802105 GGTGTT-ACCTATAGGGTGTCTAAAATCTAAATTTTTTT--TAATCTGAT-AAAGG
1 GGTGTTGGCC-ATGGGGTGTCCAAAACCT-AATTTTTTTAAAAAT-TGATAAAAGG
** **
7802157 GGTACTGGCCATGGAATGTCCAAAACC
1 GGTGTTGGCCATGGGGTGTCCAAAACC
7802184 CAAAAAAAAT
Statistics
Matches: 152, Mismatches: 28, Indels: 14
0.78 0.14 0.07
Matches are distributed among these distances:
52 49 0.32
53 15 0.10
54 80 0.53
55 8 0.05
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (53 bp):
GGTGTTGGCCATGGGGTGTCCAAAACCTAATTTTTTTAAAAATTGATAAAAGG
Found at i:7802142 original size:106 final size:106
Alignment explanation
Indices: 7801945--7802183 Score: 306
Period size: 106 Copynumber: 2.3 Consensus size: 106
7801935 TTTTAATGGA
* * *
7801945 GGTGTCGGCCATGGGGTGTCCAAAACCTATTTTTTTAAAAATTGATAAAAGGGGTGTTGGCCATA
1 GGTGCCGGCCATGGGGTGTCCAAAACCTATTTTTTAAAAAATTGATAAAAGGGGTGTTGACCATA
*
7802010 GGGTGTCCAAAACCCAATTTTCTTTTTAAAT-TGATAAAAGG
66 GGGTGTCCAAAACCCAATATTCTTTTTAAATCTGAT-AAAGG
7802051 GGTGCCGGCCATGGGGTGTCCAAAACCTAATTTTTTAAAAAAATTGATAAAAGGGGTGTT-ACCT
1 GGTGCCGGCCATGGGGTGTCCAAAACCT-ATTTTTT-AAAAAATTGATAAAAGGGGTGTTGACC-
* * * *
7802115 ATAGGGTGTCTAAAATCTAA-ATT-TTTTTTAATCTGATAAAGG
63 ATAGGGTGTCCAAAACCCAATATTCTTTTTAAATCTGATAAAGG
* * **
7802157 GGTACTGGCCATGGAATGTCCAAAACC
1 GGTGCCGGCCATGGGGTGTCCAAAACC
7802184 CAAAAAAAAT
Statistics
Matches: 117, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
106 63 0.54
107 15 0.13
108 39 0.33
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (106 bp):
GGTGCCGGCCATGGGGTGTCCAAAACCTATTTTTTAAAAAATTGATAAAAGGGGTGTTGACCATA
GGGTGTCCAAAACCCAATATTCTTTTTAAATCTGATAAAGG
Found at i:7807124 original size:28 final size:28
Alignment explanation
Indices: 7807084--7807138 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
7807074 CGCACTGGCT
7807084 CTGTCATCACTCATTACATCTTTCTTTG
1 CTGTCATCACTCATTACATCTTTCTTTG
7807112 CTGTCATCACTCATTACATCTTTCTTT
1 CTGTCATCACTCATTACATCTTTCTTT
7807139 TCTTATTGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.18, C:0.29, G:0.05, T:0.47
Consensus pattern (28 bp):
CTGTCATCACTCATTACATCTTTCTTTG
Found at i:7816417 original size:18 final size:19
Alignment explanation
Indices: 7816388--7816425 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
7816378 TTTTTAAATA
7816388 ATTTTCTGTAATTTCTTAT
1 ATTTTCTGTAATTTCTTAT
*
7816407 ATTTT-TGTAATTTTTTAT
1 ATTTTCTGTAATTTCTTAT
7816425 A
1 A
7816426 ACTTTCTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.66
Consensus pattern (19 bp):
ATTTTCTGTAATTTCTTAT
Found at i:7816418 original size:28 final size:28
Alignment explanation
Indices: 7816386--7816440 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
7816376 TTTTTTTAAA
*
7816386 TAATTTTCTGTAA-TTTCTTATATTTTTG
1 TAATTTTCTATAACTTTC-TATATTTTTG
*
7816414 TAATTTTTTATAACTTTCTATATTTTT
1 TAATTTTCTATAACTTTCTATATTTTT
7816441 TTATGCTCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 20 0.83
29 4 0.17
ACGTcount: A:0.24, C:0.07, G:0.04, T:0.65
Consensus pattern (28 bp):
TAATTTTCTATAACTTTCTATATTTTTG
Found at i:7818265 original size:27 final size:27
Alignment explanation
Indices: 7818227--7818278 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
7818217 CTGCTAGATA
7818227 GTTCATCGGTACTGCTAACCGGCAATT
1 GTTCATCGGTACTGCTAACCGGCAATT
7818254 GTTCATCGGTACTGCTAACCGGCAA
1 GTTCATCGGTACTGCTAACCGGCAA
7818279 CTCATGGCGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (27 bp):
GTTCATCGGTACTGCTAACCGGCAATT
Found at i:7819107 original size:18 final size:18
Alignment explanation
Indices: 7819084--7819125 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 18
7819074 AGGGGCTGCA
7819084 CCATTGGCCCCAT-TAGCC
1 CCATTGGCCCCATCTA-CC
7819102 CCATTGGCCCCATCTACC
1 CCATTGGCCCCATCTACC
7819120 CCATTG
1 CCATTG
7819126 ACCCTAGCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 21 0.91
19 2 0.09
ACGTcount: A:0.17, C:0.45, G:0.14, T:0.24
Consensus pattern (18 bp):
CCATTGGCCCCATCTACC
Found at i:7823514 original size:27 final size:27
Alignment explanation
Indices: 7823467--7823526 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 27
7823457 AATATGTTTT
* * *
7823467 AATTAATTGATATACATTA-TTTATAA
1 AATTAATTGATATAAAATATTTTAAAA
*
7823493 AATTAATGTTATATAAAATATTTTAAAA
1 AATTAAT-TGATATAAAATATTTTAAAA
7823521 AATTAA
1 AATTAA
7823527 ATATAATAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 7 0.25
27 9 0.32
28 12 0.43
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (27 bp):
AATTAATTGATATAAAATATTTTAAAA
Found at i:7824584 original size:6 final size:6
Alignment explanation
Indices: 7824573--7824629 Score: 78
Period size: 6 Copynumber: 9.5 Consensus size: 6
7824563 AACCATAAAA
* * * *
7824573 AATAAC AATAAC AACAAC AACAAC AACAAC AACAAC AATAAC AATAAC
1 AATAAC AATAAC AATAAC AATAAC AATAAC AATAAC AATAAC AATAAC
7824621 AATAAC AAT
1 AATAAC AAT
7824630 GGAAGTTAAG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 49 1.00
ACGTcount: A:0.67, C:0.23, G:0.00, T:0.11
Consensus pattern (6 bp):
AATAAC
Found at i:7824590 original size:3 final size:3
Alignment explanation
Indices: 7824576--7824628 Score: 70
Period size: 3 Copynumber: 17.7 Consensus size: 3
7824566 CATAAAAAAT
* * * *
7824576 AAC AAT AAC AAC AAC AAC AAC AAC AAC AAC AAC AAT AAC AAT AAC AAT
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
7824624 AAC AA
1 AAC AA
7824629 TGGAAGTTAA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.68, C:0.25, G:0.00, T:0.08
Consensus pattern (3 bp):
AAC
Found at i:7826541 original size:179 final size:179
Alignment explanation
Indices: 7826261--7826787 Score: 682
Period size: 179 Copynumber: 2.9 Consensus size: 179
7826251 AACTGGTGTT
* * * * * * *
7826261 TCGATCCGCTCCAATGTAATTTCAGGGAGAAGAAACTTGTAGTTTTGATCTACTCCGTTGCAACT
1 TCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACT
* * *
7826326 TCAAAGAGATAAGAATTGGTAATTTCAA-TCTGCTCCACTATAACTTCAGGGAGATAAGGTTTGT
66 TCAAGGAGATAAGAATTGGTAACTTCAACT-TGCTCCACTACAACTTCAGGGAGATAAGGTTTGT
* *
7826390 ATATTTTTATCCTGCTCCACTGCAACTTCAGGGGGATAAGAATTGTGGCA
130 ATATTTTTATCCTGCTCCACTACAACTTCAGGGAGATAAGAATTGTGGCA
* * *
7826440 TCGATCTGCTTCAATGTAATTTTAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAATT
1 TCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACT
* * * *
7826505 TCAAGGAGATATGAATTGGTAACTTCAACTTGCTCCACTGCAACTTTAGGGAGATAAGGTTTGTG
66 TCAAGGAGATAAGAATTGGTAACTTCAACTTGCTCCACTACAACTTCAGGGAGATAAGGTTTGTA
* * * *
7826570 TATTTTTATCCTGCTCTACTACAACTTTAGGGAGATAAGGATTGTGGCT
131 TATTTTTATCCTGCTCCACTACAACTTCAGGGAGATAAGAATTGTGGCA
* * * * *
7826619 TCGATCTGCTCCAATGTAATTTCAAGGATAAAAGATTTGTAGCTTCGATCTACTCCACTAGAACT
1 TCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACT
* * * * ** *
7826684 TCAAGGAGATAAGAATTGGTAACTTCAACCTGTTCCACTACAACTTCAGGGAAATGATATTTG-C
66 TCAAGGAGATAAGAATTGGTAACTTCAACTTGCTCCACTACAACTTCAGGGAGATAAGGTTTGTA
* *
7826748 TATCTTCAGT-CTGCTCCACTACAACTTCAGGGAGATAAGA
131 TATTTTTA-TCCTGCTCCACTACAACTTCAGGGAGATAAGA
7826788 CCTGTGGTTT
Statistics
Matches: 300, Mismatches: 46, Indels: 5
0.85 0.13 0.01
Matches are distributed among these distances:
178 33 0.11
179 266 0.89
180 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (179 bp):
TCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACT
TCAAGGAGATAAGAATTGGTAACTTCAACTTGCTCCACTACAACTTCAGGGAGATAAGGTTTGTA
TATTTTTATCCTGCTCCACTACAACTTCAGGGAGATAAGAATTGTGGCA
Found at i:7826729 original size:45 final size:45
Alignment explanation
Indices: 7826321--7826787 Score: 199
Period size: 45 Copynumber: 10.4 Consensus size: 45
7826311 TACTCCGTTG
** * *
7826321 CAACTTCAAAGAGATAAGAATTGGTAATTTCAATCTGCTCCACTA
1 CAACTTCAGGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTA
* * * * * * *
7826366 TAACTTCAGGGAGATAAG-GTTTGTATATTTTTATCCTGCTCCACTG
1 CAACTTCAGGGAGATAAGAATTGGTA-A-CTTCAACCTGCTCCACTA
* ** * * * * * *
7826412 CAACTTCAGGGGGATAAGAATT-GTGGCATCGATCTGCTTCAATG
1 CAACTTCAGGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTA
* * * * * * * * * *
7826456 TAATTTTAGGGAG--AAGAGATTTGTAGCTTCGATCTACTCCGCTG
1 CAACTTCAGGGAGATAAGA-ATTGGTAACTTCAACCTGCTCCACTA
* * * * * *
7826500 GAATTTCAAGGAGATATGAATTGGTAACTTCAACTTGCTCCACTG
1 CAACTTCAGGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTA
* ** ** * * *
7826545 CAACTTTAGGGAGATAAGGTTTGTGTATTTTTATCCTGCTCTACTA
1 CAACTTCAGGGAGATAAGAATTG-GTAACTTCAACCTGCTCCACTA
* * ** * * * *
7826591 CAACTTTAGGGAGATAAGGATT-GTGGCTTCGATCTGCTCCAATG
1 CAACTTCAGGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTA
* * * * * * * * * *
7826635 TAATTTCAAGGATAAAAG-ATTTGTAGCTTCGATCTACTCCACTA
1 CAACTTCAGGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTA
* * *
7826679 GAACTTCAAGGAGATAAGAATTGGTAACTTCAACCTGTTCCACTA
1 CAACTTCAGGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTA
* * * * * * **
7826724 CAACTTCAGGGAAATGATATTTGCTATCTTCAGTCTGCTCCACTA
1 CAACTTCAGGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTA
7826769 CAACTTCAGGGAGATAAGA
1 CAACTTCAGGGAGATAAGA
7826788 CCTGTGGTTT
Statistics
Matches: 310, Mismatches: 102, Indels: 20
0.72 0.24 0.05
Matches are distributed among these distances:
42 4 0.01
43 6 0.02
44 106 0.34
45 121 0.39
46 71 0.23
47 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (45 bp):
CAACTTCAGGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTA
Found at i:7831173 original size:3 final size:3
Alignment explanation
Indices: 7831165--7831210 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
7831155 AACAATAATG
*
7831165 ACA ACA ACA ACA AGA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
7831211 TAATAATAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.67, C:0.30, G:0.02, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:7832434 original size:20 final size:20
Alignment explanation
Indices: 7832398--7832435 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
7832388 GCCAACCTGT
*
7832398 GTACGGAGGTCGACGTGGCG
1 GTACGGAGGGCGACGTGGCG
7832418 GTACGGAGGAGCG-CGTGG
1 GTACGGAGG-GCGACGTGG
7832436 GAAAGGTGCG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 14 0.88
21 2 0.12
ACGTcount: A:0.16, C:0.18, G:0.53, T:0.13
Consensus pattern (20 bp):
GTACGGAGGGCGACGTGGCG
Found at i:7833386 original size:26 final size:28
Alignment explanation
Indices: 7833352--7833406 Score: 78
Period size: 26 Copynumber: 2.0 Consensus size: 28
7833342 AGATCAGTTT
* *
7833352 AGATCTTTGATTTTTTTTAAT-TTTAAA
1 AGATCTTTGATTTATTTAAATATTTAAA
7833379 AGAT-TTTGATTTATTTAAATATTTAAA
1 AGATCTTTGATTTATTTAAATATTTAAA
7833406 A
1 A
7833407 AATATATACA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 14 0.56
27 11 0.44
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.55
Consensus pattern (28 bp):
AGATCTTTGATTTATTTAAATATTTAAA
Found at i:7834747 original size:33 final size:33
Alignment explanation
Indices: 7834700--7834775 Score: 134
Period size: 33 Copynumber: 2.2 Consensus size: 33
7834690 TATCAAATTT
7834700 TGTTCTTTCTTCATTTCCTTTTTTTTTTTTTTGTA
1 TGTT-TTT-TTCATTTCCTTTTTTTTTTTTTTGTA
7834735 TGTTTTTTTCATTTCCTTTTTTTTTTTTTTGTA
1 TGTTTTTTTCATTTCCTTTTTTTTTTTTTTGTA
7834768 TGTTTTTT
1 TGTTTTTT
7834776 ATATTTTCAT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
33 34 0.83
34 3 0.07
35 4 0.10
ACGTcount: A:0.05, C:0.11, G:0.07, T:0.78
Consensus pattern (33 bp):
TGTTTTTTTCATTTCCTTTTTTTTTTTTTTGTA
Found at i:7858676 original size:5 final size:5
Alignment explanation
Indices: 7858666--7858699 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
7858656 TATATTTCTT
*
7858666 TTTTA TTTTA TTTTA TTTTA TTTTTC TTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA -TTTTA TTTTA TTT
7858700 CGTTTTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 22 0.85
6 4 0.15
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:7858679 original size:11 final size:11
Alignment explanation
Indices: 7858665--7858699 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
7858655 ATATATTTCT
7858665 TTTTTATTTTA
1 TTTTTATTTTA
7858676 -TTTTATTTTA
1 TTTTTATTTTA
*
7858686 TTTTTCTTTTA
1 TTTTTATTTTA
7858697 TTT
1 TTT
7858700 CGTTTTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 10 0.45
11 12 0.55
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:7858705 original size:21 final size:21
Alignment explanation
Indices: 7858665--7858706 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
7858655 ATATATTTCT
*
7858665 TTTTTATTTTATTTTATTTTA
1 TTTTTATTTTATTTCATTTTA
* *
7858686 TTTTTCTTTTATTTCGTTTTA
1 TTTTTATTTTATTTCATTTTA
7858707 AATAACAAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.79
Consensus pattern (21 bp):
TTTTTATTTTATTTCATTTTA
Found at i:7859561 original size:13 final size:12
Alignment explanation
Indices: 7859535--7859577 Score: 61
Period size: 13 Copynumber: 3.5 Consensus size: 12
7859525 CTTCACACGC
7859535 ATATATTT-TTT
1 ATATATTTATTT
7859546 ATATAGTTTATTT
1 ATATA-TTTATTT
7859559 ATATATTATATTT
1 ATATATT-TATTT
7859572 ATATAT
1 ATATAT
7859578 ATTTTTTGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
11 5 0.17
12 5 0.17
13 19 0.66
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (12 bp):
ATATATTTATTT
Found at i:7859599 original size:82 final size:85
Alignment explanation
Indices: 7859508--7859681 Score: 264
Period size: 88 Copynumber: 2.0 Consensus size: 85
7859498 TATATATACC
*
7859508 TTTATATACATACAGATCTTCACACGC-ATATATTTTTTAT-ATAGTTTATTTATATATTATATT
1 TTTATATACATACAGATCTTCACACACAATATATTTTTTATCATAGTTTATTTATATATTATATT
7859571 TATATATA-TTTTTTGTTCT
66 TATATATATTTTTTTGTTCT
* *
7859590 TTTATATACATACAGATTTTCACACACATATATATATTTTTTCTCCATAGTTTATTTATATATTA
1 TTTATATACATACAGATCTTCACACAC--A-ATATATTTTTTAT-CATAGTTTATTTATATATTA
7859655 TATTTATATATATTTTTTTGTTCT
62 TATTTATATATATTTTTTTGTTCT
7859679 TTT
1 TTT
7859682 CTTGTAAATA
Statistics
Matches: 82, Mismatches: 3, Indels: 7
0.89 0.03 0.08
Matches are distributed among these distances:
82 25 0.30
86 12 0.15
88 31 0.38
89 14 0.17
ACGTcount: A:0.30, C:0.10, G:0.04, T:0.56
Consensus pattern (85 bp):
TTTATATACATACAGATCTTCACACACAATATATTTTTTATCATAGTTTATTTATATATTATATT
TATATATATTTTTTTGTTCT
Found at i:7863067 original size:20 final size:20
Alignment explanation
Indices: 7863034--7863073 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
7863024 TTCATCTCAT
*
7863034 GCATCGCATCATATGCATTA
1 GCATCACATCATATGCATTA
*
7863054 GCATCACATTATATGCATTA
1 GCATCACATCATATGCATTA
7863074 TAGACCTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.33
Consensus pattern (20 bp):
GCATCACATCATATGCATTA
Found at i:7864293 original size:19 final size:19
Alignment explanation
Indices: 7864259--7864307 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
7864249 CTAAACAATT
7864259 TAATAATATAAA--TAATA
1 TAATAATATAAATTTAATA
*
7864276 TAA-AATATGAAATTTAATT
1 TAATAATAT-AAATTTAATA
7864295 TAATAATATAAAT
1 TAATAATATAAAT
7864308 AAAATTATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 5 0.19
17 6 0.22
19 11 0.41
20 5 0.19
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (19 bp):
TAATAATATAAATTTAATA
Found at i:7864819 original size:9 final size:9
Alignment explanation
Indices: 7864805--7864841 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
7864795 TATAGTTTGA
7864805 TATTCGAAT
1 TATTCGAAT
7864814 TATTCGAAT
1 TATTCGAAT
*
7864823 TATTCGAGT
1 TATTCGAAT
7864832 TATTCGAAT
1 TATTCGAAT
7864841 T
1 T
7864842 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:7864911 original size:9 final size:9
Alignment explanation
Indices: 7864894--7864924 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
7864884 TCGAGTTGAT
7864894 TCGAATAAC
1 TCGAATAAC
*
7864903 TCGATTAAC
1 TCGAATAAC
7864912 TCGAATAAC
1 TCGAATAAC
7864921 TCGA
1 TCGA
7864925 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:7865939 original size:20 final size:19
Alignment explanation
Indices: 7865897--7865937 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
7865887 GCAAATGTTC
7865897 TTTCATTCTTTATGATTTT
1 TTTCATTCTTTATGATTTT
7865916 TTTCATTCTTT-TGGATTTT
1 TTTCATTCTTTAT-GATTTT
7865935 TTT
1 TTT
7865938 TCTGCCAGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.12, C:0.10, G:0.07, T:0.71
Consensus pattern (19 bp):
TTTCATTCTTTATGATTTT
Found at i:7866882 original size:7 final size:7
Alignment explanation
Indices: 7866870--7866911 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
7866860 AAATGACGAG
7866870 ATGAAAA
1 ATGAAAA
7866877 ATGAAAA
1 ATGAAAA
7866884 ATG-AAA
1 ATGAAAA
7866890 ATGAAAA
1 ATGAAAA
* *
7866897 CTAAAAA
1 ATGAAAA
7866904 ATGGAAAA
1 AT-GAAAA
7866912 GTAAAATGGA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
6 6 0.21
7 19 0.66
8 4 0.14
ACGTcount: A:0.69, C:0.02, G:0.14, T:0.14
Consensus pattern (7 bp):
ATGAAAA
Found at i:7866887 original size:14 final size:14
Alignment explanation
Indices: 7866870--7866911 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
7866860 AAATGACGAG
7866870 ATGAAAAATGAAAA
1 ATGAAAAATGAAAA
7866884 ATG-AAAATGAAAA
1 ATGAAAAATGAAAA
* *
7866897 CTAAAAAATGGAAAA
1 ATGAAAAAT-GAAAA
7866912 GTAAAATGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 11 0.46
14 8 0.33
15 5 0.21
ACGTcount: A:0.69, C:0.02, G:0.14, T:0.14
Consensus pattern (14 bp):
ATGAAAAATGAAAA
Found at i:7866903 original size:20 final size:20
Alignment explanation
Indices: 7866856--7866911 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 20
7866846 CTTTGAGTCG
*
7866856 TAAAAAATGACGAGATGAAAAA
1 TAAAAAATGA--AAATGAAAAA
* *
7866878 TGAAAAATGAAAATGAAAAC
1 TAAAAAATGAAAATGAAAAA
7866898 TAAAAAATGGAAAA
1 TAAAAAAT-GAAAA
7866912 GTAAAATGGA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 15 0.52
21 5 0.17
22 9 0.31
ACGTcount: A:0.66, C:0.04, G:0.16, T:0.14
Consensus pattern (20 bp):
TAAAAAATGAAAATGAAAAA
Found at i:7867055 original size:42 final size:42
Alignment explanation
Indices: 7866994--7867094 Score: 157
Period size: 42 Copynumber: 2.4 Consensus size: 42
7866984 GAAAAGGGCG
* *
7866994 GCTCAAATATTGATTAGAATGGGGCATGAGATTATCGAAGTA
1 GCTCAAATATTGATCAGAATGCGGCATGAGATTATCGAAGTA
* *
7867036 GCTCAAATATTGATCAGAATGCGGCATGAGATTATTGGAGTA
1 GCTCAAATATTGATCAGAATGCGGCATGAGATTATCGAAGTA
*
7867078 GCTCAAATACTGATCAG
1 GCTCAAATATTGATCAG
7867095 CATAAGGTAT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.28
Consensus pattern (42 bp):
GCTCAAATATTGATCAGAATGCGGCATGAGATTATCGAAGTA
Found at i:7868468 original size:89 final size:89
Alignment explanation
Indices: 7868317--7869246 Score: 1393
Period size: 89 Copynumber: 10.5 Consensus size: 89
7868307 ACTAGTGGCG
*
7868317 AAGCAGATCTTGTCTTCATGTACTGGCCTGAAGTAGATCAAAGGTAACAGATCTTGTCTTCCCAT
1 AAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGGTAACAGATCTTGTCTTCCCAT
7868382 ACTGGTGGCGAAACAGATCGAAGA
66 ACTGGTGGCGAAACAGATCGAAGA
7868406 AAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGGTAACAGATCTTGTCTTCCCAT
1 AAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGGTAACAGATCTTGTCTTCCCAT
7868471 ACTGGTGGCGAAACAGATCGAAGA
66 ACTGGTGGCGAAACAGATCGAAGA
* * * * *
7868495 AAGCAGATATTGTCTTCATGTACTGGCATGAAGTAGATCAGAGATAACAGATCTTGCCTTCCCAT
1 AAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGGTAACAGATCTTGTCTTCCCAT
* *
7868560 ACTGGTGGCGAAGCAGATCAAAGA
66 ACTGGTGGCGAAACAGATCGAAGA
* * *
7868584 AAGCATATCTTGTCTTCATGTACTGGCATGAAGTAGATCAAAGGTAACAGATCTTGTCTTTCCAT
1 AAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGGTAACAGATCTTGTCTTCCCAT
* * *
7868649 ACGGGTGGTGAAATAGATCGAAGA
66 ACTGGTGGCGAAACAGATCGAAGA
*
7868673 AAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCAT
1 AAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGGTAACAGATCTTGTCTTCCCAT
*
7868738 ACTGGTGGTGAAACAGATCGAAGA
66 ACTGGTGGCGAAACAGATCGAAGA
* *
7868762 AAGCAAATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGGTAACAGATCTTGTCTTTCCAT
1 AAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGGTAACAGATCTTGTCTTCCCAT
* * * *
7868827 ACGGGAGGTGAAATAGATCGAAGA
66 ACTGGTGGCGAAACAGATCGAAGA
*
7868851 AAGCAAATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGGTAACAGATCTTGTCTTCCCAT
1 AAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGGTAACAGATCTTGTCTTCCCAT
*
7868916 ACTGGTGGTGAAACAGATCGAAGA
66 ACTGGTGGCGAAACAGATCGAAGA
* * * *
7868940 AAGCAGATCTTGTCTTCATGTACTGGCATGAAGTAGATCAAAGATAACAGATCTTGTTTTCTCAT
1 AAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGGTAACAGATCTTGTCTTCCCAT
*
7869005 ACTGGTGGCGAAACAGATCAAAGA
66 ACTGGTGGCGAAACAGATCGAAGA
* *
7869029 AAGTAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAAGTAACAGATCTTGTCTTCCCAT
1 AAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGGTAACAGATCTTGTCTTCCCAT
**
7869094 ACTGGTGGCGAAGTAGATCGAAGGAAA
66 ACTGGTGGCGAAACAGATCGAA-G--A
* ** * * *
7869121 AAGTAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGACAACAAATCTTGTCTCCCCAC
1 AAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGGTAACAGATCTTGTCTTCCCAT
* * **
7869186 ACTGGTGGTGGAGTAGATCGAAGA
66 ACTGGTGGCGAAACAGATCGAAGA
*
7869210 GAA-CAGACCTTGTCTTCA--T--TGGCGTGAAGTAGATCAA
1 -AAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAA
7869247 GCGCAGCAGA
Statistics
Matches: 776, Mismatches: 61, Indels: 12
0.91 0.07 0.01
Matches are distributed among these distances:
85 18 0.02
87 1 0.00
89 673 0.87
90 3 0.00
91 1 0.00
92 80 0.10
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.27
Consensus pattern (89 bp):
AAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGGTAACAGATCTTGTCTTCCCAT
ACTGGTGGCGAAACAGATCGAAGA
Found at i:7870177 original size:5 final size:5
Alignment explanation
Indices: 7870167--7870200 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
7870157 TATATTTCTT
*
7870167 TTTTA TTTTA TTTTA TTTTA TTTTTC TTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA -TTTTA TTTTA TTT
7870201 CGTTTTAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 22 0.85
6 4 0.15
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:7870180 original size:11 final size:11
Alignment explanation
Indices: 7870166--7870200 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
7870156 ATATATTTCT
7870166 TTTTTATTTTA
1 TTTTTATTTTA
7870177 -TTTTATTTTA
1 TTTTTATTTTA
*
7870187 TTTTTCTTTTA
1 TTTTTATTTTA
7870198 TTT
1 TTT
7870201 CGTTTTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 10 0.45
11 12 0.55
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:7870206 original size:21 final size:21
Alignment explanation
Indices: 7870166--7870207 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
7870156 ATATATTTCT
*
7870166 TTTTTATTTTATTTTATTTTA
1 TTTTTATTTTATTTCATTTTA
* *
7870187 TTTTTCTTTTATTTCGTTTTA
1 TTTTTATTTTATTTCATTTTA
7870208 ATAACAAAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.79
Consensus pattern (21 bp):
TTTTTATTTTATTTCATTTTA
Found at i:7870240 original size:94 final size:95
Alignment explanation
Indices: 7870125--7870313 Score: 371
Period size: 94 Copynumber: 2.0 Consensus size: 95
7870115 TTTTTTGGTT
7870125 TTCTTGGCAGTGTCCCTCGTATTTTATTTACATATATTTCTTTTTTATTTTATTTTATTTTATTT
1 TTCTTGGCAGTGTCCCTCGTATTTTATTTACATATATTTCTTTTTTATTTTATTTTATTTTATTT
7870190 TTCTTTTATTTCGTTTT-AATAACAAAGAA
66 TTCTTTTATTTCGTTTTAAATAACAAAGAA
7870219 TTCTTGGCAGTGTCCCTCGTATTTTATTTACATATATTTCTTTTTTATTTTATTTTATTTTATTT
1 TTCTTGGCAGTGTCCCTCGTATTTTATTTACATATATTTCTTTTTTATTTTATTTTATTTTATTT
7870284 TTCTTTTATTTCGTTTTAAATAACAAAGAA
66 TTCTTTTATTTCGTTTTAAATAACAAAGAA
7870314 AGGAGAAAAG
Statistics
Matches: 94, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
94 82 0.87
95 12 0.13
ACGTcount: A:0.23, C:0.12, G:0.07, T:0.58
Consensus pattern (95 bp):
TTCTTGGCAGTGTCCCTCGTATTTTATTTACATATATTTCTTTTTTATTTTATTTTATTTTATTT
TTCTTTTATTTCGTTTTAAATAACAAAGAA
Found at i:7870271 original size:5 final size:5
Alignment explanation
Indices: 7870261--7870294 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
7870251 TATATTTCTT
*
7870261 TTTTA TTTTA TTTTA TTTTA TTTTTC TTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA -TTTTA TTTTA TTT
7870295 CGTTTTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 22 0.85
6 4 0.15
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:7870274 original size:11 final size:11
Alignment explanation
Indices: 7870260--7870294 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
7870250 ATATATTTCT
7870260 TTTTTATTTTA
1 TTTTTATTTTA
7870271 -TTTTATTTTA
1 TTTTTATTTTA
*
7870281 TTTTTCTTTTA
1 TTTTTATTTTA
7870292 TTT
1 TTT
7870295 CGTTTTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 10 0.45
11 12 0.55
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:7870300 original size:21 final size:21
Alignment explanation
Indices: 7870260--7870301 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
7870250 ATATATTTCT
*
7870260 TTTTTATTTTATTTTATTTTA
1 TTTTTATTTTATTTCATTTTA
* *
7870281 TTTTTCTTTTATTTCGTTTTA
1 TTTTTATTTTATTTCATTTTA
7870302 AATAACAAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.79
Consensus pattern (21 bp):
TTTTTATTTTATTTCATTTTA
Found at i:7870551 original size:19 final size:20
Alignment explanation
Indices: 7870515--7870552 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
7870505 TTTCGGTTTC
*
7870515 AAATGATTTTAGACAGAAAA
1 AAATGATTTTAAACAGAAAA
*
7870535 AAATG-TTTTAAATAGAAA
1 AAATGATTTTAAACAGAAA
7870553 GGCAAAACGG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.55, C:0.03, G:0.13, T:0.29
Consensus pattern (20 bp):
AAATGATTTTAAACAGAAAA
Found at i:7871167 original size:13 final size:14
Alignment explanation
Indices: 7871149--7871179 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
7871139 TTTCATAGTT
7871149 TATTTATATAT-TA
1 TATTTATATATATA
7871162 TATTTATATATATA
1 TATTTATATATATA
7871176 TATT
1 TATT
7871180 GTTCTTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TATTTATATATATA
Found at i:7871210 original size:6 final size:6
Alignment explanation
Indices: 7871199--7871225 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
7871189 TTGTAAATAT
7871199 ATATAC ATATAC ATATAC ATATAC ATA
1 ATATAC ATATAC ATATAC ATATAC ATA
7871226 CTTTTATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (6 bp):
ATATAC
Found at i:7875124 original size:20 final size:20
Alignment explanation
Indices: 7875088--7875125 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
7875078 GATTTGGCCT
*
7875088 TTGTGGCATTCTGTTAGCCC
1 TTGTGGCATTCTCTTAGCCC
*
7875108 TTGTGGCATTTTCTTAGC
1 TTGTGGCATTCTCTTAGC
7875126 TTTTTTAGCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.21, G:0.24, T:0.45
Consensus pattern (20 bp):
TTGTGGCATTCTCTTAGCCC
Found at i:7877581 original size:25 final size:25
Alignment explanation
Indices: 7877553--7877671 Score: 93
Period size: 25 Copynumber: 4.8 Consensus size: 25
7877543 ACACACTCTC
*
7877553 GAGCCATATAACGGGAAGCTCATGT
1 GAGCCATATAACAGGAAGCTCATGT
* * *
7877578 GAGCCATATAACAAGAAGCTTAT-C
1 GAGCCATATAACAGGAAGCTCATGT
* * *
7877602 CAGGCTAAATAACAGGAAGCTCATGT
1 GA-GCCATATAACAGGAAGCTCATGT
* *
7877628 GAGCCATAGT--CAGGAAGCTCGTGC
1 GAGCCATA-TAACAGGAAGCTCATGT
* *
7877652 GAG-CAAATAACAGGTAGCTC
1 GAGCCATATAACAGGAAGCTC
7877672 CGAAGAGCCA
Statistics
Matches: 72, Mismatches: 17, Indels: 11
0.72 0.17 0.11
Matches are distributed among these distances:
22 1 0.01
23 3 0.04
24 25 0.35
25 41 0.57
26 2 0.03
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.18
Consensus pattern (25 bp):
GAGCCATATAACAGGAAGCTCATGT
Found at i:7877695 original size:25 final size:25
Alignment explanation
Indices: 7877667--7877795 Score: 90
Period size: 25 Copynumber: 5.2 Consensus size: 25
7877657 AATAACAGGT
**
7877667 AGCTCCGAAGAGCCATTAATTAGGA
1 AGCTCCGAAGAGCCATTAATCGGGA
* * *
7877692 AGCTCCGGATAGCCA-TATATTGGGA
1 AGCTCCGAAGAGCCATTA-ATCGGGA
*
7877717 AG-TTC-AAGCGAGCCA-T-ATCGGGA
1 AGCTCCGAA--GAGCCATTAATCGGGA
* *
7877740 AACTCCGAAGAGCCTTTAATCGGGA
1 AGCTCCGAAGAGCCATTAATCGGGA
7877765 AGCTCACGAAGAGCCATATAAT-GGGA
1 AGCTC-CGAAGAGCCAT-TAATCGGGA
*
7877791 CGCTC
1 AGCTC
7877796 ATAAGAGCTG
Statistics
Matches: 82, Mismatches: 13, Indels: 17
0.73 0.12 0.15
Matches are distributed among these distances:
23 13 0.16
24 7 0.09
25 40 0.49
26 18 0.22
27 4 0.05
ACGTcount: A:0.32, C:0.22, G:0.26, T:0.19
Consensus pattern (25 bp):
AGCTCCGAAGAGCCATTAATCGGGA
Found at i:7884542 original size:24 final size:25
Alignment explanation
Indices: 7884496--7884544 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
7884486 ACTAACTAAT
*
7884496 TATTTATAAATTTGATAACATATAA
1 TATTTATAAATTAGATAACATATAA
7884521 TATTTAT-AATTAAGATAA-ATATAA
1 TATTTATAAATT-AGATAACATATAA
7884545 ATTCAAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 10 0.45
25 12 0.55
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (25 bp):
TATTTATAAATTAGATAACATATAA
Done.