Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 63 of 171
Found at i:24015872 original size:21 final size:21
Alignment explanation
Indices: 24015838--24015888 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
24015828 TGTCTCTCAT
*
24015838 GCTTCCCATACTTTTCATGCC
1 GCTTCTCATACTTTTCATGCC
* * *
24015859 GCTTCTCATTCTTTTCGTGTC
1 GCTTCTCATACTTTTCATGCC
*
24015880 GCTTTTCAT
1 GCTTCTCAT
24015889 GCTTCTCGTG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.10, C:0.31, G:0.12, T:0.47
Consensus pattern (21 bp):
GCTTCTCATACTTTTCATGCC
Found at i:24015893 original size:30 final size:30
Alignment explanation
Indices: 24015859--24015943 Score: 84
Period size: 30 Copynumber: 2.8 Consensus size: 30
24015849 TTTTCATGCC
*
24015859 GCTTCTCATTCTTTTCGTGTCGCTTTTCAT
1 GCTTCTCATTCTTTTCATGTCGCTTTTCAT
* *
24015889 GCTTCTCGTGT-TTTTCATGCCGCTTTTCAT
1 GCTTCTCAT-TCTTTTCATGTCGCTTTTCAT
* * *
24015919 G-TCTGTCATGCTTTTCCTGTCGCTT
1 GCT-TCTCATTCTTTTCATGTCGCTT
24015944 CTCCTCGCGC
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
29 1 0.02
30 42 0.95
31 1 0.02
ACGTcount: A:0.06, C:0.27, G:0.16, T:0.51
Consensus pattern (30 bp):
GCTTCTCATTCTTTTCATGTCGCTTTTCAT
Found at i:24015897 original size:21 final size:21
Alignment explanation
Indices: 24015858--24015899 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
24015848 CTTTTCATGC
* *
24015858 CGCTTCTCATTCTTTTCGTGT
1 CGCTTCTCATGCTTCTCGTGT
*
24015879 CGCTTTTCATGCTTCTCGTGT
1 CGCTTCTCATGCTTCTCGTGT
24015900 TTTTCATGCC
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:0.05, C:0.29, G:0.17, T:0.50
Consensus pattern (21 bp):
CGCTTCTCATGCTTCTCGTGT
Found at i:24030514 original size:16 final size:16
Alignment explanation
Indices: 24030475--24030544 Score: 63
Period size: 16 Copynumber: 4.3 Consensus size: 16
24030465 TAGTTTAAAC
*
24030475 TAATAAATTAGATTATA
1 TAATAAATTATATTA-A
* *
24030492 TATTAATTTATATTAA
1 TAATAAATTATATTAA
24030508 TAAT-AATTATATTAA
1 TAATAAATTATATTAA
*
24030523 -AATATAATTAAATTAA
1 TAATA-AATTATATTAA
24030539 TTAATA
1 -TAATA
24030545 TTTTTATTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
14 3 0.07
15 10 0.23
16 14 0.33
17 12 0.28
18 4 0.09
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (16 bp):
TAATAAATTATATTAA
Found at i:24030528 original size:25 final size:25
Alignment explanation
Indices: 24030490--24030546 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
24030480 AATTAGATTA
**
24030490 TATATTAATTTAT-ATTAATAATAAT
1 TATATTAAAATATAATTAA-AATAAT
*
24030515 TATATTAAAATATAATTAAATTAAT
1 TATATTAAAATATAATTAAAATAAT
24030540 TAATATT
1 T-ATATT
24030547 TTTATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 17 0.63
26 10 0.37
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
TATATTAAAATATAATTAAAATAAT
Found at i:24030531 original size:32 final size:31
Alignment explanation
Indices: 24030495--24030577 Score: 89
Period size: 32 Copynumber: 2.7 Consensus size: 31
24030485 GATTATATAT
24030495 TAATTTATATTAATAATAATTATATTAAAATA
1 TAATTTA-ATTAATAATAATTATATTAAAATA
* * * *
24030527 TAATTAAATTAATTAATATTTTTATTAAATTA
1 TAATTTAATTAA-TAATAATTATATTAAAATA
*
24030559 T-ATTTAA-TAATAATCATTA
1 TAATTTAATTAATAATAATTA
24030578 AAATTTAATA
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
29 6 0.14
30 3 0.07
31 10 0.24
32 23 0.55
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (31 bp):
TAATTTAATTAATAATAATTATATTAAAATA
Found at i:24030771 original size:16 final size:16
Alignment explanation
Indices: 24030752--24030793 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
24030742 ATTACAGTCC
*
24030752 TATTCCATTACAGCTT
1 TATTCCATTACACCTT
* *
24030768 TATTCCGTCACACCTT
1 TATTCCATTACACCTT
24030784 TATTCCATTA
1 TATTCCATTA
24030794 TAGCGAACCA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.24, C:0.29, G:0.05, T:0.43
Consensus pattern (16 bp):
TATTCCATTACACCTT
Found at i:24031230 original size:99 final size:102
Alignment explanation
Indices: 24031054--24031249 Score: 326
Period size: 99 Copynumber: 2.0 Consensus size: 102
24031044 GCAGGTTCGA
* **
24031054 GACCTGCATGGGCCACTGTAATTTGATTTTATATCTTCCTTTTGAGTAAACGGCAGTGTTTTACG
1 GACCTGCATGGGCCACTGTAATTTGATTTTATATCATCCTTTTGAGTAAACGGCAGCATTTTACG
24031119 TTATTTAGTAGAACAGAATTTAGTATGAAACAGAGGC
66 TTATTTAGTAGAACAGAATTTAGTATGAAACAGAGGC
*
24031156 GACCTGCATGGGCCACTGTAATTTG-TTTT-TAT-ATCCTTTTGAGTGAACGGCAGCATTTTACG
1 GACCTGCATGGGCCACTGTAATTTGATTTTATATCATCCTTTTGAGTAAACGGCAGCATTTTACG
*
24031218 TTATTTATTAGAACAGAATTTAGTATGAAACA
66 TTATTTAGTAGAACAGAATTTAGTATGAAACA
24031250 TAAGCGTCCT
Statistics
Matches: 89, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
99 57 0.64
100 3 0.03
101 4 0.04
102 25 0.28
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (102 bp):
GACCTGCATGGGCCACTGTAATTTGATTTTATATCATCCTTTTGAGTAAACGGCAGCATTTTACG
TTATTTAGTAGAACAGAATTTAGTATGAAACAGAGGC
Found at i:24031367 original size:260 final size:259
Alignment explanation
Indices: 24030897--24031384 Score: 748
Period size: 260 Copynumber: 1.9 Consensus size: 259
24030887 CAGGTTCGAT
*
24030897 ACCTGCATGGGCCACTGTAATTTGTTTTTATATCCTTTTGAGTAAACGGCAGCGTTTTACGTTAT
1 ACCTGCATGGGCCACTGTAATTTGTTTTTATATCCTTTTGAGTAAACGGCAGCATTTTACGTTAT
24030962 TTATTAGAACAGAATTTAATATGAAACAGAAGCGGCCTATTAGCTCAGCTGGTTAGAGCGTCGTG
66 TTATTAGAACAGAATTTAATATGAAACAGAAGCGGCCTATTAGCTCAGCTGGTTAGAGCGTCGTG
* **
24031027 CTAATAACGCGAAGGTCGCAGGTTCGAGACCTGCATGGGCCACTGTAATTTGATTTTATATCTTC
131 CTAATAACGCAAAGGTCGCAGGTTCGAGACCTGCATGGGCCACTGTAATAGGATTTTATATCTTC
* * *
24031092 CTTTTGAGTAAACGGCAGTGTTTTACGTTATTTAGTAGAACAGAATTTAGTATGAAACAGAGGCG
196 CTTTTGAGAAAACGGCAGCG-TTTACGATATTTAGTAGAACAGAATTTAGTATGAAACAGAGGCG
*
24031157 ACCTGCATGGGCCACTGTAATTTGTTTTTATATCCTTTTGAGTGAACGGCAGCATTTTACGTTAT
1 ACCTGCATGGGCCACTGTAATTTGTTTTTATATCCTTTTGAGTAAACGGCAGCATTTTACGTTAT
* * *
24031222 TTATTAGAACAGAATTTAGTATGAAACATAAGCGTCCTATTAGCTCAGCTGGTTAGAGCGTCGTG
66 TTATTAGAACAGAATTTAATATGAAACAGAAGCGGCCTATTAGCTCAGCTGGTTAGAGCGTCGTG
* * * * * *
24031287 CTAATAACGCAAAGGTCGTAGGTTCGAGATCTGGATGGGCCA-TTTAA-AGGCTTCTTCT-TCTT
131 CTAATAACGCAAAGGTCGCAGGTTCGAGACCTGCATGGGCCACTGTAATAGGATT-TTATATC-T
* *
24031349 TATCTTTTGGGAAAACGGCAGCGTTTACGATATTTA
194 T-CCTTTTGAGAAAACGGCAGCGTTTACGATATTTA
24031385 TAAAAACAGA
Statistics
Matches: 206, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
258 5 0.02
259 21 0.10
260 180 0.87
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.34
Consensus pattern (259 bp):
ACCTGCATGGGCCACTGTAATTTGTTTTTATATCCTTTTGAGTAAACGGCAGCATTTTACGTTAT
TTATTAGAACAGAATTTAATATGAAACAGAAGCGGCCTATTAGCTCAGCTGGTTAGAGCGTCGTG
CTAATAACGCAAAGGTCGCAGGTTCGAGACCTGCATGGGCCACTGTAATAGGATTTTATATCTTC
CTTTTGAGAAAACGGCAGCGTTTACGATATTTAGTAGAACAGAATTTAGTATGAAACAGAGGCG
Found at i:24032685 original size:17 final size:17
Alignment explanation
Indices: 24032665--24032710 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
24032655 TTATAATAAT
*
24032665 TTTAAATTTAATCCAAA
1 TTTAAATTAAATCCAAA
*
24032682 TTTAAATTAAATTCAAA
1 TTTAAATTAAATCCAAA
*
24032699 TTTAAAATAAAT
1 TTTAAATTAAAT
24032711 TTAATTTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (17 bp):
TTTAAATTAAATCCAAA
Found at i:24032699 original size:28 final size:28
Alignment explanation
Indices: 24032650--24032703 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
24032640 TTGAAAAATA
* *
24032650 CAAATTTATAATAATTTTAAATTTAATC
1 CAAATTTATAATAAATTCAAATTTAATC
24032678 CAAATTTA-AATTAAATTCAAATTTAA
1 CAAATTTATAA-TAAATTCAAATTTAA
24032704 AATAAATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 2 0.09
28 21 0.91
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (28 bp):
CAAATTTATAATAAATTCAAATTTAATC
Found at i:24032711 original size:17 final size:17
Alignment explanation
Indices: 24032678--24032732 Score: 74
Period size: 17 Copynumber: 3.2 Consensus size: 17
24032668 AAATTTAATC
*
24032678 CAAATTTAAATTAAATT
1 CAAATTTAAAATAAATT
24032695 CAAATTTAAAATAAATT
1 CAAATTTAAAATAAATT
* * *
24032712 TAATTTTAAAACAAATT
1 CAAATTTAAAATAAATT
24032729 CAAA
1 CAAA
24032733 ATGATTTGAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.36
Consensus pattern (17 bp):
CAAATTTAAAATAAATT
Found at i:24033713 original size:93 final size:93
Alignment explanation
Indices: 24033538--24033713 Score: 228
Period size: 93 Copynumber: 1.9 Consensus size: 93
24033528 TTATACCAAG
* * **
24033538 TATCAATATCAATTTGAGCTTCGAAGTTCAGAACAATCGGGCAAAAATCAAAAGTATCGATACCT
1 TATCAATATCAATTTGACCTTCGAAGTTCAGAAAAATCGAACAAAAATCAAAAGTATCGATACCT
* *
24033603 TAAAAAAATTATTGATACCCTTGCTTGA
66 TAAAAAAAGTATCGATACCCTTGCTTGA
* * ** *
24033631 TATCAATATCAATTTGACCTTTGATGTTTTGAAAAATTGAACAAAAATCAAAAGTATCGATACCC
1 TATCAATATCAATTTGACCTTCGAAGTTCAGAAAAATCGAACAAAAATCAAAAGTATCGATA-CC
*
24033696 TT-AACAAAGTATCGATAC
65 TTAAAAAAAGTATCGATAC
24033714 ATTTCAAAAT
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
93 66 0.94
94 4 0.06
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.30
Consensus pattern (93 bp):
TATCAATATCAATTTGACCTTCGAAGTTCAGAAAAATCGAACAAAAATCAAAAGTATCGATACCT
TAAAAAAAGTATCGATACCCTTGCTTGA
Found at i:24038612 original size:16 final size:15
Alignment explanation
Indices: 24038575--24038613 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
24038565 TAGTTCATAC
*
24038575 AAAATAATAATATTT
1 AAAATAATAATAATT
24038590 AAAATAATAATTAATT
1 AAAATAATAA-TAATT
*
24038606 AACATAAT
1 AAAATAAT
24038614 TAAAATATAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (15 bp):
AAAATAATAATAATT
Found at i:24041740 original size:29 final size:29
Alignment explanation
Indices: 24041697--24041810 Score: 140
Period size: 29 Copynumber: 3.9 Consensus size: 29
24041687 ATACCCGGGG
24041697 GCAAAAATGATAATTTTTGGAAGTTTTGGA
1 GCAAAAATG-TAATTTTTGGAAGTTTTGGA
* ** *
24041727 GCCAAAATGTAATTTTTGGAAGTTCGGGG
1 GCAAAAATGTAATTTTTGGAAGTTTTGGA
* *
24041756 GTAAAAATGTAATTTTTAGAAGTTTT-GA
1 GCAAAAATGTAATTTTTGGAAGTTTTGGA
24041784 GGTCAAAAATGTAATTTTTGGAAGTTT
1 -G-CAAAAATGTAATTTTTGGAAGTTT
24041811 CAAGGTTAAA
Statistics
Matches: 70, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
28 1 0.01
29 39 0.56
30 30 0.43
ACGTcount: A:0.34, C:0.04, G:0.24, T:0.38
Consensus pattern (29 bp):
GCAAAAATGTAATTTTTGGAAGTTTTGGA
Found at i:24041763 original size:59 final size:60
Alignment explanation
Indices: 24041692--24041841 Score: 198
Period size: 59 Copynumber: 2.5 Consensus size: 60
24041682 TTTGGATACC
* * *
24041692 CGGGGGCAAAAATGATAATTTTTGGAAGTTTTG-GAG-CCAAAATGTAATTTTTGGAAG-TT
1 CGGGGGTAAAAATG-TAATTTTTAGAAGTTTTGAG-GTCAAAAATGTAATTTTTGGAAGTTT
24041751 CGGGGGTAAAAATGTAATTTTTAGAAGTTTTGAGGTCAAAAATGTAATTTTTGGAAGTTT
1 CGGGGGTAAAAATGTAATTTTTAGAAGTTTTGAGGTCAAAAATGTAATTTTTGGAAGTTT
** *
24041811 CAAGGTTAAAAATGTAATTTTTAGATAGTTT
1 CGGGGGTAAAAATGTAATTTTTAGA-AGTTT
24041842 AGGGACCTTC
Statistics
Matches: 81, Mismatches: 6, Indels: 6
0.87 0.06 0.06
Matches are distributed among these distances:
58 18 0.22
59 34 0.42
60 24 0.30
61 5 0.06
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (60 bp):
CGGGGGTAAAAATGTAATTTTTAGAAGTTTTGAGGTCAAAAATGTAATTTTTGGAAGTTT
Found at i:24041822 original size:30 final size:30
Alignment explanation
Indices: 24041730--24041841 Score: 145
Period size: 30 Copynumber: 3.7 Consensus size: 30
24041720 TTTTGGAGCC
* * *
24041730 AAAATGTAATTTTTGGAAG-TTCGGGGGTA
1 AAAATGTAATTTTTAGAAGTTTCGAGGTTA
* *
24041759 AAAATGTAATTTTTAGAAGTTTTGAGGTCA
1 AAAATGTAATTTTTAGAAGTTTCGAGGTTA
* *
24041789 AAAATGTAATTTTTGGAAGTTTCAAGGTTA
1 AAAATGTAATTTTTAGAAGTTTCGAGGTTA
24041819 AAAATGTAATTTTTAGATAGTTT
1 AAAATGTAATTTTTAGA-AGTTT
24041842 AGGGACCTTC
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
29 18 0.25
30 48 0.68
31 5 0.07
ACGTcount: A:0.36, C:0.03, G:0.21, T:0.40
Consensus pattern (30 bp):
AAAATGTAATTTTTAGAAGTTTCGAGGTTA
Found at i:24042927 original size:3 final size:3
Alignment explanation
Indices: 24042915--24042966 Score: 59
Period size: 3 Copynumber: 17.0 Consensus size: 3
24042905 ATAAATGTTG
* * *
24042915 TTA TTG TTA TTA TTA TTAA TTA TTA TTA TTA TTA CTA TTA ATA TTA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
24042961 TAA TTA
1 TTA TTA
24042967 ATGTTAACAT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
3 37 0.93
4 3 0.08
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:24043734 original size:17 final size:17
Alignment explanation
Indices: 24043712--24043759 Score: 78
Period size: 17 Copynumber: 2.8 Consensus size: 17
24043702 AACTTTATTT
*
24043712 ATTTTAAATTTATAATA
1 ATTTTAAATTTAAAATA
24043729 ATTTTAAATTTAAAATA
1 ATTTTAAATTTAAAATA
*
24043746 AATTTAAATTTAAA
1 ATTTTAAATTTAAA
24043760 TTTTAAAACA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
ATTTTAAATTTAAAATA
Found at i:24043740 original size:6 final size:6
Alignment explanation
Indices: 24043714--24043762 Score: 50
Period size: 6 Copynumber: 8.5 Consensus size: 6
24043704 CTTTATTTAT
* *
24043714 TTTAAA TTTATAA --TAAT TTTAAA TTTAAA -ATAAA TTTAAA TTTAAA
1 TTTAAA TTTA-AA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
24043760 TTT
1 TTT
24043763 TAAAACAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
4 1 0.03
5 6 0.17
6 26 0.74
7 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (6 bp):
TTTAAA
Found at i:24043755 original size:24 final size:24
Alignment explanation
Indices: 24043731--24043776 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
24043721 TTATAATAAT
*
24043731 TTTAAA-TTTAAAATAAATTTAAA
1 TTTAAATTTTAAAACAAATTTAAA
24043754 TTTAAATTTTAAAACAAATTTAA
1 TTTAAATTTTAAAACAAATTTAA
24043777 TCTTAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (24 bp):
TTTAAATTTTAAAACAAATTTAAA
Found at i:24043774 original size:18 final size:18
Alignment explanation
Indices: 24043751--24043794 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
24043741 AAATAAATTT
*
24043751 AAATTTAAATTTTAAAAC
1 AAATTTAAATCTTAAAAC
*
24043769 AAATTT-AATCTTAAAAT
1 AAATTTAAATCTTAAAAC
24043786 AAATTTAAA
1 AAATTTAAA
24043795 ATGAGTTTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 15 0.65
18 8 0.35
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (18 bp):
AAATTTAAATCTTAAAAC
Found at i:24043782 original size:24 final size:22
Alignment explanation
Indices: 24043731--24043783 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 22
24043721 TTATAATAAT
*
24043731 TTTAAATTTAAAATAAATTTAAA
1 TTTAAATTTAAAACAAATTT-AA
24043754 TTTAAATTTTAAAACAAATTTAA
1 TTTAAA-TTTAAAACAAATTTAA
24043777 TCTTAAA
1 T-TTAAA
24043784 ATAAATTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 9 0.33
24 18 0.67
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (22 bp):
TTTAAATTTAAAACAAATTTAA
Found at i:24043796 original size:11 final size:11
Alignment explanation
Indices: 24043733--24043776 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
24043723 ATAATAATTT
24043733 TAAATTTAAAA
1 TAAATTTAAAA
*
24043744 TAAATTTAAATT
1 TAAATTTAAA-A
24043756 TAAATTTTAAAA
1 TAAA-TTTAAAA
*
24043768 CAAATTTAA
1 TAAATTTAA
24043777 TCTTAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
11 15 0.54
12 7 0.25
13 6 0.21
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:24044624 original size:201 final size:201
Alignment explanation
Indices: 24044127--24044759 Score: 817
Period size: 201 Copynumber: 3.1 Consensus size: 201
24044117 ACTTGGCCTT
* ** * * *
24044127 CTTCTCAGTATCTCATCAGGAAGATGACTGCATCACTTGTTTTGATCCACTTCTCTGTGTTTCAT
1 CTTCTCTGTATCTCATCAGGAAGATGACTGCATCACTTGTTTCAATCCGCTTCTCTGTATCTCAT
* * *
24044192 CAGGAAGACGAATTTGGTTCACTTCTTC-GTATCTCATCAGGAAGCAAACCACTTTATTGCTTCG
66 CAGGAAGACGAATTTGGTCCACTTC-TCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCG
* * *
24044256 ACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCATATCGAGCG-TGAGT
130 ACCTGCTTCTCAATATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATTGAGCGCTGAG-
* *
24044320 TTGATTTA
194 TTGGTATA
** *
24044328 GTCTTCTTCTCAGTATCTCATCAGGAAGATGACTGCATCGTTTGTTTCAATCCGCTTCTCTATAT
1 --CTTC-TCT--GTATCTCATCAGGAAGATGACTGCATCACTTGTTTCAATCCGCTTCTCTGTAT
* * *
24044393 CTCATCAAGAAGACGAATTTGGTCCACTTCTCAGTATCTCATAAGCAAGCTAACCATTTTATTGC
61 CTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGC
* * * *
24044458 TTCGACCTCCTTCTCAATGTCTCATCAGGAAGATGGGGTTCGAAGATTTCCTCACATTGAGCGCT
126 TTCGACCTGCTTCTCAATATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATTGAGCGCT
24044523 GAGTTGGTATA
191 GAGTTGGTATA
* * * *
24044534 CTTCTCTGTTTCTCATCAAGAAGATGAGCAGC-TCACTTGTTTCAATTCGCTTCTCTGTATCTCA
1 CTTCTCTGTATCTCATCAGGAAGATGA-CTGCATCACTTGTTTCAATCCGCTTCTCTGTATCTCA
*
24044598 TCAGGAAGACGAATTTGGTCCACTTCTTAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCG
65 TCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCG
* * * **
24044663 ACCTGCTTCTCAGA-ATCTCATCAGGAAGCTGAGGTGCGAATATTTGCTCGGATTGAGC-CTCGA
130 ACCTGCTTCTCA-ATATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATTGAGCGCT-GA
*
24044726 GTTGGCATA
193 GTTGGTATA
*
24044735 CTTCTCTGAATCTCATCAGGAAGAT
1 CTTCTCTGTATCTCATCAGGAAGAT
24044760 AACCGCCTCA
Statistics
Matches: 374, Mismatches: 48, Indels: 18
0.85 0.11 0.04
Matches are distributed among these distances:
200 2 0.01
201 186 0.50
202 4 0.01
203 7 0.02
204 6 0.02
205 2 0.01
206 163 0.44
207 4 0.01
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (201 bp):
CTTCTCTGTATCTCATCAGGAAGATGACTGCATCACTTGTTTCAATCCGCTTCTCTGTATCTCAT
CAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGA
CCTGCTTCTCAATATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATTGAGCGCTGAGTT
GGTATA
Found at i:24056770 original size:29 final size:29
Alignment explanation
Indices: 24056731--24056957 Score: 251
Period size: 29 Copynumber: 7.8 Consensus size: 29
24056721 TACCCGGGGA
* *
24056731 AAAATGATAATTTTTGGGAGTTTTAGGATT
1 AAAATG-TAATTTTTGGAAGTTTTAGGGTT
* *
24056761 AAAATGTAATTTTTGAAAGTTTTGGGGTT
1 AAAATGTAATTTTTGGAAGTTTTAGGGTT
* * * *
24056790 AAAAATGAAATTTATGAAAG-TTTAGGGGT
1 -AAAATGTAATTTTTGGAAGTTTTAGGGTT
*
24056819 AAGAATGTAATTTTTGAAAGTTTTAGGGTT
1 AA-AATGTAATTTTTGGAAGTTTTAGGGTT
* * * *
24056849 AAAAATGTAATGTTTAGAAGTTTAAGGGTA
1 -AAAATGTAATTTTTGGAAGTTTTAGGGTT
* *
24056879 AAAATGTAATTTTTAGAAGTTTTGGGGTT
1 AAAATGTAATTTTTGGAAGTTTTAGGGTT
*
24056908 AAAATGTAATTTTTGGAAG-TTTAGGGGT
1 AAAATGTAATTTTTGGAAGTTTTAGGGTT
*
24056936 AAAATGTAATTTTTGAAAGTTT
1 AAAATGTAATTTTTGGAAGTTT
24056958 GGGTTCAAAA
Statistics
Matches: 168, Mismatches: 24, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
28 27 0.16
29 86 0.51
30 53 0.32
31 2 0.01
ACGTcount: A:0.36, C:0.00, G:0.23, T:0.41
Consensus pattern (29 bp):
AAAATGTAATTTTTGGAAGTTTTAGGGTT
Found at i:24056795 original size:30 final size:30
Alignment explanation
Indices: 24056730--24056986 Score: 248
Period size: 29 Copynumber: 8.8 Consensus size: 30
24056720 ATACCCGGGG
** * *
24056730 AAAAATGATAATTTTTGGGAGTTTTAGGATT
1 AAAAATG-TAATTTTTGAAAGTTTTGGGGTT
24056761 -AAAATGTAATTTTTGAAAGTTTTGGGGTT
1 AAAAATGTAATTTTTGAAAGTTTTGGGGTT
* * *
24056790 AAAAATGAAATTTATGAAAGTTTAGGGG-T
1 AAAAATGTAATTTTTGAAAGTTTTGGGGTT
* *
24056819 AAGAATGTAATTTTTGAAAGTTTTAGGGTT
1 AAAAATGTAATTTTTGAAAGTTTTGGGGTT
* **
24056849 AAAAATGTAATGTTT-AGAAGTTTAAGGG-T
1 AAAAATGTAATTTTTGA-AAGTTTTGGGGTT
24056878 AAAAATGTAATTTTT-AGAAGTTTTGGGGTT
1 AAAAATGTAATTTTTGA-AAGTTTTGGGGTT
* *
24056908 -AAAATGTAATTTTTGGAAGTTTAGGGG-T
1 AAAAATGTAATTTTTGAAAGTTTTGGGGTT
24056936 -AAAATGTAATTTTTGAAAG-TTT-GGGTT
1 AAAAATGTAATTTTTGAAAGTTTTGGGGTT
* *
24056963 CAAAATATATAATTTATG-AAGTTT
1 -AAAA-ATGTAATTTTTGAAAGTTT
24056987 CGAGGTCAAA
Statistics
Matches: 192, Mismatches: 24, Indels: 21
0.81 0.10 0.09
Matches are distributed among these distances:
26 3 0.02
27 3 0.02
28 19 0.10
29 100 0.52
30 67 0.35
ACGTcount: A:0.37, C:0.00, G:0.23, T:0.40
Consensus pattern (30 bp):
AAAAATGTAATTTTTGAAAGTTTTGGGGTT
Found at i:24056802 original size:59 final size:58
Alignment explanation
Indices: 24056730--24056957 Score: 298
Period size: 59 Copynumber: 3.9 Consensus size: 58
24056720 ATACCCGGGG
* **
24056730 AAAAATGATAATTTTTGGGAGTTTTAGGATTAAAATGTAATTTTTGAAAGTTTTGGGGTT
1 AAAAATGA-AATTTTTGGAAG-TTTAGGGGTAAAATGTAATTTTTGAAAGTTTTGGGGTT
* * *
24056790 AAAAATGAAATTTATGAAAGTTTAGGGGTAAGAATGTAATTTTTGAAAGTTTTAGGGTT
1 AAAAATGAAATTTTTGGAAGTTTAGGGGTAA-AATGTAATTTTTGAAAGTTTTGGGGTT
* * * *
24056849 AAAAATGTAATGTTTAGAAGTTTAAGGGTAAAAATGTAATTTTT-AGAAGTTTTGGGGTT
1 AAAAATGAAATTTTTGGAAGTTTAGGGGT-AAAATGTAATTTTTGA-AAGTTTTGGGGTT
*
24056908 -AAAATGTAATTTTTGGAAGTTTAGGGGTAAAATGTAATTTTTGAAAGTTT
1 AAAAATGAAATTTTTGGAAGTTTAGGGGTAAAATGTAATTTTTGAAAGTTT
24056958 GGGTTCAAAA
Statistics
Matches: 148, Mismatches: 16, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
57 20 0.14
58 36 0.24
59 82 0.55
60 10 0.07
ACGTcount: A:0.36, C:0.00, G:0.23, T:0.40
Consensus pattern (58 bp):
AAAAATGAAATTTTTGGAAGTTTAGGGGTAAAATGTAATTTTTGAAAGTTTTGGGGTT
Found at i:24059427 original size:23 final size:23
Alignment explanation
Indices: 24059394--24059604 Score: 195
Period size: 23 Copynumber: 9.4 Consensus size: 23
24059384 GCTGGGCAAT
* *
24059394 AGAGAACACACAAAGTGCTAAAC
1 AGAGAGCACACAAAGTGCTAATC
*
24059417 AGAGAGTACACAAA--G-T-A-C
1 AGAGAGCACACAAAGTGCTAATC
* *
24059435 TG--AGCACACAAAGTGCTCATC
1 AGAGAGCACACAAAGTGCTAATC
*
24059456 AGAGAGCACACGAAGTGCTAATC
1 AGAGAGCACACAAAGTGCTAATC
*
24059479 AGAGAGCACACATAGTGCTAATAAC
1 AGAGAGCACACAAAGTGCTAAT--C
* * *
24059504 AGAGAGCACGA-GACGTGCTAAAC
1 AGAGAGCAC-ACAAAGTGCTAATC
* *
24059527 AGAGAGCACACACAGTGTTAATC
1 AGAGAGCACACAAAGTGCTAATC
* *
24059550 AGAGGGCACACACAGTGCTAATC
1 AGAGAGCACACAAAGTGCTAATC
*
24059573 AGAGAGCACACACAGTGCTAATC
1 AGAGAGCACACAAAGTGCTAATC
*
24059596 AGAGGGCAC
1 AGAGAGCAC
24059605 GCTAGTGTTC
Statistics
Matches: 155, Mismatches: 22, Indels: 22
0.78 0.11 0.11
Matches are distributed among these distances:
16 9 0.06
18 3 0.02
19 2 0.01
20 2 0.01
21 3 0.02
22 1 0.01
23 117 0.75
25 17 0.11
26 1 0.01
ACGTcount: A:0.41, C:0.23, G:0.24, T:0.13
Consensus pattern (23 bp):
AGAGAGCACACAAAGTGCTAATC
Found at i:24061711 original size:18 final size:17
Alignment explanation
Indices: 24061688--24061746 Score: 82
Period size: 18 Copynumber: 3.4 Consensus size: 17
24061678 CTTTATTTAT
24061688 TTTAAATTTGAAAATAAA
1 TTTAAATTT-AAAATAAA
* *
24061706 TTTAAACTTAAATTAAA
1 TTTAAATTTAAAATAAA
24061723 TTTAAATCTTAAAATAAA
1 TTTAAAT-TTAAAATAAA
24061741 TTTAAA
1 TTTAAA
24061747 ATGAGTTTGG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
17 13 0.36
18 23 0.64
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:24061717 original size:12 final size:11
Alignment explanation
Indices: 24061689--24061746 Score: 55
Period size: 11 Copynumber: 5.0 Consensus size: 11
24061679 TTTATTTATT
24061689 TTAAATTTGAAA
1 TTAAATTT-AAA
*
24061701 ATAAATTTAAA
1 TTAAATTTAAA
24061712 CTTAAA-TTAAA
1 -TTAAATTTAAA
24061723 TTTAAATCTTAAA
1 -TTAAAT-TTAAA
*
24061736 ATAAATTTAAA
1 TTAAATTTAAA
24061747 ATGAGTTTGG
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
11 18 0.46
12 16 0.41
13 5 0.13
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (11 bp):
TTAAATTTAAA
Found at i:24061746 original size:6 final size:6
Alignment explanation
Indices: 24061688--24061746 Score: 52
Period size: 6 Copynumber: 10.0 Consensus size: 6
24061678 CTTTATTTAT
* *
24061688 TTTAAA TTTGAAA -ATAAA TTTAAA CTTAAA -TTAAA TTTAAA TCTTAAA
1 TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA
*
24061736 -ATAAA TTTAAA
1 TTTAAA TTTAAA
24061747 ATGAGTTTGG
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
5 12 0.28
6 23 0.53
7 8 0.19
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (6 bp):
TTTAAA
Found at i:24062322 original size:44 final size:41
Alignment explanation
Indices: 24062248--24062352 Score: 110
Period size: 44 Copynumber: 2.5 Consensus size: 41
24062238 GTTCTTTTCT
*
24062248 ATAAAATATCTTCAGATTTTATTTTCTTTTTTAAATTTATTTGC
1 ATAAAATATCTTCAGATTTTATTATCTTTTTT---TTTATTTGC
*
24062292 ATAAAATATCTTCAGATTCTT-TTAAT-TTTTTTTTTTTTTGC
1 ATAAAATATCTTCAGATT-TTATT-ATCTTTTTTTTTATTTGC
*
24062333 --AAAATATCTTCAGATATTAT
1 ATAAAATATCTTCAGATTTTAT
24062353 ATTTGTTGCT
Statistics
Matches: 55, Mismatches: 3, Indels: 11
0.80 0.04 0.16
Matches are distributed among these distances:
38 2 0.04
39 16 0.29
41 8 0.15
44 26 0.47
45 3 0.05
ACGTcount: A:0.30, C:0.10, G:0.05, T:0.55
Consensus pattern (41 bp):
ATAAAATATCTTCAGATTTTATTATCTTTTTTTTTATTTGC
Found at i:24063541 original size:2 final size:2
Alignment explanation
Indices: 24063529--24063557 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
24063519 AAACACAAAC
24063529 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24063558 GGCCATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:24067107 original size:29 final size:30
Alignment explanation
Indices: 24067064--24067120 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
24067054 ATTAAAGAGG
* *
24067064 AAAGAAAATGGAAAAG-AAAAATCAAAGTA
1 AAAGAAAAAGAAAAAGAAAAAATCAAAGTA
24067093 AAAGAAAAAGAAAAAGAAAAAATCAAAG
1 AAAGAAAAAGAAAAAGAAAAAATCAAAG
24067121 AAAGTATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 14 0.56
30 11 0.44
ACGTcount: A:0.74, C:0.04, G:0.16, T:0.07
Consensus pattern (30 bp):
AAAGAAAAAGAAAAAGAAAAAATCAAAGTA
Found at i:24070149 original size:8 final size:8
Alignment explanation
Indices: 24070136--24070160 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
24070126 TTGGTCTAAC
24070136 ATTTTAAA
1 ATTTTAAA
24070144 ATTTTAAA
1 ATTTTAAA
24070152 ATTTTAAA
1 ATTTTAAA
24070160 A
1 A
24070161 AAAGTACTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
ATTTTAAA
Found at i:24080025 original size:161 final size:155
Alignment explanation
Indices: 24079658--24080202 Score: 606
Period size: 151 Copynumber: 3.5 Consensus size: 155
24079648 CTCAAAACTC
* * ** *
24079658 TGGCCCATACAGGCCTCGAACCTAAGACCTTCGCGTTATTAGCACGACGCCCTAACCAGCTGAGC
1 TGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
** * * * ** * *
24079723 TAATAGGCCACTAACGTTCAACTCTAAATTCTGTTTTAATAAATGCGTAAAACGCTGCCGTTTTA
66 TAATAGGCCGTTGACGTT-AA-TTTAAATTCT-CTTTAATAAATATGAAAAACGTTG-CG-TTT-
* * * * *
24079788 CTCAAAAGG-TATATATAAGAACATTAC-AA
125 CTAAAAAGGATATATAAAACAAAAATACAAA
* * * * *
24079817 TGGCCCACGC-GGATCTCGAACCAGCGACCTTAGCGTTAATAGCACGACGCTCTTACCAGCTGAG
1 TGGCCCATGCAGG-TCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAG
* * *
24079881 CTAATAGGCCGTTGATGGTTAATATTAAATTCTCTTTCAAAAAATAATGGAAAACGTTAGACGTT
65 CTAATAGGCCGTTGA-CGTTAAT-TTAAATTCTCTTT-AATAAAT-ATGAAAAACGTT-G-CGTT
24079946 TCTAAAAAGGATATATAAAACAAAAATACAAA
124 TCTAAAAAGGATATATAAAACAAAAATACAAA
24079978 TGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
1 TGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
* *
24080043 TAATAGGCCGTTGACGTT--TTCTAAATTC-C-GTAATAAATCATTAAAAACGTT--GTTTCTAA
66 TAATAGGCCGTTGACGTTAATT-TAAATTCTCTTTAATAAAT-ATGAAAAACGTTGCGTTTCTAA
*
24080102 AAAGGATATATAGAAC-AAAATCACAAA
129 AAAGGATATATAAAACAAAAAT-ACAAA
24080129 TGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
1 TGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
24080194 TAATAGGCC
66 TAATAGGCC
24080203 ATCGATGTAT
Statistics
Matches: 336, Mismatches: 39, Indels: 30
0.83 0.10 0.07
Matches are distributed among these distances:
150 5 0.01
151 102 0.30
155 16 0.05
156 1 0.00
157 2 0.01
158 14 0.04
159 87 0.26
160 31 0.09
161 76 0.23
162 2 0.01
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (155 bp):
TGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
TAATAGGCCGTTGACGTTAATTTAAATTCTCTTTAATAAATATGAAAAACGTTGCGTTTCTAAAA
AGGATATATAAAACAAAAATACAAA
Found at i:24089300 original size:33 final size:29
Alignment explanation
Indices: 24089276--24089350 Score: 53
Period size: 33 Copynumber: 2.3 Consensus size: 29
24089266 TTATTTAAAT
*
24089276 ATTTAAAATATAGTTTATATATTTTAATTAAAT
1 ATTTAAAATA-A--TTA-ATATTTTATTTAAAT
24089309 -TTTATAAATAATTAATATTAATTATTTAAAAAT
1 ATTTA-AAATAATTAATATT--TTATTT--AAAT
24089342 ATTTAAAAT
1 ATTTAAAAT
24089351 TAATATTTCA
Statistics
Matches: 35, Mismatches: 1, Indels: 12
0.73 0.02 0.25
Matches are distributed among these distances:
29 5 0.14
30 3 0.09
31 5 0.14
32 5 0.14
33 13 0.37
34 4 0.11
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (29 bp):
ATTTAAAATAATTAATATTTTATTTAAAT
Found at i:24089341 original size:24 final size:23
Alignment explanation
Indices: 24089301--24089358 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 23
24089291 TATATATTTT
*
24089301 AATTAA-ATTTTATAAATAATTAA
1 AATTAATA-TTTAAAAATAATTAA
* *
24089324 TATTAATTATTTAAAAATATTTAA
1 AATTAA-TATTTAAAAATAATTAA
24089348 AATTAATATTT
1 AATTAATATTT
24089359 CATATATTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 10 0.34
24 18 0.62
25 1 0.03
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
AATTAATATTTAAAAATAATTAA
Found at i:24089583 original size:12 final size:13
Alignment explanation
Indices: 24089552--24089617 Score: 87
Period size: 13 Copynumber: 5.1 Consensus size: 13
24089542 TTTATACAAA
24089552 ACTTTTCAAAAAT
1 ACTTTTCAAAAAT
* *
24089565 ACTTTTTAAAAGT
1 ACTTTTCAAAAAT
* *
24089578 ACTTTTCTACAAT
1 ACTTTTCAAAAAT
24089591 ACTTTTCAAAAAT
1 ACTTTTCAAAAAT
*
24089604 ATTTTTCAAAAAT
1 ACTTTTCAAAAAT
24089617 A
1 A
24089618 ATACTAAATT
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 44 1.00
ACGTcount: A:0.42, C:0.14, G:0.02, T:0.42
Consensus pattern (13 bp):
ACTTTTCAAAAAT
Found at i:24107646 original size:19 final size:20
Alignment explanation
Indices: 24107624--24107665 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
24107614 AATGATAGCA
24107624 AAATAGT-GCAAAAAATGGG
1 AAATAGTGGCAAAAAATGGG
*
24107643 AAATAGTGGCAAAAAGTGGG
1 AAATAGTGGCAAAAAATGGG
24107663 AAA
1 AAA
24107666 ACAACAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.52, C:0.05, G:0.29, T:0.14
Consensus pattern (20 bp):
AAATAGTGGCAAAAAATGGG
Found at i:24108964 original size:20 final size:20
Alignment explanation
Indices: 24108935--24108982 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
24108925 AAATGGTTAA
* *
24108935 TTAACATAATTAACCTTACT
1 TTAACTTAATAAACCTTACT
*
24108955 TTAACTTAATAAACCTTATT
1 TTAACTTAATAAACCTTACT
24108975 TTAA-TTAA
1 TTAACTTAA
24108983 ATTATTAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.44
Consensus pattern (20 bp):
TTAACTTAATAAACCTTACT
Found at i:24110586 original size:10 final size:9
Alignment explanation
Indices: 24110572--24110723 Score: 56
Period size: 10 Copynumber: 15.7 Consensus size: 9
24110562 TTTTTAAGAA
24110572 TTTTATATT
1 TTTTATATT
24110581 TCTTTATATT
1 T-TTTATATT
*
24110591 TTGTATATTT
1 TTTTATA-TT
* *
24110601 TTCTTACGACT
1 TT-TTA-TATT
* * *
24110612 TTATAAAAT
1 TTTTATATT
24110621 -TTTATA-T
1 TTTTATATT
24110628 TTTTATATT
1 TTTTATATT
* *
24110637 TCTATACATT
1 T-TTTATATT
* *
24110647 TTATAAATTTT
1 TT-T-TATATT
*
24110658 TTTTACAATT
1 TTTTA-TATT
24110668 TTTTATATTT
1 TTTTATA-TT
*
24110678 TTTTACAATTTT
1 TTTT---ATATT
24110690 TTTTATATT
1 TTTTATATT
24110699 TTTTATATT
1 TTTTATATT
*
24110708 TTTAAATATT
1 TTT-TATATT
24110718 TTTTAT
1 TTTTAT
24110724 TAAAATTTAA
Statistics
Matches: 105, Mismatches: 23, Indels: 30
0.66 0.15 0.19
Matches are distributed among these distances:
7 1 0.01
8 10 0.10
9 31 0.30
10 44 0.42
11 10 0.10
12 7 0.07
13 2 0.02
ACGTcount: A:0.27, C:0.05, G:0.01, T:0.66
Consensus pattern (9 bp):
TTTTATATT
Found at i:24110650 original size:35 final size:37
Alignment explanation
Indices: 24110583--24110658 Score: 95
Period size: 35 Copynumber: 2.1 Consensus size: 37
24110573 TTTATATTTC
24110583 TTTATATTTTGTATATTTTTCTTACGACTTTATAAAAT
1 TTTATATTTTGTATA-TTTTCTTACGACTTTATAAAAT
* *
24110621 TTTATATTTT-TATA-TTTCTATAC-ATTTTATAAATT
1 TTTATATTTTGTATATTTTCT-TACGACTTTATAAAAT
24110656 TTT
1 TTT
24110659 TTTACAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
35 18 0.51
36 3 0.09
37 4 0.11
38 10 0.29
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.62
Consensus pattern (37 bp):
TTTATATTTTGTATATTTTCTTACGACTTTATAAAAT
Found at i:24110679 original size:22 final size:20
Alignment explanation
Indices: 24110627--24110721 Score: 86
Period size: 20 Copynumber: 4.7 Consensus size: 20
24110617 AAATTTTATA
* *
24110627 TTTTTATATTTCTATAC-AT
1 TTTTTATATTTTTTTACAAT
* *
24110646 TTTATAAATTTTTTTTACAAT
1 TTTTTATA-TTTTTTTACAAT
24110667 TTTTTATATTTTTTTACAAT
1 TTTTTATATTTTTTTACAAT
* *
24110687 TTTTTTTATATTTTTTA-TAT
1 TTTTTATAT-TTTTTTACAAT
*
24110707 TTTTAAATATTTTTT
1 TTTT-TATATTTTTT
24110722 ATTAAAATTT
Statistics
Matches: 62, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
19 6 0.10
20 38 0.61
21 18 0.29
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTTTATATTTTTTTACAAT
Found at i:24110700 original size:9 final size:9
Alignment explanation
Indices: 24110620--24110723 Score: 57
Period size: 10 Copynumber: 10.7 Consensus size: 9
24110610 CTTTATAAAA
24110620 TTTTATA-T
1 TTTTATATT
24110628 TTTTATATT
1 TTTTATATT
* *
24110637 TCTATACATT
1 T-TTTATATT
* *
24110647 TTATAAATTTT
1 TT-T-TATATT
*
24110658 TTTTACAATT
1 TTTTA-TATT
24110668 TTTTATATTT
1 TTTTATA-TT
*
24110678 TTTTACAATTTT
1 TTTT---ATATT
24110690 TTTTATATT
1 TTTTATATT
24110699 TTTTATATT
1 TTTTATATT
*
24110708 TTTAAATATT
1 TTT-TATATT
24110718 TTTTAT
1 TTTTAT
24110724 TAAAATTTAA
Statistics
Matches: 72, Mismatches: 14, Indels: 19
0.69 0.13 0.18
Matches are distributed among these distances:
8 7 0.10
9 23 0.32
10 29 0.40
11 5 0.07
12 6 0.08
13 2 0.03
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (9 bp):
TTTTATATT
Found at i:24110700 original size:31 final size:30
Alignment explanation
Indices: 24110627--24110721 Score: 104
Period size: 31 Copynumber: 3.1 Consensus size: 30
24110617 AAATTTTATA
* *
24110627 TTTTTATA-TTTCTATACATTTTATAAATTT
1 TTTTTATATTTTTTATA-TTTTTATAAATTT
* *
24110657 TTTTTACAATTTTTTATATTTTTTTACAATTT
1 TTTTTA-TATTTTTTATATTTTTATA-AATTT
24110689 TTTTTATATTTTTTATATTTTTA-AATATTT
1 TTTTTATATTTTTTATATTTTTATAA-ATTT
24110719 TTT
1 TTT
24110722 ATTAAAATTT
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
29 1 0.02
30 14 0.25
31 22 0.40
32 18 0.33
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.69
Consensus pattern (30 bp):
TTTTTATATTTTTTATATTTTTATAAATTT
Found at i:24110711 original size:17 final size:18
Alignment explanation
Indices: 24110620--24110723 Score: 57
Period size: 21 Copynumber: 5.3 Consensus size: 18
24110610 CTTTATAAAA
24110620 TTTTATATTTTT-ATATT
1 TTTTATATTTTTAATATT
* * *
24110637 TCTATACATTTTATAAATTTT
1 T-TTTATATTTT-T-AATATT
* *
24110658 TTTTACAATTTTTTATATTT
1 TTTTA-TATTTTTAATA-TT
* *
24110678 TTTTACAATTTTTTTTATATT
1 TTTT---ATATTTTTAATATT
24110699 TTTTATATTTTTAAATATT
1 TTTTATATTTTT-AATATT
24110718 TTTTAT
1 TTTTAT
24110724 TAAAATTTAA
Statistics
Matches: 66, Mismatches: 11, Indels: 18
0.69 0.12 0.19
Matches are distributed among these distances:
17 1 0.02
18 15 0.23
19 14 0.21
20 10 0.15
21 16 0.24
22 9 0.14
23 1 0.02
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTATATTTTTAATATT
Found at i:24110955 original size:89 final size:89
Alignment explanation
Indices: 24110789--24110956 Score: 237
Period size: 90 Copynumber: 1.9 Consensus size: 89
24110779 AAGCAGGAGT
** * * *
24110789 TTAATTGCTTTTTTTGAAAATGTTTGAGGGTTTTTTGATGCATTTTAAAAGTTCAAGTACCCAAT
1 TTAATTGCTTTTTTTGAAAAAATTTGAGGGCTTTTTGATGAATTTTAAAAGTTCAAGTACCCAAA
**
24110854 TAAGTGCAAAAAAAAAGTAGGGGC
66 TAAGAACAAAAAAAAAGTAGGGGC
* *
24110878 TTAATTGCTTTTTTTGAAAAAATTTGAGGGACTTTTTGATGAATTTTGAAAGTTCAAGTACTCAA
1 TTAATTGCTTTTTTTGAAAAAATTTGAGGG-CTTTTTGATGAATTTTAAAAGTTCAAGTACCCAA
*
24110943 ATGAGAACAAAAAA
65 ATAAGAACAAAAAA
24110957 TAAAAAAATG
Statistics
Matches: 68, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
89 28 0.41
90 40 0.59
ACGTcount: A:0.36, C:0.08, G:0.18, T:0.37
Consensus pattern (89 bp):
TTAATTGCTTTTTTTGAAAAAATTTGAGGGCTTTTTGATGAATTTTAAAAGTTCAAGTACCCAAA
TAAGAACAAAAAAAAAGTAGGGGC
Found at i:24116382 original size:22 final size:22
Alignment explanation
Indices: 24116352--24116405 Score: 90
Period size: 22 Copynumber: 2.4 Consensus size: 22
24116342 ACGCTAGCGC
24116352 GCTTACTGTTCAGCACTGTGTGT
1 GCTT-CTGTTCAGCACTGTGTGT
*
24116375 GCTTCTGTTCATCACTGTGTGT
1 GCTTCTGTTCAGCACTGTGTGT
24116397 GCTTCTGTT
1 GCTTCTGTT
24116406 TCCCGAGCAG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 26 0.87
23 4 0.13
ACGTcount: A:0.09, C:0.22, G:0.24, T:0.44
Consensus pattern (22 bp):
GCTTCTGTTCAGCACTGTGTGT
Found at i:24120883 original size:2 final size:2
Alignment explanation
Indices: 24120872--24120906 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
24120862 TACAATTTCA
24120872 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24120907 TAATTTATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:24121083 original size:16 final size:16
Alignment explanation
Indices: 24121059--24121106 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 16
24121049 TACTAAATAT
* *
24121059 AATAAAATTATTATTA
1 AATATAATTAATATTA
24121075 AATATAATTTAATATTA
1 AATATAA-TTAATATTA
24121092 ATATATAATTTAATA
1 A-ATATAA-TTAATA
24121107 ACATTCTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.21
17 9 0.32
18 13 0.46
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
AATATAATTAATATTA
Found at i:24121097 original size:18 final size:17
Alignment explanation
Indices: 24121070--24121106 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 17
24121060 ATAAAATTAT
24121070 TATTAAATATAATTTAA
1 TATTAAATATAATTTAA
24121087 TATTAATATATAATTTAA
1 TATTAA-ATATAATTTAA
24121105 TA
1 TA
24121107 ACATTCTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TATTAAATATAATTTAA
Found at i:24129874 original size:43 final size:43
Alignment explanation
Indices: 24129714--24129881 Score: 158
Period size: 43 Copynumber: 3.9 Consensus size: 43
24129704 GAAAAACTCC
* * * * *
24129714 GCTATAGAACATGATCTTTAGCGATGCTTTTCCCACAAACGTC
1 GCTATAGAACATGATCTTTAACGACGCTTTTCTCACAAATGTT
* * *
24129757 GCTGTAGAACATGGTCTTTAACGACGCTTTT-TCCACAAATGCT
1 GCTATAGAACATGATCTTTAACGACGCTTTTCT-CACAAATGTT
* * * * * *
24129800 GTTATAGAACATGGTTTTTAACGGCGTTTTTCTCACAAATTTT
1 GCTATAGAACATGATCTTTAACGACGCTTTTCTCACAAATGTT
* ** *
24129843 GCTATAGAACATGATCTTTAGCGGTGCTTTTCTTACAAA
1 GCTATAGAACATGATCTTTAACGACGCTTTTCTCACAAA
24129882 CGCCATACTT
Statistics
Matches: 101, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
43 100 0.99
44 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (43 bp):
GCTATAGAACATGATCTTTAACGACGCTTTTCTCACAAATGTT
Found at i:24131045 original size:17 final size:17
Alignment explanation
Indices: 24131023--24131058 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
24131013 AAAATTAAAC
24131023 CAAAGTATTATAACTTA
1 CAAAGTATTATAACTTA
24131040 CAAAGTATTATAACTTA
1 CAAAGTATTATAACTTA
24131057 CA
1 CA
24131059 TTCACATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.47, C:0.14, G:0.06, T:0.33
Consensus pattern (17 bp):
CAAAGTATTATAACTTA
Found at i:24132372 original size:41 final size:41
Alignment explanation
Indices: 24132316--24132540 Score: 193
Period size: 41 Copynumber: 5.7 Consensus size: 41
24132306 AGCAATAGGA
** * *
24132316 AAAACGCTACTAAAGGTCAGAGCAATAGCGACGTTTATGAG
1 AAAACGCCGCTAAAGGTCAGAGCATTAGCGACGTTTATCAG
* *
24132357 AAAACGCCGCTAAAGGTCAGAGCATTAGCGGCGTTTTCTCA-
1 AAAACGCCGCTAAAGGTCAGAGCATTAGCGACG-TTTATCAG
* *
24132398 TAAACGCCGCTAAAGGTCATAGCATTAGCGACGTTTATCAG
1 AAAACGCCGCTAAAGGTCAGAGCATTAGCGACGTTTATCAG
* * * *
24132439 AAAACACTGCTGAAGGTCAGAGCATTAGCAACG--T-TC--
1 AAAACGCCGCTAAAGGTCAGAGCATTAGCGACGTTTATCAG
** * *
24132475 ---A--CCGCTAAAGGTCAGAATATTAGCGGCGTTTATTAG
1 AAAACGCCGCTAAAGGTCAGAGCATTAGCGACGTTTATCAG
* * *
24132511 AAAATGCCACTAAAGGTAAGAGCATTAGCG
1 AAAACGCCGCTAAAGGTCAGAGCATTAGCG
24132541 GTGTTTTCTC
Statistics
Matches: 145, Mismatches: 27, Indels: 24
0.74 0.14 0.12
Matches are distributed among these distances:
31 21 0.14
33 2 0.01
34 1 0.01
38 2 0.01
39 2 0.01
40 6 0.04
41 106 0.73
42 5 0.03
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.22
Consensus pattern (41 bp):
AAAACGCCGCTAAAGGTCAGAGCATTAGCGACGTTTATCAG
Found at i:24132527 original size:72 final size:72
Alignment explanation
Indices: 24132404--24132539 Score: 173
Period size: 72 Copynumber: 1.9 Consensus size: 72
24132394 CTCATAAACG
* * ** * *
24132404 CCGCTAAAGGTCATAGCATTAGCGACGTTTATCAGAAAACACTGCTGAAGGTCAGAGCATTAGCA
1 CCGCTAAAGGTCAGAACATTAGCGACGTTTATCAGAAAACACCACTAAAGGTAAGAGCATTAGCA
24132469 ACGTTCA
66 ACGTTCA
* * * **
24132476 CCGCTAAAGGTCAGAATATTAGCGGCGTTTATTAGAAAATGCCACTAAAGGTAAGAGCATTAGC
1 CCGCTAAAGGTCAGAACATTAGCGACGTTTATCAGAAAACACCACTAAAGGTAAGAGCATTAGC
24132540 GGTGTTTTCT
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
72 53 1.00
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.23
Consensus pattern (72 bp):
CCGCTAAAGGTCAGAACATTAGCGACGTTTATCAGAAAACACCACTAAAGGTAAGAGCATTAGCA
ACGTTCA
Found at i:24134221 original size:43 final size:43
Alignment explanation
Indices: 24134118--24134242 Score: 130
Period size: 43 Copynumber: 2.9 Consensus size: 43
24134108 TTAAAAGTTA
* *
24134118 AGCAATAACGGCGTTTATGAGAAAAACACCGCAAAAGGCATAC
1 AGCAATAGCGGCGTTTATGAGAAAAACACCGCAAAAGGCAGAC
** *
24134161 AGCAATAGCAACGTTTATGAAAAAAACACCGCAAAAGGTCCAGA-
1 AGCAATAGCGGCGTTTATGAGAAAAACACCGCAAAAGG--CAGAC
* * * *
24134205 A-CATTAGCGGCATTTATG-GGAAAACACCGCTAAAGGCA
1 AGCAATAGCGGCGTTTATGAGAAAAACACCGCAAAAGGCA
24134243 TTGCAATAGC
Statistics
Matches: 68, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
40 2 0.03
42 15 0.22
43 47 0.69
44 1 0.01
45 3 0.04
ACGTcount: A:0.43, C:0.21, G:0.21, T:0.15
Consensus pattern (43 bp):
AGCAATAGCGGCGTTTATGAGAAAAACACCGCAAAAGGCAGAC
Found at i:24134407 original size:17 final size:17
Alignment explanation
Indices: 24134357--24134408 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
24134347 ATTACTCTCA
24134357 CCCTTCTCTTC-TCACG
1 CCCTTCTCTTCTTCACG
*** * *
24134373 CCCGAATCTCCTTGACG
1 CCCTTCTCTTCTTCACG
24134390 CCCTTCTCTTCTTCACG
1 CCCTTCTCTTCTTCACG
24134407 CC
1 CC
24134409 GGAATCTTCT
Statistics
Matches: 25, Mismatches: 10, Indels: 1
0.69 0.28 0.03
Matches are distributed among these distances:
16 7 0.28
17 18 0.72
ACGTcount: A:0.10, C:0.48, G:0.10, T:0.33
Consensus pattern (17 bp):
CCCTTCTCTTCTTCACG
Found at i:24134654 original size:18 final size:18
Alignment explanation
Indices: 24134631--24134666 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
24134621 GGCATTTGTT
*
24134631 GGGGTGTATATAGTGATG
1 GGGGTGTATATAATGATG
24134649 GGGGTGTATATAATGATG
1 GGGGTGTATATAATGATG
24134667 AAGATTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.00, G:0.42, T:0.33
Consensus pattern (18 bp):
GGGGTGTATATAATGATG
Found at i:24136331 original size:2 final size:2
Alignment explanation
Indices: 24136324--24136365 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
24136314 ACTACAATAA
24136324 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24136366 GCTTACATTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24143474 original size:42 final size:41
Alignment explanation
Indices: 24143347--24143474 Score: 123
Period size: 43 Copynumber: 3.0 Consensus size: 41
24143337 GCAGCATTTA
* *
24143347 TGGGAAAAACACCGCTAAAGATAATGTTTTTTAACGGTGTTT
1 TGGGAAAAACACCGCTAAAGACAATGTTCTTT-ACGGTGTTT
* * **
24143389 GTGGGAAAAACACCGTTAAAGACCATGTTCTTTACTGACGTTT
1 -TGGGAAAAACACCGCTAAAGACAATGTTCTTTAC-GGTGTTT
* * *
24143432 T-GGAGAAAGCCCCGCTAAAGACAATGTCCTTTAGCGGTGTTT
1 TGGGA-AAAACACCGCTAAAGACAATGTTCTTTA-CGGTGTTT
24143474 T
1 T
24143475 TTGGAAAGTA
Statistics
Matches: 69, Mismatches: 13, Indels: 7
0.78 0.15 0.08
Matches are distributed among these distances:
41 3 0.04
42 32 0.46
43 34 0.49
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (41 bp):
TGGGAAAAACACCGCTAAAGACAATGTTCTTTACGGTGTTT
Found at i:24143482 original size:42 final size:42
Alignment explanation
Indices: 24143436--24143535 Score: 112
Period size: 42 Copynumber: 2.4 Consensus size: 42
24143426 ACGTTTTGGA
* * *
24143436 GAAAGCCCCGCTAAAGACAATGTCCTTTAGCG-GTGTTTTTTG
1 GAAAGCACCGCTAAAGACAACGTCCTTTAGCGAG-GTTTTTAG
* * * * *
24143478 GAAAGTATCGCTAAATACCACGTTCTTTAGCGAGGTTTTTAG
1 GAAAGCACCGCTAAAGACAACGTCCTTTAGCGAGGTTTTTAG
24143520 GAAAGCACCGCTAAAG
1 GAAAGCACCGCTAAAG
24143536 CCCATGTTTT
Statistics
Matches: 46, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
42 45 0.98
43 1 0.02
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (42 bp):
GAAAGCACCGCTAAAGACAACGTCCTTTAGCGAGGTTTTTAG
Found at i:24145576 original size:22 final size:22
Alignment explanation
Indices: 24145551--24145603 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
24145541 AGACATCATA
*
24145551 TGTTTCAACATCCGCCCATAAT
1 TGTTTCAACACCCGCCCATAAT
*
24145573 TGTTTCAACACCCGCCCATAGT
1 TGTTTCAACACCCGCCCATAAT
24145595 TGTTTCAAC
1 TGTTTCAAC
24145604 TCTTCAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.25, C:0.32, G:0.11, T:0.32
Consensus pattern (22 bp):
TGTTTCAACACCCGCCCATAAT
Found at i:24147219 original size:21 final size:21
Alignment explanation
Indices: 24147195--24147265 Score: 74
Period size: 21 Copynumber: 3.4 Consensus size: 21
24147185 TTTATATATA
24147195 TTCATTTATATAATGCAAGGG
1 TTCATTTATATAATGCAAGGG
***
24147216 TTCATTTATATAATG-AGACCA
1 TTCATTTATATAATGCA-AGGG
*
24147237 TT-ACTTATATAATGCAAGGG
1 TTCATTTATATAATGCAAGGG
*
24147257 TTCCTTTAT
1 TTCATTTAT
24147266 GTAAAATAAA
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
20 15 0.39
21 23 0.61
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.41
Consensus pattern (21 bp):
TTCATTTATATAATGCAAGGG
Found at i:24149605 original size:3 final size:3
Alignment explanation
Indices: 24149597--24149639 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
24149587 TTTCTCAATT
* * * *
24149597 TTA TTA TTA TTA TTA TTA TCA ATA TTA TTG TTG TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
24149640 CATCCCTGTT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:24149618 original size:24 final size:24
Alignment explanation
Indices: 24149591--24149641 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
24149581 TTTTGATTTC
*
24149591 TCAATTTTATTATTATTATTATTA
1 TCAATATTATTATTATTATTATTA
* *
24149615 TCAATATTATTGTTGTTATTATTA
1 TCAATATTATTATTATTATTATTA
24149639 TCA
1 TCA
24149642 TCCCTGTTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.59
Consensus pattern (24 bp):
TCAATATTATTATTATTATTATTA
Found at i:24151342 original size:16 final size:15
Alignment explanation
Indices: 24151323--24151363 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 15
24151313 TTCTTTTTTC
24151323 ATTATTTAATTTTATT
1 ATTATTT-ATTTTATT
*
24151339 ATTA--TGTTTTATT
1 ATTATTTATTTTATT
24151352 ATTATTTATTTT
1 ATTATTTATTTT
24151364 TTGAAACTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 5
0.75 0.07 0.18
Matches are distributed among these distances:
13 11 0.52
14 1 0.05
15 5 0.24
16 4 0.19
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (15 bp):
ATTATTTATTTTATT
Found at i:24152224 original size:23 final size:22
Alignment explanation
Indices: 24152185--24152239 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
24152175 TGGCACCACC
* **
24152185 AAAAAAAGAAATTTAAATTTTA
1 AAAAAAAGAAATATAAATCATA
*
24152207 AAAAAAATAAATAATAAATCAT-
1 AAAAAAAGAAAT-ATAAATCATA
24152229 AAAAAAAGAAA
1 AAAAAAAGAAA
24152240 GTCTTATATT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 21 0.78
23 6 0.22
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.22
Consensus pattern (22 bp):
AAAAAAAGAAATATAAATCATA
Found at i:24155961 original size:18 final size:18
Alignment explanation
Indices: 24155938--24155972 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
24155928 TGCATATCAA
24155938 AACCCTTATATGTTTCCT
1 AACCCTTATATGTTTCCT
24155956 AACCCTTATATGTTTCC
1 AACCCTTATATGTTTCC
24155973 ATTTTCTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.23, C:0.29, G:0.06, T:0.43
Consensus pattern (18 bp):
AACCCTTATATGTTTCCT
Found at i:24156162 original size:18 final size:18
Alignment explanation
Indices: 24156113--24156164 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
24156103 GAGAGCTCAA
* *
24156113 CTCAATTCCAATTGCCAC
1 CTCAATTCCAATCGTCAC
* *
24156131 CTTAATTCTAATCGTCAC
1 CTCAATTCCAATCGTCAC
*
24156149 CTCAATTCCCATCGTC
1 CTCAATTCCAATCGTC
24156165 GGGTTAATTT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.25, C:0.37, G:0.06, T:0.33
Consensus pattern (18 bp):
CTCAATTCCAATCGTCAC
Found at i:24157539 original size:3 final size:3
Alignment explanation
Indices: 24157533--24157650 Score: 54
Period size: 3 Copynumber: 40.7 Consensus size: 3
24157523 AAAATTGTTG
* * * *
24157533 TTA TTA TTT TTA TTA TTT TTCA TTG TT- TTA TTA TTA TT- TTG TTA
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
24157577 CTA -TA TTA TTA TTA TT- TTA TTA -TA TCA TTTA GATA TTA -TA TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA -TTA TTA TTA TTA
* *
24157620 TTT TTG TT- TTA TTA TTAA TT- TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TT
24157651 TTAAATTTAC
Statistics
Matches: 88, Mismatches: 16, Indels: 22
0.70 0.13 0.17
Matches are distributed among these distances:
2 16 0.18
3 63 0.72
4 9 0.10
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:24157643 original size:12 final size:11
Alignment explanation
Indices: 24157533--24157653 Score: 88
Period size: 11 Copynumber: 11.0 Consensus size: 11
24157523 AAAATTGTTG
24157533 TTATTA-TTT-
1 TTATTATTTTA
24157542 TTATTATTTT-
1 TTATTATTTTA
* *
24157552 TCATTGTTTTA
1 TTATTATTTTA
*
24157563 TTATTATTTTG
1 TTATTATTTTA
* *
24157574 TTACTATATTA
1 TTATTATTTTA
24157585 TTATTATTTTA
1 TTATTATTTTA
24157596 TTA-TATCATTTA
1 TTATTAT--TTTA
* * *
24157608 GATATTATATAA
1 -TTATTATTTTA
* *
24157620 TTTTTGTTTTA
1 TTATTATTTTA
24157631 TTATTAATTTTA
1 TTATT-ATTTTA
24157643 TTATTATTTTA
1 TTATTATTTTA
24157654 AATTTACTTA
Statistics
Matches: 85, Mismatches: 20, Indels: 12
0.73 0.17 0.10
Matches are distributed among these distances:
9 6 0.07
10 14 0.16
11 44 0.52
12 16 0.19
13 2 0.02
14 3 0.04
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.67
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:24157649 original size:18 final size:19
Alignment explanation
Indices: 24157610--24157659 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 19
24157600 ATCATTTAGA
*
24157610 TATTATATAATTTT-TGTTT
1 TATTAT-TAATTTTATGTAT
24157629 TATTATTAATTTTAT-TAT
1 TATTATTAATTTTATGTAT
*
24157647 TATT-TTAAATTTA
1 TATTATTAATTTTA
24157660 CTTAATTGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 8 0.29
18 13 0.46
19 7 0.25
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (19 bp):
TATTATTAATTTTATGTAT
Found at i:24159017 original size:30 final size:30
Alignment explanation
Indices: 24158981--24159042 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
24158971 TCCGATACAG
24158981 TTATGTATCCCAATGGGTATGATTAGATTT
1 TTATGTATCCCAATGGGTATGATTAGATTT
24159011 TTATGTATCCCAATGGGTATGATTAGATTT
1 TTATGTATCCCAATGGGTATGATTAGATTT
24159041 TT
1 TT
24159043 CTAAGTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.26, C:0.10, G:0.19, T:0.45
Consensus pattern (30 bp):
TTATGTATCCCAATGGGTATGATTAGATTT
Found at i:24171949 original size:16 final size:17
Alignment explanation
Indices: 24171925--24171958 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
24171915 GCTTTTTTAC
24171925 ATAAATAA-TATAAAAA
1 ATAAATAATTATAAAAA
*
24171941 ATAATTAATTATAAAAA
1 ATAAATAATTATAAAAA
24171958 A
1 A
24171959 ATATAGGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
ATAAATAATTATAAAAA
Found at i:24172731 original size:29 final size:29
Alignment explanation
Indices: 24172691--24172754 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
24172681 AAACAGATGC
**
24172691 TTATTTTCGTAATTAATTTGTTTTCTATA
1 TTATTTTCGTAATTAATTAATTTTCTATA
*
24172720 TTATTTTCGTAATTAATTAATTTTTTATA
1 TTATTTTCGTAATTAATTAATTTTCTATA
24172749 TTATTT
1 TTATTT
24172755 AGGTAAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.64
Consensus pattern (29 bp):
TTATTTTCGTAATTAATTAATTTTCTATA
Found at i:24174105 original size:21 final size:21
Alignment explanation
Indices: 24174060--24174119 Score: 59
Period size: 21 Copynumber: 2.7 Consensus size: 21
24174050 CCATACCATA
*
24174060 AAATATACATAAATAAATGTTTTT
1 AAATATAGATAAAT--AT-TTTTT
24174084 AAGATAT-GATAAATATTTTTT
1 AA-ATATAGATAAATATTTTTT
*
24174105 AAATATATATAAATA
1 AAATATAGATAAATA
24174120 AATATGATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
20 4 0.12
21 14 0.44
22 2 0.06
24 8 0.25
25 4 0.12
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.42
Consensus pattern (21 bp):
AAATATAGATAAATATTTTTT
Found at i:24175553 original size:20 final size:18
Alignment explanation
Indices: 24175528--24175573 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
24175518 AATATTTTCC
24175528 CATAAAAATGATTAAAAAAT
1 CATAAAAATGA-T-AAAAAT
*
24175548 CATAAAAATTATAAAAAT
1 CATAAAAATGATAAAAAT
*
24175566 CAGAAAAA
1 CATAAAAA
24175574 AATTATAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 13 0.54
19 1 0.04
20 10 0.42
ACGTcount: A:0.67, C:0.07, G:0.04, T:0.22
Consensus pattern (18 bp):
CATAAAAATGATAAAAAT
Found at i:24175589 original size:19 final size:20
Alignment explanation
Indices: 24175551--24175590 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
24175541 AAAAAATCAT
24175551 AAAAATTATAAAAATCAGAA
1 AAAAATTATAAAAATCAGAA
24175571 AAAAATTATAAAAAT-AGAA
1 AAAAATTATAAAAATCAGAA
24175590 A
1 A
24175591 TTGATATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.72, C:0.03, G:0.05, T:0.20
Consensus pattern (20 bp):
AAAAATTATAAAAATCAGAA
Found at i:24175622 original size:19 final size:18
Alignment explanation
Indices: 24175572--24175637 Score: 66
Period size: 19 Copynumber: 3.7 Consensus size: 18
24175562 AAATCAGAAA
24175572 AAAATTATAAAAA--TA-
1 AAAATTATAAAAACTTAT
* *
24175587 GAAATTGATATAAACTTATT
1 AAAATT-ATAAAAACTTA-T
24175607 AAAATTATAAAAACTTAT
1 AAAATTATAAAAACTTAT
24175625 AAATATTATAAAA
1 AAA-ATTATAAAA
24175638 TATAAAAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
15 5 0.12
16 6 0.15
18 6 0.15
19 19 0.46
20 5 0.12
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (18 bp):
AAAATTATAAAAACTTAT
Found at i:24175626 original size:10 final size:9
Alignment explanation
Indices: 24175538--24175797 Score: 79
Period size: 9 Copynumber: 28.1 Consensus size: 9
24175528 CATAAAAATG
24175538 ATTA-AAAA
1 ATTATAAAA
*
24175546 ATCATAAAA
1 ATTATAAAA
24175555 ATTATAAAA
1 ATTATAAAA
* *
24175564 ATCAGAAAAAA
1 AT--TATAAAA
24175575 ATTAT-AAA
1 ATTATAAAA
*
24175583 A--ATAGAA
1 ATTATAAAA
24175590 ATTGATATAAA
1 ATT-ATA-AAA
* *
24175601 CTTATTAAA
1 ATTATAAAA
24175610 ATTATAAAA
1 ATTATAAAA
*
24175619 ACTTATAAAT
1 A-TTATAAAA
24175629 ATTAT-AAA
1 ATTATAAAA
24175637 A-TATAAAA
1 ATTATAAAA
* *
24175645 AATCTAATAA
1 ATTATAA-AA
* *
24175655 GTTACAAAAAA
1 ATT--ATAAAA
24175666 ATTAT-AAA
1 ATTATAAAA
24175674 ATTAATAAAA
1 ATT-ATAAAA
* *
24175684 CTTATTTAAA
1 ATTA-TAAAA
*
24175694 ATGTTTAAAA
1 AT-TATAAAA
*
24175704 GTTA-AAAA
1 ATTATAAAA
* *
24175712 ATTATTAGA
1 ATTATAAAA
* *
24175721 ATTCTTGAAA
1 ATT-ATAAAA
*
24175731 ATAATGAAAA
1 ATTAT-AAAA
*
24175741 ATGA-AACAA
1 ATTATAA-AA
24175750 ATTATAAAA
1 ATTATAAAA
* *
24175759 AATATTAAA
1 ATTATAAAA
24175768 ATTGATACAAA
1 ATT-ATA-AAA
**
24175779 CCTATAAAA
1 ATTATAAAA
*
24175788 ACTATAAAA
1 ATTATAAAA
24175797 A
1 A
24175798 AAAAATCATA
Statistics
Matches: 181, Mismatches: 46, Indels: 49
0.66 0.17 0.18
Matches are distributed among these distances:
6 2 0.01
7 6 0.03
8 29 0.16
9 73 0.40
10 49 0.27
11 20 0.11
12 2 0.01
ACGTcount: A:0.61, C:0.05, G:0.04, T:0.30
Consensus pattern (9 bp):
ATTATAAAA
Found at i:24175683 original size:19 final size:18
Alignment explanation
Indices: 24175538--24175683 Score: 56
Period size: 19 Copynumber: 7.9 Consensus size: 18
24175528 CATAAAAATG
* *
24175538 ATTAAAAAATCAT-AAAA
1 ATTATAAAATTATAAAAA
* *
24175555 ATTATAAAAATCAGAAAAAA
1 ATTAT-AAAATTA-TAAAAA
*
24175575 ATTATAAAA--AT-AGAA
1 ATTATAAAATTATAAAAA
*
24175590 ATTGATATAAACTTAT-TAAA
1 ATT-ATA-AAA-TTATAAAAA
*
24175610 ATTATAAAAACTTAT-AAAT
1 ATTAT-AAAA-TTATAAAAA
24175629 ATTATAAAA-TATAAAAA
1 ATTATAAAATTATAAAAA
* *
24175646 ATCTA-ATAAGTTACAAAAAA
1 AT-TATA-AAATTA-TAAAAA
24175666 ATTATAAAATTAATAAAA
1 ATTATAAAATT-ATAAAA
24175684 CTTATTTAAA
Statistics
Matches: 100, Mismatches: 13, Indels: 30
0.70 0.09 0.21
Matches are distributed among these distances:
15 6 0.06
16 6 0.06
17 14 0.14
18 15 0.15
19 33 0.33
20 26 0.26
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.29
Consensus pattern (18 bp):
ATTATAAAATTATAAAAA
Found at i:24175694 original size:28 final size:28
Alignment explanation
Indices: 24175663--24175717 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
24175653 AAGTTACAAA
24175663 AAAAT-TATAAAA-TTAATAAAACTTATTT
1 AAAATGTATAAAAGTTAA-AAAA-TTATTT
*
24175691 AAAATGTTTAAAAGTTAAAAAATTATT
1 AAAATGTATAAAAGTTAAAAAATTATT
24175718 AGAATTCTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 10 0.42
29 10 0.42
30 4 0.17
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (28 bp):
AAAATGTATAAAAGTTAAAAAATTATTT
Found at i:24175777 original size:28 final size:29
Alignment explanation
Indices: 24175728--24175798 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 29
24175718 AGAATTCTTG
* *
24175728 AAAATAATGAAAAATGAAACAAA-TTATAA
1 AAAAT-ATAAAAAATGAAACAAACCTATAA
* * *
24175757 AAAATATTAAAATTGATACAAACCTATAA
1 AAAATATAAAAAATGAAACAAACCTATAA
*
24175786 AAACTATAAAAAA
1 AAAATATAAAAAA
24175799 AAAATCATAA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
28 14 0.41
29 20 0.59
ACGTcount: A:0.66, C:0.07, G:0.04, T:0.23
Consensus pattern (29 bp):
AAAATATAAAAAATGAAACAAACCTATAA
Found at i:24176297 original size:12 final size:12
Alignment explanation
Indices: 24176282--24176306 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24176272 CTTTAATACA
24176282 TTTTATAATTTT
1 TTTTATAATTTT
24176294 TTTTATAATTTT
1 TTTTATAATTTT
24176306 T
1 T
24176307 ATAGAGTTTT
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTATAATTTT
Found at i:24176393 original size:11 final size:11
Alignment explanation
Indices: 24176368--24176414 Score: 55
Period size: 10 Copynumber: 4.5 Consensus size: 11
24176358 TAAAAAAATA
24176368 TTTATTATA-T
1 TTTATTATATT
24176378 TTTATTATATT
1 TTTATTATATT
24176389 TTTA-TATATT
1 TTTATTATATT
*
24176399 TTT-TAAATATT
1 TTTAT-TATATT
24176410 TTTAT
1 TTTAT
24176415 AAGTTTATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
10 18 0.56
11 13 0.41
12 1 0.03
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTATTATATT
Found at i:24176401 original size:21 final size:22
Alignment explanation
Indices: 24176368--24176415 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
24176358 TAAAAAAATA
*
24176368 TTTAT-TATA-TTTTATTATATT
1 TTTATATATATTTTTA-AATATT
24176389 TTTATATAT-TTTTTAAATATT
1 TTTATATATATTTTTAAATATT
24176410 TTTATA
1 TTTATA
24176416 AGTTTATTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 16 0.67
22 8 0.33
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTATATATATTTTTAAATATT
Found at i:24176432 original size:21 final size:21
Alignment explanation
Indices: 24176363--24176415 Score: 67
Period size: 19 Copynumber: 2.6 Consensus size: 21
24176353 TTTTATAAAA
*
24176363 AAATATTTATTATAT-TTTATT
1 AAATATTT-TTATATATTTTTT
24176384 --ATATTTTTATATATTTTTT
1 AAATATTTTTATATATTTTTT
24176403 AAATATTTTTATA
1 AAATATTTTTATA
24176416 AGTTTATTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
18 6 0.21
19 11 0.39
21 11 0.39
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
AAATATTTTTATATATTTTTT
Found at i:24177019 original size:10 final size:10
Alignment explanation
Indices: 24177006--24177056 Score: 56
Period size: 10 Copynumber: 5.4 Consensus size: 10
24176996 AAATAATTTT
24177006 AAATATATAA
1 AAATATATAA
*
24177016 AAATATTTAA
1 AAATATATAA
24177026 AAA-ATA-AA
1 AAATATATAA
24177034 AAAT-TATAA
1 AAATATATAA
24177043 AAAT-TCATAA
1 AAATAT-ATAA
24177053 AAAT
1 AAAT
24177057 TCAAAAATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
8 7 0.19
9 9 0.25
10 20 0.56
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (10 bp):
AAATATATAA
Found at i:24177024 original size:18 final size:16
Alignment explanation
Indices: 24176993--24177045 Score: 52
Period size: 18 Copynumber: 3.1 Consensus size: 16
24176983 ATGTCATGTC
24176993 AATAAATAATTTTAAATA
1 AATAAA-AATTTTAAA-A
*
24177011 TATAAAAATATTTAAAA
1 AATAAAAAT-TTTAAAA
*
24177028 AATAAAAAATTATAAAA
1 AAT-AAAAATTTTAAAA
24177045 A
1 A
24177046 TTCATAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
17 13 0.43
18 17 0.57
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AATAAAAATTTTAAAA
Found at i:24177053 original size:27 final size:28
Alignment explanation
Indices: 24177006--24177066 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
24176996 AAATAATTTT
*
24177006 AAATATATAAAAATATTTAAAAAATAAA
1 AAATATATAAAAATATATAAAAAATAAA
* *
24177034 AAAT-TATAAAAAT-TCATAAAAATTCAA
1 AAATATATAAAAATAT-ATAAAAAATAAA
24177061 AAATAT
1 AAATAT
24177067 TAGCATAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
26 1 0.04
27 22 0.79
28 5 0.18
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (28 bp):
AAATATATAAAAATATATAAAAAATAAA
Found at i:24177057 original size:10 final size:10
Alignment explanation
Indices: 24177032--24177063 Score: 50
Period size: 9 Copynumber: 3.4 Consensus size: 10
24177022 TTAAAAAATA
24177032 AAAAATT-AT
1 AAAAATTCAT
24177041 AAAAATTCAT
1 AAAAATTCAT
24177051 AAAAATTCA-
1 AAAAATTCAT
24177060 AAAA
1 AAAA
24177064 TATTAGCATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 11 0.50
10 11 0.50
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (10 bp):
AAAAATTCAT
Found at i:24177163 original size:26 final size:26
Alignment explanation
Indices: 24177110--24177163 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
24177100 TACTATGTTT
* *
24177110 AAAAACTTAATATTTTAATTCACCAA
1 AAAAACTTAATATTTTAATTAAACAA
* *
24177136 AAAAACTTAATATTTTAGTTAAAGAA
1 AAAAACTTAATATTTTAATTAAACAA
24177162 AA
1 AA
24177164 TAACAATTCG
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:0.54, C:0.09, G:0.04, T:0.33
Consensus pattern (26 bp):
AAAAACTTAATATTTTAATTAAACAA
Found at i:24178445 original size:2 final size:2
Alignment explanation
Indices: 24178438--24178462 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
24178428 ACTGCCATCC
24178438 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
24178463 GGAAGCATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:24187690 original size:21 final size:21
Alignment explanation
Indices: 24187638--24187691 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
24187628 ACCTACAAAA
* *
24187638 CATTATATTTGTAACTCTCCT
1 CATTATGTTTGTAACTCTCAT
*
24187659 CA-TAAGTTTTGTAACTCTCAT
1 CATTATG-TTTGTAACTCTCAT
24187680 CATTATGTTTGT
1 CATTATGTTTGT
24187692 TTTAAATTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
20 2 0.07
21 22 0.81
22 3 0.11
ACGTcount: A:0.24, C:0.19, G:0.09, T:0.48
Consensus pattern (21 bp):
CATTATGTTTGTAACTCTCAT
Found at i:24190370 original size:21 final size:22
Alignment explanation
Indices: 24190320--24190372 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
24190310 GAGTTTTTAA
*
24190320 TATCAGTAGAAGTAAGACTTGG
1 TATCAGTAGAAGTAACACTTGG
*
24190342 T-TCAGTAGAAGTTACACTT-G
1 TATCAGTAGAAGTAACACTTGG
*
24190362 TATCGGTAGAA
1 TATCAGTAGAA
24190373 CTTTCCCAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 2 0.07
21 24 0.89
22 1 0.04
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.30
Consensus pattern (22 bp):
TATCAGTAGAAGTAACACTTGG
Found at i:24208332 original size:15 final size:16
Alignment explanation
Indices: 24208312--24208341 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
24208302 TTGGGGTCTA
24208312 TATAAATTTT-TTTTT
1 TATAAATTTTATTTTT
24208327 TATAAATTTTATTTT
1 TATAAATTTTATTTT
24208342 CACATTAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TATAAATTTTATTTTT
Found at i:24209743 original size:3 final size:3
Alignment explanation
Indices: 24209735--24209768 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
24209725 ATTTCACTCC
* *
24209735 TCT TCT TCT TTT TCT TCT TCT TCT TCT TCA TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
24209769 TAACTCAGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.03, C:0.29, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:24215161 original size:11 final size:11
Alignment explanation
Indices: 24215092--24215161 Score: 50
Period size: 11 Copynumber: 5.9 Consensus size: 11
24215082 TAGCTTTGAG
*
24215092 TTTAAATTAAT
1 TTTAAATTTAT
24215103 TTTAAATTTAT
1 TTTAAATTTAT
* *
24215114 TTAAAATTTAAAA
1 TTTAAATTT--AT
*
24215127 TTTAAAATTACTT
1 TTTAAATTTA--T
*
24215140 ATTTAAGTTTAT
1 -TTTAAATTTAT
24215152 TTTAAATTTA
1 TTTAAATTTA
24215162 AATTTGAATA
Statistics
Matches: 45, Mismatches: 9, Indels: 10
0.70 0.14 0.16
Matches are distributed among these distances:
11 28 0.62
12 1 0.02
13 8 0.18
14 8 0.18
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (11 bp):
TTTAAATTTAT
Found at i:24215962 original size:3 final size:3
Alignment explanation
Indices: 24215954--24215997 Score: 70
Period size: 3 Copynumber: 14.0 Consensus size: 3
24215944 CATTAATATT
24215954 TAA TAA TAA TAA CTAA TAA TAAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA -TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA
24215998 ATATTTAATA
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
3 33 0.85
4 6 0.15
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:24215964 original size:23 final size:23
Alignment explanation
Indices: 24215954--24216000 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
24215944 CATTAATATT
*
24215954 TAATAATAATAACTAATAATAAA
1 TAATAATAATAACCAATAATAAA
*
24215977 TAATAATAATAA-TAATAATAAA
1 TAATAATAATAACCAATAATAAA
24215999 TA
1 TA
24216001 TTTAATAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 12 0.50
23 12 0.50
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (23 bp):
TAATAATAATAACCAATAATAAA
Found at i:24216000 original size:13 final size:12
Alignment explanation
Indices: 24215954--24215997 Score: 70
Period size: 13 Copynumber: 3.5 Consensus size: 12
24215944 CATTAATATT
24215954 TAATAATAATAA
1 TAATAATAATAA
24215966 CTAATAATAAATAA
1 -TAATAAT-AATAA
24215980 TAATAATAATAA
1 TAATAATAATAA
24215992 TAATAA
1 TAATAA
24215998 ATATTTAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
12 11 0.37
13 14 0.47
14 5 0.17
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (12 bp):
TAATAATAATAA
Found at i:24216006 original size:26 final size:26
Alignment explanation
Indices: 24215947--24216008 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 26
24215937 GAATATCCAT
24215947 TAATATTTAATAATAATAACTAATAA
1 TAATATTTAATAATAATAACTAATAA
24215973 TAA-A--TAATAATAATAA-TAATAA
1 TAATATTTAATAATAATAACTAATAA
24215995 TAAATATTTAATAA
1 T-AATATTTAATAA
24216009 AAAAAGAAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
22 7 0.22
23 14 0.44
24 1 0.03
25 1 0.03
26 9 0.28
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (26 bp):
TAATATTTAATAATAATAACTAATAA
Found at i:24217089 original size:29 final size:29
Alignment explanation
Indices: 24217023--24217133 Score: 91
Period size: 29 Copynumber: 3.8 Consensus size: 29
24217013 CCCCAAACAG
* * *
24217023 TCCAAAAATTGCATTTTGACC-CCAAAAT
1 TCCAAAAATTACATTTTGACCTCGAAACT
**
24217051 TTTAAGAAATTACATTTTGACCTCGAAACT
1 TCCAA-AAATTACATTTTGACCTCGAAACT
* * *
24217081 TCCAAAAATTACCATTTTAACCCCGAACCT
1 TCCAAAAATTA-CATTTTGACCTCGAAACT
* *
24217111 T-CTAAAATTCCATTTTTGACCTC
1 TCCAAAAATTACA-TTTTGACCTC
24217134 AATTTCACCA
Statistics
Matches: 65, Mismatches: 14, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
28 5 0.08
29 36 0.55
30 24 0.37
ACGTcount: A:0.35, C:0.25, G:0.06, T:0.33
Consensus pattern (29 bp):
TCCAAAAATTACATTTTGACCTCGAAACT
Found at i:24217131 original size:59 final size:58
Alignment explanation
Indices: 24217082--24217391 Score: 362
Period size: 59 Copynumber: 5.3 Consensus size: 58
24217072 CTCGAAACTT
* * *
24217082 CCAAAAATTACCATTTTAACCCCGAACCTTCTAAAATTCCATTTTTGACCTCAATTTCA
1 CCAAAAATTACCATTTTACCCCCGAACCTTCTAAAATTCCATTTTTAACCTCGATTT-A
* * * *
24217141 CCAAAAATTATCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAACCTTCTAAAATTCCATTTTTAACCTCGATTT-A
* * *
24217200 TCAAAAATTACCATTTTACCCCCAAACC-TCTTAAAATTCTATTTTTAACCTCGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAACCTTC-TAAAATTCCATTTTTAACCTCGATTT-A
** *
24217259 CCAAAAATTACCATTTTACCCCTAAACC-TCATAAAATTCC-TTTTTAAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAACCTTC-TAAAATTCCATTTTT-AACCTCGATTT-A
*
24217318 CCAAAAATTACCATTTTACCCCCGAA--TTCTCAAAATTCCATTTTTAACCCCGA-TTA
1 CCAAAAATTACCATTTTACCCCCGAACCTTCT-AAAATTCCATTTTTAACCTCGATTTA
*
24217374 CACCAAAATTACCATTTT
1 C-CAAAAATTACCATTTT
24217392 GCCCTCGGGT
Statistics
Matches: 223, Mismatches: 22, Indels: 14
0.86 0.08 0.05
Matches are distributed among these distances:
56 2 0.01
57 18 0.08
58 25 0.11
59 178 0.80
ACGTcount: A:0.34, C:0.29, G:0.03, T:0.34
Consensus pattern (58 bp):
CCAAAAATTACCATTTTACCCCCGAACCTTCTAAAATTCCATTTTTAACCTCGATTTA
Found at i:24217175 original size:30 final size:28
Alignment explanation
Indices: 24217080--24217391 Score: 122
Period size: 30 Copynumber: 10.7 Consensus size: 28
24217070 ACCTCGAAAC
* *
24217080 TTCCAAAAATTACCATTTTAACCCCGAACC
1 TTCCAAAAATTACCATTTTACCCCCG-A-T
* * *
24217110 TT-CTAAAATT-CCATTTTTGA-CCTCAAT
1 TTCCAAAAATTACCA-TTTT-ACCCCCGAT
*
24217137 TTCACCAAAAATTATCATTTTACCCCCGAACT
1 TT--CCAAAAATTACCATTTTACCCCCG-A-T
*
24217169 TTCC-AAAATT-CCATTTTTAACCCCGAT
1 TTCCAAAAATTACCA-TTTTACCCCCGAT
* *
24217196 TTCATCAAAAATTACCATTTTACCCCCAAAC
1 TTC--CAAAAATTACCATTTTACCCCC-GAT
* ** * * *
24217227 CTCTTAAAATT-CTATTTTTAACCTCGAT
1 TTCCAAAAATTACCA-TTTTACCCCCGAT
* *
24217255 TTCACCAAAAATTACCATTTTA-CCCCTAA
1 TT--CCAAAAATTACCATTTTACCCCCGAT
** * *
24217284 ACCTCATAAAATT-CCTTTTTAAACCCCGAT
1 TTC-CA-AAAATTACCATTTT-ACCCCCGAT
*
24217314 TTCACCAAAAATTACCATTTTACCCCCGAA
1 TT--CCAAAAATTACCATTTTACCCCCGAT
*
24217344 TTCTC-AAAATT-CCATTTTTAACCCCGAT
1 TTC-CAAAAATTACCA-TTTTACCCCCGAT
* *
24217372 TACACCAAAATTACCATTTT
1 TTC-CAAAAATTACCATTTT
24217392 GCCCTCGGGT
Statistics
Matches: 210, Mismatches: 42, Indels: 61
0.67 0.13 0.19
Matches are distributed among these distances:
27 10 0.05
28 40 0.19
29 68 0.32
30 69 0.33
31 19 0.09
32 4 0.02
ACGTcount: A:0.34, C:0.29, G:0.03, T:0.34
Consensus pattern (28 bp):
TTCCAAAAATTACCATTTTACCCCCGAT
Found at i:24217235 original size:118 final size:118
Alignment explanation
Indices: 24217082--24217431 Score: 426
Period size: 118 Copynumber: 3.0 Consensus size: 118
24217072 CTCGAAACTT
* * *
24217082 CCAAAAATTACCATTTTAACCCCGAACCT-TCTAAAATTCCATTTTTGACCTCAATTTCACCAAA
1 CCAAAAATTACCATTTTACCCCCGAACCTCT-TAAAATTCCATTTTTAACCTCGATTTCACCAAA
* *
24217146 AATTATCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
65 AATTACCATTTTACCCCCGAACTATCCAAAATTCCATTTTTAACCCCGATTTCA
* * *
24217200 TCAAAAATTACCATTTTACCCCCAAACCTCTTAAAATTCTATTTTTAACCTCGATTTCACCAAAA
1 CCAAAAATTACCATTTTACCCCCGAACCTCTTAAAATTCCATTTTTAACCTCGATTTCACCAAAA
**
24217265 ATTACCATTTTACCCCTAAACCTCAT--AAAATTCC-TTTTTAAACCCCGATTTCA
66 ATTACCATTTTACCCCCGAA-CT-ATCCAAAATTCCATTTTT-AACCCCGATTTCA
* * * *
24217318 CCAAAAATTACCATTTTACCCCCGAA-TTCTCAAAATTCCATTTTTAACCCCGATTACACC-AAA
1 CCAAAAATTACCATTTTACCCCCGAACCTCTTAAAATTCCATTTTTAACCTCGATTTCACCAAAA
* * ** * *
24217381 ATTACCATTTTGCCCTCG-GGTATCCAAAAGTCCTATTTTTAACCTCGATTT
66 ATTACCATTTTACCCCCGAACTATCCAAAATTCC-ATTTTTAACCCCGATTT
24217432 TATCGTTTCT
Statistics
Matches: 199, Mismatches: 25, Indels: 18
0.82 0.10 0.07
Matches are distributed among these distances:
113 2 0.01
114 1 0.01
115 7 0.04
116 27 0.14
117 39 0.20
118 119 0.60
119 3 0.02
120 1 0.01
ACGTcount: A:0.33, C:0.29, G:0.04, T:0.34
Consensus pattern (118 bp):
CCAAAAATTACCATTTTACCCCCGAACCTCTTAAAATTCCATTTTTAACCTCGATTTCACCAAAA
ATTACCATTTTACCCCCGAACTATCCAAAATTCCATTTTTAACCCCGATTTCA
Found at i:24217419 original size:58 final size:59
Alignment explanation
Indices: 24217082--24217430 Score: 340
Period size: 59 Copynumber: 5.9 Consensus size: 59
24217072 CTCGAAACTT
* * * * *
24217082 CCAAAAATTACCATTTTAACCCCGAACCTTCT-AAAATTCC-ATTTTTGACCTCAATTTCA
1 CCAAAAATTACCATTTTACCCCCGAA--TTCTCAAAATTCCTATTTTTAACCCCGATTACA
* *
24217141 CCAAAAATTATCATTTTACCCCCGAACTT-TCCAAAATTCC-ATTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAA-TTCT-CAAAATTCCTATTTTTAACCCCGATTACA
* * * * * *
24217200 TCAAAAATTACCATTTTACCCCCAAACCTCTTAAAATT-CTATTTTTAACCTCGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAA-TTCTCAAAATTCCTATTTTTAACCCCGATTACA
* ** * *
24217259 CCAAAAATTACCATTTTA-CCCCTAAACCTCATAAAATTCCT-TTTTAAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAATTCTC--AAAATTCCTATTTTTAACCCCGATTACA
24217318 CCAAAAATTACCATTTTACCCCCGAATTCTCAAAATTCC-ATTTTTAACCCCGATTACA
1 CCAAAAATTACCATTTTACCCCCGAATTCTCAAAATTCCTATTTTTAACCCCGATTACA
* * ** * *
24217376 CC-AAAATTACCATTTTGCCCTCGGGTATC-CAAAAGTCCTATTTTTAACCTCGATT
1 CCAAAAATTACCATTTTACCCCCGAAT-TCTCAAAATTCCTATTTTTAACCCCGATT
24217431 TTATCGTTTC
Statistics
Matches: 250, Mismatches: 29, Indels: 23
0.83 0.10 0.08
Matches are distributed among these distances:
57 31 0.12
58 53 0.21
59 154 0.62
60 12 0.05
ACGTcount: A:0.33, C:0.29, G:0.04, T:0.34
Consensus pattern (59 bp):
CCAAAAATTACCATTTTACCCCCGAATTCTCAAAATTCCTATTTTTAACCCCGATTACA
Found at i:24228682 original size:19 final size:20
Alignment explanation
Indices: 24228654--24228692 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
24228644 TTACGCATAA
24228654 AAAAATAATAATAATAAAAT
1 AAAAATAATAATAATAAAAT
24228674 AAAAA-AATAATAATAAAAT
1 AAAAATAATAATAATAAAAT
24228693 CAGAGAGGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (20 bp):
AAAAATAATAATAATAAAAT
Found at i:24229723 original size:38 final size:38
Alignment explanation
Indices: 24229605--24229730 Score: 105
Period size: 38 Copynumber: 3.3 Consensus size: 38
24229595 TTTATCTCTA
* * *
24229605 AAATTGAAGTAGGAGCAAGATCGTTTTCCTATCCTCTTG
1 AAATTGAAGTAAGAGCAACATC-ATTTCCTATCCTCTTG
* * * ** * *
24229644 AAATTAAAGTAA-AGCTGGATATCAAGTCTTTAT-CTC-CG
1 AAATTGAAGTAAGAGC--AACATCATTTC-CTATCCTCTTG
24229682 AAATTGAAGTAAGAGCAACATCATTTCCTATCCTCTTG
1 AAATTGAAGTAAGAGCAACATCATTTCCTATCCTCTTG
24229720 AAATTGAAGTA
1 AAATTGAAGTA
24229731 GAGTGGATAA
Statistics
Matches: 65, Mismatches: 16, Indels: 13
0.69 0.17 0.14
Matches are distributed among these distances:
36 3 0.05
37 10 0.15
38 27 0.42
39 18 0.28
40 7 0.11
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.32
Consensus pattern (38 bp):
AAATTGAAGTAAGAGCAACATCATTTCCTATCCTCTTG
Found at i:24229827 original size:69 final size:69
Alignment explanation
Indices: 24229711--24230537 Score: 1325
Period size: 69 Copynumber: 11.9 Consensus size: 69
24229701 ATCATTTCCT
*
24229711 ATCCTCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
1 ATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
24229775 CGTC
66 CGTC
24229779 ATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
1 ATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
24229844 CGTC
66 CGTC
*
24229848 ATCCGCTTGAAATTAAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
1 ATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
24229913 CGTC
66 CGTC
* *
24229917 ATCCGCTTGAAATTAAAGTAGAGTTGGATAACACGTCTTCATATCTGAAATTGAAGTAAGAGCAA
1 ATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
*
24229982 AGTC
66 CGTC
* *
24229986 ATCCGCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTCATCTCTGAAATTAAAGTAAGAGCAA
1 ATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
*
24230051 CATC
66 CGTC
*
24230055 ATCCGCTTGAAATTAAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
1 ATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
24230120 CGTC
66 CGTC
* *
24230124 ATCCACTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
1 ATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
24230189 CGTC
66 CGTC
*
24230193 ATCCGCTTGAAATTGAAGTAAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCA
1 ATCCGCTTGAAATTGAAGT-AGAGTTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCA
*
24230258 AGGTC
65 ACGTC
* * * *
24230263 ATCCTCTTGAAATTGAAGTAGAGTTGGACAACACGTCTTTATCTCTAAAATTGAAGTAAGAGCAA
1 ATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
24230328 CGTC
66 CGTC
*
24230332 ATCCGCTTGAAATTGAAGTAAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCA
1 ATCCGCTTGAAATTGAAGT-AGAGTTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCA
*
24230397 AGGTC
65 ACGTC
* *
24230402 ATCCTCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
1 ATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGC--
*
24230466 AATCATTTCC
64 AA-C--GT-C
* * * *
24230476 TATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAACTGAAGTAAGA
1 -ATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGA
24230538 ATTAGACAAA
Statistics
Matches: 716, Mismatches: 32, Indels: 14
0.94 0.04 0.02
Matches are distributed among these distances:
68 61 0.09
69 461 0.64
70 134 0.19
73 1 0.00
74 1 0.00
75 23 0.03
76 35 0.05
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (69 bp):
ATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
CGTC
Found at i:24229921 original size:138 final size:138
Alignment explanation
Indices: 24229559--24230537 Score: 1388
Period size: 138 Copynumber: 6.9 Consensus size: 138
24229549 ATTTTTTTCT
* * *
24229559 ATCCGCTTGAAATTGAAGTAGAG-TGGATAACATGTCTTTATCTCTAAAATTGAAGTAGGAGCAA
1 ATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGC-A
* * * * * * *
24229623 GATCGTTTTCCTATCCTCTTGAAATTAAAGTAAAGCTGGATATCAAGTCTTTATCTCCGAAATTG
65 -A-CG---T-C-ATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTG
*
24229688 AAGTAAGAGCAACATCATTTCC
123 AAGTAAGAGC-A-A-C--GT-C
* *
24229710 TATCCTCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCA
1 -ATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCA
*
24229774 ACGTCATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAG
65 ACGTCATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAG
24229839 AGCAACGTC
130 AGCAACGTC
* *
24229848 ATCCGCTTGAAATTAAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
1 ATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
* * *
24229913 CGTCATCCGCTTGAAATTAAAGTAGAGTTGGATAACACGTCTTCATATCTGAAATTGAAGTAAGA
66 CGTCATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGA
*
24229978 GCAAAGTC
131 GCAACGTC
* * *
24229986 ATCCGCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTCATCTCTGAAATTAAAGTAAGAGCAA
1 ATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
* * *
24230051 CATCATCCGCTTGAAATTAAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGA
66 CGTCATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGA
24230116 GCAACGTC
131 GCAACGTC
*
24230124 ATCCACTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
1 ATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
24230189 CGTCATCCGCTTGAAATTGAAGTAAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAG
66 CGTCATCCGCTTGAAATTGAAGT-AGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAG
*
24230254 AGCAAGGTC
130 AGCAACGTC
* * *
24230263 ATCCTCTTGAAATTGAAGTAGAGTTGGACAACACGTCTTTATCTCTAAAATTGAAGTAAGAGCAA
1 ATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
24230328 CGTCATCCGCTTGAAATTGAAGTAAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAG
66 CGTCATCCGCTTGAAATTGAAGT-AGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAG
*
24230393 AGCAAGGTC
130 AGCAACGTC
*
24230402 ATCCTCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
1 ATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGC--
* * * *
24230466 AATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAACTGA
64 AA-C--GT-C-ATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGA
24230531 AGTAAGA
124 AGTAAGA
24230538 ATTAGACAAA
Statistics
Matches: 776, Mismatches: 42, Indels: 26
0.92 0.05 0.03
Matches are distributed among these distances:
137 21 0.03
138 363 0.47
139 208 0.27
140 2 0.00
141 2 0.00
142 1 0.00
143 2 0.00
144 96 0.12
145 19 0.02
146 1 0.00
149 2 0.00
150 1 0.00
151 1 0.00
152 57 0.07
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (138 bp):
ATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
CGTCATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGA
GCAACGTC
Found at i:24230001 original size:207 final size:207
Alignment explanation
Indices: 24229559--24230537 Score: 1406
Period size: 207 Copynumber: 4.6 Consensus size: 207
24229549 ATTTTTTTCT
* * *
24229559 ATCCGCTTGAAATTGAAGTAGAG-TGGATAACATGTCTTTATCTCTAAAATTGAAGTAGGAGCAA
1 ATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGC-A
* * * * *
24229623 GATCGTTTTCCTATCCTCTTGAAATTAAAGTAAAGCTGGATATCAAGTCTTTATCTCCGAAATTG
65 -A-CG---T-C-ATCCTCTTGAAATTAAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTG
* *
24229688 AAGTAAGAGCAACATCATTTCCTATCCTCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTCAT
123 AAGTAAGAGC-A-A-C--GT-C-ATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCAT
24229752 CTCTGAAATTGAAGTAAGAGCAACGTC
181 CTCTGAAATTGAAGTAAGAGCAACGTC
*
24229779 ATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
1 ATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
* *
24229844 CGTCATCCGCTTGAAATTAAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGA
66 CGTCATCCTCTTGAAATTAAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGA
* *
24229909 GCAACGTCATCCGCTTGAAATTAAAGTAGAGTTGGATAACACGTCTTCATATCTGAAATTGAAGT
131 GCAACGTCATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAAGT
*
24229974 AAGAGCAAAGTC
196 AAGAGCAACGTC
* * *
24229986 ATCCGCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTCATCTCTGAAATTAAAGTAAGAGCAA
1 ATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
* * *
24230051 CATCATCCGCTTGAAATTAAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGA
66 CGTCATCCTCTTGAAATTAAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGA
* *
24230116 GCAACGTCATCCACTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGT
131 GCAACGTCATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAAGT
24230181 AAGAGCAACGTC
196 AAGAGCAACGTC
24230193 ATCCGCTTGAAATTGAAGTAAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCA
1 ATCCGCTTGAAATTGAAGT-AGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCA
* * * *
24230258 AGGTCATCCTCTTGAAATTGAAGTAGAGTTGGACAACACGTCTTTATCTCTAAAATTGAAGTAAG
65 ACGTCATCCTCTTGAAATTAAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAG
*
24230323 AGCAACGTCATCCGCTTGAAATTGAAGTAAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAA
130 AGCAACGTCATCCGCTTGAAATTGAAGT-AGAGTTGGATAACACGTCTTCATCTCTGAAATTGAA
*
24230388 GTAAGAGCAAGGTC
194 GTAAGAGCAACGTC
*
24230402 ATCCTCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
1 ATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGC--
* * * *
24230466 AATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAACTGA
64 AA-C--GT-C-ATCCTCTTGAAATTAAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGA
24230531 AGTAAGA
124 AGTAAGA
24230538 ATTAGACAAA
Statistics
Matches: 705, Mismatches: 43, Indels: 28
0.91 0.06 0.04
Matches are distributed among these distances:
206 21 0.03
207 301 0.43
208 132 0.19
209 69 0.10
210 1 0.00
211 1 0.00
212 2 0.00
213 57 0.08
214 58 0.08
215 1 0.00
218 2 0.00
219 1 0.00
220 24 0.03
221 35 0.05
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (207 bp):
ATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
CGTCATCCTCTTGAAATTAAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGA
GCAACGTCATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAAGT
AAGAGCAACGTC
Found at i:24230890 original size:6 final size:6
Alignment explanation
Indices: 24230873--24230960 Score: 60
Period size: 6 Copynumber: 15.0 Consensus size: 6
24230863 TAGCTTTGAG
* * *
24230873 TTTAAA -TTAAA TTTAAA TTT-AT TTTAAA TTTTAAA TTTAAA ATTACTTA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA -TTTAAA TTTAAA TTTA--AA
* * *
24230922 TTTAAG TTT-AT TTTAAA TTTAAA TTTGAA --TAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
24230961 ATAATATTAA
Statistics
Matches: 63, Mismatches: 11, Indels: 16
0.70 0.12 0.18
Matches are distributed among these distances:
4 3 0.05
5 13 0.21
6 37 0.59
7 6 0.10
8 4 0.06
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.52
Consensus pattern (6 bp):
TTTAAA
Found at i:24231744 original size:3 final size:3
Alignment explanation
Indices: 24231736--24231773 Score: 58
Period size: 3 Copynumber: 12.0 Consensus size: 3
24231726 CATTAATATT
24231736 TAA TAA TAA TAA CTAA TAAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA -TAA T-AA TAA TAA TAA TAA TAA TAA
24231774 ATATTTAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 27 0.82
4 6 0.18
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:24231782 original size:23 final size:23
Alignment explanation
Indices: 24231729--24231784 Score: 75
Period size: 20 Copynumber: 2.6 Consensus size: 23
24231719 GAATATCCAT
24231729 TAATATTTAATAATAATAACTAA
1 TAATATTTAATAATAATAACTAA
24231752 TAA-A--TAATAATAATAA-TAA
1 TAATATTTAATAATAATAACTAA
24231771 TAAATATTTAATAA
1 T-AATATTTAATAA
24231785 AAAAAGAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
19 4 0.14
20 14 0.48
21 1 0.03
22 1 0.03
23 9 0.31
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (23 bp):
TAATATTTAATAATAATAACTAA
Found at i:24232802 original size:29 final size:27
Alignment explanation
Indices: 24232766--24232868 Score: 100
Period size: 29 Copynumber: 3.6 Consensus size: 27
24232756 TCAAACAGTC
*
24232766 CAAAAATTACATTTTGACCCCAAAATTT
1 CAAAAATTACATTTT-ACCCCAAACTTT
* *
24232794 CAAGAAATTACATTTTAACCTCGAAACTTC
1 CAA-AAATTACATTTT-ACC-CCAAACTTT
24232824 CAAAAATTACCATTTTACCCCCAAACTTT
1 CAAAAATTA-CATTTTA-CCCCAAACTTT
*
24232853 CCAAAATT-CTATTTTA
1 CAAAAATTAC-ATTTTA
24232869 ACCTCGATTT
Statistics
Matches: 63, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
27 1 0.02
28 9 0.14
29 36 0.57
30 17 0.27
ACGTcount: A:0.40, C:0.24, G:0.03, T:0.33
Consensus pattern (27 bp):
CAAAAATTACATTTTACCCCAAACTTT
Found at i:24232887 original size:29 final size:28
Alignment explanation
Indices: 24232855--24233195 Score: 160
Period size: 29 Copynumber: 11.7 Consensus size: 28
24232845 CAAACTTTCC
*
24232855 AAAATTCTATTTTAACCTCGATTTCACT
1 AAAATTCCATTTTAACCTCGATTTCACT
* * *
24232883 AAAAATTACCATTTTACCCCCGAACCTT--CT
1 -AAAATT-CCATTTTAACCTCG-A-TTTCACT
*
24232913 AAAATTCCATTTTTAACCTCGATTTCACCA
1 AAAATTCCA-TTTTAACCTCGATTTCA-CT
* *
24232943 AAAATTATCATTTTACCCTCGAACTTTC-C-
1 AAAATT-CCATTTTAACCTCG-A-TTTCACT
*
24232972 AAAATTCCATTTCTAACCTCGATTTCATT
1 AAAATTCCATTT-TAACCTCGATTTCACT
* ** ** *
24233001 GAAAATTACCATTTTACCCCTAAACCTC-TT
1 -AAAATT-CCATTTTA-ACCTCGATTTCACT
24233031 AAAATTCCATTTTTAACCTCGATTTCACCAT
1 AAAATTCCA-TTTTAACCTCGATTTCA-C-T
* * * **
24233062 AAAATTACCATTTTACCCCCAAACCTC-CT
1 AAAATT-CCATTTTAACCTC-GATTTCACT
* * *
24233091 AAAATTCCATTTTAA-CTCCTATTTTACC
1 AAAATTCCATTTTAACCT-CGATTTCACT
* ** *
24233119 AAAAGTTACCATTTTACCCTCGAAGTCTC-
1 AAAA-TT-CCATTTTAACCTCGATTTCACT
* *
24233148 AAAATTCCATTTTTAACCTCGATTACACC
1 AAAATTCCA-TTTTAACCTCGATTTCACT
24233177 AAAATTACCATTTT-ACCTC
1 AAAATT-CCATTTTAACCTC
24233196 TGGGTATCCA
Statistics
Matches: 235, Mismatches: 47, Indels: 61
0.69 0.14 0.18
Matches are distributed among these distances:
27 12 0.05
28 53 0.23
29 68 0.29
30 57 0.24
31 33 0.14
32 12 0.05
ACGTcount: A:0.33, C:0.28, G:0.03, T:0.36
Consensus pattern (28 bp):
AAAATTCCATTTTAACCTCGATTTCACT
Found at i:24232956 original size:59 final size:59
Alignment explanation
Indices: 24232765--24233193 Score: 450
Period size: 59 Copynumber: 7.3 Consensus size: 59
24232755 CTCAAACAGT
** * * *
24232765 CCAAAAATTA-CATTTTGA-CCCCAAAATTTCAAGAAATTACA-TTTTAACCTCGAAACTT--
1 CCAAAAATTACCATTTT-ACCCCCAAACCTTCTA-AAATTCCATTTTTAACCTCG--ATTTCA
* * *
24232823 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCTA-TTTTAACCTCGATTTCA
1 CCAAAAATTACCATTTTACCCCCAAACCTTCTAAAATTCCATTTTTAACCTCGATTTCA
* *
24232881 CTAAAAATTACCATTTTACCCCCGAACCTTCTAAAATTCCATTTTTAACCTCGATTTCA
1 CCAAAAATTACCATTTTACCCCCAAACCTTCTAAAATTCCATTTTTAACCTCGATTTCA
* * * * * *
24232940 CCAAAAATTATCATTTTACCCTCGAACTTTCCAAAATTCCATTTCTAACCTCGATTTCA
1 CCAAAAATTACCATTTTACCCCCAAACCTTCTAAAATTCCATTTTTAACCTCGATTTCA
*** *
24232999 TTGAAAATTACCATTTTACCCCTAAACC-TCTTAAAATTCCATTTTTAACCTCGATTTCA
1 CCAAAAATTACCATTTTACCCCCAAACCTTC-TAAAATTCCATTTTTAACCTCGATTTCA
* * *
24233058 CCATAAAATTACCATTTTACCCCCAAACCTCCTAAAATTCCA-TTTTAA-CTCCTATTTTA
1 CCA-AAAATTACCATTTTACCCCCAAACCTTCTAAAATTCCATTTTTAACCT-CGATTTCA
* * * * *
24233117 CCAAAAGTTACCATTTTACCCTCGAA--GTCTCAAAATTCCATTTTTAACCTCGATTACA
1 CCAAAAATTACCATTTTACCCCCAAACCTTCT-AAAATTCCATTTTTAACCTCGATTTCA
24233175 CC-AAAATTACCATTTTACC
1 CCAAAAATTACCATTTTACC
24233194 TCTGGGTATC
Statistics
Matches: 317, Mismatches: 42, Indels: 25
0.83 0.11 0.07
Matches are distributed among these distances:
56 5 0.02
57 25 0.08
58 101 0.32
59 151 0.48
60 34 0.11
61 1 0.00
ACGTcount: A:0.34, C:0.28, G:0.03, T:0.35
Consensus pattern (59 bp):
CCAAAAATTACCATTTTACCCCCAAACCTTCTAAAATTCCATTTTTAACCTCGATTTCA
Done.