Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold122
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: 766530
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.29
Warning! 93190 characters in sequence are not A, C, G, or T
File 3 of 5
Found at i:417760 original size:1 final size:1
Alignment explanation
Indices: 417749--417816 Score: 64
Period size: 1 Copynumber: 68.0 Consensus size: 1
417739 CCCCTTTCTA
* ** * * * * *
417749 TTTTTTCTTTTTTTTTTTTGGTTTTTTCTGTTTTTTTTGTTTTTTTGTTTTTTTTTTGTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
417814 TTT
1 TTT
417817 GGGGTATGAA
Statistics
Matches: 53, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 53 1.00
ACGTcount: A:0.00, C:0.03, G:0.09, T:0.88
Consensus pattern (1 bp):
T
Found at i:417782 original size:19 final size:17
Alignment explanation
Indices: 417756--417816 Score: 74
Period size: 17 Copynumber: 3.6 Consensus size: 17
417746 CTATTTTTTC
*
417756 TTTTT-TTTTTTTGGTT
1 TTTTTGTTTTTTTTGTT
417772 TTTTCTGTTTTTTTTGTT
1 TTTT-TGTTTTTTTTGTT
417790 TTTTTGTTTTTTTT-TT
1 TTTTTGTTTTTTTTGTT
417806 GTTTTT-TTTTT
1 -TTTTTGTTTTT
417817 GGGGTATGAA
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
16 11 0.27
17 16 0.39
18 14 0.34
ACGTcount: A:0.00, C:0.02, G:0.10, T:0.89
Consensus pattern (17 bp):
TTTTTGTTTTTTTTGTT
Found at i:417784 original size:17 final size:17
Alignment explanation
Indices: 417756--417818 Score: 71
Period size: 18 Copynumber: 3.9 Consensus size: 17
417746 CTATTTTTTC
417756 TTTTT-TTTTTTTGGTT
1 TTTTTGTTTTTTTGGTT
*
417772 TTTTCTGTTTTTTTTGTT
1 TTTT-TGTTTTTTTGGTT
417790 TTTTTGTTTTTTT--TT
1 TTTTTGTTTTTTTGGTT
*
417805 TGTTT-TTTTTTTGG
1 TTTTTGTTTTTTTGG
417819 GGTATGAAGG
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
14 7 0.17
15 6 0.15
16 4 0.10
17 10 0.24
18 14 0.34
ACGTcount: A:0.00, C:0.02, G:0.13, T:0.86
Consensus pattern (17 bp):
TTTTTGTTTTTTTGGTT
Found at i:427700 original size:19 final size:19
Alignment explanation
Indices: 427676--427789 Score: 135
Period size: 19 Copynumber: 6.6 Consensus size: 19
427666 AACAAGTAAC
427676 TGTATCGATACATAAGGGT
1 TGTATCGATACATAAGGGT
427695 TGTATCGATAC--AA----
1 TGTATCGATACATAAGGGT
427708 TGTATCGATACATAAGGGT
1 TGTATCGATACATAAGGGT
427727 TGTATCGATACATAAGGGT
1 TGTATCGATACATAAGGGT
427746 TGTATCGATAC--AA----
1 TGTATCGATACATAAGGGT
*
427759 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGGGT
427778 TGTATCGATACA
1 TGTATCGATACA
427790 ATGTATCGTT
Statistics
Matches: 83, Mismatches: 0, Indels: 24
0.78 0.00 0.22
Matches are distributed among these distances:
13 22 0.27
15 4 0.05
17 4 0.05
19 53 0.64
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.32
Consensus pattern (19 bp):
TGTATCGATACATAAGGGT
Found at i:427713 original size:13 final size:13
Alignment explanation
Indices: 427695--427719 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
427685 ACATAAGGGT
427695 TGTATCGATACAA
1 TGTATCGATACAA
427708 TGTATCGATACA
1 TGTATCGATACA
427720 TAAGGGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:427717 original size:32 final size:32
Alignment explanation
Indices: 427676--427738 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
427666 AACAAGTAAC
427676 TGTATCGATACATAAGGGTTGTATCGATACAA
1 TGTATCGATACATAAGGGTTGTATCGATACAA
427708 TGTATCGATACATAAGGGTTGTATCGATACA
1 TGTATCGATACATAAGGGTTGTATCGATACA
427739 TAAGGGTTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.32
Consensus pattern (32 bp):
TGTATCGATACATAAGGGTTGTATCGATACAA
Found at i:427738 original size:51 final size:51
Alignment explanation
Indices: 427676--427789 Score: 219
Period size: 51 Copynumber: 2.2 Consensus size: 51
427666 AACAAGTAAC
427676 TGTATCGATACATAAGGGTTGTATCGATACAATGTATCGATACATAAGGGT
1 TGTATCGATACATAAGGGTTGTATCGATACAATGTATCGATACATAAGGGT
*
427727 TGTATCGATACATAAGGGTTGTATCGATACAATGTATCGATACATAAGTGT
1 TGTATCGATACATAAGGGTTGTATCGATACAATGTATCGATACATAAGGGT
427778 TGTATCGATACA
1 TGTATCGATACA
427790 ATGTATCGTT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.32
Consensus pattern (51 bp):
TGTATCGATACATAAGGGTTGTATCGATACAATGTATCGATACATAAGGGT
Found at i:427763 original size:32 final size:32
Alignment explanation
Indices: 427727--427797 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
427717 ACATAAGGGT
427727 TGTATCGATACATAAGGGTTGTATCGATACAA
1 TGTATCGATACATAAGGGTTGTATCGATACAA
*
427759 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGGGTTGTATCGATACAA
427791 TGTATCG
1 TGTATCG
427798 TTACGAAGCT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (32 bp):
TGTATCGATACATAAGGGTTGTATCGATACAA
Found at i:427764 original size:13 final size:13
Alignment explanation
Indices: 427746--427770 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
427736 ACATAAGGGT
427746 TGTATCGATACAA
1 TGTATCGATACAA
427759 TGTATCGATACA
1 TGTATCGATACA
427771 TAAGTGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:427860 original size:13 final size:13
Alignment explanation
Indices: 427842--427869 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
427832 ATTACTCAAA
427842 TGTATCGATACAT
1 TGTATCGATACAT
427855 TGTATCGATACAT
1 TGTATCGATACAT
427868 TG
1 TG
427870 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:434716 original size:33 final size:32
Alignment explanation
Indices: 434658--434721 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
434648 TAACTGTTTG
*
434658 TATCGATACACACAATATGTATCGATACATTA
1 TATCGATACACACAAAATGTATCGATACATTA
*
434690 TATCGATACATCCCAAAATGTATCGATACATT
1 TATCGATACA-CACAAAATGTATCGATACATT
434722 GGCTTGTAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 10 0.34
33 19 0.66
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.31
Consensus pattern (32 bp):
TATCGATACACACAAAATGTATCGATACATTA
Found at i:438879 original size:79 final size:78
Alignment explanation
Indices: 438730--438951 Score: 187
Period size: 79 Copynumber: 2.8 Consensus size: 78
438720 ACCCTACTAG
* * * * * * * * * *
438730 ACATGTTTAACCATGAAAATTCCCGA-ATGATCCTAGAGACTCAATTTTACGGTACTTTTATGTA
1 ACATATTTAAACATGAAAATT-CCTACATGACCCTAAAAATTCAGTTTTAAGGTACTTTTATCTA
438794 AGTGACCCTAATGC
65 AGTGACCCTAATGC
** * *
438808 ACATATTTTGACAT-AAAAGTTCCTACATGACCCTAAAAACTTTATTTTTAAGGTACTTTTATCT
1 ACATATTTAAACATGAAAA-TTCCTACATGACCCTAAAAA-TTCAGTTTTAAGGTACTTTTATCT
* * *
438872 AATTGACCTTAATGG
64 AAGTGACCCTAATGC
* ** * ** *
438887 ACATGTTTAAATGTGAAAATTCCTAGATGACCCTAAGGATTCAGTTTTAAGGTACTATTATCTAA
1 ACATATTTAAACATGAAAATTCCTACATGACCCTAAAAATTCAGTTTTAAGGTACTTTTATCTAA
438952 ATGGTCCCAA
Statistics
Matches: 113, Mismatches: 27, Indels: 8
0.76 0.18 0.05
Matches are distributed among these distances:
77 7 0.06
78 45 0.40
79 57 0.50
80 4 0.04
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.36
Consensus pattern (78 bp):
ACATATTTAAACATGAAAATTCCTACATGACCCTAAAAATTCAGTTTTAAGGTACTTTTATCTAA
GTGACCCTAATGC
Found at i:439097 original size:59 final size:58
Alignment explanation
Indices: 438948--439167 Score: 156
Period size: 59 Copynumber: 3.7 Consensus size: 58
438938 GTACTATTAT
* **
438948 CTAAATGGTCCCAAAATGCAT-AGAAAATGCTAAAGTGACCCTAGGTCATGTAAAATAAC
1 CTAAATGGTCCTAAAATGCATGA-AAAATGCTAAA-TGACCCTAAATCATGTAAAATAAC
* * * * * ** *
439007 CTAAA-AGACTTTAAAATGTATGGAATTTGCTAAATGACCCTTAAATTATGTAAAATAAC
1 CTAAATGGTC-CTAAAATGCATGAAAAATGCTAAATGACCC-TAAATCATGTAAAATAAC
* *** * * **
439066 TTAAATGGTCCTAAAATGCATGAAAAATGCTAAATAGTTTCTAGATTACATAAAATAAC
1 CTAAATGGTCCTAAAATGCATGAAAAATGCTAAAT-GACCCTAAATCATGTAAAATAAC
* * ** *
439125 CTAAATGATTCTAAAATTTATGAGAAATGCTAAATGATCCCTA
1 CTAAATGGTCCTAAAATGCATGAAAAATGCTAAATGA-CCCTA
439168 GATTACATAA
Statistics
Matches: 121, Mismatches: 34, Indels: 12
0.72 0.20 0.07
Matches are distributed among these distances:
58 9 0.07
59 108 0.89
60 4 0.03
ACGTcount: A:0.44, C:0.14, G:0.13, T:0.29
Consensus pattern (58 bp):
CTAAATGGTCCTAAAATGCATGAAAAATGCTAAATGACCCTAAATCATGTAAAATAAC
Found at i:439128 original size:49 final size:49
Alignment explanation
Indices: 439075--439237 Score: 123
Period size: 49 Copynumber: 3.1 Consensus size: 49
439065 CTTAAATGGT
* *
439075 CCTAAAATGCATGAAAAATGCTAAATAGTTTCTAGATTACATAAAATAA
1 CCTAAAATACATGAAAAATGCTAAATAGTCTCTAGATTACATAAAATAA
* * * *
439124 CCTAAATGATTCTAAAATTTATGAGAAATGCTAAAT-GATCCCTAGATTACATAAAATAC
1 CCTAAA--A---T---A--CATGAAAAATGCTAAATAG-TCTCTAGATTACATAAAATAA
* * *
439183 CCTAAAATATATGAAAAATGCAAAATAGTCTCTAGATTATGA-AAAATAA
1 CCTAAAATACATGAAAAATGCTAAATAGTCTCTAGATTA-CATAAAATAA
439232 CCTAAA
1 CCTAAA
439238 TTACCCTAAA
Statistics
Matches: 90, Mismatches: 11, Indels: 26
0.71 0.09 0.20
Matches are distributed among these distances:
49 43 0.48
50 2 0.02
51 2 0.02
54 2 0.02
57 1 0.01
58 1 0.01
59 39 0.43
ACGTcount: A:0.48, C:0.13, G:0.10, T:0.28
Consensus pattern (49 bp):
CCTAAAATACATGAAAAATGCTAAATAGTCTCTAGATTACATAAAATAA
Found at i:439136 original size:29 final size:28
Alignment explanation
Indices: 439095--439188 Score: 66
Period size: 29 Copynumber: 3.2 Consensus size: 28
439085 ATGAAAAATG
*
439095 CTAAATAGTTTCTAGATTACATAAAATAAC
1 CTAAAT-GATTCTAGATTACATAAAAT-AC
* * *
439125 CTAAATGATTCTAAAATT-TATGAGAAAT-G
1 CTAAATGATTCT-AGATTACAT-A-AAATAC
*
439154 CTAAATGATCCCTAGATTACATAAAATACC
1 CTAAATGAT-TCTAGATTACATAAAATA-C
439184 CTAAA
1 CTAAA
439189 ATATATGAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 14
0.69 0.11 0.20
Matches are distributed among these distances:
28 4 0.08
29 21 0.43
30 20 0.41
31 4 0.08
ACGTcount: A:0.46, C:0.15, G:0.09, T:0.31
Consensus pattern (28 bp):
CTAAATGATTCTAGATTACATAAAATAC
Found at i:439169 original size:59 final size:58
Alignment explanation
Indices: 438972--439188 Score: 195
Period size: 59 Copynumber: 3.7 Consensus size: 58
438962 AATGCATAGA
* * ** *
438972 AAATGCTAAAGTGACCCTAGGTCATGTAAAATAACCTAAAAGACTT-TAAAATGTATG-G
1 AAATGCTAAA-TGACCCTAGATTACATAAAATAACCTAAATGA-TTCTAAAATGTATGAG
* * ** * * * * *
439030 AATTTGCTAAATGACCCTTAAATTATGTAAAATAACTTAAATGGTCCTAAAATGCATGAA
1 AA-ATGCTAAATGACCC-TAGATTACATAAAATAACCTAAATGATTCTAAAATGTATGAG
*** *
439090 AAATGCTAAATAGTTTCTAGATTACATAAAATAACCTAAATGATTCTAAAATTTATGAG
1 AAATGCTAAAT-GACCCTAGATTACATAAAATAACCTAAATGATTCTAAAATGTATGAG
*
439149 AAATGCTAAATGATCCCTAGATTACATAAAATACCCTAAA
1 AAATGCTAAATGA-CCCTAGATTACATAAAATAACCTAAA
439189 ATATATGAAA
Statistics
Matches: 126, Mismatches: 27, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
58 10 0.08
59 112 0.89
60 4 0.03
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.29
Consensus pattern (58 bp):
AAATGCTAAATGACCCTAGATTACATAAAATAACCTAAATGATTCTAAAATGTATGAG
Found at i:439375 original size:22 final size:23
Alignment explanation
Indices: 439332--439375 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
439322 ACACAAGATT
*
439332 AAAATAAAATAATATAATATTAA
1 AAAATAAAATAATATAAAATTAA
439355 AAAAT-AAAT-ATATCAAAATTA
1 AAAATAAAATAATAT-AAAATTA
439376 TGTAACGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 4 0.21
22 10 0.53
23 5 0.26
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (23 bp):
AAAATAAAATAATATAAAATTAA
Found at i:441353 original size:23 final size:23
Alignment explanation
Indices: 441310--441353 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
441300 GCATTCAACC
*
441310 TTGGGTTACAATCTTTTAAGAAT
1 TTGGGTTACAATCTTTGAAGAAT
*
441333 TTGGGTTATAAT-TCTTGAAGA
1 TTGGGTTACAATCT-TTGAAGA
441354 GATTGAGAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 1 0.06
23 17 0.94
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (23 bp):
TTGGGTTACAATCTTTGAAGAAT
Found at i:445681 original size:13 final size:13
Alignment explanation
Indices: 445663--445688 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
445653 CAATTTTTTG
445663 TGTATCGATACAT
1 TGTATCGATACAT
445676 TGTATCGATACAT
1 TGTATCGATACAT
445689 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:448255 original size:13 final size:13
Alignment explanation
Indices: 448237--448262 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
448227 ATAATCACCT
448237 TGTATCGATACAA
1 TGTATCGATACAA
448250 TGTATCGATACAA
1 TGTATCGATACAA
448263 AGAAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:451996 original size:21 final size:21
Alignment explanation
Indices: 451967--452011 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
451957 AAGTTTTCAT
*
451967 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
451987 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
452009 TTT
1 TTT
452012 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:457524 original size:79 final size:79
Alignment explanation
Indices: 457430--457649 Score: 227
Period size: 79 Copynumber: 2.8 Consensus size: 79
457420 ACAACGGGGC
*
457430 TGGAGTATCCTCGATTATGGAAAATCGGTATTTTGAAAATAAAATCGGGATTGGAGTATCCCC-T
1 TGGAGTATCCCCGATTATGGAAAATCGGTATTTTGAAAATAAAATCGGGATTGGAGTATCCCCAT
457494 AAAAAATAACAGG-GT
66 -AAAAATAAC-GGTGT
* ** ** * *
457509 TGGAGTATCCCCGATTATGGAAAATCGATGCTTT-AGAAATAAGGTTGGGGTTGGAGTATCCCCA
1 TGGAGTATCCCCGATTATGGAAAATCGGTATTTTGA-AAATAAAATCGGGATTGGAGTATCCCCA
*
457573 TGAAAATAACGGTGT
65 TAAAAATAACGGTGT
* * * *
457588 TGAAGTATCCCCGATTGT-GAGAAATTGG-AGTTTTGGAAATAAAATC-GGAGTTGGAGTATCCC
1 TGGAGTATCCCCGATTATGGA-AAATCGGTA-TTTTGAAAATAAAATCGGGA-TTGGAGTATCCC
457650 TGATTGTGAA
Statistics
Matches: 114, Mismatches: 20, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
78 7 0.06
79 106 0.93
80 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (79 bp):
TGGAGTATCCCCGATTATGGAAAATCGGTATTTTGAAAATAAAATCGGGATTGGAGTATCCCCAT
AAAAATAACGGTGT
Found at i:457655 original size:51 final size:51
Alignment explanation
Indices: 457586--457701 Score: 146
Period size: 51 Copynumber: 2.3 Consensus size: 51
457576 AAATAACGGT
* **
457586 GTTGAAGTATCCCCGATTGTGAGAAATT-GGAGTTTTGGAAATAAAATCG-G
1 GTTGAAGTATCCCCGATTGTGAAAAATTAGGA-TTTTAAAAATAAAATCGAG
* * *
457636 AGTTGGAGTATCCCTGATTGTGAAAAATTAGTATTTTAAAAATAAAATCGAG
1 -GTTGAAGTATCCCCGATTGTGAAAAATTAGGATTTTAAAAATAAAATCGAG
457688 GTTGAAGTATCCCC
1 GTTGAAGTATCCCC
457702 TCGAAAAAAC
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
51 52 0.95
52 3 0.05
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.31
Consensus pattern (51 bp):
GTTGAAGTATCCCCGATTGTGAAAAATTAGGATTTTAAAAATAAAATCGAG
Found at i:457831 original size:28 final size:29
Alignment explanation
Indices: 457795--457865 Score: 103
Period size: 28 Copynumber: 2.5 Consensus size: 29
457785 ACAAAGCCGA
*
457795 GGTTAGAGTATCCCCTCG-GAAATAACGG
1 GGTTGGAGTATCCCCTCGAGAAATAACGG
457823 GGTTGGAGTAT--CCTCGATGAAATAACGG
1 GGTTGGAGTATCCCCTCGA-GAAATAACGG
457851 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
457866 AATTGTGAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
26 5 0.13
28 31 0.82
30 2 0.05
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.24
Consensus pattern (29 bp):
GGTTGGAGTATCCCCTCGAGAAATAACGG
Found at i:457912 original size:51 final size:51
Alignment explanation
Indices: 457852--457995 Score: 155
Period size: 51 Copynumber: 2.8 Consensus size: 51
457842 AAATAACGGG
* * *
457852 GTTGGAGTATCCCCAATTGTGAAAAATTGGTGTTTTGAAAATAAAATCGAA
1 GTTGGAGTATCCCCGATTGAGAAAAATTGATGTTTTGAAAATAAAATCGAA
* * ** * * *
457903 GTTGGAGTATCCCTGATTGCGGTAAATCGATGCTTT-AGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGAGAAAAATTGATGTTTTGA-AAATAAAATCGAA
* * *
457954 GTTGGAGTATCCCCGATTAAAAAAAATTGATGTTTTGGAAAT
1 GTTGGAGTATCCCCGATTGAGAAAAATTGATGTTTTGAAAAT
457996 GGAACCGGGA
Statistics
Matches: 73, Mismatches: 18, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
50 1 0.01
51 72 0.99
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGAGAAAAATTGATGTTTTGAAAATAAAATCGAA
Found at i:460294 original size:20 final size:20
Alignment explanation
Indices: 460269--460328 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
460259 AAAATGCCTG
460269 AATGTATCGATACATTGTAA
1 AATGTATCGATACATTGTAA
***
460289 AATGTATCGATACATCTGGGT
1 AATGTATCGATACAT-TGTAA
*
460310 AATGTATCGATACAATGTA
1 AATGTATCGATACATTGTA
460329 TCGATACAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
20 17 0.52
21 16 0.48
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTGTAA
Found at i:460315 original size:21 final size:20
Alignment explanation
Indices: 460269--460323 Score: 74
Period size: 21 Copynumber: 2.7 Consensus size: 20
460259 AAAATGCCTG
*
460269 AATGTATCGATACATTGTAA
1 AATGTATCGATACATTGGAA
**
460289 AATGTATCGATACATCTGGGT
1 AATGTATCGATACAT-TGGAA
460310 AATGTATCGATACA
1 AATGTATCGATACA
460324 ATGTATCGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
20 15 0.48
21 16 0.52
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTGGAA
Found at i:460328 original size:13 final size:13
Alignment explanation
Indices: 460310--460337 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
460300 ACATCTGGGT
460310 AATGTATCGATAC
1 AATGTATCGATAC
460323 AATGTATCGATAC
1 AATGTATCGATAC
460336 AA
1 AA
460338 ATTGTGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:460943 original size:20 final size:20
Alignment explanation
Indices: 460918--460982 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 20
460908 AAACCCAGAT
460918 GTATCGATACTGTGTTTGTA
1 GTATCGATACTGTGTTTGTA
** *
460938 GTATCGATAC-CAG---AT-
1 GTATCGATACTGTGTTTGTA
460953 GTATCGATACTGTGTTTGTA
1 GTATCGATACTGTGTTTGTA
460973 GTATCGATAC
1 GTATCGATAC
460983 ATTATATCGA
Statistics
Matches: 34, Mismatches: 6, Indels: 10
0.68 0.12 0.20
Matches are distributed among these distances:
15 10 0.29
16 2 0.06
19 2 0.06
20 20 0.59
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.38
Consensus pattern (20 bp):
GTATCGATACTGTGTTTGTA
Found at i:460958 original size:35 final size:35
Alignment explanation
Indices: 460912--460982 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
460902 ATGGAAAAAC
460912 CCAGATGTATCGATACTGTGTTTGTAGTATCGATA
1 CCAGATGTATCGATACTGTGTTTGTAGTATCGATA
460947 CCAGATGTATCGATACTGTGTTTGTAGTATCGATA
1 CCAGATGTATCGATACTGTGTTTGTAGTATCGATA
460982 C
1 C
460983 ATTATATCGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (35 bp):
CCAGATGTATCGATACTGTGTTTGTAGTATCGATA
Found at i:460992 original size:13 final size:13
Alignment explanation
Indices: 460974--461009 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
460964 GTGTTTGTAG
*
460974 TATCGATACATTA
1 TATCGATACACTA
460987 TATCGATACACTA
1 TATCGATACACTA
*
461000 TATCAATACA
1 TATCGATACA
461010 AAGGCACTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.06, T:0.33
Consensus pattern (13 bp):
TATCGATACACTA
Found at i:462395 original size:16 final size:16
Alignment explanation
Indices: 462374--462409 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
462364 ACTTTTATTT
**
462374 CTTTGCTTGTTTTTAA
1 CTTTGCTTGTACTTAA
462390 CTTTGCTTGTACTTAA
1 CTTTGCTTGTACTTAA
462406 CTTT
1 CTTT
462410 TCTTAATGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.14, C:0.17, G:0.11, T:0.58
Consensus pattern (16 bp):
CTTTGCTTGTACTTAA
Found at i:462630 original size:20 final size:21
Alignment explanation
Indices: 462605--462662 Score: 75
Period size: 20 Copynumber: 2.9 Consensus size: 21
462595 AAAGGGGAGG
*
462605 AATTTT-TTAAGGGGGAGAAC
1 AATTTTATTAAGGGGGAGAAA
* *
462625 AATTTTATTAA-AGGGAAAAA
1 AATTTTATTAAGGGGGAGAAA
462645 AATTTTATTAAGGGGGAG
1 AATTTTATTAAGGGGGAG
462663 TTATAAATTG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 23 0.74
21 8 0.26
ACGTcount: A:0.41, C:0.02, G:0.26, T:0.31
Consensus pattern (21 bp):
AATTTTATTAAGGGGGAGAAA
Found at i:471213 original size:33 final size:33
Alignment explanation
Indices: 471169--471273 Score: 130
Period size: 33 Copynumber: 3.3 Consensus size: 33
471159 CACACTCAGA
* *
471169 TGTATCGATACAT-TATGCTTAGTATCGATACAT
1 TGTATCAATACATGT-TACTTAGTATCGATACAT
*
471202 TGTATCAATACATGTTACTTTGTATCGATACAT
1 TGTATCAATACATGTTACTTAGTATCGATACAT
471235 TGTATCAATACATGTTCAC-T-GTATCGATACA-
1 TGTATCAATACATGTT-ACTTAGTATCGATACAT
471266 TGTA-CAAT
1 TGTATCAAT
471274 TGTATCGATA
Statistics
Matches: 67, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
30 4 0.06
31 4 0.06
32 11 0.16
33 45 0.67
34 3 0.04
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.39
Consensus pattern (33 bp):
TGTATCAATACATGTTACTTAGTATCGATACAT
Found at i:471279 original size:20 final size:19
Alignment explanation
Indices: 471230--471287 Score: 80
Period size: 19 Copynumber: 3.0 Consensus size: 19
471220 TTTGTATCGA
*
471230 TACATTGTATCAATACATG
1 TACATTGTATCGATACATG
* *
471249 TTCACTGTATCGATACATG
1 TACATTGTATCGATACATG
471268 TACAATTGTATCGATACATG
1 TAC-ATTGTATCGATACATG
471288 AAATTGGCAG
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (19 bp):
TACATTGTATCGATACATG
Found at i:471341 original size:20 final size:19
Alignment explanation
Indices: 471316--471369 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 19
471306 CTACCACTGT
471316 TTGTATCGATACATG-GCACA
1 TTGTATCGATACATGAG-A-A
471336 TTGTATCGATACATGATGAA
1 TTGTATCGATACATGA-GAA
471356 TTGTATCGATACAT
1 TTGTATCGATACAT
471370 TGCTTCAAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 30 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (19 bp):
TTGTATCGATACATGAGAA
Found at i:481308 original size:17 final size:17
Alignment explanation
Indices: 481282--481334 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 17
481272 CACATCCAGA
481282 TGTATCGATACATTATG
1 TGTATCGATACATTATG
* *
481299 TGTATTGATACATTATACTT
1 TGTATCGATACA-T-TA-TG
481319 TGTATCGATACATTAT
1 TGTATCGATACATTAT
481335 ATCGATACAT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
17 12 0.40
18 3 0.10
19 3 0.10
20 12 0.40
ACGTcount: A:0.30, C:0.11, G:0.13, T:0.45
Consensus pattern (17 bp):
TGTATCGATACATTATG
Found at i:481328 original size:20 final size:19
Alignment explanation
Indices: 481282--481336 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 19
481272 CACATCCAGA
481282 TGTATCGATACA-T-TATG
1 TGTATCGATACATTATATG
* *
481299 TGTATTGATACATTATACTT
1 TGTATCGATACATTATA-TG
481319 TGTATCGATACATTATAT
1 TGTATCGATACATTATAT
481337 CGATACATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
17 11 0.34
18 1 0.03
19 3 0.09
20 17 0.53
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.45
Consensus pattern (19 bp):
TGTATCGATACATTATATG
Found at i:481356 original size:19 final size:18
Alignment explanation
Indices: 481328--481385 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 18
481318 TTGTATCGAT
*
481328 ACATTATATCGATACATG
1 ACATTGTATCGATACATG
*
481346 ATCATTGTATCGATACATTC
1 A-CATTGTATCGATACA-TG
*
481366 ACAATTGTATCAATACATG
1 AC-ATTGTATCGATACATG
481385 A
1 A
481386 AACTGGCAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
18 1 0.03
19 17 0.52
20 15 0.45
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.34
Consensus pattern (18 bp):
ACATTGTATCGATACATG
Found at i:481451 original size:33 final size:32
Alignment explanation
Indices: 481414--481478 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 32
481404 TACCACTGTT
481414 TGTATCGATACATG-GCACATTGTATCGATACAA
1 TGTATCGATACATGAG-A-ATTGTATCGATACAA
*
481447 TGTATCGATGCATGAAGAATTGTATCGATACA
1 TGTATCGATACATG-AGAATTGTATCGATACA
481479 TTGTCCCAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 27 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (32 bp):
TGTATCGATACATGAGAATTGTATCGATACAA
Found at i:490037 original size:33 final size:32
Alignment explanation
Indices: 489999--490190 Score: 103
Period size: 32 Copynumber: 6.0 Consensus size: 32
489989 AAATTCCCTG
489999 ATGTATCGATACA-AAGATCAATGTATCGATACA
1 ATGTATCGATACATAA-AT-AATGTATCGATACA
*
490032 ATGTATGGATACATTAAATAATGTATCGATAC-
1 ATGTATCGATACA-TAAATAATGTATCGATACA
** * ** * *
490064 AT-T-TCCTTGGCAGTAGCT-TTGTAGCGATACA
1 ATGTATCGAT-ACA-TAAATAATGTATCGATACA
* * *
490095 TTGTATCGATACA-ACACTTATGTATCGATACA
1 ATGTATCGATACATA-AATAATGTATCGATACA
* * *
490127 TTGTATCGATACA-ACACTTATGTATCGATACA
1 ATGTATCGATACATA-AATAATGTATCGATACA
* * *
490159 TTGTATCGATACA-ACACTTATGTATCGATACA
1 ATGTATCGATACATA-AATAATGTATCGATACA
490191 TTTACTCATT
Statistics
Matches: 134, Mismatches: 17, Indels: 17
0.80 0.10 0.10
Matches are distributed among these distances:
30 13 0.10
31 9 0.07
32 80 0.60
33 28 0.21
34 2 0.01
35 2 0.01
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (32 bp):
ATGTATCGATACATAAATAATGTATCGATACA
Found at i:490104 original size:13 final size:13
Alignment explanation
Indices: 490082--490171 Score: 63
Period size: 13 Copynumber: 6.0 Consensus size: 13
490072 GGCAGTAGCT
*
490082 TTGTAGCGATACA
1 TTGTATCGATACA
490095 TTGTATCGATACAACA
1 TTGTATCGAT---ACA
490111 CTTATGTATCGATACA
1 --T-TGTATCGATACA
490127 TTGTATCGATACAACA
1 TTGTATCGAT---ACA
490143 CTTATGTATCGATACA
1 --T-TGTATCGATACA
490159 TTGTATCGATACA
1 TTGTATCGATACA
490172 ACACTTATGT
Statistics
Matches: 64, Mismatches: 1, Indels: 24
0.72 0.01 0.27
Matches are distributed among these distances:
13 30 0.47
14 2 0.03
16 12 0.19
18 2 0.03
19 18 0.28
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.34
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:490120 original size:19 final size:19
Alignment explanation
Indices: 490096--490230 Score: 141
Period size: 19 Copynumber: 7.6 Consensus size: 19
490086 AGCGATACAT
490096 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
490115 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
490128 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
490147 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
490160 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
** *
490179 TGTATCGATACATTTACTCA
1 TGTATCGATACA-ACACTTA
490199 TTGTATCGATACAACACTTA
1 -TGTATCGATACAACACTTA
490219 TGTATCGATACA
1 TGTATCGATACA
490231 TTTACTATTT
Statistics
Matches: 96, Mismatches: 6, Indels: 28
0.74 0.05 0.22
Matches are distributed among these distances:
13 18 0.19
14 2 0.02
16 12 0.12
18 2 0.02
19 42 0.44
20 8 0.08
21 12 0.12
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.35
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:490129 original size:32 final size:32
Alignment explanation
Indices: 490083--490232 Score: 219
Period size: 32 Copynumber: 4.4 Consensus size: 32
490073 GCAGTAGCTT
*
490083 TGTAGCGATACATTGTATCGATACAACACTTA
1 TGTATCGATACATTGTATCGATACAACACTTA
490115 TGTATCGATACATTGTATCGATACAACACTTA
1 TGTATCGATACATTGTATCGATACAACACTTA
490147 TGTATCGATACATTGTATCGATACAACACTTA
1 TGTATCGATACATTGTATCGATACAACACTTA
490179 TGTATCGATACATTTACTCATTGTATCGATACAACACTTA
1 TGTATCG----A--TA--CATTGTATCGATACAACACTTA
490219 TGTATCGATACATT
1 TGTATCGATACATT
490233 TACTATTTGT
Statistics
Matches: 109, Mismatches: 1, Indels: 16
0.87 0.01 0.13
Matches are distributed among these distances:
32 74 0.68
34 2 0.02
36 2 0.02
38 2 0.02
40 29 0.27
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATTGTATCGATACAACACTTA
Found at i:490205 original size:21 final size:20
Alignment explanation
Indices: 490157--490252 Score: 90
Period size: 19 Copynumber: 4.8 Consensus size: 20
490147 TGTATCGATA
490157 CATTGTATCGATACAACACT
1 CATTGTATCGATACAACACT
* **
490177 TA-TGTATCGATACATTTACT
1 CATTGTATCGATACA-ACACT
490197 CATTGTATCGATACAACACT
1 CATTGTATCGATACAACACT
* **
490217 TA-TGTATCGATACATTTACT
1 CATTGTATCGATACA-ACACT
490237 -ATTTGTATCGATACAA
1 CA-TTGTATCGATACAA
490253 ATTGTTGAAA
Statistics
Matches: 61, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
19 25 0.41
20 12 0.20
21 24 0.39
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.38
Consensus pattern (20 bp):
CATTGTATCGATACAACACT
Found at i:490212 original size:40 final size:40
Alignment explanation
Indices: 490157--490252 Score: 176
Period size: 40 Copynumber: 2.4 Consensus size: 40
490147 TGTATCGATA
490157 CATTGTATCGATACAACACTTATGTATCGATACATTTACT
1 CATTGTATCGATACAACACTTATGTATCGATACATTTACT
490197 CATTGTATCGATACAACACTTATGTATCGATACATTTACT
1 CATTGTATCGATACAACACTTATGTATCGATACATTTACT
490237 -ATTTGTATCGATACAA
1 CA-TTGTATCGATACAA
490253 ATTGTTGAAA
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
39 1 0.02
40 54 0.98
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.38
Consensus pattern (40 bp):
CATTGTATCGATACAACACTTATGTATCGATACATTTACT
Found at i:491193 original size:101 final size:98
Alignment explanation
Indices: 490954--491377 Score: 408
Period size: 101 Copynumber: 4.3 Consensus size: 98
490944 CGAAGAATGA
* * * * * * *
490954 CAATGTGCTTATTCATGTCCAGCGACATTAGACTTGAAGAAGAA--TGCCAATGTGCTGAGAT-A
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGA-TTCA
* * *
491016 AGGCCAGCGACATTAGG-CTTAGGAATGTTAAAGATGC
65 AGGCCAGCGACATT-GGACTTA--AA-GATGAAGGTGC
* * * * * * * * *
491053 CAATATGCTGATTCAAGGCCGGTGACCTTAGTCTCAAAGATGACGAAGGCGCCAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT---GAAGGTGCCAATGTGCTGATT
* *
491118 CAAAGCCAGCGATATTGGACTTAAAGATGAAGGTGC
63 CAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * *
491154 TAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGCCAATGTGCAGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
* * * * *
491219 GGCCAACGACATTAGTCTTAGAGATGACGAAGGCGC
66 GGCCAGCGACATTGGACTTA-A-A-GATGAAGGTGC
* * *
491255 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCTAATGTGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
491320 GGCC-GACGACATTGGACTTAAAGATGAAGGTGC
66 GGCCAG-CGACATTGGACTTAAAGATGAAGGTGC
*
491353 CAATGTGTTGATTCAAGGCCAGCGA
1 CAATGTGCTGATTCAAGGCCAGCGA
491378 TATCAGACTT
Statistics
Matches: 263, Mismatches: 51, Indels: 23
0.78 0.15 0.07
Matches are distributed among these distances:
98 67 0.25
99 32 0.12
100 2 0.01
101 125 0.48
102 5 0.02
103 3 0.01
104 29 0.11
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (98 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
GGCCAGCGACATTGGACTTAAAGATGAAGGTGC
Found at i:491234 original size:150 final size:150
Alignment explanation
Indices: 490972--491373 Score: 544
Period size: 150 Copynumber: 2.7 Consensus size: 150
490962 TTATTCATGT
* * * * * *
490972 CCAGCGACATTAGACTTGAAGAAGAA--TGCCAATGTGCTGAGAT-AAGGCCAGCGACATTAGG-
1 CCAGCGATATTGGACTTAAAGATGAAGGTGCTAATGTGCTGA-TTCAAGGCCAGCGACATT-GGA
* * * *** *
491033 CTTAGGAATGTTAAAGATGCCAATATGCTGATTCAAGGCCGGTGACCTTAGTCTCAAAGATGACG
64 CTTA--AA-GATGAAGATGCCAATGTGCTGATTCAAGGCCAACGACATTAGTCTCAAAGATGACG
491098 AAGGCGCCAATATGCTGATTCAAAG
126 AAGGCGCCAATATGCTGATTCAAAG
491123 CCAGCGATATTGGACTTAAAGATGAAGGTGCTAATGTGCTGATTCAAGGCCAGCGACATTGGACT
1 CCAGCGATATTGGACTTAAAGATGAAGGTGCTAATGTGCTGATTCAAGGCCAGCGACATTGGACT
* * *
491188 TAAAGATGAAGATGCCAATGTGCAGATTCAAGGCCAACGACATTAGTCTTAGAGATGACGAAGGC
66 TAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAACGACATTAGTCTCAAAGATGACGAAGGC
*
491253 GCCAATATGCTGATTCAAGG
131 GCCAATATGCTGATTCAAAG
491273 CCAGCGATATTGGACTTAAAGATGAAGGTGCTAATGTGCTGATTCAAGGCC-GACGACATTGGAC
1 CCAGCGATATTGGACTTAAAGATGAAGGTGCTAATGTGCTGATTCAAGGCCAG-CGACATTGGAC
* *
491337 TTAAAGATGAAGGTGCCAATGTGTTGATTCAAGGCCA
65 TTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCA
491374 GCGATATCAG
Statistics
Matches: 226, Mismatches: 20, Indels: 11
0.88 0.08 0.04
Matches are distributed among these distances:
149 1 0.00
150 166 0.73
151 24 0.11
152 3 0.01
153 32 0.14
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.23
Consensus pattern (150 bp):
CCAGCGATATTGGACTTAAAGATGAAGGTGCTAATGTGCTGATTCAAGGCCAGCGACATTGGACT
TAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAACGACATTAGTCTCAAAGATGACGAAGGC
GCCAATATGCTGATTCAAAG
Found at i:491387 original size:49 final size:49
Alignment explanation
Indices: 490954--491377 Score: 408
Period size: 49 Copynumber: 8.5 Consensus size: 49
490944 CGAAGAATGA
* * * * * *
490954 CAATGTGCTTATTCATGTCCAGCGACATTAGACTTGAAGAAGAA--TGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * *
491001 CAATGTGCTGAGAT-AAGGCCAGCGACATTAGG-CTTAGGAATGTTAAAGATGC
1 CAATGTGCTGA-TTCAAGGCCAGCGACATT-GGACTTA--AA-GATGAAGGTGC
* * * * * * * *
491053 CAATATGCTGATTCAAGGCCGGTGACCTTAGTCTCAAAGATGACGAAGGCGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT---GAAGGTGC
* * *
491105 CAATATGCTGATTCAAAGCCAGCGATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* *
491154 TAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * * * *
491203 CAATGTGCAGATTCAAGGCCAACGACATTAGTCTTAGAGATGACGAAGGCGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTA-A-A-GATGAAGGTGC
* *
491255 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
*
491304 TAATGTGCTGATTCAAGGCC-GACGACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAG-CGACATTGGACTTAAAGATGAAGGTGC
*
491353 CAATGTGTTGATTCAAGGCCAGCGA
1 CAATGTGCTGATTCAAGGCCAGCGA
491378 TATCAGACTT
Statistics
Matches: 305, Mismatches: 55, Indels: 32
0.78 0.14 0.08
Matches are distributed among these distances:
47 26 0.09
48 3 0.01
49 160 0.52
50 8 0.03
51 4 0.01
52 104 0.34
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
Found at i:491457 original size:28 final size:28
Alignment explanation
Indices: 491409--491811 Score: 437
Period size: 28 Copynumber: 14.2 Consensus size: 28
491399 CACCAACTTG
* *
491409 TGTGGGCTTTTG--AAGGTTGCCATTGTCT
1 TGTGGGC-TTTGAAAAGG-TGCCACTGACT
491437 TGTGGGCTTTGAAAAGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
491465 TGTGGGCTTCTG--AAGGTTGCCACTGACT
1 TGTGGGCTT-TGAAAAGG-TGCCACTGACT
*
491493 TGTGGGCTTTTG--AAGGTTGCCACAGACT
1 TGTGGGC-TTTGAAAAGG-TGCCACTGACT
*
491521 TGTGGGCTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
* * *
491549 TATGGGTTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
* *
491577 TGGGGGCTTTTG--AAGGTTGCCACTAACT
1 TGTGGGC-TTTGAAAAGG-TGCCACTGACT
* *
491605 TGTCGGCTTTGAAAAGGTGCCACTAACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
* * *
491633 TGTGAGCTTTTGAAAAGATGTCACTGACT
1 TGTGGGC-TTTGAAAAGGTGCCACTGACT
* *
491662 TGTGGGCTTTGAAAAGGGTGCTACTGATT
1 TGTGGGCTTTGAAAA-GGTGCCACTGACT
*
491691 TGTGGGCTTTTAAAAAGGTGCCACTGACT
1 TGTGGGC-TTTGAAAAGGTGCCACTGACT
*
491720 TGTGGGCTTTG-GAAGGTTGCCACTGACT
1 TGTGGGCTTTGAAAAGG-TGCCACTGACT
* * *
491748 TGTGGGCTTTAAAAAGATGCCACTGATT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
491776 TGTGGGCTTTGAAAAAGGTGCCACTGACT
1 TGTGGGCTTTG-AAAAGGTGCCACTGACT
491805 TGTGGGC
1 TGTGGGC
491812 ATTGGAAGGT
Statistics
Matches: 322, Mismatches: 36, Indels: 33
0.82 0.09 0.08
Matches are distributed among these distances:
27 23 0.07
28 190 0.59
29 102 0.32
30 7 0.02
ACGTcount: A:0.21, C:0.17, G:0.30, T:0.32
Consensus pattern (28 bp):
TGTGGGCTTTGAAAAGGTGCCACTGACT
Found at i:491542 original size:84 final size:85
Alignment explanation
Indices: 491386--491811 Score: 509
Period size: 84 Copynumber: 5.0 Consensus size: 85
491376 GATATCAGAC
** * *
491386 TTGAGAAAGATGCCACCAACTTGTGTGGGCTTTTGAAGGTTGCCATTGTCTTGTGGGCTTTGAAA
1 TTGA-AAAGATGCCACTGAC-T-TGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGAAA
491451 AGGTGCCACTGACTTGTGGGCTT
63 AGGTGCCACTGACTTGTGGGCTT
* * * * *
491474 CTG-AAGGTTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACAGACTTGTGGGCTTTGAAAAGA
1 TTGAAAAGATGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGAAAAGG
*
491538 TGCCACTGACTTATGGG-TT
66 TGCCACTGACTTGTGGGCTT
* * *
491557 TTGAAAAGATGCCACTGACTTGGGGGCTTTTGAAGGTTGCCACTAACTTGTCGGCTTTGAAAAGG
1 TTGAAAAGATGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGAAAAGG
* *
491622 TGCCACTAACTTGTGAGCTT
66 TGCCACTGACTTGTGGGCTT
* * * * *
491642 TTGAAAAGATGTCACTGACTTGTGGGC-TTTGAAAAGGGTGCTACTGATTTGTGGGCTTTTAAAA
1 TTGAAAAGATGCCACTGACTTGTGGGCTTTTG--AAGGTTGCCACTGACTTGTGGGC-TTTGAAA
491706 AGGTGCCACTGACTTGTGGGC-T
63 AGGTGCCACTGACTTGTGGGCTT
* * * ** * * *
491728 TTGGAAGGTTGCCACTGACTTGTGGGCTTTAAAAAGATGCCACTGATTTGTGGGCTTTGAAAAAG
1 TTGAAAAGATGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTG-AAAAG
491793 GTGCCACTGACTTGTGGGC
65 GTGCCACTGACTTGTGGGC
491812 ATTGGAAGGT
Statistics
Matches: 290, Mismatches: 41, Indels: 17
0.83 0.12 0.05
Matches are distributed among these distances:
83 4 0.01
84 132 0.46
85 72 0.25
86 53 0.18
87 27 0.09
88 2 0.01
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.31
Consensus pattern (85 bp):
TTGAAAAGATGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGAAAAGG
TGCCACTGACTTGTGGGCTT
Found at i:493289 original size:12 final size:12
Alignment explanation
Indices: 493251--493297 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
493241 CATCCGGACC
493251 TTTTTTGTTGTTGT
1 TTTTTTG-T-TTGT
*
493265 TTTTTT-TTGGT
1 TTTTTTGTTTGT
493276 TTTTTTGTTTGT
1 TTTTTTGTTTGT
*
493288 TTGTTTGTTT
1 TTTTTTGTTT
493298 TTTCTTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 9 0.31
12 14 0.48
14 6 0.21
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (12 bp):
TTTTTTGTTTGT
Found at i:493305 original size:26 final size:24
Alignment explanation
Indices: 493250--493308 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 24
493240 TCATCCGGAC
493250 CTTTTTTGTTGTTGTTTTTTTTTGG
1 CTTTTTTGTTGTTGTTTTTTTTT-G
*
493275 TTTTTTTGTTTGTTTGTTTGTTTTTT-
1 CTTTTTTG-TTG-TTGTTT-TTTTTTG
493301 CTTTTTTG
1 CTTTTTTG
493309 CGGAAGACGC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
25 7 0.24
26 10 0.34
27 6 0.21
28 6 0.21
ACGTcount: A:0.00, C:0.03, G:0.17, T:0.80
Consensus pattern (24 bp):
CTTTTTTGTTGTTGTTTTTTTTTG
Found at i:498454 original size:13 final size:13
Alignment explanation
Indices: 498436--498461 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
498426 CAATTTTTTG
498436 TGTATCGATACAT
1 TGTATCGATACAT
498449 TGTATCGATACAT
1 TGTATCGATACAT
498462 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:501026 original size:13 final size:13
Alignment explanation
Indices: 501008--501032 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
500998 ATAATCACCT
501008 TGTATCGATACAA
1 TGTATCGATACAA
501021 TGTATCGATACA
1 TGTATCGATACA
501033 TTGAATTTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:503112 original size:15 final size:15
Alignment explanation
Indices: 503092--503122 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
503082 ATTTCGTTTG
*
503092 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
503107 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
503122 G
1 G
503123 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:504941 original size:21 final size:21
Alignment explanation
Indices: 504912--504956 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
504902 AAGTTTTCAT
*
504912 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
504932 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
504954 TTT
1 TTT
504957 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:507190 original size:13 final size:13
Alignment explanation
Indices: 507172--507197 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
507162 CAATTTTTTG
507172 TGTATCGATACAT
1 TGTATCGATACAT
507185 TGTATCGATACAT
1 TGTATCGATACAT
507198 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:519040 original size:21 final size:21
Alignment explanation
Indices: 519007--519051 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
518997 TTGCAAGTTG
*
519007 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
519029 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
519049 AAA
1 AAA
519052 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:522781 original size:20 final size:20
Alignment explanation
Indices: 522703--522781 Score: 77
Period size: 20 Copynumber: 3.8 Consensus size: 20
522693 AATGTACAAA
*
522703 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* * *
522723 GTGTATCGATACATCTGAAATTCA
1 ATGTATCGATACAT-T---TTTCT
522747 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
522767 TTGTATCGATACATT
1 ATGTATCGATACATT
522782 GTATCGATAC
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
20 30 0.64
23 1 0.02
24 16 0.34
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:522785 original size:13 final size:13
Alignment explanation
Indices: 522767--522805 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
522757 ACATTTTTCT
522767 TTGTATCGATACA
1 TTGTATCGATACA
522780 TTGTATCGATACA
1 TTGTATCGATACA
522793 TTGTATCGATACA
1 TTGTATCGATACA
522806 GGGTGATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:522969 original size:20 final size:20
Alignment explanation
Indices: 522926--522971 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
522916 AAATCTTTTG
522926 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
522947 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
522967 CAAAA
1 CAAAA
522972 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:525379 original size:13 final size:13
Alignment explanation
Indices: 525361--525386 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
525351 TACAGCAAGT
525361 ATGTATCGATACA
1 ATGTATCGATACA
525374 ATGTATCGATACA
1 ATGTATCGATACA
525387 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:526857 original size:19 final size:19
Alignment explanation
Indices: 526833--526895 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 19
526823 AGCGATACAT
526833 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
526852 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
*
526865 TGTATTGATACAACACTTA
1 TGTATCGATACAACACTTA
*
526884 TGTATTGATACA
1 TGTATCGATACA
526896 TTTACTATTG
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 8 0.22
14 1 0.03
16 6 0.16
18 1 0.03
19 21 0.57
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.37
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:526866 original size:32 final size:32
Alignment explanation
Indices: 526820--526897 Score: 129
Period size: 32 Copynumber: 2.4 Consensus size: 32
526810 GCAGTAGCTT
*
526820 TGTAGCGATACATTGTATCGATACAACACTTA
1 TGTATCGATACATTGTATCGATACAACACTTA
*
526852 TGTATCGATACATTGTATTGATACAACACTTA
1 TGTATCGATACATTGTATCGATACAACACTTA
*
526884 TGTATTGATACATT
1 TGTATCGATACATT
526898 TACTATTGTA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATTGTATCGATACAACACTTA
Found at i:527832 original size:49 final size:49
Alignment explanation
Indices: 527618--527905 Score: 255
Period size: 49 Copynumber: 5.8 Consensus size: 49
527608 CGAAGAATGA
* * * *
527618 CAATGTGCTGATTCATGGCCAACGACATTAGACTTGAAA-AAGAA--TGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTT-AAAGATGAAGGTGC
* ** * * *
527665 CAATGTGCTAAGACAAGGCCAGCGACATTGGGCTTAGGAATG-TTAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTA--AA-GATGAAGGTGC
* * * * * *
527716 CAATATGCTGATTCAAGGTC-GACGACCTTGGTCTCAAAGATGACGAAGGCGC
1 CAATGTGCTGATTCAAGGCCAG-CGACATTGGACTTAAAGAT---GAAGGTGC
* *
527768 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
*
527817 CAATGTGCTGATTCAAGGCC-GACAACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAG-CGACATTGGACTTAAAGATGAAGGTGC
* * *
527866 CAATGTGCTGATTCAAGGCCAGCGATATCGGACTTGAAGA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGA
527906 AGATGCCACC
Statistics
Matches: 194, Mismatches: 33, Indels: 26
0.77 0.13 0.10
Matches are distributed among these distances:
46 1 0.01
47 28 0.14
48 4 0.02
49 90 0.46
50 2 0.01
51 29 0.15
52 39 0.20
53 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
Found at i:527887 original size:98 final size:98
Alignment explanation
Indices: 527586--527905 Score: 297
Period size: 98 Copynumber: 3.2 Consensus size: 98
527576 ATATGCGGCT
* ** * * * *
527586 AGCGATATTGGGCTCGAAGATACGAAGAATGACAATGTGCTGATTCATGGCCAACGACATTAGAC
1 AGCGATATTGGACTTAAAGAT--GAAG-ATGCCAATGTGCTGATTCAAGGCCGACGACATTGGAC
* * **
527651 TTGAAA-AAGAA--TGCCAATGTGCTAAGACAAGGCC
63 TT-AAAGATGAAGGTGCCAATGTGCTGATTCAAGGCC
* * * * * * *
527685 AGCGACATTGGGCTTAGGAATG-TTAAGATGCCAATATGCTGATTCAAGGTCGACGACCTTGGTC
1 AGCGATATTGGACTTA--AA-GATGAAGATGCCAATGTGCTGATTCAAGGCCGACGACATTGGAC
* * *
527749 TCAAAGATGACGAAGGCGCCAATATGCTGATTCAAGGCC
63 TTAAAGAT---GAAGGTGCCAATGTGCTGATTCAAGGCC
* *
527788 AGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCGACAACATTGGACTTA
1 AGCGATATTGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCGACGACATTGGACTTA
527853 AAGATGAAGGTGCCAATGTGCTGATTCAAGGCC
66 AAGATGAAGGTGCCAATGTGCTGATTCAAGGCC
* *
527886 AGCGATATCGGACTTGAAGA
1 AGCGATATTGGACTTAAAGA
527906 AGATGCCACC
Statistics
Matches: 178, Mismatches: 33, Indels: 21
0.77 0.14 0.09
Matches are distributed among these distances:
97 3 0.02
98 75 0.42
99 16 0.09
100 1 0.01
101 50 0.28
102 1 0.01
103 32 0.18
ACGTcount: A:0.33, C:0.18, G:0.27, T:0.22
Consensus pattern (98 bp):
AGCGATATTGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCGACGACATTGGACTTA
AAGATGAAGGTGCCAATGTGCTGATTCAAGGCC
Found at i:527970 original size:28 final size:28
Alignment explanation
Indices: 527922--528382 Score: 487
Period size: 28 Copynumber: 16.4 Consensus size: 28
527912 CACCAACTTG
* *
527922 TGTGGGCTTTTG--AAGGTTGCCATTGTCT
1 TGTGGGC-TTTGAAAAGG-TGCCACTGACT
527950 TGTGGGCTTTGAAAAGGTGCCA-TGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
*
527977 TGTGGGCTTCTG--AAGTTGCCACTGACT
1 TGTGGGCTT-TGAAAAGGTGCCACTGACT
* *
528004 TCTGGGCTTTTG--AGGGTTGCCACTGACT
1 TGTGGGC-TTTGAAAAGG-TGCCACTGACT
**
528032 TGTGGGCTTTGAAAATATGCCACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
*
528060 TGTGGGCTTTTG--AGGGTTGCCACTGACT
1 TGTGGGC-TTTGAAAAGG-TGCCACTGACT
*
528088 TGTGGGCTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
* *
528116 TGTGGGTTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
*
528144 TGTGGGCTTCTG--AAGGTTGCCACTAACT
1 TGTGGGCTT-TGAAAAGG-TGCCACTGACT
528172 TGTGGGCTTTGAAAAGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
* *
528200 TTTGGGCTTTTGAAAAGATGCCACTGACT
1 TGTGGGC-TTTGAAAAGGTGCCACTGACT
* *
528229 TGTAGGCTTTGAAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAA-GGTGCCACTGACT
* * *
528258 TGTGAGCTTTTAAAAGGGTGCCATTGACT
1 TGTGGGCTTTGAAAA-GGTGCCACTGACT
* *
528287 TATGGGCTTTG-GAAGGTTGCCACTGACT
1 TGTGGGCTTTGAAAAGG-TGCCACTGACT
* * *
528315 TGTGGGCTTTGAAAAGATGCCACTAATT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
*
528343 TGTGAGCTTTGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAA-GGTGCCACTGACT
528372 TGTGGGCTTTG
1 TGTGGGCTTTG
528383 GAAGGTGAGG
Statistics
Matches: 367, Mismatches: 45, Indels: 41
0.81 0.10 0.09
Matches are distributed among these distances:
26 8 0.02
27 48 0.13
28 203 0.55
29 108 0.29
ACGTcount: A:0.20, C:0.17, G:0.30, T:0.33
Consensus pattern (28 bp):
TGTGGGCTTTGAAAAGGTGCCACTGACT
Found at i:530539 original size:24 final size:24
Alignment explanation
Indices: 530505--530559 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
530495 CAGGTCGCAA
*
530505 CTAGGCAGCTCCCACACCTAGTGT
1 CTAGGCCGCTCCCACACCTAGTGT
530529 CTAGGCCGCTCCCACACCTAGTGT
1 CTAGGCCGCTCCCACACCTAGTGT
530553 CTAGGCC
1 CTAGGCC
530560 ATCCAAAACT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.18, C:0.40, G:0.22, T:0.20
Consensus pattern (24 bp):
CTAGGCCGCTCCCACACCTAGTGT
Found at i:532590 original size:13 final size:13
Alignment explanation
Indices: 532572--532628 Score: 56
Period size: 13 Copynumber: 4.9 Consensus size: 13
532562 CATTATGCTT
532572 TGTATCGATACAA
1 TGTATCGATACAA
532585 TGTATCGATA-AA
1 TGTATCGATACAA
*
532597 --TA---AT-CAT
1 TGTATCGATACAA
532604 TGTATCGATACAA
1 TGTATCGATACAA
532617 TGTATCGATACA
1 TGTATCGATACA
532629 TAATCATTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
7 3 0.09
9 2 0.06
10 2 0.06
12 4 0.11
13 24 0.69
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:532612 original size:32 final size:32
Alignment explanation
Indices: 532551--532647 Score: 158
Period size: 32 Copynumber: 3.0 Consensus size: 32
532541 ATACATCCAG
* *
532551 ATGTATCGATACATTATGCTTTGTATCGATACA
1 ATGTATCGATACATAAT-CATTGTATCGATACA
*
532584 ATGTATCGATAAATAATCATTGTATCGATACA
1 ATGTATCGATACATAATCATTGTATCGATACA
532616 ATGTATCGATACATAATCATTGTATCGATACA
1 ATGTATCGATACATAATCATTGTATCGATACA
532648 TGCACAATTG
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
32 45 0.75
33 15 0.25
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.36
Consensus pattern (32 bp):
ATGTATCGATACATAATCATTGTATCGATACA
Found at i:532646 original size:19 final size:19
Alignment explanation
Indices: 532585--532648 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 19
532575 ATCGATACAA
*
532585 TGTATCGATAAATAATCAT
1 TGTATCGATACATAATCAT
532604 TGTATCGATAC---A--A-
1 TGTATCGATACATAATCAT
532617 TGTATCGATACATAATCAT
1 TGTATCGATACATAATCAT
532636 TGTATCGATACAT
1 TGTATCGATACAT
532649 GCACAATTGT
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
16 2 0.05
18 1 0.03
19 23 0.61
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (19 bp):
TGTATCGATACATAATCAT
Found at i:532659 original size:20 final size:20
Alignment explanation
Indices: 532613--532671 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
532603 TTGTATCGAT
532613 ACAA-TGTATCGATACAT-A
1 ACAATTGTATCGATACATGA
*
532631 ATC-ATTGTATCGATACATGC
1 A-CAATTGTATCGATACATGA
*
532651 ACAATTGTATCAATACATGA
1 ACAATTGTATCGATACATGA
532671 A
1 A
532672 ACTAGTAGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
18 2 0.06
19 15 0.44
20 17 0.50
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.31
Consensus pattern (20 bp):
ACAATTGTATCGATACATGA
Found at i:532734 original size:13 final size:13
Alignment explanation
Indices: 532716--532745 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
532706 GATACATGGC
*
532716 ACATTGTATTGAT
1 ACATTGTATCGAT
532729 ACATTGTATCGAT
1 ACATTGTATCGAT
532742 ACAT
1 ACAT
532746 GGAGAATAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (13 bp):
ACATTGTATCGAT
Found at i:532741 original size:33 final size:33
Alignment explanation
Indices: 532699--532768 Score: 106
Period size: 33 Copynumber: 2.1 Consensus size: 33
532689 TACCACTGTT
* *
532699 TTGTATCGATACATGGCA-CATTGTATTGATACA
1 TTGTATCGATACATGG-AGAATAGTATTGATACA
532732 TTGTATCGATACATGGAGAATAGTATTGATACA
1 TTGTATCGATACATGGAGAATAGTATTGATACA
532765 TTGT
1 TTGT
532769 CCCAAACAGC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 1 0.03
33 33 0.97
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.37
Consensus pattern (33 bp):
TTGTATCGATACATGGAGAATAGTATTGATACA
Found at i:536098 original size:78 final size:78
Alignment explanation
Indices: 536011--536154 Score: 211
Period size: 78 Copynumber: 1.8 Consensus size: 78
536001 GTGAAAACAA
* *
536011 GGTTGGAGTATCCCCAATGGTGGAAAA-CTGATATTTTAGAGATAAAACC-AGAGTTGGAGTATC
1 GGTTGGAGTATCCCCAATGGTGAAAAATC-GATATTTTAGAAATAAAACCAAG-GTTGGAGTATC
536074 CCTCAGAAATAATAG
64 CCTCAGAAATAATAG
* * *
536089 GGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTTAGAAATAAAATCAAGGTTGGAGTATCCC
1 GGTTGGAGTATCCCCAATGGTGAAAAATCGATATTTTAGAAATAAAACCAAGGTTGGAGTATCCC
536154 T
66 T
536155 AATGGTAGAA
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
78 56 0.95
79 3 0.05
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (78 bp):
GGTTGGAGTATCCCCAATGGTGAAAAATCGATATTTTAGAAATAAAACCAAGGTTGGAGTATCCC
TCAGAAATAATAG
Found at i:536115 original size:134 final size:131
Alignment explanation
Indices: 535872--536245 Score: 379
Period size: 134 Copynumber: 2.8 Consensus size: 131
535862 CCTCGAAAAT
**
535872 AACAAGGTTAAAGTATCCCCAATGGTGAAAAATCGATATTTTAGAAATAAAACCAGGGTTGGAGT
1 AACAAGGTTGGAGTATCCCCAATGGTG-AAAAT-GATATTTTAGAAATAAAACCAGGGTTGGAGT
* * * * * * * *
535937 A-CCCTTTAGGAATAATGGGGTTGGAGTAT-CCCTAAGATAAAAAAAAAAACTTAATGTTTT-GA
64 ATCCCTTCAGAAATAATAGGGTTGGAGTATCCCCGATGGT-GAAAAAAAAA-TCAATGTTTTAGA
535999 AAGTGAA
127 AA-T-AA
* *
536006 AACAAGGTTGGAGTATCCCCAATGGTGGAAAACTGATATTTTAGAGATAAAACCAGAGTTGGAGT
1 AACAAGGTTGGAGTATCCCCAATGGT-GAAAA-TGATATTTTAGAAATAAAACCAGGGTTGGAGT
*
536071 ATCCC-TCAGAAATAATAGGGTTGGAGTATCCCCGATGGTG----AAAAATCGATGTTTTAGAAA
64 ATCCCTTCAGAAATAATAGGGTTGGAGTATCCCCGATGGTGAAAAAAAAATCAATGTTTTAGAAA
536131 TAA
129 TAA
* * * * * **
536134 AATCAAGGTTGGAGTATCCCTAATGGTAGAAAATCAGTGTATTAGACATAAAATTAGGGTTGGAG
1 AA-CAAGGTTGGAGTATCCCCAATGGT-GAAAATGA-TATTTTAGAAATAAAACCAGGGTTGGAG
* *
536199 TATCCCTTCAAAAATAA-CGAGGTTGGAGTATCCCCGATGGTGAAAAA
63 TATCCCTTCAGAAATAATAG-GGTTGGAGTATCCCCGATGGTGAAAAA
536246 TTAGTGTTTT
Statistics
Matches: 203, Mismatches: 24, Indels: 26
0.80 0.09 0.10
Matches are distributed among these distances:
128 6 0.03
129 66 0.33
130 40 0.20
134 80 0.39
135 11 0.05
ACGTcount: A:0.39, C:0.13, G:0.23, T:0.26
Consensus pattern (131 bp):
AACAAGGTTGGAGTATCCCCAATGGTGAAAATGATATTTTAGAAATAAAACCAGGGTTGGAGTAT
CCCTTCAGAAATAATAGGGTTGGAGTATCCCCGATGGTGAAAAAAAAATCAATGTTTTAGAAATA
A
Found at i:536185 original size:129 final size:128
Alignment explanation
Indices: 535990--536284 Score: 355
Period size: 130 Copynumber: 2.3 Consensus size: 128
535980 AAAAAACTTA
* * * *
535990 ATGTTTT-GAAAGTGAAAACAAGGTTGGAGTATCCCCAATGGTGGAAAACTGATATTTTAGAGAT
1 ATGTTTTAGAAA-T-AAAACAAGGTTGGAGTATCCCCAATGGTAGAAAACAGATATATTAGACAT
*
536054 AAAACCAGAGTTGGAGTATCCC-TCAGAAATAATAG-GGTTGGAGTATCCCCGATGGTGAAAAAT
64 AAAACCAGAGTTGGAGTATCCCTTCAAAAATAA-AGAGGTTGGAGTATCCCCGATGGTGAAAAAT
536117 CG
128 -G
* *
536119 ATGTTTTAGAAATAAAATCAAGGTTGGAGTATCCCTAATGGTAGAAAATCAG-TGTATTAGACAT
1 ATGTTTTAGAAATAAAA-CAAGGTTGGAGTATCCCCAATGGTAGAAAA-CAGATATATTAGACAT
** * * *
536183 AAAATTAGGGTTGGAGTATCCCTTCAAAAATAACGAGGTTGGAGTATCCCCGATGGTGAAAAATT
64 AAAACCAGAGTTGGAGTATCCCTTCAAAAATAAAGAGGTTGGAGTATCCCCGATGGTGAAAAATG
** *
536248 AGTGTTTTAGAAATAAAACCGGGGTTAGAGTATCCCC
1 A-TGTTTTAGAAATAAAA-CAAGGTTGGAGTATCCCC
536285 TCGAAAATAA
Statistics
Matches: 143, Mismatches: 17, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
128 4 0.03
129 66 0.46
130 73 0.51
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (128 bp):
ATGTTTTAGAAATAAAACAAGGTTGGAGTATCCCCAATGGTAGAAAACAGATATATTAGACATAA
AACCAGAGTTGGAGTATCCCTTCAAAAATAAAGAGGTTGGAGTATCCCCGATGGTGAAAAATG
Found at i:536205 original size:51 final size:51
Alignment explanation
Indices: 536086--536205 Score: 154
Period size: 51 Copynumber: 2.4 Consensus size: 51
536076 TCAGAAATAA
** *
536086 TAGGGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTTAGAAATAAAAT
1 TAGGGTTGGAGTATCCCTAATGGTGAAAAATCGATGTATTAGAAATAAAAT
* * *
536137 CAAGGTTGGAGTATCCCTAATGGT-AGAAAATC-AGTGTATTAGACATAAAAT
1 TAGGGTTGGAGTATCCCTAATGGTGA-AAAATCGA-TGTATTAGAAATAAAAT
536188 TAGGGTTGGAGTATCCCT
1 TAGGGTTGGAGTATCCCT
536206 TCAAAAATAA
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
50 2 0.03
51 57 0.97
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (51 bp):
TAGGGTTGGAGTATCCCTAATGGTGAAAAATCGATGTATTAGAAATAAAAT
Found at i:536231 original size:79 final size:78
Alignment explanation
Indices: 536139--536313 Score: 199
Period size: 79 Copynumber: 2.2 Consensus size: 78
536129 AATAAAATCA
* ** *
536139 AGGTTGGAGTATCCCTAATGGT-AGAAAATCAGTGTATTAGACATAAAATTAGGGTTGGAGTATC
1 AGGTTGGAGTATCCCTAATGGTGA-AAAATCAGTGTATTAGAAATAAAACCAGGGTTAGAGTATC
*
536203 CCTTCAAAAATAAC
65 CCCTCAAAAATAAC
** * * *
536217 GAGGTTGGAGTATCCCCGATGGTGAAAAATTAGTGTTTTAGAAATAAAACCGGGGTTAGAGTATC
1 -AGGTTGGAGTATCCCTAATGGTGAAAAATCAGTGTATTAGAAATAAAACCAGGGTTAGAGTATC
*
536282 CCCTCGAAAATAAC
65 CCCTCAAAAATAAC
*
536296 AGGGTTAGAGTATTCCCT
1 A-GGTTGGAGTA-TCCCT
536314 TGAAAATAAT
Statistics
Matches: 80, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
78 1 0.01
79 74 0.93
80 5 0.06
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.27
Consensus pattern (78 bp):
AGGTTGGAGTATCCCTAATGGTGAAAAATCAGTGTATTAGAAATAAAACCAGGGTTAGAGTATCC
CCTCAAAAATAAC
Found at i:536302 original size:28 final size:28
Alignment explanation
Indices: 536269--536340 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
536259 AATAAAACCG
536269 GGGTTAGAGTATCCCCTCGAAAATAACA
1 GGGTTAGAGTATCCCCTCGAAAATAACA
* * *
536297 GGGTTAGAGTATTCCCTTGAAAATAATA
1 GGGTTAGAGTATCCCCTCGAAAATAACA
* *
536325 GCGTTGGAGTATCCCC
1 GGGTTAGAGTATCCCC
536341 GATGGTGAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (28 bp):
GGGTTAGAGTATCCCCTCGAAAATAACA
Found at i:536380 original size:107 final size:107
Alignment explanation
Indices: 536189--536424 Score: 298
Period size: 107 Copynumber: 2.2 Consensus size: 107
536179 ACATAAAATT
*
536189 AGGGTTGGAGTA-TCCCTTCAAAAATAACGAGGTTGGAGTATCCCCGATGGTGAAAAATTAGTGT
1 AGGGTTGGAGTATTCCCTT-GAAAATAACGAGGTTGGAGTATCCCCGATGGTGAAAAATTAGTGT
* *
536253 TTTAGAAATAAAACCGGGGTTAGAGTATCCCCTCGAAAATAAC
65 TTTAGAAATAAAACCAGGGTTAGAATATCCCCTCGAAAATAAC
* *
536296 AGGGTTAGAGTATTCCCTTGAAAATAA-TAGCGTTGGAGTATCCCCGATGGTGAAAAATTTA-TG
1 AGGGTTGGAGTATTCCCTTGAAAATAACGAG-GTTGGAGTATCCCCGATGGTGAAAAA-TTAGTG
** * * * *
536359 TTTTAGAAATAAAATTAGGGTTGGAATGTCCTCTCGAAAATAAT
64 TTTTAGAAATAAAACCAGGGTTAGAATATCCCCTCGAAAATAAC
* *
536403 GGGGTTGGAGTATCCCCGTTGA
1 AGGGTTGGAGTATTCCC-TTGA
536425 TGGAAAATCG
Statistics
Matches: 111, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
106 2 0.02
107 96 0.86
108 13 0.12
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (107 bp):
AGGGTTGGAGTATTCCCTTGAAAATAACGAGGTTGGAGTATCCCCGATGGTGAAAAATTAGTGTT
TTAGAAATAAAACCAGGGTTAGAATATCCCCTCGAAAATAAC
Found at i:538860 original size:51 final size:51
Alignment explanation
Indices: 538792--538936 Score: 195
Period size: 51 Copynumber: 2.8 Consensus size: 51
538782 AAATGGTCAA
* *
538792 AAAAGCCT-GAATGTATTGATA-TATTAAGAAATGTATTGATACATCTGGGTT
1 AAAA-CCTAGAATGTATTGATACAATGAA-AAATGTATTGATACATCTGGGTT
**
538843 AAAACCTAGAATGTATTGATACAATGAAAAATGTACCGATACATCTGGGTT
1 AAAACCTAGAATGTATTGATACAATGAAAAATGTATTGATACATCTGGGTT
* **
538894 AAAACCCAGAATGTATCAATACAATGAAAAATGTATTGATACA
1 AAAACCTAGAATGTATTGATACAATGAAAAATGTATTGATACA
538937 AATAGTAAAT
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
50 3 0.04
51 76 0.92
52 4 0.05
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.29
Consensus pattern (51 bp):
AAAACCTAGAATGTATTGATACAATGAAAAATGTATTGATACATCTGGGTT
Found at i:540471 original size:13 final size:13
Alignment explanation
Indices: 540453--540479 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
540443 ACATTATGCT
540453 TTGTATCGATACA
1 TTGTATCGATACA
540466 TTGTATCGATACA
1 TTGTATCGATACA
540479 T
1 T
540480 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:540509 original size:20 final size:19
Alignment explanation
Indices: 540463--540515 Score: 79
Period size: 19 Copynumber: 2.7 Consensus size: 19
540453 TTGTATCGAT
*
540463 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGA
*
540482 TCATTGTATCGATACATGA
1 ACATTGTATCGATACATGA
540501 ACAATTGTATCGATA
1 AC-ATTGTATCGATA
540516 AATAAAACTG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 18 0.60
20 12 0.40
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (19 bp):
ACATTGTATCGATACATGA
Found at i:549935 original size:52 final size:52
Alignment explanation
Indices: 549787--549915 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
549777 CGAAATATGA
*
549787 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATGGATACATATGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATATGGGC
* *
549839 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATATGGGC
549891 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
549916 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATATGGGC
Found at i:549942 original size:13 final size:13
Alignment explanation
Indices: 549924--549948 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
549914 CAAAGATCAG
549924 TGTATCGATACAA
1 TGTATCGATACAA
549937 TGTATCGATACA
1 TGTATCGATACA
549949 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:550019 original size:19 final size:18
Alignment explanation
Indices: 549991--550088 Score: 72
Period size: 19 Copynumber: 5.8 Consensus size: 18
549981 TAGCTTATAT
*
549991 TGTATTGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
550010 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
550023 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
550042 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
*
550055 TGTATCAATACAATACTTTA
1 TGTATCGATACAA-AC-TTA
550075 TGTATCGATACAAA
1 TGTATCGATACAAA
550089 TCGTTGAAAT
Statistics
Matches: 63, Mismatches: 3, Indels: 26
0.68 0.03 0.28
Matches are distributed among these distances:
13 21 0.33
14 2 0.03
16 4 0.06
18 1 0.02
19 23 0.37
20 12 0.19
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:550028 original size:13 final size:13
Alignment explanation
Indices: 550010--550066 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
550000 ACAAAACTTA
550010 TGTATCGATACAT
1 TGTATCGATACAT
550023 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
550041 ATGTATCGATACAT
1 -TGTATCGATACAT
*
550055 TGTATCAATACA
1 TGTATCGATACA
550067 ATACTTTATG
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 20 0.54
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:550033 original size:32 final size:32
Alignment explanation
Indices: 549989--550086 Score: 151
Period size: 32 Copynumber: 3.0 Consensus size: 32
549979 AGTAGCTTAT
*
549989 ATTGTATTGATACAAAACTTATGTATCGATAC
1 ATTGTATCGATACAAAACTTATGTATCGATAC
*
550021 ATTGTATCGATACAACACTTATGTATCGATAC
1 ATTGTATCGATACAAAACTTATGTATCGATAC
* *
550053 ATTGTATCAATACAATACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAC-TTATGTATCGATAC
550086 A
1 A
550087 AATCGTTGAA
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
32 46 0.75
33 15 0.25
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (32 bp):
ATTGTATCGATACAAAACTTATGTATCGATAC
Found at i:550886 original size:43 final size:43
Alignment explanation
Indices: 550825--550963 Score: 188
Period size: 43 Copynumber: 3.1 Consensus size: 43
550815 TAAAGATGGA
* * *
550825 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTAGACTT
550868 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTAGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTAGACTT
*
550911 AAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTAGACTT
1 ----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTAGACTT
550960 AAAG
1 AAAG
550964 ATGAAGATGA
Statistics
Matches: 86, Mismatches: 4, Indels: 12
0.84 0.04 0.12
Matches are distributed among these distances:
43 43 0.50
45 1 0.01
47 1 0.01
49 41 0.48
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.24
Consensus pattern (43 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTAGACTT
Found at i:550941 original size:49 final size:49
Alignment explanation
Indices: 550781--550969 Score: 248
Period size: 49 Copynumber: 3.9 Consensus size: 49
550771 AAAATGATGT
*
550781 CAATGTACTGATTCAAGGCCAGCTACATT-GAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTAG-ACTTAAAGAT-G--AAGGTGC
* * *
550833 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTAGACTTAAAGATGAAGGTGC
550876 CAATGTGCTGATTCAAGGCCAGCTACATTAGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTAGACTTAAAGATGAAGGTGC
*
550925 CAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAAG
1 CAATGTGCTGATTCAAGGCCAGCTACATTAGACTTAAAGATGAAG
550970 ATGAGAAAAG
Statistics
Matches: 123, Mismatches: 7, Indels: 17
0.84 0.05 0.12
Matches are distributed among these distances:
43 39 0.32
47 1 0.01
48 1 0.01
49 51 0.41
52 30 0.24
53 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTAGACTTAAAGATGAAGGTGC
Found at i:551084 original size:55 final size:52
Alignment explanation
Indices: 550984--551220 Score: 203
Period size: 43 Copynumber: 4.7 Consensus size: 52
550974 GAAAAGTGAT
* * * **
550984 AAAGATGCCAATATGTTGATTCACA-GCCAACGATATTGGGCTTAAAGATGAGAA
1 AAAGGTGCCAATATGCTGATTCA-AGGCCAACTATATTGAACTTAAAGATG-G-A
* * *
551038 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTATATTGAACTTAAAGATGGA
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAACTATATTGAACTTAAAGATGGA
*
551091 AAAGGTGCCAATATGCTGATTCAAGGCCAACTATATTGGAC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAACTATATTGAACTTAAAGATGGA
* * * *
551134 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAACTATATTGAACTTAAAGATGGA
* * *
551184 -AAGGTGCCAATATGCTGATTTAAGGCCAGCGATATTG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAACTATATTG
551221 GGCTTAGAAG
Statistics
Matches: 155, Mismatches: 19, Indels: 23
0.79 0.10 0.12
Matches are distributed among these distances:
43 38 0.25
44 1 0.01
46 1 0.01
49 34 0.22
51 1 0.01
52 32 0.21
53 6 0.04
54 6 0.04
55 36 0.23
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (52 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAACTATATTGAACTTAAAGATGGA
Found at i:551186 original size:266 final size:267
Alignment explanation
Indices: 550654--551215 Score: 898
Period size: 266 Copynumber: 2.1 Consensus size: 267
550644 GTTTTGCAAT
* * * * * *
550654 GTGCCACTATGCAGATTCAAGGCCTGCAACACTGAACTTAAAGATGATGAGGATGAAGAGTGATA
1 GTGCCAATATGCTGATTCAAGGCCAGCGACACTGAACTTAAAGATGAAGAGGATGAAAAGTGATA
* *
550719 AAAGGACCAATACGTTGATTCACGGCCAAAGATATTGGGTTCAAAGATGAGAAAAATGATGTCAA
66 AAAGGACCAATACGTTGATTCACAGCCAAAGATATTGGGTTCAAAGATGAGAAAAAGGATGTCAA
550784 TGTACTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAA
131 TGTACTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAA
*
550849 GGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTAGACTTAAA
196 GGCCAACTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTAGACTTAAA
550914 GATGAAG
261 GATGAAG
* * *
550921 GTGCCAATGTGCTGATTCAAGGCCAGCGACA-TTAGACTTAAAGATGAAGATGA-GAAAAGTGAT
1 GTGCCAATATGCTGATTCAAGGCCAGCGACACTGA-ACTTAAAGATGAAGAGGATGAAAAGTGAT
* * *
550984 AAAGATG-CCAATATGTTGATTCACAGCCAACGATATTGGGCTT-AAAGATGAGAAAAAGGATGT
65 AAA-AGGACCAATACGTTGATTCACAGCCAAAGATATTGGG-TTCAAAGATGAGAAAAAGGATGT
* *
551047 CAATGTGCTGATTCAAGGCCAGCTATATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
128 CAATGTACTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
*
551112 CAAGGCCAACTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
193 CAAGGCCAACTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTAGACTT
551177 AAAGATGAAG
258 AAAGATGAAG
*
551187 GTGCCAATATGCTGATTTAAGGCCAGCGA
1 GTGCCAATATGCTGATTCAAGGCCAGCGA
551216 TATTGGGCTT
Statistics
Matches: 272, Mismatches: 20, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
266 226 0.83
267 46 0.17
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.24
Consensus pattern (267 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGACACTGAACTTAAAGATGAAGAGGATGAAAAGTGATA
AAAGGACCAATACGTTGATTCACAGCCAAAGATATTGGGTTCAAAGATGAGAAAAAGGATGTCAA
TGTACTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAA
GGCCAACTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTAGACTTAAA
GATGAAG
Found at i:551238 original size:95 final size:94
Alignment explanation
Indices: 551038--551231 Score: 284
Period size: 95 Copynumber: 2.1 Consensus size: 94
551028 AAGATGAGAA
* *
551038 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTATATTGAACTTAAAGATGGAAAAGGTGCCAAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGG-AAAGGTGCCAAT
*
551103 ATGCTGATTCAAGGCCAACTATATTGGACTT
64 ATGCTGATTCAAGGCCAACGATATTGGACTT
*
551134 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G-AAGGTGCCAATAT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAGGTGCCAATAT
* * *
551197 GCTGATTTAAGGCCAGCGATATTGGGCTT
66 GCTGATTCAAGGCCAACGATATTGGACTT
551226 AGAAGG
1 A-AAGG
551232 GTTGCCACCG
Statistics
Matches: 90, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
92 39 0.43
93 4 0.04
94 1 0.01
95 41 0.46
96 5 0.06
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (94 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAGGTGCCAATAT
GCTGATTCAAGGCCAACGATATTGGACTT
Found at i:551270 original size:33 final size:33
Alignment explanation
Indices: 551226--551688 Score: 696
Period size: 33 Copynumber: 14.2 Consensus size: 33
551216 TATTGGGCTT
*
551226 AGAAGGGTTGCCACCGACTTATGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* * *
551259 AGAATGGTTGCCACCAACTTGTGTGGGCTTTAA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
551292 AG-AGGGTTGCCACCGACTTGTGTGGGCTTTGG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
551324 AAGAA-GGTTGCCACCGACTTGTGTGGGCTTTAG
1 -AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
551357 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
551390 AGAAGGGTTGCCACCGACTTGTGTGGGCTTT-G
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
551422 AGAAGGGTTGCCACCGACTTGTGTGGGCTTT-G
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
551454 AGAAGGGTTGCCACCGACTTTTGTGGGCTTT-G
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
551486 AGAAGGGTTGCCACCGACTTGAGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
551519 A-AGGAGGTTGCCACCGACTTGTGTGGGCTTT-G
1 AGAAG-GGTTGCCACCGACTTGTGTGGGCTTTAG
* *
551551 AGAAGGGTTGCCACCGACTTGAGTAGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
551584 A-AGGAGGTGGCCACCGACTTGTGTGGGCTTTAG
1 AGAAG-GGTTGCCACCGACTTGTGTGGGCTTTAG
551617 AAGAA-GGTTGCCACCGACTTGTGTGGGCTTT-G
1 -AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
551649 GGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
551682 AG-AGGGT
1 AGAAGGGT
551689 AAAAGAATGC
Statistics
Matches: 393, Mismatches: 25, Indels: 25
0.89 0.06 0.06
Matches are distributed among these distances:
31 3 0.01
32 185 0.47
33 202 0.51
34 2 0.01
35 1 0.00
ACGTcount: A:0.19, C:0.18, G:0.36, T:0.27
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:551309 original size:65 final size:65
Alignment explanation
Indices: 551226--551688 Score: 690
Period size: 65 Copynumber: 7.1 Consensus size: 65
551216 TATTGGGCTT
* *
551226 AGAAGGGTTGCCACCGACTTATGTGGGCTTTAGAGAATGGTTGCCACCAACTTGTGTGGGCTTTA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAA-GGTTGCCACCGACTTGTGTGGGCTTTA
*
551291 A
65 G
*
551292 AG-AGGGTTGCCACCGACTTGTGTGGGCTTTGGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG-AGAAGGTTGCCACCGACTTGTGTGGGCTTTA
551356 G
65 G
551357 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGTGTGGGCTTT-
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAA-GGTTGCCACCGACTTGTGTGGGCTTTA
551421 G
65 G
*
551422 AGAAGGGTTGCCACCGACTTGTGTGGGCTTT-GAGAAGGGTTGCCACCGACTTTTGTGGGCTTT-
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAA-GGTTGCCACCGACTTGTGTGGGCTTTA
551485 G
65 G
* *
551486 AGAAGGGTTGCCACCGACTTGAGTGGGCTTTAGAAGGAGGTTGCCACCGACTTGTGTGGGCTTT-
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG-AGAAGGTTGCCACCGACTTGTGTGGGCTTTA
551550 G
65 G
* * * *
551551 AGAAGGGTTGCCACCGACTTGAGTAGGCTTTAGAAGGAGGTGGCCACCGACTTGTGTGGGCTTTA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG-AGAAGGTTGCCACCGACTTGTGTGGGCTTTA
551616 G
65 G
*
551617 AAGAA-GGTTGCCACCGACTTGTGTGGGCTTT-GGGAAGGGTTGCCACCGACTTGTGTGGGCTTT
1 -AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAA-GGTTGCCACCGACTTGTGTGGGCTTT
551680 AG
64 AG
551682 AG-AGGGT
1 AGAAGGGT
551689 AAAAGAATGC
Statistics
Matches: 372, Mismatches: 16, Indels: 20
0.91 0.04 0.05
Matches are distributed among these distances:
63 1 0.00
64 69 0.19
65 209 0.56
66 89 0.24
67 4 0.01
ACGTcount: A:0.19, C:0.18, G:0.36, T:0.27
Consensus pattern (65 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:551431 original size:98 final size:97
Alignment explanation
Indices: 551219--551688 Score: 720
Period size: 98 Copynumber: 4.8 Consensus size: 97
551209 CCAGCGATAT
* * *
551219 TGGGC-TTAGAAG-GGTTGCCACCGACTTATGTGGGCTTTAGAGAATGGTTGCCACCAACTTGTG
1 TGGGCTTTAGAAGAGGTTGCCACCGACTTGTGTGGGCTTT-GAGAAGGGTTGCCACCGACTTGTG
*
551282 TGGGCTTTAAAG-AGGGTTGCCACCGACTTGTG
65 TGGGCTTTAGAGAAGGGTTGCCACCGACTTGTG
*
551314 TGGGCTTTGGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGT
1 TGGGCTTTAGAAG-AGGTTGCCACCGACTTGTGTGGGCTTT-GAGAAGGGTTGCCACCGACTTGT
551379 GTGGGCTTTAGAGAAGGGTTGCCACCGACTTGTG
64 GTGGGCTTTAGAGAAGGGTTGCCACCGACTTGTG
*
551413 TGGGCTTTGAGAAG-GGTTGCCACCGACTTGTGTGGGCTTTGAGAAGGGTTGCCACCGACTTTTG
1 TGGGCTTT-AGAAGAGGTTGCCACCGACTTGTGTGGGCTTTGAGAAGGGTTGCCACCGACTTGTG
*
551477 TGGGCTTT-GAGAAGGGTTGCCACCGACTTGAG
65 TGGGCTTTAGAGAAGGGTTGCCACCGACTTGTG
*
551509 TGGGCTTTAGAAGGAGGTTGCCACCGACTTGTGTGGGCTTTGAGAAGGGTTGCCACCGACTTGAG
1 TGGGCTTTAGAA-GAGGTTGCCACCGACTTGTGTGGGCTTTGAGAAGGGTTGCCACCGACTTGTG
* * *
551574 TAGGCTTTAGA-AGGAGGTGGCCACCGACTTGTG
65 TGGGCTTTAGAGAAG-GGTTGCCACCGACTTGTG
*
551607 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTGGGAAGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAG-AGGTTGCCACCGACTTGTGTGGGCTTTGAGAAGGGTTGCCACCGACTTGTG
551672 TGGGCTTTAGAG-AGGGT
65 TGGGCTTTAGAGAAGGGT
551689 AAAAGAATGC
Statistics
Matches: 346, Mismatches: 18, Indels: 20
0.90 0.05 0.05
Matches are distributed among these distances:
95 9 0.03
96 38 0.11
97 92 0.27
98 175 0.51
99 28 0.08
100 4 0.01
ACGTcount: A:0.18, C:0.18, G:0.36, T:0.27
Consensus pattern (97 bp):
TGGGCTTTAGAAGAGGTTGCCACCGACTTGTGTGGGCTTTGAGAAGGGTTGCCACCGACTTGTGT
GGGCTTTAGAGAAGGGTTGCCACCGACTTGTG
Found at i:551726 original size:27 final size:27
Alignment explanation
Indices: 551688--551781 Score: 98
Period size: 27 Copynumber: 3.2 Consensus size: 27
551678 TTAGAGAGGG
*
551688 TAAAAGAATGCCACGGAGTTGTGGGCT
1 TAAAAGAGTGCCACGGAGTTGTGGGCT
*
551715 TAAAAGAGTGCCACGGAGTTGTGGACT
1 TAAAAGAGTGCCACGGAGTTGTGGGCT
*
551742 TAGAAGGAACAAGGTGCCACGGAGTTGTGGGCTT
1 T--AA--AA-GA-GTGCCACGGAGTTGTGGGC-T
551776 TAAAAG
1 TAAAAG
551782 GGAAAAAGAG
Statistics
Matches: 55, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
27 26 0.47
29 2 0.04
30 2 0.04
31 2 0.04
32 3 0.05
33 18 0.33
34 2 0.04
ACGTcount: A:0.31, C:0.14, G:0.34, T:0.21
Consensus pattern (27 bp):
TAAAAGAGTGCCACGGAGTTGTGGGCT
Found at i:551857 original size:131 final size:127
Alignment explanation
Indices: 551689--552001 Score: 362
Period size: 131 Copynumber: 2.4 Consensus size: 127
551679 TAGAGAGGGT
* * * * * *
551689 AAAAGAATGCCACGGAGTTGTGGGCTTAAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGAACAA
1 AAAAGAATGCCACGGAGTCGCGGACTTGAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAC-A
* * * *
551754 GG-TGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAA-A
65 GGATGCCACAGAGTTGTGGGCTTTAAAA-AGAAAAAG-GTGCCACGGAGTTGTGGACTTAGAAGA
* * * *
551817 AAAAG-GTGCTACGGAGTCGCGGACTTTGAAAGGAAGGTGCCACGAAGTCGTGGACTTAAAAGGA
1 AAAAGAATGCCACGGAGTCGCGGAC-TTGAAA-G--GGTGCCACGGAGTTGTGGACTTAAAAGGA
*
551881 ACGGGATGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAGAAG
62 ACAGGATGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAGAA-
*
551946 GG
126 GA
* * *
551948 AAAAGAATGCCACGGAGTTGTGGGCTTGAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGAATGCCACGGAGTCGCGGACTTGAAAGGGTGCCACGGAGTTGTGGACTT
552002 TGCAGAAAAT
Statistics
Matches: 154, Mismatches: 23, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
127 14 0.09
128 30 0.19
129 24 0.16
130 10 0.06
131 62 0.40
132 14 0.09
ACGTcount: A:0.31, C:0.14, G:0.35, T:0.20
Consensus pattern (127 bp):
AAAAGAATGCCACGGAGTCGCGGACTTGAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAACAG
GATGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAGAAGA
Found at i:551925 original size:34 final size:34
Alignment explanation
Indices: 551716--551970 Score: 188
Period size: 34 Copynumber: 7.6 Consensus size: 34
551706 TTGTGGGCTT
* *
551716 AAAAGAGTGCCACGGAGTTGTGGAC-TTAGAAGGA
1 AAAAG-GTGCCACGGAGTTGTGGACTTTAAAAAGA
* * *
551750 ACAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGGA
1 AAAAGGTGCCACGGAGTTGTGGACTTTAAAA-AGA
* *
551785 AAAAGAGTGCCACGGAGTTGTGGGCTTT--GAA-A
1 AAAAG-GTGCCACGGAGTTGTGGACTTTAAAAAGA
* * * *
551817 AAAAGGTGCTACGGAGTCGCGGACTTT-GAAAG-
1 AAAAGGTGCCACGGAGTTGTGGACTTTAAAAAGA
* * * *
551849 -GAAGGTGCCACGAAGTCGTGGAC-TT-AAAAGG
1 AAAAGGTGCCACGGAGTTGTGGACTTTAAAAAGA
** * *
551880 AACGGGATGCCACAGAGTTGTGGGCTTTAAAAAGA
1 AAAAGG-TGCCACGGAGTTGTGGACTTTAAAAAGA
* * *
551915 AAAAGGTGCCACGGAGTTGTGGAC-TTAGAAGGG
1 AAAAGGTGCCACGGAGTTGTGGACTTTAAAAAGA
*
551948 AAAAGAATGCCACGGAGTTGTGG
1 AAAAG-GTGCCACGGAGTTGTGG
551971 GCTTGAAAGG
Statistics
Matches: 178, Mismatches: 32, Indels: 22
0.77 0.14 0.09
Matches are distributed among these distances:
30 6 0.03
31 37 0.21
32 10 0.06
33 43 0.24
34 44 0.25
35 16 0.09
36 22 0.12
ACGTcount: A:0.32, C:0.14, G:0.35, T:0.19
Consensus pattern (34 bp):
AAAAGGTGCCACGGAGTTGTGGACTTTAAAAAGA
Found at i:551981 original size:34 final size:32
Alignment explanation
Indices: 551689--552001 Score: 187
Period size: 34 Copynumber: 9.8 Consensus size: 32
551679 TAGAGAGGGT
* *
551689 AAAAGAATGCCACGGAGTTGTGGGCTT-----
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAGG
551716 AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGG
1 AAAAGAGTGCCACGGAGTTGTGGACTTA-AAGG
*
551749 AACAAG-GTGCCACGGAGTTGTGGGCTTTAAAAGGG
1 AA-AAGAGTGCCACGGAGTTGTGGAC-TT-AAA-GG
*
551784 AAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAA--
1 -AAAAGAGTGCCACGGAGTTGTGGAC-TT-AAAGG
* * *
551817 AAAAG-GTGCTACGGAGTCGCGGACTTTGAAAGG
1 AAAAGAGTGCCACGGAGTTGTGGAC-TT-AAAGG
* *
551850 --AAG-GTGCCACGAAGTCGTGGACTTAAAAGG
1 AAAAGAGTGCCACGGAGTTGTGGACTT-AAAGG
* * * * *
551880 -AACGGGATGCCACAGAGTTGTGGGCTTTAAAAAG
1 AAAAGAG-TGCCACGGAGTTGTGGAC-TT-AAAGG
551914 AAAA-AGGTGCCACGGAGTTGTGGACTTAGAAGGG
1 AAAAGA-GTGCCACGGAGTTGTGGACTTA-AA-GG
* *
551948 AAAAGAATGCCACGGAGTTGTGGGCTT----G
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAGG
*
551976 -AAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGAGTGCCACGGAGTTGTGGACTT
552002 TGCAGAAAAT
Statistics
Matches: 235, Mismatches: 28, Indels: 46
0.76 0.09 0.15
Matches are distributed among these distances:
27 48 0.20
28 1 0.00
30 7 0.03
31 43 0.18
32 7 0.03
33 38 0.16
34 54 0.23
35 10 0.04
36 27 0.11
ACGTcount: A:0.31, C:0.14, G:0.35, T:0.20
Consensus pattern (32 bp):
AAAAGAGTGCCACGGAGTTGTGGACTTAAAGG
Found at i:552030 original size:32 final size:30
Alignment explanation
Indices: 551982--552226 Score: 269
Period size: 32 Copynumber: 7.9 Consensus size: 30
551972 CTTGAAAGGG
* *
551982 TGCCACGGAGTTGTGGACTTTGCAGAAAATGA
1 TGCCACTGAGTCGTGGACTTTG-AGAAAA-GA
* *
552014 TGCCACTAAGTCGTGGACTTTGAGACAAAATA
1 TGCCACTGAGTCGTGGACTTTGAG--AAAAGA
552046 TGCCACTGAGTCGTGGACTTTGAAGAAAAGGA
1 TGCCACTGAGTCGTGGACTTTG-AGAAAA-GA
*
552078 TGCCATTGAGTCGTGGACTTTGAGACAAA-A
1 TGCCACTGAGTCGTGGACTTTGAGA-AAAGA
552108 TGCCACTGAGTCGTGGACTTTGAAGAAAAGGA
1 TGCCACTGAGTCGTGGACTTTG-AGAAAA-GA
*
552140 TGCCACTAAGTCGTGGACTTTGAGACAAA-A
1 TGCCACTGAGTCGTGGACTTTGAGA-AAAGA
* * * * *
552170 TGCCACTGAGTCATGGGCATTAAGAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAAAGA
*
552200 TTGCCACTGAGTCGTGGACTTTAAGAA
1 -TGCCACTGAGTCGTGGACTTTGAGAA
552227 GGTATTTGAT
Statistics
Matches: 184, Mismatches: 18, Indels: 23
0.82 0.08 0.10
Matches are distributed among these distances:
29 2 0.01
30 47 0.26
31 38 0.21
32 91 0.49
33 6 0.03
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.24
Consensus pattern (30 bp):
TGCCACTGAGTCGTGGACTTTGAGAAAAGA
Found at i:552127 original size:126 final size:123
Alignment explanation
Indices: 551982--552221 Score: 356
Period size: 126 Copynumber: 1.9 Consensus size: 123
551972 CTTGAAAGGG
* * *
551982 TGCCACGGAGTTGTGGACTTTGCAGAAAATGATGCCACTAAGTCGTGGACTTTGAGACAAAATAT
1 TGCCACGGAGTCGTGGACTTTGAAGAAAAGGATGCCACTAAGTCGTGGACTTTGAGAC-AAA-AT
* * *
552047 GCCACTGAGTCGTGGACTTTGAAGAAAAGGA-TGCCATTGAGTCGTGGACTTTGAGACAAAA
64 GCCACTGAGTCATGGACATT-AAGAAAA-GATTGCCACTGAGTCGTGGACTTTGAGACAAAA
*
552108 TGCCACTGAGTCGTGGACTTTGAAGAAAAGGATGCCACTAAGTCGTGGACTTTGAGACAAAATGC
1 TGCCACGGAGTCGTGGACTTTGAAGAAAAGGATGCCACTAAGTCGTGGACTTTGAGACAAAATGC
* *
552173 CACTGAGTCATGGGCATTAAGAAGAGATTGCCACTGAGTCGTGGACTTT
66 CACTGAGTCATGGACATTAAGAAAAGATTGCCACTGAGTCGTGGACTTT
552222 AAGAAGGTAT
Statistics
Matches: 104, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
122 2 0.02
123 26 0.25
124 19 0.18
125 3 0.03
126 54 0.52
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (123 bp):
TGCCACGGAGTCGTGGACTTTGAAGAAAAGGATGCCACTAAGTCGTGGACTTTGAGACAAAATGC
CACTGAGTCATGGACATTAAGAAAAGATTGCCACTGAGTCGTGGACTTTGAGACAAAA
Found at i:552138 original size:62 final size:62
Alignment explanation
Indices: 551982--552221 Score: 340
Period size: 62 Copynumber: 3.9 Consensus size: 62
551972 CTTGAAAGGG
* * * *
551982 TGCCACGGAGTTGTGGACTTTGCAGAAAATGATGCCACTAAGTCGTGGACTTTGAGACAAAATA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGGATGCCACTAAGTCGTGGACTTTGAGAC-AAA-A
* *
552046 TGCCACTGAGTCGTGGACTTTGAAGAAAAGGATGCCATTGAGTCGTGGACTTTGAGACAAAA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGGATGCCACTAAGTCGTGGACTTTGAGACAAAA
552108 TGCCACTGAGTCGTGGACTTTGAAGAAAAGGATGCCACTAAGTCGTGGACTTTGAGACAAAA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGGATGCCACTAAGTCGTGGACTTTGAGACAAAA
* * * * *
552170 TGCCACTGAGTCATGGGCATT-AAGAAGA-GATTGCCACTGAGTCGTGGACTTT
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGGA-TGCCACTAAGTCGTGGACTTT
552222 AAGAAGGTAT
Statistics
Matches: 162, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
60 2 0.01
61 26 0.16
62 79 0.49
63 3 0.02
64 52 0.32
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (62 bp):
TGCCACTGAGTCGTGGACTTTGAAGAAAAGGATGCCACTAAGTCGTGGACTTTGAGACAAAA
Found at i:553190 original size:15 final size:14
Alignment explanation
Indices: 553170--553203 Score: 59
Period size: 15 Copynumber: 2.4 Consensus size: 14
553160 GGGTTTTTCC
553170 TTTTTTTTTGTTTGT
1 TTTTTTTTTGTTT-T
553185 TTTTTTTTTGTTTT
1 TTTTTTTTTGTTTT
553199 TTTTT
1 TTTTT
553204 GTGAAGATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (14 bp):
TTTTTTTTTGTTTT
Found at i:553270 original size:21 final size:22
Alignment explanation
Indices: 553245--553285 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
553235 CTCACCGAGA
*
553245 TTTTCTGT-TTTGTTTTTTTCT
1 TTTTCTCTCTTTGTTTTTTTCT
553266 TTTTCTCTCTTTGTTTTTTT
1 TTTTCTCTCTTTGTTTTTTT
553286 GGAAAAGAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.00, C:0.12, G:0.07, T:0.80
Consensus pattern (22 bp):
TTTTCTCTCTTTGTTTTTTTCT
Found at i:553544 original size:14 final size:12
Alignment explanation
Indices: 553534--553570 Score: 58
Period size: 12 Copynumber: 3.1 Consensus size: 12
553524 CTTTTTTCTG
553534 TGTTGTTTTTTT
1 TGTTGTTTTTTT
553546 T-TTGTTTTTTTT
1 TGTTG-TTTTTTT
553558 TGTTGTTTTTTT
1 TGTTGTTTTTTT
553570 T
1 T
553571 ATCACTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 3 0.13
12 17 0.74
13 3 0.13
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (12 bp):
TGTTGTTTTTTT
Found at i:553552 original size:11 final size:11
Alignment explanation
Indices: 553536--553570 Score: 54
Period size: 10 Copynumber: 3.2 Consensus size: 11
553526 TTTTTCTGTG
553536 TTGTTTTTTTT
1 TTGTTTTTTTT
553547 TTG-TTTTTTT
1 TTGTTTTTTTT
553557 TTGTTGTTTTTT
1 TTGTT-TTTTTT
553569 TT
1 TT
553571 ATCACTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.45
11 4 0.18
12 8 0.36
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (11 bp):
TTGTTTTTTTT
Found at i:553555 original size:13 final size:13
Alignment explanation
Indices: 553534--553570 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
553524 CTTTTTTCTG
553534 TGTTG-TTTTTTT
1 TGTTGTTTTTTTT
553546 T-TTGTTTTTTTT
1 TGTTGTTTTTTTT
553558 TGTTGTTTTTTTT
1 TGTTGTTTTTTTT
553571 ATCACTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 3 0.13
12 9 0.39
13 11 0.48
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (13 bp):
TGTTGTTTTTTTT
Found at i:553579 original size:24 final size:24
Alignment explanation
Indices: 553534--553582 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
553524 CTTTTTTCTG
* ***
553534 TGTTGTTTTTTTTTTGTTTTTTTT
1 TGTTGTTTTTTTTATCACTTTTTT
553558 TGTTGTTTTTTTTATCACTTTTTT
1 TGTTGTTTTTTTTATCACTTTTTT
553582 T
1 T
553583 AAGGGAACTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.04, C:0.04, G:0.10, T:0.82
Consensus pattern (24 bp):
TGTTGTTTTTTTTATCACTTTTTT
Found at i:560600 original size:52 final size:52
Alignment explanation
Indices: 560452--560580 Score: 249
Period size: 52 Copynumber: 2.5 Consensus size: 52
560442 TGAAATATGA
560452 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
560504 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
560556 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
560581 AAGATCAGTG
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 76 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:560684 original size:19 final size:18
Alignment explanation
Indices: 560656--560753 Score: 72
Period size: 19 Copynumber: 5.8 Consensus size: 18
560646 TAGCTTATAT
*
560656 TGTATTGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
560675 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
560688 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
*
560707 TTTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
560720 TGTATCGATACAATACTTTA
1 TGTATCGATACAA-AC-TTA
560740 TGTATCGATACAAA
1 TGTATCGATACAAA
560754 TCGTTGAAAT
Statistics
Matches: 63, Mismatches: 3, Indels: 26
0.68 0.03 0.28
Matches are distributed among these distances:
13 21 0.33
14 2 0.03
16 4 0.06
18 1 0.02
19 22 0.35
20 13 0.21
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:560693 original size:13 final size:13
Alignment explanation
Indices: 560675--560731 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
560665 ACAAAACTTA
560675 TGTATCGATACAT
1 TGTATCGATACAT
560688 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
*
560706 ATTTATCGATACAT
1 -TGTATCGATACAT
560720 TGTATCGATACA
1 TGTATCGATACA
560732 ATACTTTATG
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 20 0.56
14 1 0.03
16 6 0.17
18 1 0.03
19 8 0.22
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:560698 original size:32 final size:32
Alignment explanation
Indices: 560654--560751 Score: 151
Period size: 32 Copynumber: 3.0 Consensus size: 32
560644 AATAGCTTAT
*
560654 ATTGTATTGATACAAAACTTATGTATCGATAC
1 ATTGTATCGATACAAAACTTATGTATCGATAC
* *
560686 ATTGTATCGATACAACACTTATTTATCGATAC
1 ATTGTATCGATACAAAACTTATGTATCGATAC
*
560718 ATTGTATCGATACAATACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAC-TTATGTATCGATAC
560751 A
1 A
560752 AATCGTTGAA
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
32 46 0.77
33 14 0.23
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (32 bp):
ATTGTATCGATACAAAACTTATGTATCGATAC
Found at i:560830 original size:21 final size:21
Alignment explanation
Indices: 560789--560830 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
560779 GTTGGGACCT
*
560789 TGTATCGATACATTTTAACAA
1 TGTATCGATACATTTGAACAA
*
560810 TGTATCGATACATTTGGACAA
1 TGTATCGATACATTTGAACAA
560831 AAATGTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTTGAACAA
Found at i:563651 original size:13 final size:13
Alignment explanation
Indices: 563633--563659 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
563623 ACATTATGCT
563633 TTGTATCGATACA
1 TTGTATCGATACA
563646 TTGTATCGATACA
1 TTGTATCGATACA
563659 T
1 T
563660 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:563689 original size:20 final size:19
Alignment explanation
Indices: 563640--563718 Score: 104
Period size: 20 Copynumber: 4.0 Consensus size: 19
563630 GCTTTGTATC
563640 GATACATTGTATCGATACAT
1 GATA-ATTGTATCGATACAT
* *
563660 GTTCATTGTATCGATACAT
1 GATAATTGTATCGATACAT
563679 GGATAATTGTATCGATACAT
1 -GATAATTGTATCGATACAT
*
563699 AGACAATTGTATCGATACAT
1 -GATAATTGTATCGATACAT
563719 AAAACTGGTA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
19 15 0.29
20 37 0.71
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.35
Consensus pattern (19 bp):
GATAATTGTATCGATACAT
Found at i:563718 original size:40 final size:40
Alignment explanation
Indices: 563640--563718 Score: 117
Period size: 40 Copynumber: 2.0 Consensus size: 40
563630 GCTTTGTATC
*
563640 GATACATTGTATCGATACATGTTCATTGTATCGATACATG
1 GATACATTGTATCGATACATGTACATTGTATCGATACATG
563680 GATA-ATTGTATCGATACATAG-ACAATTGTATCGATACAT
1 GATACATTGTATCGATACAT-GTAC-ATTGTATCGATACAT
563719 AAAACTGGTA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
39 16 0.44
40 20 0.56
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.35
Consensus pattern (40 bp):
GATACATTGTATCGATACATGTACATTGTATCGATACATG
Found at i:563785 original size:13 final size:13
Alignment explanation
Indices: 563764--563793 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
563754 CGATACATGG
*
563764 TACATTGTATCGA
1 TACAATGTATCGA
563777 TACAATGTATCGA
1 TACAATGTATCGA
563790 TACA
1 TACA
563794 TGATGAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
TACAATGTATCGA
Done.