Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 160 of 171
Found at i:47587650 original size:59 final size:58
Alignment explanation
Indices: 47587568--47587900 Score: 280
Period size: 59 Copynumber: 5.7 Consensus size: 58
47587558 GGAAATGGTA
* * * * * *
47587568 ATTTTTGGAAACTCGGGGGCAAAAATGTAATTTTTGGAAGTTCAAGAGTAAAAATGTG
1 ATTTTTGGAAAGTTGAGGTCAAAAATGTAATTTTTGGAAGTTTAAGGGTAAAAATGTG
*** * * * ** *
47587626 ATTTTCAAAAAGTTCGAGGTCAAAAATG-ATATTTTTGAAAATTT-GGGGTAAAACGGTA
1 ATTTTTGGAAAGTT-GAGGTCAAAAATGTA-ATTTTTGGAAGTTTAAGGGTAAAAATGTG
* * * * * * *
47587684 ATTTTTGGACACTTGAGGGTGAAAATTGTAATTTTTGAAAGTTTGAGAGTAAAAATGTG
1 ATTTTTGGAAAGTTGA-GGTCAAAAATGTAATTTTTGGAAGTTTAAGGGTAAAAATGTG
* * * * * *
47587743 ATTTTTGGAAAGTTTAGGGTTAAAAATATAA-TTTTGGAAAGTTTAAGGGTTAAAATATA
1 ATTTTTGGAAAGTTGA-GGTCAAAAATGTAATTTTTGG-AAGTTTAAGGGTAAAAATGTG
*
47587802 ATTTTTGGAAAGTTTG-GGGCTAAAAATGTAATTTTTGGAAGTTTAAGGGTAAAAATGTG
1 ATTTTTGGAAAG-TTGAGGTC-AAAAATGTAATTTTTGGAAGTTTAAGGGTAAAAATGTG
* *
47587861 ATTTTTGGAAAGTTTAAGGT-TAAAATGTAATTTTTGGAAG
1 ATTTTTGGAAAG-TTGAGGTCAAAAATGTAATTTTTGGAAG
47587901 GTTCGGAGGC
Statistics
Matches: 215, Mismatches: 50, Indels: 20
0.75 0.18 0.07
Matches are distributed among these distances:
57 2 0.01
58 76 0.35
59 127 0.59
60 10 0.05
ACGTcount: A:0.37, C:0.03, G:0.24, T:0.36
Consensus pattern (58 bp):
ATTTTTGGAAAGTTGAGGTCAAAAATGTAATTTTTGGAAGTTTAAGGGTAAAAATGTG
Found at i:47587730 original size:30 final size:29
Alignment explanation
Indices: 47587588--47587896 Score: 245
Period size: 29 Copynumber: 10.6 Consensus size: 29
47587578 ACTCGGGGGC
* ** *
47587588 AAAAATGTAATTTTTGGAAGTTCAAGAGT
1 AAAAATGTAATTTTTGAAAGTTTGAGGGT
* ** *
47587617 AAAAATGTGATTTTCAAAAAGTTCGA-GGT
1 AAAAATGTAATTTT-TGAAAGTTTGAGGGT
*
47587646 CAAAAATG-ATATTTTTGAAAATTTG-GGGT
1 -AAAAATGTA-ATTTTTGAAAGTTTGAGGGT
** * *
47587675 AAAACGGTAATTTTTGGACA-CTTGAGGGT
1 AAAAATGTAATTTTT-GAAAGTTTGAGGGT
* *
47587704 GAAAATTGTAATTTTTGAAAGTTTGAGAGT
1 -AAAAATGTAATTTTTGAAAGTTTGAGGGT
*
47587734 AAAAATGTGATTTTTGGAAAGTTT-AGGGTT
1 AAAAATGTAATTTTT-GAAAGTTTGAGGG-T
* * *
47587764 AAAAATATAATTTTGGAAAGTTTAAGGGT
1 AAAAATGTAATTTTTGAAAGTTTGAGGGT
* *
47587793 TAAAATATAATTTTTGGAAAGTTTG-GGGCT
1 AAAAATGTAATTTTT-GAAAGTTTGAGGG-T
* *
47587823 AAAAATGTAATTTTTGGAAGTTTAAGGGT
1 AAAAATGTAATTTTTGAAAGTTTGAGGGT
* *
47587852 AAAAATGTGATTTTTGGAAAGTTT-AAGGT
1 AAAAATGTAATTTTT-GAAAGTTTGAGGGT
*
47587881 TAAAATGTAATTTTTG
1 AAAAATGTAATTTTTG
47587897 GAAGGTTCGG
Statistics
Matches: 226, Mismatches: 38, Indels: 33
0.76 0.13 0.11
Matches are distributed among these distances:
28 15 0.07
29 115 0.51
30 96 0.42
ACGTcount: A:0.38, C:0.03, G:0.23, T:0.37
Consensus pattern (29 bp):
AAAAATGTAATTTTTGAAAGTTTGAGGGT
Found at i:47588756 original size:12 final size:12
Alignment explanation
Indices: 47588739--47588763 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47588729 AATTTCTTTT
47588739 TTATTATTAATA
1 TTATTATTAATA
47588751 TTATTATTAATA
1 TTATTATTAATA
47588763 T
1 T
47588764 GTAAACATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TTATTATTAATA
Found at i:47589250 original size:20 final size:20
Alignment explanation
Indices: 47589225--47589268 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
47589215 GCAGAAGCAA
47589225 GTTGTTGGTGGTGCAATTTG
1 GTTGTTGGTGGTGCAATTTG
47589245 GTTGTTGGTGGTGCAATTTG
1 GTTGTTGGTGGTGCAATTTG
47589265 GTTG
1 GTTG
47589269 CTGACGTGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.09, C:0.05, G:0.41, T:0.45
Consensus pattern (20 bp):
GTTGTTGGTGGTGCAATTTG
Found at i:47589499 original size:6 final size:6
Alignment explanation
Indices: 47589474--47589540 Score: 52
Period size: 6 Copynumber: 11.7 Consensus size: 6
47589464 TGGACTTTTA
* * * * *
47589474 TTAAAT TTAAA- GTAATT TTAAAT TTAAAA GTAAAC TTAAAT TT-AAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
47589520 TTAAAT TTAGAA- -TAAAT TTAA
1 TTAAAT TTA-AAT TTAAAT TTAA
47589541 TCTTAGAATA
Statistics
Matches: 47, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
4 2 0.04
5 10 0.21
6 33 0.70
7 2 0.04
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.43
Consensus pattern (6 bp):
TTAAAT
Found at i:47589505 original size:18 final size:18
Alignment explanation
Indices: 47589474--47589518 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
47589464 TGGACTTTTA
**
47589474 TTAAATTT-AAAGTAATT
1 TTAAATTTAAAAGTAAAC
47589491 TTAAATTTAAAAGTAAAC
1 TTAAATTTAAAAGTAAAC
47589509 TTAAATTTAA
1 TTAAATTTAA
47589519 TTTAAATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 8 0.32
18 17 0.68
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.42
Consensus pattern (18 bp):
TTAAATTTAAAAGTAAAC
Found at i:47589537 original size:17 final size:18
Alignment explanation
Indices: 47589517--47589558 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
47589507 ACTTAAATTT
47589517 AATTTAAAT-TTAGAATA
1 AATTTAAATCTTAGAATA
47589534 AATTT-AATCTTAGAATA
1 AATTTAAATCTTAGAATA
*
47589551 AACTTAAA
1 AATTTAAA
47589559 AAAAGTCTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 3 0.14
17 17 0.77
18 2 0.09
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (18 bp):
AATTTAAATCTTAGAATA
Found at i:47591578 original size:31 final size:33
Alignment explanation
Indices: 47591534--47591594 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 33
47591524 TTCCTTTTAA
47591534 TTTTTTATATTTAATTCTTAT-T-TTTTTGTAT
1 TTTTTTATATTTAATTCTTATCTATTTTTGTAT
* * *
47591565 TTTTTTTTTTTTAATTTTTATCTATTTTTG
1 TTTTTTATATTTAATTCTTATCTATTTTTG
47591595 CGGCACGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 18 0.72
32 1 0.04
33 6 0.24
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.77
Consensus pattern (33 bp):
TTTTTTATATTTAATTCTTATCTATTTTTGTAT
Found at i:47591582 original size:14 final size:14
Alignment explanation
Indices: 47591528--47591583 Score: 58
Period size: 14 Copynumber: 3.8 Consensus size: 14
47591518 GATTCTTTCC
*
47591528 TTTTAATTTTTTAT
1 TTTTAATTTTTTTT
*
47591542 ATTTAATTCTTATTTT
1 TTTTAATT-TT-TTTT
*
47591558 TTTGTATTTTTTTTT
1 TTT-TAATTTTTTTT
47591573 TTTTAATTTTT
1 TTTTAATTTTT
47591584 ATCTATTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
14 14 0.41
15 9 0.26
16 7 0.21
17 4 0.12
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.79
Consensus pattern (14 bp):
TTTTAATTTTTTTT
Found at i:47592367 original size:27 final size:28
Alignment explanation
Indices: 47592337--47592390 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
47592327 ACATTTTTAC
* *
47592337 TTAAAAATATAAAAATT-TAATTTATTT
1 TTAAAAAAATAAAAATTATAAATTATTT
*
47592364 TTAAAAAAATATAAATTATAAATTATT
1 TTAAAAAAATAAAAATTATAAATTATT
47592391 AAAATGATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 15 0.65
28 8 0.35
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (28 bp):
TTAAAAAAATAAAAATTATAAATTATTT
Found at i:47592766 original size:59 final size:58
Alignment explanation
Indices: 47592688--47592884 Score: 223
Period size: 59 Copynumber: 3.3 Consensus size: 58
47592678 TTAATATAAC
* *
47592688 ATTTGGTATTTGAATTTGACATTGTTTTTTAATTTAGTACTTAAACATTTTTGGACTCA
1 ATTTGATACTTGAATTTGACATT-TTTTTTAATTTAGTACTTAAACATTTTTGGACTCA
* * *
47592747 ATTTGATACTTGAACTTGACACTTTTTTTTAATTTGGTACTTAAACATTTTTGGACCCA
1 ATTTGATACTTGAATTTGACA-TTTTTTTTAATTTAGTACTTAAACATTTTTGGACTCA
* * * * * * *
47592806 ATTTGGTACTTGAATTTGATATTTTTTCCCTAATTTAGTACCTAAACTTTTTTTAAGATTCA
1 ATTTGATACTTGAATTTGACATTTTTT--TTAATTTAGTACTTAAAC-ATTTTT-GGACTCA
*
47592868 ATTTGATACTTAAATTT
1 ATTTGATACTTGAATTT
47592885 ATTAAATATT
Statistics
Matches: 116, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
58 6 0.05
59 69 0.59
60 17 0.15
61 5 0.04
62 19 0.16
ACGTcount: A:0.28, C:0.12, G:0.11, T:0.49
Consensus pattern (58 bp):
ATTTGATACTTGAATTTGACATTTTTTTTAATTTAGTACTTAAACATTTTTGGACTCA
Found at i:47593117 original size:30 final size:30
Alignment explanation
Indices: 47593081--47593164 Score: 91
Period size: 31 Copynumber: 2.8 Consensus size: 30
47593071 GGACCCAAAA
*
47593081 AAGTTTAAGTATCAACTT-AAAAAAGATGTC
1 AAGTTTAAGTATCAAATTAAAAAAAG-TGTC
* *
47593111 AAGTTTAAATATTAAATTAAGAAAAAGTGTC
1 AAGTTTAAGTATCAAATTAA-AAAAAGTGTC
*
47593142 AAATTT-AGATATCAAATTAAAAA
1 AAGTTTAAG-TATCAAATTAAAAA
47593165 TATATATATA
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
30 19 0.42
31 20 0.44
32 6 0.13
ACGTcount: A:0.52, C:0.06, G:0.11, T:0.31
Consensus pattern (30 bp):
AAGTTTAAGTATCAAATTAAAAAAAGTGTC
Found at i:47594113 original size:100 final size:99
Alignment explanation
Indices: 47593966--47594166 Score: 393
Period size: 100 Copynumber: 2.0 Consensus size: 99
47593956 TTAAAGATAA
47593966 AACATCAAACTAAAATAAAACAAAAATAAAATAAATTAAGTGAAATAAATATTGCTGCTAAATAA
1 AACATCAAACTAAAATAAAACAAAAATAAAATAAATTAAGTGAAATAAATATTGCTGCTAAATAA
47594031 TTAATCGAGATAAAGAAATAAGAAAAACTATATTT
66 TTAATCGAGATAAAGAAATAA-AAAAACTATATTT
47594066 AACATCAAACTAAAATAAAACAAAAATAAAATAAATTAAGTGAAATAAATATTGCTGCTAAATAA
1 AACATCAAACTAAAATAAAACAAAAATAAAATAAATTAAGTGAAATAAATATTGCTGCTAAATAA
47594131 TTAATCGAGATAAAGAAATAAAAAAACTATATTT
66 TTAATCGAGATAAAGAAATAAAAAAACTATATTT
47594165 AA
1 AA
47594167 TAAGCTTAGC
Statistics
Matches: 101, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
99 15 0.15
100 86 0.85
ACGTcount: A:0.60, C:0.08, G:0.07, T:0.25
Consensus pattern (99 bp):
AACATCAAACTAAAATAAAACAAAAATAAAATAAATTAAGTGAAATAAATATTGCTGCTAAATAA
TTAATCGAGATAAAGAAATAAAAAAACTATATTT
Found at i:47601828 original size:28 final size:29
Alignment explanation
Indices: 47601793--47601857 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 29
47601783 TGACGTAATG
*
47601793 TTCTCAAATTATGCAAAT-TTTAAATTCAA
1 TTCTCAAATT-TGAAAATATTTAAATTCAA
* *
47601822 TT-TCAAATTTTAAAATATTTTAATTCAA
1 TTCTCAAATTTGAAAATATTTAAATTCAA
47601850 TTCTCAAA
1 TTCTCAAA
47601858 GAATTAGTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
27 5 0.16
28 19 0.61
29 7 0.23
ACGTcount: A:0.42, C:0.12, G:0.02, T:0.45
Consensus pattern (29 bp):
TTCTCAAATTTGAAAATATTTAAATTCAA
Found at i:47604756 original size:23 final size:23
Alignment explanation
Indices: 47604659--47604745 Score: 77
Period size: 23 Copynumber: 3.7 Consensus size: 23
47604649 TTTTTGCTAT
* *
47604659 TTTTTGTTGCTATTTTTGTTGTT-
1 TTTTTGTTGTTA-TTTTGCTGTTA
* * ** *
47604682 GTTTTGATGTTATGTTTGCTACTG
1 TTTTTGTTGTTAT-TTTGCTGTTA
47604706 TTTTTGTTGTTATTTTGCTGTTA
1 TTTTTGTTGTTATTTTGCTGTTA
*
47604729 TTTTTGTTGTTGTTTTG
1 TTTTTGTTGTTATTTTG
47604746 GTTTTTGTTT
Statistics
Matches: 50, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
22 1 0.02
23 38 0.76
24 11 0.22
ACGTcount: A:0.07, C:0.05, G:0.21, T:0.68
Consensus pattern (23 bp):
TTTTTGTTGTTATTTTGCTGTTA
Found at i:47604763 original size:12 final size:12
Alignment explanation
Indices: 47604659--47604744 Score: 68
Period size: 12 Copynumber: 7.3 Consensus size: 12
47604649 TTTTTGCTAT
*
47604659 TTTTTGTTGCTA
1 TTTTTGTTGTTA
47604671 TTTTTGTTGTT-
1 TTTTTGTTGTTA
* *
47604682 GTTTTGATGTTA
1 TTTTTGTTGTTA
* * ** *
47604694 TGTTTGCTACTG
1 TTTTTGTTGTTA
47604706 TTTTTGTTGTTA
1 TTTTTGTTGTTA
*
47604718 -TTTTGCTGTTA
1 TTTTTGTTGTTA
*
47604729 TTTTTGTTGTTG
1 TTTTTGTTGTTA
47604741 TTTT
1 TTTT
47604745 GGTTTTTGTT
Statistics
Matches: 55, Mismatches: 17, Indels: 4
0.72 0.22 0.05
Matches are distributed among these distances:
11 19 0.35
12 36 0.65
ACGTcount: A:0.07, C:0.05, G:0.20, T:0.69
Consensus pattern (12 bp):
TTTTTGTTGTTA
Found at i:47608785 original size:32 final size:30
Alignment explanation
Indices: 47608748--47608809 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
47608738 ATTATTAAAG
*
47608748 ATAAAATTATACTTTTAACTCTCTTAAAAATT
1 ATAAAATTATA-ATTTAA-TCTCTTAAAAATT
* *
47608780 ATAAAATTTTAATTTAATCTTTTAAAAATT
1 ATAAAATTATAATTTAATCTCTTAAAAATT
47608810 TTATTTTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 12 0.44
31 5 0.19
32 10 0.37
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (30 bp):
ATAAAATTATAATTTAATCTCTTAAAAATT
Found at i:47612936 original size:6 final size:6
Alignment explanation
Indices: 47612925--47612969 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
47612915 TGATCAAAAT
* * *
47612925 TGAAAG TGAAAG TGAAAG TGAAAG TGAAAT TGGAAT TGAAAG TGA
1 TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGA
47612970 TATGAATTGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.47, C:0.00, G:0.31, T:0.22
Consensus pattern (6 bp):
TGAAAG
Found at i:47615346 original size:3 final size:3
Alignment explanation
Indices: 47615338--47615374 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
47615328 TATTTCGAGT
47615338 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
47615375 CATCATCTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:47616017 original size:24 final size:23
Alignment explanation
Indices: 47615990--47616048 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 23
47615980 AAAAGGAATA
*
47615990 ATAATTTATTTGATCTTTTAATTT
1 ATAATTTATTTAAT-TTTTAATTT
*
47616014 ATAATTTTTTTTAATTTTTAATTT
1 ATAA-TTTATTTAATTTTTAATTT
**
47616038 ATTTTTTATTT
1 ATAATTTATTT
47616049 TTTACCCTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
23 6 0.21
24 15 0.52
25 8 0.28
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (23 bp):
ATAATTTATTTAATTTTTAATTT
Found at i:47616025 original size:17 final size:18
Alignment explanation
Indices: 47616005--47616048 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
47615995 TTATTTGATC
47616005 TTTTAATTTATAATTT-T
1 TTTTAATTTATAATTTAT
*
47616022 TTTTAATTTTTAATTTAT
1 TTTTAATTTATAATTTAT
*
47616040 TTTTTATTT
1 TTTTAATTT
47616049 TTTACCCTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 15 0.62
18 9 0.38
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTTAATTTATAATTTAT
Found at i:47618219 original size:89 final size:87
Alignment explanation
Indices: 47618107--47618435 Score: 369
Period size: 89 Copynumber: 3.7 Consensus size: 87
47618097 TCAAGAGGTC
* * *
47618107 CCCAAACTATTCCAAAATTATATTTTAACCTC-TAAACATTTCTAAAATCACATTTTAACCCCTA
1 CCCAAACT-TTTCAAAATCATATTTTAACC-CATAAACTTTTCTAAAATCACATTTTAACCCCTA
* * * *
47618171 AATTTTTCCAAAATTACATTTTGGA
64 AACTTTTCCAAAATCATATTTT-AA
* * * *
47618196 CCCAAACTTTTCAAAAATCATATTTTATCCCTTAAACTTTTCTAAAATTACATTTTAACTCCTAA
1 CCCAAACTTTTC-AAAATCATATTTTAACCCATAAACTTTTCTAAAATCACATTTTAACCCCTAA
47618261 ACTTTTCCAAAATCATATTTTAA
65 ACTTTTCCAAAATCATATTTTAA
* * * *
47618284 CCCCTAAACTTTTTC-AAATCATATTTTAACCCATAAACTTTTCCAAAATTATAGTTTTGACCCC
1 -CCC-AAAC-TTTTCAAAATCATATTTTAACCCATAAACTTTTCTAAAATCACA-TTTTAACCCC
47618348 TAAAACTTTTCCAAAATCATATTTTAA
62 T-AAACTTTTCCAAAATCATATTTTAA
* *
47618375 CACTAAACTTTTCTAAAATCATATTTTAACCC-TCAAACTTTTC-AAAATCACATTTTGACCC
1 C-CCAAACTTTTC-AAAATCATATTTTAACCCAT-AAACTTTTCTAAAATCACATTTTAACCC
47618436 TCGAACTTCT
Statistics
Matches: 210, Mismatches: 19, Indels: 22
0.84 0.08 0.09
Matches are distributed among these distances:
88 5 0.02
89 122 0.58
90 26 0.12
91 57 0.27
ACGTcount: A:0.37, C:0.23, G:0.02, T:0.38
Consensus pattern (87 bp):
CCCAAACTTTTCAAAATCATATTTTAACCCATAAACTTTTCTAAAATCACATTTTAACCCCTAAA
CTTTTCCAAAATCATATTTTAA
Found at i:47618220 original size:29 final size:29
Alignment explanation
Indices: 47618110--47618436 Score: 345
Period size: 30 Copynumber: 11.0 Consensus size: 29
47618100 AGAGGTCCCC
* *
47618110 AAACTATTCCAAAATTATATTTTAACCTCT
1 AAACTTTTCCAAAATCATATTTTAACC-CT
* * *
47618140 AAACATTTCTAAAATCACATTTTAACCCCT
1 AAACTTTTCCAAAATCATATTTTAA-CCCT
* * * *
47618170 AAATTTTTCCAAAATTACATTTTGGACCC-
1 AAACTTTTCCAAAATCATATTTT-AACCCT
* *
47618199 AAACTTTTCAAAAATCATATTTTATCCCTT
1 AAACTTTTCCAAAATCATATTTTAACCC-T
* * *
47618229 AAACTTTTCTAAAATTACATTTTAACTCCT
1 AAACTTTTCCAAAATCATATTTTAAC-CCT
47618259 AAACTTTTCCAAAATCATATTTTAACCCCT
1 AAACTTTTCCAAAATCATATTTTAA-CCCT
*
47618289 AAACTTTTTC-AAATCATATTTTAACCCAT
1 AAACTTTTCCAAAATCATATTTTAACCC-T
* *
47618318 AAACTTTTCCAAAATTATAGTTTTGACCCCT
1 AAACTTTTCCAAAATCATA-TTTT-AACCCT
*
47618349 AAAACTTTTCCAAAATCATATTTTAACACT
1 -AAACTTTTCCAAAATCATATTTTAACCCT
*
47618379 AAACTTTTCTAAAATCATATTTTAACCCT
1 AAACTTTTCCAAAATCATATTTTAACCCT
* *
47618408 CAAACTTTT-CAAAATCACATTTTGACCCT
1 -AAACTTTTCCAAAATCATATTTTAACCCT
47618437 CGAACTTCTG
Statistics
Matches: 250, Mismatches: 35, Indels: 25
0.81 0.11 0.08
Matches are distributed among these distances:
28 6 0.02
29 87 0.35
30 120 0.48
31 15 0.06
32 22 0.09
ACGTcount: A:0.37, C:0.22, G:0.02, T:0.39
Consensus pattern (29 bp):
AAACTTTTCCAAAATCATATTTTAACCCT
Found at i:47618452 original size:59 final size:58
Alignment explanation
Indices: 47618109--47618436 Score: 322
Period size: 59 Copynumber: 5.5 Consensus size: 58
47618099 AAGAGGTCCC
* * * * *
47618109 CAAACTATTCCAAAATTATATTTTAACCTCTAAACATTTCTAAAATCACATTTTAACCC-
1 CAAACT-TTTCAAAATCACATTTTAACC-CTAAACTTTTCTAAAATCATATTTTAACCCT
* * * * *
47618168 CTAAATTTTTCCAAAATTACATTTTGGACCC-AAACTTTTCAAAAATCATATTTTATCCCT
1 C-AAACTTTT-CAAAATCACATTTT-AACCCTAAACTTTTCTAAAATCATATTTTAACCCT
* * *
47618228 TAAACTTTTCTAAAATTACATTTTAACTCCTAAACTTTTCCAAAATCATATTTTAACCC-
1 CAAACTTTTC-AAAATCACATTTTAAC-CCTAAACTTTTCTAAAATCATATTTTAACCCT
* * * *
47618287 CTAAACTTTTTC-AAATCATATTTTAACCCATAAACTTTTCCAAAATTATAGTTTTGACCCCT
1 C-AAAC-TTTTCAAAATCACATTTTAACCC-TAAACTTTTCTAAAATCATA-TTTT-AACCCT
* * *
47618349 AAAACTTTTCCAAAATCATATTTTAACACTAAACTTTTCTAAAATCATATTTTAACCCT
1 CAAACTTTT-CAAAATCACATTTTAACCCTAAACTTTTCTAAAATCATATTTTAACCCT
*
47618408 CAAACTTTTCAAAATCACATTTTGACCCT
1 CAAACTTTTCAAAATCACATTTTAACCCT
47618437 CGAACTTCTG
Statistics
Matches: 227, Mismatches: 27, Indels: 31
0.80 0.09 0.11
Matches are distributed among these distances:
58 22 0.10
59 94 0.41
60 60 0.26
61 35 0.15
62 16 0.07
ACGTcount: A:0.37, C:0.23, G:0.02, T:0.39
Consensus pattern (58 bp):
CAAACTTTTCAAAATCACATTTTAACCCTAAACTTTTCTAAAATCATATTTTAACCCT
Found at i:47623229 original size:17 final size:17
Alignment explanation
Indices: 47623207--47623286 Score: 106
Period size: 17 Copynumber: 4.6 Consensus size: 17
47623197 TAAATCTAAC
*
47623207 TTTTAATTTTAAATTTA
1 TTTTAAGTTTAAATTTA
*
47623224 TTTTAAGTTTAAATTTG
1 TTTTAAGTTTAAATTTA
*
47623241 TTTTAAATTTAAATTTA
1 TTTTAAGTTTAAATTTA
*
47623258 TTTTAAGTTTAAGTTTAA
1 TTTTAAGTTTAAATTT-A
*
47623276 ATTTAAGTTTA
1 TTTTAAGTTTA
47623287 TTTTAAATTT
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
17 44 0.80
18 11 0.20
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (17 bp):
TTTTAAGTTTAAATTTA
Found at i:47623291 original size:17 final size:17
Alignment explanation
Indices: 47623207--47623299 Score: 97
Period size: 17 Copynumber: 5.8 Consensus size: 17
47623197 TAAATCTAAC
*
47623207 TTTTAATTTTAAATTTA
1 TTTTAAATTTAAATTTA
* *
47623224 TTTTAAGTTTAAATTTG
1 TTTTAAATTTAAATTTA
47623241 TTTTAAATTTAAATTTA
1 TTTTAAATTTAAATTTA
*
47623258 TTTTAAGTTT--A---A
1 TTTTAAATTTAAATTTA
* *
47623270 GTTTAAATTTAAGTTTA
1 TTTTAAATTTAAATTTA
47623287 TTTTAAATTTAAA
1 TTTTAAATTTAAA
47623300 ATTTGAAATG
Statistics
Matches: 61, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
12 9 0.15
15 1 0.02
17 51 0.84
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (17 bp):
TTTTAAATTTAAATTTA
Found at i:47623298 original size:23 final size:23
Alignment explanation
Indices: 47623225--47623340 Score: 101
Period size: 23 Copynumber: 5.0 Consensus size: 23
47623215 TTAAATTTAT
* *
47623225 TTTAAGTTTAAATTTGTTTTAAA
1 TTTAAATTTAAATTTATTTTAAA
* * *
47623248 TTTAAATTT-ATTTTAAGTTTAAG
1 TTTAAATTTAAATTT-ATTTTAAA
*
47623271 TTTAAATTTAAGTTTATTTTAAA
1 TTTAAATTTAAATTTATTTTAAA
*
47623294 TTTAAAATTTGAAA-TGATTTTAAA
1 TTT-AAATTT-AAATTTATTTTAAA
* * *
47623318 CTTAATTTTAAATTTAGTTTAAA
1 TTTAAATTTAAATTTATTTTAAA
47623341 AGTCCAAAAT
Statistics
Matches: 74, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
22 7 0.09
23 44 0.59
24 21 0.28
25 2 0.03
ACGTcount: A:0.39, C:0.01, G:0.07, T:0.53
Consensus pattern (23 bp):
TTTAAATTTAAATTTATTTTAAA
Found at i:47623333 original size:6 final size:6
Alignment explanation
Indices: 47623208--47623299 Score: 66
Period size: 6 Copynumber: 16.0 Consensus size: 6
47623198 AAATCTAACT
* * * **
47623208 TTTAAT TTTAAA TTT-AT TTTAAG TTTAAA TTT-GT TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * * * *
47623254 TTT-AT TTTAAG TTTAAG TTTAAA TTTAAG TTT-AT TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
47623300 ATTTGAAATG
Statistics
Matches: 68, Mismatches: 14, Indels: 8
0.76 0.16 0.09
Matches are distributed among these distances:
5 15 0.22
6 53 0.78
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (6 bp):
TTTAAA
Found at i:47623955 original size:24 final size:23
Alignment explanation
Indices: 47623918--47623962 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
47623908 TAAACATTTT
47623918 ATTATATTTAATTATTATATTAAA
1 ATTATATTTAATTATTA-ATTAAA
47623942 ATTATCATTT-ATTATTAATTA
1 ATTAT-ATTTAATTATTAATTA
47623963 TTTCAAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 4 0.20
24 12 0.60
25 4 0.20
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (23 bp):
ATTATATTTAATTATTAATTAAA
Found at i:47625099 original size:30 final size:28
Alignment explanation
Indices: 47625046--47625371 Score: 197
Period size: 30 Copynumber: 11.2 Consensus size: 28
47625036 AAAAGGTCTC
* * *
47625046 TAAACTGTTCAAAAATCATATTTTGACCCT
1 TAAACT-TTCTAAAATTACATTTT-ACCCT
*
47625076 TAAACTTTTCTAAAATTGCATTTTAACCCT
1 TAAAC-TTTCTAAAATTACATTTT-ACCCT
* *
47625106 CAAAC-ATCTAAAAATTACA-TTTACCCT
1 TAAACTTTCT-AAAATTACATTTTACCCT
*
47625133 CAAAC-TTCTTAAAAATTACATTTTTACCCT
1 TAAACTTTC-T-AAAATTACA-TTTTACCCT
* * *
47625163 CAAACTTATCAAAAATTACATTTTTGCCTCT
1 TAAACTT-TCTAAAATTACA-TTTTACC-CT
*
47625194 T-AACTTCTCAAAAATTACATTTTA-CCT
1 TAAACTT-TCTAAAATTACATTTTACCCT
* *
47625221 CTGAAC-TTCTAAAAATTACCA-TTTACCCC
1 -TAAACTTTCT-AAAATTA-CATTTTACCCT
47625250 TAAACTTTCTAAAATTACATTTTTA-CCT
1 TAAACTTTCTAAAATTACA-TTTTACCCT
* *
47625278 TCAAAC-TTCCAAAACTCACATTTTGACCCT
1 T-AAACTTTCTAAAA-TTACATTTT-ACCCT
* *
47625308 CAAACTTT-TCAAAATTATATTTTTA-CCT
1 TAAACTTTCT-AAAATTACA-TTTTACCCT
*
47625336 TCGAACTTTCTAAAAATTACCATTTTACCCT
1 T-AAACTTTCT-AAAATTA-CATTTTACCCT
47625367 TAAAC
1 TAAAC
47625372 ATCCAAAAAT
Statistics
Matches: 240, Mismatches: 29, Indels: 54
0.74 0.09 0.17
Matches are distributed among these distances:
27 18 0.08
28 59 0.25
29 50 0.21
30 102 0.43
31 9 0.04
32 2 0.01
ACGTcount: A:0.36, C:0.24, G:0.02, T:0.38
Consensus pattern (28 bp):
TAAACTTTCTAAAATTACATTTTACCCT
Found at i:47625126 original size:29 final size:28
Alignment explanation
Indices: 47625056--47625393 Score: 256
Period size: 29 Copynumber: 11.6 Consensus size: 28
47625046 TAAACTGTTC
* * *
47625056 AAAAATCATATTTTGACCCTTAAACTTTTCT
1 AAAAATTACATTTT-ACCCTCAAAC--TTCT
* *
47625087 -AAAATTGCATTTTAACCCTCAAACATCT
1 AAAAATTACATTTT-ACCCTCAAACTTCT
47625115 AAAAATTACA-TTTACCCTCAAACTTCTT
1 AAAAATTACATTTTACCCTCAAACTTC-T
*
47625143 AAAAATTACATTTTTACCCTCAAACTTAT
1 AAAAATTACA-TTTTACCCTCAAACTTCT
** *
47625172 CAAAAATTACATTTTTGCCTCTTAACTTCT
1 -AAAAATTACATTTTACCCTC-AAACTTCT
*
47625202 CAAAAATTACATTTTA-CCTCTGAACTTCT
1 -AAAAATTACATTTTACCCTC-AAACTTCT
47625231 AAAAATTACCA-TTTACCC-CTAAACTTTCT
1 AAAAATTA-CATTTTACCCTC-AAAC-TTCT
* *
47625260 -AAAATTACATTTTTACCTTCAAACTTCC
1 AAAAATTACA-TTTTACCCTCAAACTTCT
* * *
47625288 AAAACTCACATTTTGACCCTCAAACTTTT
1 AAAAATTACATTTT-ACCCTCAAACTTCT
* * * *
47625317 CAAAATTATATTTTTACCTTCGAACTTTCT
1 AAAAATTACA-TTTTACCCTCAAAC-TTCT
* * *
47625347 AAAAATTACCATTTTACCCTTAAACATCC
1 AAAAATTA-CATTTTACCCTCAAACTTCT
*
47625376 AAAAATTACCGTTTTACC
1 AAAAATTA-CATTTTACC
47625394 TCCGGGCATT
Statistics
Matches: 252, Mismatches: 38, Indels: 36
0.77 0.12 0.11
Matches are distributed among these distances:
27 14 0.06
28 48 0.19
29 98 0.39
30 91 0.36
31 1 0.00
ACGTcount: A:0.36, C:0.24, G:0.02, T:0.38
Consensus pattern (28 bp):
AAAAATTACATTTTACCCTCAAACTTCT
Found at i:47625347 original size:116 final size:115
Alignment explanation
Indices: 47625055--47625394 Score: 352
Period size: 116 Copynumber: 2.9 Consensus size: 115
47625045 CTAAACTGTT
* * * * * * *
47625055 CAAAAATCATATTTTGACCCTTAAACTTTTCTAAAATTGCATTTTAACCCTCAAACATCTAAAAA
1 CAAAAATCACATTTTGACCCTCAAACTTTTCAAAAATTACATTTTTA-CCTCGAACTTCTAAAAA
* *
47625120 TTA-CATTTA-CCCTCAAACTTCTTAAAAATTACATTTTTACCCTCAAACTTAT
65 TTACCATTTACCCCT-AAACTTC-T-AAAATTACATTTTTACCTTCAAACTTAC
* * *
47625172 CAAAAATTACATTTTTG--CCTCTTAACTTCTCAAAAATTACA-TTTTACCTCTGAACTTCTAAA
1 CAAAAATCACA-TTTTGACCCTC-AAACTTTTCAAAAATTACATTTTTACCTC-GAACTTCTAAA
47625234 AATTACCATTTACCCCTAAACTTTCTAAAATTACATTTTTACCTTCAAACTT-C
63 AATTACCATTTACCCCTAAAC-TTCTAAAATTACATTTTTACCTTCAAACTTAC
* *
47625287 CAAAACTCACATTTTGACCCTCAAACTTTTC-AAAATTATATTTTTACCTTCGAACTTTCTAAAA
1 CAAAAATCACATTTTGACCCTCAAACTTTTCAAAAATTACATTTTTACC-TCGAAC-TTCTAAAA
* * * **
47625351 ATTACCATTTTACCCTTAAACATCCAAAAATTACCGTTTTACCT
64 ATTACCA-TTTACCCCTAAAC-TTCTAAAATTACATTTTTACCT
47625395 CCGGGCATTC
Statistics
Matches: 188, Mismatches: 23, Indels: 24
0.80 0.10 0.10
Matches are distributed among these distances:
114 13 0.07
115 31 0.16
116 67 0.36
117 65 0.35
118 12 0.06
ACGTcount: A:0.36, C:0.24, G:0.02, T:0.38
Consensus pattern (115 bp):
CAAAAATCACATTTTGACCCTCAAACTTTTCAAAAATTACATTTTTACCTCGAACTTCTAAAAAT
TACCATTTACCCCTAAACTTCTAAAATTACATTTTTACCTTCAAACTTAC
Found at i:47625476 original size:29 final size:28
Alignment explanation
Indices: 47625083--47625477 Score: 187
Period size: 29 Copynumber: 13.6 Consensus size: 28
47625073 CCTTAAACTT
* * *
47625083 TTCT-AAAATTGCATTTTAACCCTCAAAC
1 TTCTAAAAATTACATTTTTACCC-CTAAC
* *
47625111 ATCTAAAAATTACA--TTTACCCTCAAAC
1 TTCTAAAAATTACATTTTTACCC-CTAAC
*
47625138 TTCTTAAAAATTACATTTTTACCCTCAAAC
1 TTC-TAAAAATTACATTTTTACCC-CTAAC
* * *
47625168 TTATCAAAAATTACATTTTTGCCTCTTAAC
1 TTCT-AAAAATTACATTTTTACC-CCTAAC
*
47625198 TTCTCAAAAATTACA-TTTTACCTCTGAAC
1 TTCT-AAAAATTACATTTTTACCCCT-AAC
47625227 TTCTAAAAATTACCA--TTTACCCCTAAAC
1 TTCTAAAAATTA-CATTTTTACCCCT-AAC
* *
47625255 TTTCT-AAAATTACATTTTTACCTTCAAAC
1 -TTCTAAAAATTACATTTTTACC-CCTAAC
* * * * *
47625284 TTCCAAAACTCACATTTTGACCCTCAAAC
1 TTCTAAAAATTACATTTTTACCC-CTAAC
* * * * *
47625313 TTTTCAAAATTATATTTTTACCTTCGAAC
1 TTCTAAAAATTACATTTTTACC-CCTAAC
*
47625342 TTTCTAAAAATTACCA-TTTTACCCTTAAAC
1 -TTCTAAAAATTA-CATTTTTACCCCT-AAC
* * ** ***
47625372 ATCCAAAAATTACCGTTTTACCTCCGGGC
1 TTCTAAAAATTACATTTTTACC-CCTAAC
* * * *
47625401 ATTCGAAAAA-TACATTTTTGTCCTCTAAGT
1 -TTCTAAAAATTACATTTTT-ACCCCTAA-C
* * * *
47625431 TTCCAAAGATGATATTTTTACCCCTAAC
1 TTCTAAAAATTACATTTTTACCCCTAAC
47625459 TTCTAAAAATTACCATTTT
1 TTCTAAAAATTA-CATTTT
47625478 GCCCTCGAGC
Statistics
Matches: 278, Mismatches: 64, Indels: 49
0.71 0.16 0.13
Matches are distributed among these distances:
27 16 0.06
28 54 0.19
29 119 0.43
30 87 0.31
31 2 0.01
ACGTcount: A:0.35, C:0.24, G:0.04, T:0.38
Consensus pattern (28 bp):
TTCTAAAAATTACATTTTTACCCCTAAC
Found at i:47626868 original size:85 final size:85
Alignment explanation
Indices: 47626725--47626894 Score: 340
Period size: 85 Copynumber: 2.0 Consensus size: 85
47626715 GTGCAGTCAG
47626725 CTAAACTTGACTGAAGAAAAGATACTAAAGTCATCTATCATGATCAGATGATAAGAGCTTACGAC
1 CTAAACTTGACTGAAGAAAAGATACTAAAGTCATCTATCATGATCAGATGATAAGAGCTTACGAC
47626790 AAAGGAAGATCCACTCAAGA
66 AAAGGAAGATCCACTCAAGA
47626810 CTAAACTTGACTGAAGAAAAGATACTAAAGTCATCTATCATGATCAGATGATAAGAGCTTACGAC
1 CTAAACTTGACTGAAGAAAAGATACTAAAGTCATCTATCATGATCAGATGATAAGAGCTTACGAC
47626875 AAAGGAAGATCCACTCAAGA
66 AAAGGAAGATCCACTCAAGA
47626895 GAATTCTATG
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 85 1.00
ACGTcount: A:0.44, C:0.18, G:0.18, T:0.21
Consensus pattern (85 bp):
CTAAACTTGACTGAAGAAAAGATACTAAAGTCATCTATCATGATCAGATGATAAGAGCTTACGAC
AAAGGAAGATCCACTCAAGA
Found at i:47628139 original size:49 final size:48
Alignment explanation
Indices: 47628019--47628680 Score: 416
Period size: 49 Copynumber: 13.5 Consensus size: 48
47628009 TAGGTTTCAT
* * * * *
47628019 TACCACGAAGATATGGAGGGAAAGGTTTAAGTCACAACGACGAAACTTA-
1 TACCACGAAGATAT-GAAGGAAAGATTTAAGTCGCAACGGCGAATC-TAG
* * * * * * * *
47628068 CACCTCAAAAACATGAAGGGAAAGGTTTAAGCCGTAACGGCGAATCTAG
1 TACCACGAAGATATGAA-GGAAAGATTTAAGTCGCAACGGCGAATCTAG
* * * *
47628117 TACCACGAAGATATGGAAGGAAAGGTTTAAGTCGCAATGGCGAACCTTG
1 TACCACGAAGATAT-GAAGGAAAGATTTAAGTCGCAACGGCGAATCTAG
* * ** **
47628166 TACCTCAGAAGCATA--AAGAGAAAGATGTAACCCGCAACGATGAATCTAG
1 TACCAC-GAAG-ATATGAAG-GAAAGATTTAAGTCGCAACGGCGAATCTAG
* * * * *
47628215 TACCACAAAGATATGGAGGGAAATG-TTTAAGTCGCAACGGTGAACCTTG
1 TACCACGAAGATAT-GAAGGAAA-GATTTAAGTCGCAACGGCGAATCTAG
** *
47628264 TACCTTGGAAG-CATGAAGGGAAAGATTTAAGTCGCAACGGCGAATCTAG
1 TACC-ACGAAGATATGAA-GGAAAGATTTAAGTCGCAACGGCGAATCTAG
* * * * *
47628313 TACCACGAAGATATAGAGGGAAATG-TTTAAGTTGCAACGACGAACCTTG
1 TACCACGAAGATAT-GAAGGAAA-GATTTAAGTCGCAACGGCGAATCTAG
* * * *
47628362 TACCTCAGAAG-CATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAG
1 TACCAC-GAAGATATGAA-GGAAAGATTTAAGTCGCAACGGCGAATCTAG
* * * * * * *
47628411 TACCAC-AAGGATATGGAGAGAAAGGTTTAAGTCGTAACAGTGAACCTTG
1 TACCACGAA-GATATGAAG-GAAAGATTTAAGTCGCAACGGCGAATCTAG
* *
47628460 TA-CATCGAA-AGCATGAAGGGAAAGATTTAAGTCGCAACGGCAAATCTAG
1 TACCA-CGAAGA-TATGAA-GGAAAGATTTAAGTCGCAACGGCGAATCTAG
* * * *
47628509 TACCACGAAGATATGGAGGGAAAAATTTAAGTCGCAACGGCGAACCTTG
1 TACCACGAAGATAT-GAAGGAAAGATTTAAGTCGCAACGGCGAATCTAG
* ** *
47628558 TACTTCA-GAAG-CATGAAGGGAAAAGATTTAAG-CTGCAACGATGAATCCAG
1 TAC--CACGAAGATATGAA-GG-AAAGATTTAAGTC-GCAACGGCGAATCTAG
* *
47628608 TAGCACGAAGATATGAAGGGAAAGATTTAAG-CTGCAACGGCGAATCCAG
1 TACCACGAAGATATGAA-GGAAAGATTTAAGTC-GCAACGGCGAATCTAG
* *
47628657 TACCACAAAGATATGGAGGGAAAG
1 TACCACGAAGATAT-GAAGGAAAG
47628681 GTTATGATCG
Statistics
Matches: 470, Mismatches: 106, Indels: 74
0.72 0.16 0.11
Matches are distributed among these distances:
47 5 0.01
48 29 0.06
49 366 0.78
50 65 0.14
51 5 0.01
ACGTcount: A:0.38, C:0.17, G:0.26, T:0.19
Consensus pattern (48 bp):
TACCACGAAGATATGAAGGAAAGATTTAAGTCGCAACGGCGAATCTAG
Found at i:47628189 original size:98 final size:98
Alignment explanation
Indices: 47628019--47628651 Score: 804
Period size: 98 Copynumber: 6.4 Consensus size: 98
47628009 TAGGTTTCAT
* * * ** * *
47628019 TACCACGAAGATATGGAGGGAAAGGTTTAAGTCACAACGACGAAACTTACACCTCAAAAACATGA
1 TACCACGAAGATATGGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGCATGA
* *
47628084 AGGGAAAGGTTTAAGCCGTAACGGCGAATCTAG
66 AGGGAAAGATTTAAGCCGCAACGGCGAATCTAG
* * *
47628117 TACCACGAAGATATGGAAGGAAAGGTTTAAGTCGCAATGGCGAACCTTGTACCTCAGAAGCATAA
1 TACCACGAAGATATGGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGCATGA
* * * **
47628182 AGAGAAAGATGTAACCCGCAACGATGAATCTAG
66 AGGGAAAGATTTAAGCCGCAACGGCGAATCTAG
* * * **
47628215 TACCACAAAGATATGGAGGGAAATGTTTAAGTCGCAACGGTGAACCTTGTACCTTGGAAGCATGA
1 TACCACGAAGATATGGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGCATGA
*
47628280 AGGGAAAGATTTAAGTCGCAACGGCGAATCTAG
66 AGGGAAAGATTTAAGCCGCAACGGCGAATCTAG
* * * *
47628313 TACCACGAAGATATAGAGGGAAATGTTTAAGTTGCAACGACGAACCTTGTACCTCAGAAGCATGA
1 TACCACGAAGATATGGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGCATGA
*
47628378 AGGGAAAGATTTAAGCCGCAACGGCGAATCCAG
66 AGGGAAAGATTTAAGCCGCAACGGCGAATCTAG
* * * * *
47628411 TACCAC-AAGGATATGGAGAGAAAGGTTTAAGTCGTAACAGTGAACCTTGTACATC-GAAAGCAT
1 TACCACGAA-GATATGGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAG-AAGCAT
* *
47628474 GAAGGGAAAGATTTAAGTCGCAACGGCAAATCTAG
64 GAAGGGAAAGATTTAAGCCGCAACGGCGAATCTAG
** *
47628509 TACCACGAAGATATGGAGGGAAAAATTTAAGTCGCAACGGCGAACCTTGTACTTCAGAAGCATGA
1 TACCACGAAGATATGGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGCATGA
* ** *
47628574 AGGGAAAAGATTTAAGCTGCAACGATGAATCCAG
66 AGGG-AAAGATTTAAGCCGCAACGGCGAATCTAG
* * *
47628608 TAGCACGAAGATATGAAGGGAAAGATTTAAG-CTGCAACGGCGAA
1 TACCACGAAGATATGGAGGGAAAGGTTTAAGTC-GCAACGGCGAA
47628652 TCCAGTACCA
Statistics
Matches: 461, Mismatches: 68, Indels: 11
0.85 0.13 0.02
Matches are distributed among these distances:
97 3 0.01
98 393 0.85
99 65 0.14
ACGTcount: A:0.38, C:0.17, G:0.26, T:0.19
Consensus pattern (98 bp):
TACCACGAAGATATGGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGCATGA
AGGGAAAGATTTAAGCCGCAACGGCGAATCTAG
Found at i:47629027 original size:45 final size:46
Alignment explanation
Indices: 47628960--47629062 Score: 138
Period size: 46 Copynumber: 2.3 Consensus size: 46
47628950 TCCGATCATG
* * * * *
47628960 GGGCATATTGAAGCCACCATCCAATC-TTTACCCCTAAGTCAA-GA
1 GGGCAAATTGAAACCACAATCCAATCTTTTACCCCTAAATCAATAA
47629004 GGAGCAAATTGAAACCACAATCCAATCTTTTACCCCTAAATCAATAA
1 GG-GCAAATTGAAACCACAATCCAATCTTTTACCCCTAAATCAATAA
47629051 GGGCAAATTGAA
1 GGGCAAATTGAA
47629063 GTTAACATCT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
44 2 0.04
45 21 0.41
46 25 0.49
47 3 0.06
ACGTcount: A:0.38, C:0.25, G:0.15, T:0.22
Consensus pattern (46 bp):
GGGCAAATTGAAACCACAATCCAATCTTTTACCCCTAAATCAATAA
Found at i:47629941 original size:11 final size:11
Alignment explanation
Indices: 47629925--47629960 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
47629915 TTTACCCATG
47629925 AAAAATACAAA
1 AAAAATACAAA
47629936 AAAAATACAAA
1 AAAAATACAAA
**
47629947 ATCAATACAAA
1 AAAAATACAAA
47629958 AAA
1 AAA
47629961 GGAGCATTGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.78, C:0.11, G:0.00, T:0.11
Consensus pattern (11 bp):
AAAAATACAAA
Found at i:47631156 original size:59 final size:59
Alignment explanation
Indices: 47630991--47631193 Score: 284
Period size: 59 Copynumber: 3.5 Consensus size: 59
47630981 CTTAAGAGGT
* * *
47630991 CCCCAAACTTTTCTAAAATTATATGTTAACCCCTAAACTTTTCCAAAATCACATTTTGA
1 CCCCAAACTTTTCCAAAATTACATTTTAACCCCTAAACTTTTCCAAAATCACATTTTGA
* * * *
47631050 CCCCAAACTTTTCC-AAATCT-TATTTTGACCCCTAAACTTTTCCAAAATTACATTTTAA
1 CCCCAAACTTTTCCAAAAT-TACATTTTAACCCCTAAACTTTTCCAAAATCACATTTTGA
* *
47631108 CCCCAAACTTTTCCAAAATTACATTTTAACCCCCAAACTTTTCCAAAATCATATTTTGA
1 CCCCAAACTTTTCCAAAATTACATTTTAACCCCTAAACTTTTCCAAAATCACATTTTGA
* *
47631167 CCCCAAACTTTTTCAAAATCACATTTT
1 CCCCAAACTTTTCCAAAATTACATTTT
47631194 GTCCCTCGAA
Statistics
Matches: 128, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
58 53 0.41
59 75 0.59
ACGTcount: A:0.34, C:0.28, G:0.02, T:0.36
Consensus pattern (59 bp):
CCCCAAACTTTTCCAAAATTACATTTTAACCCCTAAACTTTTCCAAAATCACATTTTGA
Found at i:47631206 original size:30 final size:29
Alignment explanation
Indices: 47630991--47631194 Score: 257
Period size: 29 Copynumber: 7.0 Consensus size: 29
47630981 CTTAAGAGGT
* * * * *
47630991 CCCCAAACTTTTCTAAAATTATATGTTAA
1 CCCCAAACTTTTCCAAAATCACATTTTGA
47631020 CCCCTAAACTTTTCCAAAATCACATTTTGA
1 CCCC-AAACTTTTCCAAAATCACATTTTGA
**
47631050 CCCCAAACTTTTCC-AAATCTTATTTTGA
1 CCCCAAACTTTTCCAAAATCACATTTTGA
* *
47631078 CCCCTAAACTTTTCCAAAATTACATTTTAA
1 CCCC-AAACTTTTCCAAAATCACATTTTGA
* *
47631108 CCCCAAACTTTTCCAAAATTACATTTTAA
1 CCCCAAACTTTTCCAAAATCACATTTTGA
*
47631137 CCCCCAAACTTTTCCAAAATCATATTTTGA
1 -CCCCAAACTTTTCCAAAATCACATTTTGA
*
47631167 CCCCAAACTTTTTCAAAATCACATTTTG
1 CCCCAAACTTTTCCAAAATCACATTTTG
47631195 TCCCTCGAAC
Statistics
Matches: 155, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
28 16 0.10
29 75 0.48
30 64 0.41
ACGTcount: A:0.34, C:0.27, G:0.02, T:0.36
Consensus pattern (29 bp):
CCCCAAACTTTTCCAAAATCACATTTTGA
Found at i:47631223 original size:59 final size:58
Alignment explanation
Indices: 47630991--47631223 Score: 220
Period size: 59 Copynumber: 4.0 Consensus size: 58
47630981 CTTAAGAGGT
* * * * **
47630991 CCCCAAAC-TTTTCTAAAATTATATGTTAACCCCTAAACTTTTCCAAAATCACATTTTGA
1 CCCCAAACTTTTTC-AAAATCACATTTTGACCCC-AAACTTTTCCAAAATTTCATTTTGA
* ** * *
47631050 CCCCAAAC-TTTTCCAAATCTTATTTTGACCCCTAAACTTTTCCAAAATTACATTTTAA
1 CCCCAAACTTTTTCAAAATCACATTTTGACCCC-AAACTTTTCCAAAATTTCATTTTGA
* * * *
47631108 CCCCAAACTTTTCCAAAATTACATTTTAACCCCCAAACTTTTCCAAAATCAT-ATTTTGA
1 CCCCAAACTTTTTCAAAATCACATTTTGA-CCCCAAACTTTTCCAAAAT-TTCATTTTGA
* * * *
47631167 CCCCAAACTTTTTCAAAATCACATTTTGTCCCTCGAACTTCTCTAAAATTTCATTTT
1 CCCCAAACTTTTTCAAAATCACATTTTGACCC-CAAACTTTTCCAAAATTTCATTTT
47631224 CATCCCGAGT
Statistics
Matches: 145, Mismatches: 24, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
58 50 0.34
59 91 0.63
60 4 0.03
ACGTcount: A:0.33, C:0.27, G:0.03, T:0.37
Consensus pattern (58 bp):
CCCCAAACTTTTTCAAAATCACATTTTGACCCCAAACTTTTCCAAAATTTCATTTTGA
Found at i:47636269 original size:20 final size:19
Alignment explanation
Indices: 47636221--47636282 Score: 63
Period size: 20 Copynumber: 3.2 Consensus size: 19
47636211 CTCCCATATA
*
47636221 CACCCTAAAA-AACAAAACT
1 CACCCAAAAATAACAAAA-T
** *
47636240 CAAACAAAAATACCATAAAT
1 CACCCAAAAATAACA-AAAT
47636260 CACCCAAAAATAACAAAAT
1 CACCCAAAAATAACAAAAT
47636279 CACC
1 CACC
47636283 ACCATGCTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
19 15 0.44
20 16 0.47
21 3 0.09
ACGTcount: A:0.60, C:0.29, G:0.00, T:0.11
Consensus pattern (19 bp):
CACCCAAAAATAACAAAAT
Found at i:47641619 original size:60 final size:60
Alignment explanation
Indices: 47641540--47641657 Score: 157
Period size: 60 Copynumber: 2.0 Consensus size: 60
47641530 CTTCAATTCG
* * **
47641540 CATTTGATACTCACGATGACATGGAGTCATCAAACCT-TTAATCCGTAATAGGATTCATTT
1 CATTTAATACTCACAATGACACAGAGTCATCAAACCTCTTAATCCGTAA-AGGATTCATTT
* * *
47641600 CATTTAATACTTACAATGACACATAGTCATCAGACCTCTTAATCCGTAAAGGATTCAT
1 CATTTAATACTCACAATGACACAGAGTCATCAAACCTCTTAATCCGTAAAGGATTCAT
47641658 ATACCCACGA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
60 39 0.78
61 11 0.22
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (60 bp):
CATTTAATACTCACAATGACACAGAGTCATCAAACCTCTTAATCCGTAAAGGATTCATTT
Found at i:47641695 original size:52 final size:52
Alignment explanation
Indices: 47641606--47641896 Score: 411
Period size: 52 Copynumber: 5.6 Consensus size: 52
47641596 ATTTCATTTA
* * *
47641606 ATACTTACAATGACACATAGTCATCAGACCTCTTAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
* * * *
47641658 ATACCCACGATGACACATAGTTATCGGAGCTCATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
** * * *
47641710 ATACTCACGATCTCACATAGTCATCAAACCTCATAATCAGTAAAGAATTCAT
1 ATACTCACGATGACACATAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
* *
47641762 ATACTCACGATGACACATAGTCATCAGACCTCATAATTCGTAAAGAATTCAT
1 ATACTCACGATGACACATAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
* * *
47641814 ATACTCATGATGACACATAGTCATCGGACCTCATAATACGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
* *
47641866 ATACTTATGATGACACATAGTCATCAGACCT
1 ATACTCACGATGACACATAGTCATCAGACCT
47641897 TTTTCATTTA
Statistics
Matches: 212, Mismatches: 27, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 212 1.00
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
Found at i:47644054 original size:138 final size:139
Alignment explanation
Indices: 47643785--47644046 Score: 372
Period size: 138 Copynumber: 1.9 Consensus size: 139
47643775 ATTTTTTGTT
* * *
47643785 TTTTTATTATTTTTACCTAAAATTTGAATTTCTTTTTAATTTAGTTTGTAAACCTTTTTTTCTTT
1 TTTTTATTATTTTTACCTAAAATTTGAATTTCTTTTTAATTCAATCTGTAAACCTTTTTTTCTTT
* *
47643850 TAATTTCACCCCATTTATTTTCTAATTTTACAAATTAAGCTCCCGAGCTCTTCAAAAATACGATT
66 TAATTCCACCCCATTTATTTTCTAATTTTACAAATTAAGCTCCCGAACTCTTCAAAAATACGATT
47643915 TTGACCTTG
131 TTGACCTTG
*
47643924 TTTTTCTT-TTTTTACCTAAAATTT-AATTTCCTTTTTAATTCAATCCT-TAAACCTTTTTTTCT
1 TTTTTATTATTTTTACCTAAAATTTGAATTT-CTTTTTAATTCAAT-CTGTAAACCTTTTTTTCT
* * *
47643986 TTTAATTCCACCTCATTTATTTT-TCGATTTTACAAATTAGGC-CCTCGAACTCTTCAAAAAT
64 TTTAATTCCACCCCATTTATTTTCT-AATTTTACAAATTAAGCTCC-CGAACTCTTCAAAAAT
47644047 TTTATTTTTG
Statistics
Matches: 110, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
137 8 0.07
138 94 0.85
139 8 0.07
ACGTcount: A:0.26, C:0.18, G:0.05, T:0.50
Consensus pattern (139 bp):
TTTTTATTATTTTTACCTAAAATTTGAATTTCTTTTTAATTCAATCTGTAAACCTTTTTTTCTTT
TAATTCCACCCCATTTATTTTCTAATTTTACAAATTAAGCTCCCGAACTCTTCAAAAATACGATT
TTGACCTTG
Found at i:47644087 original size:138 final size:139
Alignment explanation
Indices: 47643785--47644092 Score: 333
Period size: 138 Copynumber: 2.2 Consensus size: 139
47643775 ATTTTTTGTT
* * * * * *
47643785 TTTTTATTATTTTTACCTAAAATTTGAATTT-CTTTTTAATTTAGT-TTGTAAACCTTTTTTTCT
1 TTTTTATT-TTTTAAACTAAAATTTAAATTTCCTTTTTAATTCAATCCT-TAAACCTTTTTTTCT
* *
47643848 TTTAATTTCACCCCATTTATTTTCTAATTTTACAAATTAAGCTCCCGAGCTCTTCAAAAATACGA
64 TTTAATTCCACCCCATTTATTTTCTAATTTTACAAATTAAGCTCCCGAACTCTTCAAAAATACGA
*
47643913 TTTTGACCTTG
129 TTTTGACCCTG
* * *
47643924 TTTTTCTTTTTTTACCTAAAATTT-AATTTCCTTTTTAATTCAATCCTTAAACCTTTTTTTCTTT
1 TTTTTATTTTTTAAACTAAAATTTAAATTTCCTTTTTAATTCAATCCTTAAACCTTTTTTTCTTT
* * * ***
47643988 TAATTCCACCTCATTTATTTT-TCGATTTTACAAATTAGGC-CCTCGAACTCTTCAAAAATTTTA
66 TAATTCCACCCCATTTATTTTCT-AATTTTACAAATTAAGCTCC-CGAACTCTTCAAAAATACGA
47644051 TTTTTG-CCCT-
129 -TTTTGACCCTG
* *
47644061 TTTTTATTTTTTAAACTAGTACTTTAAATTTC
1 TTTTTATTTTTTAAACTA-AAATTTAAATTTC
47644093 AATTTTGTCG
Statistics
Matches: 144, Mismatches: 18, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
137 23 0.16
138 102 0.71
139 19 0.13
ACGTcount: A:0.26, C:0.18, G:0.05, T:0.52
Consensus pattern (139 bp):
TTTTTATTTTTTAAACTAAAATTTAAATTTCCTTTTTAATTCAATCCTTAAACCTTTTTTTCTTT
TAATTCCACCCCATTTATTTTCTAATTTTACAAATTAAGCTCCCGAACTCTTCAAAAATACGATT
TTGACCCTG
Found at i:47651214 original size:19 final size:19
Alignment explanation
Indices: 47651192--47651228 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
47651182 CAAGATACTT
47651192 GCAAACCCATCAGATTTAG
1 GCAAACCCATCAGATTTAG
47651211 GCAAACCCATCAGATTTA
1 GCAAACCCATCAGATTTA
47651229 ATCCATGGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.27, G:0.14, T:0.22
Consensus pattern (19 bp):
GCAAACCCATCAGATTTAG
Found at i:47679431 original size:16 final size:17
Alignment explanation
Indices: 47679399--47679433 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
47679389 AACAAAAGAT
*
47679399 AAGAAACAAATAACTTA
1 AAGAAACAAACAACTTA
47679416 AAGAAA-AAACAACTTA
1 AAGAAACAAACAACTTA
47679432 AA
1 AA
47679434 ATAAGAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.69, C:0.11, G:0.06, T:0.14
Consensus pattern (17 bp):
AAGAAACAAACAACTTA
Found at i:47683717 original size:19 final size:19
Alignment explanation
Indices: 47683678--47683731 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 19
47683668 ATTACAAAAT
* *
47683678 AATTCAAAATATTTTTTAA
1 AATTCAAAATATTTATAAA
47683697 AATTCAAAATATTTATAAA
1 AATTCAAAATATTTATAAA
* *
47683716 AATACTAAA-ATTTATA
1 AATTCAAAATATTTATA
47683732 TATTTTAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
18 7 0.23
19 24 0.77
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.41
Consensus pattern (19 bp):
AATTCAAAATATTTATAAA
Found at i:47691728 original size:29 final size:30
Alignment explanation
Indices: 47691336--47691878 Score: 140
Period size: 29 Copynumber: 18.5 Consensus size: 30
47691326 GTCCGGAGGC
* * * *
47691336 AAAATGGTAA-TTTTGAACACTTTGGGGGC
1 AAAATGGTAATTTTTGGACAGTTCGGGGGT
* **
47691365 AAAATGGTAATTTTTGGACA-CTCGAGGGCA
1 AAAATGGTAATTTTTGGACAGTTCG-GGGGT
** *
47691395 AAAAT-GTAATTTTTTAAACA-TTCGAGGGT
1 AAAATGGTAA-TTTTTGGACAGTTCGGGGGT
** *
47691424 AAAATGGTGGTTTTTGAGA-ATTTC-GGGGT
1 AAAATGGTAATTTTTG-GACAGTTCGGGGGT
*
47691453 CAAAAAT-GAAATTTTTGGACA-TTCGGGGGT
1 --AAAATGGTAATTTTTGGACAGTTCGGGGGT
* * * * ** *
47691483 AAAATGATAATTTTTGAAGATTTCAAGGTT
1 AAAATGGTAATTTTTGGACAGTTCGGGGGT
* * * *
47691513 AAAAATGG-AATTTTTTGATA-TTTGAGGGT
1 -AAAATGGTAATTTTTGGACAGTTCGGGGGT
** * ***
47691542 AAAATGGTAA-TTTTCAAAAGTTTTAGGGT
1 AAAATGGTAATTTTTGGACAGTTCGGGGGT
* *
47691571 CAAAAATGG-AATTTTAGGATA--TCTGGGGGT
1 --AAAATGGTAATTTTTGGACAGTTC-GGGGGT
** * ***
47691601 AAAATGGTAA-TTTTCAAAAGTTTAAGGGT
1 AAAATGGTAATTTTTGGACAGTTCGGGGGT
* **
47691630 CAAAATGG-AA-TTTTGAACA-TTCAAGGGT
1 -AAAATGGTAATTTTTGGACAGTTCGGGGGT
* * * * *
47691658 AAAACGATAATATTTGGA-AGTTTCGAGGTT
1 AAAATGGTAATTTTTGGACAG-TTCGGGGGT
*
47691688 AAAAATTG-AATTTTTGGACA-TTCGGGGGT
1 -AAAATGGTAATTTTTGGACAGTTCGGGGGT
**
47691717 AAAATGGTAATTTTTGGA-AGTTTTGGGGT
1 AAAATGGTAATTTTTGGACAGTTCGGGGGT
* *
47691746 CAAAAATGG-AATTTTTAGA-AGTTCGGGGTT
1 --AAAATGGTAATTTTTGGACAGTTCGGGGGT
* * *
47691776 AAAAAT-ATAATTTTTGGAAAGTT-GAGGGGG
1 -AAAATGGTAATTTTTGGACAGTTCG-GGGGT
* * * *
47691806 GAAAT-GTAGTTTTTGTGA-AGTTTGAGGGTT
1 AAAATGGTAATTTTTG-GACAGTTCG-GGGGT
* **
47691836 AAAA-AGTAATTTTTGGA-AGTTTAGGGGT
1 AAAATGGTAATTTTTGGACAGTTCGGGGGT
47691864 AAAAAT-GTAATTTTT
1 -AAAATGGTAATTTTT
47691879 CTAAAGTTTA
Statistics
Matches: 387, Mismatches: 86, Indels: 82
0.70 0.15 0.15
Matches are distributed among these distances:
27 5 0.01
28 52 0.13
29 161 0.42
30 134 0.35
31 35 0.09
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.35
Consensus pattern (30 bp):
AAAATGGTAATTTTTGGACAGTTCGGGGGT
Found at i:47691771 original size:59 final size:58
Alignment explanation
Indices: 47691359--47691794 Score: 323
Period size: 59 Copynumber: 7.4 Consensus size: 58
47691349 TGAACACTTT
* * * *
47691359 GGGGGCAAAATGGTAATTTTTGGACA--CTCGAGGG-CAAAAATGTAATTTTTTAAACATTC
1 GGGGGTAAAATGGTAATTTTTGGA-AGTTTCG-GGGTCAAAAATGGAA-TTTTTAGA-ATTC
* ** * *
47691418 GAGGGTAAAATGGTGGTTTTTGAGAA-TTTCGGGGTCAAAAATGAAATTTTTGGACATTC
1 GGGGGTAAAATGGTAATTTTTG-GAAGTTTCGGGGTCAAAAATGGAATTTTTAGA-ATTC
* ** * * *
47691477 GGGGGTAAAATGATAATTTTT-GAAGATTTCAAGGTTAAAAATGGAATTTTTTGATATTT
1 GGGGGTAAAATGGTAATTTTTGGAAG-TTTCGGGGTCAAAAATGGAATTTTTAGA-ATTC
* *** ** *
47691536 GAGGGTAAAATGGTAATTTTCAAAAGTTTTAGGGTCAAAAATGGAA-TTTTAGGATATC
1 GGGGGTAAAATGGTAATTTTTGGAAGTTTCGGGGTCAAAAATGGAATTTTTAGAAT-TC
*** ** *
47691594 TGGGGGTAAAATGGTAATTTTCAAAAGTTTAAGGGTC-AAAATGGAATTTTGA-ACATTC
1 -GGGGGTAAAATGGTAATTTTTGGAAGTTTCGGGGTCAAAAATGGAATTTTTAGA-ATTC
** * * * * * * *
47691652 AAGGGTAAAACGATAATATTTGGAAGTTTCGAGGTTAAAAATTGAATTTTTGGACATTC
1 GGGGGTAAAATGGTAATTTTTGGAAGTTTCGGGGTCAAAAATGGAATTTTTAGA-ATTC
*
47691711 GGGGGTAAAATGGTAATTTTTGGAAGTTTTGGGGTCAAAAATGGAATTTTTAGAAGTTC
1 GGGGGTAAAATGGTAATTTTTGGAAGTTTCGGGGTCAAAAATGGAATTTTTAGAA-TTC
* *
47691770 GGGGTTAAAAAT-ATAATTTTTGGAA
1 GGGGGT-AAAATGGTAATTTTTGGAA
47691795 AGTTGAGGGG
Statistics
Matches: 303, Mismatches: 60, Indels: 28
0.77 0.15 0.07
Matches are distributed among these distances:
57 29 0.10
58 30 0.10
59 221 0.73
60 23 0.08
ACGTcount: A:0.35, C:0.06, G:0.25, T:0.34
Consensus pattern (58 bp):
GGGGGTAAAATGGTAATTTTTGGAAGTTTCGGGGTCAAAAATGGAATTTTTAGAATTC
Found at i:47691778 original size:88 final size:89
Alignment explanation
Indices: 47691674--47691908 Score: 234
Period size: 88 Copynumber: 2.7 Consensus size: 89
47691664 ATAATATTTG
* * *
47691674 GAAGTTTCGAGGTTAAAAATTGAATTTTTGGACA-TTCG-GGGGTAAAATGGTAATTTTTG-GAA
1 GAAGTTTCGGGGTTAAAAATTGAATTTTTGGAAAGTT-GAGGGGGAAAAT-GTAATTTTTGTGAA
47691736 GTTTTG-GGGTCAAAAATGGAATTTTTA
64 G-TTTGAGGGTCAAAAA-GGAATTTTTA
* *
47691763 GAAG-TTCGGGGTTAAAAATAT-AATTTTTGGAAAGTTGAGGGGGGAAATGTAGTTTTTGTGAAG
1 GAAGTTTCGGGGTTAAAAAT-TGAATTTTTGGAAAGTTGAGGGGGAAAATGTAATTTTTGTGAAG
* * *
47691826 TTTGAGGGTTAAAAAGTAATTTTTG
65 TTTGAGGGTCAAAAAGGAATTTTTA
* ** * **
47691851 GAAGTTTAGGGG-TAAAAA-TGTAATTTTTCTAAAGTTTAGGGTCAAAATGTAATTTTTG
1 GAAGTTTCGGGGTTAAAAATTG-AATTTTTGGAAAGTTGAGGGGGAAAATGTAATTTTTG
47691909 AAAACTTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 17
0.79 0.10 0.11
Matches are distributed among these distances:
86 1 0.01
88 87 0.71
89 34 0.28
ACGTcount: A:0.32, C:0.03, G:0.27, T:0.37
Consensus pattern (89 bp):
GAAGTTTCGGGGTTAAAAATTGAATTTTTGGAAAGTTGAGGGGGAAAATGTAATTTTTGTGAAGT
TTGAGGGTCAAAAAGGAATTTTTA
Found at i:47691789 original size:175 final size:177
Alignment explanation
Indices: 47691449--47691789 Score: 433
Period size: 175 Copynumber: 1.9 Consensus size: 177
47691439 GAGAATTTCG
* ** * *
47691449 GGGTCAAAAATGAAATTTTTGGACATTCGGGGGTAAAATGATAATTTTTGAAGATTTCAAGGTTA
1 GGGTCAAAAATGAAATTTTTGAACATTCAAGGGTAAAACGATAATTTTGGAAGATTTCAAGGTTA
* * *
47691514 AAAATGGAATTTTTTGATATTTGAGGGTAAAATGGTAATTTTCAAAAGTTTTAGGGTCAAAAATG
66 AAAATGGAATTTTTGGACATTCGAGGGTAAAATGGTAATTTTCAAAAGTTTTAGGGTCAAAAATG
* *
47691579 GAATTTTAGGATATCTGGGGGTAAAATGGTAATTTTCAAAAGTTTAA
131 GAATTTTAGAATATCTGGGGGTAAAATGATAATTTTCAAAAGTTTAA
* *
47691626 GGGTC-AAAATGGAA-TTTTGAACATTCAAGGGTAAAACGATAATATTTGGAAG-TTTCGAGGTT
1 GGGTCAAAAATGAAATTTTTGAACATTCAAGGGTAAAACGATAAT-TTTGGAAGATTTCAAGGTT
* * *** *
47691688 AAAAATTGAATTTTTGGACATTCGGGGGTAAAATGGTAATTTTTGGAAGTTTTGGGGTCAAAAAT
65 AAAAATGGAATTTTTGGACATTCGAGGGTAAAATGGTAATTTTCAAAAGTTTTAGGGTCAAAAAT
*
47691753 GGAATTTTTAGAAGT-TC-GGGGTTAAAAAT-ATAATTTT
130 GGAA-TTTTAGAA-TATCTGGGGGT-AAAATGATAATTTT
47691790 TGGAAAGTTG
Statistics
Matches: 141, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
175 106 0.75
176 29 0.21
177 6 0.04
ACGTcount: A:0.36, C:0.05, G:0.24, T:0.35
Consensus pattern (177 bp):
GGGTCAAAAATGAAATTTTTGAACATTCAAGGGTAAAACGATAATTTTGGAAGATTTCAAGGTTA
AAAATGGAATTTTTGGACATTCGAGGGTAAAATGGTAATTTTCAAAAGTTTTAGGGTCAAAAATG
GAATTTTAGAATATCTGGGGGTAAAATGATAATTTTCAAAAGTTTAA
Found at i:47691870 original size:59 final size:58
Alignment explanation
Indices: 47691723--47691908 Score: 198
Period size: 59 Copynumber: 3.2 Consensus size: 58
47691713 GGGTAAAATG
* * * *
47691723 GTAATTTTTGGAAGTTTTGGGGTCAAAAATGGAATTTTTAGAAGTTCG-GGGTTAAAAA
1 GTAATTTTTGGAAGTTTAGGGGT-AAAAATGTAATTTTTTGAAGTTTGAGGGTTAAAAA
* * ** *
47691781 TATAATTTTTGGAAAGTTGAGGGG-GGAAATGTAGTTTTTGTGAAGTTTGAGGGTTAAAAA
1 -GTAATTTTTGG-AAGTTTAGGGGTAAAAATGTAATTTTT-TGAAGTTTGAGGGTTAAAAA
* * *
47691841 GTAATTTTTGGAAGTTTAGGGGTAAAAATGTAATTTTTCTAAAGTTT-AGGGTCAAAAT
1 GTAATTTTTGGAAGTTTAGGGGTAAAAATGTAATTTTT-TGAAGTTTGAGGGTTAAAAA
47691899 GTAATTTTTG
1 GTAATTTTTG
47691909 AAAACTTCAA
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
58 40 0.38
59 46 0.44
60 19 0.18
ACGTcount: A:0.32, C:0.02, G:0.27, T:0.39
Consensus pattern (58 bp):
GTAATTTTTGGAAGTTTAGGGGTAAAAATGTAATTTTTTGAAGTTTGAGGGTTAAAAA
Found at i:47691888 original size:30 final size:29
Alignment explanation
Indices: 47691394--47691911 Score: 171
Period size: 29 Copynumber: 17.7 Consensus size: 29
47691384 ACTCGAGGGC
* ** *
47691394 AAAAATGTAATTTTTTAAACATTCGAGGGT
1 AAAAATGTAATTTTTGAAAGTTTAG-GGGT
** *
47691424 -AAAATGGTGGTTTTTGAGAA-TTTCGGGGT
1 AAAAAT-GTAATTTTTGA-AAGTTTAGGGGT
* * **
47691453 CAAAAATGAAATTTTTGGACA-TTCGGGGGT
1 -AAAAATGTAATTTTT-GAAAGTTTAGGGGT
* *
47691483 -AAAATGATAATTTTTG-AAGATTTCAAGGTT
1 AAAAATG-TAATTTTTGAAAG-TTT-AGGGGT
* *
47691513 AAAAATGGAATTTTTTGATA-TTT-GAGGGT
1 AAAAATGTAA-TTTTTGAAAGTTTAG-GGGT
**
47691542 -AAAATGGTAATTTTCAAAAGTTTTA-GGGT
1 AAAAAT-GTAATTTTTGAAAG-TTTAGGGGT
* * * * *
47691571 CAAAAATGGAATTTTAGGATA-TCTGGGGGT
1 -AAAAATGTAATTTT-TGAAAGTTTAGGGGT
** *
47691601 -AAAATGGTAATTTTCAAAAGTTTAAGGGT
1 AAAAAT-GTAATTTTTGAAAGTTTAGGGGT
* * * *
47691630 CAAAATGGAA-TTTTGAACA-TTCAAGGGT
1 AAAAATGTAATTTTTGAA-AGTTTAGGGGT
* * * * *
47691658 -AAAACGATAATATTTGGAAGTTTCGAGGTT
1 AAAAATG-TAATTTTTGAAAGTTTAG-GGGT
* **
47691688 AAAAAT-TGAATTTTTGGACA-TTCGGGGGT
1 AAAAATGT-AATTTTT-GAAAGTTTAGGGGT
* *
47691717 -AAAATGGTAATTTTTGGAAGTTTTGGGGT
1 AAAAAT-GTAATTTTTGAAAGTTTAGGGGT
* *
47691746 CAAAAATGGAATTTTT-AGAAG-TTCGGGGTT
1 -AAAAATGTAATTTTTGA-AAGTTTAGGGG-T
* *
47691776 AAAAATATAATTTTTGGAAAGTTGAGGGG-
1 AAAAATGTAATTTTT-GAAAGTTTAGGGGT
** * * *
47691805 GGAAATGTAGTTTTTGTGAAGTTTGAGGGTT
1 AAAAATGTAATTTTTG-AAAGTTT-AGGGGT
*
47691836 AAAAA-GTAATTTTTGGAAGTTTAGGGGT
1 AAAAATGTAATTTTTGAAAGTTTAGGGGT
*
47691864 AAAAATGTAATTTTTCTAAAGTTTA-GGGT
1 AAAAATGTAATTTTT-GAAAGTTTAGGGGT
*
47691893 CAAAATGTAATTTTTGAAA
1 AAAAATGTAATTTTTGAAA
47691912 ACTTCAAGGG
Statistics
Matches: 359, Mismatches: 82, Indels: 96
0.67 0.15 0.18
Matches are distributed among these distances:
27 6 0.02
28 62 0.17
29 141 0.39
30 101 0.28
31 48 0.13
32 1 0.00
ACGTcount: A:0.35, C:0.04, G:0.25, T:0.36
Consensus pattern (29 bp):
AAAAATGTAATTTTTGAAAGTTTAGGGGT
Found at i:47691892 original size:29 final size:29
Alignment explanation
Indices: 47691713--47691950 Score: 155
Period size: 29 Copynumber: 8.1 Consensus size: 29
47691703 GGACATTCGG
*
47691713 GGGT-AAAATGGTAATTTTTGG-AAGTTTTG
1 GGGTAAAAAT-GTAATTTTTGGAAAG-TTTA
* * **
47691742 GGGTCAAAAATGGAATTTTTAG-AAGTTCG
1 GGGT-AAAAATGTAATTTTTGGAAAGTTTA
* *
47691771 GGGTTAAAAATATAATTTTTGGAAAGTTGA
1 GGG-TAAAAATGTAATTTTTGGAAAGTTTA
*** *
47691801 GGGGGGAAATGTAGTTTTTGTG-AAGTTTGA
1 GGGTAAAAATGTAATTTTTG-GAAAGTTT-A
47691831 GGGTTAAAAA-GTAATTTTTGG-AAGTTTA
1 GGG-TAAAAATGTAATTTTTGGAAAGTTTA
**
47691859 GGGGTAAAAATGTAATTTTTCTAAAGTTTA
1 -GGGTAAAAATGTAATTTTTGGAAAGTTTA
* * * *
47691889 GGGTCAAAATGTAATTTTTGAAAACTTCAA
1 GGGTAAAAATGTAATTTTTGGAAAGTT-TA
* * * * *
47691919 GGGTCAAAATATGATTTCTGGATAGTTTA
1 GGGTAAAAATGTAATTTTTGGAAAGTTTA
47691948 GGG
1 GGG
47691951 ACCCTTTGGG
Statistics
Matches: 166, Mismatches: 32, Indels: 22
0.75 0.15 0.10
Matches are distributed among these distances:
28 7 0.04
29 87 0.52
30 64 0.39
31 8 0.05
ACGTcount: A:0.33, C:0.03, G:0.27, T:0.37
Consensus pattern (29 bp):
GGGTAAAAATGTAATTTTTGGAAAGTTTA
Found at i:47691928 original size:59 final size:59
Alignment explanation
Indices: 47691807--47691928 Score: 138
Period size: 59 Copynumber: 2.1 Consensus size: 59
47691797 TTGAGGGGGG
* * * * * * * *
47691807 AAATGTAGTTTTTGTGAAGTTTGAGGGTTAAAAAGTAATTTTTGGAAGTTTAGGGGTAA
1 AAATGTAATTTTTCTAAAGTTTGAGGGTCAAAAAGTAATTTTTGAAACTTCAAGGGTAA
* *
47691866 AAATGTAATTTTTCTAAAGTTT-AGGGTCAAAATGTAATTTTTGAAAACTTCAAGGGTCA
1 AAATGTAATTTTTCTAAAGTTTGAGGGTCAAAAAGTAATTTTTG-AAACTTCAAGGGTAA
47691925 AAAT
1 AAAT
47691929 ATGATTTCTG
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
58 19 0.37
59 33 0.63
ACGTcount: A:0.36, C:0.04, G:0.22, T:0.38
Consensus pattern (59 bp):
AAATGTAATTTTTCTAAAGTTTGAGGGTCAAAAAGTAATTTTTGAAACTTCAAGGGTAA
Found at i:47693604 original size:17 final size:17
Alignment explanation
Indices: 47693582--47693676 Score: 109
Period size: 17 Copynumber: 5.5 Consensus size: 17
47693572 TAATTTTTTT
47693582 AATTTAAAATAAATTCA
1 AATTTAAAATAAATTCA
* *
47693599 AATTTAAAGTAAATTTA
1 AATTTAAAATAAATTCA
* * * *
47693616 AACTCAAAATGAATTTA
1 AATTTAAAATAAATTCA
47693633 AATTTAGAAATAAATTCA
1 AATTTA-AAATAAATTCA
* *
47693651 ACTTTAAAATAAATTAA
1 AATTTAAAATAAATTCA
47693668 AATTTAAAA
1 AATTTAAAA
47693677 ATTAAAAGTT
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
17 50 0.78
18 14 0.22
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (17 bp):
AATTTAAAATAAATTCA
Found at i:47694372 original size:209 final size:208
Alignment explanation
Indices: 47693988--47694492 Score: 559
Period size: 209 Copynumber: 2.4 Consensus size: 208
47693978 TGGTTTGGTA
* * * * *
47693988 TCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCTCATCACTTGTTTTGAACCA
1 TCATTGATTTGGTCTTCTTCTCAGTACCTCATCAGGAAGATGACCGCATCACTTG-TTTCAACCT
* * *** * * *
47694053 CTTCTCTATGTCTCATCAGGAAGACAGATCTGGTTTACTTCTCTATATCTCATCAGGAAGGTAAT
65 CTTCTCTGTATCTCATCAGGAAGACAGATCTGGCCCACTTCTCTATATCTCATCAAGAAGCTAAC
* * * * * * *
47694118 CGCTTTATTGCTTCAACTTGCCTCTCAATTTCTCATCAGGAAGCTGGGGTTTGAAGATTCGCTCA
130 CACTTTATTACTTCAACCTGCCTCTCAATATCTCATCAAGAAGCTGAGGTTCGAAGATTCGCTCA
47694183 CTTT-GAGCCTGGCT
195 -TTTGGAGCCTGGCT
*
47694197 TCATTGATTTGGTCTTCTTCTCAGTACCTCATCAGGAAGATGACCGCGTCACTTGTTTCAATCCT
1 TCATTGATTTGGTCTTCTTCTCAGTACCTCATCAGGAAGATGACCGCATCACTTGTTTCAA-CCT
* * * * *
47694262 CTTCTCTGTATCTCATCAAGAAGA-TGAATTTGGCCCGCTTCTC-AGTATCTCATTAAGAAGCTA
65 CTTCTCTGTATCTCATCAGGAAGACAG-ATCTGGCCCACTTCTCTA-TATCTCATCAAGAAGCTA
* ** * * * *
47694325 ACCATTTTATTACTTTGACCTGCTTCTCAGTATCTTATCAAGAAGCTGAGGTTCGAAGATTTGCT
128 ACCACTTTATTACTTCAACCTGCCTCTCAATATCTCATCAAGAAGCTGAGGTTCGAAGATTCGCT
*
47694390 CATTTGGAGCTTGGCT
193 CATTTGGAGCCTGGCT
* * * * * *
47694406 TCATTGATTTGGTCTTCTTCTCAGTACCTCATCAGGAAGGTAACCGCTTTA-TTGCTTCGACCTG
1 TCATTGATTTGGTCTTCTTCTCAGTACCTCATCAGGAAGATGACCGCATCACTTGTTTCAACCT-
*
47694470 CTTCTCAGTATCTCATCAGGAAG
65 CTTCTCTGTATCTCATCAGGAAG
47694493 CTGGGGTTCA
Statistics
Matches: 249, Mismatches: 42, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
207 3 0.01
208 38 0.15
209 208 0.84
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (208 bp):
TCATTGATTTGGTCTTCTTCTCAGTACCTCATCAGGAAGATGACCGCATCACTTGTTTCAACCTC
TTCTCTGTATCTCATCAGGAAGACAGATCTGGCCCACTTCTCTATATCTCATCAAGAAGCTAACC
ACTTTATTACTTCAACCTGCCTCTCAATATCTCATCAAGAAGCTGAGGTTCGAAGATTCGCTCAT
TTGGAGCCTGGCT
Found at i:47694508 original size:123 final size:123
Alignment explanation
Indices: 47694299--47694616 Score: 406
Period size: 123 Copynumber: 2.6 Consensus size: 123
47694289 ATTTGGCCCG
* * * * ** * * *
47694299 CTTCTCAGTATCTCATTAAGAAGCTAACCATTTTATTACTTTGACCTGCTTCTCAGTATCTTATC
1 CTTCTCAGTACCTCATCAGGAAGATAACCGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATC
* * * *
47694364 AAGAAGCTGAGGTTCGAAGATTTGCTCA-TTTGGAGCTTGGCTTCATTGATTTGGTCTT
66 AGGAAGCTGAGGTTCAAAGATTCGCTCACTTT-GAGCTCGGCTTCATTGATTTGGTCTT
*
47694422 CTTCTCAGTACCTCATCAGGAAGGTAACCGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATC
1 CTTCTCAGTACCTCATCAGGAAGATAACCGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATC
*
47694487 AGGAAGCTGGGGTTCAAAGATTCGCTCACTTTGAGCTCGGCTTCATTGATTTGGTCTT
66 AGGAAGCTGAGGTTCAAAGATTCGCTCACTTTGAGCTCGGCTTCATTGATTTGGTCTT
* * * * * *
47694545 CTTCTCAGTACCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCC-GCTTCTCTGTATCTCA
1 CTTCTCAGTACCTCATCAGGAAGATAACCGCTTTA-TTGCTTCGA-CCTGCTTCTCAGTATCTCA
47694609 TCAGGAAG
64 TCAGGAAG
47694617 ATGTATTTGG
Statistics
Matches: 171, Mismatches: 21, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
123 136 0.80
124 33 0.19
125 2 0.01
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.36
Consensus pattern (123 bp):
CTTCTCAGTACCTCATCAGGAAGATAACCGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATC
AGGAAGCTGAGGTTCAAAGATTCGCTCACTTTGAGCTCGGCTTCATTGATTTGGTCTT
Found at i:47694714 original size:332 final size:332
Alignment explanation
Indices: 47694090--47694776 Score: 1049
Period size: 332 Copynumber: 2.1 Consensus size: 332
47694080 ATCTGGTTTA
* * * * *
47694090 CTTCTCTATATCTCATCAGGAAGGTAATCGCTTTATTGCTTCAACTTGCCTCTCAATTTCTCATC
1 CTTCTCAATACCTCATCAGGAAGGTAACCGCTTTATTGCTTCAACCTGCCTCTCAATATCTCATC
**
47694155 AGGAAGCTGGGGTTTGAAGATTCGCTCACTTTGAGCCTGGCTTCATTGATTTGGTCTTCTTCTCA
66 AGGAAGCTGGGGTTCAAAGATTCGCTCACTTTGAGCCTGGCTTCATTGATTTGGTCTTCTTCTCA
* *
47694220 GTACCTCATCAGGAAGATGACCGCGTCACTTGTTTCAATCCTCTTCTCTGTATCTCATCAAGAAG
131 GTACCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTTCTCTGTATCTCATCAAGAAG
* * *
47694285 ATGAATTTGGCCCGCTTCTCAGTATCTCATTAAGAAGCTAACCATTTTATTACTTTGACCTGCTT
196 ATGAATTTGGCCCACTTCTCAGTATCTCATCAAGAAGCTAACCATTTTATTACTTCGACCTGCTT
* * * *
47694350 CTCAGTATCTTATCAAGAAGCTGAGGTTCGAAGATTT-GCTCA-TTTGGAGCTTGGCTTCATTGA
261 CTCAGTATCTCATCAAGAAGATGAGGTTCGAAG-TTTCGCTCACATT-GAGCTTGGCTTAATTGA
47694413 TTTGGTCTT
324 TTTGGTCTT
* * * *
47694422 CTTCTCAGTACCTCATCAGGAAGGTAACCGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATC
1 CTTCTCAATACCTCATCAGGAAGGTAACCGCTTTATTGCTTCAACCTGCCTCTCAATATCTCATC
47694487 AGGAAGCTGGGGTTCAAAGATTCGCTCACTTTGAG-CTCGGCTTCATTGATTTGGTCTTCTTCTC
66 AGGAAGCTGGGGTTCAAAGATTCGCTCACTTTGAGCCT-GGCTTCATTGATTTGGTCTTCTTCTC
*
47694551 AGTACCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAA
130 AGTACCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTTCTCTGTATCTCATCAAGAA
* * *
47694616 GATGTATTTGGTCCACTTCTCAGTATCTCATCAAGAAGCTAACCATTTTATTGCTTCGACCTGCT
195 GATGAATTTGGCCCACTTCTCAGTATCTCATCAAGAAGCTAACCATTTTATTACTTCGACCTGCT
* * *
47694681 TCTCAGTATCTCATCAGGAAGATG-GGATTCGAAGTTTCGCTCACATTGAGCTTTGTTTAATTGA
260 TCTCAGTATCTCATCAAGAAGATGAGG-TTCGAAGTTTCGCTCACATTGAGCTTGGCTTAATTGA
47694745 TTTGGTCTT
324 TTTGGTCTT
* *
47694754 CTTCTCAATATCTCATCAAGAAG
1 CTTCTCAATACCTCATCAGGAAG
47694777 ATGACTGCAT
Statistics
Matches: 321, Mismatches: 30, Indels: 8
0.89 0.08 0.02
Matches are distributed among these distances:
331 7 0.02
332 312 0.97
333 2 0.01
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (332 bp):
CTTCTCAATACCTCATCAGGAAGGTAACCGCTTTATTGCTTCAACCTGCCTCTCAATATCTCATC
AGGAAGCTGGGGTTCAAAGATTCGCTCACTTTGAGCCTGGCTTCATTGATTTGGTCTTCTTCTCA
GTACCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTTCTCTGTATCTCATCAAGAAG
ATGAATTTGGCCCACTTCTCAGTATCTCATCAAGAAGCTAACCATTTTATTACTTCGACCTGCTT
CTCAGTATCTCATCAAGAAGATGAGGTTCGAAGTTTCGCTCACATTGAGCTTGGCTTAATTGATT
TGGTCTT
Found at i:47694991 original size:209 final size:209
Alignment explanation
Indices: 47694412--47694991 Score: 849
Period size: 209 Copynumber: 2.8 Consensus size: 209
47694402 GGCTTCATTG
** * * **
47694412 ATTTGGTCTTCTTCTCAGTACCTCATCAGGAAGGTAACCGCTTTATTGCTTCGACCTGCTTCTCA
1 ATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCA
* * * *
47694477 GTATCTCATCAGGAAGCTGGGGTTCAAAGATTCGCTCACTTTGAGCTCGGCTTCATTGATTTGGT
66 GTATCTCATCAGGAAGATGGGGTTCGAAGATTCGCTCACTTTGAGCTTGGTTTCATTGATTTGGT
* * *
47694542 CTTCTTCTCAGTACCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTTCTCTGTATCT
131 CTTCTTCTCAGTATCTCATCAGGAAGATGACTGCATCACTTGTTTCAATCCGCTTCTCTATATCT
*
47694607 CATCAGGAAGATGT
196 CATCAGGAAGACGT
*
47694621 ATTTGGTCCACTTCTCAGTATCTCATCAAGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCA
1 ATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCA
* * * * *
47694686 GTATCTCATCAGGAAGATGGGATTCGAAGTTTCGCTCACATTGAGCTTTGTTTAATTGATTTGGT
66 GTATCTCATCAGGAAGATGGGGTTCGAAGATTCGCTCACTTTGAGCTTGGTTTCATTGATTTGGT
* *
47694751 CTTCTTCTCAATATCTCATCAAGAAGATGACTGCATCACTTGTTTCAAAT-CGCTTCTCTATATC
131 CTTCTTCTCAGTATCTCATCAGGAAGATGACTGCATCACTTGTTTC-AATCCGCTTCTCTATATC
*
47694815 TCATCATGAAGACG-
195 TCATCAGGAAGACGT
* * *
47694829 AGTTTGGTCCACTTCTCAGTATCTTATCAGGAAGCTAACCATTTTATTACTTCGACTTGCTTCTC
1 A-TTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTC
* * *
47694894 AGTATCTTATCAGGAAGTTGGGGTTCGAAGATTCGCTCACTTTGAACTTGGTTTCATTGATTTGG
65 AGTATCTCATCAGGAAGATGGGGTTCGAAGATTCGCTCACTTTGAGCTTGGTTTCATTGATTTGG
* *
47694959 TCTTCTTCTCAGTATCTTATTAGGAAGATGACT
130 TCTTCTTCTCAGTATCTCATCAGGAAGATGACT
47694992 AGCTTGTTAT
Statistics
Matches: 330, Mismatches: 39, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
208 1 0.00
209 326 0.99
210 3 0.01
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.37
Consensus pattern (209 bp):
ATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCA
GTATCTCATCAGGAAGATGGGGTTCGAAGATTCGCTCACTTTGAGCTTGGTTTCATTGATTTGGT
CTTCTTCTCAGTATCTCATCAGGAAGATGACTGCATCACTTGTTTCAATCCGCTTCTCTATATCT
CATCAGGAAGACGT
Found at i:47707003 original size:29 final size:29
Alignment explanation
Indices: 47706971--47707224 Score: 130
Period size: 29 Copynumber: 8.7 Consensus size: 29
47706961 AACACTTTGG
*
47706971 GGGCAAAATGGTAATTTTTGGACACTCGA
1 GGGCAAAATGGTAATTTTTGGACATTCGA
*
47707000 GGGCAAAAAT-GTAATTTTTGGACATCCGA
1 GGGC-AAAATGGTAATTTTTGGACATTCGA
* * ** **
47707029 AGGTAGTATGGTGGTTTTTGGGA-ATTTCG-
1 GGGCAAAATGGTAATTTTT-GGACA-TTCGA
* * *
47707058 GGGTCAAAAAT-GAAATTTTTGTACAGTC-A
1 GGG-C-AAAATGGTAATTTTTGGACATTCGA
* * * *
47707087 GGGGTAAAATGGTAATTTTTAGAGATTCAA
1 -GGGCAAAATGGTAATTTTTGGACATTCGA
** * *
47707117 GGTTAAAAATGG-AATTTTTTGATATTCGA
1 GG-GCAAAATGGTAATTTTTGGACATTCGA
* *
47707146 GGGTAAAATGGTAAATTTTGGA-AGTTTCGA
1 GGGCAAAATGGTAATTTTTGGACA--TTCGA
* *
47707176 GGCCAAAAATGG-AATTTTAGGACA-TCTGA
1 GGGC-AAAATGGTAATTTTTGGACATTC-GA
*
47707205 GGGTAAAATGGTAATTTTTG
1 GGGCAAAATGGTAATTTTTG
47707225 AAAGTTTTGG
Statistics
Matches: 166, Mismatches: 40, Indels: 38
0.68 0.16 0.16
Matches are distributed among these distances:
28 25 0.15
29 86 0.52
30 44 0.27
31 11 0.07
ACGTcount: A:0.33, C:0.07, G:0.27, T:0.33
Consensus pattern (29 bp):
GGGCAAAATGGTAATTTTTGGACATTCGA
Found at i:47707099 original size:59 final size:59
Alignment explanation
Indices: 47706970--47707388 Score: 318
Period size: 59 Copynumber: 7.2 Consensus size: 59
47706960 CAACACTTTG
* * * * *
47706970 GGGGCAAAATGGTAATTTTTGGACA--CTCGAGGGCAAAAATGTAATTTTTGGACA-TCC
1 GGGGTAAAATGGTAATTTTTGGA-AGTTTCGAGGTCAAAAATGAAATTTTTGGACATTCA
* ** ** * * *
47707027 GAAGGTAGTATGGTGGTTTTTGGGAA-TTTCGGGGTCAAAAATGAAATTTTTGTACAGTCA
1 G-GGGTAAAATGGTAATTTTT-GGAAGTTTCGAGGTCAAAAATGAAATTTTTGGACATTCA
* * * * * * *
47707087 GGGGTAAAATGGTAATTTTTAG-AGATTCAAGGTTAAAAATGGAATTTTTTGATATTC-
1 GGGGTAAAATGGTAATTTTTGGAAGTTTCGAGGTCAAAAATGAAATTTTTGGACATTCA
* * * * *
47707144 GAGGGTAAAATGGTAAATTTTGGAAGTTTCGAGGCCAAAAATGGAATTTTAGGACA-TCT
1 G-GGGTAAAATGGTAATTTTTGGAAGTTTCGAGGTCAAAAATGAAATTTTTGGACATTCA
* * * ** **
47707203 GAGGGTAAAATGGTAATTTTTGAAAGTTTTGGGGTTTAAAATGAAA-TTTTAAACATTCA
1 G-GGGTAAAATGGTAATTTTTGGAAGTTTCGAGGTCAAAAATGAAATTTTTGGACATTCA
* * * * *
47707262 GGGGTAAAACGATAATTTTTGAAAGTTTTGAGGTCAAAAATTG-AATTTTTGGACATTCG
1 GGGGTAAAATGGTAATTTTTGGAAGTTTCGAGGTCAAAAA-TGAAATTTTTGGACATTCA
* * * * * *
47707321 GGGGTAAAATGATAATTTTTGGAAGTTTTGGGGTAAAAAATGAAATTTTTAGA-AGTTTA
1 GGGGTAAAATGGTAATTTTTGGAAGTTTCGAGGTCAAAAATGAAATTTTTGGACA-TTCA
47707380 GGGGTAAAA
1 GGGGTAAAA
47707389 ATATAATTTC
Statistics
Matches: 286, Mismatches: 63, Indels: 24
0.77 0.17 0.06
Matches are distributed among these distances:
57 3 0.01
58 105 0.37
59 175 0.61
60 3 0.01
ACGTcount: A:0.34, C:0.06, G:0.26, T:0.34
Consensus pattern (59 bp):
GGGGTAAAATGGTAATTTTTGGAAGTTTCGAGGTCAAAAATGAAATTTTTGGACATTCA
Found at i:47707135 original size:117 final size:116
Alignment explanation
Indices: 47706970--47707223 Score: 267
Period size: 117 Copynumber: 2.2 Consensus size: 116
47706960 CAACACTTTG
* * * * *
47706970 GGGGCAAAATGGTAATTTTTGGACACTCGAGGGCAAAAATGTAATTTTTGGACATCCGAAGGTAG
1 GGGGTAAAATGGTAATTTTTAGACACTCAAGGGCAAAAATGGAATTTTTGGACATCCGAAGGTAA
* *** * * * *
47707035 TATGGTGGTTTTTGGGAA-TTTCGGGGTCAAAAATGAAATTTTTGTACAGTCA
66 AATGGTAAATTTT-GGAAGTTTCGAGGCCAAAAATGAAATTTTAGGACA-TCA
* * ** * * * *
47707087 GGGGTAAAATGGTAATTTTTAGAGATTCAAGGTTAAAAATGGAATTTTTTGATATTCGAGGGTAA
1 GGGGTAAAATGGTAATTTTTAGACACTCAAGGGCAAAAATGGAATTTTTGGACATCCGAAGGTAA
* *
47707152 AATGGTAAATTTTGGAAGTTTCGAGGCCAAAAATGGAATTTTAGGACATCT
66 AATGGTAAATTTTGGAAGTTTCGAGGCCAAAAATGAAATTTTAGGACATCA
47707203 GAGGGTAAAATGGTAATTTTT
1 G-GGGTAAAATGGTAATTTTT
47707224 GAAAGTTTTG
Statistics
Matches: 112, Mismatches: 23, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
116 7 0.06
117 105 0.94
ACGTcount: A:0.33, C:0.07, G:0.27, T:0.33
Consensus pattern (116 bp):
GGGGTAAAATGGTAATTTTTAGACACTCAAGGGCAAAAATGGAATTTTTGGACATCCGAAGGTAA
AATGGTAAATTTTGGAAGTTTCGAGGCCAAAAATGAAATTTTAGGACATCA
Found at i:47707267 original size:117 final size:117
Alignment explanation
Indices: 47707146--47707369 Score: 315
Period size: 117 Copynumber: 1.9 Consensus size: 117
47707136 TGATATTCGA
* * *
47707146 GGGTAAAATGGTAAATTTTGGAAGTTTCGAGGCCAAAAATGGAATTTTAGGACA-TCTGAGGGTA
1 GGGTAAAACGATAAATTTTGAAAGTTTCGAGGCCAAAAATGGAATTTTAGGACATTC-GAGGGTA
* **
47707210 AAATGGTAATTTTTGAAAGTTTTGGGGTTTAAAATGAAATTTTAAACATTCAG
65 AAATGATAATTTTTGAAAGTTTTGGGGTAAAAAATGAAATTTTAAACATTCAG
* * * * * *
47707263 GGGTAAAACGATAATTTTTGAAAGTTTTGAGGTCAAAAATTGAATTTTTGGACATTCGGGGGTAA
1 GGGTAAAACGATAAATTTTGAAAGTTTCGAGGCCAAAAATGGAATTTTAGGACATTCGAGGGTAA
*
47707328 AATGATAATTTTTGGAAGTTTTGGGGTAAAAAATGAAATTTT
66 AATGATAATTTTTGAAAGTTTTGGGGTAAAAAATGAAATTTT
47707370 TAGAAGTTTA
Statistics
Matches: 93, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
117 91 0.98
118 2 0.02
ACGTcount: A:0.36, C:0.05, G:0.25, T:0.35
Consensus pattern (117 bp):
GGGTAAAACGATAAATTTTGAAAGTTTCGAGGCCAAAAATGGAATTTTAGGACATTCGAGGGTAA
AATGATAATTTTTGAAAGTTTTGGGGTAAAAAATGAAATTTTAAACATTCAG
Found at i:47707370 original size:30 final size:30
Alignment explanation
Indices: 47707275--47707389 Score: 112
Period size: 30 Copynumber: 3.9 Consensus size: 30
47707265 GTAAAACGAT
* * *
47707275 AATTTTTGAAAGTTTTGAGGTCAAAAATTG-
1 AATTTTTGGAAGTTTTGGGGT-AAAAAATGA
**
47707305 AATTTTTGGACA-TTCGGGGGT--AAAATGA
1 AATTTTTGGA-AGTTTTGGGGTAAAAAATGA
47707333 TAATTTTTGGAAGTTTTGGGGTAAAAAATGA
1 -AATTTTTGGAAGTTTTGGGGTAAAAAATGA
* *
47707364 AATTTTTAGAAGTTTAGGGGTAAAAA
1 AATTTTTGGAAGTTTTGGGGTAAAAA
47707390 TATAATTTCT
Statistics
Matches: 70, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
27 5 0.07
28 1 0.01
29 17 0.24
30 39 0.56
31 8 0.11
ACGTcount: A:0.37, C:0.03, G:0.24, T:0.37
Consensus pattern (30 bp):
AATTTTTGGAAGTTTTGGGGTAAAAAATGA
Found at i:47707389 original size:29 final size:30
Alignment explanation
Indices: 47707205--47707397 Score: 106
Period size: 29 Copynumber: 6.6 Consensus size: 30
47707195 GGACATCTGA
* *
47707205 GGGT-AAAATGGTAATTTTT-GAAAGTTTTG
1 GGGTAAAAATGATAATTTTTAG-AAGTTTAG
* * *
47707234 GGGTTTAAAATGA-AA-TTTTA-AACATTCAG
1 GGG-TAAAAATGATAATTTTTAGAA-GTTTAG
* *
47707263 GGGT-AAAACGATAATTTTT-GAAAGTTTTG
1 GGGTAAAAATGATAATTTTTAG-AAGTTTAG
* * **
47707292 AGGTCAAAAAT--TGAATTTTTGGACA-TTCGG
1 GGGT-AAAAATGAT-AATTTTTAGA-AGTTTAG
* *
47707322 GGGT-AAAATGATAATTTTTGGAAGTTTTG
1 GGGTAAAAATGATAATTTTTAGAAGTTTAG
47707351 GGGTAAAAAATGA-AATTTTTAGAAGTTTAG
1 GGGT-AAAAATGATAATTTTTAGAAGTTTAG
47707381 GGGTAAAAAT-ATAATTT
1 GGGTAAAAATGATAATTT
47707398 CTGGAAATTA
Statistics
Matches: 128, Mismatches: 17, Indels: 38
0.70 0.09 0.21
Matches are distributed among these distances:
27 6 0.05
28 12 0.09
29 52 0.41
30 39 0.30
31 19 0.15
ACGTcount: A:0.37, C:0.03, G:0.23, T:0.37
Consensus pattern (30 bp):
GGGTAAAAATGATAATTTTTAGAAGTTTAG
Found at i:47708103 original size:17 final size:17
Alignment explanation
Indices: 47708081--47708159 Score: 95
Period size: 17 Copynumber: 4.6 Consensus size: 17
47708071 TAATTTTTTT
47708081 AAATTTAAAATAAATTC
1 AAATTTAAAATAAATTC
* *
47708098 AAATTTAAAGTAAATTT
1 AAATTTAAAATAAATTC
* * * *
47708115 AAACTCAAAATGAATTT
1 AAATTTAAAATAAATTC
47708132 AAATTTAGAAATAAATTC
1 AAATTTA-AAATAAATTC
47708150 AAATTTAAAA
1 AAATTTAAAA
47708160 ATTAAAAGTT
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
17 36 0.71
18 15 0.29
ACGTcount: A:0.57, C:0.05, G:0.04, T:0.34
Consensus pattern (17 bp):
AAATTTAAAATAAATTC
Found at i:47708104 original size:23 final size:23
Alignment explanation
Indices: 47708078--47708158 Score: 65
Period size: 24 Copynumber: 3.3 Consensus size: 23
47708068 TATTAATTTT
47708078 TTTAAATTTAAAATAAATTCAAA
1 TTTAAATTTAAAATAAATTCAAA
* * *
47708101 TTTAAAGTAAATTTAAACTCAAAAT-GAA
1 -TT----TAAATTTAAAAT-AAATTCAAA
47708129 TTTAAATTTAGAAATAAATTCAAA
1 TTTAAATTTA-AAATAAATTCAAA
47708153 TTTAAA
1 TTTAAA
47708159 AATTAAAAGT
Statistics
Matches: 44, Mismatches: 6, Indels: 14
0.69 0.09 0.22
Matches are distributed among these distances:
23 12 0.27
24 13 0.30
27 2 0.05
28 13 0.30
29 4 0.09
ACGTcount: A:0.54, C:0.05, G:0.04, T:0.37
Consensus pattern (23 bp):
TTTAAATTTAAAATAAATTCAAA
Found at i:47720655 original size:100 final size:100
Alignment explanation
Indices: 47720532--47720734 Score: 379
Period size: 100 Copynumber: 2.0 Consensus size: 100
47720522 TGTAGAAAAT
47720532 ATTTAAACACAATTGCAATATCCATTCATAACCTTGCATGCTTCATTAACTTCAAAAAGAAAAAT
1 ATTTAAACACAATTGCAATATCCATTCATAACCTTGCATGCTTCATTAACTTCAAAAAGAAAAAT
*
47720597 TTTGAAATGTGAGTGCATCTCTAAACCCCATATGC
66 TTTGAAATGTGAGTGCATCTCCAAACCCCATATGC
*
47720632 ATTTAAACACAATTTCAATATCCATTCATAACCTTGCATGCTTCATTAACTTCAAAAAGAAAAAT
1 ATTTAAACACAATTGCAATATCCATTCATAACCTTGCATGCTTCATTAACTTCAAAAAGAAAAAT
*
47720697 TTTGAAATGTGGGTGCATCTCCAAACCCCATATGC
66 TTTGAAATGTGAGTGCATCTCCAAACCCCATATGC
47720732 ATT
1 ATT
47720735 CCCCCAAACT
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 100 1.00
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.32
Consensus pattern (100 bp):
ATTTAAACACAATTGCAATATCCATTCATAACCTTGCATGCTTCATTAACTTCAAAAAGAAAAAT
TTTGAAATGTGAGTGCATCTCCAAACCCCATATGC
Found at i:47723444 original size:38 final size:37
Alignment explanation
Indices: 47723363--47723447 Score: 91
Period size: 38 Copynumber: 2.2 Consensus size: 37
47723353 TCTAGGCAAG
** ** *
47723363 CTCATGCAGTGATAATTTGGGGTGCAATTTTGGTTAT
1 CTCATGCAGTGATAATTTGGGACGCAATTTTGAATAA
47723400 CGTCATGCAGTGATAATTCT-GGACGCAATTTTGAATAGA
1 C-TCATGCAGTGATAATT-TGGGACGCAATTTTGAATA-A
47723439 CTCATGCAG
1 CTCATGCAG
47723448 CGACAGCAGT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
37 1 0.03
38 37 0.93
39 2 0.05
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (37 bp):
CTCATGCAGTGATAATTTGGGACGCAATTTTGAATAA
Found at i:47727031 original size:13 final size:14
Alignment explanation
Indices: 47726990--47727032 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 14
47726980 TGTCGGTAAG
47726990 CTCTTTTTCTTTCTT
1 CTCTTTTTC-TTCTT
*
47727005 CTCTTTTTC-CCTT
1 CTCTTTTTCTTCTT
47727018 C-CTTTTTCTTCTT
1 CTCTTTTTCTTCTT
47727031 CT
1 CT
47727033 TCTTGATCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
12 7 0.29
13 8 0.33
15 9 0.38
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (14 bp):
CTCTTTTTCTTCTT
Found at i:47734559 original size:15 final size:17
Alignment explanation
Indices: 47734534--47734565 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
47734524 CAACACCTAC
47734534 ACAACTAG-AAAAGAAA
1 ACAACTAGAAAAAGAAA
47734550 ACAA-TAGAAAAAGAAA
1 ACAACTAGAAAAAGAAA
47734566 CAAATCAGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.20
16 12 0.80
ACGTcount: A:0.72, C:0.09, G:0.12, T:0.06
Consensus pattern (17 bp):
ACAACTAGAAAAAGAAA
Found at i:47741978 original size:22 final size:23
Alignment explanation
Indices: 47741950--47742012 Score: 87
Period size: 22 Copynumber: 2.9 Consensus size: 23
47741940 AATTCTCAGA
*
47741950 ATCAGATACAGAAT-CAGAAGAT
1 ATCAGATACAGAATGCAGAACAT
*
47741972 ATCAGATACA-AATGTAGAACAT
1 ATCAGATACAGAATGCAGAACAT
47741994 ATCAGATACAG-ATGCAGAA
1 ATCAGATACAGAATGCAGAA
47742013 TCTTACCCTG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
21 3 0.08
22 33 0.92
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.19
Consensus pattern (23 bp):
ATCAGATACAGAATGCAGAACAT
Found at i:47747834 original size:52 final size:51
Alignment explanation
Indices: 47747756--47747935 Score: 261
Period size: 52 Copynumber: 3.5 Consensus size: 51
47747746 AAAGGATCCG
47747756 ATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGATTCA
1 ATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAG-TTCA
* *
47747808 ATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGTCCG
1 ATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGA-GTTCA
* * ** * *
47747860 ATGACTATGTGTCATCGTGAGTGTATGATTCCTTTACGGAGCAAGAGGTCTA
1 ATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGTTC-A
47747912 ATGACTATGTGTCATCGTGAGTAT
1 ATGACTATGTGTCATCGTGAGTAT
47747936 TAAAGGAAAT
Statistics
Matches: 115, Mismatches: 11, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
51 2 0.02
52 112 0.97
53 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.35
Consensus pattern (51 bp):
ATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGTTCA
Found at i:47752918 original size:52 final size:52
Alignment explanation
Indices: 47752840--47753029 Score: 256
Period size: 52 Copynumber: 3.7 Consensus size: 52
47752830 AATAATAAAG
*
47752840 GGTCCAATGACTATGTGTCATCGTGAGTATATAAATCCTTTACGGATTATGA
1 GGTCCGATGACTATGTGTCATCGTGAGTATATAAATCCTTTACGGATTATGA
* *
47752892 GGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGGTTATGA
1 GGTCCGATGACTATGTGTCATCGTGAGTATATAAATCCTTTACGGATTATGA
* * * * * * ** *
47752944 AGTCCGATGACTATGTGTCGTCGTGAGTGTATGATTCCTTTACAGAACAAGA
1 GGTCCGATGACTATGTGTCATCGTGAGTATATAAATCCTTTACGGATTATGA
*
47752996 GGTCCGGTGACTATGTGTCATCGTGAGTAT-TAAA
1 GGTCCGATGACTATGTGTCATCGTGAGTATATAAA
47753030 GAAAATGAAT
Statistics
Matches: 120, Mismatches: 18, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
51 2 0.02
52 118 0.98
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (52 bp):
GGTCCGATGACTATGTGTCATCGTGAGTATATAAATCCTTTACGGATTATGA
Found at i:47753593 original size:21 final size:21
Alignment explanation
Indices: 47753559--47753598 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
47753549 TGAGATTTTG
* *
47753559 CATACTTGTTTCGGTAGAACT
1 CATACATGTATCGGTAGAACT
47753580 CATACATGTATCGGTAGAA
1 CATACATGTATCGGTAGAA
47753599 GTATAGGGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (21 bp):
CATACATGTATCGGTAGAACT
Found at i:47762945 original size:19 final size:20
Alignment explanation
Indices: 47762922--47762966 Score: 67
Period size: 19 Copynumber: 2.3 Consensus size: 20
47762912 ACTTTTTATT
47762922 TTATTTTT-TGAATTTTTAAA
1 TTATTTTTAT-AATTTTTAAA
47762942 -TATTTTTATAATTTTTAAA
1 TTATTTTTATAATTTTTAAA
47762961 TTATTT
1 TTATTT
47762967 ATTGGTATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (20 bp):
TTATTTTTATAATTTTTAAA
Found at i:47764030 original size:100 final size:100
Alignment explanation
Indices: 47763697--47763997 Score: 525
Period size: 100 Copynumber: 3.0 Consensus size: 100
47763687 GGTGGTGAAT
* *
47763697 GTGCTAGAAAAATCTTAGAGGGGTTTTCTTTCTTTCGTATGACTTGATTGAGTTGAATAGAATGG
1 GTGCTGGAAAAATCTTAGAGGGGTTTTCTTTCTTTCGTATGACTTGATTGAGTTGAATGGAATGG
47763762 TTGAATTTTGGAATCAACAGAGGCAGGGCAATTCA
66 TTGAATTTTGGAATCAACAGAGGCAGGGCAATTCA
47763797 GTGCTGGAAAAATCTTAGAGGGGTTTTCTTTCTTTCGTATGACTTGATTGAGTTGAATGGAATGG
1 GTGCTGGAAAAATCTTAGAGGGGTTTTCTTTCTTTCGTATGACTTGATTGAGTTGAATGGAATGG
*
47763862 TTGAAATTTGGAATCAACAGAGGCAGGGCAATTCA
66 TTGAATTTTGGAATCAACAGAGGCAGGGCAATTCA
* *
47763897 GTGCTGGAAAAATCTTAGAGGGGTTTTCTTTCTTTCGTATGATTTGATTGAG-T-AATGGAATGA
1 GTGCTGGAAAAATCTTAGAGGGGTTTTCTTTCTTTCGTATGACTTGATTGAGTTGAATGGAATGG
* *
47763960 TTGAATTTTGGCATCAACAGGGGCAGGGCAATTCA
66 TTGAATTTTGGAATCAACAGAGGCAGGGCAATTCA
47763995 GTG
1 GTG
47763998 ATGGGCCATT
Statistics
Matches: 193, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
98 44 0.23
99 1 0.01
100 148 0.77
ACGTcount: A:0.28, C:0.11, G:0.28, T:0.34
Consensus pattern (100 bp):
GTGCTGGAAAAATCTTAGAGGGGTTTTCTTTCTTTCGTATGACTTGATTGAGTTGAATGGAATGG
TTGAATTTTGGAATCAACAGAGGCAGGGCAATTCA
Found at i:47765573 original size:25 final size:27
Alignment explanation
Indices: 47765541--47765599 Score: 77
Period size: 25 Copynumber: 2.2 Consensus size: 27
47765531 AGCAACATGA
* *
47765541 ATTATTGTCCTCTT-AATT-TTTATTT
1 ATTATTGTCCACTTGAATTATTAATTT
47765566 ATTATTGTCCACTTGAATTAATTAATTT
1 ATTATTGTCCACTTGAATT-ATTAATTT
47765594 ATTATT
1 ATTATT
47765600 TTATTTTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 13 0.45
26 4 0.14
28 12 0.41
ACGTcount: A:0.27, C:0.10, G:0.05, T:0.58
Consensus pattern (27 bp):
ATTATTGTCCACTTGAATTATTAATTT
Found at i:47767294 original size:29 final size:29
Alignment explanation
Indices: 47767262--47767578 Score: 158
Period size: 29 Copynumber: 10.8 Consensus size: 29
47767252 AAATTAGGGA
*
47767262 TAAAAATGGAATTTTAGAAAGTTTGGGGG
1 TAAAAATGGAATTTTTGAAAGTTTGGGGG
*** **
47767291 T-AAAATGGTAATTTTCGGTGAAA--TCAAGAT
1 TAAAAATGG-AATTTT---TGAAAGTTTGGGGG
**
47767321 TAAAAATGGAATTTTAAAAAGTTTGGGGG
1 TAAAAATGGAATTTTTGAAAGTTTGGGGG
* **
47767350 T-AAAATGGTAATTTTTGGAAGTTTCAGGG
1 TAAAAATGG-AATTTTTGAAAGTTTGGGGG
*
47767379 TCAAAAATGGAATTTTGGAAAGTTTGGGGG
1 T-AAAAATGGAATTTTTGAAAGTTTGGGGG
* *
47767409 T-AAAATGGTAATTTTGGGTGAAA--TTAGGGT
1 TAAAAATGG-AATTTT---TGAAAGTTTGGGGG
* **
47767439 TAAAAATGGAATTTTGGAAAG-TTAAGGG
1 TAAAAATGGAATTTTTGAAAGTTTGGGGG
* *
47767467 T-AAAATGGTAATTTTGGGTGAAA--TCGGGGT
1 TAAAAATGG-AATTTT---TGAAAGTTTGGGGG
* *
47767497 TAAAAATGGAATTTTGGAATGTTTGGGGG
1 TAAAAATGGAATTTTTGAAAGTTTGGGGG
* *
47767526 TAAAACGAT--AATTTTTGGAAGTTTCGGGG
1 TAAAA--ATGGAATTTTTGAAAGTTTGGGGG
* *
47767555 TCAAAATGTAATTTTCT-AAAGTTT
1 TAAAAATGGAATTTT-TGAAAGTTT
47767579 TGGGATCACA
Statistics
Matches: 217, Mismatches: 43, Indels: 56
0.69 0.14 0.18
Matches are distributed among these distances:
27 19 0.09
28 33 0.15
29 74 0.34
30 49 0.23
31 34 0.16
32 8 0.04
ACGTcount: A:0.35, C:0.03, G:0.28, T:0.34
Consensus pattern (29 bp):
TAAAAATGGAATTTTTGAAAGTTTGGGGG
Found at i:47767475 original size:58 final size:59
Alignment explanation
Indices: 47767252--47767540 Score: 377
Period size: 59 Copynumber: 4.9 Consensus size: 59
47767242 GTTTTGCAAA
* * *
47767252 AAATTAGGGATAAAAATGGAATTTTAGAAAGTTTGGGGGTAAAATGGTAATTTTCGGTG
1 AAATTAGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTGGGTG
* * * ** *
47767311 AAATCAAGATTAAAAATGGAATTTTAAAAAGTTTGGGGGTAAAATGGTAATTTT-TG-G
1 AAATTAGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTGGGTG
* *
47767368 AAGTTTCAGGGTCAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTGGGTG
1 AA-ATT-AGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTGGGTG
**
47767429 AAATTAGGGTTAAAAATGGAATTTTGGAAAG-TTAAGGGTAAAATGGTAATTTTGGGTG
1 AAATTAGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTGGGTG
** * * *
47767487 AAATCGGGGTTAAAAATGGAATTTTGGAATGTTTGGGGGTAAAACGATAATTTT
1 AAATTAGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTT
47767541 TGGAAGTTTC
Statistics
Matches: 200, Mismatches: 25, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
57 3 0.01
58 55 0.28
59 136 0.68
60 3 0.01
61 3 0.01
ACGTcount: A:0.37, C:0.02, G:0.28, T:0.33
Consensus pattern (59 bp):
AAATTAGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTGGGTG
Found at i:47767510 original size:30 final size:31
Alignment explanation
Indices: 47767410--47767513 Score: 114
Period size: 31 Copynumber: 3.5 Consensus size: 31
47767400 GTTTGGGGGT
*
47767410 AAAATGGTAATTTTGGGTGAAATTAGGGTTA
1 AAAATGGTAATTTTGGGTGAAATAAGGGTTA
47767441 AAAATGG-AATTTT--G-GAAAGTTAAGGG-T-
1 AAAATGGTAATTTTGGGTGAAA--TAAGGGTTA
**
47767468 AAAATGGTAATTTTGGGTGAAATCGGGGTTA
1 AAAATGGTAATTTTGGGTGAAATAAGGGTTA
47767499 AAAATGG-AATTTTGG
1 AAAATGGTAATTTTGG
47767514 AATGTTTGGG
Statistics
Matches: 62, Mismatches: 3, Indels: 17
0.76 0.04 0.21
Matches are distributed among these distances:
27 11 0.18
28 8 0.13
29 9 0.15
30 16 0.26
31 18 0.29
ACGTcount: A:0.37, C:0.01, G:0.30, T:0.33
Consensus pattern (31 bp):
AAAATGGTAATTTTGGGTGAAATAAGGGTTA
Found at i:47767542 original size:30 final size:29
Alignment explanation
Indices: 47767508--47767601 Score: 84
Period size: 29 Copynumber: 3.2 Consensus size: 29
47767498 AAAAATGGAA
*
47767508 TTTTGGAATGTTTGGGGGT-AAAACGATAAT
1 TTTTGGAA-GTTTCGGGGTCAAAACG-TAAT
*
47767538 TTTTGGAAGTTTCGGGGTCAAAATGTAAT
1 TTTTGGAAGTTTCGGGGTCAAAACGTAAT
* * * *
47767567 TTTCT-AAAGTTTTGGGATCACAAACATAAT
1 TTT-TGGAAGTTTCGGGGTCA-AAACGTAAT
47767597 TTTTG
1 TTTTG
47767602 AACAGTTTAG
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
29 29 0.55
30 24 0.45
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.39
Consensus pattern (29 bp):
TTTTGGAAGTTTCGGGGTCAAAACGTAAT
Found at i:47767582 original size:59 final size:59
Alignment explanation
Indices: 47767262--47767578 Score: 324
Period size: 59 Copynumber: 5.4 Consensus size: 59
47767252 AAATTAGGGA
* * * * **
47767262 TAAAAATGGAATTTTAGAAAGTTTGGGGGTAAAATGGTAATTTTCGGTGAA-ATCAAGAT
1 TAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTGGGTGAATTTC-GGGG
** * *
47767321 TAAAAATGGAATTTTAAAAAGTTTGGGGGTAAAATGGTAATTTT-TG-GAAGTTTCAGGG
1 TAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTGGGTGAA-TTTCGGGG
* * *
47767379 TCAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTGGGTGAAATTAGGGT
1 T-AAAAATGGAATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTGGGTGAATTTCGGGG
** *
47767439 TAAAAATGGAATTTTGGAAAG-TTAAGGGTAAAATGGTAATTTTGGGTGAA-ATCGGGG
1 TAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTGGGTGAATTTCGGGG
* * * *
47767496 TTAAAAATGGAATTTTGGAATGTTTGGGGGTAAAACGATAATTTT-TG-GAAGTTTCGGGG
1 -TAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTGGGTGAA-TTTCGGGG
* * **
47767555 TCAAAATGTAATTTTCTAAAGTTT
1 TAAAAATGGAATTTTGGAAAGTTT
47767579 TGGGATCACA
Statistics
Matches: 220, Mismatches: 29, Indels: 19
0.82 0.11 0.07
Matches are distributed among these distances:
57 10 0.05
58 71 0.32
59 130 0.59
60 6 0.03
61 3 0.01
ACGTcount: A:0.35, C:0.03, G:0.28, T:0.34
Consensus pattern (59 bp):
TAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTGGGTGAATTTCGGGG
Found at i:47767599 original size:176 final size:177
Alignment explanation
Indices: 47767252--47767599 Score: 468
Period size: 176 Copynumber: 2.0 Consensus size: 177
47767242 GTTTTGCAAA
**
47767252 AAATTAGGGATAAAAATGGAATTTTAGAAAGTTTGGGGGTAAAATGGTAATTTTCGGTGAAATCA
1 AAATTAGGGATAAAAATGGAATTTTAGAAAGTTTAAGGGTAAAATGGTAATTTTCGGTGAAATCA
* *
47767317 AGATTAAAAATGGAATTTTAAAAAGTTTGGGGGTAAAATGGTAATTTTTGGAAGTTTCAGGGTCA
66 AGATTAAAAATGGAATTTTAAAAAGTTTGGGGGTAAAACGATAATTTTTGGAAGTTTCAGGGTCA
* * **
47767382 AAAATGGAATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTGGGTG
131 AAAATGGAATTTTCGAAAGTTTGGGGATAAAATCATAATTTTGGGTG
* * * *
47767429 AAATTAGGGTTAAAAATGGAATTTTGGAAAG-TTAAGGGTAAAATGGTAATTTTGGGTGAAATCG
1 AAATTAGGGATAAAAATGGAATTTTAGAAAGTTTAAGGGTAAAATGGTAATTTTCGGTGAAATCA
* * ** * *
47767493 GGGTTAAAAATGGAATTTTGGAATGTTTGGGGGTAAAACGATAATTTTTGGAAGTTTCGGGGTC-
66 AGATTAAAAATGGAATTTTAAAAAGTTTGGGGGTAAAACGATAATTTTTGGAAGTTTCAGGGTCA
* * *
47767557 AAAATGTAATTTTCTAAAGTTTTGGGATCACAAA-CATAATTTT
131 AAAATGGAATTTTCGAAAGTTTGGGGAT-A-AAATCATAATTTT
47767600 TGAACAGTTT
Statistics
Matches: 148, Mismatches: 21, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
175 23 0.16
176 93 0.63
177 32 0.22
ACGTcount: A:0.36, C:0.03, G:0.27, T:0.34
Consensus pattern (177 bp):
AAATTAGGGATAAAAATGGAATTTTAGAAAGTTTAAGGGTAAAATGGTAATTTTCGGTGAAATCA
AGATTAAAAATGGAATTTTAAAAAGTTTGGGGGTAAAACGATAATTTTTGGAAGTTTCAGGGTCA
AAAATGGAATTTTCGAAAGTTTGGGGATAAAATCATAATTTTGGGTG
Found at i:47769418 original size:23 final size:24
Alignment explanation
Indices: 47769357--47769411 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
47769347 GTATTTGGAT
*
47769357 TTGGGCTAGCCAAATTTAGCCCAA
1 TTGGGCTAGCCAAATTTAGCCAAA
47769381 TTGGGCTAGCCAAATTTAGCCAAA
1 TTGGGCTAGCCAAATTTAGCCAAA
47769405 TTGGGCT
1 TTGGGCT
47769412 TGTAAATGGA
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:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (24 bp):
TTGGGCTAGCCAAATTTAGCCAAA
Found at i:47769485 original size:17 final size:17
Alignment explanation
Indices: 47769463--47769518 Score: 62
Period size: 17 Copynumber: 3.3 Consensus size: 17
47769453 AATTTAATTT
47769463 TAAATTTAAATTCATAA
1 TAAATTTAAATTCATAA
*
47769480 TAAATTTAAATT--TTA
1 TAAATTTAAATTCATAA
*
47769495 TGCAAATTTAAATTCAAAA
1 T--AAATTTAAATTCATAA
47769514 TAAAT
1 TAAAT
47769519 CTAATTTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 3 0.09
17 27 0.84
19 2 0.06
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (17 bp):
TAAATTTAAATTCATAA
Found at i:47769536 original size:34 final size:35
Alignment explanation
Indices: 47769463--47769538 Score: 93
Period size: 34 Copynumber: 2.2 Consensus size: 35
47769453 AATTTAATTT
* * * **
47769463 TAAATTTAAATTCATAATAAATTTAAATTTTATGC
1 TAAATTTAAATTCAAAATAAATCTAAATTTAAAAC
47769498 -AAATTTAAATTCAAAATAAATCT-AATTTAAAAC
1 TAAATTTAAATTCAAAATAAATCTAAATTTAAAAC
47769531 TAAATTTA
1 TAAATTTA
47769539 TCTCATTGGG
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
33 7 0.20
34 28 0.80
ACGTcount: A:0.51, C:0.07, G:0.01, T:0.41
Consensus pattern (35 bp):
TAAATTTAAATTCAAAATAAATCTAAATTTAAAAC
Found at i:47769841 original size:26 final size:27
Alignment explanation
Indices: 47769794--47769847 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
47769784 GGTAAAAGGG
47769794 AAGGGAAAAAAAAACCAATTGAAGAGA
1 AAGGGAAAAAAAAACCAATTGAAGAGA
* * *
47769821 AAGGGAAAGAAAAA-GAGTTGAAGAGA
1 AAGGGAAAAAAAAACCAATTGAAGAGA
47769847 A
1 A
47769848 GTAGAGAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 11 0.46
27 13 0.54
ACGTcount: A:0.61, C:0.04, G:0.28, T:0.07
Consensus pattern (27 bp):
AAGGGAAAAAAAAACCAATTGAAGAGA
Found at i:47769930 original size:21 final size:21
Alignment explanation
Indices: 47769904--47769947 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
47769894 TTGCTCACCC
47769904 TTAATTTTAACAATATCATTT
1 TTAATTTTAACAATATCATTT
*
47769925 TTAATTTTAACAATGTCATTT
1 TTAATTTTAACAATATCATTT
47769946 TT
1 TT
47769948 CAAATTATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.34, C:0.09, G:0.02, T:0.55
Consensus pattern (21 bp):
TTAATTTTAACAATATCATTT
Found at i:47770937 original size:16 final size:16
Alignment explanation
Indices: 47770913--47770957 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 16
47770903 AATCCAAAAA
*
47770913 TAAAATAAAATAATTT
1 TAAATTAAAATAATTT
*
47770929 TAAATTAAAATCTATTT
1 TAAATTAAAAT-AATTT
*
47770946 TAATTTAAAATA
1 TAAATTAAAATA
47770958 TCCATAATAC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
16 10 0.42
17 14 0.58
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (16 bp):
TAAATTAAAATAATTT
Found at i:47772149 original size:29 final size:29
Alignment explanation
Indices: 47772082--47772599 Score: 537
Period size: 29 Copynumber: 17.6 Consensus size: 29
47772072 GTTCCCAAAA
* * *
47772082 TTTCTAAAATTACATTTGGACCCTCAAACC
1 TTTCCAAAATTACATTTTGACCCT-AAACT
* * *
47772112 TTTCTAAAATCACATTTTAACCCTAAACT
1 TTTCCAAAATTACATTTTGACCCTAAACT
*
47772141 TTTCCAAAATTACATTTTGATGCCTAAACT
1 TTTCCAAAATTACATTTTGA-CCCTAAACT
*
47772171 TTTCCAACATTACATTTTGACCCTTAAAC-
1 TTTCCAAAATTACATTTTGACCC-TAAACT
*
47772200 TTTCCAAAATTACATTTTGACCCTATAC-
1 TTTCCAAAATTACATTTTGACCCTAAACT
47772228 TTTCCAAAATTACATTTTGACACCTAAAC-
1 TTTCCAAAATTACATTTTGAC-CCTAAACT
* *
47772257 TTTCCATAATTACATTTTGACCCCAAACT
1 TTTCCAAAATTACATTTTGACCCTAAACT
* *
47772286 TTTCTAAAATTATATTTTGACCCCTAAAC-
1 TTTCCAAAATTACATTTTGA-CCCTAAACT
* * *
47772315 TTTCCAAAATTACATTTTAATCCCTTAA-G
1 TTTCCAAAATTACATTTTGA-CCCTAAACT
47772344 TTTCCAAAATTACATTTTGACCCTTAAACT
1 TTTCCAAAATTACATTTTGACCC-TAAACT
* *
47772374 TTTCCAAAATCATATTTTGACCCATAAACT
1 TTTCCAAAATTACATTTTGACCC-TAAACT
* * *
47772404 TTTCCAAAATCACATTTTAACCCCAAACT
1 TTTCCAAAATTACATTTTGACCCTAAACT
* *
47772433 TTTCCAAAATCATATTTT-ACCCTCAAACT
1 TTTCCAAAATTACATTTTGACCCT-AAACT
* * *
47772462 TTTCTAAAATCATATTTTGATCCCTAAACT
1 TTTCCAAAATTACATTTTGA-CCCTAAACT
* *
47772492 TTTCCAAAATCATATTTTGACCTCTCAAACT
1 TTTCCAAAATTACATTTTGACC-CT-AAACT
* *
47772523 TTTCCAAAATCATATTTTGACCCTTAAACT
1 TTTCCAAAATTACATTTTGACCC-TAAACT
* * *
47772553 TTTCTAAAATCACA-TTTGACCCTCGAACT
1 TTTCCAAAATTACATTTTGACCCT-AAACT
* * *
47772582 TATCTAAAATTTCATTTT
1 TTTCCAAAATTACATTTT
47772600 CATCTCGAGT
Statistics
Matches: 429, Mismatches: 43, Indels: 32
0.85 0.09 0.06
Matches are distributed among these distances:
28 39 0.09
29 202 0.47
30 156 0.36
31 32 0.07
ACGTcount: A:0.34, C:0.24, G:0.03, T:0.39
Consensus pattern (29 bp):
TTTCCAAAATTACATTTTGACCCTAAACT
Found at i:47772186 original size:59 final size:58
Alignment explanation
Indices: 47772082--47772575 Score: 498
Period size: 59 Copynumber: 8.4 Consensus size: 58
47772072 GTTCCCAAAA
* * * *
47772082 TTTCTAAAATTACATTTGGACCCTCAAACCTTTCTAAAATCACATTTTAACCCTAAACT
1 TTTCCAAAATTACATTTTGACCCT-AAACTTTTCCAAAATCACATTTTAACCCTAAACT
* * * *
47772141 TTTCCAAAATTACATTTTGATGCCTAAACTTTTCCAACATTACATTTTGACCCTTAAAC-
1 TTTCCAAAATTACATTTTGA-CCCTAAACTTTTCCAAAATCACATTTTAACCC-TAAACT
* * *
47772200 TTTCCAAAATTACATTTTGACCCTATAC-TTTCCAAAATTACATTTTGACACCTAAAC-
1 TTTCCAAAATTACATTTTGACCCTAAACTTTTCCAAAATCACATTTTAAC-CCTAAACT
* * * * * *
47772257 TTTCCATAATTACATTTTGACCCCAAACTTTTCTAAAATTATATTTTGACCCCTAAAC-
1 TTTCCAAAATTACATTTTGACCCTAAACTTTTCCAAAATCACATTTT-AACCCTAAACT
* * * * *
47772315 TTTCCAAAATTACATTTTAATCCCTTAA-GTTTCCAAAATTACATTTTGACCCTTAAACT
1 TTTCCAAAATTACATTTTGA-CCCTAAACTTTTCCAAAATCACATTTTAACCC-TAAACT
* * *
47772374 TTTCCAAAATCATATTTTGACCCATAAACTTTTCCAAAATCACATTTTAACCCCAAACT
1 TTTCCAAAATTACATTTTGACCC-TAAACTTTTCCAAAATCACATTTTAACCCTAAACT
* * * * *
47772433 TTTCCAAAATCATATTTT-ACCCTCAAACTTTTCTAAAATCATATTTTGATCCCTAAACT
1 TTTCCAAAATTACATTTTGACCCT-AAACTTTTCCAAAATCACATTTT-AACCCTAAACT
* * * *
47772492 TTTCCAAAATCATATTTTGACCTCTCAAACTTTTCCAAAATCATATTTTGACCCTTAAACT
1 TTTCCAAAATTACATTTTGACC-CT-AAACTTTTCCAAAATCACATTTTAACCC-TAAACT
* *
47772553 TTTCTAAAATCACA-TTTGACCCT
1 TTTCCAAAATTACATTTTGACCCT
47772576 CGAACTTATC
Statistics
Matches: 376, Mismatches: 44, Indels: 30
0.84 0.10 0.07
Matches are distributed among these distances:
57 54 0.14
58 98 0.26
59 139 0.37
60 42 0.11
61 43 0.11
ACGTcount: A:0.34, C:0.24, G:0.03, T:0.38
Consensus pattern (58 bp):
TTTCCAAAATTACATTTTGACCCTAAACTTTTCCAAAATCACATTTTAACCCTAAACT
Found at i:47776327 original size:85 final size:81
Alignment explanation
Indices: 47776170--47776607 Score: 548
Period size: 81 Copynumber: 5.4 Consensus size: 81
47776160 ACAGAAAACC
* *** * *
47776170 CCGCAAAAGGT-AGGGCAATAGCGGCGCTT-TTCCATATGCGCCGCAAAAGGTAGGGCAATAGCG
1 CCGCTAAAGGTCAGGGCAATAGCGGCGCTTATGGGA-AAGCGTCGCAAAAGGTAGGGCAATAGCG
47776233 GCGCTTATGGGAAAGCG
65 GCGCTTATGGGAAAGCG
* *
47776250 CCGCTAAAGGTCAGGGCAATAGCGGCGCTTATGGGAAAGTGTCGCTAAAGGTCAGTAGGGCAATA
1 CCGCTAAAGGTCAGGGCAATAGCGGCGCTTATGGGAAAGCGTCGC-AAAAG---GTAGGGCAATA
47776315 GCGGCGCTTATGGGAAAGCG
62 GCGGCGCTTATGGGAAAGCG
* *
47776335 CCGCTAAAGGTCAGGGCAATAGCGGCGCTTATGGGAAAGTGTCGCTAAAGGTCAGGGCAATAGCG
1 CCGCTAAAGGTCAGGGCAATAGCGGCGCTTATGGGAAAGCGTCGCAAAAGGT-AGGGCAATAGCG
47776400 GCGCTTATGGGAAAGCG
65 GCGCTTATGGGAAAGCG
* * *
47776417 TCGCAAAAGGT-AGGGCAATAGCGGCGCTTATGGGAAAGCGTCGCAAAAGGTAGGGCAATCGCGG
1 CCGCTAAAGGTCAGGGCAATAGCGGCGCTTATGGGAAAGCGTCGCAAAAGGTAGGGCAATAGCGG
*
47776481 -G--TA-GGCATAAGCG
66 CGCTTATGGGA-AAGCG
** * * * * * *
47776494 CCGCTAATTGTCAGAGAAATAGCGGCGCTTATAGGTAAGCGCCGCAAAAGGTAGGGCAATAGTGG
1 CCGCTAAAGGTCAGGGCAATAGCGGCGCTTATGGGAAAGCGTCGCAAAAGGTAGGGCAATAGCGG
*
47776559 CGCTTATGGGGAAGCG
66 CGCTTATGGGAAAGCG
*
47776575 CCGCTAAAGGTCAGGGCAATAGCAGCGCTTATG
1 CCGCTAAAGGTCAGGGCAATAGCGGCGCTTATG
47776608 AAGAAGCGCC
Statistics
Matches: 310, Mismatches: 35, Indels: 25
0.84 0.09 0.07
Matches are distributed among these distances:
76 3 0.01
77 14 0.05
78 46 0.15
79 2 0.01
80 22 0.07
81 98 0.32
82 46 0.15
84 3 0.01
85 76 0.25
ACGTcount: A:0.28, C:0.20, G:0.35, T:0.17
Consensus pattern (81 bp):
CCGCTAAAGGTCAGGGCAATAGCGGCGCTTATGGGAAAGCGTCGCAAAAGGTAGGGCAATAGCGG
CGCTTATGGGAAAGCG
Found at i:47776363 original size:24 final size:24
Alignment explanation
Indices: 47776331--47776404 Score: 63
Period size: 24 Copynumber: 3.4 Consensus size: 24
47776321 CTTATGGGAA
*
47776331 AGCGCCGCTAAAGGTCAGGGCAAT
1 AGCGGCGCTAAAGGTCAGGGCAAT
*
47776355 AGCGGCGCT-TA--T--GGG-AA-
1 AGCGGCGCTAAAGGTCAGGGCAAT
* *
47776372 AGTGTCGCTAAAGGTCAGGGCAAT
1 AGCGGCGCTAAAGGTCAGGGCAAT
47776396 AGCGGCGCT
1 AGCGGCGCT
47776405 TATGGGAAAG
Statistics
Matches: 36, Mismatches: 7, Indels: 14
0.63 0.12 0.25
Matches are distributed among these distances:
17 7 0.19
18 3 0.08
19 3 0.08
20 1 0.03
21 1 0.03
22 3 0.08
23 3 0.08
24 15 0.42
ACGTcount: A:0.26, C:0.22, G:0.36, T:0.16
Consensus pattern (24 bp):
AGCGGCGCTAAAGGTCAGGGCAAT
Found at i:47776603 original size:41 final size:41
Alignment explanation
Indices: 47776170--47776624 Score: 527
Period size: 41 Copynumber: 11.2 Consensus size: 41
47776160 ACAGAAAACC
* *** *
47776170 CCGCAAAAGGT-AGGGCAATAGCGGCGCTT-TTCCATATGCG
1 CCGCTAAAGGTCAGGGCAATAGCGGCGCTTATGGGA-AAGCG
*
47776210 CCGCAAAAGGT-AGGGCAATAGCGGCGCTTATGGGAAAGCG
1 CCGCTAAAGGTCAGGGCAATAGCGGCGCTTATGGGAAAGCG
*
47776250 CCGCTAAAGGTCAGGGCAATAGCGGCGCTTATGGGAAAGTG
1 CCGCTAAAGGTCAGGGCAATAGCGGCGCTTATGGGAAAGCG
*
47776291 TCGCTAAAGGTCAGTAGGGCAATAGCGGCGCTTATGGGAAAGCG
1 CCGCTAAAGGTC---AGGGCAATAGCGGCGCTTATGGGAAAGCG
*
47776335 CCGCTAAAGGTCAGGGCAATAGCGGCGCTTATGGGAAAGTG
1 CCGCTAAAGGTCAGGGCAATAGCGGCGCTTATGGGAAAGCG
*
47776376 TCGCTAAAGGTCAGGGCAATAGCGGCGCTTATGGGAAAGCG
1 CCGCTAAAGGTCAGGGCAATAGCGGCGCTTATGGGAAAGCG
* *
47776417 TCGCAAAAGGT-AGGGCAATAGCGGCGCTTATGGGAAAGCG
1 CCGCTAAAGGTCAGGGCAATAGCGGCGCTTATGGGAAAGCG
* * * *
47776457 TCGCAAAAGGT-AGGGCAATCGCGG-G--TA-GGCATAAGCG
1 CCGCTAAAGGTCAGGGCAATAGCGGCGCTTATGGGA-AAGCG
** * * * *
47776494 CCGCTAATTGTCAGAGAAATAGCGGCGCTTATAGGTAAGCG
1 CCGCTAAAGGTCAGGGCAATAGCGGCGCTTATGGGAAAGCG
* * *
47776535 CCGCAAAAGGT-AGGGCAATAGTGGCGCTTATGGGGAAGCG
1 CCGCTAAAGGTCAGGGCAATAGCGGCGCTTATGGGAAAGCG
* *
47776575 CCGCTAAAGGTCAGGGCAATAGCAGCGCTTAT-GAAGAAGCG
1 CCGCTAAAGGTCAGGGCAATAGCGGCGCTTATGGGA-AAGCG
*
47776616 CCTCTAAAG
1 CCGCTAAAG
47776625 CTCAATAATA
Statistics
Matches: 363, Mismatches: 39, Indels: 25
0.85 0.09 0.06
Matches are distributed among these distances:
36 3 0.01
37 14 0.04
38 10 0.03
39 2 0.01
40 130 0.36
41 164 0.45
42 1 0.00
44 39 0.11
ACGTcount: A:0.28, C:0.20, G:0.35, T:0.17
Consensus pattern (41 bp):
CCGCTAAAGGTCAGGGCAATAGCGGCGCTTATGGGAAAGCG
Found at i:47776644 original size:118 final size:117
Alignment explanation
Indices: 47776170--47776624 Score: 416
Period size: 118 Copynumber: 3.8 Consensus size: 117
47776160 ACAGAAAACC
*** * *
47776170 CCGCAAAAGGTAGGGCAATAGCGGCGCTT-TTCCATATGCGCCGCAAAAGGT-AGGGCAATAGCG
1 CCGCAAAAGGTAGGGCAATAGCGGCGCTTATGGGA-AAGCGCCGCTAAAGGTCAGGGCAATAGC-
* ** * *
47776233 GCGCTTATGGGAAAGCGCCGCTAAAGGTCAGGGCAATAGCGGCGCTTATGGGAAAGTG
64 GCGCTTATGAG-AAGCGCCGCTAAA-GTCA-GAAAATA-CGGCGCTTATAGGAAAGCG
* *
47776291 TCGCTAAAGGTCAGTAGGGCAATAGCGGCGCTTATGGGAAAGCGCCGCTAAAGGTCAGGGCAATA
1 CCGC-AAAAG---GTAGGGCAATAGCGGCGCTTATGGGAAAGCGCCGCTAAAGGTCAGGGCAATA
* * * ** *
47776356 GCGGCGCTTATGGGAAAGTGTCGCTAAAGGTCAGGGCAATAGCGGCGCTTATGGGAAAGCG
62 GC-GCGCTTATGAG-AAGCGCCGCTAAA-GTCA-GAAAATA-CGGCGCTTATAGGAAAGCG
* * *
47776417 TCGCAAAAGGTAGGGCAATAGCGGCGCTTATGGGAAAGCGTCGCAAAAGGT-AGGGCAAT--CGC
1 CCGCAAAAGGTAGGGCAATAGCGGCGCTTATGGGAAAGCGCCGCTAAAGGTCAGGGCAATAGCGC
** * * * *
47776479 GGGTAGGCATAAGCGCCGCTAATTGTCAGAGAAATAGCGGCGCTTATAGGTAAGCG
66 GCTTATG-AGAAGCGCCGCTAA-AGTCAGA-AAATA-CGGCGCTTATAGGAAAGCG
* *
47776535 CCGCAAAAGGTAGGGCAATAGTGGCGCTTATGGGGAAGCGCCGCTAAAGGTCAGGGCAATAGCAG
1 CCGCAAAAGGTAGGGCAATAGCGGCGCTTATGGGAAAGCGCCGCTAAAGGTCAGGGCAATAGC-G
*
47776600 CGCTTATGAAGAAGCGCCTCTAAAG
65 CGCTTATG-AGAAGCGCCGCTAAAG
47776625 CTCAATAATA
Statistics
Matches: 284, Mismatches: 37, Indels: 26
0.82 0.11 0.07
Matches are distributed among these distances:
117 1 0.00
118 88 0.31
119 9 0.03
121 13 0.05
122 62 0.22
125 38 0.13
126 73 0.26
ACGTcount: A:0.28, C:0.20, G:0.35, T:0.17
Consensus pattern (117 bp):
CCGCAAAAGGTAGGGCAATAGCGGCGCTTATGGGAAAGCGCCGCTAAAGGTCAGGGCAATAGCGC
GCTTATGAGAAGCGCCGCTAAAGTCAGAAAATACGGCGCTTATAGGAAAGCG
Found at i:47780607 original size:42 final size:43
Alignment explanation
Indices: 47780545--47780804 Score: 314
Period size: 42 Copynumber: 6.1 Consensus size: 43
47780535 TGTTAATGGT
* * *
47780545 GTTTGTG-GAAAAGTGTCGCTAAAGAACATG-TCTTTAGCGGC
1 GTTTGTGAGAAAAGCGCCGCTAAAGACCATGTTCTTTAGCGGC
* * *
47780586 GTTTGTGAGAAAAGCGCCGCTAAAGAACATG-ACTTTCGCGGC
1 GTTTGTGAGAAAAGCGCCGCTAAAGACCATGTTCTTTAGCGGC
* *
47780628 GTTTGTGAGAAAAACGCCGCTAAAGACCACGTTCTTTAGCGGC
1 GTTTGTGAGAAAAGCGCCGCTAAAGACCATGTTCTTTAGCGGC
* * *
47780671 GTTTGTG-GAAAAAGCGCCGCTAAAGACCATGATCTATAGTGGC
1 GTTTGTGAG-AAAAGCGCCGCTAAAGACCATGTTCTTTAGCGGC
* * *
47780714 ATTTGTCA-AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGC
1 GTTTGTGAGAAAAGCGCCGCTAAAGACCATGTTCTTTAGCGGC
* * *
47780756 ATTTGTGAGATAAGCGCCGCTAAAGAGCATGTTCTTTAGCGGC
1 GTTTGTGAGAAAAGCGCCGCTAAAGACCATGTTCTTTAGCGGC
*
47780799 ATTTGT
1 GTTTGT
47780805 CCTCATAAAC
Statistics
Matches: 190, Mismatches: 24, Indels: 8
0.86 0.11 0.04
Matches are distributed among these distances:
41 7 0.04
42 96 0.51
43 87 0.46
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (43 bp):
GTTTGTGAGAAAAGCGCCGCTAAAGACCATGTTCTTTAGCGGC
Found at i:47780694 original size:85 final size:84
Alignment explanation
Indices: 47780561--47780805 Score: 332
Period size: 85 Copynumber: 2.9 Consensus size: 84
47780551 GGAAAAGTGT
* *
47780561 CGCTAAAGAACATG-TCTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGAACATGACTTTCGC
1 CGCTAAAGACCATGTTCTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGAACATGACTTTAGC
* *
47780625 GGCGTTTGTGAGAAAAACGC
66 GGCATTTGTCA-AAAAACGC
* * *
47780645 CGCTAAAGACCACGTTCTTTAGCGGCGTTTGTG-GAAAAAGCGCCGCTAAAGACCATGATCTATA
1 CGCTAAAGACCATGTTCTTTAGCGGCGTTTGTGAG-AAAAGCGCCGCTAAAGAACATGA-CTTTA
*
47780709 GTGGCATTTGTCAAAAAACGC
64 GCGGCATTTGTCAAAAAACGC
* * * *
47780730 CGCTAAAGACCATGTTCTTTAGCGGCATTTGTGAGATAAGCGCCGCTAAAGAGCATGTTCTTTAG
1 CGCTAAAGACCATGTTCTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGAACATG-ACTTTAG
47780795 CGGCATTTGTC
65 CGGCATTTGTC
47780806 CTCATAAACG
Statistics
Matches: 141, Mismatches: 15, Indels: 9
0.85 0.09 0.05
Matches are distributed among these distances:
84 13 0.09
85 114 0.81
86 14 0.10
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.25
Consensus pattern (84 bp):
CGCTAAAGACCATGTTCTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGAACATGACTTTAGC
GGCATTTGTCAAAAAACGC
Found at i:47788207 original size:52 final size:52
Alignment explanation
Indices: 47788125--47788310 Score: 291
Period size: 52 Copynumber: 3.6 Consensus size: 52
47788115 AATGAAAAAG
* *
47788125 GGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGTATTATGA
1 GGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGA
* *
47788177 GGTTCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGGTTATGA
1 GGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGA
* * ** *
47788229 GGTCCGATGACTATGTGTCATCGTGAGTGTATGATTCCTTTACGGAACAAGA
1 GGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGA
47788281 GGTCCGATGACTATGTGTCATCGTGAGTAT
1 GGTCCGATGACTATGTGTCATCGTGAGTAT
47788311 TAAAGAAAAT
Statistics
Matches: 122, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 122 1.00
ACGTcount: A:0.24, C:0.15, G:0.26, T:0.35
Consensus pattern (52 bp):
GGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGA
Found at i:47795904 original size:32 final size:32
Alignment explanation
Indices: 47795863--47795931 Score: 138
Period size: 32 Copynumber: 2.2 Consensus size: 32
47795853 TTAGTGGCTG
47795863 CCCATTTACAAGTCTCTGGTGTTACGATATTT
1 CCCATTTACAAGTCTCTGGTGTTACGATATTT
47795895 CCCATTTACAAGTCTCTGGTGTTACGATATTT
1 CCCATTTACAAGTCTCTGGTGTTACGATATTT
47795927 CCCAT
1 CCCAT
47795932 GCCGACGAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.22, C:0.25, G:0.14, T:0.39
Consensus pattern (32 bp):
CCCATTTACAAGTCTCTGGTGTTACGATATTT
Found at i:47798743 original size:17 final size:17
Alignment explanation
Indices: 47798721--47798759 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
47798711 CTCTACCTTG
* *
47798721 ACAAGAATTCTCTACGA
1 ACAAGAACTCTCAACGA
47798738 ACAAGAACTCTCAACGA
1 ACAAGAACTCTCAACGA
47798755 ACAAG
1 ACAAG
47798760 TTCTCCACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.26, G:0.13, T:0.15
Consensus pattern (17 bp):
ACAAGAACTCTCAACGA
Found at i:47802961 original size:19 final size:19
Alignment explanation
Indices: 47802922--47802973 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 19
47802912 TATGCTTCAT
47802922 ATTATTTTTTGATTTTTTAA
1 ATTA-TTTTTGATTTTTTAA
47802942 A-TATTTTT-ATTATTTCTAA
1 ATTATTTTTGATT-TTT-TAA
47802961 ATTATTTATTGAT
1 ATTATTT-TTGAT
47802974 ATGACATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 3 0.11
18 8 0.30
19 6 0.22
20 6 0.22
21 2 0.07
22 2 0.07
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (19 bp):
ATTATTTTTGATTTTTTAA
Found at i:47804665 original size:6 final size:6
Alignment explanation
Indices: 47804654--47804679 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
47804644 ATTCATTCTG
47804654 TAATTA TAATTA TAATTA TAATTA TA
1 TAATTA TAATTA TAATTA TAATTA TA
47804680 GTATCTCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TAATTA
Found at i:47826089 original size:21 final size:21
Alignment explanation
Indices: 47826063--47826119 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
47826053 ATTTTGCACA
*
47826063 CTTGTTTCGGTAGAACTTTTG
1 CTTGTTTCGGTAGAACTTATG
47826084 CTTGTTTCGGTAGAACTTATG
1 CTTGTTTCGGTAGAACTTATG
*
47826105 CTTGTATCGGTAGAA
1 CTTGTTTCGGTAGAA
47826120 GTACAAAGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.19, C:0.14, G:0.25, T:0.42
Consensus pattern (21 bp):
CTTGTTTCGGTAGAACTTATG
Found at i:47832868 original size:19 final size:20
Alignment explanation
Indices: 47832833--47832874 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
47832823 TTCATACTAT
*
47832833 TTTTTGATTTTTTTAAA-TA
1 TTTTTGATTTTTCTAAATTA
47832852 TTTTT-ATTATTTCTAAATTA
1 TTTTTGATT-TTTCTAAATTA
47832872 TTT
1 TTT
47832875 ATAGATATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 3 0.15
19 12 0.60
20 5 0.25
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (20 bp):
TTTTTGATTTTTCTAAATTA
Found at i:47839938 original size:29 final size:28
Alignment explanation
Indices: 47839773--47839999 Score: 95
Period size: 29 Copynumber: 7.8 Consensus size: 28
47839763 CCTGGATACC
* * *
47839773 CGAGGGCAAAATGGTAATTTTGGGACTCT
1 CGAGGGTAAAATGGTAATTTTTGGAC-AT
* * * *
47839802 CGGGGGCAAAATGGTAATTTTGGGAAAAT
1 CGAGGGTAAAATGGTAATTTTTGG-ACAT
** * * *
47839831 TTAGGGTTAAAATGAT-A-TTTTAGACGTT
1 CGAGGG-TAAAATGGTAATTTTTGGAC-AT
*
47839859 CGAGGGTAAAATGGTAATTTTTGGAAAAAT
1 CGAGGGTAAAATGGTAATTTTTGG--ACAT
* * *
47839889 CGA-GATCAAAAACGG-ATTTTTTGGACAT
1 CGAGGGT--AAAATGGTAATTTTTGGACAT
* *
47839917 CCGAGGGTAAAATGGTAATTTTTAGAAAAAAT
1 -CGAGGGTAAAATGGTAATTTTT-G--GACAT
**
47839949 CGAGATTAAAAATGG-AATTTTTGGACATT
1 CGAGGGT-AAAATGGTAATTTTTGGACA-T
* *
47839978 TGGGGGTAAAATGGTAATTTTT
1 CGAGGGTAAAATGGTAATTTTT
47840000 AGAAGAATCA
Statistics
Matches: 145, Mismatches: 35, Indels: 36
0.67 0.16 0.17
Matches are distributed among these distances:
27 9 0.06
28 28 0.19
29 55 0.38
30 24 0.17
31 19 0.13
32 10 0.07
ACGTcount: A:0.35, C:0.07, G:0.26, T:0.32
Consensus pattern (28 bp):
CGAGGGTAAAATGGTAATTTTTGGACAT
Found at i:47839976 original size:60 final size:59
Alignment explanation
Indices: 47839848--47840174 Score: 317
Period size: 59 Copynumber: 5.6 Consensus size: 59
47839838 TAAAATGATA
* * * * *
47839848 TTTTAGACGTTCGAGGGTAAAATGGTAATTTTTGGAAAAATCGAGATCAAAAACGGATT
1 TTTTGGACATTCGAGGGTAAAATGGTAATTTTTAGAAAAATCGAGATCAAAAATGGAAT
* *
47839907 TTTTGGACATCCGAGGGTAAAATGGTAATTTTTAGAAAAAATCGAGATTAAAAATGGAAT
1 TTTTGGACATTCGAGGGTAAAATGGTAATTTTTAG-AAAAATCGAGATCAAAAATGGAAT
* * * *
47839967 TTTTGGACATTTGGGGGTAAAATGGTAATTTTTAGAAGAATC-AGGATAAAAAATGGAAT
1 TTTTGGACATTCGAGGGTAAAATGGTAATTTTTAGAAAAATCGA-GATCAAAAATGGAAT
* * * * * ** ** **
47840026 TTTTGGATATTTG-GGGACAAAAAT-GTAA-TTTTGGGAAGTTCGAGGGCAAAAATAAAAT
1 TTTTGGACATTCGAGGG--TAAAATGGTAATTTTTAGAAAAATCGAGATCAAAAATGGAAT
* * * *
47840084 TTTTGAACATTCGGGGGTAAAATGGTAATTTTTAGAAGAATCGAGATC-AAAATGGAAA
1 TTTTGGACATTCGAGGGTAAAATGGTAATTTTTAGAAAAATCGAGATCAAAAATGGAAT
47840142 TTTTGGACATTC-AGGGGTAAAAAT-GTAATTTTT
1 TTTTGGACATTCGA-GGGT-AAAATGGTAATTTTT
47840175 GGAAGTTTCA
Statistics
Matches: 218, Mismatches: 40, Indels: 21
0.78 0.14 0.08
Matches are distributed among these distances:
57 5 0.02
58 67 0.31
59 88 0.40
60 58 0.27
ACGTcount: A:0.38, C:0.06, G:0.24, T:0.32
Consensus pattern (59 bp):
TTTTGGACATTCGAGGGTAAAATGGTAATTTTTAGAAAAATCGAGATCAAAAATGGAAT
Found at i:47840194 original size:117 final size:116
Alignment explanation
Indices: 47839857--47840204 Score: 355
Period size: 117 Copynumber: 2.9 Consensus size: 116
47839847 ATTTTAGACG
* * * * * *
47839857 TTCGAGGGTAAAATGGTAATTTTTGGAAAAATCGAGATCAAAAACGGATTTTTTGGACA-TCCGA
1 TTCGGGGGTAAAATGGTAATTTTTAGAAGAATCGAGATC-AAAATGGAATTTTTGGACATTCAG-
* ** ** *
47839921 GGGT-AAAATGGTAATTTTTAGAAAAAATCGA-GATTAAAAATGGAATTTTTGGACA
64 GGGTAAAAAT-GTAATTTTT-G-GAAGTTCGAGGA-TAAAAATAAAATTTTTGAACA
* * * *
47839976 TTTGGGGGTAAAATGGTAATTTTTAGAAGAATC-AGGATAAAAAATGGAATTTTTGGATATT-TG
1 TTCGGGGGTAAAATGGTAATTTTTAGAAGAATCGA-GAT-CAAAATGGAATTTTTGGACATTCAG
* * **
47840039 GGGACAAAAATGTAATTTTGGGAAGTTCGAGGGCAAAAATAAAATTTTTGAACA
64 GGG-TAAAAATGTAATTTTTGGAAGTTCGAGGATAAAAATAAAATTTTTGAACA
*
47840093 TTCGGGGGTAAAATGGTAATTTTTAGAAGAATCGAGATCAAAATGGAAATTTTGGACATTCAGGG
1 TTCGGGGGTAAAATGGTAATTTTTAGAAGAATCGAGATCAAAATGGAATTTTTGGACATTCAGGG
* *
47840158 GTAAAAATGTAATTTTTGGAAGTTTCAAGGATAAAAATGTAAATTTT
66 GTAAAAATGTAATTTTTGGAAG-TTCGAGGATAAAAAT-AAAATTTT
47840205 GGAAGTTTTA
Statistics
Matches: 189, Mismatches: 30, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
116 38 0.20
117 74 0.39
118 14 0.07
119 57 0.30
120 6 0.03
ACGTcount: A:0.39, C:0.06, G:0.24, T:0.32
Consensus pattern (116 bp):
TTCGGGGGTAAAATGGTAATTTTTAGAAGAATCGAGATCAAAATGGAATTTTTGGACATTCAGGG
GTAAAAATGTAATTTTTGGAAGTTCGAGGATAAAAATAAAATTTTTGAACA
Found at i:47840196 original size:59 final size:58
Alignment explanation
Indices: 47839780--47840238 Score: 269
Period size: 59 Copynumber: 7.8 Consensus size: 58
47839770 ACCCGAGGGC
* * * * * * * *
47839780 AAAATGGTAATTTTGGGAC-TCTCGGGGGCAAAATGGTAATTTTGGGAAAATT-TAGGGTT
1 AAAATGGAAATTTT-GGACAT-TCAGGGGTAAAAT-GTAATTTTTGGAAGATTCGAGGATA
* * * * *
47839839 AAAAT-GATATTTTAGACGTTC-GAGGGTAAAATGGTAATTTTTGGAAAAATCGA-GATCA
1 AAAATGGAAATTTTGGACATTCAG-GGGTAAAAT-GTAATTTTTGGAAGATTCGAGGAT-A
* ** * * * *
47839897 AAAACGGATTTTTTGGACA-TCCGAGGGTAAAATGGTAATTTTTAGAAAAAATCGA-GATTA
1 AAAATGGAAATTTTGGACATTCAG-GGGTAAAAT-GTAATTTTT-GGAAGATTCGAGGA-TA
* ** * *
47839957 AAAATGGAATTTTTGGACATTTGGGGGTAAAATGGTAATTTTTAGAAGAATC-AGGATAA
1 AAAATGGAAATTTTGGACATTCAGGGGTAAAAT-GTAATTTTTGGAAGATTCGAGGAT-A
* * * * * **
47840016 AAAATGGAATTTTTGGATATT-TGGGGACAAAAATGTAATTTTGGGAAG-TTCGAGGGCA
1 AAAATGGAAATTTTGGACATTCAGGGG--TAAAATGTAATTTTTGGAAGATTCGAGGATA
* * * * * *
47840074 AAAAT-AAAATTTTTGAACATTCGGGGGTAAAATGGTAATTTTTAGAAGAATCGA-GATC
1 AAAATGGAAA-TTTTGGACATTCAGGGGTAAAAT-GTAATTTTTGGAAGATTCGAGGATA
* *
47840132 AAAATGGAAATTTTGGACATTCAGGGGTAAAAATGTAATTTTTGGAAGTTTCAAGGATA
1 AAAATGGAAATTTTGGACATTCAGGGGT-AAAATGTAATTTTTGGAAGATTCGAGGATA
* * *
47840191 AAAATGTAAATTTTGGA-AGTTTTAGGGTTAAAATGTAATTTTTGGAAG
1 AAAATGGAAATTTTGGACA--TTCAGGGGTAAAATGTAATTTTTGGAAG
47840239 TTTTAGGGTC
Statistics
Matches: 325, Mismatches: 52, Indels: 46
0.77 0.12 0.11
Matches are distributed among these distances:
56 1 0.00
57 38 0.12
58 88 0.27
59 134 0.41
60 61 0.19
61 3 0.01
ACGTcount: A:0.38, C:0.05, G:0.25, T:0.32
Consensus pattern (58 bp):
AAAATGGAAATTTTGGACATTCAGGGGTAAAATGTAATTTTTGGAAGATTCGAGGATA
Found at i:47840241 original size:29 final size:29
Alignment explanation
Indices: 47840156--47840265 Score: 157
Period size: 29 Copynumber: 3.8 Consensus size: 29
47840146 GGACATTCAG
*
47840156 GGGTAAAAATGTAATTTTTGGAAGTTTCAA
1 GGGTAAAAATGTAATTTTTGGAAGTTT-TA
* *
47840186 GGATAAAAATGTAAATTTTGGAAGTTTTA
1 GGGTAAAAATGTAATTTTTGGAAGTTTTA
*
47840215 GGGTTAAAATGTAATTTTTGGAAGTTTTA
1 GGGTAAAAATGTAATTTTTGGAAGTTTTA
* *
47840244 GGGTCAAAATATAATTTTTGGA
1 GGGTAAAAATGTAATTTTTGGA
47840266 CAATTTAGAG
Statistics
Matches: 72, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
29 47 0.65
30 25 0.35
ACGTcount: A:0.36, C:0.02, G:0.23, T:0.39
Consensus pattern (29 bp):
GGGTAAAAATGTAATTTTTGGAAGTTTTA
Found at i:47840272 original size:29 final size:28
Alignment explanation
Indices: 47839955--47840273 Score: 133
Period size: 29 Copynumber: 10.9 Consensus size: 28
47839945 AAATCGAGAT
* * *
47839955 TAAAAATGGAATTTTTGGACATTTGGGGG
1 TAAAAATGTAATTTTTGGAAATTT-AGGG
* * * *
47839984 T-AAAATGGTAATTTTTAGAAGAATCAGGA
1 TAAAAAT-GTAATTTTTGGAA-ATTTAGGG
* * *
47840013 TAAAAAATGGAATTTTTGGATATTTGGGG
1 T-AAAAATGTAATTTTTGGAAATTTAGGG
* * * *
47840042 ACAAAAATGTAATTTTGGGAAGTTCGAGGG
1 -TAAAAATGTAATTTTTGGAAATT-TAGGG
* ** **
47840072 CAAAAATAAAATTTTT-GAACATTCGGGGG
1 TAAAAATGTAATTTTTGGAA-ATT-TAGGG
* * * *
47840101 T-AAAATGGTAATTTTTAGAAGA-ATCGAGA
1 TAAAAAT-GTAATTTTTGGAA-ATTTAG-GG
* * * * *
47840130 TCAAAATGGAAATTTTGGACATTCAGGGG
1 TAAAAATGTAATTTTTGGAAATTTA-GGG
* *
47840159 TAAAAATGTAATTTTTGGAAGTTTCAAGGA
1 TAAAAATGTAATTTTTGGAAATTT--AGGG
* *
47840189 TAAAAATGTAAATTTTGGAAGTTTTAGGG
1 TAAAAATGTAATTTTTGGAA-ATTTAGGG
* *
47840218 TTAAAATGTAATTTTTGGAAGTTTTAGGG
1 TAAAAATGTAATTTTTGGAA-ATTTAGGG
* *
47840247 TCAAAATATAATTTTTGGACAATTTAG
1 TAAAAATGTAATTTTTGGA-AATTTAG
47840274 AGACCTCCAA
Statistics
Matches: 216, Mismatches: 57, Indels: 34
0.70 0.19 0.11
Matches are distributed among these distances:
28 15 0.07
29 145 0.67
30 47 0.22
31 9 0.04
ACGTcount: A:0.38, C:0.04, G:0.24, T:0.34
Consensus pattern (28 bp):
TAAAAATGTAATTTTTGGAAATTTAGGG
Found at i:47841421 original size:19 final size:19
Alignment explanation
Indices: 47841399--47841443 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
47841389 TTATATTAGG
47841399 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATGT
* *
47841418 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATATGT
47841437 ATTTAAT
1 ATTTAAT
47841444 TTATGTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATATGT
Found at i:47843313 original size:58 final size:58
Alignment explanation
Indices: 47843217--47843445 Score: 174
Period size: 58 Copynumber: 4.0 Consensus size: 58
47843207 AGACACTTAA
* ** * *
47843217 GGGTAAAATGGTAATTTTTGAAAGAATCG-GGATC-AAAATAAGACTTTTTGGACG-TCAG
1 GGGTAAAATGGTAATTTTTGGAAGTTTCGAGG-TCAAAAAT-AGAATTTTTGGAAGTTC-G
* *
47843275 GGGTAAAATGGTAA-TTTTGGGAGTTTCGAGGTCAAAAATGGAATTTTTGGAAGTTCG
1 GGGTAAAATGGTAATTTTTGGAAGTTTCGAGGTCAAAAATAGAATTTTTGGAAGTTCG
* * *
47843332 GGGTCAAAAATGG-AATTTTTGGAAGTTTGGAGG-C-AAAAT-GTAGTTTTTGAAAGTTTCG
1 GGGT--AAAATGGTAATTTTTGGAAGTTTCGAGGTCAAAAATAG-AATTTTTGGAAG-TTCG
* * *
47843390 GGGTCAAAAATGG-AATTCTTGGAAG-TTCGAGGGCAAAAAT-GTAATTTTTGAAAGTT
1 GGGT--AAAATGGTAATTTTTGGAAGTTTCGAGGTCAAAAATAG-AATTTTTGGAAGTT
47843446 TTGAGGTCAA
Statistics
Matches: 147, Mismatches: 14, Indels: 20
0.81 0.08 0.11
Matches are distributed among these distances:
56 1 0.01
57 49 0.33
58 57 0.39
59 40 0.27
ACGTcount: A:0.33, C:0.07, G:0.28, T:0.32
Consensus pattern (58 bp):
GGGTAAAATGGTAATTTTTGGAAGTTTCGAGGTCAAAAATAGAATTTTTGGAAGTTCG
Found at i:47843319 original size:29 final size:29
Alignment explanation
Indices: 47843279--47843470 Score: 194
Period size: 29 Copynumber: 6.6 Consensus size: 29
47843269 CGTCAGGGGT
*
47843279 AAAATGGTAATTTTGGGAGTTTCGAGGTCA
1 AAAATGG-AATTTTGGAAGTTTCGAGGTCA
*
47843309 AAAATGGAATTTTTGGAAG-TTCGGGGTCA
1 AAAATGGAA-TTTTGGAAGTTTCGAGGTCA
*
47843338 AAAATGGAATTTTTGGAAGTTTGGAGG-C-
1 AAAATGGAA-TTTTGGAAGTTTCGAGGTCA
* * * *
47843366 AAAATGTAGTTTTTGAAAGTTTCGGGGTCA
1 AAAATGGA-ATTTTGGAAGTTTCGAGGTCA
*
47843396 AAAATGGAATTCTTGGAAG-TTCGAGGGCA
1 AAAATGGAATT-TTGGAAGTTTCGAGGTCA
* * *
47843425 AAAATGTAATTTTTGAAAGTTTTGAGGTCA
1 AAAATGGAA-TTTTGGAAGTTTCGAGGTCA
*
47843455 AAAATGTAATTTTGGA
1 AAAATGGAATTTTGGA
47843471 GAAGTTAGGG
Statistics
Matches: 135, Mismatches: 19, Indels: 17
0.79 0.11 0.10
Matches are distributed among these distances:
28 21 0.16
29 62 0.46
30 52 0.39
ACGTcount: A:0.33, C:0.06, G:0.28, T:0.33
Consensus pattern (29 bp):
AAAATGGAATTTTGGAAGTTTCGAGGTCA
Found at i:47843380 original size:87 final size:89
Alignment explanation
Indices: 47843279--47843476 Score: 260
Period size: 87 Copynumber: 2.2 Consensus size: 89
47843269 CGTCAGGGGT
** *
47843279 AAAATGGTAA-TTTTGGGAGTTTCGAGGTCAAAAATGGAATTTTTGGAAGTTCG-GGGTCAAAAA
1 AAAAT-GTAATTTTTGAAAGTTTCGAGGTCAAAAATGGAATTCTTGGAAGTTCGAGGG-CAAAAA
*
47843342 TGGAATTTTTGGAAGTTTGGAGG-C-
64 TGGAATTTTTGAAAGTTTGGAGGTCA
* *
47843366 AAAATGTAGTTTTTGAAAGTTTCGGGGTCAAAAATGGAATTCTTGGAAGTTCGAGGGCAAAAATG
1 AAAATGTAATTTTTGAAAGTTTCGAGGTCAAAAATGGAATTCTTGGAAGTTCGAGGGCAAAAATG
* *
47843431 TAATTTTTGAAAGTTTTGAGGTCA
66 GAATTTTTGAAAGTTTGGAGGTCA
*
47843455 AAAATGTAATTTTGGAGAAGTT
1 AAAATGTAATTTTTGA-AAGTT
47843477 AGGGGGTCAA
Statistics
Matches: 96, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
86 3 0.03
87 70 0.73
88 4 0.04
89 14 0.15
90 5 0.05
ACGTcount: A:0.33, C:0.06, G:0.28, T:0.33
Consensus pattern (89 bp):
AAAATGTAATTTTTGAAAGTTTCGAGGTCAAAAATGGAATTCTTGGAAGTTCGAGGGCAAAAATG
GAATTTTTGAAAGTTTGGAGGTCA
Found at i:47843470 original size:58 final size:58
Alignment explanation
Indices: 47843279--47843470 Score: 237
Period size: 59 Copynumber: 3.3 Consensus size: 58
47843269 CGTCAGGGGT
* * * *
47843279 AAAATGGTAATTTTGGGAGTTTCGAGGTCAAAAATGGAATTTTTGGAAG-TTCGGGGTCA
1 AAAATGG-AATTTTGGAAG-TTCGAGGGCAAAAATGTAATTTTTGAAAGTTTCGGGGTCA
* *
47843338 AAAATGGAATTTTTGGAAGTTTG-GAGGC-AAAATGTAGTTTTTGAAAGTTTCGGGGTCA
1 AAAATGGAA-TTTTGGAAGTTCGAG-GGCAAAAATGTAATTTTTGAAAGTTTCGGGGTCA
* *
47843396 AAAATGGAATTCTTGGAAGTTCGAGGGCAAAAATGTAATTTTTGAAAGTTTTGAGGTCA
1 AAAATGGAATT-TTGGAAGTTCGAGGGCAAAAATGTAATTTTTGAAAGTTTCGGGGTCA
*
47843455 AAAATGTAATTTTGGA
1 AAAATGGAATTTTGGA
47843471 GAAGTTAGGG
Statistics
Matches: 116, Mismatches: 11, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
57 19 0.16
58 44 0.38
59 53 0.46
ACGTcount: A:0.33, C:0.06, G:0.28, T:0.33
Consensus pattern (58 bp):
AAAATGGAATTTTGGAAGTTCGAGGGCAAAAATGTAATTTTTGAAAGTTTCGGGGTCA
Found at i:47843833 original size:32 final size:33
Alignment explanation
Indices: 47843771--47843837 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 33
47843761 TTATTGGGCC
*
47843771 AAATTAAAATAAATTAAAAGTATCAAAAGGACT
1 AAATTAAAATAAATTAAAAGAATCAAAAGGACT
* *
47843804 AAATTAAAA-CAATTAAAA-AATGCAGAAGGACT
1 AAATTAAAATAAATTAAAAGAAT-CAAAAGGACT
47843836 AA
1 AA
47843838 TTGAATAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
31 2 0.07
32 19 0.63
33 9 0.30
ACGTcount: A:0.61, C:0.07, G:0.10, T:0.21
Consensus pattern (33 bp):
AAATTAAAATAAATTAAAAGAATCAAAAGGACT
Done.