Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold506
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: 486993
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 3 of 3
Found at i:437148 original size:20 final size:20
Alignment explanation
Indices: 437123--437213 Score: 137
Period size: 20 Copynumber: 4.5 Consensus size: 20
437113 AATCCAGAAC
*
437123 GTATCGATACAATGAGCAGT
1 GTATCGATACAATGAGCAAT
*
437143 GTATCGATACAATGACCAAT
1 GTATCGATACAATGAGCAAT
* *
437163 GTATCGATACAATGCGAAAT
1 GTATCGATACAATGAGCAAT
*
437183 GTATCGATACAATGAACAAT
1 GTATCGATACAATGAGCAAT
437203 GTATCGATACA
1 GTATCGATACA
437214 GATTGTGAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 63 1.00
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.25
Consensus pattern (20 bp):
GTATCGATACAATGAGCAAT
Found at i:438077 original size:45 final size:45
Alignment explanation
Indices: 437861--438086 Score: 166
Period size: 43 Copynumber: 5.1 Consensus size: 45
437851 CGTCCCATTT
* * * * *
437861 TTTGAGGAC-AAA-GGAAAAAAAGAAAACGAAATGCGTCCTACTC
1 TTTGAGGACAAAAGGGAAAAGAAGGAAATGAAATGTGTCCTGCTC
* * * *
437904 TTTGAGGATAAAA--G-AAA-AAGGAAAAT-AAAGGGCGCCCTGCTC
1 TTTGAGGACAAAAGGGAAAAGAAGG-AAATGAAA-TGTGTCCTGCTC
* * * *
437946 TTTGAGGACAAAAGGGGGAAAATAAGGAAATGGAACGTGTCCTACTC
1 TTTGAGGACAAAA--GGGAAAAGAAGGAAATGAAATGTGTCCTGCTC
* *
437993 TTTGAGGAC-AAA-GGAGAAG-AGGAAAATAAAATGTGTCCTGCTC
1 TTTGAGGACAAAAGGGAAAAGAAGG-AAATGAAATGTGTCCTGCTC
* * * *
438036 GTTGAAGACAAAAGGGAAAAGAAGGAAATGAAATGTCTCCTGCTT
1 TTTGAGGACAAAAGGGAAAAGAAGGAAATGAAATGTGTCCTGCTC
438081 TTTGAG
1 TTTGAG
438087 AATAAAGGAG
Statistics
Matches: 143, Mismatches: 26, Indels: 26
0.73 0.13 0.13
Matches are distributed among these distances:
41 6 0.04
42 30 0.21
43 37 0.26
44 6 0.04
45 27 0.19
46 7 0.05
47 24 0.17
48 6 0.04
ACGTcount: A:0.41, C:0.13, G:0.27, T:0.19
Consensus pattern (45 bp):
TTTGAGGACAAAAGGGAAAAGAAGGAAATGAAATGTGTCCTGCTC
Found at i:438095 original size:88 final size:89
Alignment explanation
Indices: 437873--438106 Score: 258
Period size: 88 Copynumber: 2.6 Consensus size: 89
437863 TGAGGACAAA
* * * *
437873 GGAAAAAAAGAAAACGAAATG-CGTCCTACTCTTTGAGGATAAAAGA-AAAAGGAAAATAAAGGG
1 GGAAAAAAAGGAAATGAAATGTC-TCCTACTCTTTGAGGATAAAGGAGAAAAGGAAAATAAAAGG
* *
437936 CGCCCTGCTCTTTGAGGACAAAAGGG
65 CGCCCTGCTCGTTGAAGACAAAA-GG
* * * * * * * *
437962 GGAAAATAAGGAAATGGAACGTGTCCTACTCTTTGAGGACAAAGGAGAAGAGGAAAATAAAATGT
1 GGAAAAAAAGGAAATGAAATGTCTCCTACTCTTTGAGGATAAAGGAGAAAAGGAAAATAAAAGGC
*
438027 GTCCTGCTCGTTGAAGACAAAA-G
66 GCCCTGCTCGTTGAAGACAAAAGG
* * * *
438050 GGAAAAGAAGGAAATGAAATGTCTCCTGCTTTTTGAGAATAAAGGAGAAAAGGAAAA
1 GGAAAAAAAGGAAATGAAATGTCTCCTACTCTTTGAGGATAAAGGAGAAAAGGAAAA
438107 GGTATCCTGC
Statistics
Matches: 119, Mismatches: 24, Indels: 5
0.80 0.16 0.03
Matches are distributed among these distances:
88 49 0.41
89 37 0.31
90 33 0.28
ACGTcount: A:0.44, C:0.12, G:0.26, T:0.18
Consensus pattern (89 bp):
GGAAAAAAAGGAAATGAAATGTCTCCTACTCTTTGAGGATAAAGGAGAAAAGGAAAATAAAAGGC
GCCCTGCTCGTTGAAGACAAAAGG
Found at i:438100 original size:45 final size:44
Alignment explanation
Indices: 437939--438101 Score: 136
Period size: 45 Copynumber: 3.6 Consensus size: 44
437929 TAAAGGGCGC
* * * *
437939 CCTGCTCTTTGAGGACAAAAGGGGGAAAATAAGGAAATGGAACGTGT
1 CCTGCTCTTTGA-GA-AAAA-GGAGAAAAGAAGGAAATGAAATGTGT
* * *
437986 CCTACTCTTTGAGGACAAAGGAG--AAG-AGGAAAATAAAATGTGT
1 CCTGCTCTTTGA-GAAAAAGGAGAAAAGAAGG-AAATGAAATGTGT
* *
438029 CCTGCTCGTTGAAGACAAAAGG-GAAAAGAAGGAAATGAAATGTCT
1 CCTGCTCTTTG-AGA-AAAAGGAGAAAAGAAGGAAATGAAATGTGT
*
438074 CCTGCTTTTTGAGAATAAAGGAGAAAAG
1 CCTGCTCTTTGAGAA-AAAGGAGAAAAG
438102 GAAAAGGTAT
Statistics
Matches: 94, Mismatches: 14, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
42 3 0.03
43 25 0.27
44 14 0.15
45 32 0.34
46 6 0.06
47 14 0.15
ACGTcount: A:0.40, C:0.12, G:0.28, T:0.20
Consensus pattern (44 bp):
CCTGCTCTTTGAGAAAAAGGAGAAAAGAAGGAAATGAAATGTGT
Found at i:438193 original size:61 final size:61
Alignment explanation
Indices: 438098--438893 Score: 860
Period size: 61 Copynumber: 13.1 Consensus size: 61
438088 ATAAAGGAGA
** * * * *
438098 AAAGGAAAAGGTATCCTGCTCTTCGAGGACTAAAAAGTGCCACTAACTCGTGTGGGCTTTG
1 AAAGGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTG
* * * *
438159 AAAGGAAAAGGCATCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTCGCGTGGACTTTG
1 AAAGGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAA-GTGCCACCAACTTGTGTGGGCTTTG
* *
438220 AGAAGAAAAAGGCGTCCTGCTCTTTGAGGACT-AAGAAGTGCCACTAACTTGTGTGGGCTTTG
1 A-AAGGAAAAGGCGTCCTGCTCTTTGAGGACTGAA-AAGTGCCACCAACTTGTGTGGGCTTTG
* * * * * **
438282 AAAAGAAAAAGGTGTCCTGCTTTTTGAGGACCAGAAAAGTGCCACCAACTTTTGTGGGCTCCG
1 -AAAGGAAAAGGCGTCCTGCTCTTTGAGGA-CTGAAAAGTGCCACCAACTTGTGTGGGCTTTG
* * * * * ** *
438345 AAAGG-AGAGGACATCTTGCTCTTTGAAGACTG-AAGGTGTGACCAGCTTGTGTGGGCTTTG
1 AAAGGAAAAGG-CGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTG
** * *
438405 AAAGGCGAAGGCGTCCTGCTCTTTGAGGATTG-AAGGTGCCACCAACTTGTGTGGGCTTTG
1 AAAGGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTG
** * * *
438465 AAAGGCGAAGGCGTCTTGCTCTTTGAGGACT-AGAGGTGCCACCAACTTGTGTGGGCTTTG
1 AAAGGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTG
** * * *
438525 AAAGGCGAAGGCGTCCTGCTTTTTGAGGACTGGAAAA-TGCCACCGACTTGTGTGGGCTTTA
1 AAAGGAAAAGGCGTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTG
* **
438586 AAAGGAAAAGGCGTCCTGCTCTTTGAGGATTGGGAAGTGCCACCAACTTG-GTGGGCTTT-
1 AAAGGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTG
* * *
438645 AAAAGACGAAGGCGTCCTGCTCTTTGAGGATTGGAAAA-TGCCACCAACTTGTGTGGGCTTTG
1 AAAGGA-AAAGGCGTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTG
** * * *
438707 AAAGGCGAAGGCATCCTACTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGATTTG
1 AAAGGAAAAGGCGTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTG
* * * ** *
438768 AAAGGAAAAGGCATCCTGCTCTTCGAGGACTGGAAAGTGCCACCAACTCATGTGGGCTTTA
1 AAAGGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTG
* * * *
438829 AAAGGAGAAGGCGTCCTGCTCTTTGAGGACTG-AAGGTGCCACCAGCTTGGGTGGGCTTTG
1 AAAGGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTG
438889 AAAGG
1 AAAGG
438894 CGTCCTGCTC
Statistics
Matches: 632, Mismatches: 86, Indels: 35
0.84 0.11 0.05
Matches are distributed among these distances:
59 5 0.01
60 237 0.38
61 261 0.41
62 100 0.16
63 27 0.04
64 2 0.00
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.25
Consensus pattern (61 bp):
AAAGGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTG
Found at i:438614 original size:121 final size:121
Alignment explanation
Indices: 438097--438895 Score: 847
Period size: 121 Copynumber: 6.6 Consensus size: 121
438087 AATAAAGGAG
** * * * *
438097 AAAAGGAAAAGGTATCCTGCTCTTCGAGGACTAAAAAGTGCCACTAACTCGTGTGGGCTTTGAAA
1 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACT-AGAAGTGCCACCAACTTGTGTGGGCTTTGAAA
** * * * *
438162 GGAAAAGGCATCCTGCTCTTTGAGGACT--AAAAGGTGCCACCAACTCGCGTGGACTTT
65 GGCGAAGGCGTCCTGCTCTTTGAGGACTGGAAAA--TGCCACCAACTTGTGTGGGCTTT
* * *
438219 GAGAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAGAAGTGCCACTAACTTGTGTGGGCTTTGAA
1 -AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACT-AGAAGTGCCACCAACTTGTGTGGGCTTTG-A
*** * * ** * **
438284 AAGAAAAAGGTGTCCTGCTTTTTGAGGACCAGAAAAGTGCCACCAACTTTTGTGGGCTCC
63 AAGGCGAAGGCGTCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTT
* * * * * ** *
438344 GAAAGG-AGAGGACATCTTGCTCTTTGAAGACT-GAAGGTGTGACCAGCTTGTGTGGGCTTTGAA
1 AAAAGGAAAAGG-CGTCCTGCTCTTTGAGGACTAGAA-GTGCCACCAACTTGTGTGGGCTTTGAA
* **
438407 AGGCGAAGGCGTCCTGCTCTTTGAGGA-TTGAAGGTGCCACCAACTTGTGTGGGCTTT
64 AGGCGAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
* ** * *
438464 GAAAGGCGAAGGCGTCTTGCTCTTTGAGGACTAGAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
* *
438529 GCGAAGGCGTCCTGCTTTTTGAGGACTGGAAAATGCCACCGACTTGTGTGGGCTTT
66 GCGAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
* * *
438585 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGATTGGGAAGTGCCACCAACTTG-GTGGGCTTTAAAA
1 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACT-AGAAGTGCCACCAACTTGTGTGGGCTTTGAAA
* *
438649 GACGAAGGCGTCCTGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTT
65 GGCGAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
* ** * * * * *
438706 GAAAGGCGAAGGCATCCTACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGATTTGAAA
1 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAG-AAGTGCCACCAACTTGTGTGGGCTTTGAAA
** * * * **
438771 GGAAAAGGCATCCTGCTCTTCGAGGACTGGAAAGTGCCACCAACTCATGTGGGCTTT
65 GGCGAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
* * *
438828 AAAAGGAGAAGGCGTCCTGCTCTTTGAGGACT-GAAGGTGCCACCAGCTTGGGTGGGCTTTGAAA
1 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAA-GTGCCACCAACTTGTGTGGGCTTTGAAA
438892 GGCG
65 GGCG
438896 TCCTGCTCTT
Statistics
Matches: 570, Mismatches: 94, Indels: 26
0.83 0.14 0.04
Matches are distributed among these distances:
120 98 0.17
121 194 0.34
122 130 0.23
123 80 0.14
124 46 0.08
125 18 0.03
126 4 0.01
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.25
Consensus pattern (121 bp):
AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
GCGAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
Found at i:439949 original size:15 final size:15
Alignment explanation
Indices: 439909--439943 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
439899 AAGCAAGTTC
*
439909 TTTTCTTTTCTCTTTT
1 TTTTCTTTT-TGTTTT
439925 TTTTCTTTTTGTTTT
1 TTTTCTTTTTGTTTT
439940 TTTT
1 TTTT
439944 TATTTTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.00, C:0.11, G:0.03, T:0.86
Consensus pattern (15 bp):
TTTTCTTTTTGTTTT
Found at i:452362 original size:78 final size:78
Alignment explanation
Indices: 452268--452561 Score: 316
Period size: 78 Copynumber: 3.8 Consensus size: 78
452258 ACCATGGGGC
* * *
452268 TGGAGTATCCCTGATTATGGAAAATCGGTGTTTTGGAAGTAAAATCAGGGTTGGAGTATCCCCTC
1 TGGAGTATCCCTGATTATAGAAAATTGGTGTTTTGGAAATAAAATCAGGGTTGGAGTATCCCCTC
452333 GAAATAACAGGGT
66 GAAATAACAGGGT
* *
452346 TGGAGTATCCCTGATTATAGAAAATTGGT-CTTTGAAAATAAAATC-GGGATTGGAGTATCCCCT
1 TGGAGTATCCCTGATTATAGAAAATTGGTGTTTTGGAAATAAAATCAGGG-TTGGAGTATCCCCT
* *
452409 CAAAAATAATAGGGT
65 C-GAAATAACAGGGT
* * * * *** *
452424 TGGAGTATCCCTGATTATACAAAATTGATTTTTTAGAAATAAGGCCGGGGTTGGAGTATCCCCAT
1 TGGAGTATCCCTGATTATAGAAAATTGGTGTTTTGGAAATAAAATCAGGGTTGGAGTATCCCC-T
*
452489 -GAAAATAACGGGGT
65 CG-AAATAACAGGGT
* * *
452503 TGGAGTATCCCCGATTGT-GAGAAATT-G-G--TTGGAAATAAAATCAGAGTTGGAGTATCCCC
1 TGGAGTATCCCTGATTATAGA-AAATTGGTGTTTTGGAAATAAAATCAGGGTTGGAGTATCCCC
452562 GATTGTGAAA
Statistics
Matches: 180, Mismatches: 29, Indels: 17
0.80 0.13 0.08
Matches are distributed among these distances:
75 25 0.14
76 3 0.02
77 28 0.16
78 66 0.37
79 54 0.30
80 4 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.29
Consensus pattern (78 bp):
TGGAGTATCCCTGATTATAGAAAATTGGTGTTTTGGAAATAAAATCAGGGTTGGAGTATCCCCTC
GAAATAACAGGGT
Found at i:452557 original size:47 final size:47
Alignment explanation
Indices: 452501--452611 Score: 152
Period size: 47 Copynumber: 2.3 Consensus size: 47
452491 AAATAACGGG
*
452501 GTTGGAGTATCCCCGATTGTGAGAAATTGG-TTGGAAATAAAATCAGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTTTGGAAATAAAATC-GA
*
452548 GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTGGAAATAAAATCGG
1 GTTGGAGTATCCCCGATTGTGAAAAATTGG---TTTGGAAATAAAATCGA
*
452598 GTTTGAGTATCCCC
1 GTTGGAGTATCCCC
452612 TCGAAAATAA
Statistics
Matches: 57, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
47 29 0.51
50 14 0.25
51 14 0.25
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.31
Consensus pattern (47 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTTTGGAAATAAAATCGA
Found at i:452749 original size:51 final size:51
Alignment explanation
Indices: 452654--452884 Score: 202
Period size: 51 Copynumber: 4.5 Consensus size: 51
452644 ACATAACAGG
* * * * *
452654 GTTGGAGTACCCCCGATTATGAAAAATCAATATTTTAGATATAAAGA-CGGG
1 GTTGGAGTATCCCCGATTATGAAAAATCGATGTTTTAGAAATAAA-ATCGGA
* * * * *
452705 GTTGGAGTATCCCCAATTGTGAAAAATTGGTGTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATCGATGTTTTAGAAATAAAATCGGA
* * *
452756 GTTGGAGTATCCCTGA-T-TGCAGTAAATCGATGCTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATG-A-AAAATCGATGTTTTAGAAATAAAATCGGA
* * * ** *
452807 GTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATGGAACCGG-
1 GTTGGAGTATCCCCGATTATGAAAAATCGATGTTTTAGAAATAAAATCGGA
* *
452857 GATTGGAGTATCGCCGA-GATGAAAAATC
1 G-TTGGAGTATCCCCGATTATGAAAAATC
452885 TAGAAATTTA
Statistics
Matches: 144, Mismatches: 30, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
49 2 0.01
50 12 0.08
51 127 0.88
52 2 0.01
53 1 0.01
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGAAAAATCGATGTTTTAGAAATAAAATCGGA
Found at i:455166 original size:29 final size:29
Alignment explanation
Indices: 455124--455193 Score: 113
Period size: 29 Copynumber: 2.4 Consensus size: 29
455114 TACATGGTAA
* **
455124 AATGTATCGATACATCTGGGTAAGTCCAG
1 AATGTATCGATACATCTAGGTAAACCCAG
455153 AATGTATCGATACATCTAGGTAAACCCAG
1 AATGTATCGATACATCTAGGTAAACCCAG
455182 AATGTATCGATA
1 AATGTATCGATA
455194 TAAATTGTGA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (29 bp):
AATGTATCGATACATCTAGGTAAACCCAG
Found at i:459779 original size:19 final size:19
Alignment explanation
Indices: 459751--459806 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
459741 TGTATCGATA
* *
459751 CATTGCATCGATACATGTT
1 CATTGTATCGATACATGCT
*
459770 CATTGTATCGATACATACT
1 CATTGTATCGATACATGCT
459789 CAATTGTATCGATACATG
1 C-ATTGTATCGATACATG
459807 AAACTGGCAG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (19 bp):
CATTGTATCGATACATGCT
Found at i:461462 original size:12 final size:11
Alignment explanation
Indices: 461441--461480 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
461431 TACTATGCTT
461441 AAAAAAACAAA
1 AAAAAAACAAA
461452 AAAATAAACAAA
1 AAAA-AAACAAA
*
461464 AAAAAAAGAGAA
1 AAAAAAACA-AA
461476 AAAAA
1 AAAAA
461481 GGTGTTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 8 0.31
12 18 0.69
ACGTcount: A:0.88, C:0.05, G:0.05, T:0.03
Consensus pattern (11 bp):
AAAAAAACAAA
Found at i:462774 original size:42 final size:40
Alignment explanation
Indices: 462657--462774 Score: 114
Period size: 42 Copynumber: 2.9 Consensus size: 40
462647 TTCTTTTCTA
* * *
462657 TTTTTTTCTTTGTCTTCAAGAAGTAGGACC-CATTTCATTC
1 TTTTTTT-TTTGTCCTCAAAAAGTAGGACCTCACTTCATTC
* * *
462697 TTCTTTTCCTTTTGTCCTCAAAGAGCATGA-CTCACTTCATCTC
1 TT-TTTT--TTTTGTCCTCAAAAAGTAGGACCTCACTTCAT-TC
462740 TTTTTTTTTTGTCCTCAAAAAGTAGGACGCTCACT
1 TTTTTTTTTTGTCCTCAAAAAGTAGGAC-CTCACT
462775 CCTTTTTAAG
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
40 20 0.32
41 5 0.08
42 32 0.52
43 5 0.08
ACGTcount: A:0.20, C:0.24, G:0.12, T:0.44
Consensus pattern (40 bp):
TTTTTTTTTTGTCCTCAAAAAGTAGGACCTCACTTCATTC
Found at i:462858 original size:31 final size:31
Alignment explanation
Indices: 462823--462952 Score: 172
Period size: 31 Copynumber: 4.2 Consensus size: 31
462813 AACCTTGCAT
462823 AAGCTGGTGGCACCCGAGTCAAAGCCCGA-AC
1 AAGCTGGTGGCACCCGAGTCAAAGCCC-ACAC
462854 AAGCTGGTGGCACCCGAGTCAAAGCCCACAC
1 AAGCTGGTGGCACCCGAGTCAAAGCCCACAC
* * * * *
462885 AAGTTGGCGACAGCCAAGTCAAAGCCCACAC
1 AAGCTGGTGGCACCCGAGTCAAAGCCCACAC
** *
462916 AAGGAGGTGGCACCCGAGTCAAAGCCCGCAC
1 AAGCTGGTGGCACCCGAGTCAAAGCCCACAC
462947 AAGCTG
1 AAGCTG
462953 ACAACACTCG
Statistics
Matches: 84, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
30 1 0.01
31 83 0.99
ACGTcount: A:0.31, C:0.32, G:0.28, T:0.09
Consensus pattern (31 bp):
AAGCTGGTGGCACCCGAGTCAAAGCCCACAC
Found at i:462972 original size:62 final size:62
Alignment explanation
Indices: 462836--462977 Score: 180
Period size: 62 Copynumber: 2.3 Consensus size: 62
462826 CTGGTGGCAC
* * * *
462836 CCGAGTCAAAGCCCGA-ACAAGCTGGTGGCACCCGAGTCAAAGCCCACACAAGTTGGCGACAG
1 CCGAGTCAAAGCCC-ACACAAGCAGGTGGCACCCGAGTCAAAGCCCACACAAGCTGACAACAG
* * *
462898 CCAAGTCAAAGCCCACACAAGGAGGTGGCACCCGAGTCAAAGCCCGCACAAGCTGACAACA-
1 CCGAGTCAAAGCCCACACAAGCAGGTGGCACCCGAGTCAAAGCCCACACAAGCTGACAACAG
*
462959 CTCGAGTCTAAGCCCACAC
1 C-CGAGTCAAAGCCCACAC
462978 GAGTTGGCAA
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
61 2 0.03
62 67 0.97
ACGTcount: A:0.32, C:0.35, G:0.24, T:0.09
Consensus pattern (62 bp):
CCGAGTCAAAGCCCACACAAGCAGGTGGCACCCGAGTCAAAGCCCACACAAGCTGACAACAG
Found at i:463089 original size:31 final size:31
Alignment explanation
Indices: 462833--463167 Score: 159
Period size: 31 Copynumber: 10.7 Consensus size: 31
462823 AAGCTGGTGG
* * ***
462833 CACCCGAGTCAAAGCCCGAACAAGCTGGTGG
1 CACCCGAGTCAAAGCCTGCACAAGCTGGCAA
** * *
462864 CACCCGAGTCAAAGCCCACACAAGTTGGCGA
1 CACCCGAGTCAAAGCCTGCACAAGCTGGCAA
* * ** ** ***
462895 CAGCCAAGTCAAAGCCCACACAAGGAGGTGG
1 CACCCGAGTCAAAGCCTGCACAAGCTGGCAA
* *
462926 CACCCGAGTCAAAGCCCGCACAAGCTGACAA
1 CACCCGAGTCAAAGCCTGCACAAGCTGGCAA
* * ** * *
462957 CACTCGAGTCTAAGCCCACACGAGTTGGCAA
1 CACCCGAGTCAAAGCCTGCACAAGCTGGCAA
* * * * * *
462988 CACCTGAGTCTAAGCCCGCACGCACAGGTCGACAG
1 CACCCGAGTCAAAGCCTGCA--CA-AGCT-GGCAA
* * * * * * **
463023 CACCTGAGTCCAAGCTTGTACGAGCTAGCGG
1 CACCCGAGTCAAAGCCTGCACAAGCTGGCAA
* * *
463054 CACCCAAGTCAAAGCTTGCACAAGCCGGCAA
1 CACCCGAGTCAAAGCCTGCACAAGCTGGCAA
** * *
463085 CACCCGAGTCAAAGCCCACACAAGCTAGCGA
1 CACCCGAGTCAAAGCCTGCACAAGCTGGCAA
* * *
463116 CACCCGAGTCAAAG-CTGGCATAAGCTGCCAG
1 CACCCGAGTCAAAGCCT-GCACAAGCTGGCAA
*
463147 CACCCGAGTCTAAGCCTGCAC
1 CACCCGAGTCAAAGCCTGCAC
463168 GAGTTAGCGA
Statistics
Matches: 231, Mismatches: 67, Indels: 12
0.75 0.22 0.04
Matches are distributed among these distances:
30 1 0.00
31 201 0.87
32 5 0.02
33 2 0.01
34 3 0.01
35 19 0.08
ACGTcount: A:0.30, C:0.35, G:0.24, T:0.11
Consensus pattern (31 bp):
CACCCGAGTCAAAGCCTGCACAAGCTGGCAA
Found at i:463094 original size:62 final size:62
Alignment explanation
Indices: 463023--463192 Score: 178
Period size: 62 Copynumber: 2.7 Consensus size: 62
463013 AGGTCGACAG
* * * * * * *
463023 CACCTGAGTCCAAGCTTGTACGAGCTAGCGGCACCCAAGTCAAAGCTTGCACAAGCCGGCAA
1 CACCCGAGTCAAAGCCTGCACGAGCTAGCGACACCCAAGTCAAAGCTGGCACAAGCCGCCAA
** * * * * *
463085 CACCCGAGTCAAAGCCCACACAAGCTAGCGACACCCGAGTCAAAGCTGGCATAAGCTGCCAG
1 CACCCGAGTCAAAGCCTGCACGAGCTAGCGACACCCAAGTCAAAGCTGGCACAAGCCGCCAA
* * * *
463147 CACCCGAGTCTAAGCCTGCACGAGTTAGCGACACCCTAGTCCAAGC
1 CACCCGAGTCAAAGCCTGCACGAGCTAGCGACACCCAAGTCAAAGC
463193 CCACAAAAGG
Statistics
Matches: 87, Mismatches: 21, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
62 87 1.00
ACGTcount: A:0.29, C:0.35, G:0.23, T:0.13
Consensus pattern (62 bp):
CACCCGAGTCAAAGCCTGCACGAGCTAGCGACACCCAAGTCAAAGCTGGCACAAGCCGCCAA
Found at i:463213 original size:93 final size:92
Alignment explanation
Indices: 462829--463224 Score: 265
Period size: 93 Copynumber: 4.2 Consensus size: 92
462819 GCATAAGCTG
* ** *
462829 GTGGCACCCGAGTCAAAGCCCGAACAAGCTGGTGGCACCCGAGTCAAAGCCCACACAAGTTGGCG
1 GTGGCACCCGAGTCAAAGCCCGCACAAGCT-GCAGCACCCGAGTCAAAGCCCACACAAGTTGGCA
* * *
462894 ACAGCCAAGTCAAAGCCCACACAAGG-A
65 ACACCCTAGTCAAAGCCCACAAAAGGTA
* * * *
462921 GGTGGCACCCGAGTCAAAGCCCGCACAAGCTGACAACACTCGAGTCTAAGCCCACACGAGTTGGC
1 -GTGGCACCCGAGTCAAAGCCCGCACAAGCTG-CAGCACCCGAGTCAAAGCCCACACAAGTTGGC
* * * *
462986 AACA-CCTGAGTCTAAGCCCGCACGCACAGGTC
64 AACACCCT-AGTCAAAG-CC-CAC-AAAAGGTA
** * * ** * * * * *** **
463018 GACAGCACCTGAGTCCAAGCTTGTACGAGCTAGCGGCACCCAAGTCAAAGCTTGCACAAGCCGGC
1 G-TGGCACCCGAGTCAAAGCCCGCACAAGCT-GCAGCACCCGAGTCAAAGCCCACACAAGTTGGC
* * *
463083 AACACCCGAGTCAAAGCCCACACAAGCTA
64 AACACCCTAGTCAAAGCCCACAAAAGGTA
* * ** * * ** * * *
463112 GCGACACCCGAGTCAAAGCTGGCATAAGCTGCCAGCACCCGAGTCTAAGCCTGCACGAGTTAGCG
1 GTGGCACCCGAGTCAAAGCCCGCACAAGCTG-CAGCACCCGAGTCAAAGCCCACACAAGTTGGCA
*
463177 ACACCCTAGTCCAAGCCCACAAAAGGTA
65 ACACCCTAGTCAAAGCCCACAAAAGGTA
* *
463205 GTGGCACCCAAGCCAAAGCC
1 GTGGCACCCGAGTCAAAGCC
463225 TATACGAGTT
Statistics
Matches: 227, Mismatches: 66, Indels: 20
0.73 0.21 0.06
Matches are distributed among these distances:
92 4 0.02
93 149 0.66
94 6 0.03
95 6 0.03
96 6 0.03
97 53 0.23
98 3 0.01
ACGTcount: A:0.31, C:0.34, G:0.24, T:0.11
Consensus pattern (92 bp):
GTGGCACCCGAGTCAAAGCCCGCACAAGCTGCAGCACCCGAGTCAAAGCCCACACAAGTTGGCAA
CACCCTAGTCAAAGCCCACAAAAGGTA
Found at i:463966 original size:21 final size:21
Alignment explanation
Indices: 463916--463971 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
463906 TATAAATAGT
463916 AAATGTATCGATACATAAGTG
1 AAATGTATCGATACATAAGTG
* ***
463937 -AATGCATCGATACATGCTTG
1 AAATGTATCGATACATAAGTG
463957 AAATGTATCGATACA
1 AAATGTATCGATACA
463972 AAAATAAACA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 16 0.55
21 13 0.45
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (21 bp):
AAATGTATCGATACATAAGTG
Found at i:464050 original size:21 final size:21
Alignment explanation
Indices: 464020--464075 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
464010 TAAAAGTAAA
*
464020 TGTATGAATACATTTACT-ATT
1 TGTATCAATACATTTACTCA-T
*
464041 TGTATCAATACA-TTATTCAT
1 TGTATCAATACATTTACTCAT
*
464061 TGTATCGATACATTT
1 TGTATCAATACATTT
464076 TGGGTTTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 16 0.53
21 14 0.47
ACGTcount: A:0.32, C:0.12, G:0.09, T:0.46
Consensus pattern (21 bp):
TGTATCAATACATTTACTCAT
Found at i:465195 original size:31 final size:30
Alignment explanation
Indices: 465099--465204 Score: 167
Period size: 30 Copynumber: 3.5 Consensus size: 30
465089 ACATTTTTCA
*
465099 ATGTATCGATACATTTTGTCTTTTACCCAG
1 ATGTATCGATACATTCTGTCTTTTACCCAG
465129 ATGTATCGATACATTCTGTCTTTTACCCAG
1 ATGTATCGATACATTCTGTCTTTTACCCAG
* *
465159 ATGTATCGATACATTCTATCTTTTCACCTAG
1 ATGTATCGATACATTCTGTCTTTT-ACCCAG
*
465190 ATGTATCTATACATT
1 ATGTATCGATACATT
465205 TTTCAATGTA
Statistics
Matches: 71, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
30 52 0.73
31 19 0.27
ACGTcount: A:0.25, C:0.21, G:0.11, T:0.42
Consensus pattern (30 bp):
ATGTATCGATACATTCTGTCTTTTACCCAG
Found at i:466151 original size:22 final size:22
Alignment explanation
Indices: 466126--466185 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
466116 TCCAGCATCC
466126 CATTGAATGTTATCCATTAGTT
1 CATTGAATGTTATCCATTAGTT
* *
466148 CATTGTATG--AT-CA-T-CTT
1 CATTGAATGTTATCCATTAGTT
466165 -ATTGAATGTTATCCATTAGTT
1 CATTGAATGTTATCCATTAGTT
466186 TGCATTTGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 11
0.66 0.09 0.25
Matches are distributed among these distances:
16 7 0.24
17 2 0.07
18 3 0.10
19 4 0.14
20 3 0.10
21 2 0.07
22 8 0.28
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.47
Consensus pattern (22 bp):
CATTGAATGTTATCCATTAGTT
Found at i:472427 original size:27 final size:27
Alignment explanation
Indices: 472354--472428 Score: 96
Period size: 27 Copynumber: 2.7 Consensus size: 27
472344 TCCCTTCTCA
* *
472354 AAGTCCATAAGTCAGTGGTACATTTTCG
1 AAGTCCACAA-TCAGTGGCACATTTTCG
** *
472382 AAGTCCACAATCAACGGCACCTTTTCG
1 AAGTCCACAATCAGTGGCACATTTTCG
472409 AAGTCCACAATCAGTGGCAC
1 AAGTCCACAATCAGTGGCAC
472429 TTGCTATATA
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
27 31 0.77
28 9 0.22
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.24
Consensus pattern (27 bp):
AAGTCCACAATCAGTGGCACATTTTCG
Found at i:472639 original size:33 final size:32
Alignment explanation
Indices: 472600--472789 Score: 163
Period size: 33 Copynumber: 5.8 Consensus size: 32
472590 CCCTAGTGGA
*
472600 GAAACCTTTCTCAAAAGCCCACATAAGTTGGTG
1 GAAACCTTTCTC-AAAGCCCACACAAGTTGGTG
* * *
472633 GAAACCTTTTTCCAAAGCCCACATAAGTTGATG
1 GAAACCTTTCT-CAAAGCCCACACAAGTTGGTG
* * *
472666 GAAACCTTTTTCCAAAGCCAACACAAGCTGGT-
1 GAAACCTTTCT-CAAAGCCCACACAAGTTGGTG
472698 GACAACC-TTCTTCAAAGCCCACACAAGTTGGTG
1 GA-AACCTTTC-TCAAAGCCCACACAAGTTGGTG
* * * * *
472731 GCAACCCTTTCT-AAAGCCTACATAAATCGGTG
1 G-AAACCTTTCTCAAAGCCCACACAAGTTGGTG
**
472763 CCAACC-TTCTCAAAAGCCCACACAAGT
1 GAAACCTTTCTC-AAAGCCCACACAAGT
472790 CAATGGCATC
Statistics
Matches: 129, Mismatches: 20, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
30 4 0.03
31 3 0.02
32 50 0.39
33 67 0.52
34 5 0.04
ACGTcount: A:0.33, C:0.29, G:0.15, T:0.23
Consensus pattern (32 bp):
GAAACCTTTCTCAAAGCCCACACAAGTTGGTG
Found at i:472722 original size:32 final size:32
Alignment explanation
Indices: 472613--472789 Score: 146
Period size: 32 Copynumber: 5.5 Consensus size: 32
472603 ACCTTTCTCA
* *
472613 AAAGCCCACATAAGTTGGTGGA-AACCTTTTTCC
1 AAAGCCCACACAAGTTGGT-GACAACCTTCTT-C
* * *
472646 AAAGCCCACATAAGTTGATGGA-AACCTTTTTCC
1 AAAGCCCACACAAGTTGGT-GACAACCTTCTT-C
* *
472679 AAAGCCAACACAAGCTGGTGACAACCTTCTTC
1 AAAGCCCACACAAGTTGGTGACAACCTTCTTC
* *
472711 AAAGCCCACACAAGTTGGTGGCAACCCT-TTC
1 AAAGCCCACACAAGTTGGTGACAACCTTCTTC
* * * * *
472742 TAAAGCCTACATAAATCGGTGCCAACCTTC-TC
1 -AAAGCCCACACAAGTTGGTGACAACCTTCTTC
472774 AAAAGCCCACACAAGT
1 -AAAGCCCACACAAGT
472790 CAATGGCATC
Statistics
Matches: 121, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
31 3 0.02
32 63 0.52
33 55 0.45
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.22
Consensus pattern (32 bp):
AAAGCCCACACAAGTTGGTGACAACCTTCTTC
Found at i:472779 original size:64 final size:65
Alignment explanation
Indices: 472600--472789 Score: 174
Period size: 64 Copynumber: 2.9 Consensus size: 65
472590 CCCTAGTGGA
* * * * * *
472600 GAAACCT-TTCTCAAAAGCCCACATAAGTTGGTGGA-AACCTTTTTCCAAAGCCCACATAAGTTG
1 GAAACCTCTT-TCCAAAGCCAACAAAAGCTGGT-GACAACCTTCTT-CAAAGCCCACACAAGTTG
472663 ATG
63 ATG
* * *
472666 GAAACCTTTTTCCAAAGCCAACACAAGCTGGTGACAACCTTCTTCAAAGCCCACACAAGTTGGTG
1 GAAACCTCTTTCCAAAGCCAACAAAAGCTGGTGACAACCTTCTTCAAAGCCCACACAAGTTGATG
* * * * *
472731 GCAACC-CTTTCTAAAGCCTACATAAATC-GGTGCCAACCTTC-TCAAAAGCCCACACAAGT
1 GAAACCTCTTTCCAAAGCCAACA-AAAGCTGGTGACAACCTTCTTC-AAAGCCCACACAAGT
472790 CAATGGCATC
Statistics
Matches: 106, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
63 2 0.02
64 40 0.38
65 29 0.27
66 33 0.31
67 2 0.02
ACGTcount: A:0.33, C:0.29, G:0.15, T:0.23
Consensus pattern (65 bp):
GAAACCTCTTTCCAAAGCCAACAAAAGCTGGTGACAACCTTCTTCAAAGCCCACACAAGTTGATG
Found at i:473780 original size:20 final size:20
Alignment explanation
Indices: 473755--473808 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
473745 CTACCACTGT
473755 TTGTATCGATACAT-GCTACA
1 TTGTATCGATACATGGC-ACA
473775 TTGTATCGATACATGGCACA
1 TTGTATCGATACATGGCACA
*
473795 CTGTATCGATACAT
1 TTGTATCGATACAT
473809 TGCTTCAAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 30 0.94
21 2 0.06
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (20 bp):
TTGTATCGATACATGGCACA
Found at i:486464 original size:47 final size:46
Alignment explanation
Indices: 486408--486724 Score: 298
Period size: 47 Copynumber: 6.8 Consensus size: 46
486398 TACTAGATCT
* * * *
486408 TAACACCAATATAGTCAAATAATGGTATAAAGAGTTTGACCAGCTGC
1 TAACGCCAATACAGTCAAATAATGGTA-AAAGAGTTTGACCAGGTCC
* * *
486455 TAACGCCAATACAGCCAAATAATGGTGAAAAGAAGTTTGACTAAGTCC
1 TAACGCCAATACAGTCAAATAATGGT-AAAAG-AGTTTGACCAGGTCC
* *
486503 TAACACCAATACAGTCAAATAATAGTAAAAAGAGTTTGACCAGGTCC
1 TAACGCCAATACAGTCAAATAATGGT-AAAAGAGTTTGACCAGGTCC
* * *
486550 TAACGTCAATACAGTCAAACAATGGTATAAAGAGTTTGACGAGGTCC
1 TAACGCCAATACAGTCAAATAATGGTA-AAAGAGTTTGACCAGGTCC
* * * * *
486597 TAATGCCAATATAGCCAAACAATGGTGAAAAGAAGTTTGACTAGGTCC
1 TAACGCCAATACAGTCAAATAATGGT-AAAAG-AGTTTGACCAGGTCC
* * * * ** * *
486645 TAA-TCCATTACACTTAAAGGA-GG-AAACGAGTTTGACTAGGTCC
1 TAACGCCAATACAGTCAAATAATGGTAAAAGAGTTTGACCAGGTCC
* *
486688 TAATGCCAATACAGTCAAATGATGGTGAAAAGAGTTT
1 TAACGCCAATACAGTCAAATAATGGT-AAAAGAGTTT
486725 AACTATATGC
Statistics
Matches: 223, Mismatches: 38, Indels: 18
0.80 0.14 0.06
Matches are distributed among these distances:
43 18 0.08
44 17 0.08
45 2 0.01
46 3 0.01
47 125 0.56
48 58 0.26
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.24
Consensus pattern (46 bp):
TAACGCCAATACAGTCAAATAATGGTAAAAGAGTTTGACCAGGTCC
Found at i:486560 original size:95 final size:94
Alignment explanation
Indices: 486408--486647 Score: 302
Period size: 95 Copynumber: 2.5 Consensus size: 94
486398 TACTAGATCT
* * *
486408 TAACACCAATATAGTCAAATAATGGTATAAAGAGTTTGACCAGCTGCTAACGCCAATACAGCCAA
1 TAACACCAATATAGTCAAATAATGGTAAAAAGAGTTTGACCAGGTCCTAACGCCAATACAGCCAA
* *
486473 ATAATGGTGA-AAAGAAGTTTGACTAAGTCC
66 ACAATGGT-ATAAAG-AGTTTGACGAAGTCC
* * * *
486503 TAACACCAATACAGTCAAATAATAGTAAAAAGAGTTTGACCAGGTCCTAACGTCAATACAGTCAA
1 TAACACCAATATAGTCAAATAATGGTAAAAAGAGTTTGACCAGGTCCTAACGCCAATACAGCCAA
*
486568 ACAATGGTATAAAGAGTTTGACGAGGTCC
66 ACAATGGTATAAAGAGTTTGACGAAGTCC
** * * * *
486597 TAATGCCAATATAGCCAAACAATGGTGAAAAGAAGTTTGACTAGGTCCTAA
1 TAACACCAATATAGTCAAATAATGGTAAAAAG-AGTTTGACCAGGTCCTAA
486648 TCCATTACAC
Statistics
Matches: 125, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
94 39 0.31
95 86 0.69
ACGTcount: A:0.41, C:0.17, G:0.18, T:0.23
Consensus pattern (94 bp):
TAACACCAATATAGTCAAATAATGGTAAAAAGAGTTTGACCAGGTCCTAACGCCAATACAGCCAA
ACAATGGTATAAAGAGTTTGACGAAGTCC
Found at i:486838 original size:30 final size:30
Alignment explanation
Indices: 486802--486859 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
486792 TTTGATCAAG
* *
486802 TATAGTCTAA-TGATGAAAGACTTAACTAGA
1 TATAGTC-AAGTGAGGAAAGACCTAACTAGA
486832 TATAGTCAAGTGAGGAAAGACCTAACTA
1 TATAGTCAAGTGAGGAAAGACCTAACTA
486860 AATACAACCG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 23 0.92
ACGTcount: A:0.43, C:0.12, G:0.19, T:0.26
Consensus pattern (30 bp):
TATAGTCAAGTGAGGAAAGACCTAACTAGA
Done.