Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 171 of 344
Found at i:57287102 original size:27 final size:27
Alignment explanation
Indices: 57287048--57287102 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
57287038 ATCCTAAAAT
* *
57287048 ACAACTAACATCACTTAAATGTAAGCA
1 ACAACTAACAACACTTAAATGCAAGCA
* *
57287075 ACAACTAACAACACTTAAGTGCAGGCA
1 ACAACTAACAACACTTAAATGCAAGCA
57287102 A
1 A
57287103 TTAACTAAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.47, C:0.24, G:0.11, T:0.18
Consensus pattern (27 bp):
ACAACTAACAACACTTAAATGCAAGCA
Found at i:57287406 original size:14 final size:14
Alignment explanation
Indices: 57287379--57287408 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
57287369 TGAAAATGGC
57287379 TTCTGAAAAATGAT
1 TTCTGAAAAATGAT
*
57287393 TTCTGGAAAATGAT
1 TTCTGAAAAATGAT
57287407 TT
1 TT
57287409 ACTTTCCTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.07, G:0.17, T:0.40
Consensus pattern (14 bp):
TTCTGAAAAATGAT
Found at i:57287571 original size:25 final size:25
Alignment explanation
Indices: 57287543--57287620 Score: 70
Period size: 25 Copynumber: 3.2 Consensus size: 25
57287533 TGAGATTTTC
57287543 TTATATTTTCATTGTTTAATTGAAT
1 TTATATTTTCATTGTTTAATTGAAT
* * ** **
57287568 TTAT-TTTATCTTTATAAAATTTTA-
1 TTATATTT-TCATTGTTTAATTGAAT
*
57287592 TTATATTTTCATTGTTTAATCGAAT
1 TTATATTTTCATTGTTTAATTGAAT
57287617 TTAT
1 TTAT
57287621 TTTATCTTTA
Statistics
Matches: 37, Mismatches: 13, Indels: 6
0.66 0.23 0.11
Matches are distributed among these distances:
24 16 0.43
25 21 0.57
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.60
Consensus pattern (25 bp):
TTATATTTTCATTGTTTAATTGAAT
Found at i:57287596 original size:49 final size:48
Alignment explanation
Indices: 57287537--57287653 Score: 177
Period size: 49 Copynumber: 2.5 Consensus size: 48
57287527 TACATTTGAG
* *
57287537 ATTTTCTTATATTTTCATTGTTTAATTGAATTTATTTTATCTTTATAAA
1 ATTTTATTATATTTTCATTGTTTAATCGAATTTATTTTATCTTTAT-AA
57287586 ATTTTATTATATTTTCATTGTTTAATCGAATTTATTTTATCTTTATAA
1 ATTTTATTATATTTTCATTGTTTAATCGAATTTATTTTATCTTTATAA
*
57287634 A-TTTA-TAT-TTTACATTGTTT
1 ATTTTATTATATTTTCATTGTTT
57287654 TTGCATATAT
Statistics
Matches: 65, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
45 11 0.17
46 3 0.05
47 4 0.06
48 3 0.05
49 44 0.68
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.62
Consensus pattern (48 bp):
ATTTTATTATATTTTCATTGTTTAATCGAATTTATTTTATCTTTATAA
Found at i:57287941 original size:15 final size:15
Alignment explanation
Indices: 57287921--57287972 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
57287911 AATACAAAAC
57287921 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
57287936 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
57287955 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
57287970 ATT
1 ATT
57287973 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:57288030 original size:15 final size:16
Alignment explanation
Indices: 57288010--57288040 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
57288000 AAGAATACTA
57288010 TTTAAAA-TTATTATT
1 TTTAAAATTTATTATT
57288025 TTTAAAATTTATTATT
1 TTTAAAATTTATTATT
57288041 AAAGTAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTAAAATTTATTATT
Found at i:57288144 original size:26 final size:25
Alignment explanation
Indices: 57288115--57288172 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 25
57288105 ACTAAATATA
*
57288115 AATAATAAAATATAT-ATATGTTTAAT
1 AATAATAAAAAATATAATAT-TTT-AT
*
57288141 AATATTAAAAAATATAATATTTTAT
1 AATAATAAAAAATATAATATTTTAT
*
57288166 ATTAATA
1 AATAATA
57288173 TTTTTAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 7 0.26
26 16 0.59
27 4 0.15
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (25 bp):
AATAATAAAAAATATAATATTTTAT
Found at i:57288171 original size:28 final size:28
Alignment explanation
Indices: 57288121--57288174 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 28
57288111 TATAAATAAT
57288121 AAAATATATATATGTTTAATAATATTAA
1 AAAATATATATATGTTTAATAATATTAA
57288149 AAAATATA-ATAT-TTTATATTAATATT
1 AAAATATATATATGTTTA-A-TAATATT
57288175 TTTAATATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 4 0.17
27 5 0.21
28 15 0.62
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (28 bp):
AAAATATATATATGTTTAATAATATTAA
Found at i:57291332 original size:30 final size:31
Alignment explanation
Indices: 57291256--57291338 Score: 152
Period size: 31 Copynumber: 2.7 Consensus size: 31
57291246 TCAATCTTGA
57291256 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
57291286 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
57291317 CATATCACT-GGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
57291339 ATTGTAAGCG
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
30 18 0.35
31 34 0.65
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:57291586 original size:25 final size:25
Alignment explanation
Indices: 57291558--57291652 Score: 136
Period size: 25 Copynumber: 3.8 Consensus size: 25
57291548 CTCTTTTAAT
* * *
57291558 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGAGGCAAAGCCCTTTTCGGTA
*
57291583 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGAGGCAAAGCCCTTTTCGGTA
*
57291608 AACTGAGGCATAGCCCTTTTCGGTA
1 AACTGAGGCAAAGCCCTTTTCGGTA
*
57291633 AACTGAGGCATAGCCCTTTT
1 AACTGAGGCAAAGCCCTTTT
57291653 AGCACTTCCT
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 66 1.00
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.27
Consensus pattern (25 bp):
AACTGAGGCAAAGCCCTTTTCGGTA
Found at i:57291588 original size:50 final size:50
Alignment explanation
Indices: 57291533--57291653 Score: 131
Period size: 50 Copynumber: 2.4 Consensus size: 50
57291523 TTTATCATAT
* * *
57291533 AACTGGAGGCCTAGCCTCTTTTAAT-AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGAGGCATAGCC-CTTTTAATAAACTGAGGCAAAGCCCTTTTCGATA
* ** * *
57291583 AACTGG-GGCAAAGCCCTTTTCGGTAAACTGAGGCATAGCCCTTTTCGGTA
1 AACTGGAGGCATAGCCCTTTT-AATAAACTGAGGCAAAGCCCTTTTCGATA
57291633 AACT-GAGGCATAGCCCTTTTA
1 AACTGGAGGCATAGCCCTTTTA
57291654 GCACTTCCTC
Statistics
Matches: 58, Mismatches: 10, Indels: 7
0.77 0.13 0.09
Matches are distributed among these distances:
48 5 0.09
49 9 0.16
50 44 0.76
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (50 bp):
AACTGGAGGCATAGCCCTTTTAATAAACTGAGGCAAAGCCCTTTTCGATA
Found at i:57292685 original size:56 final size:55
Alignment explanation
Indices: 57292577--57292746 Score: 177
Period size: 54 Copynumber: 3.1 Consensus size: 55
57292567 TTGGTAAATC
* * * *
57292577 TACAAACCAAGGGTATTT-TAGTAATTTTGTAAACCAATGGTATTTCT-ATAATTTT
1 TACAAATCAAGGGTATTTCT-GTAATTTTATAAACCAGTGGTATTT-TGGTAATTTT
* * *
57292632 TAGAAAGTCAAGGGTATTTCTGTAATTTTATAAATCAGGGGTATTTTGGTAA-TTT
1 TACAAA-TCAAGGGTATTTCTGTAATTTTATAAACCAGTGGTATTTTGGTAATTTT
** * * *
57292687 TACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGT-ATTTT
1 TACAAATCAAGGGTATTTCTGTAATTTTATAAACCAGTGGTATTTTGGTAATTTT
57292741 TACAAA
1 TACAAA
57292747 CTAGGGGTAT
Statistics
Matches: 96, Mismatches: 15, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
53 1 0.01
54 45 0.47
55 14 0.15
56 35 0.36
57 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (55 bp):
TACAAATCAAGGGTATTTCTGTAATTTTATAAACCAGTGGTATTTTGGTAATTTT
Found at i:57292688 original size:27 final size:27
Alignment explanation
Indices: 57292560--57292766 Score: 150
Period size: 27 Copynumber: 7.6 Consensus size: 27
57292550 CATCCTACAA
* * * *
57292560 GGGTGTTTTGGTAAATCTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* ** *
57292587 GGGTATTTTAGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* * * * *
57292614 TGGTATTTCT-ATAATTTTTAGAAAGTCAA
1 GGGTATTT-TGGTAA-TTTTACAAA-CCAG
* *
57292643 GGGTATTTCT-GTAATTTTATAAATCAG
1 GGGTATTT-TGGTAATTTTACAAACCAG
**
57292670 GGGTATTTTGGTAATTTTACAAA-TTG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
57292696 AGGGTATTTCGGTAATTTCACAAACCAG
1 -GGGTATTTTGGTAATTTTACAAACCAG
* * *
57292724 TGGTATTTTGGTATTTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
57292751 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
57292767 CTACCCTATA
Statistics
Matches: 145, Mismatches: 29, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.01
27 111 0.77
28 17 0.12
29 15 0.10
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:57297243 original size:27 final size:28
Alignment explanation
Indices: 57297159--57297256 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
57297149 CATGAGATTG
* * * *
57297159 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
57297188 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
57297216 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
57297243 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
57297257 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:57297267 original size:27 final size:27
Alignment explanation
Indices: 57297187--57297269 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
57297177 TAAATTGTAC
* *
57297187 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
57297215 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
57297242 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
57297269 A
1 A
57297270 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:57297270 original size:29 final size:27
Alignment explanation
Indices: 57297159--57297270 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
57297149 CATGAGATTG
** * *
57297159 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
57297188 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
57297216 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
57297243 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
57297271 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:57305551 original size:27 final size:28
Alignment explanation
Indices: 57305467--57305564 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
57305457 CATGAGATTG
* * * *
57305467 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
57305496 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
57305524 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
57305551 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
57305565 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:57305575 original size:27 final size:27
Alignment explanation
Indices: 57305495--57305577 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
57305485 TAAATTGTAC
* *
57305495 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
57305523 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
57305550 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
57305577 A
1 A
57305578 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:57305578 original size:29 final size:27
Alignment explanation
Indices: 57305467--57305578 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
57305457 CATGAGATTG
** * *
57305467 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
57305496 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
57305524 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
57305551 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
57305579 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:57313847 original size:27 final size:28
Alignment explanation
Indices: 57313763--57313860 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
57313753 CATGAGATTG
* * * *
57313763 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
57313792 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
57313820 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
57313847 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
57313861 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:57313871 original size:27 final size:27
Alignment explanation
Indices: 57313791--57313873 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
57313781 TAAATTGTAC
* *
57313791 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
57313819 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
57313846 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
57313873 A
1 A
57313874 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:57313874 original size:29 final size:27
Alignment explanation
Indices: 57313763--57313874 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
57313753 CATGAGATTG
** * *
57313763 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
57313792 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
57313820 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
57313847 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
57313875 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:57317359 original size:20 final size:20
Alignment explanation
Indices: 57317334--57317372 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
57317324 TGGGCATGTT
57317334 CCCATGCACACAGGCGTGTC
1 CCCATGCACACAGGCGTGTC
*
57317354 CCCATGCATACAGGCGTGT
1 CCCATGCACACAGGCGTGT
57317373 GCATTGCCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.36, G:0.26, T:0.18
Consensus pattern (20 bp):
CCCATGCACACAGGCGTGTC
Found at i:57318528 original size:21 final size:20
Alignment explanation
Indices: 57318500--57318538 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
57318490 CAAAACTTGT
57318500 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
57318520 ATAATCTATCATCAAACAT
1 ATAA-CTATCATCAAACAT
57318539 CAAAATACTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:57324067 original size:43 final size:43
Alignment explanation
Indices: 57324019--57324126 Score: 164
Period size: 43 Copynumber: 2.5 Consensus size: 43
57324009 GATTAACGAG
57324019 ATGTGATTATGTGTAAGACCATGTCTGGGACATTGGCATCATT
1 ATGTGATTATGTGTAAGACCATGTCTGGGACATTGGCATCATT
* *
57324062 ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTT
1 ATGTGATTATGTGTAAGACCATGTCTGGGACATTGGCATCATT
* *
57324105 ATTTGATT-TCGTATAAGACCAT
1 ATGTGATTAT-GTGTAAGACCAT
57324127 AGTTGAGCTA
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (43 bp):
ATGTGATTATGTGTAAGACCATGTCTGGGACATTGGCATCATT
Found at i:57330816 original size:40 final size:40
Alignment explanation
Indices: 57330725--57330938 Score: 276
Period size: 40 Copynumber: 5.4 Consensus size: 40
57330715 TGATAACCGA
*
57330725 GCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-TCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TATCCGG
* * *
57330766 GCTAAGTCCCGAAGGCATTTGTACGAGTTATTACATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
57330806 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
*
57330846 GCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
* *
57330886 GCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATATCC-G
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGG
* *
57330924 GTTAAATCCCGAAGG
1 GCTAAGTCCCGAAGG
57330939 TACTTGGCTT
Statistics
Matches: 156, Mismatches: 14, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
38 15 0.10
39 15 0.10
40 103 0.66
41 20 0.13
42 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
Found at i:57342901 original size:27 final size:27
Alignment explanation
Indices: 57342878--57343065 Score: 218
Period size: 27 Copynumber: 7.0 Consensus size: 27
57342868 TGTAATTATT
*
57342878 GAAATACCCCTGTAGGGTAGAATTTCC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
57342905 GAAATACCCCTATAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
57342932 GAAATACCCTTATAGGATAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
57342959 AAAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
57342986 GAAATACCCTTGTAGGGTAGAAATACA
1 GAAATACCCCTGTAGGGTAGAATTACC
*
57343013 AAAATA-CCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
57343039 -AAGATACCCTTGTGGGGTAAAATTACC
1 GAA-ATACCCCTGTAGGGTAGAATTACC
57343066 ATTTTGCCCT
Statistics
Matches: 136, Mismatches: 23, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
25 2 0.01
26 20 0.15
27 114 0.84
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.25
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:57342935 original size:54 final size:54
Alignment explanation
Indices: 57342871--57343066 Score: 245
Period size: 54 Copynumber: 3.6 Consensus size: 54
57342861 TTGATTGTGT
* * * * *
57342871 AATTATTGAAATACCCCTGTAGGGTAGAATTTCCGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
* *
57342925 AATTACTGAAATACCCTTATAGGATAGAATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
* *
57342979 AATTA-TCGAAATACCCTTGTAGGGTAGAAATACAAAAATA-CCCTGTAGGGTAG
1 AATTACT-GAAATACCCTTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
* * *
57343032 AATTAC-CAAGATACCCTTGTGGGGTAAAATTACCA
1 AATTACTGAA-ATACCCTTGTAGGGTAGAATTACCA
57343067 TTTTGCCCTT
Statistics
Matches: 123, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
52 2 0.02
53 40 0.33
54 81 0.66
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (54 bp):
AATTACTGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
Found at i:57342972 original size:81 final size:80
Alignment explanation
Indices: 57342879--57343063 Score: 246
Period size: 81 Copynumber: 2.3 Consensus size: 80
57342869 GTAATTATTG
* **
57342879 AAATACCCCTGTAGGGTAGAATT-TCCGAAATACCCCTATAGGGTAGAATTACTGAAATACCCTT
1 AAATACCCCTGTAGGGTAGAATTAT-CGAAATACCCCTATAGGGTAGAAATACAAAAATACCC-T
57342943 ATAGGATAGAATTACCA
64 ATAGGATAGAATTACCA
* * *
57342960 AAATACCCCTGTAGGGTAGAATTATCGAAATACCCTTGTAGGGTAGAAATACAAAAATACCCTGT
1 AAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTATAGGGTAGAAATACAAAAATACCCTAT
*
57343025 AGGGTAGAATTACCA
66 AGGATAGAATTACCA
* * * *
57343040 AGATACCCTTGTGGGGTAAAATTA
1 AAATACCCCTGTAGGGTAGAATTA
57343064 CCATTTTGCC
Statistics
Matches: 92, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
80 36 0.39
81 55 0.60
82 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.25
Consensus pattern (80 bp):
AAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTATAGGGTAGAAATACAAAAATACCCTAT
AGGATAGAATTACCA
Found at i:57343075 original size:27 final size:27
Alignment explanation
Indices: 57343045--57343108 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
57343035 TACCAAGATA
*
57343045 CCCTTGTGGGGTAAAATTACCATTTTG
1 CCCTTGTGGGGTAAAATGACCATTTTG
* * **
57343072 CCCTTAG-GGTGTTAAATGACTGTTTTG
1 CCCTT-GTGGGGTAAAATGACCATTTTG
57343099 CCCTTGTGGG
1 CCCTTGTGGG
57343109 CATGTGACTG
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
26 1 0.03
27 27 0.93
28 1 0.03
ACGTcount: A:0.17, C:0.19, G:0.27, T:0.38
Consensus pattern (27 bp):
CCCTTGTGGGGTAAAATGACCATTTTG
Found at i:57343302 original size:27 final size:26
Alignment explanation
Indices: 57343264--57343346 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
57343254 CGGAGGAAGC
*
57343264 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
57343291 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
57343317 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
57343344 GTT
1 GTT
57343347 GACCGATCGA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 41 0.80
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:57343670 original size:25 final size:26
Alignment explanation
Indices: 57343642--57343726 Score: 82
Period size: 27 Copynumber: 3.2 Consensus size: 26
57343632 TGCCACGTAT
* * *
57343642 TCTGTTA-GGTGGGTTTGCCACATTA
1 TCTGTTATGGTGGCTCTGCCACAATA
57343667 TCTGATTATGGTGGCTCTGCCACAATA
1 TCTG-TTATGGTGGCTCTGCCACAATA
* * * *
57343694 TCTGTATCTGGTGACTCTGTCACGATA
1 TCTGT-TATGGTGGCTCTGCCACAATA
57343721 TCTGTT
1 TCTGTT
57343727 CTGGCAGCCA
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
25 4 0.08
26 5 0.10
27 41 0.82
ACGTcount: A:0.18, C:0.20, G:0.24, T:0.39
Consensus pattern (26 bp):
TCTGTTATGGTGGCTCTGCCACAATA
Found at i:57343857 original size:6 final size:6
Alignment explanation
Indices: 57343848--57344040 Score: 184
Period size: 6 Copynumber: 31.8 Consensus size: 6
57343838 TTGCATTCAC
* *
57343848 ATTCTG ATTCTG ATTCT- ATCACGTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
57343897 -TTACTA ATACTA ATTCTG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG
* * *
57343945 ATTCTG ATTCT- ATCACCTA ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA
1 ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG
57343994 ATAT-TG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
57344041 CATTTTGGTT
Statistics
Matches: 159, Mismatches: 12, Indels: 32
0.78 0.06 0.16
Matches are distributed among these distances:
5 13 0.08
6 131 0.82
7 10 0.06
8 5 0.03
ACGTcount: A:0.21, C:0.18, G:0.13, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:57343994 original size:85 final size:87
Alignment explanation
Indices: 57343848--57344040 Score: 311
Period size: 85 Copynumber: 2.2 Consensus size: 87
57343838 TTGCATTCAC
*
57343848 ATTCTGATTCTGATTCTATCACGTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTAAT-T
1 ATTCTGATTCTGATTCTATCACCTAATTCTGATTCTGATTCTGATTCTG-T--T-ATACTAATAT
57343912 CTGATTCTGATTCTGATTCTGTTACTG
62 -TGATTCTGATTCTGATTCTGTTACTG
57343939 ATTCTGATTCTGATTCTATCACCTAATTCTGATTCTGATTCTGATTCTG-T-TACTAATATTGAT
1 ATTCTGATTCTGATTCTATCACCTAATTCTGATTCTGATTCTGATTCTGTTATACTAATATTGAT
57344002 TCTGATTCTGATTCTGTTACTG
66 TCTGATTCTGATTCTGTTACTG
57344024 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
57344041 CATTTTGGTT
Statistics
Matches: 100, Mismatches: 1, Indels: 8
0.92 0.01 0.07
Matches are distributed among these distances:
85 50 0.50
86 1 0.01
87 1 0.01
91 48 0.48
ACGTcount: A:0.21, C:0.18, G:0.13, T:0.48
Consensus pattern (87 bp):
ATTCTGATTCTGATTCTATCACCTAATTCTGATTCTGATTCTGATTCTGTTATACTAATATTGAT
TCTGATTCTGATTCTGTTACTG
Found at i:57344004 original size:91 final size:91
Alignment explanation
Indices: 57343848--57344040 Score: 327
Period size: 91 Copynumber: 2.1 Consensus size: 91
57343838 TTGCATTCAC
*
57343848 ATTCTGATTCTGATTCTATCACGTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTAATTC
1 ATTCTGATTCTGATTCTATCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTAATTC
57343913 TGATTCTGATTCTGATT-CTG-TTACTG
66 TGATTCTGATTCTG-TTACTGATT-CTG
* *
57343939 ATTCTGATTCTGATTCTATCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATATTGATTC
1 ATTCTGATTCTGATTCTATCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTAATTC
57344004 TGATTCTGATTCTGTTACTGATTCTG
66 TGATTCTGATTCTGTTACTGATTCTG
57344030 ATTCTGATTCT
1 ATTCTGATTCT
57344041 CATTTTGGTT
Statistics
Matches: 97, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
90 2 0.02
91 93 0.96
92 2 0.02
ACGTcount: A:0.21, C:0.18, G:0.13, T:0.48
Consensus pattern (91 bp):
ATTCTGATTCTGATTCTATCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTAATTC
TGATTCTGATTCTGTTACTGATTCTG
Found at i:57344061 original size:30 final size:30
Alignment explanation
Indices: 57343848--57344040 Score: 248
Period size: 30 Copynumber: 6.4 Consensus size: 30
57343838 TTGCATTCAC
* *
57343848 ATTCTGATTCTGATTCTATCACGTAATTCTG
1 ATTCTGATTCTGATTCTGTTAC-TAATTCTG
* *
57343879 ATTCTGATTCTGATTCTGTTACTAATACTA
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
*
57343909 ATTCTGATTCTGATTCTGATT-CT-GTTACTG
1 ATTCTGATTCTGATTCTG-TTACTAATT-CTG
* *
57343939 ATTCTGATTCTGATTCTATCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTA-CTAATTCTG
57343970 ATTCTGATTCTGATTCTGTTACTAATAT-TG
1 ATTCTGATTCTGATTCTGTTACTAAT-TCTG
*
57344000 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
57344030 ATTCTGATTCT
1 ATTCTGATTCT
57344041 CATTTTGGTT
Statistics
Matches: 142, Mismatches: 13, Indels: 15
0.84 0.08 0.09
Matches are distributed among these distances:
29 3 0.02
30 90 0.63
31 47 0.33
32 2 0.01
ACGTcount: A:0.21, C:0.18, G:0.13, T:0.48
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATTCTG
Found at i:57346015 original size:27 final size:27
Alignment explanation
Indices: 57345985--57346153 Score: 74
Period size: 27 Copynumber: 6.3 Consensus size: 27
57345975 CGACTTGTAA
57345985 AATTACCAAAGTACTCCT-GATTTACAG
1 AATTACCAAAGTAC-CCTCGATTTACAG
****
57346012 AATTACCGTTTTACCCTCGATTTACAG
1 AATTACCAAAGTACCCTCGATTTACAG
****
57346039 AATTACCGTTTTACCCTC-AGTTTACAG
1 AATTACCAAAGTACCCTCGA-TTTACAG
***** *
57346066 AATTACTGTTTTACCCTC-AGTTTATAG
1 AATTACCAAAGTACCCTCGA-TTTACAG
****
57346093 AATTACCGTTTTACCCTCGATTTACAG
1 AATTACCAAAGTACCCTCGATTTACAG
* **** *
57346120 AATTATCGTTTTACCCTCGATTGACAG
1 AATTACCAAAGTACCCTCGATTTACAG
57346147 AATTACC
1 AATTACC
57346154 GTTTTACCCT
Statistics
Matches: 128, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
26 4 0.03
27 123 0.96
28 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.37
Consensus pattern (27 bp):
AATTACCAAAGTACCCTCGATTTACAG
Found at i:57346565 original size:27 final size:27
Alignment explanation
Indices: 57346003--57346557 Score: 688
Period size: 27 Copynumber: 20.6 Consensus size: 27
57345993 AAGTACTCCT
57346003 GATTTACAGAATTACCGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTC
57346030 GATTTACAGAATTACCGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTC
*
57346057 -AGTTTACAGAATTACTGTTTTACCCTC
1 GA-TTTACAGAATTACCGTTTTACCCTC
*
57346084 -AGTTTATAGAATTACCGTTTTACCCTC
1 GA-TTTACAGAATTACCGTTTTACCCTC
*
57346111 GATTTACAGAATTATCGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTC
*
57346138 GATTGACAGAATTACCGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTC
** * * *
57346165 GATTTTTAAAATTATCGTTTTACCTTC
1 GATTTACAGAATTACCGTTTTACCCTC
* * *
57346192 AATTTACAGAATTACCATTTTATCCTC
1 GATTTACAGAATTACCGTTTTACCCTC
57346219 -AGTTTACAGAATTACCGTTTTACCCTC
1 GA-TTTACAGAATTACCGTTTTACCCTC
* **
57346246 GATTTACAAAATTTTCGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTC
* * *
57346273 -AGTTTATAGAATTACTGCTTTACCCTC
1 GA-TTTACAGAATTACCGTTTTACCCTC
* *
57346300 GATTTATATAATTACCGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTC
** *
57346327 GATTTGTAAAATTACCGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTC
*
57346354 GATTTACAGAATTACCATTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTC
**
57346381 -AGTTTACAGAATTACTATTTTACCCTC
1 GA-TTTACAGAATTACCGTTTTACCCTC
* *
57346408 GATTTACAGAATTACTGCTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTC
57346435 GATTTACAGAATTACCGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTC
** * *
57346462 GATTTGTAAAATTACCGTTTTACCCTT
1 GATTTACAGAATTACCGTTTTACCCTC
* *
57346489 GATTTACAGAATTACTGGTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTC
* * *
57346516 AATTTACAAAATTATCGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTC
*
57346543 GATTTATAGAATTAC
1 GATTTACAGAATTAC
57346558 TATTTTACTC
Statistics
Matches: 455, Mismatches: 65, Indels: 16
0.85 0.12 0.03
Matches are distributed among these distances:
26 4 0.01
27 447 0.98
28 4 0.01
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (27 bp):
GATTTACAGAATTACCGTTTTACCCTC
Found at i:57346630 original size:27 final size:27
Alignment explanation
Indices: 57346579--57346773 Score: 203
Period size: 27 Copynumber: 7.2 Consensus size: 27
57346569 TGATTGTGCG
* * *
57346579 ATTACTGAAATACCCCTGTAAGGTAGA
1 ATTACCGAAATACCCCTATAGGGTAGA
*
57346606 ATTTCCGAAATACCCCTATAGGGTAGA
1 ATTACCGAAATACCCCTATAGGGTAGA
* * * *
57346633 ATTACTGAAATACCCTTATAGGATGGA
1 ATTACCGAAATACCCCTATAGGGTAGA
* *
57346660 ATTACCAAAATACCCCTGTAGGGTAGA
1 ATTACCGAAATACCCCTATAGGGTAGA
* *
57346687 ATTATCGAAATACCCTTATAGGGTAGA
1 ATTACCGAAATACCCCTATAGGGTAGA
* * *
57346714 AATACCAAAATACCCCTGTAGGGTAGA
1 ATTACCGAAATACCCCTATAGGGTAGA
* * * *
57346741 ATTACC-AAGATACCCTTGTGGGGTAAA
1 ATTACCGAA-ATACCCCTATAGGGTAGA
57346768 ATTACC
1 ATTACC
57346774 ATTTTGCCCC
Statistics
Matches: 139, Mismatches: 28, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
26 2 0.01
27 137 0.99
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.26
Consensus pattern (27 bp):
ATTACCGAAATACCCCTATAGGGTAGA
Found at i:57346765 original size:81 final size:82
Alignment explanation
Indices: 57346586--57346771 Score: 241
Period size: 81 Copynumber: 2.3 Consensus size: 82
57346576 GCGATTACTG
* * ** *
57346586 AAATACCCCTGTAAGGTAGAATT-TCCGAAATACCCCTATAGGGTAGAATTACTGAAATACCCTT
1 AAATACCCCTGTAGGGTAGAATTATCCGAAATACCCCTATAGGGTAGAAATACCAAAATACCCCT
*
57346650 ATAGGATGGAATTACCA
66 ATAGGATAGAATTACCA
*
57346667 AAATACCCCTGTAGGGTAGAATTAT-CGAAATACCCTTATAGGGTAGAAATACCAAAATACCCCT
1 AAATACCCCTGTAGGGTAGAATTATCCGAAATACCCCTATAGGGTAGAAATACCAAAATACCCCT
* *
57346731 GTAGGGTAGAATTACCA
66 ATAGGATAGAATTACCA
* * * *
57346748 AGATACCCTTGTGGGGTAAAATTA
1 AAATACCCCTGTAGGGTAGAATTA
57346772 CCATTTTGCC
Statistics
Matches: 91, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
81 90 0.99
82 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (82 bp):
AAATACCCCTGTAGGGTAGAATTATCCGAAATACCCCTATAGGGTAGAAATACCAAAATACCCCT
ATAGGATAGAATTACCA
Found at i:57347010 original size:27 final size:26
Alignment explanation
Indices: 57346972--57347054 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
57346962 CGAAGGAAAC
*
57346972 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
57346999 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
57347025 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
57347052 GTT
1 GTT
57347055 GACCGATCGA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 41 0.80
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:57347389 original size:27 final size:27
Alignment explanation
Indices: 57347367--57347434 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 27
57347357 TAGGTGGGTT
*
57347367 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
57347394 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* *
57347421 TGTCACGATATCTG
1 TGCCACAATATCTG
57347435 CTCTGGCTGC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
27 35 0.97
28 1 0.03
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:57347566 original size:6 final size:6
Alignment explanation
Indices: 57347557--57347737 Score: 142
Period size: 6 Copynumber: 29.8 Consensus size: 6
57347547 TTGCATTCAC
* * *
57347557 ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTG ATTCTG GTTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
57347606 -TTACTA ATACTG ATTCTG ATTCTG -TTACTG ATTTTG ATTCTG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG
* * *
57347654 -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA ATAT-TG ATTCTG
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG
*
57347703 ATTTTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
57347738 CATTTTGGTT
Statistics
Matches: 139, Mismatches: 20, Indels: 32
0.73 0.10 0.17
Matches are distributed among these distances:
5 11 0.08
6 115 0.83
7 10 0.07
8 3 0.02
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:57347592 original size:31 final size:30
Alignment explanation
Indices: 57347557--57347629 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 30
57347547 TTGCATTCAC
*
57347557 ATTCTGATTCTGATTCTGTCACGTAATTCTG
1 ATTCTGATTCTGATTCTGTCAC-TAATACTG
* *
57347588 ATTCTGGTTCTGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTCACTAATACTG
57347618 ATTCTGATTCTG
1 ATTCTGATTCTG
57347630 TTACTGATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
30 18 0.47
31 20 0.53
ACGTcount: A:0.19, C:0.18, G:0.16, T:0.47
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTCACTAATACTG
Found at i:57347685 original size:79 final size:79
Alignment explanation
Indices: 57347560--57347732 Score: 269
Period size: 79 Copynumber: 2.2 Consensus size: 79
57347550 CATTCACATT
* *
57347560 CTGATTCTGATTCTGTCACGTAATTCTGATTCTGGTTCTGATTCTGTTACTAATACTGATTCTGA
1 CTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTCTGA
57347625 TTCTG-TTACTGATT-
66 TTCTGATT-CTG-TTA
* *
57347639 TTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATATTGATTCTGA
1 CTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTCTGA
*
57347704 TTTTGATTCTGTTA
66 TTCTGATTCTGTTA
57347718 CTGATTCTGATTCTG
1 CTGATTCTGATTCTG
57347733 ATTCTCATTT
Statistics
Matches: 86, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
78 2 0.02
79 82 0.95
80 2 0.02
ACGTcount: A:0.19, C:0.17, G:0.16, T:0.49
Consensus pattern (79 bp):
CTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTCTGA
TTCTGATTCTGTTA
Found at i:57349779 original size:27 final size:27
Alignment explanation
Indices: 57349749--57350428 Score: 791
Period size: 27 Copynumber: 25.2 Consensus size: 27
57349739 AAAGTACTCC
*
57349749 CGATTTATAGAATTACTGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
*
57349776 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
**
57349803 C-AGTTTATAGAATTACTATTTTACCCT
1 CGA-TTTATAGAATTACCGTTTTACCCT
*
57349830 C-AGTTTATGGAATTACCGTTTTACCCT
1 CGA-TTTATAGAATTACCGTTTTACCCT
*
57349857 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
*
57349884 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* * * *
57349911 CGATTTTTAAAATTACCGTTTTAACTT
1 CGATTTATAGAATTACCGTTTTACCCT
57349938 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
57349965 C-AGTTTATAGAATTACCGTTTTACCCT
1 CGA-TTTATAGAATTACCGTTTTACCCT
*
57349992 C-AGTTTATAAAATTACCGTTTTACCCT
1 CGA-TTTATAGAATTACCGTTTTACCCT
* * *
57350019 CGGTTTACAGAATTACCATTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* * *
57350046 CGATTTTTAAAATTACCATTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* *
57350073 CGATTTACAGAATTATCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* *
57350100 CAATTTATAGAATTACTGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
*
57350127 CGATTTATATAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* * *
57350154 CGATTTGTAAAATTACCATTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* *
57350181 TGATTTACAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* **
57350208 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTATAGAATTACCGTTTTACCCT
*
57350235 CAATTTATAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* ****
57350262 C-AGTTTACAGAATTACTACCTTACCCT
1 CGA-TTTATAGAATTACCGTTTTACCCT
*
57350289 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* *
57350316 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* * * *
57350343 TGATTTACAAAATTACTAG-TTTACCCT
1 CGATTTATAGAATTAC-CGTTTTACCCT
* * *
57350370 C-AGTTTACAAAATTATCGTTTTACCCT
1 CGA-TTTATAGAATTACCGTTTTACCCT
*
57350397 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
*
57350424 TGATT
1 CGATT
57350429 GTGCAATTAC
Statistics
Matches: 565, Mismatches: 76, Indels: 24
0.85 0.11 0.04
Matches are distributed among these distances:
26 6 0.01
27 554 0.98
28 5 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
CGATTTATAGAATTACCGTTTTACCCT
Found at i:57350463 original size:27 final size:27
Alignment explanation
Indices: 57350433--57350627 Score: 205
Period size: 27 Copynumber: 7.2 Consensus size: 27
57350423 TTGATTGTGC
*
57350433 AATTACTGAAATTCCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
57350460 AATTTCTGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * *
57350487 AATTATTGAAATACCCTTATAGGATAG
1 AATTACTGAAATACCCCTGTAGGGTAG
**
57350514 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
57350541 AATT-GTCGAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
*
57350568 AAATAAC-GAAATACCCCTGTAGGGTAG
1 -AATTACTGAAATACCCCTGTAGGGTAG
* * * * *
57350595 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
57350622 AATTAC
1 AATTAC
57350628 CATTTTGCCC
Statistics
Matches: 139, Mismatches: 25, Indels: 8
0.81 0.15 0.05
Matches are distributed among these distances:
26 5 0.04
27 131 0.94
28 3 0.02
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:57350539 original size:81 final size:81
Alignment explanation
Indices: 57350441--57350625 Score: 228
Period size: 81 Copynumber: 2.3 Consensus size: 81
57350431 GCAATTACTG
* * ** *
57350441 AAATTCCCCTGTAGGGTAGAATT-TCTGAAATACCCCTATAGGGTAGAATTATTGAAATACCCTT
1 AAATACCCCTGTAGGGTAGAATTGTC-GAAATACCCCTATAGGGTAGAAATAACGAAATACCCCT
57350505 ATAGGATAGAATTACCA
65 ATAGGATAGAATTACCA
* * *
57350522 AAATACCCCTGTAGGGTAGAATTGTCGAAATACCCTTGTAGGGTAGAAATAACGAAATACCCCTG
1 AAATACCCCTGTAGGGTAGAATTGTCGAAATACCCCTATAGGGTAGAAATAACGAAATACCCCTA
* *
57350587 TAGGGTAGAATTACCG
66 TAGGATAGAATTACCA
* * * *
57350603 AGATACCCTTGTGGGGTAAAATT
1 AAATACCCCTGTAGGGTAGAATT
57350626 ACCATTTTGC
Statistics
Matches: 89, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
81 87 0.98
82 2 0.02
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (81 bp):
AAATACCCCTGTAGGGTAGAATTGTCGAAATACCCCTATAGGGTAGAAATAACGAAATACCCCTA
TAGGATAGAATTACCA
Found at i:57350865 original size:27 final size:26
Alignment explanation
Indices: 57350827--57350909 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 26
57350817 CGGAGGAAGC
*
57350827 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
*
57350854 GTTCTGGTGGCTCTGCCACAATATTT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
57350880 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
57350907 GTT
1 GTT
57350910 GACCGATCTA
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
26 9 0.18
27 40 0.82
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:57351029 original size:22 final size:22
Alignment explanation
Indices: 57350997--57351055 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
57350987 CCCGTTATTA
* *
57350997 ATGGCTCTGTGCCAACCTAAGT
1 ATGGCTTTGTGCCAACCTAACT
* * *
57351019 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAACT
*
57351041 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
57351056 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.19, C:0.25, G:0.24, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAACT
Found at i:57351242 original size:27 final size:27
Alignment explanation
Indices: 57351220--57351293 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
57351210 TAGGTGGGTT
*
57351220 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
57351247 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* *
57351274 TGTCACGATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
57351294 CAGCCATGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.12
27 36 0.86
28 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:57351439 original size:25 final size:24
Alignment explanation
Indices: 57351411--57351501 Score: 128
Period size: 25 Copynumber: 3.7 Consensus size: 24
57351401 TTGCATTCAC
*
57351411 ATTCTAATTCTGATTCTGTCACGTA
1 ATTCTGATTCTGATTCTGTCAC-TA
* *
57351436 ATTCTGATTCTGATTCTGTTACTG
1 ATTCTGATTCTGATTCTGTCACTA
57351460 ATTCTGATTCTGATTCTGTCACCTA
1 ATTCTGATTCTGATTCTGTCA-CTA
*
57351485 ATTCTGATTTTGATTCT
1 ATTCTGATTCTGATTCT
57351502 AATTCTGTTA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
24 21 0.36
25 38 0.64
ACGTcount: A:0.20, C:0.19, G:0.13, T:0.48
Consensus pattern (24 bp):
ATTCTGATTCTGATTCTGTCACTA
Found at i:57351445 original size:6 final size:6
Alignment explanation
Indices: 57351436--57351561 Score: 109
Period size: 6 Copynumber: 20.8 Consensus size: 6
57351426 CTGTCACGTA
* *
57351436 ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* * *
57351485 ATTCTG ATTTTG ATTCTA ATTCTG -TTACTA ATAT-TG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG
*
57351533 ATTCTG -TTACTG GTTCTG ATTCTG ATTCT
1 ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
57351562 CATTTTGGTT
Statistics
Matches: 98, Mismatches: 11, Indels: 22
0.75 0.08 0.17
Matches are distributed among these distances:
5 8 0.08
6 81 0.83
7 7 0.07
8 2 0.02
ACGTcount: A:0.19, C:0.17, G:0.14, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:57351523 original size:49 final size:49
Alignment explanation
Indices: 57351411--57351526 Score: 148
Period size: 49 Copynumber: 2.4 Consensus size: 49
57351401 TTGCATTCAC
* *
57351411 ATTCTAATTCTGATTCTGTCACGTAATTCTGATTCTGATTCTGTTACTG
1 ATTCTAATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTATTACTG
* *
57351460 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTTTGATTCTAATT-CTG
1 ATTCTAATTCTGATTCTGTCACCTAATTCTGATTCTGATTCT-ATTACTG
57351509 -TTACTAATAT-TGATTCTG
1 ATT-CTAAT-TCTGATTCTG
57351527 ATTCTGATTC
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
48 2 0.03
49 54 0.92
50 3 0.05
ACGTcount: A:0.22, C:0.17, G:0.13, T:0.48
Consensus pattern (49 bp):
ATTCTAATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTATTACTG
Found at i:57351570 original size:24 final size:23
Alignment explanation
Indices: 57351485--57351582 Score: 72
Period size: 24 Copynumber: 4.1 Consensus size: 23
57351475 CTGTCACCTA
57351485 ATTCTGATTTTGATTCTAATTCTG
1 ATTCT-ATTTTGATTCTAATTCTG
* *
57351509 -TTACTAATATTGATTCTGATTCTG
1 ATT-CT-ATTTTGATTCTAATTCTG
* * * *
57351533 ATTCTGTTACTGGTTCTGATTCTG
1 ATTCTATT-TTGATTCTAATTCTG
* *
57351557 ATTCTCATTTTGGTTCCAATTCTG
1 ATTCT-ATTTTGATTCTAATTCTG
57351581 AT
1 AT
57351583 AATGTTTCTT
Statistics
Matches: 59, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
23 3 0.05
24 52 0.88
25 4 0.07
ACGTcount: A:0.19, C:0.15, G:0.14, T:0.51
Consensus pattern (23 bp):
ATTCTATTTTGATTCTAATTCTG
Found at i:57362162 original size:40 final size:40
Alignment explanation
Indices: 57362107--57362191 Score: 170
Period size: 40 Copynumber: 2.1 Consensus size: 40
57362097 TAGTTAAGTT
57362107 TTCATCATTAAATTAAGTCATGCATTAAGTAACTCATTTG
1 TTCATCATTAAATTAAGTCATGCATTAAGTAACTCATTTG
57362147 TTCATCATTAAATTAAGTCATGCATTAAGTAACTCATTTG
1 TTCATCATTAAATTAAGTCATGCATTAAGTAACTCATTTG
57362187 TTCAT
1 TTCAT
57362192 TTAGTTTACA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.34, C:0.15, G:0.09, T:0.41
Consensus pattern (40 bp):
TTCATCATTAAATTAAGTCATGCATTAAGTAACTCATTTG
Found at i:57364134 original size:40 final size:40
Alignment explanation
Indices: 57364059--57364331 Score: 467
Period size: 40 Copynumber: 6.8 Consensus size: 40
57364049 GAGCATTTGA
57364059 ATATATCCGGGCTAAGACCC-AAGGCATTTGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
57364098 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
57364138 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
*
57364178 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
57364218 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
* *
57364258 ATATATCCGGGCTAAGGCCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
* ** * *
57364298 CTATGCCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGC
57364332 TTGTGGTAAT
Statistics
Matches: 222, Mismatches: 11, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
39 20 0.09
40 202 0.91
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
Found at i:57369814 original size:50 final size:51
Alignment explanation
Indices: 57369736--57369864 Score: 192
Period size: 50 Copynumber: 2.5 Consensus size: 51
57369726 GACCATGGCA
57369736 ACAAGTGATAAGTGATAGCTTC-GACTACACTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCAG-CTACACTTATCTGATCAAGGACAAA-TG
*
57369787 A-AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAATG
* *
57369837 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCAGCTAC
57369865 GCGATTAGTG
Statistics
Matches: 72, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
50 43 0.60
51 29 0.40
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAATG
Found at i:57369878 original size:31 final size:31
Alignment explanation
Indices: 57369840--57370050 Score: 255
Period size: 31 Copynumber: 6.8 Consensus size: 31
57369830 ACAAATGACA
*
57369840 AGTGAAAAGTGGTAGCTTCAGCTACGCGATT
1 AGTGAAAAGTGGTAGCTTCAGCTACGCGATC
*
57369871 AGTGAAAAGTGGTAGCTTCAGCTACGCGATT
1 AGTGAAAAGTGGTAGCTTCAGCTACGCGATC
*
57369902 AGTGAAAAGTGGTAGCTTCAGCTACGTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACGCGATC
* * * *
57369933 AGTGAAAAGTGGTAGGTTCTGCTACGTGATT
1 AGTGAAAAGTGGTAGCTTCAGCTACGCGATC
* * **
57369964 AGTGAAAAGTGGTAGCTCCGGCTACTTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACGCGATC
*
57369995 AGTGAAAAGTGGTAGC-TCTGGCTAC-CTGATC
1 AGTGAAAAGTGGTAGCTTC-AGCTACGC-GATC
* * *
57370026 AGTGAATAGTGGTAGCATCGGCTAC
1 AGTGAAAAGTGGTAGCTTCAGCTAC
57370051 AAGTGACAAG
Statistics
Matches: 164, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
30 1 0.01
31 161 0.98
32 2 0.01
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCAGCTACGCGATC
Found at i:57369946 original size:93 final size:93
Alignment explanation
Indices: 57369840--57370050 Score: 289
Period size: 93 Copynumber: 2.3 Consensus size: 93
57369830 ACAAATGACA
* *
57369840 AGTGAAAAGTGGTAGCTTCAGCTACGCGATTAGTGAAAAGTGGTAGCTTCAGCTACGCGATTAGT
1 AGTGAAAAGTGGTAGCTTCAGCTACGCGATTAGTGAAAAGTGGTAGCTCCAGCTACGCGATCAGT
*
57369905 GAAAAGTGGTAGCT-TCAGCTACGTGATC
66 GAAAAGTGGTAGCTCT-AGCTACCTGATC
* * * * **
57369933 AGTGAAAAGTGGTAGGTTCTGCTACGTGATTAGTGAAAAGTGGTAGCTCCGGCTACTTGATCAGT
1 AGTGAAAAGTGGTAGCTTCAGCTACGCGATTAGTGAAAAGTGGTAGCTCCAGCTACGCGATCAGT
*
57369998 GAAAAGTGGTAGCTCTGGCTACCTGATC
66 GAAAAGTGGTAGCTCTAGCTACCTGATC
* * *
57370026 AGTGAATAGTGGTAGCATCGGCTAC
1 AGTGAAAAGTGGTAGCTTCAGCTAC
57370051 AAGTGACAAG
Statistics
Matches: 103, Mismatches: 14, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
93 102 0.99
94 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (93 bp):
AGTGAAAAGTGGTAGCTTCAGCTACGCGATTAGTGAAAAGTGGTAGCTCCAGCTACGCGATCAGT
GAAAAGTGGTAGCTCTAGCTACCTGATC
Found at i:57370145 original size:47 final size:46
Alignment explanation
Indices: 57370075--57370198 Score: 167
Period size: 47 Copynumber: 2.7 Consensus size: 46
57370065 AAGTGATTTT
* *
57370075 CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTA
1 CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * *
57370121 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATT
1 C-GTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * *
57370168 CGTGTAAGACCATAGCTGGGCTATGGCATCG
1 CGTATAAGACCATATCTGGGATATGGCATCG
57370199 ATATATGAAT
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
46 27 0.40
47 41 0.60
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.29
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
Found at i:57370232 original size:42 final size:43
Alignment explanation
Indices: 57370169--57370283 Score: 155
Period size: 42 Copynumber: 2.7 Consensus size: 43
57370159 TATGTGATTC
* *
57370169 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGCTAGGCTATGGCATCGATTATATGAAGAT
*
57370211 GTGTAAGACCATAGCTAGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTAGGCTATGGCATCGATTATATGAAGAT
* *
57370253 GTGTAAGACCATAG-TTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTAG-GCTATGGCATCGA
57370284 GAAAACGAAG
Statistics
Matches: 65, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
41 3 0.05
42 61 0.94
43 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (43 bp):
GTGTAAGACCATAGCTAGGCTATGGCATCGATTATATGAAGAT
Found at i:57376351 original size:15 final size:15
Alignment explanation
Indices: 57376331--57376361 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
57376321 TGATCAGGTG
57376331 AAAGCCCTTTTGACC
1 AAAGCCCTTTTGACC
57376346 AAAGCCCTTTTGACC
1 AAAGCCCTTTTGACC
57376361 A
1 A
57376362 GAATCAGGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.29, C:0.32, G:0.13, T:0.26
Consensus pattern (15 bp):
AAAGCCCTTTTGACC
Found at i:57378303 original size:27 final size:27
Alignment explanation
Indices: 57378273--57378380 Score: 119
Period size: 27 Copynumber: 4.0 Consensus size: 27
57378263 AATCTCATAT
* *
57378273 CTGTAGGCTAGTATTACTGAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
*
57378300 CTGTAGGGTAGAATTACTGAAATGCCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* * * *
57378327 TTGTAGGATAGATTTACT-AAATTGCCC
1 CTGTAGGGTAGAATTACTGAAA-TACCC
* *
57378354 CTGTAGGGTGGAATTACTAAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
57378381 TTGGTTTACA
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
26 3 0.04
27 62 0.91
28 3 0.04
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.30
Consensus pattern (27 bp):
CTGTAGGGTAGAATTACTGAAATACCC
Found at i:57378395 original size:27 final size:27
Alignment explanation
Indices: 57378365--57378706 Score: 293
Period size: 27 Copynumber: 12.7 Consensus size: 27
57378355 TGTAGGGTGG
* **
57378365 AATTACTAAAATACCCTTGGTTTACAA
1 AATTACTAAAATACCCTTGATTTGTAA
* * **
57378392 AATTACT-GAATACCCTTGGTTTACAA
1 AATTACTAAAATACCCTTGATTTGTAA
* * * *
57378418 AATTACCAAAGTACCCTT-ATTAGCAA
1 AATTACTAAAATACCCTTGATTTGTAA
* * *
57378444 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTTGATTTGTAA
* *
57378471 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTACTAAAATACCCTTGA-TTTGTAA
* *
57378498 AATTA-TCAAAATACCCCTGATTTGTGA
1 AATTACT-AAAATACCCTTGATTTGTAA
* * *
57378525 AATTA-TCGAAATACCCTCGACTTGTAA
1 AATTACT-AAAATACCCTTGATTTGTAA
* *
57378552 AATTACTAAAATACCTTTGACTTGTAA
1 AATTACTAAAATACCCTTGATTTGTAA
* *
57378579 AATTACTGAAATACCCTCGATTTGTAA
1 AATTACTAAAATACCCTTGATTTGTAA
** * *
57378606 AATTACCCATATACCCTTGATTTGGAA
1 AATTACTAAAATACCCTTGATTTGTAA
57378633 AATTACTAAAATACCCTTGACTTT-TAAA
1 AATTACTAAAATACCCTTGA-TTTGT-AA
*
57378661 AATTAC-AGAAATACCCTTGGTTTGTAA
1 AATTACTA-AAATACCCTTGATTTGTAA
* *
57378688 AATTACCAAAACACCCTTG
1 AATTACTAAAATACCCTTG
57378707 TAGGATGAAA
Statistics
Matches: 266, Mismatches: 38, Indels: 22
0.82 0.12 0.07
Matches are distributed among these distances:
26 45 0.17
27 195 0.73
28 26 0.10
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
AATTACTAAAATACCCTTGATTTGTAA
Found at i:57378743 original size:82 final size:81
Alignment explanation
Indices: 57378496--57378744 Score: 184
Period size: 81 Copynumber: 3.0 Consensus size: 81
57378486 CCTAGTTTGT
* * * * * * * *
57378496 AAAATTATCA-AAATACCC-CTGATTTGTGAAATTATCGAAATACCCTCGACTTGTAAAATTACT
1 AAAATTA-CAGAAATACCCTC-GATTTGTAAAATTACCAAAACACCCTTGA-TAGGAAAATGACT
** * *
57378559 AAAATACCTTTGACTTGT-
63 AAAATACCCCTGAATGGTA
* * * * * *
57378577 AAAATTACTGAAATACCCTCGATTTGTAAAATTACCCATATACCCTTGATTTGGAAAATTACTAA
1 AAAATTACAGAAATACCCTCGATTTGTAAAATTACCAAAACACCCTTGA-TAGGAAAATGACTAA
* * **
57378642 AATACCCTTGACTTTTA
65 AATACCCCTGAATGGTA
* *
57378659 AAAATTACAGAAATACCCTTGGTTTGTAAAATTACCAAAACACCCTTG-TAGGATGAAATGACTA
1 AAAATTACAGAAATACCCTCGATTTGTAAAATTACCAAAACACCCTTGATAGGA--AAATGACTA
57378723 AAATACCCCT-AATAGGTA
64 AAATACCCCTGAAT-GGTA
57378741 AAAA
1 AAAA
57378745 GACCATTCTG
Statistics
Matches: 140, Mismatches: 22, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
80 5 0.04
81 69 0.49
82 66 0.47
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (81 bp):
AAAATTACAGAAATACCCTCGATTTGTAAAATTACCAAAACACCCTTGATAGGAAAATGACTAAA
ATACCCCTGAATGGTA
Found at i:57393092 original size:21 final size:20
Alignment explanation
Indices: 57393058--57393101 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
57393048 TCTTTTTCAG
*
57393058 TCTCAATCTCTTTTTGTTGTT
1 TCTCAATCTCTTTTTCTT-TT
* *
57393079 TCTCACTCTTTTTTTCTTTT
1 TCTCAATCTCTTTTTCTTTT
57393099 TCT
1 TCT
57393102 ATTTTTTTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.07, C:0.23, G:0.05, T:0.66
Consensus pattern (20 bp):
TCTCAATCTCTTTTTCTTTT
Found at i:57397830 original size:15 final size:15
Alignment explanation
Indices: 57397810--57397857 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
57397800 TCAAAGATGG
57397810 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
57397825 GTTTATGTAGATG-G
1 GTTTATGGATATGAA
*
57397839 GTTTATGGATATAAA
1 GTTTATGGATATGAA
57397854 GTTT
1 GTTT
57397858 TTATAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:57397844 original size:14 final size:14
Alignment explanation
Indices: 57397804--57397847 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
57397794 AAGGATTCAA
57397804 AGATGGGTTTATGG
1 AGATGGGTTTATGG
* * *
57397818 ATATGAAGTTTATGT
1 AGATG-GGTTTATGG
57397833 AGATGGGTTTATGG
1 AGATGGGTTTATGG
57397847 A
1 A
57397848 TATAAAGTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.27, C:0.00, G:0.34, T:0.39
Consensus pattern (14 bp):
AGATGGGTTTATGG
Found at i:57398882 original size:14 final size:14
Alignment explanation
Indices: 57398840--57398884 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
57398830 TTAAAGAAGC
57398840 AACTCATTAAATTA
1 AACTCATTAAATTA
* *
57398854 AATTCATCAAA-TA
1 AACTCATTAAATTA
*
57398867 AACTCATTTAATTA
1 AACTCATTAAATTA
57398881 AACT
1 AACT
57398885 AAGATGAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:57401385 original size:18 final size:18
Alignment explanation
Indices: 57401364--57401413 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
57401354 AAACTCTTTT
*
57401364 TCATTCTCATTTTCAATC
1 TCATTCTCTTTTTCAATC
* *
57401382 TCATTTTCTTTTTCACTC
1 TCATTCTCTTTTTCAATC
*
57401400 TCAATCTCTTTTTC
1 TCATTCTCTTTTTC
57401414 TTTGTCTTTC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.16, C:0.28, G:0.00, T:0.56
Consensus pattern (18 bp):
TCATTCTCTTTTTCAATC
Found at i:57401414 original size:24 final size:24
Alignment explanation
Indices: 57401339--57401416 Score: 93
Period size: 24 Copynumber: 3.2 Consensus size: 24
57401329 CTTGTTCACA
* *
57401339 TTCTTTCTCTCTCTCAAACTCTTT
1 TTCTTTCTCACTCTCAATCTCTTT
* * * *
57401363 TTCATTCTCATTTTCAATCTCATT
1 TTCTTTCTCACTCTCAATCTCTTT
*
57401387 TTCTTTTTCACTCTCAATCTCTTT
1 TTCTTTCTCACTCTCAATCTCTTT
57401411 TTCTTT
1 TTCTTT
57401417 GTCTTTCATT
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.14, C:0.28, G:0.00, T:0.58
Consensus pattern (24 bp):
TTCTTTCTCACTCTCAATCTCTTT
Found at i:57402739 original size:15 final size:15
Alignment explanation
Indices: 57402719--57402766 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
57402709 TCAAAGATGG
57402719 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
57402734 GTTTATGTAGATG-G
1 GTTTATGGATATGAA
*
57402748 GTTTATGGATATAAA
1 GTTTATGGATATGAA
57402763 GTTT
1 GTTT
57402767 TTATAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:57402753 original size:14 final size:14
Alignment explanation
Indices: 57402713--57402756 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
57402703 AAGGATTCAA
57402713 AGATGGGTTTATGG
1 AGATGGGTTTATGG
* * *
57402727 ATATGAAGTTTATGT
1 AGATG-GGTTTATGG
57402742 AGATGGGTTTATGG
1 AGATGGGTTTATGG
57402756 A
1 A
57402757 TATAAAGTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.27, C:0.00, G:0.34, T:0.39
Consensus pattern (14 bp):
AGATGGGTTTATGG
Found at i:57403792 original size:14 final size:14
Alignment explanation
Indices: 57403750--57403794 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
57403740 TTAAAGAAGC
57403750 AACTCATTAAATTA
1 AACTCATTAAATTA
* *
57403764 AATTCATCAAA-TA
1 AACTCATTAAATTA
*
57403777 AACTCATTTAATTA
1 AACTCATTAAATTA
57403791 AACT
1 AACT
57403795 AAGATGAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:57408119 original size:14 final size:14
Alignment explanation
Indices: 57408100--57408128 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
57408090 ATGTGCCTCA
57408100 TGCAAAATTTTCCG
1 TGCAAAATTTTCCG
57408114 TGCAAAATTTTCCG
1 TGCAAAATTTTCCG
57408128 T
1 T
57408129 ATAAGTTCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.38
Consensus pattern (14 bp):
TGCAAAATTTTCCG
Found at i:57411961 original size:30 final size:30
Alignment explanation
Indices: 57411927--57411987 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
57411917 TCCTTAACTC
57411927 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
57411957 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
57411987 A
1 A
57411988 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:57413959 original size:10 final size:10
Alignment explanation
Indices: 57413940--57413986 Score: 51
Period size: 11 Copynumber: 4.6 Consensus size: 10
57413930 TTCTCAATTC
57413940 ATCA-ACCAA
1 ATCATACCAA
57413949 ATCATACCAA
1 ATCATACCAA
*
57413959 ATCTAAACCAA
1 ATC-ATACCAA
57413970 ATTCATACCAA
1 A-TCATACCAA
*
57413981 AGCATA
1 ATCATA
57413987 TGTTTCATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
9 4 0.12
10 12 0.38
11 14 0.44
12 2 0.06
ACGTcount: A:0.51, C:0.28, G:0.02, T:0.19
Consensus pattern (10 bp):
ATCATACCAA
Found at i:57414790 original size:42 final size:43
Alignment explanation
Indices: 57414689--57414852 Score: 138
Period size: 43 Copynumber: 3.8 Consensus size: 43
57414679 AGCTCATACA
* * *
57414689 ATGCCAACGTCCTAGAC-GTGGTCTTACATGTAATCAAATATAG
1 ATGCCAACGTCCCAGACAG-GGTCTTACACGAAATCAAATATAG
* *
57414732 ATGCC-ACTGTCCCAGACAGGGTCTTACACGAAATCAAGTA-CG
1 ATGCCAAC-GTCCCAGACAGGGTCTTACACGAAATCAAATATAG
* * * * *
57414774 ATGCCAACATCCCAGACATGATCTTACACGTAAACCATAAGTATAT
1 ATGCCAACGTCCCAGACAGGGTCTTACACG-AAATCA-AA-TATAG
* *
57414820 ATGCCAACGTCCTAGGC-GTGGTCTTACACGAAA
1 ATGCCAACGTCCCAGACAG-GGTCTTACACGAAA
57414853 ACACATATCG
Statistics
Matches: 96, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
42 27 0.28
43 38 0.40
44 2 0.02
45 5 0.05
46 24 0.25
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACAGGGTCTTACACGAAATCAAATATAG
Found at i:57422175 original size:15 final size:15
Alignment explanation
Indices: 57422130--57422179 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 15
57422120 CTTTTTGTTC
*
57422130 TCTTTTATTCTCTTTT
1 TCTTTCATT-TCTTTT
57422146 TCTTTCTCAATTTCTTTT
1 TC-TT-TC-ATTTCTTTT
57422164 TCTTTCATTTCTTTT
1 TCTTTCATTTCTTTT
57422179 T
1 T
57422180 TTATCTCTCG
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
15 10 0.33
16 4 0.13
17 4 0.13
18 9 0.30
19 3 0.10
ACGTcount: A:0.08, C:0.20, G:0.00, T:0.72
Consensus pattern (15 bp):
TCTTTCATTTCTTTT
Found at i:57426078 original size:27 final size:26
Alignment explanation
Indices: 57426047--57426224 Score: 153
Period size: 27 Copynumber: 6.6 Consensus size: 26
57426037 TAAATTGTAC
57426047 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * * *
57426074 TGCACTAAGTGTACGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
*
57426100 ATGCACTAAGTGTGCGAATTGA-TCATGC
1 A-GCACTAAGTGTGCG-ATTGACT-ATGT
*
57426128 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA--TTGACTATGT
* **
57426156 AGCACTAAGTGTGCGATTTGATTACAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
57426183 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
57426210 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
57426225 GGCTCAATAT
Statistics
Matches: 128, Mismatches: 16, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
26 2 0.02
27 101 0.79
28 24 0.19
29 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:57426215 original size:82 final size:81
Alignment explanation
Indices: 57426044--57426224 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
57426034 GATTAAATTG
* *
57426044 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTACGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTACGAAATGAATATCATGCACTAA
57426109 GTGTGCGAATTGATCA
66 GTGTGCGAATTGATCA
* * * * ** *
57426125 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTA-CATAGCACT
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTACGAAATGAATATCAT-GCACT
* *
57426189 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGATCA
* *
57426207 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
57426225 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 19 0.23
82 64 0.77
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTACGAAATGAATATCATGCACTAA
GTGTGCGAATTGATCA
Found at i:57426235 original size:27 final size:27
Alignment explanation
Indices: 57426129--57426235 Score: 79
Period size: 27 Copynumber: 3.9 Consensus size: 27
57426119 TGATCATGCG
* * * *
57426129 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * *
57426157 GCACTAAGTGTGCGATTTGATTACATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
57426184 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
57426211 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
57426236 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:57434148 original size:27 final size:25
Alignment explanation
Indices: 57434118--57434293 Score: 120
Period size: 27 Copynumber: 6.5 Consensus size: 25
57434108 AATTGTACAG
57434118 CACTAAGTGTGCGATTCGACTATGTTA
1 CACTAAGTGTGCGATT-GACTATG-TA
* * *
57434145 CACTAAGTGTGCGAAATGAATATGATG
1 CACTAAGTGTGCG-ATTGACTATG-TA
**
57434172 CACTAAGTGTGCGAATTGA-TCATGCGG
1 CACTAAGTGTGCG-ATTGACT-ATG-TA
57434199 CACTAAGTGTGCGAGTTTGACTATGTA
1 CACTAAGTGTGCGA--TTGACTATGTA
* **
57434226 GCACTAAGTGTGCGATTTGATTACATA
1 -CACTAAGTGTGCGA-TTGACTATGTA
* *
57434253 GCACTAAGTGTGCGAGTTGATTATATA
1 -CACTAAGTGTGCGA-TTGACTATGTA
*
57434280 GCACTGAGTGTGCG
1 -CACTAAGTGTGCG
57434294 GGCTCAATAT
Statistics
Matches: 128, Mismatches: 15, Indels: 12
0.83 0.10 0.08
Matches are distributed among these distances:
26 2 0.02
27 102 0.80
28 23 0.18
29 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (25 bp):
CACTAAGTGTGCGATTGACTATGTA
Found at i:57434179 original size:54 final size:54
Alignment explanation
Indices: 57434116--57434293 Score: 152
Period size: 54 Copynumber: 3.3 Consensus size: 54
57434106 TAAATTGTAC
**
57434116 AGCACTAAGTGTGCGATTCGA-CTATGTTACACTAAGTGTGCGA-AATGAATATG-
1 AGCACTAAGTGTGCGATT-GATC-ATGCGACACTAAGTGTGCGAGAATGAATATGT
* ** *
57434169 ATGCACTAAGTGTGCGAATTGATCATGCGGCACTAAGTGTGCGAGTTTGACTATGT
1 A-GCACTAAGTGTGCG-ATTGATCATGCGACACTAAGTGTGCGAGAATGAATATGT
* * * *
57434225 AGCACTAAGTGTGCGATTTGATTACAT-AG-CACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGA-TTGA-T-CATGCGACACTAAGTGTGCGAGAATGAATATGT
*
57434279 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
57434294 GGCTCAATAT
Statistics
Matches: 107, Mismatches: 10, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
53 1 0.01
54 56 0.52
55 44 0.41
56 3 0.03
57 3 0.03
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (54 bp):
AGCACTAAGTGTGCGATTGATCATGCGACACTAAGTGTGCGAGAATGAATATGT
Found at i:57434239 original size:55 final size:54
Alignment explanation
Indices: 57434145--57434293 Score: 169
Period size: 55 Copynumber: 2.7 Consensus size: 54
57434135 GACTATGTTA
** *
57434145 CACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTGTGCGAATTGA-T-CATGCGG
1 CACTAAGTGTGCGAGTTGAATATGTA-GCACTAAGTGTGCGAATTGATTACAT--AG
* *
57434199 CACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACATAG
1 CACTAAGTGTGCGAG-TTGAATATGTAGCACTAAGTGTGCGAATTGATTACATAG
* * *
57434254 CACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 CACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
57434294 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
54 36 0.43
55 42 0.51
56 2 0.02
57 3 0.04
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (54 bp):
CACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAATTGATTACATAG
Found at i:57434284 original size:82 final size:81
Alignment explanation
Indices: 57434113--57434293 Score: 222
Period size: 82 Copynumber: 2.2 Consensus size: 81
57434103 GATTAAATTG
*
57434113 TACAGCACTAAGTGTGCGATTCGACTATGTTACACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTTACACTAAGTGTGCGAAATGAATATCATGCACTAA
57434178 GTGTGCGAATTGATCA
66 GTGTGCGAATTGATCA
* * * ** *
57434194 TGCGGCACTAAGTGTGCGAGTTTGACTATG-TAGCACTAAGTGTGCGATTTGATTA-CATAGCAC
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTTA-CACTAAGTGTGCGAAATGAATATCAT-GCAC
* *
57434257 TAAGTGTGCGAGTTGATTA
63 TAAGTGTGCGAATTGATCA
* *
57434276 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
57434294 GGCTCAATAT
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
81 21 0.25
82 63 0.75
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTTACACTAAGTGTGCGAAATGAATATCATGCACTAA
GTGTGCGAATTGATCA
Found at i:57434304 original size:27 final size:27
Alignment explanation
Indices: 57434198--57434304 Score: 79
Period size: 27 Copynumber: 3.9 Consensus size: 27
57434188 TGATCATGCG
* * * *
57434198 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * *
57434226 GCACTAAGTGTGCGATTTGATTACATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
57434253 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
57434280 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
57434305 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:57435926 original size:19 final size:19
Alignment explanation
Indices: 57435902--57435941 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
57435892 AGCTCCCATG
57435902 TAGCTCCACACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
***
57435921 TAGCTCGGGACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
57435940 TA
1 TA
57435942 TTAGCTCACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (19 bp):
TAGCTCCACACCAGCTCAT
Found at i:57437206 original size:14 final size:14
Alignment explanation
Indices: 57437184--57437231 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
57437174 ACCTAAACCG
* *
57437184 ACCAATTTGTTCAT
1 ACCATTTTGTTCCT
57437198 ACCATTTTGTTCCT
1 ACCATTTTGTTCCT
* *
57437212 ACCCTTTCGTTCCT
1 ACCATTTTGTTCCT
57437226 ACCATT
1 ACCATT
57437232 CCATTCGTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.19, C:0.31, G:0.06, T:0.44
Consensus pattern (14 bp):
ACCATTTTGTTCCT
Found at i:57437601 original size:11 final size:11
Alignment explanation
Indices: 57437585--57437634 Score: 59
Period size: 11 Copynumber: 4.6 Consensus size: 11
57437575 TATACAAGTT
57437585 AAAAAAAATCA
1 AAAAAAAATCA
* *
57437596 AAAAAAATTCG
1 AAAAAAAATCA
57437607 AAAAAAAAT--
1 AAAAAAAATCA
57437616 AAAAAAAATCGA
1 AAAAAAAATC-A
57437628 AAAAAAA
1 AAAAAAA
57437635 GTGATTTATG
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
9 9 0.27
11 17 0.52
12 7 0.21
ACGTcount: A:0.80, C:0.06, G:0.04, T:0.10
Consensus pattern (11 bp):
AAAAAAAATCA
Found at i:57437610 original size:20 final size:19
Alignment explanation
Indices: 57437586--57437633 Score: 69
Period size: 21 Copynumber: 2.4 Consensus size: 19
57437576 ATACAAGTTA
57437586 AAAAAAATCAAAAAAAATTCG
1 AAAAAAAT-AAAAAAAA-TCG
57437607 AAAAAAAATAAAAAAAATCG
1 -AAAAAAATAAAAAAAATCG
57437627 AAAAAAA
1 AAAAAAA
57437634 AGTGATTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.27
20 3 0.12
21 8 0.31
22 8 0.31
ACGTcount: A:0.79, C:0.06, G:0.04, T:0.10
Consensus pattern (19 bp):
AAAAAAATAAAAAAAATCG
Found at i:57437634 original size:20 final size:22
Alignment explanation
Indices: 57437585--57437634 Score: 86
Period size: 20 Copynumber: 2.4 Consensus size: 22
57437575 TATACAAGTT
57437585 AAAAAAAATCAAAAAAAATTCG
1 AAAAAAAATCAAAAAAAATTCG
57437607 AAAAAAAAT-AAAAAAAA-TCG
1 AAAAAAAATCAAAAAAAATTCG
57437627 AAAAAAAA
1 AAAAAAAA
57437635 GTGATTTATG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 11 0.39
21 8 0.29
22 9 0.32
ACGTcount: A:0.80, C:0.06, G:0.04, T:0.10
Consensus pattern (22 bp):
AAAAAAAATCAAAAAAAATTCG
Found at i:57442859 original size:19 final size:19
Alignment explanation
Indices: 57442835--57442874 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
57442825 AGCTCCCATG
57442835 TAGCTCCACACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
***
57442854 TAGCTCGGGACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
57442873 TA
1 TA
57442875 TCAGCTCACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (19 bp):
TAGCTCCACACCAGCTCAT
Found at i:57444134 original size:14 final size:14
Alignment explanation
Indices: 57444112--57444159 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
57444102 ACCTAAACCG
* *
57444112 ACCAATTTGTTCAT
1 ACCATTTTGTTCCT
57444126 ACCATTTTGTTCCT
1 ACCATTTTGTTCCT
* *
57444140 ACCCTTTCGTTCCT
1 ACCATTTTGTTCCT
57444154 ACCATT
1 ACCATT
57444160 CCATTCGTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.19, C:0.31, G:0.06, T:0.44
Consensus pattern (14 bp):
ACCATTTTGTTCCT
Found at i:57444451 original size:13 final size:13
Alignment explanation
Indices: 57444433--57444457 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57444423 ACCTACACCT
57444433 AAATTAATTCAAC
1 AAATTAATTCAAC
57444446 AAATTAATTCAA
1 AAATTAATTCAA
57444458 TTTAGGAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (13 bp):
AAATTAATTCAAC
Found at i:57459780 original size:47 final size:47
Alignment explanation
Indices: 57459710--57460103 Score: 581
Period size: 47 Copynumber: 8.4 Consensus size: 47
57459700 CCCTTTGGGA
* * *
57459710 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * * * *
57459757 CTTATCACATATATACACCTTCACATCCATCGCATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
57459804 CTTAACTCATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * * *
57459851 CTTATCACATATACACACCTTCACATTCATCACATTGGCTATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
57459898 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTTGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
57459945 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
57459992 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGA
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * * *
57460039 CATATCACATATACACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
57460086 CTTATCACATATACACAC
1 CTTATCACATATATACAC
57460104 CTTGTACACC
Statistics
Matches: 315, Mismatches: 32, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 315 1.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:57459954 original size:22 final size:22
Alignment explanation
Indices: 57459926--57460001 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
57459916 TTTCACATTC
57459926 ATCACATTGGCCATTTGGCCTT
1 ATCACATTGGCCATTTGGCCTT
*** ** *
57459948 ATCACATATATACACTTTCACATT
1 ATCACAT-TGGCCA-TTTGGCCTT
*
57459972 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTTGGCCTT
57459995 ATCACAT
1 ATCACAT
57460002 ATATACACTT
Statistics
Matches: 38, Mismatches: 13, Indels: 6
0.67 0.23 0.11
Matches are distributed among these distances:
22 14 0.37
23 8 0.21
24 9 0.24
25 7 0.18
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTTGGCCTT
Found at i:57463393 original size:27 final size:28
Alignment explanation
Indices: 57463309--57463406 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
57463299 CATGAGATTG
* * * *
57463309 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
57463338 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
57463366 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
57463393 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
57463407 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:57463417 original size:27 final size:27
Alignment explanation
Indices: 57463337--57463417 Score: 92
Period size: 27 Copynumber: 3.0 Consensus size: 27
57463327 TAAATTGTAC
* *
57463337 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
57463365 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
57463392 AGCACTGAGTGTGCGGACTT-AATATA
1 AGCACTAAGTGTGC-GACTTGAATATA
57463418 AATTTTTGAA
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
27 28 0.58
28 20 0.42
ACGTcount: A:0.30, C:0.12, G:0.26, T:0.32
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:57468243 original size:22 final size:24
Alignment explanation
Indices: 57468207--57468254 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 24
57468197 AATTTTATGC
57468207 TAAATTGATAAAGAT-TAA-TATA
1 TAAATTGATAAAGATATAATTATA
57468229 TAAATT-ATAATAGATATAATTATA
1 TAAATTGATAA-AGATATAATTATA
57468253 TA
1 TA
57468255 TTAAAGATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.17
22 10 0.43
23 3 0.13
24 6 0.26
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (24 bp):
TAAATTGATAAAGATATAATTATA
Found at i:57480203 original size:65 final size:65
Alignment explanation
Indices: 57480061--57480213 Score: 171
Period size: 65 Copynumber: 2.4 Consensus size: 65
57480051 TGCAGACTGC
* * *
57480061 CGCAACTCTTTGTGATCATCCTGTTATATGATCAATTTTGATCTTATATATATTGCAGACACAAA
1 CGCAACTCTTTGTGAGCATCCTGTTATATGATCAATTGTGATCTTACATATATTGCAGACACAAA
* * * * *** * *
57480126 CGCAAATATTTGTGAGCGTCTTGTTATATGATTGGTTGTGATCTTGCATATGTTGCAGACACAAA
1 CGCAACTCTTTGTGAGCATCCTGTTATATGATCAATTGTGATCTTACATATATTGCAGACACAAA
* * *
57480191 TGTAGCTCTTTGTGAGCATCCTG
1 CGCAACTCTTTGTGAGCATCCTG
57480214 ATATGGCTCG
Statistics
Matches: 69, Mismatches: 19, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
65 69 1.00
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (65 bp):
CGCAACTCTTTGTGAGCATCCTGTTATATGATCAATTGTGATCTTACATATATTGCAGACACAAA
Found at i:57480396 original size:26 final size:26
Alignment explanation
Indices: 57480345--57480396 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
57480335 TGATAGGCTC
*
57480345 TTTGTGAGCTTCTTGATTAATGGCTT
1 TTTGTGAGCTTCTTGATTAATAGCTT
*
57480371 TTTGTGAGGTTCTTG-TTATATAGCTT
1 TTTGTGAGCTTCTTGATTA-ATAGCTT
57480397 GAGAGAGGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 3 0.13
26 20 0.87
ACGTcount: A:0.15, C:0.10, G:0.23, T:0.52
Consensus pattern (26 bp):
TTTGTGAGCTTCTTGATTAATAGCTT
Found at i:57485179 original size:50 final size:50
Alignment explanation
Indices: 57485068--57485338 Score: 128
Period size: 46 Copynumber: 5.7 Consensus size: 50
57485058 CATGGGGTAA
** * *
57485068 GATGCCGATGCCATGTCCCAGACATGGTCTTACA-T-AGGCTCTAGCATATCT
1 GATG-CGATGCCATGTCCCAGACATGGTCTTACACTGACACTCT--CGTAGCT
57485119 G-TGCTGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCGTAGCT
1 GATGC-GATGCCATGTCCCAGACATGGTCTTACACTGACAC-TCTCGTAGCT
*
57485170 GATGC-ATG-C----CCCAGACAT-GTCTTACACCGACTTACGTCTCG-AG--
1 GATGCGATGCCATGTCCCAGACATGGTCTTACACTGAC--AC-TCTCGTAGCT
* *
57485213 GA--AGATG-CATGTCCCAGACAT-GTCTTACACT-AGCACTCGTC-TCA-AT
1 GATGCGATGCCATGTCCCAGACATGGTCTTACACTGA-CACTC-TCGT-AGCT
* * * * *
57485259 -AT-CGATGCGATGTCCCAGACATGGTCTTACACTGGCTCTCAC-AATG-T
1 GATGCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCTCGTA-GCT
*
57485306 GA-CCGATG-CATGTCCCAGACAT-GTCTTACACTG
1 GATGCGATGCCATGTCCCAGACATGGTCTTACACTG
57485339 GCTTACAATA
Statistics
Matches: 179, Mismatches: 15, Indels: 57
0.71 0.06 0.23
Matches are distributed among these distances:
42 4 0.02
43 4 0.02
44 16 0.09
45 14 0.08
46 42 0.23
47 28 0.16
48 20 0.11
49 2 0.01
50 33 0.18
51 8 0.04
52 5 0.03
53 3 0.02
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (50 bp):
GATGCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCTCGTAGCT
Found at i:57485254 original size:46 final size:45
Alignment explanation
Indices: 57485124--57485338 Score: 188
Period size: 46 Copynumber: 4.6 Consensus size: 45
57485114 TATCTGTGCT
* * *
57485124 GATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCGTA-G-CT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGACTCGTCTCG-AGGACC
* * *
57485170 GATGCATGCCCCAGACATGTCTTACACCGACTTACGTCTCGAGGA-A
1 GATGCATGTCCCAGACATGTCTTACACTGAC-T-CGTCTCGAGGACC
** *
57485216 GATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTC-AATATC
1 GATGCATGTCCCAGACATGTCTTACACT-G-ACTCGTCTCGAGGACC
* * *
57485262 GATGCGATGTCCCAGACATGGTCTTACACTGGCTC-TCACAATGTGACC
1 GATGC-ATGTCCCAGACAT-GTCTTACACTGACTCGTCTCGA-G-GACC
57485310 GATGCATGTCCCAGACATGTCTTACACTG
1 GATGCATGTCCCAGACATGTCTTACACTG
57485339 GCTTACAATA
Statistics
Matches: 142, Mismatches: 15, Indels: 24
0.78 0.08 0.13
Matches are distributed among these distances:
44 12 0.08
45 19 0.13
46 63 0.44
47 29 0.20
48 19 0.13
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.26
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGACTCGTCTCGAGGACC
Found at i:57485288 original size:94 final size:90
Alignment explanation
Indices: 57485124--57485338 Score: 222
Period size: 94 Copynumber: 2.3 Consensus size: 90
57485114 TATCTGTGCT
*
57485124 GATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCGTAGCTGATGCATGCCCCAGACATG
1 GATG-CATGTCCCAGACAT-GTCTTACACTGACACATCTCATAGCTGATGCATGCCCCAGACATG
* *
57485189 TCTTACACCGACTTACGTCTCGA-G-GA-A
64 TCTTACACCGAC-T-C-TCACAATGTGACA
* * * *
57485216 GATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATATC-GATGCGATGTCCCAGACA
1 GATGCATGTCCCAGACATGTCTTACACT-G-ACACATCTC-ATAGCTGATGC-ATGCCCCAGACA
* * *
57485280 TGGTCTTACACTGGCTCTCACAATGTGACC
62 T-GTCTTACACCGACTCTCACAATGTGACA
57485310 GATGCATGTCCCAGACATGTCTTACACTG
1 GATGCATGTCCCAGACATGTCTTACACTG
57485339 GCTTACAATA
Statistics
Matches: 105, Mismatches: 10, Indels: 15
0.81 0.08 0.12
Matches are distributed among these distances:
90 10 0.10
91 19 0.18
92 18 0.17
93 19 0.18
94 39 0.37
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.26
Consensus pattern (90 bp):
GATGCATGTCCCAGACATGTCTTACACTGACACATCTCATAGCTGATGCATGCCCCAGACATGTC
TTACACCGACTCTCACAATGTGACA
Found at i:57485341 original size:46 final size:44
Alignment explanation
Indices: 57485216--57485341 Score: 155
Period size: 47 Copynumber: 2.7 Consensus size: 44
57485206 TCTCGAGGAA
* * *
57485216 GATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATATC
1 GATGCATGTCCCAGACATGTCTTACACT-G-GCTCGTCACAATACC
57485262 GATGCGATGTCCCAGACATGGTCTTACACTGGCTC-TCACAATGTGACC
1 GATGC-ATGTCCCAGACAT-GTCTTACACTGGCTCGTCACAA--T-ACC
57485310 GATGCATGTCCCAGACATGTCTTACACTGGCT
1 GATGCATGTCCCAGACATGTCTTACACTGGCT
57485342 TACAATAGCC
Statistics
Matches: 72, Mismatches: 3, Indels: 10
0.85 0.04 0.12
Matches are distributed among these distances:
45 5 0.07
46 22 0.31
47 28 0.39
48 17 0.24
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (44 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCGTCACAATACC
Found at i:57487629 original size:40 final size:40
Alignment explanation
Indices: 57487574--57487795 Score: 313
Period size: 40 Copynumber: 5.6 Consensus size: 40
57487564 TATTCAAATG
* * *
57487574 ATATCCGGGCTAAGTCCTGGAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
57487614 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* **
57487654 ATATCCAGGCTAAGTCATGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
57487694 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
57487734 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
57487774 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
57487796 TACTTGGGTT
Statistics
Matches: 162, Mismatches: 19, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 14 0.09
40 146 0.90
41 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:57490344 original size:16 final size:15
Alignment explanation
Indices: 57490320--57490349 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
57490310 AACTGTTTTA
57490320 TTACAAATTTCACTC
1 TTACAAATTTCACTC
57490335 TTACATAATTTCACT
1 TTACA-AATTTCACT
57490350 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:57490668 original size:50 final size:50
Alignment explanation
Indices: 57490547--57490989 Score: 297
Period size: 50 Copynumber: 8.8 Consensus size: 50
57490537 GTAACCGAAG
* * * * * * *
57490547 CTATCTGGTACGCATAGTAGCCTGCACTTAGTACGACACATGCG-ACCAA
1 CTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGAACTAA
* * * *
57490596 CAATCTGGTACATGTAGTAGCCTGTACTTAGTACTACACACGTGAACTAA
1 CTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGAACTAA
* * *
57490646 CCATCTGATACACGTAGTAGCCTGTACTTAGTACTACACACGTG-ATTGAA
1 CTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGAACT-AA
* * * * * * ** * * * *
57490696 GTTGTCGGGTACCCATAGTATTCTACACTTAGTACTGCACAAGTGACCTAA
1 -CTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGAACTAA
* * *
57490747 CTATCT-AGTACACGTAGTACCCTACACTTAGTACTACACACGTGACCTAA
1 CTATCTGA-TACACGTAGTAGCCTGCACTTAGTACTACACACGTGAACTAA
* * * *
57490797 CCATTTGATACACGTAATAGCCTGCACTTAGTACTACACACGTG-ATTGAA
1 CTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGAACT-AA
* * * * ** * *
57490847 GTTGTCGGGTATGCATAGTAGCCTCCACTTAGTACTACACA--TGCAACTTAA
1 -CTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTG-AAC-TAA
* * * *
57490898 CTATCTGGTACATGTAGTAGCCTGCACTTAGTACTACACACATGACCTAAAA
1 CTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGAACT--AA
* * * * *
57490950 GC-ATCTTAAACACATAGTAGCCTGCACATAGGACTACACA
1 -CTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACA
57490990 TGTGTTCTCA
Statistics
Matches: 305, Mismatches: 73, Indels: 29
0.75 0.18 0.07
Matches are distributed among these distances:
49 41 0.13
50 158 0.52
51 68 0.22
52 37 0.12
53 1 0.00
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (50 bp):
CTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGAACTAA
Found at i:57490826 original size:151 final size:151
Alignment explanation
Indices: 57490553--57490989 Score: 572
Period size: 151 Copynumber: 2.9 Consensus size: 151
57490543 GAAGCTATCT
* *
57490553 GGTACGCATAGTAGCCTGCACTTAGTAC-GACACATGCGACC-AACAATCTGGTACATGTAGTAG
1 GGTACGCATAGTAGCCTACACTTAGTACTG-CACATGCGACCTAACTATCTGGTACATGTAGTAG
* * * *
57490616 CCTGTACTTAGTACTACACACGTGAACTAACCATCTGATACACGTAGTAGCCTGTACTTAGTACT
65 CCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAATAGCCTGCACTTAGTACT
57490681 ACACACGTGATTGAAGTTGTCG
130 ACACACGTGATTGAAGTTGTCG
* ** * * * * *
57490703 GGTACCCATAGTATTCTACACTTAGTACTGCACAAGTGACCTAACTATCTAGTACACGTAGTACC
1 GGTACGCATAGTAGCCTACACTTAGTACTGCACATGCGACCTAACTATCTGGTACATGTAGTAGC
* *
57490768 CTACACTTAGTACTACACACGTGACCTAACCATTTGATACACGTAATAGCCTGCACTTAGTACTA
66 CTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAATAGCCTGCACTTAGTACTA
57490833 CACACGTGATTGAAGTTGTCG
131 CACACGTGATTGAAGTTGTCG
* * * * *
57490854 GGTATGCATAGTAGCCTCCACTTAGTACTACACATGCAACTTAACTATCTGGTACATGTAGTAGC
1 GGTACGCATAGTAGCCTACACTTAGTACTGCACATGCGACCTAACTATCTGGTACATGTAGTAGC
* * * * * * * *
57490919 CTGCACTTAGTACTACACACATGACCTAAAAGCATCTTAAACACATAGTAGCCTGCACATAGGAC
66 CTGCACTTAGTACTACACACGTGACCT--AACCATCTGATACACGTAATAGCCTGCACTTAGTAC
57490984 TACACA
129 TACACA
57490990 TGTGTTCTCA
Statistics
Matches: 244, Mismatches: 39, Indels: 5
0.85 0.14 0.02
Matches are distributed among these distances:
150 33 0.14
151 177 0.73
153 34 0.14
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.26
Consensus pattern (151 bp):
GGTACGCATAGTAGCCTACACTTAGTACTGCACATGCGACCTAACTATCTGGTACATGTAGTAGC
CTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAATAGCCTGCACTTAGTACTA
CACACGTGATTGAAGTTGTCG
Found at i:57504800 original size:16 final size:16
Alignment explanation
Indices: 57504781--57504811 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
57504771 CTTCTTCACT
57504781 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
57504797 TACTTACTTACTTAA
1 TACTCACTTACTTAA
57504812 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:57504817 original size:20 final size:20
Alignment explanation
Indices: 57504778--57504817 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
57504768 AAACTTCTTC
* *
57504778 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
57504798 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
57504818 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:57505132 original size:53 final size:53
Alignment explanation
Indices: 57505011--57505247 Score: 227
Period size: 55 Copynumber: 4.5 Consensus size: 53
57505001 ACCTTGCCAT
* * * * *
57505011 TGCCATGACTTGTCATGGTCTTACGTGGTA---T-CCTTTTGAAACTTACCAT
1 TGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATGAAACTTACCAA
* *
57505060 TGCCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTATG-AACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATGAAACTTACCAA
* * * * *
57505113 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGTAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTAT-GAAACTTACCAA
* *
57505168 TGCCATGTCTTGACATGGTCTTACATGATTTA-CTTGCCTTA-GAAACCTTACCAA
1 TGCCATGCCTTGACATGGTCTTACATG--GTACCTTGCCTTATGAAA-CTTACCAA
*
57505222 TTGCCATGCCTTGGCATGGTCTTACA
1 -TGCCATGCCTTGACATGGTCTTACA
57505248 CGGAATCCTT
Statistics
Matches: 155, Mismatches: 21, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
49 27 0.17
52 2 0.01
53 47 0.30
54 14 0.09
55 63 0.41
56 1 0.01
57 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.35
Consensus pattern (53 bp):
TGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATGAAACTTACCAA
Found at i:57505194 original size:108 final size:110
Alignment explanation
Indices: 57505050--57505247 Score: 303
Period size: 108 Copynumber: 1.8 Consensus size: 110
57505040 ATCCTTTTGA
* * *
57505050 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATAGACTTGCCTTA-GAAACCTCACCAA
57505113 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGT
* ** *
57505158 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTACTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATAGACTTGCCTTAGAAACCTCACCAAT
57505223 TGCCATGCCTTGGCATGGTCTTACA
66 TGCCATGCCTTGGCATGGTCTTACA
57505248 CGGAATCCTT
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
107 1 0.01
108 47 0.59
109 7 0.09
110 25 0.31
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATAGACTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGT
Found at i:57508844 original size:40 final size:40
Alignment explanation
Indices: 57508753--57508922 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
57508743 TCCTCGTTCA
* * * * *
57508753 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
57508792 CATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
57508832 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * *
57508872 AATGCCCTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
57508912 AAGGCCTTCGG
1 AATGCCTTCGG
57508923 ATCTTAGTCC
Statistics
Matches: 112, Mismatches: 18, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 32 0.29
40 80 0.71
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:57523890 original size:27 final size:27
Alignment explanation
Indices: 57523798--57523947 Score: 144
Period size: 27 Copynumber: 5.5 Consensus size: 27
57523788 ATATTGAGCC
* *
57523798 CGCACACTCAGTGCTATACA-A-TCAAAT
1 CGCACACTTAGTGC-A-ACATAGTCAATT
* * *
57523825 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCAACATAGTCA-ATT
** *
57523853 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCAACATAGTCAATT
* * *
57523880 CGCACACTTAGTGCATCATATTCATTT
1 CGCACACTTAGTGCAACATAGTCAATT
57523907 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCAACATAGTC-AATT
57523934 CGCACACTTAGTGC
1 CGCACACTTAGTGC
57523948 TGTACAATTT
Statistics
Matches: 102, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
25 3 0.03
26 1 0.01
27 75 0.74
28 23 0.23
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCAACATAGTCAATT
Found at i:57529251 original size:40 final size:40
Alignment explanation
Indices: 57529205--57529429 Score: 254
Period size: 40 Copynumber: 5.6 Consensus size: 40
57529195 CTTGCACAAG
* * * * *
57529205 GCCTTCGGGTCTTAGCCTGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
*
57529245 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
* *
57529285 GCCTTCGGGTTTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
* * * *
57529325 GCCTTAGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-GCTAGCACAAAT
* * * * * *
57529365 GCCTTCGGATCTTAGTCCGGTTATAATCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-GCTAGCACAAAT
*
57529406 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
57529430 CATTCGAATA
Statistics
Matches: 155, Mismatches: 28, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 1 0.01
40 124 0.80
41 30 0.19
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:57529300 original size:80 final size:79
Alignment explanation
Indices: 57529169--57529429 Score: 285
Period size: 80 Copynumber: 3.3 Consensus size: 79
57529159 CTCAAGTAAT
* * * * * * **
57529169 CTTCGGGATTTAG-CCGGATATAACTACTTGCAC-AAGGCCTTCGGGTCTTAGCCTGGATGTGGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCC-GGATATAAT
*
57529232 CACTAGCATAAATGC
65 CACTAGCACAAATGC
* *
57529247 CTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGCCTTCGGGTTTTAGCCCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGTCTTAG-CCGGATATAA
*
57529311 TCGCTAGCACAAATGC
64 TCACTAGCACAAATGC
* * * * * *
57529327 CTTAGGGTCTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGGTTATAAT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAG-CCGGATATAAT
*
57529392 CACCTAGCACAAAAGC
65 CA-CTAGCACAAATGC
57529408 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
57529430 CATTCGAATA
Statistics
Matches: 153, Mismatches: 24, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
78 12 0.08
79 16 0.10
80 91 0.59
81 34 0.22
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.26
Consensus pattern (79 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCGGATATAATC
ACTAGCACAAATGC
Found at i:57530719 original size:14 final size:14
Alignment explanation
Indices: 57530697--57530727 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
57530687 AGGATGGACA
*
57530697 CTTTTTTTTCTTTT
1 CTTTGTTTTCTTTT
57530711 CTTTGTTTTCTTTT
1 CTTTGTTTTCTTTT
57530725 CTT
1 CTT
57530728 CAACTCACGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.00, C:0.16, G:0.03, T:0.81
Consensus pattern (14 bp):
CTTTGTTTTCTTTT
Done.