Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 167 of 410
Found at i:51011021 original size:12 final size:12
Alignment explanation
Indices: 51011006--51011030 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
51010996 CCATTTTTCA
51011006 TTTTCTTTTCTC
1 TTTTCTTTTCTC
51011018 TTTTCTTTTCTC
1 TTTTCTTTTCTC
51011030 T
1 T
51011031 CCATTTGCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTCTTTTCTC
Found at i:51013928 original size:38 final size:38
Alignment explanation
Indices: 51013864--51013976 Score: 136
Period size: 38 Copynumber: 2.9 Consensus size: 38
51013854 ATTTAATGTG
* *
51013864 TATCCGGGCTTAAAGACCTGCAGGCTTCGTGCTGGTAAAA
1 TATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAAAA
**
51013904 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAAA
* * * *
51013942 TATCAGGGATAAATCCCGCAGGCCTAGTGCTGGTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
51013977 TTATATTCGG
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
38 52 0.80
39 5 0.08
40 8 0.12
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAAA
Found at i:51013977 original size:38 final size:38
Alignment explanation
Indices: 51013883--51013982 Score: 146
Period size: 38 Copynumber: 2.6 Consensus size: 38
51013873 TTAAAGACCT
** * *
51013883 GCAGGCTTCGTGCTGGTAAAATATCCGGGTTAAATCCC
1 GCAGGCTTCGTGCTGGTATTATATCAGGGATAAATCCC
51013921 GCAGGCTTCGTGCTGGTATTATATCAGGGATAAATCCC
1 GCAGGCTTCGTGCTGGTATTATATCAGGGATAAATCCC
* *
51013959 GCAGGCCTAGTGCTGGTATTATAT
1 GCAGGCTTCGTGCTGGTATTATAT
51013983 TCGGGCCTTC
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 56 1.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (38 bp):
GCAGGCTTCGTGCTGGTATTATATCAGGGATAAATCCC
Found at i:51014060 original size:43 final size:43
Alignment explanation
Indices: 51013980--51014061 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 43
51013970 GCTGGTATTA
* * ** *
51013980 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGTCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAACAGGCGTAATGCCGGTGATGTG
51014023 TATTCGGGCCTTCGTGCCTAACAGGCGTAATGCCGGTGA
1 TATTCGGGCCTTCGTGCCTAACAGGCGTAATGCCGGTGA
51014062 AATGATATGT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.13, C:0.24, G:0.33, T:0.29
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAACAGGCGTAATGCCGGTGATGTG
Found at i:51039419 original size:42 final size:41
Alignment explanation
Indices: 51039350--51039455 Score: 131
Period size: 42 Copynumber: 2.5 Consensus size: 41
51039340 ATAACCCAGC
* * * * *
51039350 TATGGTCTTACAAAAAATCTCATATTGATGCCATGTCCTAGA
1 TATGGTCTTAC-ACAAGTTTCACATTGATGCCATATCCTAGA
*
51039392 TATGGTCTTACACGAAGTTTCACATTGATGTCATATCCTAGA
1 TATGGTCTTACAC-AAGTTTCACATTGATGCCATATCCTAGA
51039434 TATGGTCTTACACATAGTTTCA
1 TATGGTCTTACACA-AGTTTCA
51039456 GTAACCCTAA
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
41 2 0.04
42 54 0.96
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (41 bp):
TATGGTCTTACACAAGTTTCACATTGATGCCATATCCTAGA
Found at i:51043538 original size:39 final size:39
Alignment explanation
Indices: 51043495--51043607 Score: 190
Period size: 39 Copynumber: 2.9 Consensus size: 39
51043485 ATGCAAGATA
**
51043495 CTGGAAATGTATCCGGGCTAAAGTCCTACAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
51043534 CTGGAAGTGTATCCGGGCTAAAGTCCCGCAAGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
51043573 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTT
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTT
51043608 TGTCCTGGTA
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 68 1.00
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:51048965 original size:39 final size:39
Alignment explanation
Indices: 51048911--51049073 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
51048901 TGTGAATGAA
51048911 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
51048950 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** *
51048989 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
51049028 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
51049068 TGTGCG
1 TGTGCG
51049074 GGTTACCATA
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:51049089 original size:40 final size:39
Alignment explanation
Indices: 51048911--51049103 Score: 251
Period size: 39 Copynumber: 4.9 Consensus size: 39
51048901 TGTGAATGAA
* *
51048911 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
51048950 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
51048989 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
51049028 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
51049068 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGG
51049104 TGTTTTGAAC
Statistics
Matches: 139, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 99 0.71
40 40 0.29
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:51056259 original size:40 final size:40
Alignment explanation
Indices: 51056214--51056381 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
51056204 CGGAATATAA
51056214 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
51056254 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
51056294 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
51056334 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
51056374 CCGGATAT
1 CCGGATAT
51056382 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:51056444 original size:21 final size:21
Alignment explanation
Indices: 51056420--51056462 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
51056410 AATAATCTTT
51056420 GGACATACATATTTCATTTTC
1 GGACATACATATTTCATTTTC
51056441 GGACATACATATTTCATTTTC
1 GGACATACATATTTCATTTTC
51056462 G
1 G
51056463 TTACTAAGGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.42
Consensus pattern (21 bp):
GGACATACATATTTCATTTTC
Found at i:51060341 original size:38 final size:39
Alignment explanation
Indices: 51060231--51060392 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
51060221 TGTGAATGAA
*
51060231 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
*
51060270 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
51060309 TGTGCGAGCTATGATATCC-GGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
51060347 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
51060387 TGTGCG
1 TGTGCG
51060393 GGTTACCATA
Statistics
Matches: 114, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
38 36 0.32
39 61 0.54
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.25
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:51060359 original size:77 final size:79
Alignment explanation
Indices: 51060242--51060392 Score: 261
Period size: 77 Copynumber: 1.9 Consensus size: 79
51060232 GTGCGAATTG
51060242 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGTCCCGAAGGC
51060306 AATTGTGCGAGCTA
66 AATTGTGCGAGCTA
* *
51060320 TGATATCC-GGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGTCCCGAAGGC
*
51060384 ATTTGTGCG
66 AATTGTGCG
51060393 GGTTACCATA
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
77 44 0.64
78 25 0.36
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGCTA
Found at i:51060408 original size:40 final size:39
Alignment explanation
Indices: 51060231--51060422 Score: 242
Period size: 39 Copynumber: 4.9 Consensus size: 39
51060221 TGTGAATGAA
* *
51060231 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
51060270 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
51060309 TGTGCGAGCTATGATATCC-GGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
51060347 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
51060387 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGG
51060423 TGTTTTGAAC
Statistics
Matches: 137, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
38 36 0.26
39 61 0.45
40 40 0.29
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:51063028 original size:41 final size:40
Alignment explanation
Indices: 51062857--51063080 Score: 353
Period size: 40 Copynumber: 5.6 Consensus size: 40
51062847 TTATTCGAAT
51062857 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC
51062897 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC
* *
51062937 TATATTCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGAC
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC
51062977 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGAC
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTGAC
* *
51063018 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-C
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGAC
* * *
51063058 TAT-TTCTGGCTAAATCCCGAAGG
1 TATATCCGGGCTAAGTCCCGAAGG
51063081 TACTTGGGTT
Statistics
Matches: 172, Mismatches: 10, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 16 0.09
40 116 0.67
41 40 0.23
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC
Found at i:51063644 original size:2 final size:2
Alignment explanation
Indices: 51063637--51063663 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
51063627 AATCATTTTG
51063637 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
51063664 GGTTATTGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:51064608 original size:53 final size:54
Alignment explanation
Indices: 51064528--51064723 Score: 206
Period size: 53 Copynumber: 3.6 Consensus size: 54
51064518 ACCTTATCAT
* * *
51064528 TGCCATGACTTGTCATGGTCTTACATGGTATCCTTGCCTTATG-AACTCACTAA
1 TGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATGAAACTTACTAA
* *
51064581 TGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTTA-TCAA
1 TGCCATGCCTTGGCATGGTCTTACATGGTATCC-TTGCCTTAT-GAAACTTACT-AA
* * * * *
51064636 TTCCATG--TCGACATGGTCTTACATGGTATCCTTTCCTTA-GAAACCTTACCAA
1 TGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATGAAA-CTTACTAA
*
51064688 TTGCCATGCCTTGGCATGTTCTTACATGGTATCCTT
1 -TGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
51064724 AAACCCTAAT
Statistics
Matches: 118, Mismatches: 15, Indels: 18
0.78 0.10 0.12
Matches are distributed among these distances:
51 3 0.03
52 8 0.07
53 67 0.57
54 4 0.03
55 36 0.31
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.36
Consensus pattern (54 bp):
TGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATGAAACTTACTAA
Found at i:51065094 original size:29 final size:30
Alignment explanation
Indices: 51065060--51065119 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
51065050 TCCTTGACTC
51065060 AAACTTTAAAAAAATTACAC-TTTGCCCCA
1 AAACTTTAAAAAAATTACACTTTTGCCCCA
* * * *
51065089 AAACTTTTACATATTTACACTTTTGCCCCA
1 AAACTTTAAAAAAATTACACTTTTGCCCCA
51065119 A
1 A
51065120 GGCTCGAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.38, C:0.25, G:0.03, T:0.33
Consensus pattern (30 bp):
AAACTTTAAAAAAATTACACTTTTGCCCCA
Found at i:51067347 original size:2 final size:2
Alignment explanation
Indices: 51067340--51067375 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
51067330 TCATTTGAAT
51067340 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
51067376 AGATATGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:51070696 original size:20 final size:20
Alignment explanation
Indices: 51070668--51070705 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
51070658 AATCTGCTAA
* *
51070668 TGGTTATATAGATGAATTCT
1 TGGTCATATAAATGAATTCT
51070688 TGGTCATATAAATGAATT
1 TGGTCATATAAATGAATT
51070706 GCCGATTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.05, G:0.18, T:0.42
Consensus pattern (20 bp):
TGGTCATATAAATGAATTCT
Found at i:51091738 original size:15 final size:15
Alignment explanation
Indices: 51091718--51091752 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
51091708 CAACTTCAAT
51091718 TTTAATATCATTGTC
1 TTTAATATCATTGTC
51091733 TTTAATATCATTGTC
1 TTTAATATCATTGTC
51091748 TTTAA
1 TTTAA
51091753 GGATATTTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.29, C:0.11, G:0.06, T:0.54
Consensus pattern (15 bp):
TTTAATATCATTGTC
Found at i:51092812 original size:39 final size:36
Alignment explanation
Indices: 51092769--51092840 Score: 99
Period size: 36 Copynumber: 1.9 Consensus size: 36
51092759 AAAATTTCTT
51092769 TTTCAAACTTATGTCTACTATTTATATTATTGAATTAGA
1 TTTCAAA-TTATGT-T-CTATTTATATTATTGAATTAGA
* *
51092808 TTTCACATTTTGTTCTATTTATATTATTGAATT
1 TTTCAAATTATGTTCTATTTATATTATTGAATT
51092841 GTTTAATCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
36 19 0.61
37 1 0.03
38 5 0.16
39 6 0.19
ACGTcount: A:0.29, C:0.10, G:0.07, T:0.54
Consensus pattern (36 bp):
TTTCAAATTATGTTCTATTTATATTATTGAATTAGA
Found at i:51094186 original size:33 final size:33
Alignment explanation
Indices: 51094131--51094226 Score: 138
Period size: 33 Copynumber: 2.9 Consensus size: 33
51094121 TTAACATAAG
* * *
51094131 TGATTGGAACATCTGTTAGGGCAGCATCATCAA
1 TGATTGGAACATCTATTGGGGCAGCTTCATCAA
* *
51094164 TGATTGGAAGATCTATTGGGGCAGCTTCATCAT
1 TGATTGGAACATCTATTGGGGCAGCTTCATCAA
*
51094197 TGATTGGAACATCTATCGGGGCAGCTTCAT
1 TGATTGGAACATCTATTGGGGCAGCTTCAT
51094227 TATTCTGTTT
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (33 bp):
TGATTGGAACATCTATTGGGGCAGCTTCATCAA
Found at i:51095042 original size:41 final size:41
Alignment explanation
Indices: 51094991--51095075 Score: 161
Period size: 41 Copynumber: 2.1 Consensus size: 41
51094981 AATTAGAAGT
51094991 ACAAATAAGGATACTAAAGATTGAACCCAAATTTTCATGTC
1 ACAAATAAGGATACTAAAGATTGAACCCAAATTTTCATGTC
*
51095032 ACAAGTAAGGATACTAAAGATTGAACCCAAATTTTCATGTC
1 ACAAATAAGGATACTAAAGATTGAACCCAAATTTTCATGTC
51095073 ACA
1 ACA
51095076 TAGCACAAAC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.44, C:0.18, G:0.13, T:0.26
Consensus pattern (41 bp):
ACAAATAAGGATACTAAAGATTGAACCCAAATTTTCATGTC
Found at i:51095549 original size:19 final size:20
Alignment explanation
Indices: 51095525--51095565 Score: 75
Period size: 19 Copynumber: 2.1 Consensus size: 20
51095515 ATTAAAAAAT
51095525 AATTTTTATCTTAGTTT-CC
1 AATTTTTATCTTAGTTTGCC
51095544 AATTTTTATCTTAGTTTGCC
1 AATTTTTATCTTAGTTTGCC
51095564 AA
1 AA
51095566 GAAAGTCAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.24, C:0.15, G:0.07, T:0.54
Consensus pattern (20 bp):
AATTTTTATCTTAGTTTGCC
Found at i:51104833 original size:124 final size:122
Alignment explanation
Indices: 51104613--51104834 Score: 284
Period size: 124 Copynumber: 1.8 Consensus size: 122
51104603 GAATTATGTG
* * * * *
51104613 GAATGAAATATGGATGTATTGATTATTGATTTATGTGTGTATGAGTATTCGAATAATGCCCGGGC
1 GAATGAAATATGGATGTAATGATTATTGATGTATGTGTGCATGAGAATTCGAATAATACCCGGGC
* * * **
51104678 TAAGTCCCGAAGGCGATTATGCTAGTGATTATAATTGTGTTTGAGCCTTAGTAACGA
66 TAAGCCCCGAAGACAATTATGCTAGAAATTATAATTGTGTTTGAGCCTTAGTAACGA
* * *
51104735 GAATGAAATATGTATGTCCAATGATTATTGATGTATGTGTGCATGAGAAATT-GAATGATATCCG
1 GAATGAAATATGGATGT--AATGATTATTGATGTATGTGTGCATGAG-AATTCGAATAATACCCG
*
51104799 GGCTAAGCCCCGAAGACAATTATGCTGGAAATTATA
63 GGCTAAGCCCCGAAGACAATTATGCTAGAAATTATA
51104835 TCCGGGTTAA
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
122 16 0.19
124 64 0.77
125 3 0.04
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (122 bp):
GAATGAAATATGGATGTAATGATTATTGATGTATGTGTGCATGAGAATTCGAATAATACCCGGGC
TAAGCCCCGAAGACAATTATGCTAGAAATTATAATTGTGTTTGAGCCTTAGTAACGA
Found at i:51104878 original size:40 final size:40
Alignment explanation
Indices: 51104793--51104943 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
51104783 AATTGAATGA
* * * *
51104793 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
51104833 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
51104874 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
51104913 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
51104944 ACGTGGTTAT
Statistics
Matches: 92, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 80 0.87
41 3 0.03
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:51104927 original size:80 final size:80
Alignment explanation
Indices: 51104794--51104943 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
51104784 ATTGAATGAT
* *
51104794 ATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAAT
1 ATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAAT
51104859 TGTGCTAGTGGCTAC
66 TGTGCTAGTGGCTAC
* * * *
51104874 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGGCA
1 ATCCGGGCTAAGACCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGCA
*
51104937 TTTGTGC
64 ATTGTGC
51104944 ACGTGGTTAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 4 0.07
80 57 0.93
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.21
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAAT
TGTGCTAGTGGCTAC
Found at i:51104957 original size:40 final size:40
Alignment explanation
Indices: 51104830--51104957 Score: 150
Period size: 40 Copynumber: 3.2 Consensus size: 40
51104820 ATGCTGGAAA
* * *
51104830 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * ***
51104870 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
51104910 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
51104950 TTATATCC
1 TTATATCC
51104958 TGTTATATTC
Statistics
Matches: 70, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 69 0.99
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:51112839 original size:123 final size:120
Alignment explanation
Indices: 51112622--51112840 Score: 280
Period size: 123 Copynumber: 1.8 Consensus size: 120
51112612 AATTATGTGG
* * * *
51112622 AATGAAATATGGATGTATTGATTATTGATTTATGTGTGTATGAGTATTCGAATAATCCCGGGCTA
1 AATGAAATATGGATGTAATGATTATTGATGTATGTGTGCATGAGAATTCGAATAATCCCGGGCTA
* * * **
51112687 AGTCCCGAAGGCGATTATGCTAGTGATTATAATTGTGTTTGAGCCTTAGTAACGA
66 AGCCCCGAAGACAATTATGCTAGAAATTATAATTGTGTTTGAGCCTTAGTAACGA
*
51112742 AATGAAATATGTATGTCCAATGATTATTGATGTATGTGTGCATGAGAAATT-GAATGATAT-CCG
1 AATGAAATATGGATGT--AATGATTATTGATGTATGTGTGCATGAG-AATTCGAAT-A-ATCCCG
*
51112805 GGCTAAGCCCCGAAGACAATTATGCTGGAAATTATA
61 GGCTAAGCCCCGAAGACAATTATGCTAGAAATTATA
51112841 TCCGGGTTAA
Statistics
Matches: 83, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
120 15 0.18
122 29 0.35
123 37 0.45
124 2 0.02
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (120 bp):
AATGAAATATGGATGTAATGATTATTGATGTATGTGTGCATGAGAATTCGAATAATCCCGGGCTA
AGCCCCGAAGACAATTATGCTAGAAATTATAATTGTGTTTGAGCCTTAGTAACGA
Found at i:51112884 original size:40 final size:40
Alignment explanation
Indices: 51112799--51112949 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
51112789 AATTGAATGA
* * * *
51112799 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
51112839 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
51112880 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
51112919 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
51112950 ACGTGGTTAT
Statistics
Matches: 92, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 80 0.87
41 3 0.03
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:51112963 original size:40 final size:40
Alignment explanation
Indices: 51112836--51112965 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
51112826 ATGCTGGAAA
* * *
51112836 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * ***
51112876 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
51112916 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
51112956 TTATATCCGG
1 TTATATCCGG
51112966 TTATATTCCG
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:51112964 original size:80 final size:80
Alignment explanation
Indices: 51112798--51112965 Score: 207
Period size: 80 Copynumber: 2.1 Consensus size: 80
51112788 AAATTGAATG
* *
51112798 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
51112863 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * * *
51112878 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
* *
51112941 CATTTGTGC-ACGTGGTT
64 CAATTGTGCTA-GTGGCT
51112958 ATATCCGG
1 ATATCCGG
51112966 TTATATTCCG
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
79 5 0.07
80 70 0.93
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:51120321 original size:18 final size:17
Alignment explanation
Indices: 51120298--51120343 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
51120288 TCGCATACTG
51120298 TTTACTGTTACCACACTA
1 TTTACT-TTACCACACTA
* *
51120316 TTTACTATTACTACACTG
1 TTTACT-TTACCACACTA
51120334 TTTACTTTAC
1 TTTACTTTAC
51120344 TGTAATGGGC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 4 0.16
18 21 0.84
ACGTcount: A:0.26, C:0.24, G:0.04, T:0.46
Consensus pattern (17 bp):
TTTACTTTACCACACTA
Found at i:51120837 original size:18 final size:17
Alignment explanation
Indices: 51120806--51120853 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 17
51120796 AGTATAACGA
* *
51120806 TTTGAAATTAAATAATGT
1 TTTGAAAATAAATAA-CT
*
51120824 TTTGAAAATGAATAACT
1 TTTGAAAATAAATAACT
*
51120841 TTTGAAAAAAAAT
1 TTTGAAAATAAAT
51120854 GATGTGTTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 12 0.48
18 13 0.52
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.38
Consensus pattern (17 bp):
TTTGAAAATAAATAACT
Found at i:51121265 original size:14 final size:14
Alignment explanation
Indices: 51121246--51121275 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
51121236 ACCCCTTTAT
*
51121246 TCCCTCATTCATCA
1 TCCCTCATCCATCA
51121260 TCCCTCATCCATCA
1 TCCCTCATCCATCA
51121274 TC
1 TC
51121276 ATTCTCTCTT
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:0.20, C:0.47, G:0.00, T:0.33
Consensus pattern (14 bp):
TCCCTCATCCATCA
Found at i:51124227 original size:88 final size:89
Alignment explanation
Indices: 51124131--51124307 Score: 284
Period size: 88 Copynumber: 2.0 Consensus size: 89
51124121 AAATCCATTC
*
51124131 CGGGATTTATTCCCACCATTTAACAAATTTTATTCAAATTTTGATTTTATTTCC-AAAACAAGTA
1 CGGGATTTATTCCCACCATTTAACAAATTTTATTCAAATTTTGATTTAATTTCCAAAAACAAGTA
51124195 TTAAAATTAAAATAAATTTTGTTT
66 TTAAAATTAAAATAAATTTTGTTT
* * *** *
51124219 CGGGATTTATTCCTACCGTTTAATGGATTTTATTCCAATTTTGATTTAATTTCCAAAAACAAGTA
1 CGGGATTTATTCCCACCATTTAACAAATTTTATTCAAATTTTGATTTAATTTCCAAAAACAAGTA
51124284 TTAAAATTAAAATAAATTTTGTTT
66 TTAAAATTAAAATAAATTTTGTTT
51124308 TAGGATTTCT
Statistics
Matches: 81, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
88 47 0.58
89 34 0.42
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.44
Consensus pattern (89 bp):
CGGGATTTATTCCCACCATTTAACAAATTTTATTCAAATTTTGATTTAATTTCCAAAAACAAGTA
TTAAAATTAAAATAAATTTTGTTT
Found at i:51124398 original size:84 final size:86
Alignment explanation
Indices: 51124157--51124399 Score: 194
Period size: 89 Copynumber: 2.8 Consensus size: 86
51124147 CATTTAACAA
* ** * * *
51124157 ATTTTATT-CAAATTTTGATTTTATTTCC-AAAACAAGTATTAAAATTAAAATAAATTTTGT-TT
1 ATTTTATTAC-AATTTTGATTTAATAACCAAAAACAAGAATTAAAATTAAAATAAAATCTGTATT
* * *
51124219 CGGGATTTATTCCTACCGTTTAATGG
65 -AGGATTT-CT-C-GCCGTTTAATGG
* ** * * * *
51124245 ATTTTATTCCAATTTTGATTTAATTTCCAAAAACAAGTATTAAAATTAAAATAAATTTTGTTTTA
1 ATTTTATTACAATTTTGATTTAATAACCAAAAACAAGAATTAAAATTAAAATAAAATCTGTATTA
51124310 GGATTTCTCGCCGTTTAATGG
66 GGATTTCTCGCCGTTTAATGG
** * *
51124331 A-TTTATTAC-ATTTTGATTTTGTAACCGAAAACGAGAAATTAAAATT-AAATAAAATCTG-ATT
1 ATTTTATTACAATTTTGATTTAATAACCAAAAACAAG-AATTAAAATTAAAATAAAATCTGTATT
51124392 AGGGATTT
65 A-GGATTT
51124400 ATTCTTGTCA
Statistics
Matches: 135, Mismatches: 15, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
83 3 0.02
84 36 0.27
85 16 0.12
86 12 0.09
87 1 0.01
88 26 0.19
89 39 0.29
90 2 0.01
ACGTcount: A:0.37, C:0.09, G:0.11, T:0.43
Consensus pattern (86 bp):
ATTTTATTACAATTTTGATTTAATAACCAAAAACAAGAATTAAAATTAAAATAAAATCTGTATTA
GGATTTCTCGCCGTTTAATGG
Found at i:51126545 original size:25 final size:25
Alignment explanation
Indices: 51126517--51126759 Score: 243
Period size: 25 Copynumber: 9.7 Consensus size: 25
51126507 ACAATAATAC
51126517 GATCGGCACAAAGCCATCGATAACA
1 GATCGGCACAAAGCCATCGATAACA
* * * *
51126542 GATCGACACATAGCCATCAATATCA
1 GATCGGCACAAAGCCATCGATAACA
*
51126567 TATCGGCACAAAGCCATCGATAACA
1 GATCGGCACAAAGCCATCGATAACA
* * *
51126592 GATCGGCACATAGCCATCAATATCA
1 GATCGGCACAAAGCCATCGATAACA
* * *
51126617 TAGCGGTACAAAGCCATCGATAACA
1 GATCGGCACAAAGCCATCGATAACA
* * *
51126642 GATCGGCACATAGCCATCAATATCA
1 GATCGGCACAAAGCCATCGATAACA
* *
51126667 TATCGGCACAAAGCCATCGATAATA
1 GATCGGCACAAAGCCATCGATAACA
* * ** *
51126692 GATCGGTACATAGCCATTAATATCA
1 GATCGGCACAAAGCCATCGATAACA
* ** * *
51126717 TATCAACGCAAAGCCATCGATAATA
1 GATCGGCACAAAGCCATCGATAACA
*
51126742 GATCGGCACATAGCCATC
1 GATCGGCACAAAGCCATC
51126760 AACGACGGTA
Statistics
Matches: 166, Mismatches: 52, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
25 166 1.00
ACGTcount: A:0.38, C:0.26, G:0.16, T:0.19
Consensus pattern (25 bp):
GATCGGCACAAAGCCATCGATAACA
Found at i:51126584 original size:50 final size:50
Alignment explanation
Indices: 51126518--51126761 Score: 398
Period size: 50 Copynumber: 4.9 Consensus size: 50
51126508 CAATAATACG
*
51126518 ATCGGCACAAAGCCATCGATAACAGATCGACACATAGCCATCAATATCAT
1 ATCGGCACAAAGCCATCGATAACAGATCGGCACATAGCCATCAATATCAT
51126568 ATCGGCACAAAGCCATCGATAACAGATCGGCACATAGCCATCAATATCAT
1 ATCGGCACAAAGCCATCGATAACAGATCGGCACATAGCCATCAATATCAT
* *
51126618 AGCGGTACAAAGCCATCGATAACAGATCGGCACATAGCCATCAATATCAT
1 ATCGGCACAAAGCCATCGATAACAGATCGGCACATAGCCATCAATATCAT
* * *
51126668 ATCGGCACAAAGCCATCGATAATAGATCGGTACATAGCCATTAATATCAT
1 ATCGGCACAAAGCCATCGATAACAGATCGGCACATAGCCATCAATATCAT
** * *
51126718 ATCAACGCAAAGCCATCGATAATAGATCGGCACATAGCCATCAA
1 ATCGGCACAAAGCCATCGATAACAGATCGGCACATAGCCATCAA
51126762 CGACGGTAAT
Statistics
Matches: 181, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 181 1.00
ACGTcount: A:0.39, C:0.26, G:0.16, T:0.19
Consensus pattern (50 bp):
ATCGGCACAAAGCCATCGATAACAGATCGGCACATAGCCATCAATATCAT
Found at i:51126910 original size:41 final size:41
Alignment explanation
Indices: 51126848--51126966 Score: 202
Period size: 41 Copynumber: 2.9 Consensus size: 41
51126838 TAAAAGCCAC
*
51126848 CAGTGGATCCACGATCGTCAAGCAACCATGTGATCCTTAAT
1 CAGTGGATCCACGATCGTCAAGCAACCATGCGATCCTTAAT
* *
51126889 CGGTGGATCCACGATCATCAAGCAACCATGCGATCCTTAAT
1 CAGTGGATCCACGATCGTCAAGCAACCATGCGATCCTTAAT
*
51126930 CAGTGGATCCACGGTCGTCAAGCAACCATGCGATCCT
1 CAGTGGATCCACGATCGTCAAGCAACCATGCGATCCT
51126967 CAATTTCTTC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 72 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (41 bp):
CAGTGGATCCACGATCGTCAAGCAACCATGCGATCCTTAAT
Found at i:51127251 original size:27 final size:27
Alignment explanation
Indices: 51127221--51127278 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
51127211 GGGTGTTTTG
51127221 GTAAATCTACAAACCAAGGGTATTTCA
1 GTAAATCTACAAACCAAGGGTATTTCA
* * * * *
51127248 GTAATTTTGCAAACCAATGGTATTTCT
1 GTAAATCTACAAACCAAGGGTATTTCA
51127275 GTAA
1 GTAA
51127279 TTTTTGAAAG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.33
Consensus pattern (27 bp):
GTAAATCTACAAACCAAGGGTATTTCA
Found at i:51127297 original size:28 final size:27
Alignment explanation
Indices: 51127230--51127577 Score: 214
Period size: 27 Copynumber: 12.9 Consensus size: 27
51127220 GGTAAATCTA
* *
51127230 CAAACCAAGGGTATTTCAGTAATTTTG
1 CAAATCAAGGGTATTTCTGTAATTTTG
* *
51127257 CAAACCAATGGTATTTCTGTAATTTTTG
1 CAAATCAAGGGTATTTCTGTAA-TTTTG
* *
51127285 -AAAGTTAAGGGTATTTTTGTAATTTTG
1 CAAA-TCAAGGGTATTTCTGTAATTTTG
* * * *
51127312 TAAATCAGGGGTATTTTTGTAATTTTC
1 CAAATCAAGGGTATTTCTGTAATTTTG
* *
51127339 CAAATCAAGGGTATTT-TGGTAGTTTTA
1 CAAATCAAGGGTATTTCT-GTAATTTTG
* *
51127366 CAAAT-AGAGGGTATTT-TGGCAATTTTA
1 CAAATCA-AGGGTATTTCT-GTAATTTTG
* * *
51127393 CAAGTCGAGGGTATTTCGGTAATTTT-
1 CAAATCAAGGGTATTTCTGTAATTTTG
* * * * ** **
51127419 AAAAGTCGAGAGCATTTAGGTAATTTCA
1 CAAA-TCAAGGGTATTTCTGTAATTTTG
*
51127447 CAAATCAAGGGTATTT-TGGTAATTTTA
1 CAAATCAAGGGTATTTCT-GTAATTTTG
*
51127474 CAAA-CTAGGGGTATTT-TGGTAATTTTG
1 CAAATC-AAGGGTATTTCT-GTAATTTTG
* *
51127501 CTAATTAAGGGTATTT-TGGTAATTTTG
1 CAAATCAAGGGTATTTCT-GTAATTTTG
* * *
51127528 TAAACCAAGGGTA-TTCAGTAATTTTG
1 CAAATCAAGGGTATTTCTGTAATTTTG
* *
51127554 TAAA-CTAAGGGTATTTCAGTAATT
1 CAAATC-AAGGGTATTTCTGTAATT
51127578 CTACCCTATA
Statistics
Matches: 265, Mismatches: 41, Indels: 30
0.79 0.12 0.09
Matches are distributed among these distances:
25 1 0.00
26 27 0.10
27 212 0.80
28 25 0.09
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
CAAATCAAGGGTATTTCTGTAATTTTG
Found at i:51127407 original size:81 final size:80
Alignment explanation
Indices: 51127208--51127542 Score: 255
Period size: 81 Copynumber: 4.1 Consensus size: 80
51127198 TTTCACCTTA
* * * * * * ** * *
51127208 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGCAAACCAATGGTATTT
1 CAAGGGTATTTTGGCAATTTTACAAACGAGGGGTATTTTGGTAATTTT-CAAATCAAGGGTATTT
**
51127273 CT-GTAATTTTTGAAAGT
65 -TGGTAATTTTACAAA-T
* * * ** *
51127290 TAAGGGTATTTTTGTAATTTTGTAAATC-AGGGGTATTTTTGTAATTTTCCAAATCAAGGGTATT
1 CAAGGGTATTTTGGCAATTTTACAAA-CGAGGGGTATTTTGGTAATTTT-CAAATCAAGGGTATT
*
51127354 TTGGTAGTTTTACAAAT
64 TTGGTAATTTTACAAAT
* * * * * *
51127371 -AGAGGGTATTTTGGCAATTTTACAAGTCGA-GGGTATTTCGGTAATTTTAAAAGTCGAGAGCAT
1 CA-AGGGTATTTTGGCAATTTTACAA-ACGAGGGGTATTTTGGTAATTTTCAAA-TCAAGGGTAT
* *
51127434 TTAGGTAATTTCACAAAT
63 TTTGGTAATTTTACAAAT
* * * *
51127452 CAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGCTAATTAAGGGTATTT
1 CAAGGGTATTTTGGCAATTTTACAAACGAGGGGTATTTTGGTAATTTT-CAAATCAAGGGTATTT
** *
51127517 TGGTAATTTTGTAAAC
65 TGGTAATTTTACAAAT
51127533 CAAGGGTATT
1 CAAGGGTATT
51127543 CAGTAATTTT
Statistics
Matches: 199, Mismatches: 45, Indels: 19
0.76 0.17 0.07
Matches are distributed among these distances:
80 6 0.03
81 128 0.64
82 64 0.32
83 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (80 bp):
CAAGGGTATTTTGGCAATTTTACAAACGAGGGGTATTTTGGTAATTTTCAAATCAAGGGTATTTT
GGTAATTTTACAAAT
Found at i:51127540 original size:54 final size:54
Alignment explanation
Indices: 51127208--51127569 Score: 268
Period size: 54 Copynumber: 6.7 Consensus size: 54
51127198 TTTCACCTTA
* * * * * **
51127208 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGCAAAC
1 CAAGGGTATTTTGGTAATTTTGCAAATCAAGGGTATTTTGGTAATTTTGCAAAC
* * * * *
51127262 CAATGGTATTTCT-GTAATTTTTG-AAAGTTAAGGGTATTTTTGTAATTTTGTAAAT
1 CAAGGGTATTT-TGGTAA-TTTTGCAAA-TCAAGGGTATTTTGGTAATTTTGCAAAC
* * * * *
51127317 CAGGGGTATTTTTGTAATTTTCCAAATCAAGGGTATTTTGGTAGTTTTACAAA-
1 CAAGGGTATTTTGGTAATTTTGCAAATCAAGGGTATTTTGGTAATTTTGCAAAC
* * * * * * * *
51127370 TAGAGGGTATTTTGGCAATTTTACAAGTCGAGGGTATTTCGGTAATTTT-AAAAGT
1 CA-AGGGTATTTTGGTAATTTTGCAAATCAAGGGTATTTTGGTAATTTTGCAAA-C
* * * * ** *
51127425 CGAGAGCATTTAGGTAATTTCACAAATCAAGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTGCAAATCAAGGGTATTTTGGTAATTTTGCAAAC
* * * * *
51127479 TAGGGGTATTTTGGTAATTTTGCTAATTAAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTGCAAATCAAGGGTATTTTGGTAATTTTGCAAAC
** *
51127533 CAAGGGTA-TTCAGTAATTTTGTAAA-CTAAGGGTATTT
1 CAAGGGTATTTTGGTAATTTTGCAAATC-AAGGGTATTT
51127570 CAGTAATTCT
Statistics
Matches: 238, Mismatches: 60, Indels: 21
0.75 0.19 0.07
Matches are distributed among these distances:
53 27 0.11
54 167 0.70
55 44 0.18
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (54 bp):
CAAGGGTATTTTGGTAATTTTGCAAATCAAGGGTATTTTGGTAATTTTGCAAAC
Found at i:51129382 original size:2 final size:2
Alignment explanation
Indices: 51129375--51129399 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
51129365 ATTGACTAAG
51129375 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
51129400 CCATATAGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:51144628 original size:15 final size:15
Alignment explanation
Indices: 51144608--51144637 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
51144598 CAAACTATGT
*
51144608 CTCTAATTTAGGAAA
1 CTCTAAGTTAGGAAA
51144623 CTCTAAGTTAGGAAA
1 CTCTAAGTTAGGAAA
51144638 GATACTAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (15 bp):
CTCTAAGTTAGGAAA
Found at i:51146721 original size:40 final size:40
Alignment explanation
Indices: 51146677--51146864 Score: 254
Period size: 40 Copynumber: 4.7 Consensus size: 40
51146667 GCTACTCGTT
*
51146677 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
51146717 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
51146757 CAAATGCCTTCGGGACTTAACTCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
51146797 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
51146838 CAAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAATGCCTTCGGGACTTAGCCCGGAT
51146865 ATCATTCGAA
Statistics
Matches: 133, Mismatches: 11, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
39 3 0.02
40 100 0.75
41 27 0.20
42 3 0.02
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:51157957 original size:26 final size:27
Alignment explanation
Indices: 51157914--51157964 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
51157904 TAACACCTCA
*
51157914 ATTTTCAAATTTTCTGTGT-TTCTGTG
1 ATTTTCAAAATTTCTGTGTGTTCTGTG
* *
51157940 ATTTTTAAAATTTGTGTGTGTTCTG
1 ATTTTCAAAATTTCTGTGTGTTCTG
51157965 GTTGGTTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 16 0.76
27 5 0.24
ACGTcount: A:0.18, C:0.08, G:0.18, T:0.57
Consensus pattern (27 bp):
ATTTTCAAAATTTCTGTGTGTTCTGTG
Found at i:51158919 original size:27 final size:27
Alignment explanation
Indices: 51158729--51158928 Score: 229
Period size: 27 Copynumber: 7.4 Consensus size: 27
51158719 TGGATAAGTT
* *
51158729 GTAGAATTATCGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
51158756 GTAGAATTATCGAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
** * *
51158783 GTAGAATTATTGAAGTACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
51158810 GTAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * * * *
51158837 ATAGAATTATCGAAATATCCTTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
51158864 GTAGAAATACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
51158891 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
51158918 GTAAAATTACC
1 GTAGAATTACC
51158929 ATTTTGCCCT
Statistics
Matches: 149, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 149 1.00
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.27
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:51158926 original size:81 final size:81
Alignment explanation
Indices: 51158729--51158926 Score: 252
Period size: 81 Copynumber: 2.4 Consensus size: 81
51158719 TGGATAAGTT
* * * * * **
51158729 GTAGAATTATCGAAATACCCCTGTAAGGTAGAATTATCGAAATACCCCTATAGGGTAGAATTATT
1 GTAGAATTACCGAAATACCCTTGTAGGGTAGAATTATCGAAATACCCCTATAAGGTAGAAATACC
*
51158794 GAAGTACCCCTATAGG
66 GAAATACCCCTATAGG
* * * *
51158810 GTAGAATTACCGAAATACCCTTGTAGGATAGAATTATCGAAATATCCTTGTAAGGTAGAAATACC
1 GTAGAATTACCGAAATACCCTTGTAGGGTAGAATTATCGAAATACCCCTATAAGGTAGAAATACC
*
51158875 GAAATACCCCTGTAGG
66 GAAATACCCCTATAGG
* * *
51158891 GTAGAATTACCGAGATACCCTTGTGGGGTAAAATTA
1 GTAGAATTACCGAAATACCCTTGTAGGGTAGAATTA
51158927 CCATTTTGCC
Statistics
Matches: 100, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 100 1.00
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.27
Consensus pattern (81 bp):
GTAGAATTACCGAAATACCCTTGTAGGGTAGAATTATCGAAATACCCCTATAAGGTAGAAATACC
GAAATACCCCTATAGG
Found at i:51160468 original size:6 final size:6
Alignment explanation
Indices: 51160457--51160482 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
51160447 CATCGCAACG
51160457 GTAACA GTAACA GTAACA GTAACA GT
1 GTAACA GTAACA GTAACA GTAACA GT
51160483 CATAGTAACG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.46, C:0.15, G:0.19, T:0.19
Consensus pattern (6 bp):
GTAACA
Found at i:51161085 original size:9 final size:9
Alignment explanation
Indices: 51161061--51161117 Score: 62
Period size: 9 Copynumber: 6.2 Consensus size: 9
51161051 TTGTTTTGTT
51161061 TTTCTTTTTCA
1 TTTC-TTTT-A
51161072 TTTCTTTTA
1 TTTCTTTTA
51161081 TTTCTTTTA
1 TTTCTTTTA
51161090 TTTC-TTTA
1 TTTCTTTTA
* *
51161098 TTTCATTTC
1 TTTCTTTTA
*
51161107 TTTATTTTA
1 TTTCTTTTA
51161116 TT
1 TT
51161118 ATTAAACTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
8 8 0.20
9 25 0.61
10 4 0.10
11 4 0.10
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.75
Consensus pattern (9 bp):
TTTCTTTTA
Found at i:51161107 original size:13 final size:13
Alignment explanation
Indices: 51161089--51161113 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51161079 TATTTCTTTT
51161089 ATTTCTTTATTTC
1 ATTTCTTTATTTC
51161102 ATTTCTTTATTT
1 ATTTCTTTATTT
51161114 TATTATTAAA
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:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTTCTTTATTTC
Found at i:51164090 original size:41 final size:43
Alignment explanation
Indices: 51163992--51164115 Score: 128
Period size: 41 Copynumber: 2.9 Consensus size: 43
51163982 AACACCAACA
* * * *
51163992 TCCCAGACATGGTCTTACATGCTATCATATATCGATGCCACTG
1 TCCCAAACATGGTCTTACACGCAATCAAATATCGATGCCACTG
* *
51164035 TCCCAGACAGGGTCTTACACG-AATCAAATA-CGATGCCGA-TG
1 TCCCAAACATGGTCTTACACGCAATCAAATATCGATGCC-ACTG
* * * *
51164076 TCTCAAACATGGTCTTACACGTAATCACATATAGATGCCA
1 TCCCAAACATGGTCTTACACGCAATCAAATATCGATGCCA
51164116 ACATCCCAGA
Statistics
Matches: 69, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
41 27 0.39
42 17 0.25
43 25 0.36
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.26
Consensus pattern (43 bp):
TCCCAAACATGGTCTTACACGCAATCAAATATCGATGCCACTG
Found at i:51176342 original size:16 final size:17
Alignment explanation
Indices: 51176314--51176345 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
51176304 CAAGGTCCCA
51176314 CTACAGTTTTCAGTTTC
1 CTACAGTTTTCAGTTTC
51176331 CTACAG-TTTCAGTTT
1 CTACAGTTTTCAGTTT
51176346 ACTCTAACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.19, C:0.22, G:0.12, T:0.47
Consensus pattern (17 bp):
CTACAGTTTTCAGTTTC
Found at i:51178778 original size:20 final size:21
Alignment explanation
Indices: 51178752--51178792 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
51178742 GGCCAGAGAG
*
51178752 AAAAAAATGCCAAAGAAAAGT
1 AAAAAAATGCAAAAGAAAAGT
51178773 AAAAAAATGCAAAAGAAAAG
1 AAAAAAATGCAAAAGAAAAG
51178793 AGCCAAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.71, C:0.07, G:0.15, T:0.07
Consensus pattern (21 bp):
AAAAAAATGCAAAAGAAAAGT
Found at i:51181639 original size:24 final size:24
Alignment explanation
Indices: 51181612--51181690 Score: 108
Period size: 24 Copynumber: 3.4 Consensus size: 24
51181602 TAGAAGGTAT
* *
51181612 GTATATATGTGTTTATATGTATAA
1 GTATATATGTGTTCATGTGTATAA
*
51181636 GTATGTATGTGTTCATGTGTATAA
1 GTATATATGTGTTCATGTGTATAA
*
51181660 GTATGTATGTGTTCATGTGTAT-A
1 GTATATATGTGTTCATGTGTATAA
51181683 -TATATATG
1 GTATATATG
51181691 AAGGTGTATG
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
22 7 0.14
23 1 0.02
24 43 0.84
ACGTcount: A:0.28, C:0.03, G:0.22, T:0.48
Consensus pattern (24 bp):
GTATATATGTGTTCATGTGTATAA
Found at i:51184915 original size:43 final size:42
Alignment explanation
Indices: 51184868--51184959 Score: 103
Period size: 42 Copynumber: 2.2 Consensus size: 42
51184858 CTAGACAAGA
* * * *
51184868 TCTTACACGAAATCATATAATGATGCCAATGTCCCAAATATGG
1 TCTTACACGAAACCACA-AAAGATGCCAATGTCCCAAAGATGG
* * * *
51184911 TCTTACATGTAACCACAAAAGATGCCAATGTCTCAGAGATGG
1 TCTTACACGAAACCACAAAAGATGCCAATGTCCCAAAGATGG
51184953 TCTTACA
1 TCTTACA
51184960 TGTAATCACA
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
42 28 0.68
43 13 0.32
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (42 bp):
TCTTACACGAAACCACAAAAGATGCCAATGTCCCAAAGATGG
Found at i:51184938 original size:42 final size:42
Alignment explanation
Indices: 51184889--51184969 Score: 126
Period size: 42 Copynumber: 1.9 Consensus size: 42
51184879 ATCATATAAT
*
51184889 GATGCCAATGTCCCAAATATGGTCTTACATGTAACCACAAAA
1 GATGCCAATGTCCCAAAGATGGTCTTACATGTAACCACAAAA
* * *
51184931 GATGCCAATGTCTCAGAGATGGTCTTACATGTAATCACA
1 GATGCCAATGTCCCAAAGATGGTCTTACATGTAACCACA
51184970 TCTTGGTAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (42 bp):
GATGCCAATGTCCCAAAGATGGTCTTACATGTAACCACAAAA
Found at i:51197418 original size:64 final size:63
Alignment explanation
Indices: 51197242--51197495 Score: 189
Period size: 68 Copynumber: 3.9 Consensus size: 63
51197232 ATATAGTTCG
* * * *
51197242 GCTCTCTTGTAC-ACATGGTGAACACTCAGTACCACCCATGTGACCTAGCCA-ATTTATCTCGTA
1 GCTCTCTTGT-CTACATGGTGTACACT-AGTACCACCCATGTGACCTAGCTACATATATCCCGTA
* * *
51197305 -C-CTCTTGTCTA-ATGGTGTCTTCACCT-GGAGCCACGCATGTGACCTAGCTACATATATCCCG
1 GCTCTCTTGTCTACATGGTG--TACA-CTAGTA-CCACCCATGTGACCTAGCTACATATATCCCG
51197366 TA
62 TA
* * **
51197368 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGTCTT
1 GCTCTCTTGTCTACATGGTGTACAC-TAGTACCACCCATGTGACCTAGCTACAT-AT-A--TCCC
51197433 GTA
61 GTA
* * * **
51197436 GCTCTCTTGTGC-ACATGATGTGCACTCAGCACCATACATGTGACCTAGCTACATACTATC
1 GCTCTCTTGT-CTACATGGTGTACACT-AGTACCACCCATGTGACCTAGCTACATA-TATC
51197496 TGTATCATCC
Statistics
Matches: 152, Mismatches: 21, Indels: 34
0.73 0.10 0.16
Matches are distributed among these distances:
60 7 0.05
61 10 0.07
62 21 0.14
63 13 0.09
64 25 0.16
65 16 0.11
66 7 0.05
67 3 0.02
68 49 0.32
69 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.30
Consensus pattern (63 bp):
GCTCTCTTGTCTACATGGTGTACACTAGTACCACCCATGTGACCTAGCTACATATATCCCGTA
Found at i:51206719 original size:32 final size:32
Alignment explanation
Indices: 51206683--51206767 Score: 125
Period size: 32 Copynumber: 2.7 Consensus size: 32
51206673 CCCATCACAG
* *
51206683 TATCAATTGGGCCTAGCCCATCTCAGAATCAA
1 TATCAATTGGGCCTAGCCCATATCAGAACCAA
*
51206715 TATCAGTTGGGCCTAGCCCATATCAGAACCAA
1 TATCAATTGGGCCTAGCCCATATCAGAACCAA
* *
51206747 TATCAATTAGGCCTAGACCAT
1 TATCAATTGGGCCTAGCCCAT
51206768 TTCAATTTCA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 47 1.00
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (32 bp):
TATCAATTGGGCCTAGCCCATATCAGAACCAA
Found at i:51208915 original size:38 final size:38
Alignment explanation
Indices: 51208872--51208955 Score: 114
Period size: 38 Copynumber: 2.2 Consensus size: 38
51208862 TTTAAACTTA
* *
51208872 GATATAATACCAACACCAGGCCTACAGGATTTAACCCG
1 GATATAATACCAACACCAAGCCCACAGGATTTAACCCG
* ***
51208910 GATATAATACCAACACGAAGCCCGTGGGATTTAACCCG
1 GATATAATACCAACACCAAGCCCACAGGATTTAACCCG
51208948 GATATAAT
1 GATATAAT
51208956 TCTAGCATAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (38 bp):
GATATAATACCAACACCAAGCCCACAGGATTTAACCCG
Found at i:51209717 original size:2 final size:2
Alignment explanation
Indices: 51209705--51209737 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
51209695 CACTTTCAAA
51209705 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
51209738 TCGACTTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:51214224 original size:40 final size:40
Alignment explanation
Indices: 51214169--51214338 Score: 225
Period size: 40 Copynumber: 4.2 Consensus size: 40
51214159 AACATTGGAA
51214169 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
51214209 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
51214249 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
51214288 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
51214329 CTATATCCGG
1 ATATATCCGG
51214339 TTAAATCCCG
Statistics
Matches: 111, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
39 2 0.02
40 109 0.98
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:51215938 original size:58 final size:58
Alignment explanation
Indices: 51215817--51215985 Score: 268
Period size: 58 Copynumber: 2.9 Consensus size: 58
51215807 GTGCCCACTG
* **
51215817 ACCGATCTCGCACACATAGTGCTCGGTTGAA-GACCTTGCACACACAGTGCCTCAATT
1 ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAATTTGCACACACAGTGCCTCAATT
* *
51215874 ATCGATCTCGCACACATAGTGTTCGGTTAAAGGAATTTGCACACACAGTGCCTCAATT
1 ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAATTTGCACACACAGTGCCTCAATT
* *
51215932 ACCGATCTCGCACACATAGTGCTCGGTTAAAGAAATTTGCACACATAGTGCCTC
1 ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAATTTGCACACACAGTGCCTC
51215986 TAATCATTCG
Statistics
Matches: 102, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
57 28 0.27
58 74 0.73
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (58 bp):
ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAATTTGCACACACAGTGCCTCAATT
Found at i:51215973 original size:29 final size:28
Alignment explanation
Indices: 51215826--51215982 Score: 102
Period size: 29 Copynumber: 5.5 Consensus size: 28
51215816 GACCGATCTC
* **
51215826 GCACACATAGTGCTCGGTTGAAGACCTT
1 GCACACATAGTGCTCGGTTAAAGAATTT
* ** ** *
51215854 GCACACACAGTGCCTCAATTATCG-ATCTC
1 GCACACATAGTG-CTCGGTTAAAGAAT-TT
*
51215883 GCACACATAGTGTTCGGTTAAAGGAATTT
1 GCACACATAGTGCTCGGTTAAA-GAATTT
* ** ** *
51215912 GCACACACAGTGCCTCAATTACCG-ATCTC
1 GCACACATAGTG-CTCGGTTAAAGAAT-TT
51215941 GCACACATAGTGCTCGGTTAAAGAAATTT
1 GCACACATAGTGCTCGGTTAAAG-AATTT
51215970 GCACACATAGTGC
1 GCACACATAGTGC
51215983 CTCTAATCAT
Statistics
Matches: 92, Mismatches: 29, Indels: 15
0.68 0.21 0.11
Matches are distributed among these distances:
28 25 0.27
29 58 0.63
30 9 0.10
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (28 bp):
GCACACATAGTGCTCGGTTAAAGAATTT
Found at i:51216064 original size:43 final size:43
Alignment explanation
Indices: 51215998--51216174 Score: 264
Period size: 43 Copynumber: 4.1 Consensus size: 43
51215988 ATCATTCGCA
** * * *
51215998 CACCGGCATTAAGCCTGCGAGGCACAAAGACCCGAATACACAT
1 CACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACAT
*
51216041 CACCGGCACGAAGCCTGCTAGGCACGAAGGCTCGAATACACAT
1 CACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACAT
*
51216084 CACCGGCACGAAGCCTGCTAGGCACGAAGGCCTGAATACACAT
1 CACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACAT
* * *
51216127 CACCGGCACAAAGCCTGCTAGACACGAAGGCTCGAATACACAT
1 CACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACAT
51216170 CACCG
1 CACCG
51216175 AGTTTCATGC
Statistics
Matches: 122, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 122 1.00
ACGTcount: A:0.32, C:0.33, G:0.23, T:0.11
Consensus pattern (43 bp):
CACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACAT
Found at i:51217687 original size:36 final size:36
Alignment explanation
Indices: 51217647--51217719 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
51217637 ATCTTAGCAT
*
51217647 AGGATCTCGTAGTCATATACTTTATCGAATTCACTA
1 AGGATCTCATAGTCATATACTTTATCGAATTCACTA
51217683 AGGATCTCATAGTCATATACTTTATCGAATTCACTA
1 AGGATCTCATAGTCATATACTTTATCGAATTCACTA
51217719 A
1 A
51217720 CACTTGGCCT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (36 bp):
AGGATCTCATAGTCATATACTTTATCGAATTCACTA
Found at i:51217838 original size:38 final size:38
Alignment explanation
Indices: 51217741--51217870 Score: 143
Period size: 38 Copynumber: 3.4 Consensus size: 38
51217731 CGAGGTATAA
* * * *
51217741 AACCCGAACATAACACCAGCACGAAGCCTGCGGGACTTT
1 AACCCGGATATAATACCAGCACGAAGCCTGCAGGA-TTT
*** * *
51217780 AAACTTAGATATAATACCAGCACTAGGCCTGCAGGATTT
1 -AACCCGGATATAATACCAGCACGAAGCCTGCAGGATTT
* *
51217819 AACCCGGATATAATCCCAGCACGAAGCCTGCGGGATTT
1 AACCCGGATATAATACCAGCACGAAGCCTGCAGGATTT
51217857 AACCCGGATATAAT
1 AACCCGGATATAAT
51217871 TCTAGCATAT
Statistics
Matches: 74, Mismatches: 16, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
38 45 0.61
39 3 0.04
40 26 0.35
ACGTcount: A:0.34, C:0.27, G:0.20, T:0.19
Consensus pattern (38 bp):
AACCCGGATATAATACCAGCACGAAGCCTGCAGGATTT
Found at i:51217885 original size:38 final size:38
Alignment explanation
Indices: 51217756--51217906 Score: 151
Period size: 38 Copynumber: 3.9 Consensus size: 38
51217746 GAACATAACA
*** *
51217756 CCAGCACGAAGCCTGCGGGACTTTAAACTTAGATATAATA
1 CCAGCACGAAGCCTGCGGGA-TTT-AACCCGGATATAATC
* * *
51217796 CCAGCACTAGGCCTGCAGGATTTAACCCGGATATAATC
1 CCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATC
*
51217834 CCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATT
1 CCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATC
* * *
51217872 CTAGCA-TATAGCCTGCGGGTCTTTAAGCCCGGATA
1 CCAGCACGA-AGCCTGCGGG-ATTTAA-CCCGGATA
51217907 CACATCAAAT
Statistics
Matches: 94, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
37 1 0.01
38 60 0.64
39 8 0.09
40 25 0.27
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.23
Consensus pattern (38 bp):
CCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATC
Found at i:51217903 original size:78 final size:78
Alignment explanation
Indices: 51217756--51217906 Score: 182
Period size: 78 Copynumber: 1.9 Consensus size: 78
51217746 GAACATAACA
** *
51217756 CCAGCACGAAGCCTGCGGGACTTTAAACTTAGATATAATACCAGCACTAGGCCTGCAGGATTTAA
1 CCAGCACGAAGCCTGCGGGACTTTAAACCCAGATATAATACCAGCACTAAGCCTGCAGGATTTAA
51217821 CCCGGATATAATC
66 CCCGGATATAATC
* * * * *
51217834 CCAGCACGAAGCCTGCGGGA-TTT-AACCCGGATATAATTCTAGCA-TATAGCCTGCGGGTCTTT
1 CCAGCACGAAGCCTGCGGGACTTTAAACCCAGATATAATACCAGCACTA-AGCCTGCAGG-ATTT
51217896 AAGCCCGGATA
64 AA-CCCGGATA
51217907 CACATCAAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
75 2 0.03
76 24 0.39
77 8 0.13
78 28 0.45
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.23
Consensus pattern (78 bp):
CCAGCACGAAGCCTGCGGGACTTTAAACCCAGATATAATACCAGCACTAAGCCTGCAGGATTTAA
CCCGGATATAATC
Found at i:51222781 original size:79 final size:80
Alignment explanation
Indices: 51222647--51222851 Score: 240
Period size: 79 Copynumber: 2.6 Consensus size: 80
51222637 ATGATATCCG
* * * **
51222647 GGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTTGTG
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAAGATCCGAAGGCATTTGTG
*
51222712 CGAGTTACTA-ATTCCA
65 CGAGTTACTATA-ACCA
* *
51222728 GGCTAAG-CCCGAAGGCATTAGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGAT-CCGAAGGCATTTGTG
*
51222791 CGAGTTACTATAACCG
65 CGAGTTACTATAACCA
* *
51222807 GGCTATGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC-GGTTAA
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGTTAA
51222852 ATTCTGAAGG
Statistics
Matches: 107, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
78 1 0.01
79 58 0.54
80 41 0.38
81 7 0.07
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGATCCGAAGGCATTTGTGC
GAGTTACTATAACCA
Found at i:51222842 original size:40 final size:40
Alignment explanation
Indices: 51222640--51222847 Score: 253
Period size: 40 Copynumber: 5.2 Consensus size: 40
51222630 TATTCGAATG
* * *
51222640 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACT
*
51222681 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACT
* *
51222721 A-ATTCCAGGCTAAG-CCCGAAGGCATTAGTGCGAGTTACT
1 ATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
51222760 AAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
51222800 ATAACCGGGCTATGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
51222840 ATATCCGG
1 ATATCCGG
51222848 TTAAATTCTG
Statistics
Matches: 145, Mismatches: 16, Indels: 13
0.83 0.09 0.07
Matches are distributed among these distances:
39 36 0.25
40 80 0.55
41 28 0.19
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:51224619 original size:28 final size:28
Alignment explanation
Indices: 51224573--51224641 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
51224563 TTTAAAACCC
*
51224573 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
51224600 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
51224628 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
51224642 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:51226467 original size:19 final size:18
Alignment explanation
Indices: 51226430--51226473 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
51226420 ATACATACAG
51226430 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
51226447 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
51226466 TACTAATT
1 TAATAATT
51226474 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:51228901 original size:28 final size:28
Alignment explanation
Indices: 51228855--51228923 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
51228845 TTTAAAACCC
*
51228855 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
51228882 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
51228910 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
51228924 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:51230054 original size:34 final size:34
Alignment explanation
Indices: 51230015--51230084 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
51230005 AGAAAACATG
51230015 GAGGAAAAGAGAAGAAGAAAATTCGGCACAATGA
1 GAGGAAAAGAGAAGAAGAAAATTCGGCACAATGA
51230049 GAGGAAAAGAGAAGAAGAAAATTCGGCACAATGA
1 GAGGAAAAGAGAAGAAGAAAATTCGGCACAATGA
51230083 GA
1 GA
51230085 AATAGACTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.53, C:0.09, G:0.30, T:0.09
Consensus pattern (34 bp):
GAGGAAAAGAGAAGAAGAAAATTCGGCACAATGA
Found at i:51230786 original size:19 final size:18
Alignment explanation
Indices: 51230749--51230792 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
51230739 ATACATACAG
51230749 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
51230766 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
51230785 TACTAATT
1 TAATAATT
51230793 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:51233221 original size:28 final size:28
Alignment explanation
Indices: 51233175--51233243 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
51233165 TTTAAAACCC
*
51233175 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
51233202 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
51233230 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
51233244 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:51235083 original size:19 final size:18
Alignment explanation
Indices: 51235046--51235089 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
51235036 ATACATACAG
51235046 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
51235063 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
51235082 TACTAATT
1 TAATAATT
51235090 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:51237515 original size:28 final size:28
Alignment explanation
Indices: 51237469--51237537 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
51237459 TTTAAAACCC
*
51237469 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
51237496 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
51237524 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
51237538 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:51239366 original size:19 final size:18
Alignment explanation
Indices: 51239329--51239372 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
51239319 ATACATACAG
51239329 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
51239346 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
51239365 TACTAATT
1 TAATAATT
51239373 AATTTCATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:51241789 original size:28 final size:28
Alignment explanation
Indices: 51241743--51241811 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
51241733 TTTAAAACCC
*
51241743 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
51241770 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
51241798 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
51241812 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:51243641 original size:19 final size:18
Alignment explanation
Indices: 51243604--51243647 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
51243594 ATACATACAG
51243604 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
51243621 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
51243640 TACTAATT
1 TAATAATT
51243648 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:51248165 original size:29 final size:29
Alignment explanation
Indices: 51248132--51248263 Score: 201
Period size: 29 Copynumber: 4.6 Consensus size: 29
51248122 GTGACGAGAT
51248132 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
51248161 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
51248190 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
51248219 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
51248248 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
51248264 GGCTTCAATC
Statistics
Matches: 95, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 95 1.00
ACGTcount: A:0.26, C:0.15, G:0.33, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:51253902 original size:48 final size:48
Alignment explanation
Indices: 51253819--51253958 Score: 165
Period size: 48 Copynumber: 2.9 Consensus size: 48
51253809 TACTCGAGAG
* *
51253819 TCTCACACCCTAAGTGCCAATATCATGGCCAGAAGCCAACTCAACGAA
1 TCTCACACCCGAAGTGCCAATATCATGGCCAGAAGCCAACTCAACAAA
** * ** *
51253867 TCTTGCACTCGAAGTGCCAATATCATGGCTTGAAGCCAACTGAACAAA
1 TCTCACACCCGAAGTGCCAATATCATGGCCAGAAGCCAACTCAACAAA
* * *
51253915 TCTCACACCCGAAGTTCCAATATAATGGCCCA-AAGCCAAATCAA
1 TCTCACACCCGAAGTGCCAATATCATGG-CCAGAAGCCAACTCAA
51253959 TGTAACCCTA
Statistics
Matches: 74, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
48 73 0.99
49 1 0.01
ACGTcount: A:0.36, C:0.30, G:0.15, T:0.19
Consensus pattern (48 bp):
TCTCACACCCGAAGTGCCAATATCATGGCCAGAAGCCAACTCAACAAA
Found at i:51254541 original size:21 final size:20
Alignment explanation
Indices: 51254511--51254550 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
51254501 AAAAACTTGT
51254511 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
*
51254531 ATAATCTATCATCAATCATT
1 ATAA-CTATCATCAAACATT
51254551 AAATCTCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:51266481 original size:93 final size:93
Alignment explanation
Indices: 51266369--51266540 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
51266359 GCCCATAAGT
* *
51266369 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
51266434 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
51266462 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
51266527 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
51266541 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:51266536 original size:46 final size:46
Alignment explanation
Indices: 51266361--51266536 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
51266351 TGTAACCCGC
* * *
51266361 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
51266407 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
51266457 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
51266500 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
51266537 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:51268960 original size:29 final size:29
Alignment explanation
Indices: 51268921--51269008 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
51268911 CAAAGATAAC
*
51268921 AAGAAAACCGAATAAAGAAATCCAAGATA
1 AAGAAACCCGAATAAAGAAATCCAAGATA
*
51268950 GAGAAACCCGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGAATAAAGAAATCCAAG-ATA
* * * *
51268979 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGA-AACCCGAATAAAGAAATCCAAGATA
51269009 CGATACTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
28 2 0.04
29 27 0.55
30 18 0.37
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (29 bp):
AAGAAACCCGAATAAAGAAATCCAAGATA
Found at i:51268979 original size:15 final size:15
Alignment explanation
Indices: 51268921--51268999 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
51268911 CAAAGATAAC
*
51268921 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
51268935 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
51268950 GAGAAA-CCCGAATA
1 AAGAAATCCAGAATA
51268964 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
51268979 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
51268994 AAGAAA
1 AAGAAA
51269000 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 19 0.36
15 34 0.64
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:51269008 original size:15 final size:15
Alignment explanation
Indices: 51268932--51269008 Score: 77
Period size: 15 Copynumber: 5.2 Consensus size: 15
51268922 AGAAAACCGA
51268932 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
51268947 ATAGAGAAACCCGA-
1 ATAAAGAAATCCAAG
51268961 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
51268975 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
51268991 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
51269006 ATA
1 ATA
51269009 CGATACTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 37 0.76
16 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:51272056 original size:93 final size:93
Alignment explanation
Indices: 51271944--51272115 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
51271934 GCCCATAAGT
* *
51271944 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
51272009 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
51272037 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
51272102 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
51272116 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:51272111 original size:46 final size:46
Alignment explanation
Indices: 51271936--51272111 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
51271926 TGTAACCCGC
* * *
51271936 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
51271982 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
51272032 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
51272075 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
51272112 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:51274540 original size:30 final size:30
Alignment explanation
Indices: 51274496--51274584 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
51274486 CAAAGATAAC
51274496 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
51274525 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
51274555 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
51274585 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:51274544 original size:15 final size:15
Alignment explanation
Indices: 51274496--51274575 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
51274486 CAAAGATAAC
*
51274496 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
51274510 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
51274525 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
51274540 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
51274555 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
51274570 AAGAAA
1 AAGAAA
51274576 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:51274584 original size:15 final size:15
Alignment explanation
Indices: 51274507--51274584 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
51274497 AGAAAACCGA
51274507 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
51274522 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
51274536 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
51274551 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
51274567 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
51274582 ATA
1 ATA
51274585 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:51277634 original size:93 final size:93
Alignment explanation
Indices: 51277522--51277693 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
51277512 GCCCATAAGT
* *
51277522 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
51277587 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
51277615 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
51277680 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
51277694 CAAATATCCA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:51277689 original size:46 final size:46
Alignment explanation
Indices: 51277514--51277689 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
51277504 TGTAACCCGC
* * *
51277514 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
51277560 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
51277610 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
51277653 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
51277690 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:51290633 original size:29 final size:29
Alignment explanation
Indices: 51290601--51290673 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
51290591 CTTCGAGCTC
*
51290601 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
51290630 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
51290659 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
51290674 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:51298552 original size:29 final size:29
Alignment explanation
Indices: 51298520--51298592 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
51298510 CTTCGAGCTC
*
51298520 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
51298549 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
51298578 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
51298593 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:51301322 original size:27 final size:26
Alignment explanation
Indices: 51301274--51301333 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
51301264 GTGAGGCTGC
*
51301274 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
51301301 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
51301327 CATATAT
1 CAGATAT
51301334 ATATATATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:51302258 original size:27 final size:27
Alignment explanation
Indices: 51302090--51302261 Score: 202
Period size: 27 Copynumber: 6.4 Consensus size: 27
51302080 GGGCAAAATG
* * * * *
51302090 GTAATTTTACCCCATAAGGGTATCTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
51302117 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
*
51302144 GTATTTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
51302171 GTAATTCTATCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
51302198 ATAATTCTACCCTAC-AGCGGTATTTCA
1 GTAATTCTACCCTACAAG-GGTATTTCA
* * *
51302225 GTAATTCTAACTTACAAGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
51302252 GTAATTCTAC
1 GTAATTCTAC
51302262 AACTCATCCA
Statistics
Matches: 124, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
26 1 0.01
27 121 0.98
28 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:51311627 original size:30 final size:30
Alignment explanation
Indices: 51311591--51311691 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
51311581 GACAAGATTG
* * *
51311591 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
51311621 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
51311649 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
51311678 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
51311692 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:51311703 original size:29 final size:28
Alignment explanation
Indices: 51311620--51311695 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
51311610 AAAATTGTAC
* *
51311620 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
51311648 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
51311677 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
51311696 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:51314649 original size:2 final size:2
Alignment explanation
Indices: 51314642--51314668 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
51314632 TTTGGCCACA
51314642 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
51314669 CATCTCATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:51314790 original size:47 final size:47
Alignment explanation
Indices: 51314733--51314901 Score: 320
Period size: 47 Copynumber: 3.6 Consensus size: 47
51314723 ACACATTTCG
*
51314733 CATTAGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
51314780 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
51314827 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
51314874 CATTGGCCATTCGGCCTTATCACGCATA
1 CATTGGCCATTCGGCCTTATCACACATA
51314902 TATATACAGG
Statistics
Matches: 120, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 120 1.00
ACGTcount: A:0.25, C:0.32, G:0.13, T:0.30
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:51323123 original size:30 final size:30
Alignment explanation
Indices: 51323087--51323187 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
51323077 GACAAGATTG
* * *
51323087 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
51323117 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
51323145 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
51323174 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
51323188 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:51323199 original size:29 final size:28
Alignment explanation
Indices: 51323116--51323191 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
51323106 AAAATTGTAC
* *
51323116 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
51323144 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
51323173 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
51323192 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:51325752 original size:40 final size:40
Alignment explanation
Indices: 51325672--51325892 Score: 347
Period size: 40 Copynumber: 5.5 Consensus size: 40
51325662 ACCCAAGTTT
* * * *
51325672 CTTCGGGAT-TTAG-CCGGATATAACCACACGCCCAATTGC
1 CTTCGGG-TCTTAGCCCGGATATAACAACTCGCACAAATGC
* * *
51325711 CTTCGGGTCTTAACCCGGACATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
51325751 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
51325791 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
51325831 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
*
51325871 CTTCGGGGCTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
51325893 CATTCAAATG
Statistics
Matches: 169, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
38 1 0.01
39 10 0.06
40 158 0.93
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
Found at i:51333742 original size:40 final size:40
Alignment explanation
Indices: 51333662--51333881 Score: 338
Period size: 40 Copynumber: 5.5 Consensus size: 40
51333652 ACCCAAGTTT
* * * *
51333662 CTTCGGGAT-TTAG-CCGGATATAACCACACGCCCAATTGC
1 CTTCGGG-TCTTAGCCCGGATATAACAACTCGCACAAATGC
* * *
51333701 CTTCGGGTCTTAACCCGGACATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
51333741 CTTC-GGTCTTAGCCCGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
51333780 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
51333820 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
*
51333860 CTTCGGGGCTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
51333882 CATTCAAATG
Statistics
Matches: 167, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
38 1 0.01
39 46 0.28
40 120 0.72
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
Found at i:51333797 original size:79 final size:80
Alignment explanation
Indices: 51333662--51333878 Score: 332
Period size: 79 Copynumber: 2.7 Consensus size: 80
51333652 ACCCAAGTTT
* * * * * *
51333662 CTTCGGGAT-TTAG-CCGGATATAACCACACGCCCAATTGCCTTCGGGTCTTAACCCGGACATAG
1 CTTCGGG-TCTTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGACATAA
51333725 CAACTCGCACAAATGC
65 CAACTCGCACAAATGC
*
51333741 CTTC-GGTCTTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAAC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGACATAAC
51333805 AACTCGCACAAATGC
66 AACTCGCACAAATGC
*
51333820 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGGCTTAGCCCGGA
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGA
51333879 TATCATTCAA
Statistics
Matches: 127, Mismatches: 8, Indels: 5
0.91 0.06 0.04
Matches are distributed among these distances:
77 1 0.01
78 6 0.05
79 67 0.53
80 53 0.42
ACGTcount: A:0.26, C:0.31, G:0.21, T:0.22
Consensus pattern (80 bp):
CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGACATAAC
AACTCGCACAAATGC
Found at i:51341060 original size:49 final size:49
Alignment explanation
Indices: 51340934--51341241 Score: 459
Period size: 49 Copynumber: 6.4 Consensus size: 49
51340924 CCCCTCGGGA
* * * * *
51340934 CTTATCACAT-T-TATACA-CTTCCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACCTT-CACATTCATCACATCGGCCATTAGGC
* * *
51340981 CCTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGC
51341028 CTTATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGC
*
51341077 CTTATCACATATATACACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGC
51341126 CTTATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGC
*
51341175 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGC
*
51341222 CTTATCACGTATATATACAC
1 CTTATCACATATATATACAC
51341242 TTTCCCAAAT
Statistics
Matches: 242, Mismatches: 12, Indels: 12
0.91 0.05 0.05
Matches are distributed among these distances:
46 1 0.00
47 88 0.36
48 2 0.01
49 151 0.62
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.31
Consensus pattern (49 bp):
CTTATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGC
Found at i:51348233 original size:48 final size:46
Alignment explanation
Indices: 51348161--51348377 Score: 190
Period size: 48 Copynumber: 4.5 Consensus size: 46
51348151 TAAAATGCCA
* * *
51348161 ATGCCATGTCCCAAACATGTTCTTACACTGGCT-TACATGTCGAAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATAT-G--GCCG
*
51348209 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAATGTGGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACAT-A--TGGCCG
*
51348257 ATGCCATGTCTCAGACATGGTCTTACACTGGATCTCATA-ATATGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGG--CTC-TACATATGGCCG
* * * * * *
51348305 ATGCTATGTCCTAGACATGGTTTTACACTAGCAC-ACATATCAACGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATAT---GGCCG
*
51348353 ATGCCATGTTCCAGACATGGTCTTA
1 ATGCCATGTCCCAGACATGGTCTTA
51348378 GACATATCAC
Statistics
Matches: 140, Mismatches: 17, Indels: 24
0.77 0.09 0.13
Matches are distributed among these distances:
44 1 0.01
45 4 0.03
46 2 0.01
48 123 0.88
49 1 0.01
50 5 0.04
51 4 0.03
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.28
Consensus pattern (46 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATATGGCCG
Found at i:51351038 original size:28 final size:28
Alignment explanation
Indices: 51351006--51351105 Score: 130
Period size: 28 Copynumber: 3.6 Consensus size: 28
51350996 ATAATCGACG
*
51351006 TCTCGCACCCTAAGTGCCATACTCAACA
1 TCTCGCACACTAAGTGCCATACTCAACA
* **
51351034 TCTCGCACACTAAGTGCCATTCTCAATGT
1 TCTCGCACACTAAGTGCCATACTCAA-CA
* *
51351063 TTTC-CACACTAAGTGCCATACTCAATA
1 TCTCGCACACTAAGTGCCATACTCAACA
51351090 TCTCGCACACTAAGTG
1 TCTCGCACACTAAGTG
51351106 TCGTACATAG
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
27 3 0.05
28 55 0.90
29 3 0.05
ACGTcount: A:0.28, C:0.33, G:0.12, T:0.27
Consensus pattern (28 bp):
TCTCGCACACTAAGTGCCATACTCAACA
Found at i:51351141 original size:40 final size:40
Alignment explanation
Indices: 51351092--51351182 Score: 137
Period size: 40 Copynumber: 2.3 Consensus size: 40
51351082 ACTCAATATC
*
51351092 TCGCACACTAAGTGTCGTACATAGCCGAAGCTATCTCAAA
1 TCGCACACTAAGTGTCGTACATAGCCAAAGCTATCTCAAA
* *
51351132 TCGCACACTAAGTTTCGTACATAGCCAAAGCTATCTCGAA
1 TCGCACACTAAGTGTCGTACATAGCCAAAGCTATCTCAAA
* *
51351172 CCGTACACTAA
1 TCGCACACTAA
51351183 CTGCCACATT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.33, C:0.29, G:0.15, T:0.23
Consensus pattern (40 bp):
TCGCACACTAAGTGTCGTACATAGCCAAAGCTATCTCAAA
Found at i:51351197 original size:40 final size:41
Alignment explanation
Indices: 51351153--51351236 Score: 116
Period size: 41 Copynumber: 2.1 Consensus size: 41
51351143 GTTTCGTACA
* *
51351153 TAGCCAAAGCTA-TCTCGAACCGTACACTAACTGCCACATT
1 TAGCCAAAGCTATTCTCGAACCGCACACTAAATGCCACATT
* * *
51351193 TAGCCGAAGCTATTTTCGAACCGCACAGTAAATGCCACATT
1 TAGCCAAAGCTATTCTCGAACCGCACACTAAATGCCACATT
51351234 TAG
1 TAG
51351237 TCGATATGTT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
40 11 0.29
41 27 0.71
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.24
Consensus pattern (41 bp):
TAGCCAAAGCTATTCTCGAACCGCACACTAAATGCCACATT
Found at i:51355535 original size:37 final size:37
Alignment explanation
Indices: 51355457--51355535 Score: 88
Period size: 37 Copynumber: 2.1 Consensus size: 37
51355447 TGGACTCTAA
* * * **
51355457 GGGGAGTTTTCAGAAGAGAAAAGTTAGGAAATAGATT
1 GGGGAGTTATCAGAAGAGAAAAATAAGGAAATAGAAG
*
51355494 GGGGAGTTATCAG-AGAGAAAAATAAGGAGATGAGAAG
1 GGGGAGTTATCAGAAGAGAAAAATAAGGAAAT-AGAAG
51355531 GGGGA
1 GGGGA
51355536 AGTGATGGAG
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
36 15 0.43
37 20 0.57
ACGTcount: A:0.42, C:0.03, G:0.38, T:0.18
Consensus pattern (37 bp):
GGGGAGTTATCAGAAGAGAAAAATAAGGAAATAGAAG
Found at i:51358068 original size:40 final size:40
Alignment explanation
Indices: 51357942--51358070 Score: 156
Period size: 40 Copynumber: 3.2 Consensus size: 40
51357932 ATGCTGGAAA
* *
51357942 TTATAT-CGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
51357981 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
51358021 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
51358061 TTATATCCGG
1 TTATATCCGG
51358071 TTGTATTCCG
Statistics
Matches: 75, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
39 8 0.11
40 67 0.89
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:51359971 original size:29 final size:29
Alignment explanation
Indices: 51359890--51360041 Score: 168
Period size: 29 Copynumber: 5.3 Consensus size: 29
51359880 GTTAGCATGA
* **
51359890 ATAT-AATGTGATTTGGGCCGGATGGGCC
1 ATATGAATGTGAATTGGGCCTAATGGGCC
* *
51359918 ATATAAATGAG-ATTGGGCCTAATGGGCC
1 ATATGAATGTGAATTGGGCCTAATGGGCC
51359946 ATATGAATGTGAATTGGGCCTAATGGGCC
1 ATATGAATGTGAATTGGGCCTAATGGGCC
* * *
51359975 ATATGAACGTGAATTCGGCCGAATGGGCC
1 ATATGAATGTGAATTGGGCCTAATGGGCC
* *
51360004 ATAT-AA-GTGAGATTGGGACTAGTGGGCC
1 ATATGAATGTGA-ATTGGGCCTAATGGGCC
*
51360032 ATATGCATGT
1 ATATGAATGT
51360042 ATGTAAGGGT
Statistics
Matches: 105, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
27 4 0.04
28 46 0.44
29 53 0.50
30 2 0.02
ACGTcount: A:0.28, C:0.14, G:0.32, T:0.26
Consensus pattern (29 bp):
ATATGAATGTGAATTGGGCCTAATGGGCC
Done.