Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 378 of 770
Found at i:116410824 original size:27 final size:27
Alignment explanation
Indices: 116410781--116410851 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
116410771 AAATGACTAA
*
116410781 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
* ** *
116410808 AATGCCCCTGTAGGGTAAAGTGGCCGT
1 AATACCCCTGTAGGGTAAAAAGACCGT
*
116410835 AATACCCCTGTATGGTA
1 AATACCCCTGTAGGGTA
116410852 CAATGATGAT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
26 2 0.06
27 34 0.94
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.23
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:116411238 original size:28 final size:28
Alignment explanation
Indices: 116411193--116411275 Score: 87
Period size: 33 Copynumber: 2.8 Consensus size: 28
116411183 TTACTGCATT
* *
116411193 GGGCTTAGGCCTACACTGCTACTATATA
1 GGGCTTAGGCCCAGACTGCTACTATATA
*
116411221 GGGCTTAGGCCCAGACTGTACTGATACTGTATA
1 GGGCTTAGGCCCAGACTG--C---TACTATATA
116411254 GGGCTTAGGCCCAGACTG-TACT
1 GGGCTTAGGCCCAGACTGCTACT
116411276 GATACTGAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
27 4 0.09
28 16 0.34
30 1 0.02
33 26 0.55
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.27
Consensus pattern (28 bp):
GGGCTTAGGCCCAGACTGCTACTATATA
Found at i:116411259 original size:33 final size:33
Alignment explanation
Indices: 116411207--116411314 Score: 171
Period size: 33 Copynumber: 3.3 Consensus size: 33
116411197 TTAGGCCTAC
* *
116411207 ACTGCTACTATATAGGGCTTAGGCCCAGACTGT
1 ACTGATACTGTATAGGGCTTAGGCCCAGACTGT
116411240 ACTGATACTGTATAGGGCTTAGGCCCAGACTGT
1 ACTGATACTGTATAGGGCTTAGGCCCAGACTGT
* *
116411273 ACTGATACTGAATAGGGCTTTGGCCCAGACTGT
1 ACTGATACTGTATAGGGCTTAGGCCCAGACTGT
*
116411306 ATTGATACT
1 ACTGATACT
116411315 ATGTTATTGA
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 70 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (33 bp):
ACTGATACTGTATAGGGCTTAGGCCCAGACTGT
Found at i:116411615 original size:17 final size:16
Alignment explanation
Indices: 116411573--116411629 Score: 60
Period size: 18 Copynumber: 3.4 Consensus size: 16
116411563 CTAGTCTAGG
116411573 AAAACACGAGTTTTCA
1 AAAACACGAGTTTTCA
*
116411589 AAATAGCACGATTTTTCA
1 AAA-A-CACGAGTTTTCA
*
116411607 AAGAACACGAGCTTTCA
1 AA-AACACGAGTTTTCA
*
116411624 ACAACA
1 AAAACA
116411630 AAGTTTTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
16 7 0.21
17 12 0.35
18 14 0.41
19 1 0.03
ACGTcount: A:0.44, C:0.21, G:0.12, T:0.23
Consensus pattern (16 bp):
AAAACACGAGTTTTCA
Found at i:116426731 original size:17 final size:18
Alignment explanation
Indices: 116426689--116426737 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
116426679 AGTTGAAAAG
116426689 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
116426708 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
116426725 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
116426738 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:116427626 original size:40 final size:40
Alignment explanation
Indices: 116427560--116427726 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
116427550 AAATTGAATG
* * *
116427560 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
116427599 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
116427639 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
116427679 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
116427719 ATATCCGG
1 ATATCCGG
116427727 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:116434723 original size:17 final size:18
Alignment explanation
Indices: 116434681--116434729 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
116434671 AAGTTGAAAG
116434681 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
116434700 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
116434717 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
116434730 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:116435673 original size:39 final size:39
Alignment explanation
Indices: 116435550--116435715 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 39
116435540 AAATTGAATG
* * **
116435550 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTGTGC-GAGTGATT
* * *
116435589 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGATT
* *
116435629 ATATCCGGGCTAAG-GCCGAAGGCATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGATT
*
116435668 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGATT
116435708 ATATCCGG
1 ATATCCGG
116435716 TTATATTCCG
Statistics
Matches: 105, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
38 3 0.03
39 44 0.42
40 56 0.53
41 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGATT
Found at i:116441934 original size:12 final size:12
Alignment explanation
Indices: 116441917--116441950 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
116441907 AGGCAATCCA
*
116441917 GGAAATTCCTCT
1 GGAAATTCATCT
*
116441929 GGAAATACATCT
1 GGAAATTCATCT
116441941 GGAAATTCAT
1 GGAAATTCAT
116441951 AGACTATCGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (12 bp):
GGAAATTCATCT
Found at i:116445998 original size:46 final size:46
Alignment explanation
Indices: 116445943--116446123 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
116445933 TAGGATGGTT
116445943 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
116445989 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
116446035 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** *
116446082 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
116446124 GCGGGTTACA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 71 0.61
47 33 0.28
48 2 0.02
50 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:116446104 original size:93 final size:93
Alignment explanation
Indices: 116445945--116446115 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
116445935 GGATGGTTGA
* *
116445945 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
116446010 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
116446038 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
116446103 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
116446116 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:116457623 original size:11 final size:11
Alignment explanation
Indices: 116457607--116457674 Score: 52
Period size: 11 Copynumber: 6.1 Consensus size: 11
116457597 TTATATATAC
116457607 TAATAAAATAA
1 TAATAAAATAA
116457618 TAATAAAATAA
1 TAATAAAATAA
*
116457629 TAA-AATATTATA
1 TAATAA-AATA-A
116457641 TAA-AAAATCAA
1 TAATAAAAT-AA
* *
116457652 -ATTAAAATAT
1 TAATAAAATAA
116457662 TAATAACAATAA
1 TAATAA-AATAA
116457674 T
1 T
116457675 TAATTAATTA
Statistics
Matches: 45, Mismatches: 6, Indels: 11
0.73 0.10 0.18
Matches are distributed among these distances:
10 4 0.09
11 29 0.64
12 12 0.27
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:116457631 original size:19 final size:20
Alignment explanation
Indices: 116457607--116457645 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
116457597 TTATATATAC
116457607 TAATAAAATAATA-ATAAAA
1 TAATAAAATAATATATAAAA
*
116457626 TAATAAAATATTATATAAAA
1 TAATAAAATAATATATAAAA
116457646 AATCAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
TAATAAAATAATATATAAAA
Found at i:116457645 original size:12 final size:11
Alignment explanation
Indices: 116457607--116457678 Score: 51
Period size: 12 Copynumber: 6.4 Consensus size: 11
116457597 TTATATATAC
*
116457607 TAATAAAATAA
1 TAATAAAATAT
116457618 TAAT-AAA-A-
1 TAATAAAATAT
116457626 TAATAAAATAT
1 TAATAAAATAT
*
116457637 TATATAAAAAAT
1 TA-ATAAAATAT
*
116457649 CAAATTAAAATAT
1 -TAA-TAAAATAT
116457662 TAATAACAATAAT
1 TAATAA-AAT-AT
116457675 TAAT
1 TAAT
116457679 TAATTAATTA
Statistics
Matches: 49, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
8 4 0.08
9 4 0.08
10 4 0.08
11 9 0.18
12 14 0.29
13 14 0.29
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (11 bp):
TAATAAAATAT
Found at i:116462301 original size:39 final size:39
Alignment explanation
Indices: 116462246--116462322 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 39
116462236 GATTTGATTT
116462246 ACTCTACTCTTCTATCTCTAGAACTTTATTTCTTTTATC
1 ACTCTACTCTTCTATCTCTAGAACTTTATTTCTTTTATC
*
116462285 ACTCTACTCTTTTATCTCTAGAACTTTATTTCTTTTAT
1 ACTCTACTCTTCTATCTCTAGAACTTTATTTCTTTTAT
116462323 GTTATTTTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.21, C:0.23, G:0.03, T:0.53
Consensus pattern (39 bp):
ACTCTACTCTTCTATCTCTAGAACTTTATTTCTTTTATC
Found at i:116466182 original size:41 final size:41
Alignment explanation
Indices: 116466125--116466207 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
116466115 ATTGTTCAAG
116466125 AGTTTTATGCATCATTAAGGGACAAGGAGTCTAAAAACACT
1 AGTTTTATGCATCATTAAGGGACAAGGAGTCTAAAAACACT
116466166 AGTTTTATGCATCATTAAGGGACAAGGAGTCTAAAAACACT
1 AGTTTTATGCATCATTAAGGGACAAGGAGTCTAAAAACACT
116466207 A
1 A
116466208 AAGTCCATAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.27
Consensus pattern (41 bp):
AGTTTTATGCATCATTAAGGGACAAGGAGTCTAAAAACACT
Found at i:116469566 original size:26 final size:26
Alignment explanation
Indices: 116469537--116469635 Score: 137
Period size: 26 Copynumber: 3.8 Consensus size: 26
116469527 TTGGCCACAT
116469537 ATACTGATACTGGCAGCTTTGTTGCG
1 ATACTGATACTGGCAGCTTTGTTGCG
*
116469563 ATACTGTTACTGGCAGCTTTGTTGCG
1 ATACTGATACTGGCAGCTTTGTTGCG
* *
116469589 TTACTGATACTGGAAGCTTTGTTGCG
1 ATACTGATACTGGCAGCTTTGTTGCG
* *
116469615 ATA-TTATTACTGGTAGCTTTG
1 ATACTGA-TACTGGCAGCTTTG
116469636 CTGTGATATT
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
25 2 0.03
26 63 0.97
ACGTcount: A:0.19, C:0.16, G:0.25, T:0.39
Consensus pattern (26 bp):
ATACTGATACTGGCAGCTTTGTTGCG
Found at i:116470560 original size:21 final size:21
Alignment explanation
Indices: 116470536--116470582 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
116470526 TAAGCTTTTA
*
116470536 TATTTGGTTCAACTTAATTAT
1 TATTTGATTCAACTTAATTAT
116470557 TATTTGATTCAACTTAATTAT
1 TATTTGATTCAACTTAATTAT
116470578 TATTT
1 TATTT
116470583 AAATATTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.30, C:0.09, G:0.06, T:0.55
Consensus pattern (21 bp):
TATTTGATTCAACTTAATTAT
Found at i:116476093 original size:29 final size:29
Alignment explanation
Indices: 116476060--116476118 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
116476050 GTTATGTTGT
*
116476060 ATTCCTTTTTATTGTATATTTCGTTTCTA
1 ATTCCTTTTTATTATATATTTCGTTTCTA
116476089 ATTCCTTTTTATTATATATTTCGTTTCTA
1 ATTCCTTTTTATTATATATTTCGTTTCTA
116476118 A
1 A
116476119 CTCTTTAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.20, C:0.14, G:0.05, T:0.61
Consensus pattern (29 bp):
ATTCCTTTTTATTATATATTTCGTTTCTA
Found at i:116476453 original size:21 final size:21
Alignment explanation
Indices: 116476423--116476473 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
116476413 TCAACTTAGA
*
116476423 GCGGAGGCAGCAGCGAGGGAG
1 GCGGAAGCAGCAGCGAGGGAG
*
116476444 GCGGAAGCAGCAGTGAGGGAG
1 GCGGAAGCAGCAGCGAGGGAG
116476465 GCGG-AGCAG
1 GCGGAAGCAG
116476474 AACAGGAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 5 0.18
21 23 0.82
ACGTcount: A:0.25, C:0.18, G:0.55, T:0.02
Consensus pattern (21 bp):
GCGGAAGCAGCAGCGAGGGAG
Found at i:116476982 original size:43 final size:42
Alignment explanation
Indices: 116476768--116477001 Score: 263
Period size: 43 Copynumber: 5.5 Consensus size: 42
116476758 CTGGGCAAAT
* * *
116476768 TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCTA
1 TAGCGGCGTTTTTTATAAAAGCGCCGCT-AAAGTTCTGGTCTA
*
116476811 TAGCGGCG-TTTTTATATAAGCGCCGCTAAAGTTCTTGGTCTA
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGTTC-TGGTCTA
* **
116476853 TAGCGGCTTTTTTTATAAAAGCGCTACTAAAGTTCTTGGTCTA
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGTTC-TGGTCTA
* * * *
116476896 TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAGGTCCTGTTCTT
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAA-GTTCTGGTCTA
* * *
116476939 TGGCGGCGTTTTTTATAAAAGCGCCGCTAAAGATTGTGGTCTT
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAG-TTCTGGTCTA
* * *
116476982 TAACGGCATTTTTTCTAAAA
1 TAGCGGCGTTTTTTATAAAA
116477002 AATGATGCGA
Statistics
Matches: 163, Mismatches: 24, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
41 6 0.04
42 31 0.19
43 123 0.75
44 3 0.02
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (42 bp):
TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGTTCTGGTCTA
Found at i:116478826 original size:43 final size:43
Alignment explanation
Indices: 116478698--116478860 Score: 140
Period size: 43 Copynumber: 3.8 Consensus size: 43
116478688 CCGGTATGTA
* *
116478698 ATTTCGTGTAAGACCACGTCTGGGAC-GTTGGCATCGAT-TTCAG
1 ATTTCGTGTAAGACCATGTCTGGGACAG-TGGCATCGATATT-TG
* * *
116478741 ATTTAAGTGCT-AGACCATGTCGGGGACA-TCGGGATCG-TATTTG
1 ATTT-CGTG-TAAGACCATGTCTGGGACAGT-GGCATCGATATTTG
*
116478784 ATTTCGTGTAAGACCTTGTCTGGGACAGTGGCATCGATATTTG
1 ATTTCGTGTAAGACCATGTCTGGGACAGTGGCATCGATATTTG
* * **
116478827 ATTACCTGTAAGACCACATCTGGGAC-GTTGGCAT
1 ATTTCGTGTAAGACCATGTCTGGGACAG-TGGCAT
116478861 TGGACGAGCT
Statistics
Matches: 97, Mismatches: 14, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
41 1 0.01
42 25 0.26
43 45 0.46
44 25 0.26
45 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.31
Consensus pattern (43 bp):
ATTTCGTGTAAGACCATGTCTGGGACAGTGGCATCGATATTTG
Found at i:116480735 original size:24 final size:25
Alignment explanation
Indices: 116480702--116480754 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 25
116480692 TCCACAATGC
116480702 AAAGAACAAAAACTAAAATAAACCG
1 AAAGAACAAAAACTAAAATAAACCG
*
116480727 AAAG-ACAAAAACTAAAATAAACCT
1 AAAGAACAAAAACTAAAATAAACCG
116480751 AAAG
1 AAAG
116480755 CCTAAGAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
24 23 0.85
25 4 0.15
ACGTcount: A:0.68, C:0.15, G:0.08, T:0.09
Consensus pattern (25 bp):
AAAGAACAAAAACTAAAATAAACCG
Found at i:116481030 original size:21 final size:20
Alignment explanation
Indices: 116481002--116481041 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
116480992 AAGCTGACAG
*
116481002 GGGCACACGCTCGTGTGTCA
1 GGGCACACGCCCGTGTGTCA
116481022 GGGCGACACGCCCGTGTGTC
1 GGGC-ACACGCCCGTGTGTC
116481042 TTCTTAACAT
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:0.12, C:0.33, G:0.38, T:0.17
Consensus pattern (20 bp):
GGGCACACGCCCGTGTGTCA
Found at i:116482433 original size:96 final size:97
Alignment explanation
Indices: 116482195--116482627 Score: 369
Period size: 96 Copynumber: 4.5 Consensus size: 97
116482185 AAGAGGGTGA
* * * * * ** **
116482195 ATTGTCGATGCCATGTTCTAAACACGGTCTTACATTGGCTCACATGTCAAAACTGATGCCATGTC
1 ATTGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCAATGCCAATGCCATGTC
** * * *
116482260 CCAGGCATGGTCTTATACTAGCTCTCGTCT-C
66 CCAAACATGGTCTTACACTAGCTCTCATATAC
** * * * * * * * * *
116482291 ATTATCGATGACATGTCCCAGACATGGTTTTACACTAGCGCACATATCAATGCTAATGTCATATC
1 ATTGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCAATGCCAATGCCATGTC
* * *
116482356 TCAGACATGGTCTTAGACT-GACTCTCAT-TAC
66 CCAAACATGGTCTTACACTAG-CTCTCATATAC
* *
116482387 ATTGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATC-GTGCCCAATGCCATGT
1 ATTGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCAATG-CCAATGCCATGT
* *
116482451 CCCAAACATGGTCTTACACTAGCGCACATAT-C
65 CCCAAACATGGTCTTACACTAGCTCTCATATAC
* * * * *
116482483 AATACCGATGCCATG-TCCTAAACATGGTCTTACACTGGCTCTCAT-TACATTGCCGATGCCATG
1 ATTGCCGATGCCATGTTCC-AAACATGGTCTTACACTGGCTCACATAT-CAATGCCAATGCCATG
* *
116482546 TTCCAAATATGGTCTTACACTAGCTCTCATATA-
64 TCCCAAACATGGTCTTACACTAGCTCTCATATAC
* * * * * *
116482579 GTGGCCGATGCCATGTCCCAGACATGGTCTTACACCGGCACACATATCA
1 ATTGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCA
116482628 CCCAAATGTC
Statistics
Matches: 271, Mismatches: 55, Indels: 22
0.78 0.16 0.06
Matches are distributed among these distances:
95 8 0.03
96 256 0.94
97 7 0.03
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (97 bp):
ATTGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCAATGCCAATGCCATGTC
CCAAACATGGTCTTACACTAGCTCTCATATAC
Found at i:116482480 original size:144 final size:144
Alignment explanation
Indices: 116482302--116482627 Score: 474
Period size: 144 Copynumber: 2.3 Consensus size: 144
116482292 TTATCGATGA
* * * * *
116482302 CATGTCCCAGACATGGTTTTACACTAGCGCACATATCAATGCTAATGTCATAT-CTCAGACATGG
1 CATGTCCCAGACATGGTCTTACACTAGCGCACATATCAATACCAATGCCATATCCT-AAACATGG
* *
116482366 TCTTAGACTGACTCTCATTACATTGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCA
65 TCTTACACTGACTCTCATTACATTGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCA
*
116482431 TATCGTGCCCAATGC
130 TATAGTGCCCAATGC
* * *
116482446 CATGTCCCAAACATGGTCTTACACTAGCGCACATATCAATACCGATGCCATGTCCTAAACATGGT
1 CATGTCCCAGACATGGTCTTACACTAGCGCACATATCAATACCAATGCCATATCCTAAACATGGT
* *
116482511 CTTACACTGGCTCTCATTACATTGCCGATGCCATGTTCCAAATATGGTCTTACACTAGCTCTCAT
66 CTTACACTGACTCTCATTACATTGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCAT
* *
116482576 ATAGTGGCCGATGC
131 ATAGTGCCCAATGC
** *
116482590 CATGTCCCAGACATGGTCTTACACCGGCACACATATCA
1 CATGTCCCAGACATGGTCTTACACTAGCGCACATATCA
116482628 CCCAAATGTC
Statistics
Matches: 162, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
144 160 0.99
145 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (144 bp):
CATGTCCCAGACATGGTCTTACACTAGCGCACATATCAATACCAATGCCATATCCTAAACATGGT
CTTACACTGACTCTCATTACATTGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCAT
ATAGTGCCCAATGC
Found at i:116482625 original size:48 final size:48
Alignment explanation
Indices: 116482200--116482613 Score: 298
Period size: 48 Copynumber: 8.6 Consensus size: 48
116482190 GGTGAATTGT
* * * * * * **
116482200 CGATGCCATGTTCTAAACACGGTCTTACATTGGCTCACATGTCAA-AAC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAT-AATGGC
* ** * * * * * ***
116482248 TGATGCCATGTCCCAGGCATGGTCTTATACTAGCTCTCGTCTCATTAT
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATAATGGC
* * * * * *
116482296 CGATGACATGTCCCAGACATGGTTTTACACTAGCGCACATATCAAT-GC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAT-AATGGC
** * * * * * * *
116482344 TAATGTCATATCTCAGACATGGTCTTAGACTGACTCTCAT-TACATTGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATA-ATGGC
* ** *
116482392 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTGCC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATAATGGC
* * * * *
116482440 CAATGCCATGTCCCAAACATGGTCTTACACTAGCGCACATATCAAT-AC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAT-AATGGC
* *
116482488 CGATGCCATGTCCTAAACATGGTCTTACACTGGCTCTCAT-TACATTGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATA-ATGGC
* * * *
116482536 CGATGCCATGTTCCAAATATGGTCTTACACTAGCTCTCATATAGTGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATAATGGC
*
116482584 CGATGCCATGTCCCAGACATGGTCTTACAC
1 CGATGCCATGTCCCAAACATGGTCTTACAC
116482614 CGGCACACAT
Statistics
Matches: 283, Mismatches: 74, Indels: 18
0.75 0.20 0.05
Matches are distributed among these distances:
46 2 0.01
47 7 0.02
48 268 0.95
49 6 0.02
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (48 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATAATGGC
Found at i:116487605 original size:79 final size:81
Alignment explanation
Indices: 116487504--116487688 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
116487494 ACGACTCGCT
** * *
116487504 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
116487567 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
116487584 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
116487648 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
116487664 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
116487689 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:116487688 original size:40 final size:39
Alignment explanation
Indices: 116487497--116487688 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
116487487 GGATATAACG
* ** * *
116487497 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
116487537 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
116487577 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
116487616 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
116487656 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
116487689 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:116490132 original size:68 final size:68
Alignment explanation
Indices: 116490012--116490216 Score: 279
Period size: 68 Copynumber: 3.0 Consensus size: 68
116490002 CTCCTGGTTC
* **
116490012 ACTGTCTTGGCAAACTTCATATGTTGTCATAGTGCAACTATGGTCTTACACAATATGTTCCCATG
1 ACTGTCTTGGAAAACTTCATATGTTGTCATAGCCCAACTATGGTCTTACACAATATGTTCCCATG
116490077 TTT
66 TTT
* * *
116490080 ATTGTCCTGGAAAACTTCATATGTTGTCGTAGCCCAACTATGGTCTTACAC-A-ATGTTCCCATG
1 ACTGTCTTGGAAAACTTCATATGTTGTCATAGCCCAACTATGGTCTTACACAATATGTTCCCATG
116490143 TTT
66 TTT
* ** * * * *
116490146 ACTATCTTGGTGAACTTTATATGTTGCCATAGCCCAACTATGGCCTTACACAATATGTTCTCATG
1 ACTGTCTTGGAAAACTTCATATGTTGTCATAGCCCAACTATGGTCTTACACAATATGTTCCCATG
116490211 TTT
66 TTT
116490214 ACT
1 ACT
116490217 TTCCTAGCGG
Statistics
Matches: 119, Mismatches: 16, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
66 56 0.47
67 2 0.02
68 61 0.51
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (68 bp):
ACTGTCTTGGAAAACTTCATATGTTGTCATAGCCCAACTATGGTCTTACACAATATGTTCCCATG
TTT
Found at i:116490179 original size:66 final size:68
Alignment explanation
Indices: 116490023--116490221 Score: 267
Period size: 66 Copynumber: 3.0 Consensus size: 68
116490013 CTGTCTTGGC
** * *
116490023 AAACTTCATATGTTGTCATAGTGCAACTATGGTCTTACACAATATGTTCCCATGTTTATTGTCCT
1 AAACTTCATATGTTGTCATAGCCCAACTATGGTCTTACACAATATGTTCCCATGTTTACTATCCT
116490088 GGA
66 GGA
* *
116490091 AAACTTCATATGTTGTCGTAGCCCAACTATGGTCTTACAC-A-ATGTTCCCATGTTTACTATCTT
1 AAACTTCATATGTTGTCATAGCCCAACTATGGTCTTACACAATATGTTCCCATGTTTACTATCCT
*
116490154 GGT
66 GGA
* * * * * *
116490157 GAACTTTATATGTTGCCATAGCCCAACTATGGCCTTACACAATATGTTCTCATGTTTACTTTCCT
1 AAACTTCATATGTTGTCATAGCCCAACTATGGTCTTACACAATATGTTCCCATGTTTACTATCCT
116490222 AGCGGATTTC
Statistics
Matches: 114, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
66 56 0.49
67 2 0.02
68 56 0.49
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (68 bp):
AAACTTCATATGTTGTCATAGCCCAACTATGGTCTTACACAATATGTTCCCATGTTTACTATCCT
GGA
Found at i:116490860 original size:32 final size:32
Alignment explanation
Indices: 116490824--116490888 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
116490814 GACTATAAAA
116490824 ACTCACATCACATCTTTTGTCCATGCCAACTT
1 ACTCACATCACATCTTTTGTCCATGCCAACTT
116490856 ACTCACATCACATCTTTTGTCCATGCCAACTT
1 ACTCACATCACATCTTTTGTCCATGCCAACTT
116490888 A
1 A
116490889 GCTTGCCCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.26, C:0.34, G:0.06, T:0.34
Consensus pattern (32 bp):
ACTCACATCACATCTTTTGTCCATGCCAACTT
Found at i:116493501 original size:29 final size:29
Alignment explanation
Indices: 116493468--116493550 Score: 139
Period size: 29 Copynumber: 2.9 Consensus size: 29
116493458 GTGTCGAGAT
116493468 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
116493497 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
**
116493526 TGGCACTAAGTGTGCAAGCTGGAAA
1 TGGCACTAAGTGTGCGTGCTGGAAA
116493551 AAAATACGGC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:116501154 original size:40 final size:40
Alignment explanation
Indices: 116501046--116501295 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
116501036 CGGGATTTAA
* * * * *
116501046 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
116501086 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
116501126 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
116501166 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
116501206 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
116501246 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
116501286 CCGGATATAT
1 CCGGATATAT
116501296 TTCCAATGTT
Statistics
Matches: 193, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 192 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:116509329 original size:40 final size:40
Alignment explanation
Indices: 116509221--116509467 Score: 358
Period size: 40 Copynumber: 6.2 Consensus size: 40
116509211 CGGGATTTAA
* * * * *
116509221 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
116509261 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
116509301 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
116509341 CCGGATATATCAACTCGCACGAATGCCTTC-GGTCTTAG-
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
116509379 CC-GATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
116509418 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
116509458 CCGGATATAT
1 CCGGATATAT
116509468 TTCCAATGTT
Statistics
Matches: 187, Mismatches: 15, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
37 27 0.14
38 10 0.05
39 11 0.06
40 139 0.74
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:116509407 original size:77 final size:80
Alignment explanation
Indices: 116509221--116509467 Score: 358
Period size: 77 Copynumber: 3.1 Consensus size: 80
116509211 CGGGATTTAA
* * * * * * * * * * *
116509221 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAACCCGGATTTGGT-GACTTGCACAAAG
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATAT-ATCAACTCGCACGAAT
116509285 GCCTTCGGGTCTTAGC
65 GCCTTCGGGTCTTAGC
116509301 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATG
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATG
116509366 CCTTC-GGTCTTAG-
66 CCTTCGGGTCTTAGC
116509379 CC-GATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATG
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATG
116509443 CCTTCGGGTCTTAGC
66 CCTTCGGGTCTTAGC
116509458 CCGGATATAT
1 CCGGATATAT
116509468 TTCCAATGTT
Statistics
Matches: 152, Mismatches: 11, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
77 67 0.44
78 10 0.07
79 11 0.07
80 64 0.42
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.26
Consensus pattern (80 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATG
CCTTCGGGTCTTAGC
Found at i:116514460 original size:40 final size:40
Alignment explanation
Indices: 116514367--116514517 Score: 132
Period size: 40 Copynumber: 3.8 Consensus size: 40
116514357 AATTGAATGA
* * * *
116514367 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
116514407 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
* *
116514448 -ATCTGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
116514487 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
116514518 ACGTGGTTAT
Statistics
Matches: 90, Mismatches: 14, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
38 3 0.03
39 5 0.06
40 78 0.87
41 3 0.03
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:116514531 original size:40 final size:40
Alignment explanation
Indices: 116514404--116514533 Score: 145
Period size: 40 Copynumber: 3.2 Consensus size: 40
116514394 ATGCTGGAAA
* * *
116514404 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * * ***
116514444 CTACATCTGGGCTAAGACCCGAAGGCATTCGTGCGAGACA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
116514484 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
116514524 TTATATCCGG
1 TTATATCCGG
116514534 TTATATTCCG
Statistics
Matches: 70, Mismatches: 19, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
39 1 0.01
40 69 0.99
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:116527630 original size:40 final size:40
Alignment explanation
Indices: 116527500--116527707 Score: 186
Period size: 40 Copynumber: 5.2 Consensus size: 40
116527490 CAATTGAATG
* * ** * **
116527500 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
* * * * **
116527540 ATACCCGGGTTAAGACTCGAAGGCCATT-GTGCTAGT-GACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTCGTGCAAGTCG-TT
* * *
116527580 ACATCTGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
* * *
116527620 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
* * *
116527660 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
116527700 ATATCCGG
1 ATATCCGG
116527708 TTGTATTCCG
Statistics
Matches: 135, Mismatches: 29, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
39 4 0.03
40 126 0.93
41 5 0.04
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
Found at i:116534330 original size:27 final size:27
Alignment explanation
Indices: 116534292--116534491 Score: 283
Period size: 27 Copynumber: 7.4 Consensus size: 27
116534282 TGGAGAAGTT
* *
116534292 GTAGAATTACCGAAATACCCTTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
116534319 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
***
116534346 GTAGAATTATTAAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
116534373 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
116534400 ATAGGATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
116534427 GTAGAAATACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
116534454 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
116534481 GTAAAATTACC
1 GTAGAATTACC
116534492 ATTTTGCCCT
Statistics
Matches: 153, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 153 1.00
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.24
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:116535185 original size:27 final size:26
Alignment explanation
Indices: 116535141--116535191 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
116535131 CTCGCTGTAA
*
116535141 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
116535168 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
116535192 AGCAGCCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:116535231 original size:2 final size:2
Alignment explanation
Indices: 116535226--116535259 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
116535216 TTCGCCACAC
116535226 AT AT AT 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
116535260 CTGTTCTGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:116535308 original size:27 final size:26
Alignment explanation
Indices: 116535256--116535315 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
116535246 ATATATATAT
*
116535256 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
116535282 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
116535309 ATATCTG
1 ATATCTG
116535316 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:116541945 original size:27 final size:27
Alignment explanation
Indices: 116541911--116542109 Score: 256
Period size: 27 Copynumber: 7.4 Consensus size: 27
116541901 TGGATAAGTT
* *
116541911 GTAGAATTACCGAAATACGCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
116541938 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
**
116541965 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
116541992 GTAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * **
116542019 ATAGGATTACCGAAATACCTTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
116542046 GTAGAAATACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * * *
116542073 GTAGAATTACCTAGATA-CCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
116542099 GTAAAATTACC
1 GTAGAATTACC
116542110 ATTTTCCCTT
Statistics
Matches: 151, Mismatches: 21, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
26 17 0.11
27 134 0.89
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:116542804 original size:27 final size:26
Alignment explanation
Indices: 116542760--116542810 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
116542750 CTCGCTGTAA
*
116542760 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
116542787 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
116542811 AGCAGCCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:116542917 original size:27 final size:26
Alignment explanation
Indices: 116542865--116542924 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
116542855 ATATATATAT
*
116542865 ATATCTGTTCTGGTGGCCTAGGCACA
1 ATATCTGTTCTGGTGACCTAGGCACA
* * *
116542891 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGGCACA
116542918 ATATCTG
1 ATATCTG
116542925 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGGCACA
Found at i:116556037 original size:45 final size:45
Alignment explanation
Indices: 116555942--116556074 Score: 205
Period size: 45 Copynumber: 3.0 Consensus size: 45
116555932 CAATATCATT
* * *
116555942 TCACCGGTATTATAGCCTACTAGGCTCGAA-GCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* *
116555986 TTACCGGCATTATAGCCTGCTAGGCTCAAAGGACCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
*
116556031 TCACCGGCATTATAGCTTGCTAGGCTCAAAGGCCCGAATAGTAT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTAT
116556075 TGTGCGATAT
Statistics
Matches: 80, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
44 26 0.32
45 54 0.68
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.25
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
Found at i:116562577 original size:29 final size:29
Alignment explanation
Indices: 116562544--116562616 Score: 146
Period size: 29 Copynumber: 2.5 Consensus size: 29
116562534 GTGACGAGAT
116562544 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
116562573 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
116562602 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
116562617 GAGCTCGAAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:116562632 original size:29 final size:30
Alignment explanation
Indices: 116562544--116562676 Score: 141
Period size: 29 Copynumber: 4.6 Consensus size: 30
116562534 GTGACGAGAT
116562544 TGGCACTAAGTGTGC-ATGCTGGAAATATA
1 TGGCACTAAGTGTGCGATGCTGGAAATATA
116562573 TGGCACTAAGTGTGC-ATGCTGGAAATATA
1 TGGCACTAAGTGTGCGATGCTGGAAATATA
* ***
116562602 TGGCACTAAGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGCGATGCTGGAAATATA
* * * **
116562631 TGGCACTATGTGTGCG-GGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGATGCTGGAAAT-ATA
116562660 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
116562677 AATCGAGTAT
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
28 2 0.02
29 87 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.26
Consensus pattern (30 bp):
TGGCACTAAGTGTGCGATGCTGGAAATATA
Found at i:116576123 original size:26 final size:26
Alignment explanation
Indices: 116576094--116576146 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
116576084 TTTACAGTTT
116576094 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* * *
116576120 TACCCTTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
116576146 T
1 T
116576147 GCATGTTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:116578035 original size:29 final size:29
Alignment explanation
Indices: 116578002--116578132 Score: 122
Period size: 29 Copynumber: 4.5 Consensus size: 29
116577992 GTGACGAGAT
116578002 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
116578031 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
116578060 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
116578089 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
116578118 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
116578133 GAAATCGAGT
Statistics
Matches: 82, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
28 2 0.02
29 79 0.96
30 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:116588800 original size:40 final size:40
Alignment explanation
Indices: 116588734--116588884 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
116588724 AAATTGAATG
* * *
116588734 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
116588773 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
116588813 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
116588853 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
116588885 ACATGCTTAT
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
39 16 0.17
40 75 0.81
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:116588898 original size:40 final size:39
Alignment explanation
Indices: 116588771--116588900 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 39
116588761 ATGCTGGAAA
* * *
116588771 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AAT-GC
* *
116588812 -TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATG-C
*
116588850 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGC
1 -TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA-ATGC
116588891 TTATATCCGG
1 TTATATCCGG
116588901 TTATATTCCG
Statistics
Matches: 75, Mismatches: 9, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
40 70 0.93
41 2 0.03
42 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATGC
Found at i:116596819 original size:40 final size:40
Alignment explanation
Indices: 116596760--116596901 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
116596750 AAATTGAATG
* * *
116596760 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
116596800 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
116596840 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
116596880 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
116596902 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:116596925 original size:40 final size:39
Alignment explanation
Indices: 116596798--116596927 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 39
116596788 ATGCTGGAAA
* * *
116596798 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AAT-GC
* *
116596839 -TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATG-C
*
116596877 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGC
1 -TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA-ATGC
116596918 TTATATCCGG
1 TTATATCCGG
116596928 TTATATTCCG
Statistics
Matches: 75, Mismatches: 9, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
40 70 0.93
41 2 0.03
42 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATGC
Found at i:116614954 original size:29 final size:28
Alignment explanation
Indices: 116614922--116614994 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
116614912 AATTGAATAA
*
116614922 ATAGTT-GATAAAATAAGTTAATTTTGAAT
1 ATAGTTAGAT-AAAGAA-TTAATTTTGAAT
*
116614951 ATAGTTAGATCAAGAATTAATTTTGAAT
1 ATAGTTAGATAAAGAATTAATTTTGAAT
* *
116614979 ATATTTAGATCAAGAA
1 ATAGTTAGATAAAGAA
116614995 AGGAGAAATA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
28 27 0.68
29 10 0.25
30 3 0.08
ACGTcount: A:0.45, C:0.03, G:0.14, T:0.38
Consensus pattern (28 bp):
ATAGTTAGATAAAGAATTAATTTTGAAT
Found at i:116614973 original size:28 final size:28
Alignment explanation
Indices: 116614939--116614994 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
116614929 ATAAAATAAG
116614939 TTAATTTTGAATATAGTTAGATCAAGAA
1 TTAATTTTGAATATAGTTAGATCAAGAA
*
116614967 TTAATTTTGAATATATTTAGATCAAGAA
1 TTAATTTTGAATATAGTTAGATCAAGAA
116614995 AGGAGAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.43, C:0.04, G:0.12, T:0.41
Consensus pattern (28 bp):
TTAATTTTGAATATAGTTAGATCAAGAA
Found at i:116615216 original size:40 final size:40
Alignment explanation
Indices: 116615172--116615319 Score: 199
Period size: 40 Copynumber: 3.6 Consensus size: 40
116615162 ACGACAATTC
116615172 GGCTATGTATGGCACTTAGTGTGCGAATTGAGATAGCTTT
1 GGCTATGTATGGCACTTAGTGTGCGAATTGAGATAGCTTT
*
116615212 GGCTATATATGGCACTTAGTGTGCG-ATTCGAGATAGCTTT
1 GGCTATGTATGGCACTTAGTGTGCGAATT-GAGATAGCTTT
* * * * *
116615252 GGCTATTTATGGCACTTAGTGTACGAGATTAAAATAGCTTC
1 GGCTATGTATGGCACTTAGTGTGCGA-ATTGAGATAGCTTT
*
116615293 GGCTATGTATTGGCAGTTAGTGTGCGA
1 GGCTATGTA-TGGCACTTAGTGTGCGA
116615320 GAATTCGAGT
Statistics
Matches: 95, Mismatches: 9, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
39 3 0.03
40 58 0.61
41 16 0.17
42 18 0.19
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (40 bp):
GGCTATGTATGGCACTTAGTGTGCGAATTGAGATAGCTTT
Found at i:116618318 original size:27 final size:27
Alignment explanation
Indices: 116618288--116618379 Score: 112
Period size: 27 Copynumber: 3.4 Consensus size: 27
116618278 ATTGCCAAAG
* *
116618288 TACCCTCGATTTATAGACTCACTGTTT
1 TACCCTCGATTTACAGAATCACTGTTT
* *
116618315 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATCACTGTTT
* * *
116618342 TACCCTCGATTTACAAAATTACAGTTT
1 TACCCTCGATTTACAGAATCACTGTTT
*
116618369 TACCGTCGATT
1 TACCCTCGATT
116618380 GTGAAATTAC
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.26, C:0.23, G:0.11, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATCACTGTTT
Found at i:116618512 original size:26 final size:26
Alignment explanation
Indices: 116618411--116618534 Score: 126
Period size: 27 Copynumber: 4.7 Consensus size: 26
116618401 TATAGGGTAG
*
116618411 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATA-CCCTAATTTGTAA
** *
116618438 AATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACC-CTAATTTGTAA
*
116618465 AATTATCGAAAA-ACCCTCAATTTGTAA
1 AATTA-CCAAAATACCCT-AATTTGTAA
**
116618492 AATTACCAAAATACCCTAATTTACAA
1 AATTACCAAAATACCCTAATTTGTAA
116618518 AATTA-CAGAAATACCCT
1 AATTACCA-AAATACCCT
116618535 TGACTTTCTA
Statistics
Matches: 83, Mismatches: 9, Indels: 11
0.81 0.09 0.11
Matches are distributed among these distances:
25 2 0.02
26 30 0.36
27 46 0.55
28 5 0.06
ACGTcount: A:0.44, C:0.21, G:0.07, T:0.28
Consensus pattern (26 bp):
AATTACCAAAATACCCTAATTTGTAA
Found at i:116618584 original size:27 final size:27
Alignment explanation
Indices: 116618511--116618596 Score: 95
Period size: 27 Copynumber: 3.1 Consensus size: 27
116618501 AATACCCTAA
* *
116618511 TTTACAAAATTACAGAAATACCCTTGAC
1 TTTACAAAATTACTGAAATACCCTTG-G
*
116618539 TTT-CTAAAAATTA-TAGAAATACCATTGG
1 TTTAC--AAAATTACT-GAAATACCCTTGG
116618567 TTTACAAAATTACTGAAATACCCTTGG
1 TTTACAAAATTACTGAAATACCCTTGG
116618594 TTT
1 TTT
116618597 GTAGATTTAC
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
27 23 0.47
28 7 0.14
29 19 0.39
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.35
Consensus pattern (27 bp):
TTTACAAAATTACTGAAATACCCTTGG
Found at i:116618714 original size:27 final size:27
Alignment explanation
Indices: 116618637--116618714 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
116618627 AAATGACTAA
* *
116618637 AATACCCCT-AATAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* *
116618664 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
116618691 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
116618715 GAATATGCCC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 39 0.93
28 2 0.05
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.21
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:116619598 original size:24 final size:25
Alignment explanation
Indices: 116619523--116619591 Score: 104
Period size: 24 Copynumber: 2.8 Consensus size: 25
116619513 AGGAAGTGCT
* * *
116619523 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
116619548 AAAAGGG-TTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
116619572 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
116619592 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
24 21 0.52
25 19 0.47
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.25
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:116619604 original size:24 final size:24
Alignment explanation
Indices: 116619522--116619616 Score: 86
Period size: 24 Copynumber: 3.9 Consensus size: 24
116619512 GAGGAAGTGC
*
116619522 TAAAAGGGCTATGCCCCAGTTTACC
1 TAAAAGGGCTATGCCCCAGTTTA-T
* *
116619547 GAAAAGGG-TTTGCCCCAGTTTAT
1 TAAAAGGGCTATGCCCCAGTTTAT
* *
116619570 CAAAAAGGGCTTTGCCCCAG-TTAT
1 -TAAAAGGGCTATGCCCCAGTTTAT
*
116619594 TAAAAGAGGCTAGGCCTCCAGTT
1 TAAAAG-GGCTATGCC-CCAGTT
116619617 ATATGATAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 9
0.78 0.09 0.12
Matches are distributed among these distances:
23 5 0.09
24 31 0.53
25 21 0.36
26 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.25
Consensus pattern (24 bp):
TAAAAGGGCTATGCCCCAGTTTAT
Found at i:116619843 original size:30 final size:30
Alignment explanation
Indices: 116619809--116619891 Score: 123
Period size: 31 Copynumber: 2.7 Consensus size: 30
116619799 CGCTTACAGT
*
116619809 AAAGGCTTCGGGCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCAGTGATATGATTTATGA
*
116619839 AAAGGCTTCAGCCCAGTGATATGATTTATGA
1 AAAGGCTTC-GGCCAGTGATATGATTTATGA
116619870 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGG-CCAGTGATATG
116619892 TCGAGACTGA
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
30 15 0.31
31 33 0.69
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.28
Consensus pattern (30 bp):
AAAGGCTTCGGCCAGTGATATGATTTATGA
Found at i:116619859 original size:31 final size:31
Alignment explanation
Indices: 116619821--116619891 Score: 126
Period size: 31 Copynumber: 2.3 Consensus size: 31
116619811 AGGCTTCGGG
116619821 CAGTGATATGATTTATGAAAAGGCTTCAGCC
1 CAGTGATATGATTTATGAAAAGGCTTCAGCC
*
116619852 CAGTGATATGATTTATGAAAAGGCTTCGGCC
1 CAGTGATATGATTTATGAAAAGGCTTCAGCC
116619883 CAGT-ATATG
1 CAGTGATATG
116619892 TCGAGACTGA
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
30 5 0.13
31 34 0.87
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (31 bp):
CAGTGATATGATTTATGAAAAGGCTTCAGCC
Found at i:116619939 original size:29 final size:28
Alignment explanation
Indices: 116619905--116619959 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
116619895 AGACTGAATT
* *
116619905 AGGGCTTAGGCCCATACTGCTACTGTTTA
1 AGGGCTAAGGCCCAGACTG-TACTGTTTA
116619934 AGGGCTAAGGCCCAGACTGTACTGTT
1 AGGGCTAAGGCCCAGACTGTACTGTT
116619960 ACTGAATAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (28 bp):
AGGGCTAAGGCCCAGACTGTACTGTTTA
Found at i:116619979 original size:33 final size:33
Alignment explanation
Indices: 116619897--116619990 Score: 99
Period size: 33 Copynumber: 2.9 Consensus size: 33
116619887 ATATGTCGAG
*
116619897 ACTGAATTAGGGCTTAGGCCCATACTGCTACTGTT
1 ACTGAA-TAGGGCTTAGGCCCAGACTG-TACTGTT
*
116619932 --T--A-AGGGCTAAGGCCCAGACTGTACTGTT
1 ACTGAATAGGGCTTAGGCCCAGACTGTACTGTT
* *
116619960 ACTGAATAGGGCTTTGGCCCAGATTGTACTG
1 ACTGAATAGGGCTTAGGCCCAGACTGTACTG
116619991 ACACTGTGTT
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
28 7 0.14
29 17 0.35
30 1 0.02
31 1 0.02
32 1 0.02
33 22 0.45
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (33 bp):
ACTGAATAGGGCTTAGGCCCAGACTGTACTGTT
Found at i:116622264 original size:27 final size:27
Alignment explanation
Indices: 116622234--116622324 Score: 112
Period size: 27 Copynumber: 3.4 Consensus size: 27
116622224 ATTACCAAAG
* *
116622234 TACCCTCGATTTATAGACTCACTGTTT
1 TACCCTCGATTTACAGAATCACTGTTT
* *
116622261 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATCACTGTTT
* * *
116622288 TACCCTCGATTTACAAAATTACAGTTT
1 TACCCTCGATTTACAGAATCACTGTTT
116622315 TA-CCTCGATT
1 TACCCTCGATT
116622325 GGAAATTACT
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
26 8 0.14
27 49 0.86
ACGTcount: A:0.26, C:0.23, G:0.10, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATCACTGTTT
Found at i:116622385 original size:27 final size:27
Alignment explanation
Indices: 116622355--116622424 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
116622345 TATAGGGTAG
* **
116622355 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAATTTACAA
116622382 AATTACCAAAATACCCCTAATTTACAA
1 AATTACCAAAATACCCCTAATTTACAA
116622409 AATTA-CAGAAATACCC
1 AATTACCA-AAATACCC
116622425 TTGACTTTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
26 2 0.05
27 37 0.95
ACGTcount: A:0.46, C:0.24, G:0.04, T:0.26
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAATTTACAA
Found at i:116622437 original size:27 final size:28
Alignment explanation
Indices: 116622380--116622482 Score: 88
Period size: 27 Copynumber: 3.8 Consensus size: 28
116622370 CCTAGTTTGT
* **
116622380 AAAATTACCA-AAATACCCCTAATTTAC-
1 AAAATTA-CAGAAATACCCTTGCTTTACA
*
116622407 AAAATTACAGAAATACCCTTGACTTT-TA
1 AAAATTACAGAAATACCCTTG-CTTTACA
* * *
116622435 AAAATTATAGAAATACCATTGGTTTAC-
1 AAAATTACAGAAATACCCTTGCTTTACA
*
116622462 AAAATTACTGAAATACCCTTG
1 AAAATTACAGAAATACCCTTG
116622483 GTTTGTAGAT
Statistics
Matches: 61, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
26 2 0.03
27 37 0.61
28 22 0.36
ACGTcount: A:0.45, C:0.18, G:0.07, T:0.30
Consensus pattern (28 bp):
AAAATTACAGAAATACCCTTGCTTTACA
Found at i:116622483 original size:27 final size:27
Alignment explanation
Indices: 116622402--116622486 Score: 102
Period size: 27 Copynumber: 3.1 Consensus size: 27
116622392 ATACCCCTAA
* *
116622402 TTTACAAAATTACAGAAATACCCTTGACT
1 TTTACAAAATTACTGAAATACCCTTG--G
*
116622431 TTTA-AAAATTA-TAGAAATACCATTGG
1 TTTACAAAATTACT-GAAATACCCTTGG
116622457 TTTACAAAATTACTGAAATACCCTTGG
1 TTTACAAAATTACTGAAATACCCTTGG
116622484 TTT
1 TTT
116622487 GTAGATTTAC
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
26 4 0.08
27 22 0.45
28 19 0.39
29 4 0.08
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.35
Consensus pattern (27 bp):
TTTACAAAATTACTGAAATACCCTTGG
Found at i:116622604 original size:27 final size:27
Alignment explanation
Indices: 116622527--116622604 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
116622517 AAATGACTAA
* *
116622527 AATACCCCT-AATAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* *
116622554 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
116622581 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
116622605 GAATATGCCC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 39 0.93
28 2 0.05
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.21
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:116623444 original size:25 final size:25
Alignment explanation
Indices: 116623406--116623475 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
116623396 AGGAAGTGCT
* *
116623406 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
116623431 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
116623456 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
116623476 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:116623488 original size:24 final size:24
Alignment explanation
Indices: 116623405--116623500 Score: 95
Period size: 25 Copynumber: 3.9 Consensus size: 24
116623395 GAGGAAGTGC
*
116623405 TAAAAGGGCTATGCCCCAGTTTACC
1 TAAAAGGGCTATGCCCCAGTTTA-T
* *
116623430 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTATGCCCCAGTTTAT
* *
116623454 CAAAAAGGGCTTTGCCCCAG-TTAT
1 -TAAAAGGGCTATGCCCCAGTTTAT
*
116623478 TAAAAGAGGCTAGGCCTCCAGTT
1 TAAAAG-GGCTATGCC-CCAGTT
116623501 ATATGATAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
23 5 0.08
24 11 0.18
25 43 0.72
26 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (24 bp):
TAAAAGGGCTATGCCCCAGTTTAT
Found at i:116623499 original size:50 final size:50
Alignment explanation
Indices: 116623406--116623500 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
116623396 AGGAAGTGCT
**
116623406 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
* **
116623456 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAG-GGCTAGGCC-CCAGTT
116623501 ATATGATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
48 5 0.13
49 10 0.26
50 23 0.61
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.24
Consensus pattern (50 bp):
AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
Found at i:116623728 original size:30 final size:30
Alignment explanation
Indices: 116623694--116623775 Score: 139
Period size: 30 Copynumber: 2.7 Consensus size: 30
116623684 CGCTTACAGT
116623694 AAAGGCTTCGGCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCAGTGATATGATTTATGA
*
116623724 AAAGGCTTCGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCAGTGATATGATTTATGA
116623754 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGG-CCAGTGATATG
116623776 TCGAGACTGA
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
30 44 0.90
31 5 0.10
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (30 bp):
AAAGGCTTCGGCCAGTGATATGATTTATGA
Found at i:116626133 original size:27 final size:27
Alignment explanation
Indices: 116626103--116626192 Score: 130
Period size: 27 Copynumber: 3.4 Consensus size: 27
116626093 ATTACCAAAG
* *
116626103 TACCCTCGATTTATAGACTTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
116626130 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
116626157 TACCCTCGATTTACAAAATTAC-GTTT
1 TACCCTCGATTTACAGAATTACTGTTT
116626183 TA-CCTCGATT
1 TACCCTCGATT
116626193 GTGAAATTAC
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
25 8 0.14
26 6 0.10
27 44 0.76
ACGTcount: A:0.26, C:0.22, G:0.10, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:116626253 original size:27 final size:27
Alignment explanation
Indices: 116626223--116626345 Score: 144
Period size: 27 Copynumber: 4.6 Consensus size: 27
116626213 TATAGGGTAG
116626223 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * *
116626250 AATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
116626277 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
**
116626304 AATTACCAAAATACCCCTA-TTTACAA
1 AATTACCAAAATACCCCTAGTTTGTAA
116626330 AATTA-CAGAAATACCC
1 AATTACCA-AAATACCC
116626346 TTGACTTTCT
Statistics
Matches: 82, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
25 2 0.02
26 21 0.26
27 55 0.67
28 4 0.05
ACGTcount: A:0.42, C:0.23, G:0.07, T:0.28
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:116626292 original size:80 final size:80
Alignment explanation
Indices: 116626191--116626344 Score: 206
Period size: 80 Copynumber: 1.9 Consensus size: 80
116626181 TTTACCTCGA
* * **
116626191 TTGTGAAATTACTGAAATACCCT--ATAGGGTAGAATTACCAAAATACCCCTAGTTTGTAAAATT
1 TTGTGAAATTACCGAAATACCCTCAAT-GGGTAAAATTACCAAAATACCCCTA-TTTACAAAATT
116626254 ACCA-AAATACCACTGGT
64 A-CAGAAATACCACTGGT
**
116626271 TTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTATTTACAAAATTAC
1 TTGTGAAATTACCGAAATACCCTCAATGGGTAAAATTACCAAAATACCCCTATTTACAAAATTAC
116626336 AGAAATACC
66 AGAAATACC
116626345 CTTGACTTTC
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 2 0.03
80 39 0.60
81 22 0.34
82 2 0.03
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (80 bp):
TTGTGAAATTACCGAAATACCCTCAATGGGTAAAATTACCAAAATACCCCTATTTACAAAATTAC
AGAAATACCACTGGT
Found at i:116626396 original size:27 final size:27
Alignment explanation
Indices: 116626323--116626408 Score: 95
Period size: 27 Copynumber: 3.1 Consensus size: 27
116626313 AATACCCCTA
* *
116626323 TTTACAAAATTACAGAAATACCCTTGAC
1 TTTACAAAATTACTGAAATACCCTTG-G
*
116626351 TTT-CTAAAAATTA-TAGAAATACCATTGG
1 TTTAC--AAAATTACT-GAAATACCCTTGG
116626379 TTTACAAAATTACTGAAATACCCTTGG
1 TTTACAAAATTACTGAAATACCCTTGG
116626406 TTT
1 TTT
116626409 GTAGATTTAC
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
27 23 0.47
28 7 0.14
29 19 0.39
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.35
Consensus pattern (27 bp):
TTTACAAAATTACTGAAATACCCTTGG
Found at i:116626526 original size:27 final size:27
Alignment explanation
Indices: 116626449--116626526 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
116626439 AAATGACTAA
* *
116626449 AATACCCCT-AATAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* *
116626476 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
116626503 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
116626527 GAATATGCCC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 39 0.93
28 2 0.05
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.21
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:116627368 original size:25 final size:25
Alignment explanation
Indices: 116627330--116627399 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
116627320 AGGAAGTGCT
* *
116627330 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
116627355 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
116627380 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
116627400 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:116627412 original size:24 final size:24
Alignment explanation
Indices: 116627329--116627424 Score: 95
Period size: 25 Copynumber: 3.9 Consensus size: 24
116627319 GAGGAAGTGC
*
116627329 TAAAAGGGCTATGCCCCAGTTTACC
1 TAAAAGGGCTATGCCCCAGTTTA-T
* *
116627354 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTATGCCCCAGTTTAT
* *
116627378 CAAAAAGGGCTTTGCCCCAG-TTAT
1 -TAAAAGGGCTATGCCCCAGTTTAT
*
116627402 TAAAAGAGGCTAGGCCTCCAGTT
1 TAAAAG-GGCTATGCC-CCAGTT
116627425 ATATGATAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
23 5 0.08
24 11 0.18
25 43 0.72
26 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (24 bp):
TAAAAGGGCTATGCCCCAGTTTAT
Found at i:116627423 original size:50 final size:50
Alignment explanation
Indices: 116627330--116627424 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
116627320 AGGAAGTGCT
**
116627330 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
* **
116627380 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAG-GGCTAGGCC-CCAGTT
116627425 ATATGATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
48 5 0.13
49 10 0.26
50 23 0.61
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.24
Consensus pattern (50 bp):
AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
Found at i:116627666 original size:30 final size:30
Alignment explanation
Indices: 116627619--116627699 Score: 130
Period size: 30 Copynumber: 2.7 Consensus size: 30
116627609 CGCTTACAGT
*
116627619 AAAGGCTTCG-GCAGTGATATGATTTATGA
1 AAAGGCTTCGCCCAGTGATATGATTTATGA
116627648 AAAGGCTTCGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGCCCAGTGATATGATTTATGA
116627678 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTC-GCCCAGTGATATG
116627700 TCGAGACTGA
Statistics
Matches: 49, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
29 10 0.20
30 32 0.65
31 7 0.14
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (30 bp):
AAAGGCTTCGCCCAGTGATATGATTTATGA
Found at i:116627763 original size:28 final size:28
Alignment explanation
Indices: 116627713--116627766 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
116627703 AGACTGAATT
* *
116627713 AGGGCTTAGGCCCATATGCTACTGTTTA
1 AGGGCTAAGGCCCAGATGCTACTGTTTA
116627741 AGGGCTAAGGCCCAGACTG-TACTGTT
1 AGGGCTAAGGCCCAGA-TGCTACTGTT
116627767 ACTGAATAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 21 0.91
29 2 0.09
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (28 bp):
AGGGCTAAGGCCCAGATGCTACTGTTTA
Found at i:116630017 original size:27 final size:27
Alignment explanation
Indices: 116629987--116630074 Score: 104
Period size: 27 Copynumber: 3.3 Consensus size: 27
116629977 ATTGCCAAAG
*
116629987 TACCCTCGATTTATAGACTCACTGTTT
1 TACCCTCGATTTATAGAATCACTGTTT
* *
116630014 TACCCTTGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATCACTGTTT
* * * * *
116630041 TTCCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTATAGAATCACTGTTT
116630068 TACCCTC
1 TACCCTC
116630075 AATTGTGAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.24, C:0.25, G:0.09, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATCACTGTTT
Found at i:116630100 original size:27 final size:26
Alignment explanation
Indices: 116630070--116630212 Score: 110
Period size: 27 Copynumber: 5.3 Consensus size: 26
116630060 TACCGTTTTA
**
116630070 CCCTCAATTGTGAAATTACTGAAATAC
1 CCCT-AATTGTGAAATTACCAAAATAC
* *
116630097 CCCT-ATAGGGTAGAATTACCAAAATAC
1 CCCTAATTGTG-A-AATTACCAAAATAC
* *
116630124 CCTTAATTTGTAAAATTACCAAAATAC
1 CCCTAA-TTGTGAAATTACCAAAATAC
* * **
116630151 CACTAGTTTGTGAAATTACTGAAATA-
1 CCCTA-ATTGTGAAATTACCAAAATAC
*
116630177 CCCTCAATTTGTAAAATTACCAAAATAC
1 CCCT-AA-TTGTGAAATTACCAAAATAC
116630205 CCCTAATT
1 CCCTAATT
116630213 TACAAAATTA
Statistics
Matches: 89, Mismatches: 19, Indels: 17
0.71 0.15 0.14
Matches are distributed among these distances:
25 4 0.04
26 6 0.07
27 71 0.80
28 6 0.07
29 2 0.02
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (26 bp):
CCCTAATTGTGAAATTACCAAAATAC
Found at i:116630150 original size:54 final size:54
Alignment explanation
Indices: 116630068--116630209 Score: 164
Period size: 54 Copynumber: 2.6 Consensus size: 54
116630058 ATTACCGTTT
* **
116630068 TACCCTCAA-TTGTGAAATTACTGAAATACCCCTA-TAGGGT-AGAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGT-GGGTGA-AATTACCAAAA
* * ** **
116630121 TACCCTTAATTTGTAAAATTACCAAAATACCACTAGTTTGTGAAATTACTGAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTGGGTGAAATTACCAAAA
116630175 TACCCTCAATTTGTAAAATTACCAAAATACCCCTA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTA
116630210 ATTTACAAAA
Statistics
Matches: 75, Mismatches: 11, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
53 8 0.11
54 65 0.87
55 2 0.03
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (54 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTGGGTGAAATTACCAAAA
Found at i:116630178 original size:81 final size:81
Alignment explanation
Indices: 116630077--116630232 Score: 217
Period size: 81 Copynumber: 1.9 Consensus size: 81
116630067 TTACCCTCAA
* * * **
116630077 TTGTGAAATTACTGAAATACCC-CTATAGGGTAGAATTACCAAAATACCCTTAATTTGTAAAATT
1 TTGTGAAATTACTGAAATACCCTCAAT-GGGTAAAATTACCAAAATACCCCTAATTTACAAAATT
116630141 ACCA-AAATACCACTAGT
65 A-CAGAAATACCACTAGT
**
116630158 TTGTGAAATTACTGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTA
1 TTGTGAAATTACTGAAATACCCTCAATGGGTAAAATTACCAAAATACCCCTAATTTACAAAATTA
116630223 CAGAAATACC
66 CAGAAATACC
116630233 CTTGACTTTC
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
80 2 0.03
81 61 0.92
82 3 0.05
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.29
Consensus pattern (81 bp):
TTGTGAAATTACTGAAATACCCTCAATGGGTAAAATTACCAAAATACCCCTAATTTACAAAATTA
CAGAAATACCACTAGT
Found at i:116630213 original size:27 final size:27
Alignment explanation
Indices: 116630110--116630233 Score: 144
Period size: 27 Copynumber: 4.6 Consensus size: 27
116630100 TATAGGGTAG
*
116630110 AATTACCAAAATACCCTTAATTTGTAA
1 AATTACCAAAATACCCCTAATTTGTAA
* * *
116630137 AATTACCAAAATACCACTAGTTTGTGA
1 AATTACCAAAATACCCCTAATTTGTAA
**
116630164 AATTACTGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AATTTGTAA
**
116630191 AATTACCAAAATACCCCTAATTTACAA
1 AATTACCAAAATACCCCTAATTTGTAA
116630218 AATTA-CAGAAATACCC
1 AATTACCA-AAATACCC
116630234 TTGACTTTCT
Statistics
Matches: 81, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
26 5 0.06
27 72 0.89
28 4 0.05
ACGTcount: A:0.44, C:0.21, G:0.06, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAATTTGTAA
Found at i:116630221 original size:54 final size:54
Alignment explanation
Indices: 116630110--116630234 Score: 171
Period size: 54 Copynumber: 2.3 Consensus size: 54
116630100 TATAGGGTAG
* * ***
116630110 AATTACCA-AAATACCCTTAATTTGTAAAATTACCAAAATACCACTAGTTTGTGA
1 AATTA-CAGAAATACCCTCAATTTGTAAAATTACCAAAATACCACTAATTTACAA
* *
116630164 AATTACTGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAA
1 AATTACAGAAATACCCTCAATTTGTAAAATTACCAAAATACCACTAATTTACAA
116630218 AATTACAGAAATACCCT
1 AATTACAGAAATACCCT
116630235 TGACTTTCTA
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
53 1 0.02
54 61 0.98
ACGTcount: A:0.44, C:0.21, G:0.06, T:0.30
Consensus pattern (54 bp):
AATTACAGAAATACCCTCAATTTGTAAAATTACCAAAATACCACTAATTTACAA
Found at i:116630258 original size:29 final size:27
Alignment explanation
Indices: 116630211--116630296 Score: 93
Period size: 27 Copynumber: 3.1 Consensus size: 27
116630201 ATACCCCTAA
* * *
116630211 TTTACAAAATTACAGAAATACCCTTGAC
1 TTTACAAAATTATAAAAATACCCTTG-G
*
116630239 TTT-CTAAAAATTATAAAAATACCATTGG
1 TTTAC--AAAATTATAAAAATACCCTTGG
*
116630267 TTTACAAAATTATTAAAATACCCTTGG
1 TTTACAAAATTATAAAAATACCCTTGG
116630294 TTT
1 TTT
116630297 GTAGATTTCC
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
27 24 0.49
28 6 0.12
29 19 0.39
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.36
Consensus pattern (27 bp):
TTTACAAAATTATAAAAATACCCTTGG
Found at i:116630408 original size:27 final size:27
Alignment explanation
Indices: 116630336--116630413 Score: 72
Period size: 27 Copynumber: 2.9 Consensus size: 27
116630326 AAATGACTAA
* *
116630336 AATACCCCTA-ATAGGTAAAAAGATCGT
1 AATACCCCTATAT-GGTAAAATGACCGT
* *
116630363 AA-AGCCCCTGTA-GGATAAAGTGACCGT
1 AATA-CCCCTATATGG-TAAAATGACCGT
116630390 AATACCCCTATATGGTAAAATGAC
1 AATACCCCTATATGGTAAAATGAC
116630414 GAATATGCCT
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
26 3 0.08
27 33 0.82
28 4 0.10
ACGTcount: A:0.40, C:0.21, G:0.18, T:0.22
Consensus pattern (27 bp):
AATACCCCTATATGGTAAAATGACCGT
Found at i:116631291 original size:25 final size:25
Alignment explanation
Indices: 116631222--116631291 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 25
116631212 AGGAAGTGCT
* * *
116631222 AAAAGGGCTATGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCTTAGTTTACCA
* *
116631247 AAAAGGGCTTTGCCTCAGTTTATCA
1 AAAAGGGCTTTGCCTTAGTTTACCA
*
116631272 AAAAGGGCTTTGCTTTAGTT
1 AAAAGGGCTTTGCCTTAGTT
116631292 ATTAAAAGAG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (25 bp):
AAAAGGGCTTTGCCTTAGTTTACCA
Found at i:116631562 original size:31 final size:30
Alignment explanation
Indices: 116631511--116631593 Score: 132
Period size: 31 Copynumber: 2.7 Consensus size: 30
116631501 CGCTTACAGT
*
116631511 AAAGGCTTCAGCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCAGTGATATGATTTATGA
116631541 AAAGGCTTCGGCCTAGTGATATGATTTATGA
1 AAAGGCTTCGGCC-AGTGATATGATTTATGA
116631572 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGG-CCAGTGATATG
116631594 TCGAGACTGA
Statistics
Matches: 50, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
30 17 0.34
31 31 0.62
32 2 0.04
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (30 bp):
AAAGGCTTCGGCCAGTGATATGATTTATGA
Found at i:116641672 original size:28 final size:28
Alignment explanation
Indices: 116641603--116641703 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
116641593 GACAAGATTG
* * * *
116641603 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
116641633 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
116641661 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
116641690 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
116641704 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:116651912 original size:11 final size:11
Alignment explanation
Indices: 116651892--116651928 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
116651882 TTAAAACTAC
116651892 TTTTTATTTTA
1 TTTTTATTTTA
*
116651903 TTTTTCTTTTA
1 TTTTTATTTTA
*
116651914 TTTTAATTTTA
1 TTTTTATTTTA
116651925 TTTT
1 TTTT
116651929 ATCCTTAGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:116651914 original size:16 final size:16
Alignment explanation
Indices: 116651893--116651930 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
116651883 TAAAACTACT
* *
116651893 TTTTATTTTATTTTTC
1 TTTTATTTTAATTTTA
116651909 TTTTATTTTAATTTTA
1 TTTTATTTTAATTTTA
116651925 TTTTAT
1 TTTTAT
116651931 CCTTAGGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTATTTTAATTTTA
Found at i:116654550 original size:40 final size:40
Alignment explanation
Indices: 116654476--116654621 Score: 166
Period size: 40 Copynumber: 3.6 Consensus size: 40
116654466 CCGCACCAAG
* * * * * *
116654476 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
116654516 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
116654556 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
116654596 GCCTTCGGGTCTTAACCCGGTTATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
116654622 TTTCCAGCAT
Statistics
Matches: 89, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 89 1.00
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:116654636 original size:40 final size:40
Alignment explanation
Indices: 116654508--116654659 Score: 162
Period size: 40 Copynumber: 3.8 Consensus size: 40
116654498 ATCACGATTT
* * * **
116654508 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* *
116654548 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* * * *
116654588 GCACAATTGCCTTCGGGTCTTAACCCGGTTATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* * *
116654628 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
116654660 CATTCAATTT
Statistics
Matches: 95, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 2 0.02
40 91 0.96
41 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
Found at i:116661997 original size:40 final size:39
Alignment explanation
Indices: 116661952--116662158 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 39
116661942 CGGAATACAA
*
116661952 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
116661992 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
116662032 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
116662072 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
116662112 CCGG-TATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
116662151 CCGGATAT
1 CCGGATAT
116662159 CATTCAATTG
Statistics
Matches: 139, Mismatches: 24, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
39 31 0.22
40 108 0.78
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:116662092 original size:80 final size:80
Alignment explanation
Indices: 116661952--116662157 Score: 229
Period size: 80 Copynumber: 2.6 Consensus size: 80
116661942 CGGAATACAA
* * *
116661952 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
116662016 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
116662032 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
116662096 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
116662112 CCGG-TATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
116662158 TCATTCAATT
Statistics
Matches: 106, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
79 36 0.34
80 68 0.64
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:116670037 original size:40 final size:39
Alignment explanation
Indices: 116669992--116670199 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 39
116669982 CGGAATACAA
*
116669992 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
116670032 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
116670072 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
116670112 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
* ** * * *
116670152 CCGGGTATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
116670192 CCGGATAT
1 CCGGATAT
116670200 CATTCAATTG
Statistics
Matches: 139, Mismatches: 26, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 4 0.03
40 132 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:116670132 original size:80 final size:80
Alignment explanation
Indices: 116669992--116670198 Score: 229
Period size: 80 Copynumber: 2.6 Consensus size: 80
116669982 CGGAATACAA
* * *
116669992 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
116670056 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
116670072 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
116670136 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
* ** * ** * *
116670152 CCGGGTATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
116670199 TCATTCAATT
Statistics
Matches: 106, Mismatches: 19, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
79 3 0.03
80 101 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:116671944 original size:15 final size:15
Alignment explanation
Indices: 116671926--116671957 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
116671916 TTTAATTTAG
116671926 AAGATAAATATAAAT
1 AAGATAAATATAAAT
*
116671941 AAGATAAATATATAT
1 AAGATAAATATAAAT
116671956 AA
1 AA
116671958 ATTATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (15 bp):
AAGATAAATATAAAT
Found at i:116672815 original size:37 final size:37
Alignment explanation
Indices: 116672774--116672861 Score: 140
Period size: 37 Copynumber: 2.4 Consensus size: 37
116672764 TTCCCCTAAA
* *
116672774 TCTCCCCGTGCATTGCAACCCATCTCCTCCGTCGCCT
1 TCTCCCCGTGCATCGCAACCCATCTCCTCCATCGCCT
*
116672811 TCTCCCCGTGCATCGCAACCCATCTCCTCCATCTCCT
1 TCTCCCCGTGCATCGCAACCCATCTCCTCCATCGCCT
*
116672848 TCGCCCCGTGCATC
1 TCTCCCCGTGCATC
116672862 TGCTGCATAG
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.11, C:0.50, G:0.12, T:0.26
Consensus pattern (37 bp):
TCTCCCCGTGCATCGCAACCCATCTCCTCCATCGCCT
Found at i:116674454 original size:14 final size:15
Alignment explanation
Indices: 116674432--116674468 Score: 67
Period size: 14 Copynumber: 2.5 Consensus size: 15
116674422 TTAGTTTAAT
116674432 AATTATATGAAGTAA
1 AATTATATGAAGTAA
116674447 AA-TATATGAAGTAA
1 AATTATATGAAGTAA
116674461 AATTATAT
1 AATTATAT
116674469 TATATACTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 14 0.67
15 7 0.33
ACGTcount: A:0.54, C:0.00, G:0.11, T:0.35
Consensus pattern (15 bp):
AATTATATGAAGTAA
Found at i:116675944 original size:15 final size:17
Alignment explanation
Indices: 116675910--116675943 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
116675900 GATGTTTCTA
116675910 ATTCAAAAGTAATATAT
1 ATTCAAAAGTAATATAT
116675927 ATTCAAAAGTAATATAT
1 ATTCAAAAGTAATATAT
116675944 TTTTTTCAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.35
Consensus pattern (17 bp):
ATTCAAAAGTAATATAT
Found at i:116675982 original size:9 final size:9
Alignment explanation
Indices: 116675968--116676093 Score: 69
Period size: 9 Copynumber: 14.8 Consensus size: 9
116675958 CCAGCAACTC
116675968 ACATAATTT
1 ACATAATTT
116675977 ACATAA--T
1 ACATAATTT
*
116675984 ACATAACTT
1 ACATAATTT
116675993 ACATAATTT
1 ACATAATTT
*
116676002 --A-AAGTT
1 ACATAATTT
116676008 -CA-AATTT
1 ACATAATTT
*
116676015 -CATAACTT
1 ACATAATTT
116676023 ACATAA--T
1 ACATAATTT
*
116676030 ACATAACTT
1 ACATAATTT
116676039 ACATAATTT
1 ACATAATTT
116676048 AAAGACCA-AATTT
1 ----A-CATAATTT
*
116676061 -CATAAATT
1 ACATAATTT
116676069 ACATAATTT
1 ACATAATTT
*
116676078 ACATAACTT
1 ACATAATTT
116676087 ACATAAT
1 ACATAAT
116676094 AATTTAAAGT
Statistics
Matches: 94, Mismatches: 9, Indels: 28
0.72 0.07 0.21
Matches are distributed among these distances:
6 4 0.04
7 24 0.26
8 8 0.09
9 50 0.53
13 6 0.06
14 2 0.02
ACGTcount: A:0.48, C:0.15, G:0.02, T:0.36
Consensus pattern (9 bp):
ACATAATTT
Found at i:116675989 original size:16 final size:16
Alignment explanation
Indices: 116675968--116676233 Score: 121
Period size: 16 Copynumber: 16.9 Consensus size: 16
116675958 CCAGCAACTC
*
116675968 ACATAATTTACATAAT
1 ACATAACTTACATAAT
116675984 ACATAACTTACATAAT
1 ACATAACTTACATAAT
** *
116676000 TTA-AAGTT-CA-AATT
1 ACATAACTTACATAA-T
*
116676014 TCATAACTTACATAAT
1 ACATAACTTACATAAT
116676030 ACATAACTTACATAAT
1 ACATAACTTACATAAT
* **
116676046 --TTAA-AGACCA-AATT
1 ACATAACTTA-CATAA-T
* *
116676060 TCATAAATTACATAATTT
1 ACATAACTTACATAA--T
116676078 ACATAACTTACATAAT
1 ACATAACTTACATAAT
*
116676094 A-ATTTAAAGTT-CA-AATT
1 ACA--T-AACTTACATAA-T
*
116676111 TCATAACTTACATAAT
1 ACATAACTTACATAAT
** **
116676127 TTA-AAGAT-CA-AATT
1 ACATAACTTACATAA-T
*
116676141 TCATAACTTACATAAT
1 ACATAACTTACATAAT
116676157 ACATAACTTACATAAT
1 ACATAACTTACATAAT
** ** *
116676173 TTA-AAGAT-CAAAAT
1 ACATAACTTACATAAT
*
116676187 TCATAACTTACATAAT
1 ACATAACTTACATAAT
116676203 ACATAACTTACATAAT
1 ACATAACTTACATAAT
*
116676219 ACATGACTTACATAA
1 ACATAACTTACATAA
116676234 CTTAATTATA
Statistics
Matches: 190, Mismatches: 36, Indels: 48
0.69 0.13 0.18
Matches are distributed among these distances:
13 7 0.04
14 23 0.12
15 25 0.13
16 102 0.54
17 13 0.07
18 20 0.11
ACGTcount: A:0.48, C:0.15, G:0.02, T:0.35
Consensus pattern (16 bp):
ACATAACTTACATAAT
Found at i:116676021 original size:30 final size:30
Alignment explanation
Indices: 116675985--116676156 Score: 147
Period size: 30 Copynumber: 5.5 Consensus size: 30
116675975 TTACATAATA
116675985 CATAACTTACATAATTTAAAGTTCAAATTT
1 CATAACTTACATAATTTAAAGTTCAAATTT
** *
116676015 CATAACTTACATAATACATAACTTACATAATTT
1 CATAACTTACATAATTTA-AAGTT-CA-AATTT
* *
116676048 -A-AA--GACCA-AATTTCATAAATTACATAATTT
1 CATAACTTA-CATAATTT-A-AAGTT-CA-AATTT
116676078 ACATAACTTACATAATAATTTAAAGTTCAAATTT
1 -CATAACTTAC---ATAATTTAAAGTTCAAATTT
*
116676112 CATAACTTACATAATTTAAAGATCAAATTT
1 CATAACTTACATAATTTAAAGTTCAAATTT
116676142 CATAACTTACATAAT
1 CATAACTTACATAAT
116676157 ACATAACTTA
Statistics
Matches: 118, Mismatches: 10, Indels: 28
0.76 0.06 0.18
Matches are distributed among these distances:
29 4 0.03
30 67 0.57
31 6 0.05
32 4 0.03
33 17 0.14
34 6 0.05
35 3 0.03
36 4 0.03
37 2 0.02
38 5 0.04
ACGTcount: A:0.47, C:0.15, G:0.02, T:0.37
Consensus pattern (30 bp):
CATAACTTACATAATTTAAAGTTCAAATTT
Found at i:116676025 original size:46 final size:46
Alignment explanation
Indices: 116675969--116676126 Score: 235
Period size: 46 Copynumber: 3.3 Consensus size: 46
116675959 CAGCAACTCA
*
116675969 CATAATTTACATAATACATAACTTACATAATTTAAAGTTCAAATTT
1 CATAACTTACATAATACATAACTTACATAATTTAAAGTTCAAATTT
**
116676015 CATAACTTACATAATACATAACTTACATAATTTAAAGACCAAATTT
1 CATAACTTACATAATACATAACTTACATAATTTAAAGTTCAAATTT
*
116676061 CATAAATTACATAATTTACATAACTTACATAATAATTTAAAGTTCAAATTT
1 CATAACTTACATAA--TACATAACTTAC---ATAATTTAAAGTTCAAATTT
116676112 CATAACTTACATAAT
1 CATAACTTACATAAT
116676127 TTAAAGATCA
Statistics
Matches: 100, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
46 56 0.56
48 12 0.12
49 1 0.01
51 31 0.31
ACGTcount: A:0.47, C:0.15, G:0.02, T:0.37
Consensus pattern (46 bp):
CATAACTTACATAATACATAACTTACATAATTTAAAGTTCAAATTT
Found at i:116676163 original size:127 final size:125
Alignment explanation
Indices: 116675985--116676219 Score: 416
Period size: 127 Copynumber: 1.9 Consensus size: 125
116675975 TTACATAATA
*
116675985 CATAACTTACATAATTTAAAGTTCAAATTTCATAACTTACATAATACATAACTTACATAATTTAA
1 CATAACTTACATAATTTAAAGATCAAATTTCATAACTTACATAATACATAACTTACATAATTTAA
*
116676050 AGACCAAATTTCATAAATTACATAATTTACATAACTTACATAATAATTTAAAGTTCAAATTT
66 AGACCAAAATTCATAAATTACATAA--TACATAACTTACATAATAATTTAAAGTTCAAATTT
116676112 CATAACTTACATAATTTAAAGATCAAATTTCATAACTTACATAATACATAACTTACATAATTTAA
1 CATAACTTACATAATTTAAAGATCAAATTTCATAACTTACATAATACATAACTTACATAATTTAA
* *
116676177 AGATCAAAATTCATAACTTACATAATACATAACTTACATAATA
66 AGACCAAAATTCATAAATTACATAATACATAACTTACATAATA
116676220 CATGACTTAC
Statistics
Matches: 104, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
125 18 0.17
127 86 0.83
ACGTcount: A:0.48, C:0.15, G:0.02, T:0.35
Consensus pattern (125 bp):
CATAACTTACATAATTTAAAGATCAAATTTCATAACTTACATAATACATAACTTACATAATTTAA
AGACCAAAATTCATAAATTACATAATACATAACTTACATAATAATTTAAAGTTCAAATTT
Found at i:116676165 original size:46 final size:46
Alignment explanation
Indices: 116676112--116676218 Score: 205
Period size: 46 Copynumber: 2.3 Consensus size: 46
116676102 GTTCAAATTT
*
116676112 CATAACTTACATAATTTAAAGATCAAATTTCATAACTTACATAATA
1 CATAACTTACATAATTTAAAGATCAAAATTCATAACTTACATAATA
116676158 CATAACTTACATAATTTAAAGATCAAAATTCATAACTTACATAATA
1 CATAACTTACATAATTTAAAGATCAAAATTCATAACTTACATAATA
116676204 CATAACTTACATAAT
1 CATAACTTACATAAT
116676219 ACATGACTTA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 60 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.34
Consensus pattern (46 bp):
CATAACTTACATAATTTAAAGATCAAAATTCATAACTTACATAATA
Found at i:116681756 original size:21 final size:21
Alignment explanation
Indices: 116681731--116681773 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
116681721 AGGCAGCAAT
* *
116681731 AGGGAGGCAGCGGCAGTAGCG
1 AGGGAGGCAGAGGCAGCAGCG
116681752 AGGGAGGCAGAGGCAGCAGCG
1 AGGGAGGCAGAGGCAGCAGCG
116681773 A
1 A
116681774 TGGCAGCAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.28, C:0.19, G:0.51, T:0.02
Consensus pattern (21 bp):
AGGGAGGCAGAGGCAGCAGCG
Found at i:116682058 original size:31 final size:31
Alignment explanation
Indices: 116681996--116682081 Score: 109
Period size: 31 Copynumber: 2.7 Consensus size: 31
116681986 TTAGATTTAA
* * *
116681996 TGTTTTTGATTGTATTTATTATGCTACATTTGT
1 TGTTTTTGGTTGGATTTA--ATGCTACATTTGC
* *
116682029 TGTTTTTGGTTGGATTTCATGCTATATTTGC
1 TGTTTTTGGTTGGATTTAATGCTACATTTGC
116682060 TGTTTTTGGTTGGATTTAATGC
1 TGTTTTTGGTTGGATTTAATGC
116682082 AAGAAGGGTT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
31 32 0.68
33 15 0.32
ACGTcount: A:0.15, C:0.07, G:0.21, T:0.57
Consensus pattern (31 bp):
TGTTTTTGGTTGGATTTAATGCTACATTTGC
Found at i:116686526 original size:26 final size:26
Alignment explanation
Indices: 116686497--116686604 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
116686487 TGATACAAAT
116686497 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
116686523 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
116686549 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
116686575 TGATAATGGCTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
116686601 TGAT
1 TGAT
116686605 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:116693504 original size:26 final size:26
Alignment explanation
Indices: 116693475--116693582 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
116693465 TGATACAAAT
116693475 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
116693501 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
116693527 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
116693553 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
116693579 TGAT
1 TGAT
116693583 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Done.