Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 64 of 141
Found at i:20872264 original size:17 final size:16
Alignment explanation
Indices: 20872242--20872273 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
20872232 TTCAAGACAT
20872242 ATGTTGTTCAAGAATAG
1 ATGTTGTTC-AGAATAG
20872259 ATGTTGTTCAGAATA
1 ATGTTGTTCAGAATA
20872274 ACCTCTACCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.34, C:0.06, G:0.22, T:0.38
Consensus pattern (16 bp):
ATGTTGTTCAGAATAG
Found at i:20874680 original size:53 final size:52
Alignment explanation
Indices: 20874610--20874713 Score: 199
Period size: 53 Copynumber: 2.0 Consensus size: 52
20874600 TTGTGGGGCA
20874610 GGGGGGGGGGGGGGTTCATGGATATGCGTTTGGCACAAGAACATACAATTTG
1 GGGGGGGGGGGGGGTTCATGGATATGCGTTTGGCACAAGAACATACAATTTG
20874662 GGGGGGGGGGGGAGGTTCATGGATATGCGTTTGGCACAAGAACATACAATTT
1 GGGGGGGGGGGG-GGTTCATGGATATGCGTTTGGCACAAGAACATACAATTT
20874714 TTTCACAAGT
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 12 0.24
53 39 0.76
ACGTcount: A:0.24, C:0.12, G:0.41, T:0.23
Consensus pattern (52 bp):
GGGGGGGGGGGGGGTTCATGGATATGCGTTTGGCACAAGAACATACAATTTG
Found at i:20875977 original size:67 final size:65
Alignment explanation
Indices: 20875862--20875993 Score: 210
Period size: 67 Copynumber: 2.0 Consensus size: 65
20875852 TTAGAAACTC
* *
20875862 AATCAAGAAAAATACTAAACTGTAATTATGACAAAAAGTCATATAAATCTTACACTCACATTTTC
1 AATCAAGAAAAATACTAAACTGTAATTATGACAAAAAGCCATACAAATCTTACA--CACATTTTC
20875927 TT
64 TT
* *
20875929 AATCAAGAAAAATACTAAACTGTAATTTTGGCAAAAAGCCATACAAATCTTACACACATTTTCTT
1 AATCAAGAAAAATACTAAACTGTAATTATGACAAAAAGCCATACAAATCTTACACACATTTTCTT
20875994 TCTGCAAGCA
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
65 11 0.18
67 50 0.82
ACGTcount: A:0.45, C:0.17, G:0.07, T:0.30
Consensus pattern (65 bp):
AATCAAGAAAAATACTAAACTGTAATTATGACAAAAAGCCATACAAATCTTACACACATTTTCTT
Found at i:20880663 original size:20 final size:19
Alignment explanation
Indices: 20880640--20880678 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
20880630 GAAGAAATAA
*
20880640 AAATGAGAGATGAGATGATG
1 AAATGAGAGAAGAGA-GATG
20880660 AAATGAGAGAAGAGAGATG
1 AAATGAGAGAAGAGAGATG
20880679 CTTGAATGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.49, C:0.00, G:0.36, T:0.15
Consensus pattern (19 bp):
AAATGAGAGAAGAGAGATG
Found at i:20884973 original size:22 final size:22
Alignment explanation
Indices: 20884948--20884992 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
20884938 AGGTAAAAAC
*
20884948 CATGTAGAAAGAGACACACAGT
1 CATGTAGAAAGAGACAAACAGT
* * *
20884970 CATGTTGGAGGAGACAAACAGT
1 CATGTAGAAAGAGACAAACAGT
20884992 C
1 C
20884993 GTGTTCTAAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.18, G:0.27, T:0.16
Consensus pattern (22 bp):
CATGTAGAAAGAGACAAACAGT
Found at i:20889032 original size:18 final size:18
Alignment explanation
Indices: 20889009--20889065 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
20888999 ATAGTTCACT
20889009 AGAACTACGAGCTCACCA
1 AGAACTACGAGCTCACCA
**
20889027 AGAACTATAAGCTCACCA
1 AGAACTACGAGCTCACCA
* *
20889045 A-AATGTACGAGCTCACAA
1 AGAA-CTACGAGCTCACCA
20889063 AGA
1 AGA
20889066 TTGTGAGCTC
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
17 2 0.06
18 28 0.90
19 1 0.03
ACGTcount: A:0.44, C:0.26, G:0.16, T:0.14
Consensus pattern (18 bp):
AGAACTACGAGCTCACCA
Found at i:20893548 original size:29 final size:29
Alignment explanation
Indices: 20893508--20893573 Score: 125
Period size: 29 Copynumber: 2.3 Consensus size: 29
20893498 TAGCCATATG
20893508 CTCAC-AATATCATAAATAATGGTGTGTA
1 CTCACAAATATCATAAATAATGGTGTGTA
20893536 CTCACAAATATCATAAATAATGGTGTGTA
1 CTCACAAATATCATAAATAATGGTGTGTA
20893565 CTCACAAAT
1 CTCACAAAT
20893574 CCTATGGCAT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 5 0.14
29 32 0.86
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.30
Consensus pattern (29 bp):
CTCACAAATATCATAAATAATGGTGTGTA
Found at i:20895343 original size:12 final size:12
Alignment explanation
Indices: 20895326--20895358 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
20895316 GTCACTTTTG
20895326 AAGAAGCTGCTC
1 AAGAAGCTGCTC
20895338 AAGAAGCTGCTC
1 AAGAAGCTGCTC
20895350 AAGAAGCTG
1 AAGAAGCTG
20895359 AATGGCGAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.36, C:0.21, G:0.27, T:0.15
Consensus pattern (12 bp):
AAGAAGCTGCTC
Found at i:20896904 original size:17 final size:17
Alignment explanation
Indices: 20896882--20896975 Score: 59
Period size: 17 Copynumber: 5.5 Consensus size: 17
20896872 AACTGCGAGC
20896882 TGCGAGCTCACCAAATG
1 TGCGAGCTCACCAAATG
* * **
20896899 TGCGAGTTCACCTAACC
1 TGCGAGCTCACCAAATG
* * *
20896916 TGCAAGTTCACCAAATA
1 TGCGAGCTCACCAAATG
* *
20896933 TGCAAGCTCTACAAAATAG
1 TGCGAGCTC-ACCAAAT-G
20896952 T--GAGCTCACCAAGAT-
1 TGCGAGCTCACCAA-ATG
20896967 TGCGAGCTC
1 TGCGAGCTC
20896976 GCCTACTAAC
Statistics
Matches: 59, Mismatches: 13, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
15 1 0.02
16 4 0.07
17 47 0.80
18 6 0.10
19 1 0.02
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (17 bp):
TGCGAGCTCACCAAATG
Found at i:20897011 original size:18 final size:19
Alignment explanation
Indices: 20896988--20897049 Score: 69
Period size: 18 Copynumber: 3.5 Consensus size: 19
20896978 CTACTAACAG
20896988 CGAGCTCACTAAGAA-CTA
1 CGAGCTCACTAAGAATCTA
* *
20897006 CGAGCTCACCAA-AATGTA
1 CGAGCTCACTAAGAATCTA
20897024 CGAGCTCACTAAG-ATC-A
1 CGAGCTCACTAAGAATCTA
*
20897041 TGAGCTCAC
1 CGAGCTCAC
20897050 CAACACTACA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
17 11 0.30
18 26 0.70
ACGTcount: A:0.35, C:0.29, G:0.18, T:0.18
Consensus pattern (19 bp):
CGAGCTCACTAAGAATCTA
Found at i:20897080 original size:34 final size:35
Alignment explanation
Indices: 20897007--20897084 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 35
20896997 TAAGAACTAC
* * *
20897007 GAGCTCACCAAAATGTACGAGCTCACTAAGATCAT
1 GAGCTCACCAAAATCTACAAGCTCACCAAGATCAT
* *
20897042 GAGCTCACCAACA-CTACAAGCTCACCAAGCATGA-
1 GAGCTCACCAAAATCTACAAGCTCACCAAG-ATCAT
20897076 GAGCTCACC
1 GAGCTCACC
20897085 TGCAAGCTCT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
34 22 0.59
35 15 0.41
ACGTcount: A:0.36, C:0.32, G:0.17, T:0.15
Consensus pattern (35 bp):
GAGCTCACCAAAATCTACAAGCTCACCAAGATCAT
Found at i:20897243 original size:3 final size:3
Alignment explanation
Indices: 20897235--20897276 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
20897225 AGCCAAGTTG
20897235 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
20897277 CTTATTTAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:20906752 original size:13 final size:13
Alignment explanation
Indices: 20906717--20906754 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
20906707 AGTTCTTTAT
*
20906717 TGCTTTTGAAAAG
1 TGCTTTTGAGAAG
20906730 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
20906743 TGCTTTTGAGAA
1 TGCTTTTGAGAA
20906755 ATTTGAATGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.39
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:20907275 original size:8 final size:8
Alignment explanation
Indices: 20907262--20907288 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
20907252 TATATAAACT
20907262 ATATTTAA
1 ATATTTAA
20907270 ATATTTAA
1 ATATTTAA
20907278 ATATTTAA
1 ATATTTAA
20907286 ATA
1 ATA
20907289 CAAAAATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
ATATTTAA
Found at i:20907565 original size:30 final size:29
Alignment explanation
Indices: 20907531--20907678 Score: 125
Period size: 30 Copynumber: 5.0 Consensus size: 29
20907521 AAAAAATTGG
* * *
20907531 ATTTTGACCCCCAACTTTTTTTGAAATTAT
1 ATTTTGACCCCAAAC-TTTCTTAAAATTAT
* *
20907561 ATTTTAACCTCTAAACTTTCTTAAAATTAT
1 ATTTTGACC-CCAAACTTTCTTAAAATTAT
** *
20907591 ATTTCAACCCCTAAACTTTCTCAAAATTAT
1 ATTTTGACCCC-AAACTTTCTTAAAATTAT
* * * *
20907621 GTTTTGACCCCTAAAATTTCTTGAAATTAA
1 ATTTTGACCCC-AAACTTTCTTAAAATTAT
* * *
20907651 ATTTTGACCCTAAAATTTCTCAAAATTA
1 ATTTTGACCCCAAACTTTCTTAAAATTA
20907679 CACTTTGGCC
Statistics
Matches: 97, Mismatches: 19, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
29 16 0.16
30 77 0.79
31 4 0.04
ACGTcount: A:0.34, C:0.20, G:0.04, T:0.42
Consensus pattern (29 bp):
ATTTTGACCCCAAACTTTCTTAAAATTAT
Found at i:20907601 original size:60 final size:60
Alignment explanation
Indices: 20907554--20907678 Score: 162
Period size: 60 Copynumber: 2.1 Consensus size: 60
20907544 ACTTTTTTTG
* * *
20907554 AAATTATATTTTAACCTCTAAACTTTCTTAAAATTATATTTCAACCCCTAAACTTTCTCA
1 AAATTATATTTTAACCCCTAAAATTTCTTAAAATTAAATTTCAACCCCTAAACTTTCTCA
* * * ** *
20907614 AAATTATGTTTTGACCCCTAAAATTTCTTGAAATTAAATTTTGA-CCCTAAAATTTCTCA
1 AAATTATATTTTAACCCCTAAAATTTCTTAAAATTAAATTTCAACCCCTAAACTTTCTCA
20907673 AAATTA
1 AAATTA
20907679 CACTTTGGCC
Statistics
Matches: 56, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
59 20 0.36
60 36 0.64
ACGTcount: A:0.38, C:0.18, G:0.03, T:0.41
Consensus pattern (60 bp):
AAATTATATTTTAACCCCTAAAATTTCTTAAAATTAAATTTCAACCCCTAAACTTTCTCA
Found at i:20907676 original size:29 final size:30
Alignment explanation
Indices: 20907554--20907678 Score: 144
Period size: 30 Copynumber: 4.2 Consensus size: 30
20907544 ACTTTTTTTG
* * *
20907554 AAATTATATTTTAACCTCTAAACTTTCTTA
1 AAATTATATTTTAACCCCTAAAATTTCTCA
* *
20907584 AAATTATATTTCAACCCCTAAACTTTCTCA
1 AAATTATATTTTAACCCCTAAAATTTCTCA
* * **
20907614 AAATTATGTTTTGACCCCTAAAATTTCTTG
1 AAATTATATTTTAACCCCTAAAATTTCTCA
* *
20907644 AAATTAAATTTTGA-CCCTAAAATTTCTCA
1 AAATTATATTTTAACCCCTAAAATTTCTCA
20907673 AAATTA
1 AAATTA
20907679 CACTTTGGCC
Statistics
Matches: 82, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
29 19 0.23
30 63 0.77
ACGTcount: A:0.38, C:0.18, G:0.03, T:0.41
Consensus pattern (30 bp):
AAATTATATTTTAACCCCTAAAATTTCTCA
Found at i:20907899 original size:21 final size:21
Alignment explanation
Indices: 20907875--20907922 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 21
20907865 ATCAGCCAAC
20907875 GAAA-TTCAAAAAAAAAAGAGA
1 GAAACTTC-AAAAAAAAAGAGA
*
20907896 GAAAAGCTTCGAAAAAAAAGAGA
1 G-AAA-CTTCAAAAAAAAAGAGA
20907919 GAAA
1 GAAA
20907923 AGCTTTGGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
21 1 0.04
22 6 0.26
23 13 0.57
24 3 0.13
ACGTcount: A:0.67, C:0.06, G:0.19, T:0.08
Consensus pattern (21 bp):
GAAACTTCAAAAAAAAAGAGA
Found at i:20907910 original size:23 final size:25
Alignment explanation
Indices: 20907884--20907943 Score: 97
Period size: 23 Copynumber: 2.5 Consensus size: 25
20907874 CGAAATTCAA
20907884 AAAAAAAAGAGAGAAAAGC-TT-CG
1 AAAAAAAAGAGAGAAAAGCTTTGCG
*
20907907 AAAAAAAAGAGAGAAAAGCTTTGGG
1 AAAAAAAAGAGAGAAAAGCTTTGCG
20907932 AAAAAAAAGAGA
1 AAAAAAAAGAGA
20907944 AGAGGAGAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
23 19 0.56
24 2 0.06
25 13 0.38
ACGTcount: A:0.63, C:0.05, G:0.23, T:0.08
Consensus pattern (25 bp):
AAAAAAAAGAGAGAAAAGCTTTGCG
Found at i:20908096 original size:11 final size:11
Alignment explanation
Indices: 20908080--20908104 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
20908070 GGAAAAAAAG
20908080 AAAGAAATAAA
1 AAAGAAATAAA
20908091 AAAGAAATAAA
1 AAAGAAATAAA
20908102 AAA
1 AAA
20908105 TTTTAATACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (11 bp):
AAAGAAATAAA
Found at i:20908442 original size:15 final size:15
Alignment explanation
Indices: 20908398--20908442 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
20908388 GCAGGCCAGA
* *
20908398 AAAAAAAAGAAGAGG
1 AAAAAAAAGAAAAAG
20908413 AAAAAAAAGATAAAAG
1 AAAAAAAAGA-AAAAG
*
20908429 AAAAAAAGGAAAAA
1 AAAAAAAAGAAAAA
20908443 AAACCTAAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
15 14 0.54
16 12 0.46
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (15 bp):
AAAAAAAAGAAAAAG
Found at i:20909835 original size:11 final size:11
Alignment explanation
Indices: 20909819--20909913 Score: 59
Period size: 11 Copynumber: 9.4 Consensus size: 11
20909809 ATTTTTTTAA
20909819 TTTTAAAATAT
1 TTTTAAAATAT
20909830 TTTTAAAATACT
1 TTTTAAAATA-T
*
20909842 TTTT---TTAT
1 TTTTAAAATAT
*
20909850 TTTT--TA-AT
1 TTTTAAAATAT
20909858 -TTTAAAATAT
1 TTTTAAAATAT
20909868 TTTTAAAATACT
1 TTTTAAAATA-T
*
20909880 TTTT----TAA
1 TTTTAAAATAT
20909887 TTTTAAAATAT
1 TTTTAAAATAT
20909898 TTTTAAAATACT
1 TTTTAAAATA-T
20909910 TTTT
1 TTTT
20909914 TTATTTTTAA
Statistics
Matches: 67, Mismatches: 5, Indels: 23
0.71 0.05 0.24
Matches are distributed among these distances:
7 7 0.10
8 9 0.13
9 3 0.04
10 2 0.03
11 31 0.46
12 15 0.22
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:20909858 original size:38 final size:38
Alignment explanation
Indices: 20909806--20909921 Score: 167
Period size: 38 Copynumber: 3.2 Consensus size: 38
20909796 AATAAATATA
20909806 TTTATTTTTTTAATTTTAAAATATTTTTAAAATACTTTT
1 TTTA-TTTTTTAATTTTAAAATATTTTTAAAATACTTTT
20909845 TTTATTTTTTAATTTTAAAATATTTTTAAAATAC----
1 TTTATTTTTTAATTTTAAAATATTTTTAAAATACTTTT
20909879 ----TTTTTTAATTTTAAAATATTTTTAAAATACTTTT
1 TTTATTTTTTAATTTTAAAATATTTTTAAAATACTTTT
20909913 TTTATTTTT
1 TTTATTTTT
20909922 AAAATAAATT
Statistics
Matches: 69, Mismatches: 0, Indels: 17
0.80 0.00 0.20
Matches are distributed among these distances:
30 30 0.43
38 35 0.51
39 4 0.06
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.64
Consensus pattern (38 bp):
TTTATTTTTTAATTTTAAAATATTTTTAAAATACTTTT
Found at i:20909885 original size:30 final size:31
Alignment explanation
Indices: 20909849--20909927 Score: 142
Period size: 30 Copynumber: 2.6 Consensus size: 31
20909839 ACTTTTTTTA
20909849 TTTTTTAATTTTAAAATATTTTTAAAATAC-
1 TTTTTTAATTTTAAAATATTTTTAAAATACT
20909879 TTTTTTAATTTTAAAATATTTTTAAAATACT
1 TTTTTTAATTTTAAAATATTTTTAAAATACT
*
20909910 TTTTTTATTTTTAAAATA
1 TTTTTTAATTTTAAAATA
20909928 AATTTTAAGT
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
30 30 0.64
31 17 0.36
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (31 bp):
TTTTTTAATTTTAAAATATTTTTAAAATACT
Found at i:20909933 original size:21 final size:20
Alignment explanation
Indices: 20909895--20909933 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
20909885 AATTTTAAAA
*
20909895 TATTTTTAAAATACTTTTTT
1 TATTTTTAAAATAATTTTTT
*
20909915 TATTTTTAAAATAAATTTT
1 TATTTTTAAAATAATTTTT
20909934 AAGTGTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTTTTAAAATAATTTTTT
Found at i:20911240 original size:50 final size:50
Alignment explanation
Indices: 20911116--20911301 Score: 189
Period size: 50 Copynumber: 3.7 Consensus size: 50
20911106 GATAATAACA
* * *
20911116 TGCCAAAGCCATGTCCCAAACATGGTCTTACATGGGATGTT-TC-TTGTAC
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGA-GTTCTCATTTTAG
* * * * *
20911165 TGCCAATGCCATATTCCAAATATGGTTTTACATGGGAGTTCTCATTTTGG
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGAGTTCTCATTTTAG
** ** * *
20911215 TGCTC-ATGCCATGTCCCAAACATGGTCTTACGGGGGACCTCTCATCTCAG
1 TGC-CAATGCCATGTCCCAAACATGGTCTTACATGGGAGTTCTCATTTTAG
* *
20911265 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGA
20911302 CCTCTCATAA
Statistics
Matches: 110, Mismatches: 23, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
48 3 0.03
49 35 0.32
50 71 0.65
51 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.30
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGAGTTCTCATTTTAG
Found at i:20911308 original size:100 final size:99
Alignment explanation
Indices: 20911123--20911309 Score: 221
Period size: 100 Copynumber: 1.9 Consensus size: 99
20911113 ACATGCCAAA
* ** * * * * * *
20911123 GCCATGTCCCAAACATGGTCTTACATGGGATGTTTCTTGTACTGCCAATGCCATATTCCAAATAT
1 GCCATGTCCCAAACATGGTCTTACAGGGGACCTCTCATCTACTGCCAACGCCATATCCCAAACAT
* **
20911188 GGTTTTACATGGGAGTTCTCATTTTGGTGCTCAT
66 GGTCTTACATGGGACCTCTCATTTTGGTGCTCAT
* * * *
20911222 GCCATGTCCCAAACATGGTCTTACGGGGGACCTCTCATCTCAGTGCCAACGCCATGTCCCAGACA
1 GCCATGTCCCAAACATGGTCTTACAGGGGACCTCTCATCT-ACTGCCAACGCCATATCCCAAACA
20911287 TGGTCTTACATGGGACCTCTCAT
65 TGGTCTTACATGGGACCTCTCAT
20911310 AATCTCAATG
Statistics
Matches: 71, Mismatches: 16, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
99 33 0.46
100 38 0.54
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (99 bp):
GCCATGTCCCAAACATGGTCTTACAGGGGACCTCTCATCTACTGCCAACGCCATATCCCAAACAT
GGTCTTACATGGGACCTCTCATTTTGGTGCTCAT
Found at i:20917419 original size:18 final size:18
Alignment explanation
Indices: 20917398--20917445 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
20917388 TCCATCAATT
*
20917398 TGAACATCATTTGAAATG
1 TGAACATCATTTAAAATG
20917416 TGAACATCATTTAAAATG
1 TGAACATCATTTAAAATG
20917434 TGAACATCATTT
1 TGAACATCATTT
20917446 CTCATATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (18 bp):
TGAACATCATTTAAAATG
Found at i:20920972 original size:16 final size:15
Alignment explanation
Indices: 20920947--20920980 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
20920937 ATGATTTCAG
20920947 TTTTAGAGATGTGAT
1 TTTTAGAGATGTGAT
20920962 TTTTCAGAGATGTGAT
1 TTTT-AGAGATGTGAT
20920978 TTT
1 TTT
20920981 GAATAAGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.24, C:0.03, G:0.24, T:0.50
Consensus pattern (15 bp):
TTTTAGAGATGTGAT
Found at i:20922368 original size:34 final size:35
Alignment explanation
Indices: 20922324--20922390 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
20922314 CAGTAAAATA
* *
20922324 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATAATTTACTGGAAAATATTTTAC
*
20922358 TTTTCTGTAAAATAATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATAATTTACTGGAAAATATTTT
20922391 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATAATTTACTGGAAAATATTTTAC
Found at i:20922376 original size:20 final size:20
Alignment explanation
Indices: 20922339--20922378 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
20922329 CGTAAAATGA
**
20922339 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATAATTTACT
*
20922359 TTTCTGTAAAATAATTTACT
1 TTTCTGGAAAATAATTTACT
20922379 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATAATTTACT
Found at i:20923252 original size:19 final size:18
Alignment explanation
Indices: 20923213--20923254 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
20923203 ATGGCAAAGT
* *
20923213 TGAGAAATGATTATGAGA
1 TGAGAAATGAATATGAAA
20923231 TGAGAAATGAAATATGAAA
1 TGAGAAATG-AATATGAAA
20923250 TGAGA
1 TGAGA
20923255 TGAGAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.50, C:0.00, G:0.26, T:0.24
Consensus pattern (18 bp):
TGAGAAATGAATATGAAA
Found at i:20930221 original size:21 final size:21
Alignment explanation
Indices: 20930195--20930240 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
20930185 GTAATTAAAG
20930195 TGTTTCCTGATACGACTCCAA
1 TGTTTCCTGATACGACTCCAA
20930216 TGTTTCCTGATACGACTCCAA
1 TGTTTCCTGATACGACTCCAA
20930237 TGTT
1 TGTT
20930241 AATGTCTCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (21 bp):
TGTTTCCTGATACGACTCCAA
Found at i:20934258 original size:14 final size:15
Alignment explanation
Indices: 20934241--20934269 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
20934231 GAGATGAGAG
20934241 ATGAAAT-ATGAAAT
1 ATGAAATAATGAAAT
20934255 ATGAAATAATGAAAT
1 ATGAAATAATGAAAT
20934270 GAGATGTGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.59, C:0.00, G:0.14, T:0.28
Consensus pattern (15 bp):
ATGAAATAATGAAAT
Found at i:20936645 original size:24 final size:24
Alignment explanation
Indices: 20936589--20936646 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
20936579 TCGTATATAG
20936589 CATAAGTTCGCATAGAAGAATACAA
1 CATAAGTTCGCATA-AAGAATACAA
* *
20936614 CATGAGTTCGCAT-AAGACATACAG
1 CATAAGTTCGCATAAAGA-ATACAA
*
20936638 TATAAGTTC
1 CATAAGTTC
20936647 ACACAAAAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
23 4 0.14
24 12 0.43
25 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.24
Consensus pattern (24 bp):
CATAAGTTCGCATAAAGAATACAA
Found at i:20943100 original size:23 final size:23
Alignment explanation
Indices: 20943074--20943215 Score: 176
Period size: 23 Copynumber: 6.2 Consensus size: 23
20943064 AGTGTTATTG
20943074 ATCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
*
20943097 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
* * **
20943120 TTCAGTGGTACCTACAACTACAT
1 ATCAGTGGTAGCTACGGCTACAT
**
20943143 ATCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
* *
20943166 TTCAGTGGTAGCTACGGCTACGT
1 ATCAGTGGTAGCTACGGCTACAT
* * *
20943189 ATCAGTGGCAGCTTCAGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
20943212 ATCA
1 ATCA
20943216 ATGTGGCACT
Statistics
Matches: 98, Mismatches: 21, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 98 1.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTACGGCTACAT
Found at i:20943142 original size:46 final size:46
Alignment explanation
Indices: 20943075--20943211 Score: 211
Period size: 46 Copynumber: 3.0 Consensus size: 46
20943065 GTGTTATTGA
20943075 TCAGTGGTAGCTACGGCTACATATCAGTGGTAGCTTCGGCTACATT
1 TCAGTGGTAGCTACGGCTACATATCAGTGGTAGCTTCGGCTACATT
* ** *
20943121 TCAGTGGTACCTACAACTACATATCAGTGGTAGCTTTGGCTACATT
1 TCAGTGGTAGCTACGGCTACATATCAGTGGTAGCTTCGGCTACATT
* * *
20943167 TCAGTGGTAGCTACGGCTACGTATCAGTGGCAGCTTCAGCTACAT
1 TCAGTGGTAGCTACGGCTACATATCAGTGGTAGCTTCGGCTACAT
20943212 ATCAATGTGG
Statistics
Matches: 80, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.30
Consensus pattern (46 bp):
TCAGTGGTAGCTACGGCTACATATCAGTGGTAGCTTCGGCTACATT
Found at i:20943185 original size:69 final size:69
Alignment explanation
Indices: 20943074--20943215 Score: 194
Period size: 69 Copynumber: 2.1 Consensus size: 69
20943064 AGTGTTATTG
* * *
20943074 ATCAGTGGTAGCTACGGCTACATATCAGTGGTAGCTTCGGCTACATTTCAGTGGTACCTACAACT
1 ATCAGTGGTAGCTACGGCTACATATCAGTGGTAGCTACGGCTACATATCAGTGGCACCTACAACT
20943139 ACAT
66 ACAT
** * * * * *
20943143 ATCAGTGGTAGCTTTGGCTACATTTCAGTGGTAGCTACGGCTACGTATCAGTGGCAGCTTCAGCT
1 ATCAGTGGTAGCTACGGCTACATATCAGTGGTAGCTACGGCTACATATCAGTGGCACCTACAACT
20943208 ACAT
66 ACAT
20943212 ATCA
1 ATCA
20943216 ATGTGGCACT
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
69 63 1.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.30
Consensus pattern (69 bp):
ATCAGTGGTAGCTACGGCTACATATCAGTGGTAGCTACGGCTACATATCAGTGGCACCTACAACT
ACAT
Found at i:20949397 original size:35 final size:35
Alignment explanation
Indices: 20949354--20949425 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
20949344 ATAACATCCC
*
20949354 CAGTTTATCTGACCAGTGTAGGGCACAACTATTGT
1 CAGTTTATCCGACCAGTGTAGGGCACAACTATTGT
*
20949389 CAGTTTATCCGACCAGTGTAGGGCACAATTATTGT
1 CAGTTTATCCGACCAGTGTAGGGCACAACTATTGT
20949424 CA
1 CA
20949426 ATATATTTGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (35 bp):
CAGTTTATCCGACCAGTGTAGGGCACAACTATTGT
Found at i:20951074 original size:20 final size:20
Alignment explanation
Indices: 20951049--20951090 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
20951039 TGTAGTGGCT
20951049 TTGGGTGATAGTTCATTTTG
1 TTGGGTGATAGTTCATTTTG
20951069 TTGGGTGATAGTTCATTTTG
1 TTGGGTGATAGTTCATTTTG
20951089 TT
1 TT
20951091 CAGTAACTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.14, C:0.05, G:0.29, T:0.52
Consensus pattern (20 bp):
TTGGGTGATAGTTCATTTTG
Found at i:20955637 original size:2 final size:2
Alignment explanation
Indices: 20955632--20955672 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
20955622 CATTCTTACA
*
20955632 TC TC TC TC TC TT TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
20955673 GTGTGTGTGT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (2 bp):
TC
Found at i:20960225 original size:37 final size:36
Alignment explanation
Indices: 20960168--20960281 Score: 147
Period size: 37 Copynumber: 3.1 Consensus size: 36
20960158 TCCAACTAAG
*
20960168 ACATGTCAATCGCTCGTAAGAGCTAATCCACCCGATA
1 ACATGTCAAT-GCTCATAAGAGCTAATCCACCCGATA
* *
20960205 ACATGTCATATGCTCATAAGAGCTAATCTACCTGATA
1 ACATGTCA-ATGCTCATAAGAGCTAATCCACCCGATA
* * *
20960242 ATATGCCAGATGCTCACAAGAGCTAATCCACCCGATA
1 ACATGTCA-ATGCTCATAAGAGCTAATCCACCCGATA
20960279 ACA
1 ACA
20960282 CGCCACAACA
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
37 64 0.97
38 2 0.03
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.23
Consensus pattern (36 bp):
ACATGTCAATGCTCATAAGAGCTAATCCACCCGATA
Found at i:20961571 original size:25 final size:26
Alignment explanation
Indices: 20961543--20961596 Score: 83
Period size: 25 Copynumber: 2.1 Consensus size: 26
20961533 TCCAGTAAAT
*
20961543 TTTTTATGATTTTA-CCTTGGCAAAA
1 TTTTGATGATTTTACCCTTGGCAAAA
*
20961568 TTTTGATGATTTTACCCTTGGTAAAA
1 TTTTGATGATTTTACCCTTGGCAAAA
20961594 TTT
1 TTT
20961597 CGAAAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 13 0.50
26 13 0.50
ACGTcount: A:0.26, C:0.11, G:0.13, T:0.50
Consensus pattern (26 bp):
TTTTGATGATTTTACCCTTGGCAAAA
Found at i:20963186 original size:8 final size:8
Alignment explanation
Indices: 20963173--20963201 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
20963163 TGATTATGTT
20963173 ATTTTGTA
1 ATTTTGTA
20963181 ATTTTGTA
1 ATTTTGTA
20963189 ATTTTGTA
1 ATTTTGTA
20963197 ATTTT
1 ATTTT
20963202 TTGTATACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.10, T:0.66
Consensus pattern (8 bp):
ATTTTGTA
Found at i:20970210 original size:45 final size:45
Alignment explanation
Indices: 20970140--20970225 Score: 111
Period size: 45 Copynumber: 1.9 Consensus size: 45
20970130 AAACCTTATT
* * *
20970140 CTATTAACCCTCTAGTAGGGTATTTATCCTAAAAGTCTTACGGTC
1 CTATTAACCCTCTAGTAGGGCATTTATACTAAAACTCTTACGGTC
* *
20970185 CTATTAACCTTCTAGT-GGAGCATTTATACTAGAACTCTTAC
1 CTATTAACCCTCTAGTAGG-GCATTTATACTAAAACTCTTAC
20970226 TATTAACAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 2 0.06
45 33 0.94
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (45 bp):
CTATTAACCCTCTAGTAGGGCATTTATACTAAAACTCTTACGGTC
Found at i:20971095 original size:15 final size:15
Alignment explanation
Indices: 20971077--20971107 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
20971067 AAAATATTAA
20971077 ATTATAAAAATTTTC
1 ATTATAAAAATTTTC
*
20971092 ATTATGAAAATTTTC
1 ATTATAAAAATTTTC
20971107 A
1 A
20971108 ATGGGTTGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (15 bp):
ATTATAAAAATTTTC
Found at i:20976505 original size:34 final size:35
Alignment explanation
Indices: 20976461--20976527 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
20976451 CAGTAAAATG
* *
20976461 TTTTCCGTAAAATGATTT-TTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
20976495 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
20976528 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.07, G:0.13, T:0.48
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:20976531 original size:14 final size:15
Alignment explanation
Indices: 20976455--20976531 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
20976445 GATTGCCAGT
* *
20976455 AAAATG-TTTTCCGT
1 AAAATGATTTTCTGG
20976469 AAAATGATTTT-TGG
1 AAAATGATTTTCTGG
*
20976483 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
20976503 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
20976518 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
20976532 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 4 0.08
20 8 0.16
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:20981353 original size:14 final size:14
Alignment explanation
Indices: 20981336--20981365 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
20981326 AGGTGAACTA
20981336 GCAGAGAAGATGAG
1 GCAGAGAAGATGAG
*
20981350 GCAGAGATGATGAG
1 GCAGAGAAGATGAG
20981364 GC
1 GC
20981366 TGCAATCGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.10, G:0.43, T:0.10
Consensus pattern (14 bp):
GCAGAGAAGATGAG
Found at i:20981415 original size:33 final size:33
Alignment explanation
Indices: 20981378--20981443 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
20981368 CAATCGTTAG
*
20981378 GGTGAAGAGAGTGAAAAGAGGAGCTGTGGAAAA
1 GGTGAAAAGAGTGAAAAGAGGAGCTGTGGAAAA
* *
20981411 GGTGAAAAGAGTGAAGAGATGAGCTGTGGAAAA
1 GGTGAAAAGAGTGAAAAGAGGAGCTGTGGAAAA
20981444 TGTCTTACCC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.42, C:0.03, G:0.41, T:0.14
Consensus pattern (33 bp):
GGTGAAAAGAGTGAAAAGAGGAGCTGTGGAAAA
Found at i:20982482 original size:13 final size:13
Alignment explanation
Indices: 20982466--20982530 Score: 96
Period size: 13 Copynumber: 5.1 Consensus size: 13
20982456 TTTAAACCAA
20982466 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
20982479 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
* *
20982492 ACTTTTCCACAGC
1 ACTTTTCAAAAGC
20982505 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
20982518 AC-TTTCAAAAGC
1 ACTTTTCAAAAGC
20982530 A
1 A
20982531 ATGAAGAACT
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
12 11 0.24
13 35 0.76
ACGTcount: A:0.37, C:0.28, G:0.08, T:0.28
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:20982699 original size:17 final size:18
Alignment explanation
Indices: 20982675--20982712 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
20982665 ACCCTTGGAG
*
20982675 TAAAAAAATTATTTCAAA
1 TAAAAAATTTATTTCAAA
20982693 TAAAAAATTTATTTCAAA
1 TAAAAAATTTATTTCAAA
20982711 TA
1 TA
20982713 CATTCTACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (18 bp):
TAAAAAATTTATTTCAAA
Found at i:20986190 original size:25 final size:25
Alignment explanation
Indices: 20986161--20986210 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
20986151 AAAATGAGTG
20986161 TTTCATACATATAATCTCATAGTTC
1 TTTCATACATATAATCTCATAGTTC
20986186 TTTCATACATATAATCTCATAGTTC
1 TTTCATACATATAATCTCATAGTTC
20986211 ACATATCCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.20, G:0.04, T:0.44
Consensus pattern (25 bp):
TTTCATACATATAATCTCATAGTTC
Found at i:20986472 original size:46 final size:45
Alignment explanation
Indices: 20986376--20986621 Score: 244
Period size: 46 Copynumber: 5.3 Consensus size: 45
20986366 TTACCCATTT
* * *
20986376 GGGTTAAACCTACAC-AAACAATGAATCATAGTGCCTGGTTACCCGTTA
1 GGGTTGAACCTACACGAATCAAT-AAT-A-A-TGCCTGGTCACCCGTTA
* * * * *
20986424 GGGTTAAACCTACATGAATCGAATGACAATGCCTGGTCACCCATTA
1 GGGTTGAACCTACACGAATC-AATAATAATGCCTGGTCACCCGTTA
* * * ** *
20986470 GGGTTGAACTTATACGAATCAGATAATACTGAATGGTCATCCGTTA
1 GGGTTGAACCTACACGAATCA-ATAATAATGCCTGGTCACCCGTTA
* *
20986516 GGGTTGAACCTACACGAATCAGATAATAATGCCTAGTCACTCGTTA
1 GGGTTGAACCTACACGAATCA-ATAATAATGCCTGGTCACCCGTTA
*
20986562 GGGTTGAACCTACACGAAT-AGGATAATAGTGCCTGGTCACCCGTTA
1 GGGTTGAACCTACACGAATCA--ATAATAATGCCTGGTCACCCGTTA
20986608 GGGTTGAACCTACA
1 GGGTTGAACCTACA
20986622 TAACAAATAG
Statistics
Matches: 166, Mismatches: 28, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
45 2 0.01
46 141 0.85
47 1 0.01
48 15 0.09
49 4 0.02
50 3 0.02
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.26
Consensus pattern (45 bp):
GGGTTGAACCTACACGAATCAATAATAATGCCTGGTCACCCGTTA
Found at i:20989949 original size:19 final size:18
Alignment explanation
Indices: 20989916--20989951 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
20989906 AGTCAAAATA
20989916 CAAAAATGATATCGATAT
1 CAAAAATGATATCGATAT
*
20989934 CAAAAGATGGTATCGATA
1 CAAAA-ATGATATCGATA
20989952 GAAATACAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.47, C:0.11, G:0.17, T:0.25
Consensus pattern (18 bp):
CAAAAATGATATCGATAT
Found at i:20995378 original size:16 final size:15
Alignment explanation
Indices: 20995340--20995370 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
20995330 TAATAAAATG
20995340 GATGAAAAGGTTATC
1 GATGAAAAGGTTATC
20995355 GATGAAAAGGTTATC
1 GATGAAAAGGTTATC
20995370 G
1 G
20995371 GTTGAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.29, T:0.26
Consensus pattern (15 bp):
GATGAAAAGGTTATC
Found at i:20999646 original size:17 final size:17
Alignment explanation
Indices: 20999617--20999649 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
20999607 TATAAAATTT
20999617 ATTAAGATAAATATTAG
1 ATTAAGATAAATATTAG
20999634 ATTAA-ATATAATATTA
1 ATTAAGATA-AATATTA
20999650 AATCTTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (17 bp):
ATTAAGATAAATATTAG
Found at i:21001348 original size:14 final size:14
Alignment explanation
Indices: 21001315--21001341 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
21001305 CTATGCATGC
21001315 AAAATATAAAAGAA
1 AAAATATAAAAGAA
21001329 AAAATATAAAAGA
1 AAAATATAAAAGA
21001342 CATAATAGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (14 bp):
AAAATATAAAAGAA
Found at i:21002273 original size:10 final size:11
Alignment explanation
Indices: 21002241--21002279 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
21002231 AAACACAGTT
21002241 TTCAAGCAAAAA
1 TTCAA-CAAAAA
**
21002253 TTTGACAAAAA
1 TTCAACAAAAA
21002264 TTCAACAAAAA
1 TTCAACAAAAA
21002275 TTCAA
1 TTCAA
21002280 AATGAAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
11 20 0.87
12 3 0.13
ACGTcount: A:0.56, C:0.15, G:0.05, T:0.23
Consensus pattern (11 bp):
TTCAACAAAAA
Found at i:21003487 original size:38 final size:37
Alignment explanation
Indices: 21003413--21003487 Score: 96
Period size: 38 Copynumber: 2.0 Consensus size: 37
21003403 AACTTTCAAT
* * *
21003413 ACACCTGCACAAGCTTGCTAGGCACAAAGCCTGAATA
1 ACACCGGCACAAGCCTGCTAGGCACAAAGCCCGAATA
* *
21003450 ACACCGGCACAGAGCCTGCTAGGCGCATAGCCCGAATA
1 ACACCGGCACA-AGCCTGCTAGGCACAAAGCCCGAATA
21003488 GCATCATGTT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
37 10 0.31
38 22 0.69
ACGTcount: A:0.32, C:0.32, G:0.23, T:0.13
Consensus pattern (37 bp):
ACACCGGCACAAGCCTGCTAGGCACAAAGCCCGAATA
Found at i:21010616 original size:22 final size:22
Alignment explanation
Indices: 21010562--21010616 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
21010552 AAGGCTGGTA
*
21010562 GGCACAAAGCCTGAATAACACC
1 GGCACAAAGCCCGAATAACACC
* * *
21010584 GACATAGAGCCCGAATAACACC
1 GGCACAAAGCCCGAATAACACC
21010606 GGCACAAAGCC
1 GGCACAAAGCC
21010617 TGCTAGGCAT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.40, C:0.33, G:0.20, T:0.07
Consensus pattern (22 bp):
GGCACAAAGCCCGAATAACACC
Found at i:21016016 original size:38 final size:38
Alignment explanation
Indices: 21015961--21016187 Score: 292
Period size: 38 Copynumber: 6.0 Consensus size: 38
21015951 AACGTAATGT
* *
21015961 TATTCGGGCTCTATGCCTAGCAGGCTTTGTGCTGGTGA
1 TATTCGGGCTCTGTGCCTAGCAGGCTTTGTGCCGGTGA
* * * **
21015999 TATTCAGGCTATGTGCCTAGTAGGCTTTGTGCCAATGA
1 TATTCGGGCTCTGTGCCTAGCAGGCTTTGTGCCGGTGA
* * *
21016037 TATTCGGGCTCTGTTCATAGCAGACTTTGTGCCGGTGA
1 TATTCGGGCTCTGTGCCTAGCAGGCTTTGTGCCGGTGA
*
21016075 TATTCGGGTTCTGTGCCTAGCAGGCTTTGTGCCGGTGA
1 TATTCGGGCTCTGTGCCTAGCAGGCTTTGTGCCGGTGA
* *
21016113 TATTCGGGCTCTTTGCCTAGTAGGCTTTGTGCCGGTGA
1 TATTCGGGCTCTGTGCCTAGCAGGCTTTGTGCCGGTGA
* * * * *
21016151 TATTCGAGTTCTGTGCCTAGTAGGCTTTATGCTGGTG
1 TATTCGGGCTCTGTGCCTAGCAGGCTTTGTGCCGGTG
21016188 TGTTATATCA
Statistics
Matches: 162, Mismatches: 27, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 162 1.00
ACGTcount: A:0.14, C:0.20, G:0.30, T:0.36
Consensus pattern (38 bp):
TATTCGGGCTCTGTGCCTAGCAGGCTTTGTGCCGGTGA
Found at i:21016271 original size:19 final size:19
Alignment explanation
Indices: 21016227--21016271 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
21016217 TTTGTGCCAA
*
21016227 TGTATTCTATCAGGTAAGT
1 TGTATTGTATCAGGTAAGT
21016246 TGTATTGTATCAGGTAAGT
1 TGTATTGTATCAGGTAAGT
21016265 TGTATTG
1 TGTATTG
21016272 AAAATATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.24, C:0.07, G:0.24, T:0.44
Consensus pattern (19 bp):
TGTATTGTATCAGGTAAGT
Found at i:21019559 original size:9 final size:9
Alignment explanation
Indices: 21019545--21019582 Score: 67
Period size: 9 Copynumber: 4.2 Consensus size: 9
21019535 AGACATTGAC
21019545 ATTTTTAAA
1 ATTTTTAAA
21019554 ATTTTTAAA
1 ATTTTTAAA
*
21019563 TTTTTTAAA
1 ATTTTTAAA
21019572 ATTTTTAAA
1 ATTTTTAAA
21019581 AT
1 AT
21019583 CATGAAAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
ATTTTTAAA
Found at i:21028001 original size:25 final size:25
Alignment explanation
Indices: 21027967--21028017 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
21027957 AAAGAAACAT
*
21027967 ACTTTCTCCTAGCCACCTTCTTTCC
1 ACTTTCTCCTAGCCACATTCTTTCC
21027992 ACTTTCTCCTAGCCACATTCTTTCC
1 ACTTTCTCCTAGCCACATTCTTTCC
21028017 A
1 A
21028018 AAGTAGGCGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.16, C:0.41, G:0.04, T:0.39
Consensus pattern (25 bp):
ACTTTCTCCTAGCCACATTCTTTCC
Found at i:21029020 original size:30 final size:26
Alignment explanation
Indices: 21028985--21029116 Score: 69
Period size: 24 Copynumber: 5.1 Consensus size: 26
21028975 CTGGATCATG
21028985 ACCATCATCTTCTTCATCTTCATCTTCACC
1 ACCATCATCTTC-TCATCTTCATC--C-CC
* * *
21029015 TCCATCCATGTACTCATCTTCATCCCC
1 ACCAT-CATCTTCTCATCTTCATCCCC
* *
21029042 ACCATCATC-T-TCATCTTGATCTCC
1 ACCATCATCTTCTCATCTTCATCCCC
* * * *
21029066 ACCGTCGTC-T-TCATCTTGATCTCC
1 ACCATCATCTTCTCATCTTCATCCCC
* * *
21029090 ACTATCGTC-TC-CATCTTCATCTCC
1 ACCATCATCTTCTCATCTTCATCCCC
21029114 ACC
1 ACC
21029117 CTCAATTTTG
Statistics
Matches: 86, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
24 56 0.65
26 3 0.03
27 6 0.07
28 1 0.01
30 15 0.17
31 5 0.06
ACGTcount: A:0.18, C:0.41, G:0.05, T:0.36
Consensus pattern (26 bp):
ACCATCATCTTCTCATCTTCATCCCC
Found at i:21029055 original size:24 final size:24
Alignment explanation
Indices: 21029001--21029116 Score: 128
Period size: 24 Copynumber: 4.8 Consensus size: 24
21028991 ATCTTCTTCA
*
21029001 TCTTCATCTTCACCTCCATCCAT-G
1 TCTTCATCTTCATCTCCA-CCATCG
* *
21029025 TAC-TCATCTTCATCCCCACCATCA
1 T-CTTCATCTTCATCTCCACCATCG
* *
21029049 TCTTCATCTTGATCTCCACCGTCG
1 TCTTCATCTTCATCTCCACCATCG
* *
21029073 TCTTCATCTTGATCTCCACTATCG
1 TCTTCATCTTCATCTCCACCATCG
*
21029097 TCTCCATCTTCATCTCCACC
1 TCTTCATCTTCATCTCCACC
21029117 CTCAATTTTG
Statistics
Matches: 77, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
23 5 0.06
24 71 0.92
25 1 0.01
ACGTcount: A:0.17, C:0.41, G:0.05, T:0.36
Consensus pattern (24 bp):
TCTTCATCTTCATCTCCACCATCG
Found at i:21030873 original size:23 final size:23
Alignment explanation
Indices: 21030843--21030888 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
21030833 ATCTTTCCAC
21030843 CAACGAACTGATGAGTGTATGAT
1 CAACGAACTGATGAGTGTATGAT
21030866 CAACGAACTGATGAGTGTATGAT
1 CAACGAACTGATGAGTGTATGAT
21030889 TGAGTTTACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.13, G:0.26, T:0.26
Consensus pattern (23 bp):
CAACGAACTGATGAGTGTATGAT
Found at i:21032793 original size:16 final size:15
Alignment explanation
Indices: 21032761--21032795 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
21032751 TAATATTTAC
*
21032761 TTTTTTCAATTATAA
1 TTTTTTCAATTAAAA
21032776 TTTTTTCAATTACAAA
1 TTTTTTCAATTA-AAA
21032792 TTTT
1 TTTT
21032796 ACAACTCCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.60
Consensus pattern (15 bp):
TTTTTTCAATTAAAA
Found at i:21037193 original size:16 final size:16
Alignment explanation
Indices: 21037172--21037206 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
21037162 CCAATATCTA
* *
21037172 ATTATCATATTTGCAC
1 ATTATCACATTTACAC
21037188 ATTATCACATTTACAC
1 ATTATCACATTTACAC
21037204 ATT
1 ATT
21037207 TATATTCCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.34, C:0.20, G:0.03, T:0.43
Consensus pattern (16 bp):
ATTATCACATTTACAC
Found at i:21039841 original size:14 final size:13
Alignment explanation
Indices: 21039822--21039882 Score: 72
Period size: 14 Copynumber: 4.7 Consensus size: 13
21039812 AGATTCAATC
21039822 AATAAAAAAATCGA
1 AATAAAAAAAT-GA
*
21039836 AATAAAAAAAT-C
1 AATAAAAAAATGA
*
21039848 AATCAAAAAATGAA
1 AATAAAAAAATG-A
21039862 AATAAAAAAATGA
1 AATAAAAAAATGA
21039875 AA-AAAAAA
1 AATAAAAAA
21039883 CAAAAAAAGA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
12 16 0.39
13 3 0.07
14 22 0.54
ACGTcount: A:0.77, C:0.05, G:0.05, T:0.13
Consensus pattern (13 bp):
AATAAAAAAATGA
Found at i:21039855 original size:26 final size:26
Alignment explanation
Indices: 21039818--21039901 Score: 91
Period size: 26 Copynumber: 3.2 Consensus size: 26
21039808 CTTCAGATTC
21039818 AATCAATAAAAAAATCG-AAATAAAAA
1 AATCAATAAAAAAAT-GAAAATAAAAA
*
21039844 AATCAATCAAAAAATGAAAATAAAAA
1 AATCAATAAAAAAATGAAAATAAAAA
* ** *
21039870 AATGAA-AAAAAAACAAAAAAAGAAAA
1 AATCAATAAAAAAATGAAAATA-AAAA
21039896 AATCAA
1 AATCAA
21039902 AATCAAAATG
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
25 12 0.24
26 37 0.76
ACGTcount: A:0.76, C:0.07, G:0.05, T:0.12
Consensus pattern (26 bp):
AATCAATAAAAAAATGAAAATAAAAA
Found at i:21039881 original size:18 final size:18
Alignment explanation
Indices: 21039860--21039897 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
21039850 TCAAAAAATG
*
21039860 AAAATAAAAAAATGAAAAA
1 AAAACAAAAAAA-GAAAAA
21039879 AAAACAAAAAAAGAAAAA
1 AAAACAAAAAAAGAAAAA
21039897 A
1 A
21039898 TCAAAATCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.87, C:0.03, G:0.05, T:0.05
Consensus pattern (18 bp):
AAAACAAAAAAAGAAAAA
Found at i:21039909 original size:14 final size:14
Alignment explanation
Indices: 21039822--21039909 Score: 71
Period size: 14 Copynumber: 6.5 Consensus size: 14
21039812 AGATTCAATC
*
21039822 AATAAAAAAATCGA
1 AATAAAAAAATCAA
21039836 AATAAAAAAATC--
1 AATAAAAAAATCAA
* *
21039848 AATCAAAAAATGAA
1 AATAAAAAAATCAA
*
21039862 AATAAAAAAATGAA
1 AATAAAAAAATCAA
21039876 AA-AAAAACAA--AA
1 AATAAAAA-AATCAA
21039888 AA-AGAAAAAATCAA
1 AATA-AAAAAATCAA
21039902 AATCAAAA
1 AAT-AAAA
21039910 TGAGAATGAG
Statistics
Matches: 63, Mismatches: 3, Indels: 15
0.78 0.04 0.19
Matches are distributed among these distances:
12 17 0.27
13 9 0.14
14 33 0.52
15 3 0.05
16 1 0.02
ACGTcount: A:0.77, C:0.07, G:0.05, T:0.11
Consensus pattern (14 bp):
AATAAAAAAATCAA
Found at i:21042209 original size:88 final size:88
Alignment explanation
Indices: 21042044--21042225 Score: 204
Period size: 88 Copynumber: 2.1 Consensus size: 88
21042034 ACAGATCAGA
* * * * *
21042044 GAAGATAGCAGATCTTGCCTTCCTGCACTGACAGTGAAGCAGATCGAGGACACTAGTCCTGCCTC
1 GAAGATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAATCCTACCTC
** *
21042109 CATCGGTTGCAGTGGAGCAGATT
66 CATCGGCAGCAGTGGAACAGATT
* * * * *
21042132 GAAGATAGTAGATCTTGCCTTCCTGCA-TGGACAGCGAAGTAGATCGAAGATACCAATTCTATCT
1 GAAGATAGCAGATCTTGCCTTCCTGCACT-GACAGCGAAGCAGATCGAAGACACCAATCCTACCT
* * *
21042196 CCCTGGGCAGCAGTGGAATAGATT
65 CCATCGGCAGCAGTGGAACAGATT
21042220 GAAGAT
1 GAAGAT
21042226 TGTGAGTCCT
Statistics
Matches: 77, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
87 1 0.01
88 76 0.99
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (88 bp):
GAAGATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAATCCTACCTC
CATCGGCAGCAGTGGAACAGATT
Found at i:21042283 original size:44 final size:44
Alignment explanation
Indices: 21042190--21042293 Score: 113
Period size: 44 Copynumber: 2.4 Consensus size: 44
21042180 GATACCAATT
* **
21042190 CTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTGTGAGTC
1 CTATCTCCCTAGGCAGCAGTGGAATAGATTGAAGATTCAGAGTC
* *
21042234 CTATCTCCCTAGTCAGCAGTGGAATAGGTTGGAA-ATTACAGA-TC
1 CTATCTCCCTAGGCAGCAGTGGAATAGATT-GAAGATT-CAGAGTC
* *
21042278 TTATCTCCCTAAGCAG
1 CTATCTCCCTAGGCAG
21042294 TAATGGAGTA
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
44 45 0.90
45 5 0.10
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (44 bp):
CTATCTCCCTAGGCAGCAGTGGAATAGATTGAAGATTCAGAGTC
Found at i:21042391 original size:131 final size:131
Alignment explanation
Indices: 21042230--21042854 Score: 904
Period size: 131 Copynumber: 4.8 Consensus size: 131
21042220 GAAGATTGTG
* *
21042230 AGTCCTATCTCCCTAGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGCAGT
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGGAAATTAAAGATCTTATCTCCCTAAGCAGT
* * * *
21042295 AATGGAGTAAATCAAAGACGGCGAATCTTATCTCCCCTAGTAGTAGGGAAGCAGATTTAAGCCAC
66 AGTGGAGCAGATCAAAGACGGCGAATCTTATCTCCCCTAGGAGTAGGGAAGCAGATTTAAGCCAC
21042360 A
131 A
* *
21042361 AGTCCTATCTCCCTGGTCAGCACTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGCAGT
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGGAAATTAAAGATCTTATCTCCCTAAGCAGT
* * * *
21042426 AATGGAGTAAATCAAAGACGGCGAATCTTATCTCCCCTAGTAGTAGGGAAGCAGATTTAAGCCAC
66 AGTGGAGCAGATCAAAGACGGCGAATCTTATCTCCCCTAGGAGTAGGGAAGCAGATTTAAGCCAC
21042491 A
131 A
* * * * *
21042492 A-ACTCTATCTCCCTGGACAGCAGTGGAATATGTT-GAAGATTATAGACCTTATCTCCCTAAGCA
1 AGTC-CTATCTCCCTGGTCAGCAGTGGAATAGGTTGGAA-ATTAAAGATCTTATCTCCCTAAGCA
* *
21042555 GTAGTAGAGCAGATCGAAGACGG-GAAATCTTATCGT-CCCTAGGAGTAGGGAAGCAGATTTAAG
64 GTAGTGGAGCAGATCAAAGACGGCG-AATCTTATC-TCCCCTAGGAGTAGGGAAGCAGATTTAAG
21042618 CCACA
127 CCACA
*
21042623 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGGAAATTAAAGATCTCATCTCCCTAAGCAGT
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGGAAATTAAAGATCTTATCTCCCTAAGCAGT
* * *
21042688 AGTAGAGCAGATCGAAGACGG-GAAATCTTATCGT-CCCTAGGAGTAGGGAAGCAGATTTAAGCT
66 AGTGGAGCAGATCAAAGACGGCG-AATCTTATC-TCCCCTAGGAGTAGGGAAGCAGATTTAAGCC
21042751 ACA
129 ACA
*
21042754 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGGAAATTAAAGATCTCATCTCCCTAAGCAGT
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGGAAATTAAAGATCTTATCTCCCTAAGCAGT
* *
21042819 AGTGGAGCAGATCGAAA-ATGGCAAATCTTATCTCCC
66 AGTGGAGCAGATC-AAAGACGGCGAATCTTATCTCCC
21042855 TGAGGTTGCA
Statistics
Matches: 460, Mismatches: 25, Indels: 18
0.91 0.05 0.04
Matches are distributed among these distances:
130 6 0.01
131 447 0.97
132 7 0.02
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (131 bp):
AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGGAAATTAAAGATCTTATCTCCCTAAGCAGT
AGTGGAGCAGATCAAAGACGGCGAATCTTATCTCCCCTAGGAGTAGGGAAGCAGATTTAAGCCAC
A
Found at i:21043113 original size:218 final size:218
Alignment explanation
Indices: 21042850--21043661 Score: 1239
Period size: 218 Copynumber: 3.7 Consensus size: 218
21042840 CAAATCTTAT
* * * * **
21042850 CTCCCTGAGGTTGCAGTGGAGCAGATTGAAGCC-CATAATCCTATCTCCCTTAAGTTGCAGTTGA
1 CTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAC-TAATCCTATCTCCCTGAAGTTGCAGCGGA
* ** * * *
21042914 GCGGATAAAAATAATGGATCTTATCTCTCTGAAGTTGTAGTAAAGTAGATCGCATCAAGTCTTAT
65 GCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGTCTTAT
* * *
21042979 CTCTCTGAGGTTGCAGTGGAGCAGACTGAGTAAGCAGGTCTTATCCCTCTGAAGTTGCAGTGGGG
130 CTCCCTGAGGTTGCAGCGGAGCAGACTGAGTAAGCAGGTCTTATCCCCCTGAAGTTGCAGTGGGG
*
21043044 CAGACTCAAGATGGCGGATTTTAC
195 CAGACTGAAGATGGCGGATTTTAC
* *
21043068 CTCCCTGAGGTTACAGTGGAGTACATTGAAGCCACTAATCCTATCTCCCTGAGGTTGTAGCGGAG
1 CTCCCTGAGGTTACAGTGGAGTACATTGAAGCCACTAATCCTATCTCCCTGAAGTTGCAGCGGAG
*
21043133 CGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGTTTTATC
66 CGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGTCTTATC
*
21043198 TCCCTGAGGTTGCAGCGGAGCAGACTAAGTAAGCAGGTCTTATCCCCCTGAAGTTGCAGTGGGGC
131 TCCCTGAGGTTGCAGCGGAGCAGACTGAGTAAGCAGGTCTTATCCCCCTGAAGTTGCAGTGGGGC
*
21043263 AGACTGAAGATGGAGGATTTTAC
196 AGACTGAAGATGGCGGATTTTAC
* * * * * *
21043286 GTCCCTGAGGTTATAGTTGAGTAGATTGAAGCCACTAATCTTATCTCCCTGAGGTTGCAGCGGAG
1 CTCCCTGAGGTTACAGTGGAGTACATTGAAGCCACTAATCCTATCTCCCTGAAGTTGCAGCGGAG
*
21043351 CGAATTAAAATAAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGTCTTATC
66 CGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGTCTTATC
* * * *
21043416 TCCCTGAGGTTGCAGCAGAGCAAACTGAGTAAGCAGGTCTTATCCCCCTAAAGTTGCAGTGGGGT
131 TCCCTGAGGTTGCAGCGGAGCAGACTGAGTAAGCAGGTCTTATCCCCCTGAAGTTGCAGTGGGGC
*
21043481 AGACTGAAGATGGCGAATTTTAC
196 AGACTGAAGATGGCGGATTTTAC
* **
21043504 CTCCCTGAGGTTACAGTGGAATACATTGAAGCCACTAATCCTATCTCCCTGAAGTTGCAGTAGAG
1 CTCCCTGAGGTTACAGTGGAGTACATTGAAGCCACTAATCCTATCTCCCTGAAGTTGCAGCGGAG
* *
21043569 TGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGGCTTATC
66 CGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGTCTTATC
* * *
21043634 TCCCTGAAGTTGCAGTGGGGCAGACTGA
131 TCCCTGAGGTTGCAGCGGAGCAGACTGA
21043662 AGCTGGCGAA
Statistics
Matches: 540, Mismatches: 53, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
218 539 1.00
219 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (218 bp):
CTCCCTGAGGTTACAGTGGAGTACATTGAAGCCACTAATCCTATCTCCCTGAAGTTGCAGCGGAG
CGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGTCTTATC
TCCCTGAGGTTGCAGCGGAGCAGACTGAGTAAGCAGGTCTTATCCCCCTGAAGTTGCAGTGGGGC
AGACTGAAGATGGCGGATTTTAC
Found at i:21043241 original size:44 final size:45
Alignment explanation
Indices: 21042972--21043489 Score: 204
Period size: 44 Copynumber: 11.8 Consensus size: 45
21042962 ATCGCATCAA
*
21042972 GTCTTATCTCTCTGAGGTTGCAGTGGAGCAGACTG-AGTAAGCAG
1 GTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAAGTAAGCAG
* * * *
21043016 GTCTTATC-CCTCTGAAGTTGCAGTGGGGCAGACTCAAG-ATGGC-G
1 GTCTTATCTCC-CTGAGGTTGCAGTGGAGCAGACTGAAGTA-AGCAG
* * * * * * **
21043060 GATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCA-CTA-
1 G-TCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAAGTAAGC-AG
* * * * * * * * *
21043105 ATCCTATCTCCCTGAGGTTGTAGCGGAGCGGATTAAAATAA-AAG
1 GTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAAGTAAGCAG
* * * * * *
21043149 ATCTTATCTCTCTGAAGTTGCAGTAGAGTAGA-TCGCA-T---CAG
1 GTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACT-GAAGTAAGCAG
* *
21043190 GTTTTATCTCCCTGAGGTTGCAGCGGAGCAGACT-AAGTAAGCAG
1 GTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAAGTAAGCAG
* * * * *
21043234 GTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTGAAG-ATGGAG
1 GTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAAGTAAGCAG
* ** * * * **
21043278 GATTTTA-CGTCCCTGAGGTTATAGTTGAGTAGATTGAAGCCA-CTA-
1 G-TCTTATC-TCCCTGAGGTTGCAGTGGAGCAGACTGAAGTAAGC-AG
* * * * * *
21043323 ATCTTATCTCCCTGAGGTTGCAGCGGAGC-GAATTAAAATAA-AAG
1 GTCTTATCTCCCTGAGGTTGCAGTGGAGCAG-ACTGAAGTAAGCAG
* * * * * *
21043367 ATCTTATCTCTCTGAAGTTGCAGTAGAGTAGA-TCGCA-T---CAG
1 GTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACT-GAAGTAAGCAG
** *
21043408 GTCTTATCTCCCTGAGGTTGCAGCAGAGCAAACTG-AGTAAGCAG
1 GTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAAGTAAGCAG
* * * * *
21043452 GTCTTATCCCCCTAAAGTTGCAGTGGGGTAGACTGAAG
1 GTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAAG
21043490 ATGGCGAATT
Statistics
Matches: 340, Mismatches: 103, Indels: 61
0.67 0.20 0.12
Matches are distributed among these distances:
40 2 0.01
41 58 0.17
42 2 0.01
43 8 0.02
44 205 0.60
45 62 0.18
46 3 0.01
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (45 bp):
GTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAAGTAAGCAG
Found at i:21043562 original size:174 final size:173
Alignment explanation
Indices: 21043371--21043780 Score: 545
Period size: 174 Copynumber: 2.4 Consensus size: 173
21043361 TAAAAGATCT
* *** * * *
21043371 TATCTCTCTGAAGTTGCAGTAGAGTAGA-TCGCAT-CAGGTCTTATCTCCCTGAGGTTGCAGCAG
1 TATCTCCCTGAAGTTGCAGTAGAGTAGATTAAAATAAAGATCTTATCTCCCTGAAGTTGCAGCAG
* *
21043434 AGCAAACTGAGTAAGCAGGTCTTATCCCCCTAAAGTTGCAGTGGGGTAGACTGAAGATGGCGAAT
66 AGCAAA-T-AG-AAGCAGGGCTTATCCCCCTAAAGTTGCAGTGGGGCAGACTGAAGATGGCGAAT
*
21043499 TTTACCTCCCTGAGGTTACAGTGGAATACATTGAAGCCACTAATCC
128 TTTACCTCCCTAAGGTTACAGTGGAATACATTGAAGCCACTAATCC
* * *
21043545 TATCTCCCTGAAGTTGCAGTAGAGTGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTGCAGTA
1 TATCTCCCTGAAGTTGCAGTAGAGTAGATTAAAAT-AAAGATCTTATCTCCCTGAAGTTGCAGCA
* * * * * * * *
21043610 GAGTAGATCGCATCAGGGCTTATCTCCCTGAAGTTGCAGTGGGGCAGACTGAAGCTGGCGAATTT
65 GAGCAAATAGAAGCAGGGCTTATCCCCCTAAAGTTGCAGTGGGGCAGACTGAAGATGGCGAATTT
*
21043675 TACCTCCCTAAGGTTACAGTGGAGTACATTGAAGCCACTAATCC
130 TACCTCCCTAAGGTTACAGTGGAATACATTGAAGCCACTAATCC
* *
21043719 TATCTCCCTGAAGTTGCAGTAGAGTGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTGCA
1 TATCTCCCTGAAGTTGCAGTAGAGTAGATTAAAAT-AAAGATCTTATCTCCCTGAAGTTGCA
21043781 ATAGAGTAGC
Statistics
Matches: 211, Mismatches: 22, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
174 178 0.84
175 4 0.02
176 1 0.00
177 28 0.13
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (173 bp):
TATCTCCCTGAAGTTGCAGTAGAGTAGATTAAAATAAAGATCTTATCTCCCTGAAGTTGCAGCAG
AGCAAATAGAAGCAGGGCTTATCCCCCTAAAGTTGCAGTGGGGCAGACTGAAGATGGCGAATTTT
ACCTCCCTAAGGTTACAGTGGAATACATTGAAGCCACTAATCC
Found at i:21043765 original size:436 final size:434
Alignment explanation
Indices: 21042886--21043780 Score: 1149
Period size: 436 Copynumber: 2.1 Consensus size: 434
21042876 TGAAGCCCAT
* * ** * **
21042886 AATCCTATCTCCCTTAAGTTGCAGTTGAGCGGATAAAAATAATGGATCTTATCTCTCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGCGGAGCGAATAAAAATAAAAGATCTTATCTCTCTGAAGTTG
* * ** *
21042951 TAGTAAAGTAGATCGCATCAAGTCTTATCTCTCTGAGGTTGCAGTGGAGCAGACTGAGTAAGCAG
66 CAGTAAAGTAGATCGCATCAAGTCTTATCTCCCTGAGGTTGCAGCAGAGCAAACTGAGTAAGCAG
* * *
21043016 GTCTTATCCCTCTGAAGTTGCAGTGGGGCAGACTCAAGATGGCGGATTTTACCTCCCTGAGGTTA
131 GTCTTATCCCCCTAAAGTTGCAGTGGGGCAGACTCAAGATGGCGAATTTTACCTCCCTGAGGTTA
* * * *
21043081 CAGTGGAGTACATTGAAGCCACTAATCCTATCTCCCTGAGGTTGTAGCGGAGCGGATTAAAATAA
196 CAGTGGAATACATTGAAGCCACTAATCCTATCTCCCTGAAGTTGCAGCAGAGCGGATTAAAATAA
** *
21043146 AAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGTTTTATCTCCCTGAGGTTGC
261 AAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGGCTTATCTCCCTGAAGTTGC
* * * *
21043211 AGCGGAGCAGACTAAGTAAGCAGGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTGAAGATGG
326 AGCGGAGCAGACTAAGTAAGCAGATCTTATCCCCCTGAAGTTACAGTGGAGCACACTGAAGAT-G
** * * * ** **
21043276 AGGATTTTACGTCCCTGAGGTTATAGTTGAGTAGATTGAAGCCACT
390 A-GATCCTACGTCCCTGAAGTTACAGTAGAGTAGATTGAAAACAAA
* *
21043322 AATCTTATCTCCCTGAGGTTGCAGCGGAGCGAATTAAAATAAAAGATCTTATCTCTCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGCGGAGCGAATAAAAATAAAAGATCTTATCTCTCTGAAGTTG
* *
21043387 CAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGCAGAGCAAACTGAGTAAGCAG
66 CAGTAAAGTAGATCGCATCAAGTCTTATCTCCCTGAGGTTGCAGCAGAGCAAACTGAGTAAGCAG
* *
21043452 GTCTTATCCCCCTAAAGTTGCAGTGGGGTAGACTGAAGATGGCGAATTTTACCTCCCTGAGGTTA
131 GTCTTATCCCCCTAAAGTTGCAGTGGGGCAGACTCAAGATGGCGAATTTTACCTCCCTGAGGTTA
* *
21043517 CAGTGGAATACATTGAAGCCACTAATCCTATCTCCCTGAAGTTGCAGTAGAGTGGATTAAAATAA
196 CAGTGGAATACATTGAAGCCACTAATCCTATCTCCCTGAAGTTGCAGCAGAGCGGATTAAAATAA
21043582 AAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGGCTTATCTCCCTGAAGTTGC
261 AAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGGCTTATCTCCCTGAAGTTGC
* * * * * *
21043647 AGTGGGGCAGACTGAAGCT-GGC-GAATTTTA-CCTCCCT-AAGGTTACAGTGGAGTACATTGAA
326 AGCGGAGCAGACT-AAG-TAAGCAG-ATCTTATCC-CCCTGAA-GTTACAGTGGAGCACACTGAA
* * *
21043708 GCCACT-A-ATCCTATC-TCCCTGAAGTTGCAGTAGAGTGGATT-AAAATAAA
386 G--A-TGAGATCCTA-CGTCCCTGAAGTTACAGTAGAGTAGATTGAAAACAAA
*
21043757 AGATCTTATCTCTCTGAAGTTGCA
1 A-ATCTTATCTCCCTGAAGTTGCA
21043781 ATAGAGTAGC
Statistics
Matches: 395, Mismatches: 54, Indels: 20
0.84 0.12 0.04
Matches are distributed among these distances:
435 4 0.01
436 356 0.90
437 31 0.08
438 2 0.01
439 1 0.00
440 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (434 bp):
AATCTTATCTCCCTGAAGTTGCAGCGGAGCGAATAAAAATAAAAGATCTTATCTCTCTGAAGTTG
CAGTAAAGTAGATCGCATCAAGTCTTATCTCCCTGAGGTTGCAGCAGAGCAAACTGAGTAAGCAG
GTCTTATCCCCCTAAAGTTGCAGTGGGGCAGACTCAAGATGGCGAATTTTACCTCCCTGAGGTTA
CAGTGGAATACATTGAAGCCACTAATCCTATCTCCCTGAAGTTGCAGCAGAGCGGATTAAAATAA
AAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGGCTTATCTCCCTGAAGTTGC
AGCGGAGCAGACTAAGTAAGCAGATCTTATCCCCCTGAAGTTACAGTGGAGCACACTGAAGATGA
GATCCTACGTCCCTGAAGTTACAGTAGAGTAGATTGAAAACAAA
Found at i:21043776 original size:218 final size:218
Alignment explanation
Indices: 21042886--21043787 Score: 700
Period size: 218 Copynumber: 4.1 Consensus size: 218
21042876 TGAAGCCCAT
* * * * * * **
21042886 AATCCTATCTCCCTTAAGTTGCAGTTGAGCGGATAAAAATAATGGATCTTATCTCTCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGTGAATTAAAATAAAAGATCTTATCTCTCTGAAGTTG
* * * * * * ** *
21042951 TAGTAAAGTAGATCGCATCAAGTCTTATCTCTCTGAGGTTGCAGTGGAGCAGACTGAGTAAGCAG
66 CAGTAGAGTAGATCGCATCAGGGCTTATCTCCCTGAAGTTGCAGCAGAGCAAACTGAGTAAGCAG
* * * * * * * * *** * ** *
21043016 GTCTTATCCCTCTGAAGTTGCAGTGGGGCAGACTCAAGATGGCGGATTTTACCTCCCTGAGGTTA
131 ATCTTATCCCCCTAAAGTTACAGTGGAGTACACTGAAGACCACGAATCCTACCTCCCTGAAGTTA
* * ** **
21043081 CAGTGGAGTACATTGAAGCCACT
196 CAGTAGAATACATTGAAAACAAA
* * * ** * *
21043104 AATCCTATCTCCCTGAGGTTGTAGCGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGTGAATTAAAATAAAAGATCTTATCTCTCTGAAGTTG
** * * * *
21043169 CAGTAGAGTAGATCGCATCAGGTTTTATCTCCCTGAGGTTGCAGCGGAGCAGACTAAGTAAGCAG
66 CAGTAGAGTAGATCGCATCAGGGCTTATCTCCCTGAAGTTGCAGCAGAGCAAACTGAGTAAGCAG
* * * * * * ** * ** * *
21043234 GTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGA-GGATTTTACGTCCCTGAGGTT
131 ATCTTATCCCCCTAAAGTTACAGTGGAGTACACTGAAGA-CCACGAATCCTACCTCCCTGAAGTT
* * * * ** **
21043298 ATAGTTGAGTAGATTGAAGCCACT
195 ACAGTAGAATACATTGAAAACAAA
* ** *
21043322 AATCTTATCTCCCTGAGGTTGCAGCGGAGCGAATTAAAATAAAAGATCTTATCTCTCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGTGAATTAAAATAAAAGATCTTATCTCTCTGAAGTTG
* *
21043387 CAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGCAGAGCAAACTGAGTAAGCAG
66 CAGTAGAGTAGATCGCATCAGGGCTTATCTCCCTGAAGTTGCAGCAGAGCAAACTGAGTAAGCAG
* * * * *** ** *
21043452 GTCTTATCCCCCTAAAGTTGCAGTGGGGTAGACTGAAGATGGCGAATTTTACCTCCCTGAGGTTA
131 ATCTTATCCCCCTAAAGTTACAGTGGAGTACACTGAAGACCACGAATCCTACCTCCCTGAAGTTA
* ** **
21043517 CAGTGGAATACATTGAAGCCACT
196 CAGTAGAATACATTGAAAACAAA
* *
21043540 AATCCTATCTCCCTGAAGTTGCAGTAGAGTGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGTGAATTAAAATAAAAGATCTTATCTCTCTGAAGTTG
** * * *
21043605 CAGTAGAGTAGATCGCATCAGGGCTTATCTCCCTGAAGTTGCAGTGGGGCAGACTGAAGCT-GGC
66 CAGTAGAGTAGATCGCATCAGGGCTTATCTCCCTGAAGTTGCAGCAGAGCAAACTG-AG-TAAGC
* * * * *
21043669 -GAATTTTA-CCTCCCTAAGGTTACAGTGGAGTACATTGAAG-CCACTAATCCTATCTCCCTGAA
129 AG-ATCTTATCC-CCCTAAAGTTACAGTGGAGTACACTGAAGACCACGAATCCTACCTCCCTGAA
* * ** *
21043731 GTTGCAGTAGAGTGGATT-AAAATAAA
192 GTTACAGTAGAATACATTGAAAACAAA
* *
21043757 AGATCTTATCTCTCTGAAGTTGCAATAGAGT
1 A-ATCTTATCTCCCTGAAGTTGCAGTAGAGT
21043788 AGCTCGCATC
Statistics
Matches: 596, Mismatches: 81, Indels: 14
0.86 0.12 0.02
Matches are distributed among these distances:
217 5 0.01
218 557 0.93
219 33 0.06
220 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (218 bp):
AATCTTATCTCCCTGAAGTTGCAGTAGAGTGAATTAAAATAAAAGATCTTATCTCTCTGAAGTTG
CAGTAGAGTAGATCGCATCAGGGCTTATCTCCCTGAAGTTGCAGCAGAGCAAACTGAGTAAGCAG
ATCTTATCCCCCTAAAGTTACAGTGGAGTACACTGAAGACCACGAATCCTACCTCCCTGAAGTTA
CAGTAGAATACATTGAAAACAAA
Found at i:21043788 original size:174 final size:174
Alignment explanation
Indices: 21043449--21043834 Score: 657
Period size: 174 Copynumber: 2.2 Consensus size: 174
21043439 ACTGAGTAAG
* * * *
21043449 CAGGTCTTATCCCCCTAAAGTTGCAGTGGGGTAGACTGAAGATGGCGAATTTTACCTCCCTGAGG
1 CAGGTCTTATCTCCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCGAATTTTACCTCCCTAAGG
21043514 TTACAGTGGAATACATTGAAGCCACTAATCCTATCTCCCTGAAGTTGCAGTAGAGTGGATTAAAA
66 TTACAGTGGAATACATTGAAGCCACTAATCCTATCTCCCTGAAGTTGCAGTAGAGTGGATTAAAA
*
21043579 TAAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCAT
131 TAAAAGATCTTATCTCTCTGAAGTTGCAATAGAGTAGATCGCAT
* *
21043623 CAGGGCTTATCTCCCTGAAGTTGCAGTGGGGCAGACTGAAGCTGGCGAATTTTACCTCCCTAAGG
1 CAGGTCTTATCTCCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCGAATTTTACCTCCCTAAGG
*
21043688 TTACAGTGGAGTACATTGAAGCCACTAATCCTATCTCCCTGAAGTTGCAGTAGAGTGGATTAAAA
66 TTACAGTGGAATACATTGAAGCCACTAATCCTATCTCCCTGAAGTTGCAGTAGAGTGGATTAAAA
*
21043753 TAAAAGATCTTATCTCTCTGAAGTTGCAATAGAGTAGCTCGCAT
131 TAAAAGATCTTATCTCTCTGAAGTTGCAATAGAGTAGATCGCAT
* * *
21043797 CAGGTCTTATCTCCCTGAGGTTGTAGTGGAGCAG-CTGA
1 CAGGTCTTATCTCCCTGAAGTTGCAGTGGGGCAGACTGA
21043835 GAAAACAAGT
Statistics
Matches: 199, Mismatches: 13, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
173 4 0.02
174 195 0.98
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (174 bp):
CAGGTCTTATCTCCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCGAATTTTACCTCCCTAAGG
TTACAGTGGAATACATTGAAGCCACTAATCCTATCTCCCTGAAGTTGCAGTAGAGTGGATTAAAA
TAAAAGATCTTATCTCTCTGAAGTTGCAATAGAGTAGATCGCAT
Found at i:21044013 original size:100 final size:100
Alignment explanation
Indices: 21043887--21044150 Score: 413
Period size: 100 Copynumber: 2.6 Consensus size: 100
21043877 GAAAATAGCG
* *
21043887 AATCTTGCTTCCCCGACATTGTAGTTAAAAAGATTAAAGATACAACGGTGAATCTTACTTTCCAG
1 AATCTTGCTTCCCCGACATTGGAGTTAAAAAGATTAAAGCTACAACGGTGAATCTTACTTTCCAG
*
21043952 GCAGTGCAGTGGAACAGATTAAAGCCACAACGGCA
66 GCAGTGCAGTGGAACAGATTAAAGCCACAACGACA
* *
21043987 AATCTTGCTTCCCCGACATTGGAGTTAAAAACATTAAAGCTACAACGGTGAATCTTACTTCCCAG
1 AATCTTGCTTCCCCGACATTGGAGTTAAAAAGATTAAAGCTACAACGGTGAATCTTACTTTCCAG
* *
21044052 GCGGTGCAGTGGAACATATTAAAGCCACAACGACA
66 GCAGTGCAGTGGAACAGATTAAAGCCACAACGACA
* * * *
21044087 AATCTTGCTTCCCCAACATTGCG-GTTAAAAAGATTGAAGCTACAATGGCGAATCTTACTTTCCA
1 AATCTTGCTTCCCCGACATTG-GAGTTAAAAAGATTAAAGCTACAACGGTGAATCTTACTTTCCA
21044151 AAACTTACGA
Statistics
Matches: 150, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
100 149 0.99
101 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.25
Consensus pattern (100 bp):
AATCTTGCTTCCCCGACATTGGAGTTAAAAAGATTAAAGCTACAACGGTGAATCTTACTTTCCAG
GCAGTGCAGTGGAACAGATTAAAGCCACAACGACA
Found at i:21044141 original size:50 final size:50
Alignment explanation
Indices: 21043884--21044142 Score: 207
Period size: 50 Copynumber: 5.2 Consensus size: 50
21043874 ACTGAAAATA
* * *
21043884 GCGAATCTTGCTTCCCCGACATTGTAGTTAAAAAGATTAAAGATACAACG
1 GCGAATCTTGCTTCCCCAACATTGCAGTTAAAAAGATTAAAGCTACAACG
* * * * * ** * *
21043934 GTGAATCTTACTT-TCCAGGCAGTGCAGTGGAACAGATTAAAGCCACAACG
1 GCGAATCTTGCTTCCCCA-ACATTGCAGTTAAAAAGATTAAAGCTACAACG
* * * *
21043984 GCAAATCTTGCTTCCCCGACATTGGAGTTAAAAACATTAAAGCTACAACG
1 GCGAATCTTGCTTCCCCAACATTGCAGTTAAAAAGATTAAAGCTACAACG
* * * ** ** * * *
21044034 GTGAATCTTACTT-CCCAGGCGGTGCAGTGGAACATATTAAAGCCACAACG
1 GCGAATCTTGCTTCCCCA-ACATTGCAGTTAAAAAGATTAAAGCTACAACG
* * * * *
21044084 ACAAATCTTGCTTCCCCAACATTGCGGTTAAAAAGATTGAAGCTACAATG
1 GCGAATCTTGCTTCCCCAACATTGCAGTTAAAAAGATTAAAGCTACAACG
21044134 GCGAATCTT
1 GCGAATCTT
21044143 ACTTTCCAAA
Statistics
Matches: 150, Mismatches: 55, Indels: 8
0.70 0.26 0.04
Matches are distributed among these distances:
49 5 0.03
50 139 0.93
51 6 0.04
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (50 bp):
GCGAATCTTGCTTCCCCAACATTGCAGTTAAAAAGATTAAAGCTACAACG
Found at i:21046070 original size:202 final size:202
Alignment explanation
Indices: 21045855--21046254 Score: 773
Period size: 202 Copynumber: 2.0 Consensus size: 202
21045845 ATTTAACTCA
*
21045855 TTATATGTTATTTTGACTTGCTTTGTAAATGATTTATTTTAATTTATTTTACATATTATTTTGTT
1 TTATATATTATTTTGACTTGCTTTGTAAATGATTTATTTTAATTTATTTTACATATTATTTTGTT
21045920 TTTAGTTGCTTTATATATATTAATTTTAAAATTATCCTATACTATTTGTTTTAAATTGATTTATA
66 TTTAGTTGCTTTATATATATTAATTTTAAAATTATCCTATACTATTTGTTTTAAATTGATTTATA
*
21045985 TTAGCTATTTAAAACTCGTTTTCACGTACTATTTATTTGTTTTTTTATCACTTATTTAAATTGTT
131 TTAGCTATTTAAAACTCGTTTTCACGTACTACTTATTTGTTTTTTTATCACTTATTTAAATTGTT
21046050 TTACCTT
196 TTACCTT
21046057 TTATATATTATTTTGACTTGCTTTGTAAATGATTTATTTTAATTTATTTTACATATTATTTTGTT
1 TTATATATTATTTTGACTTGCTTTGTAAATGATTTATTTTAATTTATTTTACATATTATTTTGTT
*
21046122 TTTAGTTGCTTTATATATATTAATTTTAAAATTATCCTATACTATTTGTTTTAAATTGATTTGTA
66 TTTAGTTGCTTTATATATATTAATTTTAAAATTATCCTATACTATTTGTTTTAAATTGATTTATA
21046187 TTAGCTATTTAAAACTCGTTTTCACGTACTACTTATTTGTTTTTTTATCACTTATTTAAATTGTT
131 TTAGCTATTTAAAACTCGTTTTCACGTACTACTTATTTGTTTTTTTATCACTTATTTAAATTGTT
21046252 TTA
196 TTA
21046255 TATATCCATC
Statistics
Matches: 195, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
202 195 1.00
ACGTcount: A:0.27, C:0.08, G:0.07, T:0.57
Consensus pattern (202 bp):
TTATATATTATTTTGACTTGCTTTGTAAATGATTTATTTTAATTTATTTTACATATTATTTTGTT
TTTAGTTGCTTTATATATATTAATTTTAAAATTATCCTATACTATTTGTTTTAAATTGATTTATA
TTAGCTATTTAAAACTCGTTTTCACGTACTACTTATTTGTTTTTTTATCACTTATTTAAATTGTT
TTACCTT
Found at i:21053351 original size:20 final size:20
Alignment explanation
Indices: 21053326--21053365 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
21053316 CATAAAATGA
*
21053326 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
21053346 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
21053366 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:21055644 original size:18 final size:20
Alignment explanation
Indices: 21055606--21055646 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
21055596 AAAAAAAAAG
21055606 AGAAAAGAGAAAAGAAAATA
1 AGAAAAGAGAAAAGAAAATA
*
21055626 AGAAAAG-GAAGAG-AAATA
1 AGAAAAGAGAAAAGAAAATA
21055644 AGA
1 AGA
21055647 GAATTGATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 8 0.40
19 5 0.25
20 7 0.35
ACGTcount: A:0.71, C:0.00, G:0.24, T:0.05
Consensus pattern (20 bp):
AGAAAAGAGAAAAGAAAATA
Found at i:21059152 original size:194 final size:194
Alignment explanation
Indices: 21058822--21059196 Score: 741
Period size: 194 Copynumber: 1.9 Consensus size: 194
21058812 GGATGAGGAG
21058822 CATTCTGCTGAGGTAATCAACCTTCATGGATATTATCCAATGATCCCATGTTAAACCATGTTCTG
1 CATTCTGCTGAGGTAATCAACCTTCATGGATATTATCCAATGATCCCATGTTAAACCATGTTCTG
21058887 TTTTTCTGAACCATTTCAGATTATAGTTTTTGTTTCTTAGAATCTCTCTTGTGAAGATAAAAAGA
66 TTTTTCTGAACCATTTCAGATTATAGTTTTTGTTTCTTAGAATCTCTCTTGTGAAGATAAAAAGA
21058952 GGTTGTTGAGCCAGTTGATTCAACTTTCAGTTGTATCTATTATGGCATTTCAGTTGAGCCAGTT
131 GGTTGTTGAGCCAGTTGATTCAACTTTCAGTTGTATCTATTATGGCATTTCAGTTGAGCCAGTT
21059016 CATTCTGCTGAGGTAATCAACCTTCATGGATATTATCCAATGATCCCATGTTAAACCATGTTCTG
1 CATTCTGCTGAGGTAATCAACCTTCATGGATATTATCCAATGATCCCATGTTAAACCATGTTCTG
*
21059081 TTTTTCTGAACCATTTCAGATTATAGTTTTTGTTTCTTAGAATCTCTCTTGTGAAGATAAAAAGC
66 TTTTTCTGAACCATTTCAGATTATAGTTTTTGTTTCTTAGAATCTCTCTTGTGAAGATAAAAAGA
21059146 GGTTGTTGAGCCAGTTGATTCAACTTTCAGTTGTATCTATTATGGCATTTC
131 GGTTGTTGAGCCAGTTGATTCAACTTTCAGTTGTATCTATTATGGCATTTC
21059197 TAACCCTTGT
Statistics
Matches: 180, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
194 180 1.00
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (194 bp):
CATTCTGCTGAGGTAATCAACCTTCATGGATATTATCCAATGATCCCATGTTAAACCATGTTCTG
TTTTTCTGAACCATTTCAGATTATAGTTTTTGTTTCTTAGAATCTCTCTTGTGAAGATAAAAAGA
GGTTGTTGAGCCAGTTGATTCAACTTTCAGTTGTATCTATTATGGCATTTCAGTTGAGCCAGTT
Found at i:21060130 original size:61 final size:61
Alignment explanation
Indices: 21060062--21060252 Score: 203
Period size: 61 Copynumber: 3.2 Consensus size: 61
21060052 TTTATAAAGT
*
21060062 ATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
1 ATCATATATTATGATTTAAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
* * * * * * * * * * *
21060123 ATCATATATTTTAATTAAAATATATTTA-ATAATAATTATTTCA-AATT-A-TATTTTA-TAGT
1 ATCATATATTATGATTTAAGTAAATTCATATAAGAA-TA-TTGATTATTAAGAATTTTATTA-A
*
21060182 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
1 ATCATATATTATGATTTAAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
21060243 ATCATATATT
1 ATCATATATT
21060253 TTAATTAAAA
Statistics
Matches: 98, Mismatches: 24, Indels: 16
0.71 0.17 0.12
Matches are distributed among these distances:
58 5 0.05
59 32 0.33
60 14 0.14
61 42 0.43
62 5 0.05
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (61 bp):
ATCATATATTATGATTTAAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
Found at i:21060272 original size:120 final size:120
Alignment explanation
Indices: 21060050--21060301 Score: 461
Period size: 120 Copynumber: 2.1 Consensus size: 120
21060040 CTTAATTTTA
*
21060050 ATTTTATAAAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAAT
1 ATTTTAT--AGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAAT
21060115 TTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTAT-TTCAAATTAT
64 TTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTAT
21060172 ATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTT
1 ATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTT
21060237 TATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTAT
66 TATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTAT
21060292 ATTTTATAGT
1 ATTTTATAGT
21060302 TATTCTAGTC
Statistics
Matches: 128, Mismatches: 1, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
120 119 0.93
121 2 0.02
122 7 0.05
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (120 bp):
ATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTT
TATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTAT
Found at i:21060389 original size:39 final size:40
Alignment explanation
Indices: 21060333--21060437 Score: 106
Period size: 44 Copynumber: 2.5 Consensus size: 40
21060323 TTCCCTTATG
* *
21060333 CTATTACACCTCCATTCCATTCAACCAAACACA-AGAA-TA
1 CTATTACGCCTCTATTCCATTCAACCAAACA-ATAGAATTA
* *
21060372 CTATTACGCCTCTATTCCATTACATTCAACCAAACAATTGAATTG
1 CTATTACGCCTCTATT-C----CATTCAACCAAACAATAGAATTA
21060417 CTATTACGCCTCTATTCCATT
1 CTATTACGCCTCTATTCCATT
21060438 ACCCCTCTAT
Statistics
Matches: 55, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
39 14 0.25
40 5 0.09
43 1 0.02
44 18 0.33
45 17 0.31
ACGTcount: A:0.33, C:0.30, G:0.05, T:0.31
Consensus pattern (40 bp):
CTATTACGCCTCTATTCCATTCAACCAAACAATAGAATTA
Found at i:21060406 original size:44 final size:45
Alignment explanation
Indices: 21060343--21060439 Score: 144
Period size: 45 Copynumber: 2.2 Consensus size: 45
21060333 CTATTACACC
*
21060343 TCCATTCCATTCAACCAAACACA-AGAA-TACTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACA-ATAGAATTACTATTACGCCTCTAT
* *
21060387 TCCATTACATTCAACCAAACAATTGAATTGCTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACAATAGAATTACTATTACGCCTCTAT
21060432 TCCATTAC
1 TCCATTAC
21060440 CCCTCTATTC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 23 0.48
45 24 0.50
ACGTcount: A:0.34, C:0.30, G:0.05, T:0.31
Consensus pattern (45 bp):
TCCATTACATTCAACCAAACAATAGAATTACTATTACGCCTCTAT
Found at i:21060444 original size:16 final size:16
Alignment explanation
Indices: 21060419--21060483 Score: 112
Period size: 16 Copynumber: 4.1 Consensus size: 16
21060409 TTGAATTGCT
21060419 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
21060435 ATTACCCCTCTATTCC
1 ATTACGCCTCTATTCC
*
21060451 ATTACGCCTCTATTGC
1 ATTACGCCTCTATTCC
21060467 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
21060483 A
1 A
21060484 ATACAGCGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.20, C:0.37, G:0.06, T:0.37
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:21062199 original size:25 final size:25
Alignment explanation
Indices: 21062138--21062208 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 25
21062128 AGCTCTTATC
* *
21062138 AGCTTCCCATTATTCAGCTTGCATG
1 AGCTTCCCGTTATTCAGCTCGCATG
*
21062163 AGCTTCCCGTTATTCAACTCGCATG
1 AGCTTCCCGTTATTCAGCTCGCATG
***
21062188 AGCTTTTTGTTATTCAGCTCG
1 AGCTTCCCGTTATTCAGCTCG
21062209 GAGAAGCTTA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.18, C:0.27, G:0.17, T:0.38
Consensus pattern (25 bp):
AGCTTCCCGTTATTCAGCTCGCATG
Found at i:21063227 original size:13 final size:13
Alignment explanation
Indices: 21063209--21063241 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
21063199 AGCTCAAGGG
*
21063209 CATGTGGCTTGGC
1 CATGTGGCTAGGC
21063222 CATGT-GCTAGGC
1 CATGTGGCTAGGC
21063234 CATGTGGC
1 CATGTGGC
21063242 CCAAGTCAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.12, C:0.24, G:0.36, T:0.27
Consensus pattern (13 bp):
CATGTGGCTAGGC
Found at i:21078526 original size:20 final size:21
Alignment explanation
Indices: 21078487--21078528 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
21078477 TATTGATTTA
* *
21078487 CAAAAATTATTGATACCTTTT
1 CAAAAAGTATCGATACCTTTT
*
21078508 CAAAAAGTATCGATACTTTTT
1 CAAAAAGTATCGATACCTTTT
21078529 ACTAGGTATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.40
Consensus pattern (21 bp):
CAAAAAGTATCGATACCTTTT
Found at i:21081513 original size:33 final size:32
Alignment explanation
Indices: 21081476--21081538 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
21081466 TTATTAGCTT
* *
21081476 TAAATTTAAAATGAATTTTATATAGGGGGAGCC
1 TAAATTGAAAATGAATTTTAT-TAAGGGGAGCC
*
21081509 TAAATTGAAGATGAATTTTATTAAGGGGAG
1 TAAATTGAAAATGAATTTTATTAAGGGGAG
21081539 AAATTTATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 8 0.30
33 19 0.70
ACGTcount: A:0.40, C:0.03, G:0.24, T:0.33
Consensus pattern (32 bp):
TAAATTGAAAATGAATTTTATTAAGGGGAGCC
Found at i:21081664 original size:22 final size:24
Alignment explanation
Indices: 21081621--21081664 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
21081611 TAATAATAAG
21081621 TTTTGATATAACAAATTAAAGTGT
1 TTTTGATATAACAAATTAAAGTGT
*
21081645 TTTTGA-ATAA-AAGTTAAAGT
1 TTTTGATATAACAAATTAAAGT
21081665 TGAACAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.43, C:0.02, G:0.14, T:0.41
Consensus pattern (24 bp):
TTTTGATATAACAAATTAAAGTGT
Found at i:21084218 original size:25 final size:25
Alignment explanation
Indices: 21084189--21084271 Score: 96
Period size: 25 Copynumber: 3.3 Consensus size: 25
21084179 CACAACTCTT
21084189 ATGAGCTTCCCGA-TACTCAGCTCGC
1 ATGAGCTTCCC-ATTACTCAGCTCGC
* *
21084214 ATGAGGTTCCCATTATTCAGCTCGC
1 ATGAGCTTCCCATTACTCAGCTCGC
* * *
21084239 ATGAGCTTCCCTTTATTCAGCTCGG
1 ATGAGCTTCCCATTACTCAGCTCGC
*
21084264 AGGAGCTT
1 ATGAGCTT
21084272 ACTGTTTACA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
24 1 0.02
25 50 0.98
ACGTcount: A:0.19, C:0.29, G:0.22, T:0.30
Consensus pattern (25 bp):
ATGAGCTTCCCATTACTCAGCTCGC
Found at i:21087707 original size:21 final size:20
Alignment explanation
Indices: 21087683--21087733 Score: 75
Period size: 21 Copynumber: 2.5 Consensus size: 20
21087673 ACTAAGTTAA
*
21087683 AAGAGTTGAAAGCAGTTTTTC
1 AAGAGTTGAAA-CAGTTTTGC
21087704 AAGAGTTGGAAACAGTTTTGC
1 AAGAGTT-GAAACAGTTTTGC
21087725 AAGAGTTGA
1 AAGAGTTGA
21087734 CTGATAGGGG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 2 0.07
21 22 0.79
22 4 0.14
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.29
Consensus pattern (20 bp):
AAGAGTTGAAACAGTTTTGC
Found at i:21088481 original size:15 final size:15
Alignment explanation
Indices: 21088461--21088490 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
21088451 TTTGAATGGT
21088461 CTGATAAATGTCAGC
1 CTGATAAATGTCAGC
21088476 CTGATAAATGTCAGC
1 CTGATAAATGTCAGC
21088491 AAAGTTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (15 bp):
CTGATAAATGTCAGC
Found at i:21093652 original size:14 final size:14
Alignment explanation
Indices: 21093633--21093666 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
21093623 GCCTAATGTA
21093633 GCCTACCCCGTGTG
1 GCCTACCCCGTGTG
21093647 GCCTACCCCGTGTG
1 GCCTACCCCGTGTG
21093661 GCCTAC
1 GCCTAC
21093667 AAGGCCACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.09, C:0.44, G:0.26, T:0.21
Consensus pattern (14 bp):
GCCTACCCCGTGTG
Found at i:21097175 original size:13 final size:13
Alignment explanation
Indices: 21097157--21097185 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
21097147 TTTTTAGACT
21097157 TGATACAAGCGAA
1 TGATACAAGCGAA
21097170 TGATACAAGCGAA
1 TGATACAAGCGAA
21097183 TGA
1 TGA
21097186 CATGTTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.45, C:0.14, G:0.24, T:0.17
Consensus pattern (13 bp):
TGATACAAGCGAA
Found at i:21099745 original size:36 final size:36
Alignment explanation
Indices: 21099692--21099761 Score: 122
Period size: 36 Copynumber: 1.9 Consensus size: 36
21099682 ATTTAAGGAG
* *
21099692 TTCGAATATAAGCATTTTTGTAATGTTTTAGTTATC
1 TTCGAATACAAGAATTTTTGTAATGTTTTAGTTATC
21099728 TTCGAATACAAGAATTTTTGTAATGTTTTAGTTA
1 TTCGAATACAAGAATTTTTGTAATGTTTTAGTTA
21099762 AGTTTTCTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.30, C:0.07, G:0.14, T:0.49
Consensus pattern (36 bp):
TTCGAATACAAGAATTTTTGTAATGTTTTAGTTATC
Found at i:21101472 original size:8 final size:8
Alignment explanation
Indices: 21101461--21101485 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
21101451 CAACCACTAA
21101461 TCTTCAAT
1 TCTTCAAT
21101469 TCTTCAAT
1 TCTTCAAT
21101477 TCTTCAAT
1 TCTTCAAT
21101485 T
1 T
21101486 TGGCCCTCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (8 bp):
TCTTCAAT
Found at i:21104622 original size:25 final size:25
Alignment explanation
Indices: 21104593--21104657 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
21104583 ATGAGCTATA
* * *
21104593 AACGGTAAGCTCCTCCGAGCTGAAT
1 AACGGTAAGCTCATACAAGCTGAAT
*
21104618 AACGGTAAGCTCATACAAGCTGAGT
1 AACGGTAAGCTCATACAAGCTGAAT
*
21104643 ATCGGTAAGCTCATA
1 AACGGTAAGCTCATA
21104658 AGAGTTGGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.22
Consensus pattern (25 bp):
AACGGTAAGCTCATACAAGCTGAAT
Found at i:21106133 original size:3 final size:3
Alignment explanation
Indices: 21106125--21106158 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
21106115 GATTTTAATT
21106125 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
21106159 ATATAACATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:21106212 original size:9 final size:10
Alignment explanation
Indices: 21106156--21106225 Score: 58
Period size: 9 Copynumber: 7.1 Consensus size: 10
21106146 TTATTATTAT
21106156 TATATATA-A
1 TATATATACA
*
21106165 CATATATACA
1 TATATATACA
*
21106175 TATAT-TAAA
1 TATATATACA
21106184 CTATCATA-ACA
1 -TAT-ATATACA
*
21106195 TATATATATA
1 TATATATACA
21106205 TAATATATA-A
1 T-ATATATACA
21106215 TATATATACA
1 TATATATACA
21106225 T
1 T
21106226 TTACTCCACT
Statistics
Matches: 49, Mismatches: 5, Indels: 13
0.73 0.07 0.19
Matches are distributed among these distances:
9 20 0.41
10 18 0.37
11 11 0.22
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (10 bp):
TATATATACA
Found at i:21106424 original size:13 final size:13
Alignment explanation
Indices: 21106406--21106430 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21106396 AATATGACTC
21106406 TGTAAATATTTAA
1 TGTAAATATTTAA
21106419 TGTAAATATTTA
1 TGTAAATATTTA
21106431 CAGGTCCAGT
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGTAAATATTTAA
Found at i:21109890 original size:16 final size:17
Alignment explanation
Indices: 21109871--21109909 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
21109861 AAGAAATTTG
21109871 AAAAGAAATTCAAAAAAA
1 AAAAGAAATTC-AAAAAA
21109889 AAGAAGAAATTCAAAAAA
1 AA-AAGAAATTCAAAAAA
21109907 AAA
1 AAA
21109910 TTCAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 1 0.05
18 10 0.50
19 9 0.45
ACGTcount: A:0.77, C:0.05, G:0.08, T:0.10
Consensus pattern (17 bp):
AAAAGAAATTCAAAAAA
Found at i:21109896 original size:31 final size:31
Alignment explanation
Indices: 21109853--21109923 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 31
21109843 AAATATTTTG
* ** *
21109853 AAAAAAACAAGAAATTTGAAAAGAAATTCAA
1 AAAAAAAGAAGAAATTCAAAAAAAAATTCAA
21109884 AAAAAAAGAAGAAATTCAAAAAAAAATTCAA
1 AAAAAAAGAAGAAATTCAAAAAAAAATTCAA
21109915 AAAAAAAGA
1 AAAAAAAGA
21109924 GTGAAGTTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.73, C:0.06, G:0.08, T:0.13
Consensus pattern (31 bp):
AAAAAAAGAAGAAATTCAAAAAAAAATTCAA
Found at i:21109897 original size:19 final size:19
Alignment explanation
Indices: 21109873--21109909 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
21109863 GAAATTTGAA
21109873 AAGAAATTCAAAAAAAAAG
1 AAGAAATTCAAAAAAAAAG
21109892 AAGAAATTCAAAAAAAAA
1 AAGAAATTCAAAAAAAAA
21109910 TTCAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.76, C:0.05, G:0.08, T:0.11
Consensus pattern (19 bp):
AAGAAATTCAAAAAAAAAG
Found at i:21109918 original size:12 final size:12
Alignment explanation
Indices: 21109895--21109921 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
21109885 AAAAAAGAAG
21109895 AAATTCAAAAAA
1 AAATTCAAAAAA
21109907 AAATTCAAAAAA
1 AAATTCAAAAAA
21109919 AAA
1 AAA
21109922 GAGTGAAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.78, C:0.07, G:0.00, T:0.15
Consensus pattern (12 bp):
AAATTCAAAAAA
Found at i:21111097 original size:32 final size:32
Alignment explanation
Indices: 21111061--21111124 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 32
21111051 AACGAAAGTG
21111061 AAAAAGAAAA-AGAGCCTG-AAAAGAAATCGAGT
1 AAAAA-AAAAGAGAGCCTGTAAAAGAAA-CGAGT
21111093 AAAAAAAAAGAGAGCCTGTAAAAGAAACGAGT
1 AAAAAAAAAGAGAGCCTGTAAAAGAAACGAGT
21111125 GAAGAGAGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
31 4 0.13
32 18 0.60
33 8 0.27
ACGTcount: A:0.59, C:0.09, G:0.22, T:0.09
Consensus pattern (32 bp):
AAAAAAAAAGAGAGCCTGTAAAAGAAACGAGT
Found at i:21115546 original size:29 final size:30
Alignment explanation
Indices: 21115509--21115567 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
21115499 GAATTGGATC
*
21115509 AAATCAAAATTTCATGTATAAAATTGCACA
1 AAATCAAAAATTCATGTATAAAATTGCACA
* *
21115539 AAAT-AAAAATTCATGTTTACAATTGCACA
1 AAATCAAAAATTCATGTATAAAATTGCACA
21115568 TTAAACTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.49, C:0.14, G:0.07, T:0.31
Consensus pattern (30 bp):
AAATCAAAAATTCATGTATAAAATTGCACA
Found at i:21117422 original size:14 final size:13
Alignment explanation
Indices: 21117396--21117421 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21117386 GTTTTGAATT
21117396 TATTTTTAAAAAA
1 TATTTTTAAAAAA
21117409 TATTTTTAAAAAA
1 TATTTTTAAAAAA
21117422 AAATTTATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TATTTTTAAAAAA
Found at i:21122785 original size:61 final size:62
Alignment explanation
Indices: 21122689--21122817 Score: 242
Period size: 61 Copynumber: 2.1 Consensus size: 62
21122679 CTTCCACATA
21122689 CGAAAAACCTGTTCACAAACGCATAACCATTAAAAATCAAAGAATAATCGAATAGAAAAACT
1 CGAAAAACCTGTTCACAAACGCATAACCATTAAAAATCAAAGAATAATCGAATAGAAAAACT
21122751 CGAAAAACCTG-TCACAAACGCATAACCATTAAAAATCAAAGAATAATCGAATAGAAAAACT
1 CGAAAAACCTGTTCACAAACGCATAACCATTAAAAATCAAAGAATAATCGAATAGAAAAACT
*
21122812 AGAAAA
1 CGAAAA
21122818 CATCCCATGT
Statistics
Matches: 66, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
61 55 0.83
62 11 0.17
ACGTcount: A:0.55, C:0.19, G:0.10, T:0.16
Consensus pattern (62 bp):
CGAAAAACCTGTTCACAAACGCATAACCATTAAAAATCAAAGAATAATCGAATAGAAAAACT
Found at i:21123952 original size:14 final size:14
Alignment explanation
Indices: 21123933--21123962 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
21123923 TCCCATGTGT
*
21123933 TTGAAAATGAATTC
1 TTGAAAAAGAATTC
21123947 TTGAAAAAGAATTC
1 TTGAAAAAGAATTC
21123961 TT
1 TT
21123963 TTGGTCAAAC
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:0.43, C:0.07, G:0.13, T:0.37
Consensus pattern (14 bp):
TTGAAAAAGAATTC
Found at i:21125289 original size:26 final size:26
Alignment explanation
Indices: 21125258--21125311 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
21125248 TTTGTATGTG
21125258 TATTTGAAATATTTCACATATAAAAA
1 TATTTGAAATATTTCACATATAAAAA
*
21125284 TATTTGAAATATTTTACATATAAAAA
1 TATTTGAAATATTTCACATATAAAAA
21125310 TA
1 TA
21125312 ATAATGATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.41
Consensus pattern (26 bp):
TATTTGAAATATTTCACATATAAAAA
Done.