Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 47 of 228
Found at i:14141902 original size:8 final size:8
Alignment explanation
Indices: 14141889--14141929 Score: 64
Period size: 8 Copynumber: 4.9 Consensus size: 8
14141879 TAATCAATAT
14141889 TTTTTTTC
1 TTTTTTTC
14141897 TTTTTTGATC
1 TTTTTT--TC
14141907 TTTTTTTC
1 TTTTTTTC
14141915 TTTTTTTC
1 TTTTTTTC
14141923 TTTTTTT
1 TTTTTTT
14141930 ACAAGAACAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
8 23 0.74
10 8 0.26
ACGTcount: A:0.02, C:0.10, G:0.02, T:0.85
Consensus pattern (8 bp):
TTTTTTTC
Found at i:14141912 original size:18 final size:16
Alignment explanation
Indices: 14141889--14141929 Score: 64
Period size: 18 Copynumber: 2.4 Consensus size: 16
14141879 TAATCAATAT
14141889 TTTTTTTCTTTTTTGATC
1 TTTTTTTCTTTTTT--TC
14141907 TTTTTTTCTTTTTTTC
1 TTTTTTTCTTTTTTTC
14141923 TTTTTTT
1 TTTTTTT
14141930 ACAAGAACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 9 0.39
18 14 0.61
ACGTcount: A:0.02, C:0.10, G:0.02, T:0.85
Consensus pattern (16 bp):
TTTTTTTCTTTTTTTC
Found at i:14142901 original size:23 final size:22
Alignment explanation
Indices: 14142875--14142949 Score: 60
Period size: 23 Copynumber: 3.2 Consensus size: 22
14142865 AATAAGTCTA
*
14142875 AAAAAATAAATAAAAATAAAAAT
1 AAAAAACAAA-AAAAATAAAAAT
* *
14142898 AAAACAACGAAAAAAATAAACAT
1 AAAA-AACAAAAAAAATAAAAAT
* *
14142921 AAAAAGAAAAAAGAAAACTAAAAAG
1 AAAAA-ACAAAA-AAAA-TAAAAAT
14142946 AAAA
1 AAAA
14142950 CAAATAAACT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
22 1 0.02
23 23 0.56
24 8 0.20
25 9 0.22
ACGTcount: A:0.80, C:0.05, G:0.05, T:0.09
Consensus pattern (22 bp):
AAAAAACAAAAAAAATAAAAAT
Found at i:14142916 original size:29 final size:28
Alignment explanation
Indices: 14142877--14142942 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 28
14142867 TAAGTCTAAA
*
14142877 AAAATAAATAAAAATAAAAATAAAACAACG
1 AAAATAAATAAAAATAAAAAGAAAA-AA-G
*
14142907 AAAA-AAATAAACATAAAAAGAAAAAAG
1 AAAATAAATAAAAATAAAAAGAAAAAAG
14142934 AAAACTAAA
1 AAAA-TAAA
14142943 AAGAAAACAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
27 5 0.16
28 2 0.06
29 21 0.66
30 4 0.12
ACGTcount: A:0.79, C:0.06, G:0.05, T:0.11
Consensus pattern (28 bp):
AAAATAAATAAAAATAAAAAGAAAAAAG
Found at i:14142918 original size:16 final size:15
Alignment explanation
Indices: 14142874--14142930 Score: 51
Period size: 17 Copynumber: 3.5 Consensus size: 15
14142864 AAATAAGTCT
*
14142874 AAAAAAATAAATAAA
1 AAAAAAATAAACAAA
*
14142889 AATAAAAATAAAACAACG
1 AA-AAAAAT-AAACAA-A
14142907 AAAAAAATAAACATAA
1 AAAAAAATAAACA-AA
14142923 AAAGAAAA
1 AAA-AAAA
14142931 AAGAAAACTA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
15 2 0.06
16 14 0.41
17 16 0.47
18 2 0.06
ACGTcount: A:0.81, C:0.05, G:0.04, T:0.11
Consensus pattern (15 bp):
AAAAAAATAAACAAA
Found at i:14142932 original size:19 final size:19
Alignment explanation
Indices: 14142906--14142949 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
14142896 ATAAAACAAC
14142906 GAAAAAA-ATAAACATAAAAA
1 GAAAAAAGA-AAAC-TAAAAA
14142926 GAAAAAAGAAAACTAAAAA
1 GAAAAAAGAAAACTAAAAA
14142945 GAAAA
1 GAAAA
14142950 CAAATAAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 11 0.48
20 11 0.48
21 1 0.04
ACGTcount: A:0.80, C:0.05, G:0.09, T:0.07
Consensus pattern (19 bp):
GAAAAAAGAAAACTAAAAA
Found at i:14142944 original size:33 final size:33
Alignment explanation
Indices: 14142872--14142944 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 33
14142862 CGAAATAAGT
*
14142872 CTAAAAAAATAAATAAAAATAAAAATAAAACAA
1 CTAAAAAAATAAATAAAAAGAAAAATAAAACAA
* *
14142905 CGAAAAAAATAAACATAAAAAGAAAAA-AGAA-AA
1 CTAAAAAAAT-AA-ATAAAAAGAAAAATAAAACAA
14142938 CTAAAAA
1 CTAAAAA
14142945 GAAAACAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
33 17 0.50
34 5 0.15
35 12 0.35
ACGTcount: A:0.78, C:0.07, G:0.04, T:0.11
Consensus pattern (33 bp):
CTAAAAAAATAAATAAAAAGAAAAATAAAACAA
Found at i:14142959 original size:20 final size:19
Alignment explanation
Indices: 14142874--14142959 Score: 76
Period size: 20 Copynumber: 4.7 Consensus size: 19
14142864 AAATAAGTCT
14142874 AAAAAAATAAA-T-AAAA-
1 AAAAAAATAAACTAAAAAG
* * *
14142890 ATAAAAATAAA--ACAACG
1 AAAAAAATAAACTAAAAAG
14142907 AAAAAAATAAACATAAAAAG
1 AAAAAAATAAAC-TAAAAAG
14142927 AAAAAAGA-AAACTAAAAAG
1 AAAAAA-ATAAACTAAAAAG
14142946 AAAACAAATAAACT
1 AAAA-AAATAAACT
14142960 CAATGATCCT
Statistics
Matches: 56, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
16 12 0.21
17 10 0.18
19 12 0.21
20 21 0.38
21 1 0.02
ACGTcount: A:0.78, C:0.07, G:0.05, T:0.10
Consensus pattern (19 bp):
AAAAAAATAAACTAAAAAG
Found at i:14144158 original size:9 final size:8
Alignment explanation
Indices: 14144140--14144225 Score: 50
Period size: 9 Copynumber: 10.2 Consensus size: 8
14144130 ATAGCGAAGC
14144140 AAAAAAAT
1 AAAAAAAT
14144148 AAAAGAAAT
1 AAAA-AAAT
*
14144157 AAACATAAT
1 AAA-AAAAT
14144166 -AAAAAAT
1 AAAAAAAT
*
14144173 AGAAAGAAT
1 A-AAAAAAT
14144182 AAATAAGAAT
1 AAA-AA-AAT
*
14144192 -AATAAAT
1 AAAAAAAT
*
14144199 AAGAATAAT
1 AA-AAAAAT
*
14144208 AAATAAAT
1 AAAAAAAT
*
14144216 ATAAAAAT
1 AAAAAAAT
14144224 AA
1 AA
14144226 TAATAAGGAA
Statistics
Matches: 58, Mismatches: 12, Indels: 16
0.67 0.14 0.19
Matches are distributed among these distances:
7 7 0.12
8 21 0.36
9 26 0.45
10 4 0.07
ACGTcount: A:0.74, C:0.01, G:0.06, T:0.19
Consensus pattern (8 bp):
AAAAAAAT
Found at i:14144183 original size:19 final size:19
Alignment explanation
Indices: 14144161--14144228 Score: 66
Period size: 22 Copynumber: 3.4 Consensus size: 19
14144151 AGAAATAAAC
*
14144161 ATAATAAAAAATAGAAAGA
1 ATAATAAAAAATAAAAAGA
14144180 ATAAATAAGAATAATAAATAAGA
1 AT-AATAA-AA-AATAAA-AAGA
*
14144203 ATAATAAATAAATATAAA-A
1 ATAATAAA-AAATAAAAAGA
14144222 ATAATAA
1 ATAATAA
14144229 TAAGGAAAAG
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
19 10 0.24
20 7 0.17
21 8 0.19
22 11 0.26
23 6 0.14
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (19 bp):
ATAATAAAAAATAAAAAGA
Found at i:14144192 original size:26 final size:24
Alignment explanation
Indices: 14144141--14144222 Score: 83
Period size: 26 Copynumber: 3.2 Consensus size: 24
14144131 TAGCGAAGCA
* *
14144141 AAAAAATAAAAGAAATAAACATAAT
1 AAAAAATAAAAG-AATAAATAAAAT
14144166 AAAAAATAGAAAGAATAAATAAGAAT
1 AAAAAATA-AAAGAATAAATAA-AAT
* *
14144192 AATAAATAAGAATAATAAATAAATAT
1 AAAAAATAA-AAGAATAAATAAA-AT
14144218 AAAAA
1 AAAAA
14144223 TAATAATAAG
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
25 17 0.35
26 31 0.65
ACGTcount: A:0.74, C:0.01, G:0.06, T:0.18
Consensus pattern (24 bp):
AAAAAATAAAAGAATAAATAAAAT
Found at i:14144195 original size:13 final size:13
Alignment explanation
Indices: 14144179--14144231 Score: 74
Period size: 13 Copynumber: 4.2 Consensus size: 13
14144169 AAATAGAAAG
14144179 AATAAATAAGAAT
1 AATAAATAAGAAT
14144192 AATAAATAAGAAT
1 AATAAATAAGAAT
14144205 AATAAATAA-ATAT
1 AATAAATAAGA-AT
*
14144218 AA-AAATAATAAT
1 AATAAATAAGAAT
14144230 AA
1 AA
14144232 GGAAAAGGGT
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
12 11 0.29
13 27 0.71
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.25
Consensus pattern (13 bp):
AATAAATAAGAAT
Found at i:14152279 original size:16 final size:16
Alignment explanation
Indices: 14152258--14152290 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
14152248 TTACCCAAGT
*
14152258 ACAATGAGCAATGAGA
1 ACAATGAACAATGAGA
14152274 ACAATGAACAATGAGA
1 ACAATGAACAATGAGA
14152290 A
1 A
14152291 AAAAAACATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.55, C:0.12, G:0.21, T:0.12
Consensus pattern (16 bp):
ACAATGAACAATGAGA
Found at i:14153849 original size:29 final size:28
Alignment explanation
Indices: 14153816--14153897 Score: 73
Period size: 29 Copynumber: 2.9 Consensus size: 28
14153806 CATTAACATC
*
14153816 AATAAAAGTTATAAATATTATTAAATTTT
1 AATAAAA-TTATAAATATTATTAAAATTT
14153845 AATAAAAAATT-TAAATATTA--AAAATTT
1 AAT--AAAATTATAAATATTATTAAAATTT
*
14153872 AGTAAAATTA-AAATATATATATAAAA
1 AATAAAATTATAAATAT-TAT-TAAAA
14153898 ATCGTAAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 14
0.73 0.03 0.23
Matches are distributed among these distances:
25 12 0.27
26 2 0.05
27 8 0.18
29 16 0.36
30 2 0.05
31 4 0.09
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (28 bp):
AATAAAATTATAAATATTATTAAAATTT
Found at i:14153912 original size:19 final size:19
Alignment explanation
Indices: 14153890--14153955 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
14153880 TAAAATATAT
14153890 ATATAAAAATCGTAAAAAA
1 ATATAAAAATCGTAAAAAA
* **
14153909 ATATAAAAAATTGTAAAATT
1 ATAT-AAAAATCGTAAAAAA
* * *
14153929 TTATAAAGATCGTAAAGAA
1 ATATAAAAATCGTAAAAAA
*
14153948 TTATAAAA
1 ATATAAAA
14153956 TATGTAGAAA
Statistics
Matches: 36, Mismatches: 10, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
19 21 0.58
20 15 0.42
ACGTcount: A:0.61, C:0.03, G:0.08, T:0.29
Consensus pattern (19 bp):
ATATAAAAATCGTAAAAAA
Found at i:14154209 original size:16 final size:16
Alignment explanation
Indices: 14154188--14154218 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
14154178 TTTTATAAAA
14154188 TTTTACAATTTTTATT
1 TTTTACAATTTTTATT
14154204 TTTTACAATTTTTAT
1 TTTTACAATTTTTAT
14154219 AAAAAAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTACAATTTTTATT
Found at i:14154234 original size:36 final size:35
Alignment explanation
Indices: 14154167--14154237 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
14154157 AAAAGTTAAT
** **
14154167 TTTTTTATGATTTTTATAAAATTTTACAATTTTTA
1 TTTTTTACAATTTTTATAAAAAATTACAATTTTTA
*
14154202 TTTTTTACAATTTTTATAAAAAAATTATAATTTTTA
1 TTTTTTACAATTTTTAT-AAAAAATTACAATTTTTA
14154238 ATAAATTTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
35 15 0.50
36 15 0.50
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (35 bp):
TTTTTTACAATTTTTATAAAAAATTACAATTTTTA
Found at i:14154268 original size:26 final size:28
Alignment explanation
Indices: 14154231--14154285 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
14154221 AAAAATTATA
*
14154231 ATTTTTAAT-AAATTTAA-ATTTTTTTT
1 ATTTTTAATAAAATTTAATAATTTTTTT
*
14154257 ATTTTTATTAAAATTTAATAATTTTTTT
1 ATTTTTAATAAAATTTAATAATTTTTTT
14154285 A
1 A
14154286 AAATTTATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 8 0.32
27 8 0.32
28 9 0.36
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (28 bp):
ATTTTTAATAAAATTTAATAATTTTTTT
Found at i:14154300 original size:18 final size:19
Alignment explanation
Indices: 14154255--14154301 Score: 69
Period size: 18 Copynumber: 2.5 Consensus size: 19
14154245 TAAATTTTTT
14154255 TTATTTTTATTAAAATTTAA
1 TTATTTTT-TTAAAATTTAA
*
14154275 TAATTTTTTTAAAATTT-A
1 TTATTTTTTTAAAATTTAA
14154293 TTATTTTTT
1 TTATTTTTT
14154302 ATAATTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 9 0.36
19 9 0.36
20 7 0.28
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
TTATTTTTTTAAAATTTAA
Found at i:14162002 original size:18 final size:18
Alignment explanation
Indices: 14161981--14162017 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
14161971 AAATTCACAT
14161981 ATTTT-AATAATTTTAAAA
1 ATTTTAAATAA-TTTAAAA
14161999 ATTTTAAATAATTTAAAA
1 ATTTTAAATAATTTAAAA
14162017 A
1 A
14162018 ACTTCTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTTTAAATAATTTAAAA
Found at i:14162015 original size:9 final size:10
Alignment explanation
Indices: 14161981--14162012 Score: 50
Period size: 9 Copynumber: 3.4 Consensus size: 10
14161971 AAATTCACAT
14161981 ATTTT-AATA
1 ATTTTAAATA
14161990 ATTTTAAA-A
1 ATTTTAAATA
14161999 ATTTTAAATA
1 ATTTTAAATA
14162009 ATTT
1 ATTT
14162013 AAAAAACTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 14 0.67
10 7 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
ATTTTAAATA
Found at i:14162018 original size:19 final size:18
Alignment explanation
Indices: 14161981--14162018 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
14161971 AAATTCACAT
*
14161981 ATTTTAATAATTTTAAAA
1 ATTTTAATAATTTAAAAA
14161999 ATTTTAAATAATTTAAAAA
1 ATTTT-AATAATTTAAAAA
14162018 A
1 A
14162019 CTTCTATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATTTTAATAATTTAAAAA
Found at i:14162151 original size:21 final size:21
Alignment explanation
Indices: 14162127--14162178 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
14162117 CATTGTTTCT
*
14162127 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
14162148 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
14162169 AATCTCACCG
1 AATCTCACCG
14162179 TCACCGCTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.31, C:0.37, G:0.10, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:14167138 original size:19 final size:19
Alignment explanation
Indices: 14167097--14167139 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
14167087 AATTGAACTG
*
14167097 ATTTTTTTATAATTTTTTA
1 ATTTTTTTATAATTTTTAA
14167116 ATTTTTTTAT-ATTTTTAA
1 ATTTTTTTATAATTTTTAA
14167134 TATTTT
1 -ATTTT
14167140 ATTTGCTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (19 bp):
ATTTTTTTATAATTTTTAA
Found at i:14167449 original size:7 final size:7
Alignment explanation
Indices: 14167439--14167480 Score: 84
Period size: 7 Copynumber: 6.0 Consensus size: 7
14167429 TATTTTTTGA
14167439 AAAATTT
1 AAAATTT
14167446 AAAATTT
1 AAAATTT
14167453 AAAATTT
1 AAAATTT
14167460 AAAATTT
1 AAAATTT
14167467 AAAATTT
1 AAAATTT
14167474 AAAATTT
1 AAAATTT
14167481 TTTATTTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
AAAATTT
Found at i:14167495 original size:6 final size:7
Alignment explanation
Indices: 14167477--14167501 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
14167467 AAAATTTAAA
14167477 ATTTTTT
1 ATTTTTT
14167484 ATTTTTT
1 ATTTTTT
14167491 ATTTTTT
1 ATTTTTT
14167498 ATTT
1 ATTT
14167502 AAAATATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
ATTTTTT
Found at i:14168202 original size:16 final size:15
Alignment explanation
Indices: 14168175--14168227 Score: 56
Period size: 16 Copynumber: 3.5 Consensus size: 15
14168165 ATTATAACAC
14168175 TAATTATCATATTAT-
1 TAATTAT-ATATTATA
14168190 TAAATTAATATATTATA
1 T-AATT-ATATATTATA
*
14168207 TAATTATATATTTTA
1 TAATTATATATTATA
14168222 T-ATTAT
1 TAATTAT
14168228 CATTAATTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 5 0.15
15 11 0.32
16 15 0.44
17 3 0.09
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (15 bp):
TAATTATATATTATA
Found at i:14168204 original size:8 final size:7
Alignment explanation
Indices: 14168177--14168286 Score: 50
Period size: 7 Copynumber: 15.9 Consensus size: 7
14168167 TATAACACTA
14168177 ATTATCAT
1 ATTAT-AT
*
14168185 ATTATTAA
1 ATTA-TAT
14168193 ATTAATAT
1 ATT-ATAT
14168201 ATTATAT
1 ATTATAT
14168208 AATTATAT
1 -ATTATAT
*
14168216 ATTTTAT
1 ATTATAT
*
14168223 ATTAT-C
1 ATTATAT
14168229 ATTA-AT
1 ATTATAT
* *
14168235 TTTAGAT
1 ATTATAT
*
14168242 TTTATAT
1 ATTATAT
14168249 ATT-T-T
1 ATTATAT
* *
14168254 AATAAAT
1 ATTATAT
*
14168261 ATTATTT
1 ATTATAT
*
14168268 TTTATAT
1 ATTATAT
14168275 ATT-TAT
1 ATTATAT
*
14168281 AATATA
1 ATTATA
14168287 AATAATTATA
Statistics
Matches: 76, Mismatches: 18, Indels: 17
0.68 0.16 0.15
Matches are distributed among these distances:
5 3 0.04
6 13 0.17
7 38 0.50
8 20 0.26
9 2 0.03
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.56
Consensus pattern (7 bp):
ATTATAT
Found at i:14168234 original size:24 final size:22
Alignment explanation
Indices: 14168198--14168248 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 22
14168188 ATTAAATTAA
*
14168198 TATATTATATAATTATATATTT
1 TATATTATATAATTATAGATTT
*
14168220 TATATTATCATTAATTTTAGATTT
1 TATATTAT-A-TAATTATAGATTT
14168244 TATAT
1 TATAT
14168249 ATTTTAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 8 0.32
23 1 0.04
24 16 0.64
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (22 bp):
TATATTATATAATTATAGATTT
Found at i:14180377 original size:32 final size:32
Alignment explanation
Indices: 14180334--14180401 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
14180324 TTCATTTTTA
*
14180334 TTTTTTAATTTTAAAATACTTTTAAAATTATT
1 TTTTTTAATTTTAAAATACTTTTAAAATAATT
* *** *
14180366 TTTTTTTATTTTTTTATATTTTTAAAATAATT
1 TTTTTTAATTTTAAAATACTTTTAAAATAATT
14180398 TTTT
1 TTTT
14180402 AATGTTTATT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (32 bp):
TTTTTTAATTTTAAAATACTTTTAAAATAATT
Found at i:14183680 original size:9 final size:9
Alignment explanation
Indices: 14183666--14183693 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
14183656 TTTTGTTACA
14183666 ACAATTAAT
1 ACAATTAAT
14183675 ACAATTAAT
1 ACAATTAAT
14183684 ACAATTAAT
1 ACAATTAAT
14183693 A
1 A
14183694 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:14183715 original size:68 final size:66
Alignment explanation
Indices: 14183636--14183777 Score: 248
Period size: 68 Copynumber: 2.1 Consensus size: 66
14183626 TCAAGTTTGT
*
14183636 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAAT--AATTAATAATTTGAT
14183701 AAA
64 AAA
14183704 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTAATAATTTGATAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTAATAATTTGATAA
*
14183769 T
66 A
14183770 TTTACTAA
1 TTTACTAA
14183778 CAATTAATTT
Statistics
Matches: 72, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
66 25 0.35
68 47 0.65
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (66 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTAATAATTTGATAA
A
Found at i:14183787 original size:16 final size:16
Alignment explanation
Indices: 14183766--14183807 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
14183756 AATAATTTGA
*
14183766 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
*
14183782 TAATTTTAATAATAAT
1 TAATTTTAATAACAAT
*
14183798 TAGTTTTAAT
1 TAATTTTAAT
14183808 TTTATTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:14183791 original size:22 final size:22
Alignment explanation
Indices: 14183787--14183835 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
14183777 ACAATTAATT
* * *
14183787 TTAATAATAATTAGTTTTAATT
1 TTAATAAAAAATAATTTTAATT
*
14183809 TTATTAAAAAATAATTTTAATT
1 TTAATAAAAAATAATTTTAATT
14183831 TTAAT
1 TTAAT
14183836 TTAAAACGGG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (22 bp):
TTAATAAAAAATAATTTTAATT
Found at i:14187000 original size:23 final size:22
Alignment explanation
Indices: 14186945--14187002 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 22
14186935 TTAGATTTAC
14186945 ATATAAATATATTTACATGAAT
1 ATATAAATATATTTACATGAAT
* *
14186967 -TATTGAAATATATTTCCATGTAT
1 ATA-T-AAATATATTTACATGAAT
14186990 ATATAATATATAT
1 ATATAA-ATATAT
14187003 AATTTATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
21 2 0.07
22 3 0.10
23 23 0.77
24 2 0.07
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (22 bp):
ATATAAATATATTTACATGAAT
Found at i:14193257 original size:21 final size:21
Alignment explanation
Indices: 14193213--14193258 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
14193203 CCATTCGTTT
* *
14193213 AACATATTCAAAACACGATCA
1 AACATAATCAAAACACGATAA
* *
14193234 AACATAATCAAAACATGCTAA
1 AACATAATCAAAACACGATAA
14193255 AACA
1 AACA
14193259 ATCATCCTAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.57, C:0.22, G:0.04, T:0.17
Consensus pattern (21 bp):
AACATAATCAAAACACGATAA
Found at i:14194511 original size:16 final size:16
Alignment explanation
Indices: 14194490--14194520 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14194480 AATTCAATCC
14194490 ATTTCAATCCACTATA
1 ATTTCAATCCACTATA
*
14194506 ATTTCAATTCACTAT
1 ATTTCAATCCACTAT
14194521 CAAAGTGCCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
ATTTCAATCCACTATA
Found at i:14197581 original size:16 final size:16
Alignment explanation
Indices: 14197562--14197596 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
14197552 AAAAAATCCT
14197562 AAACCCTAAAATTAAA
1 AAACCCTAAAATTAAA
**
14197578 AAACCCTAACCTTAAA
1 AAACCCTAAAATTAAA
14197594 AAA
1 AAA
14197597 ATTAAAAACA
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:0.60, C:0.23, G:0.00, T:0.17
Consensus pattern (16 bp):
AAACCCTAAAATTAAA
Found at i:14197585 original size:23 final size:22
Alignment explanation
Indices: 14197552--14197594 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
14197542 AACCCTTCCA
*
14197552 AAAAAATCCTAAACCCTAAAATT
1 AAAAAACCCT-AACCCTAAAATT
*
14197575 AAAAAACCCTAACCTTAAAA
1 AAAAAACCCTAACCCTAAAA
14197595 AAATTAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.58, C:0.23, G:0.00, T:0.19
Consensus pattern (22 bp):
AAAAAACCCTAACCCTAAAATT
Found at i:14197595 original size:23 final size:24
Alignment explanation
Indices: 14197552--14197604 Score: 56
Period size: 25 Copynumber: 2.2 Consensus size: 24
14197542 AACCCTTCCA
*
14197552 AAAAAATCCTAAACCCT-AAAATT
1 AAAAAACCCTAAACCCTAAAAATT
*
14197575 AAAAAACCCT-AACCTTAAAAAAATT
1 AAAAAACCCTAAACCCT--AAAAATT
14197600 AAAAA
1 AAAAA
14197605 CAGTTAGGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
22 5 0.20
23 9 0.36
25 11 0.44
ACGTcount: A:0.62, C:0.19, G:0.00, T:0.19
Consensus pattern (24 bp):
AAAAAACCCTAAACCCTAAAAATT
Found at i:14202294 original size:38 final size:39
Alignment explanation
Indices: 14202246--14202325 Score: 108
Period size: 38 Copynumber: 2.1 Consensus size: 39
14202236 GTTTATGAAA
14202246 TTAGGGTTAAGATTTAAGGTTGT-TTAATTTTTAAGTGT
1 TTAGGGTTAAGATTTAAGGTTGTATTAATTTTTAAGTGT
* * * * *
14202284 TTAGGTTTAAGGTTTAGGGTTTTATTTATTTTTAAGTGT
1 TTAGGGTTAAGATTTAAGGTTGTATTAATTTTTAAGTGT
14202323 TTA
1 TTA
14202326 TTAATTATGG
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
38 19 0.53
39 17 0.47
ACGTcount: A:0.24, C:0.00, G:0.23, T:0.54
Consensus pattern (39 bp):
TTAGGGTTAAGATTTAAGGTTGTATTAATTTTTAAGTGT
Found at i:14202351 original size:41 final size:40
Alignment explanation
Indices: 14202268--14202368 Score: 127
Period size: 41 Copynumber: 2.5 Consensus size: 40
14202258 TTTAAGGTTG
14202268 TTTAATTTTTAAGTGTTTAGGTTTAAGGTTTAGGGTTTTA
1 TTTAATTTTTAAGTGTTTAGGTTTAAGGTTTAGGGTTTTA
* *
14202308 TTT-ATTTTTAAGTGTTTA-TTAATTATGGATTTAGGGTTTTA
1 TTTAATTTTTAAGTGTTTAGGT--TTAAGG-TTTAGGGTTTTA
*
14202349 TTTAATTTTT-AGGGTTTAGG
1 TTTAATTTTTAAGTGTTTAGG
14202369 GATTCTAAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
38 1 0.02
39 15 0.29
40 8 0.15
41 22 0.42
42 6 0.12
ACGTcount: A:0.23, C:0.00, G:0.21, T:0.56
Consensus pattern (40 bp):
TTTAATTTTTAAGTGTTTAGGTTTAAGGTTTAGGGTTTTA
Found at i:14202431 original size:29 final size:29
Alignment explanation
Indices: 14202371--14202459 Score: 92
Period size: 29 Copynumber: 3.1 Consensus size: 29
14202361 GGTTTAGGGA
14202371 TTCTAAAAAAATAAATTTT-AGAAGATAGG
1 TTCTAAAAAAAT-AATTTTGAGAAGATAGG
**
14202400 TTCTAAAAAAATAATTTTGAGGGGAT-GAG
1 TTCTAAAAAAATAATTTTGAGAAGATAG-G
* * * *
14202429 TTCTGAAGAAATAATTTTGACAAGATGGG
1 TTCTAAAAAAATAATTTTGAGAAGATAGG
14202458 TT
1 TT
14202460 GAGTTTTGTA
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
28 7 0.14
29 42 0.84
30 1 0.02
ACGTcount: A:0.43, C:0.04, G:0.20, T:0.33
Consensus pattern (29 bp):
TTCTAAAAAAATAATTTTGAGAAGATAGG
Found at i:14209038 original size:20 final size:18
Alignment explanation
Indices: 14208994--14209044 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 18
14208984 AATTAAAAGT
14208994 TTTTTTTTAAAAAAACTA
1 TTTTTTTTAAAAAAACTA
* *
14209012 TTGTTTTTAAAAAAATTA
1 TTTTTTTTAAAAAAACTA
14209030 TGATTTTTTTAAAAA
1 T--TTTTTTTAAAAA
14209045 GTTTTTATCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 17 0.61
20 11 0.39
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (18 bp):
TTTTTTTTAAAAAAACTA
Found at i:14210237 original size:18 final size:17
Alignment explanation
Indices: 14210214--14210252 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 17
14210204 CAAATGCTTA
14210214 TTTTTGTAATTAATATAT
1 TTTTTGTAATTAAT-TAT
14210232 TTTTTGTAATTAATTAT
1 TTTTTGTAATTAATTAT
14210249 TTTT
1 TTTT
14210253 ACATTAGTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (17 bp):
TTTTTGTAATTAATTAT
Found at i:14215039 original size:49 final size:49
Alignment explanation
Indices: 14214979--14215219 Score: 150
Period size: 50 Copynumber: 4.7 Consensus size: 49
14214969 GATAATAACA
* *
14214979 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCTTGTAC-
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTTCTTATACG
* * * * *
14215028 TGCCAATGCCATATCCCAGATATGGTCTGACATGAGAG-TTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTTCTTATA-C-G
* ** ** * *
14215078 TGTCC-ATGCCATGTCCTAGACATGGTCTTACGGGGGA-CCTCTCATCTCGG
1 TG-CCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTTCTTAT-AC-G
** * * *
14215128 TGCCAACACCATGTCCCAGACATGGTCTTACATGGCACCTCTCATAGCCTTA-ATG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GT-T--T---CTTATACG
14215183 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGG
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGG
14215220 GCCTCTTTAC
Statistics
Matches: 146, Mismatches: 30, Indels: 25
0.73 0.15 0.12
Matches are distributed among these distances:
47 6 0.04
48 2 0.01
49 34 0.23
50 64 0.44
51 2 0.01
55 2 0.01
56 33 0.23
58 3 0.02
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (49 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTTCTTATACG
Found at i:14225578 original size:6 final size:6
Alignment explanation
Indices: 14225567--14225627 Score: 58
Period size: 6 Copynumber: 10.7 Consensus size: 6
14225557 GTTTTTTTAT
** *
14225567 TTAATA TTAATA -TAATTA TTTTTA TT--TA ATAATA TTAATA TTAATA
1 TTAATA TTAATA TTAA-TA TTAATA TTAATA TTAATA TTAATA TTAATA
14225613 TTAATA TTAAT- TTAA
1 TTAATA TTAATA TTAA
14225628 AATTTAAATT
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
4 3 0.06
5 7 0.15
6 36 0.77
7 1 0.02
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
TTAATA
Found at i:14225636 original size:6 final size:7
Alignment explanation
Indices: 14225621--14225652 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
14225611 TATTAATATT
14225621 AATTTAA
1 AATTTAA
14225628 AATTTAA
1 AATTTAA
*
14225635 ATTTTAA
1 AATTTAA
14225642 AATTTAA
1 AATTTAA
14225649 AATT
1 AATT
14225653 ATCATTACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
AATTTAA
Found at i:14225928 original size:29 final size:29
Alignment explanation
Indices: 14225895--14225997 Score: 102
Period size: 29 Copynumber: 3.5 Consensus size: 29
14225885 CAATCTCAAT
*
14225895 TAGTTGGGTGACCAATTTTAAA-AAGTTCA
1 TAGTTGGGTGACCAA-TTTAAACAAATTCA
*** *
14225924 TAGTTGGGTGACCAAAAAAGAAACAAATCCA
1 TAGTTGGGTGACC--AATTTAAACAAATTCA
*
14225955 TAGTT-GGTGACCAATTTAAATAAATTCA
1 TAGTTGGGTGACCAATTTAAACAAATTCA
*
14225983 TAGTTGCGTGACCAA
1 TAGTTGGGTGACCAA
14225998 AAAAGAAAAT
Statistics
Matches: 59, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
28 16 0.27
29 21 0.36
30 10 0.17
31 12 0.20
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (29 bp):
TAGTTGGGTGACCAATTTAAACAAATTCA
Found at i:14225960 original size:31 final size:30
Alignment explanation
Indices: 14225922--14226026 Score: 106
Period size: 31 Copynumber: 3.5 Consensus size: 30
14225912 TTAAAAAGTT
14225922 CATAGTTGGGTGACCAAAAAAGAAACAAATC
1 CATAGTTGGGTGACCAAAAAAGAAA-AAATC
*** * *
14225953 CATAGTT-GGTGACCAATTTA-AATAAATT
1 CATAGTTGGGTGACCAAAAAAGAAAAAATC
* *
14225981 CATAGTTGCGTGACCAAAAAAGAAAATGATC
1 CATAGTTGGGTGACCAAAAAAGAAAA-AATC
*
14226012 CATAATTGGGTGACC
1 CATAGTTGGGTGACC
14226027 TATGGTGTAC
Statistics
Matches: 57, Mismatches: 14, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
28 11 0.19
29 11 0.19
30 13 0.23
31 22 0.39
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.24
Consensus pattern (30 bp):
CATAGTTGGGTGACCAAAAAAGAAAAAATC
Found at i:14226007 original size:28 final size:27
Alignment explanation
Indices: 14225915--14226007 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 27
14225905 ACCAATTTTA
14225915 AAAAGTTCATAGTTGGGTGACCAAAAAAG
1 AAAA-TTCATAGTT-GGTGACCAAAAAAG
* *
14225944 AAACAAATCCATAGTTGGTGACCAATTTAAA-
1 --A-AAATTCATAGTTGGTGACCAA--AAAAG
*
14225975 TAAATTCATAGTTGCGTGACCAAAAAAG
1 AAAATTCATAGTTG-GTGACCAAAAAAG
14226003 AAAAT
1 AAAAT
14226008 GATCCATAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 13
0.73 0.09 0.19
Matches are distributed among these distances:
27 3 0.06
28 16 0.31
29 8 0.16
30 9 0.18
31 9 0.18
32 6 0.12
ACGTcount: A:0.46, C:0.13, G:0.17, T:0.24
Consensus pattern (27 bp):
AAAATTCATAGTTGGTGACCAAAAAAG
Found at i:14226013 original size:59 final size:60
Alignment explanation
Indices: 14225895--14226026 Score: 189
Period size: 59 Copynumber: 2.2 Consensus size: 60
14225885 CAATCTCAAT
* *
14225895 TAGTTGGGTGACCAATTTTAAAAAGTTCATAGTTGGGTGACCAAAAAAGAAACAAATCCA
1 TAGTTGGGTGACCAATTTTAAAAAATTCATAGTTGCGTGACCAAAAAAGAAACAAATCCA
*
14225955 TAGTT-GGTGACCAA-TTTAAATAAATTCATAGTTGCGTGACCAAAAAAGAAA-ATGATCCA
1 TAGTTGGGTGACCAATTTTAAA-AAATTCATAGTTGCGTGACCAAAAAAGAAACA-AATCCA
*
14226014 TAATTGGGTGACC
1 TAGTTGGGTGACC
14226027 TATGGTGTAC
Statistics
Matches: 65, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
58 7 0.11
59 46 0.71
60 12 0.18
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.27
Consensus pattern (60 bp):
TAGTTGGGTGACCAATTTTAAAAAATTCATAGTTGCGTGACCAAAAAAGAAACAAATCCA
Found at i:14231700 original size:18 final size:18
Alignment explanation
Indices: 14231677--14231719 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
14231667 CATATATGAT
14231677 GACCAATCTTATCAATTG
1 GACCAATCTTATCAATTG
14231695 GACCAATCTTATCAATTG
1 GACCAATCTTATCAATTG
*
14231713 GAACAAT
1 GACCAAT
14231720 GTTCACGCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.30
Consensus pattern (18 bp):
GACCAATCTTATCAATTG
Found at i:14236152 original size:13 final size:13
Alignment explanation
Indices: 14236134--14236158 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14236124 TTCACTTGCA
14236134 AGAGAGAGAGCCT
1 AGAGAGAGAGCCT
14236147 AGAGAGAGAGCC
1 AGAGAGAGAGCC
14236159 CTTATCTCTC
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:0.40, C:0.16, G:0.40, T:0.04
Consensus pattern (13 bp):
AGAGAGAGAGCCT
Found at i:14251410 original size:44 final size:44
Alignment explanation
Indices: 14250888--14251409 Score: 731
Period size: 44 Copynumber: 11.9 Consensus size: 44
14250878 ATCACAAAGC
* *
14250888 CCTATCTCCCTGACCAGTAGTGGAATAGGTTGAAGATTGTAAGT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
* * * *
14250932 CCTAGCTCCCTGAACAGTAGTGGAATAAGTTGAAGATTGCAAGT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
* *
14250976 CCTATCTCCCTGACCAGTAGTAGAATAGGTTGAAGATTGCAAGT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
* *
14251020 CTTATCTCCCTGACCAACAGTGGAATAGGTTGAAGATTGCAAGT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
*
14251064 CATATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAG-
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
* * *
14251107 CCTGATCTCCCTGACAAGTATTGGAATAGGTTGAAGATTGCAAGT
1 CCT-ATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
* *
14251152 CCTATCTCCTTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGC
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
* * **
14251196 CCTATCTCCTTGACCAGCAGTGAAATAGGTTGAAGATTGTGAGT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
* * * *
14251240 CCTATCTCCTTGATCAGCATTAGAATAGGTTGAAGATTGCAAGT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
* * *
14251284 CCTATCTCCTTGACCAGCATTAGAATAGGTTGAAGATTGCAAGT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
*
14251328 CCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTACAAGT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
** * * *
14251372 TTTATCTCCCTAACCAACAGTGGAATAGGTGGAAGATT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATT
14251410 AGTTTCTATG
Statistics
Matches: 433, Mismatches: 43, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
43 2 0.00
44 428 0.99
45 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (44 bp):
CCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
Found at i:14251953 original size:20 final size:19
Alignment explanation
Indices: 14251925--14251962 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
14251915 AGACAGGGGG
14251925 TTTTCTTTGGTTTTATTTTA
1 TTTTCTTTGGTTTT-TTTTA
*
14251945 TTTTTTTTGGTTTTTTTT
1 TTTTCTTTGGTTTTTTTT
14251963 CACACAGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.05, C:0.03, G:0.11, T:0.82
Consensus pattern (19 bp):
TTTTCTTTGGTTTTTTTTA
Found at i:14261289 original size:29 final size:30
Alignment explanation
Indices: 14261254--14261311 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
14261244 TTTTGAAGAA
**
14261254 AAATTTTAGAATTTTTTACTTAT-ATTTTG
1 AAATTTTAGAAAATTTTACTTATAATTTTG
*
14261283 AAATTTTAGAAAATTTTATTTATAATTTT
1 AAATTTTAGAAAATTTTACTTATAATTTT
14261312 TATTTTTCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 20 0.80
30 5 0.20
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (30 bp):
AAATTTTAGAAAATTTTACTTATAATTTTG
Found at i:14269974 original size:19 final size:19
Alignment explanation
Indices: 14269947--14269984 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
14269937 TTTAAAGTTG
*
14269947 TTTAGGTAGATAAATCTTA
1 TTTAAGTAGATAAATCTTA
14269966 TTTAAGTAGATAAATCTTA
1 TTTAAGTAGATAAATCTTA
14269985 AAATAAATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.39, C:0.05, G:0.13, T:0.42
Consensus pattern (19 bp):
TTTAAGTAGATAAATCTTA
Found at i:14270100 original size:41 final size:41
Alignment explanation
Indices: 14270008--14270087 Score: 119
Period size: 41 Copynumber: 2.0 Consensus size: 41
14269998 GAGATATTCT
* *
14270008 AAGAA-TATTTT-ATTATATTTTAGTAGTTTATTAGAATAA
1 AAGAATTATTTTCCTTATATTTCAGTAGTTTATTAGAATAA
*
14270047 AAGAATTATTTTCCTTATCTTTCAGTAGTTTATTAGAATAA
1 AAGAATTATTTTCCTTATATTTCAGTAGTTTATTAGAATAA
14270088 GGGAATTGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
39 5 0.14
40 6 0.17
41 25 0.69
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.47
Consensus pattern (41 bp):
AAGAATTATTTTCCTTATATTTCAGTAGTTTATTAGAATAA
Found at i:14273799 original size:19 final size:19
Alignment explanation
Indices: 14273775--14273813 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
14273765 TATTTTAAAA
*
14273775 TTATTTAGGTAGATAAATC
1 TTATTTAAGTAGATAAATC
14273794 TTATTTAAGTAGATAAATC
1 TTATTTAAGTAGATAAATC
14273813 T
1 T
14273814 AAGAATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (19 bp):
TTATTTAAGTAGATAAATC
Found at i:14288499 original size:28 final size:28
Alignment explanation
Indices: 14288450--14288504 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
14288440 AAGTAAAAGG
14288450 ATTAAATTTTTAAAAGTATAAATAAATAA
1 ATTAAATTTTTAAAAGTATAAA-AAATAA
* *
14288479 ATTAAA-TTTTAAATGTGTAAAAAATA
1 ATTAAATTTTTAAAAGTATAAAAAATA
14288505 TAGAGACGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 5 0.21
28 13 0.54
29 6 0.25
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (28 bp):
ATTAAATTTTTAAAAGTATAAAAAATAA
Found at i:14288925 original size:51 final size:51
Alignment explanation
Indices: 14288864--14289052 Score: 328
Period size: 51 Copynumber: 3.7 Consensus size: 51
14288854 AAATTAAAAG
14288864 ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
1 ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
*
14288915 ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAGAGTA
1 ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCA-A-CA
*
14288968 GTTAT--ATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
1 ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
14289017 ATTATACATACACCAACAATGTTTTTTAGGGTAAAT
1 ATTATACATACACCAACAATGTTTTTTAGGGTAAAT
14289053 CACCAACAAT
Statistics
Matches: 130, Mismatches: 4, Indels: 8
0.92 0.03 0.06
Matches are distributed among these distances:
49 5 0.04
50 1 0.01
51 118 0.91
52 1 0.01
53 5 0.04
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.31
Consensus pattern (51 bp):
ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
Found at i:14289056 original size:26 final size:26
Alignment explanation
Indices: 14289027--14289078 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
14289017 ATTATACATA
14289027 CACCAACAATGTTTTTTAGGGTAAAT
1 CACCAACAATGTTTTTTAGGGTAAAT
14289053 CACCAACAATGTTTTTTAGGGTAAAT
1 CACCAACAATGTTTTTTAGGGTAAAT
14289079 AACATTAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (26 bp):
CACCAACAATGTTTTTTAGGGTAAAT
Found at i:14289103 original size:77 final size:77
Alignment explanation
Indices: 14288976--14289124 Score: 298
Period size: 77 Copynumber: 1.9 Consensus size: 77
14288966 TAGTTATATA
14288976 CACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTATACATACACCAACAATGTTT
1 CACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTATACATACACCAACAATGTTT
14289041 TTTAGGGTAAAT
66 TTTAGGGTAAAT
14289053 CACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTATACATACACCAACAATGTTT
1 CACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTATACATACACCAACAATGTTT
14289118 TTTAGGG
66 TTTAGGG
14289125 ACAATAACAT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 72 1.00
ACGTcount: A:0.41, C:0.17, G:0.11, T:0.31
Consensus pattern (77 bp):
CACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTATACATACACCAACAATGTTT
TTTAGGGTAAAT
Found at i:14289198 original size:33 final size:33
Alignment explanation
Indices: 14289092--14289201 Score: 102
Period size: 33 Copynumber: 3.3 Consensus size: 33
14289082 ATTAAACCAA
* *
14289092 CAATTATACATACACCAACAATGT-TTTTTAGGGA
1 CAATTATACATACACCAACAAT-TAATTTTA-GGT
* *
14289126 CAA-TA-ACATTAAACCAACAAGTAATTTTA-GT
1 CAATTATACA-TACACCAACAATTAATTTTAGGT
* *
14289157 TAGGTTATACATACACCAACAATTAATTTTAGGT
1 CA-ATTATACATACACCAACAATTAATTTTAGGT
14289191 CAATTATACAT
1 CAATTATACAT
14289202 GCTTTATAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
31 2 0.03
32 4 0.07
33 45 0.75
34 9 0.15
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.33
Consensus pattern (33 bp):
CAATTATACATACACCAACAATTAATTTTAGGT
Found at i:14292284 original size:29 final size:28
Alignment explanation
Indices: 14292251--14292337 Score: 74
Period size: 28 Copynumber: 3.1 Consensus size: 28
14292241 TCATAAGAAC
14292251 ATTTTATGAAATTATATTTAATAATAATT
1 ATTTTAT-AAATTATATTTAATAATAATT
* * *
14292280 A-TTT-TAAATTGTATTAAATCAT-A-T
1 ATTTTATAAATTATATTTAATAATAATT
* *
14292304 ATTTTAATTAAAATATATTTAATATTAATT
1 ATTTT-A-TAAATTATATTTAATAATAATT
14292334 ATTT
1 ATTT
14292338 CAAATTTTCA
Statistics
Matches: 44, Mismatches: 8, Indels: 11
0.70 0.13 0.17
Matches are distributed among these distances:
24 2 0.05
25 4 0.09
26 14 0.32
27 1 0.02
28 16 0.36
29 2 0.05
30 5 0.11
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (28 bp):
ATTTTATAAATTATATTTAATAATAATT
Found at i:14292554 original size:137 final size:138
Alignment explanation
Indices: 14292394--14292652 Score: 394
Period size: 137 Copynumber: 1.9 Consensus size: 138
14292384 TAAGAATATG
* * ** *
14292394 AATTATTAAGAATTTTATTAAATTATATACCAAAATTATAATGTATTTAATAATAATTTTGTTTA
1 AATTATTAAGAATTTTATTAAATTATATACCAAAATTAAAATATATTTAATAATAATCATATTTA
* * * *
14292459 AATATGATTAAATTATTTATTATTGATATTAGTAATCTTATTAAAATTTAAATAACAATATGTAA
66 AATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATATGTAA
14292524 TTTCTGCT
131 TTTCTGCT
****
14292532 AATTA-TAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATCATATTTA
1 AATTATTAAGAATTTTATTAAATTATATACCAAAATTAAAATATATTTAATAATAATCATATTTA
14292596 AATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACA
66 AATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACA
14292653 TTAACAATAA
Statistics
Matches: 108, Mismatches: 13, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
137 103 0.95
138 5 0.05
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (138 bp):
AATTATTAAGAATTTTATTAAATTATATACCAAAATTAAAATATATTTAATAATAATCATATTTA
AATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATATGTAA
TTTCTGCT
Found at i:14292570 original size:18 final size:17
Alignment explanation
Indices: 14292542--14292576 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
14292532 AATTATAAGA
*
14292542 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
14292559 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
14292577 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:14292592 original size:16 final size:15
Alignment explanation
Indices: 14292555--14292596 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
14292545 TTATTAAATT
14292555 ATATATTTTAATTAAA
1 ATATA-TTTAATTAAA
14292571 ATATATTTAA-TAATA
1 ATATATTTAATTAA-A
14292586 ATCATATTTAA
1 AT-ATATTTAA
14292597 ATATGATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 3 0.12
15 8 0.33
16 13 0.54
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (15 bp):
ATATATTTAATTAAA
Found at i:14292706 original size:137 final size:138
Alignment explanation
Indices: 14292427--14292843 Score: 380
Period size: 137 Copynumber: 2.9 Consensus size: 138
14292417 TATATACCAA
* * ** * * * * *
14292427 AATTATAATGTATTTAATAATAATTTTGTTTAAATATGATTAAATTATTTATTATTGATATTAGT
1 AATTAAAATATATTTAATAATAATAATATTTAAATATGATTAAAATATTTATTACTGATAATAAT
** * ** * *
14292492 AATCTTATTAAAATTTAAATAACAATATGTAAT-TTC-TGCTAATTATAAGAATTTTAT--TAAA
66 AATCTTATTAAAATTTAAATAACAATA-ACAATAATCAT-CT-ACCAAAACAATTTTATGCTAAA
*
14292553 TTATATATTTT
128 TTATACATTTT
*
14292564 AATTAAAATATATTTAATAATAATCATATTTAAATATGATTAAAATATTTATTACTGATAATAAT
1 AATTAAAATATATTTAATAATAATAATATTTAAATATGATTAAAATATTTATTACTGATAATAAT
* *
14292629 AATCTTATTAAAATTTAAATAACATTAACAATAATCATCTACCAAAACAATTTTCTGCT-AA-TA
66 AATCTTATTAAAATTTAAATAACAATAACAATAATCATCTACCAAAACAATTTTATGCTAAATTA
14292692 TAAGCATTTT
131 T-A-CATTTT
14292702 -ATTAAATTATATATTTTAATTAAAATATATTTAATTAAATTATGTTTAAATATGATTAAAATAT
1 AATTAAA--ATATA---T--TT--AATA-A--TAA-T-AA-TA--TTTAAATATGATTAAAATAT
* * *
14292766 TAATTACTGATAATAATAATCTTTTTAAAATTTAAATAACAATAACAATAATCATTTACCAAAAC
49 TTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATAATCATCTACCAAAAC
14292831 AATTTTATGCTAA
114 AATTTTATGCTAA
14292844 GGGTATTCTA
Statistics
Matches: 231, Mismatches: 25, Indels: 30
0.81 0.09 0.10
Matches are distributed among these distances:
136 17 0.07
137 95 0.41
138 7 0.03
139 5 0.02
142 1 0.00
144 2 0.01
146 4 0.02
147 1 0.00
149 3 0.01
150 1 0.00
151 1 0.00
152 2 0.01
154 91 0.39
155 1 0.00
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (138 bp):
AATTAAAATATATTTAATAATAATAATATTTAAATATGATTAAAATATTTATTACTGATAATAAT
AATCTTATTAAAATTTAAATAACAATAACAATAATCATCTACCAAAACAATTTTATGCTAAATTA
TACATTTT
Found at i:14292736 original size:15 final size:15
Alignment explanation
Indices: 14292710--14292750 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
14292700 TTATTAAATT
14292710 ATATATTTTAATTAAA
1 ATATA-TTTAATTAAA
14292726 ATATATTTAATTAAA
1 ATATATTTAATTAAA
* *
14292741 TTATGTTTAA
1 ATATATTTAA
14292751 ATATGATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 18 0.78
16 5 0.22
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
ATATATTTAATTAAA
Found at i:14292794 original size:154 final size:156
Alignment explanation
Indices: 14292524--14292843 Score: 545
Period size: 154 Copynumber: 2.1 Consensus size: 156
14292514 CAATATGTAA
14292524 TTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATC
1 TTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATC
* *
14292589 ATATTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAT
66 ATATTTAAATATGATTAAAATATTAATTACTGATAATAATAATCTTATTAAAATTTAAATAACAA
14292654 TAACAATAATCATCTACCAAAACAAT
131 TAACAATAATCATCTACCAAAACAAT
* * *
14292680 TTTCTGCTAA-TATAAGCATTTTATTAAATTATATATTTTAATTAAAATATATTTAATTA-AATT
1 TTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATC
* *
14292743 ATGTTTAAATATGATTAAAATATTAATTACTGATAATAATAATCTTTTTAAAATTTAAATAACAA
66 ATATTTAAATATGATTAAAATATTAATTACTGATAATAATAATCTTATTAAAATTTAAATAACAA
*
14292808 TAACAATAATCATTTACCAAAACAAT
131 TAACAATAATCATCTACCAAAACAAT
*
14292834 TTTATGCTAA
1 TTTCTGCTAA
14292844 GGGTATTCTA
Statistics
Matches: 155, Mismatches: 9, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
154 98 0.63
155 47 0.30
156 10 0.06
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.43
Consensus pattern (156 bp):
TTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATC
ATATTTAAATATGATTAAAATATTAATTACTGATAATAATAATCTTATTAAAATTTAAATAACAA
TAACAATAATCATCTACCAAAACAAT
Found at i:14292987 original size:16 final size:16
Alignment explanation
Indices: 14292966--14293001 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
14292956 GATTGGCTAT
14292966 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
14292982 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
14292998 TACA
1 TACA
14293002 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:14294361 original size:29 final size:25
Alignment explanation
Indices: 14294311--14294362 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
14294301 AGATTACTTG
14294311 TTTGAATTTAATTACAAACAATTAA
1 TTTGAATTTAATTACAAACAATTAA
*
14294336 TTTGAATTTAATTACAAACAATCAA
1 TTTGAATTTAATTACAAACAATTAA
14294361 TT
1 TT
14294363 CTTAAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.46, C:0.10, G:0.04, T:0.40
Consensus pattern (25 bp):
TTTGAATTTAATTACAAACAATTAA
Found at i:14295787 original size:14 final size:14
Alignment explanation
Indices: 14295770--14295806 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
14295760 GTGCAAGACC
14295770 GGAGGTGGATCGGT
1 GGAGGTGGATCGGT
14295784 GGAGGTGGATCGGT
1 GGAGGTGGATCGGT
14295798 GGAGGTGGA
1 GGAGGTGGA
14295807 GGTAGCTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.16, C:0.05, G:0.59, T:0.19
Consensus pattern (14 bp):
GGAGGTGGATCGGT
Found at i:14296301 original size:5 final size:5
Alignment explanation
Indices: 14296291--14296317 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
14296281 TAATATGAAA
14296291 CCGGG CCGGG CCGGG CCGGG CCGGG CC
1 CCGGG CCGGG CCGGG CCGGG CCGGG CC
14296318 CAGGCCAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.44, G:0.56, T:0.00
Consensus pattern (5 bp):
CCGGG
Found at i:14298060 original size:114 final size:113
Alignment explanation
Indices: 14297885--14298091 Score: 324
Period size: 114 Copynumber: 1.8 Consensus size: 113
14297875 AAAATAAGCA
* * *
14297885 TTAGCGGCGTTTTCCAGAAAGCGCCGCAAAAAACCTAAGCCCAATGATGCCATTTTCTGAGCATT
1 TTAGCGGCATTTTCCAGAAAGCGCCGAAAAAAACCTAAGCCCAACGATGCCATTTTCTGAGCATT
14297950 CTGGAATTTAGCGGCGTTTTTAAGAAAGAACCGCTAATGCTCAGGGCT
66 CTGGAATTTAGCGGCGTTTTTAAGAAAGAACCGCTAATGCTCAGGGCT
** * * *
14297998 TTAGCGGCATTTTTGAGAAAGCGCCATAAAAAAACCTAAGCCCAACGATGCCGTTTTTTGAGCAT
1 TTAGCGGCATTTTCCAGAAAGCGCC-GAAAAAAACCTAAGCCCAACGATGCCATTTTCTGAGCAT
*
14298063 TCTGGGATTTAGCGGCGTTTTTAAGAAAG
65 TCTGGAATTTAGCGGCGTTTTTAAGAAAG
14298092 CGCCGCAAAA
Statistics
Matches: 84, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
113 22 0.26
114 62 0.74
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (113 bp):
TTAGCGGCATTTTCCAGAAAGCGCCGAAAAAAACCTAAGCCCAACGATGCCATTTTCTGAGCATT
CTGGAATTTAGCGGCGTTTTTAAGAAAGAACCGCTAATGCTCAGGGCT
Found at i:14298148 original size:72 final size:73
Alignment explanation
Indices: 14297997--14298169 Score: 260
Period size: 73 Copynumber: 2.4 Consensus size: 73
14297987 TGCTCAGGGC
* ** * *
14297997 TTTAGCGGCATTTTTGAGAAAGCGCCATAAAAAAACCTAAGCCCAACGATGCCGTTTTTTGAGCA
1 TTTAGCGGCATTTTTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTTTGAGAA
*
14298062 TTCTGGGA
66 TTCGGGGA
*
14298070 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCG-TTTTTGAGTA
1 TTTAGCGGCATTTTTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTTTGAG-A
14298134 ATT-GGGGA
65 ATTCGGGGA
14298142 TTTAGCGGCATTTTTAAGAAAGCGCCGC
1 TTTAGCGGCATTTTTAAGAAAGCGCCGC
14298170 TAATGCTCAG
Statistics
Matches: 91, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
72 39 0.43
73 52 0.57
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (73 bp):
TTTAGCGGCATTTTTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTTTGAGAA
TTCGGGGA
Found at i:14298282 original size:115 final size:112
Alignment explanation
Indices: 14298070--14298284 Score: 333
Period size: 115 Copynumber: 1.9 Consensus size: 112
14298060 CATTCTGGGA
*
14298070 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTTGAGTAA
1 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCATTTTTGAGT-A
14298135 TTGGGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
65 TTGGGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
* * *
14298183 TTTAGCGGCGTTTTTGAGAAAGCGTCGCAAAAAAACCCTAAGCCCAACTACGCCATTTTCTGAGC
1 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAA-CCTAAGCCCAACGACGCCATTTT-TGAG-
*
14298248 T-TTCGGGGATTTAGCGGCATTTTTGAGAAAGCGCCGC
63 TATT-GGGGATTTAGCGGCATTTTTAAGAAAGCGCCGC
14298285 AAAAAAATCT
Statistics
Matches: 93, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
113 33 0.35
114 23 0.25
115 36 0.39
116 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (112 bp):
TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCATTTTTGAGTAT
TGGGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
Found at i:14298283 original size:187 final size:186
Alignment explanation
Indices: 14297885--14298471 Score: 867
Period size: 187 Copynumber: 3.1 Consensus size: 186
14297875 AAAATAAGCA
** * * *
14297885 TTAGCGGCGTTTTCCAGAAAGCGCCGC-AAAAAACCTAAGCCCAATGATGCCATTTTCTGAGCAT
1 TTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCAT
* * **
14297949 TCTGGAATTTAGCGGCGTTTTTAAGAAAGAACCGCTAATGCTCAGGGCTTTAGCGGCATTTTTGA
66 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCATTTTTGA
* * *
14298014 GAAAGCGC-CATAAAAAAACCTAAGCCCAACGATGCCGTTTTTTGAGCATTCTGGGAT
131 GAAAGCGCGC--AAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCATTCGGGGAT
*
14298071 TTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTT-TGAGTAA
1 TTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAG-CA
* *
14298135 TT-GGGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTG
65 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCATTTTTG
* * *
14298199 AGAAAGCGTCGCAAAAAAACCCTAAGCCCAACTACGCCATTTTCTGAGCTTTCGGGGAT
130 AGAAAGCG-CGCAAAAAAA-CCTAAGCCCAACGACGCCGTTTTCTGAGCATTCGGGGAT
* * * * *
14298258 TTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAAATCTAAGCTCAACGACGTCGTTTTCTGAGCAT
1 TTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCAT
14298323 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCATTTTTGA
66 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCATTTTTGA
*
14298388 GAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCAGTCGGGGAT
131 GAAAGCG-CGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCATTCGGGGAT
*
14298445 TTAGCGGTGTTTTTAAGAAAGCGCCGC
1 TTAGCGGCGTTTTTAAGAAAGCGCCGC
14298472 TAATGCTCAG
Statistics
Matches: 360, Mismatches: 34, Indels: 13
0.88 0.08 0.03
Matches are distributed among these distances:
186 100 0.28
187 177 0.49
188 83 0.23
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (186 bp):
TTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCAT
TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCATTTTTGA
GAAAGCGCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCATTCGGGGAT
Found at i:14298331 original size:73 final size:74
Alignment explanation
Indices: 14298183--14298357 Score: 262
Period size: 73 Copynumber: 2.4 Consensus size: 74
14298173 TGCTCAGGGC
* *
14298183 TTTAGCGGCGTTTTTGAGAAAGCGTCGCAAAAAAACCCTAAGCCCAACTACGCCATTTTCTGAGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCCTAAGCCCAACGACGCCATTTTCTGAGC
*
14298248 TTTCGGGGA
66 ATTCGGGGA
* * * * *
14298257 TTTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAAA-TCTAAGCTCAACGACGTCGTTTTCTGAGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCCTAAGCCCAACGACGCCATTTTCTGAGC
14298321 ATTCGGGGA
66 ATTCGGGGA
*
14298330 TTTAGCGGCGTTTTTAAGAAAGCGCCGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGC
14298358 TAATGCTCAG
Statistics
Matches: 91, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
73 58 0.64
74 33 0.36
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (74 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCCTAAGCCCAACGACGCCATTTTCTGAGC
ATTCGGGGA
Found at i:14298544 original size:229 final size:230
Alignment explanation
Indices: 14298257--14298715 Score: 733
Period size: 229 Copynumber: 2.0 Consensus size: 230
14298247 CTTTCGGGGA
* *
14298257 TTTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAAATCTAAGCTCAACGACGTCGTTTTCTGAGCA
1 TTTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAAATCTAAGCTCAACGACGCCGTTTTCAGAGCA
* ** *
14298322 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCATTTTTG
66 TTCGGGGATTTAGCGGCGCTTTTAAGAAAGAACCGCTAATGCCCAGGGCTTTAGCGGCATTTTTG
14298387 AGAAAGCGCCGC-AAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCAGTCGGGGATTTAGCG
131 AGAAAGCGCCGCAAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCAGTCGGGGATTTAGCG
*
14298451 GTGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGTT
196 GCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGTT
* ** *
14298486 TTTAGCGGCGTTTTTGAGAAAGCGCCTTAAAAAAATCTAATC-CGAACGACGCCGTTTTCAGAGC
1 TTTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAAATCTAAGCTC-AACGACGCCGTTTTCAGAGC
*
14298550 ATTCGGGGATTTAGCGGCGCTTTTAAGAAAGAACCGCTAATGCCCAGGGCTTTAGCGGCGTTTTT
65 ATTCGGGGATTTAGCGGCGCTTTTAAGAAAGAACCGCTAATGCCCAGGGCTTTAGCGGCATTTTT
* * **
14298615 GAGAAAGCGCCGCAAAAAAAAAACCTAAGCTCAACGACGCTGTTTTCTGAGCTTTCGGGGATTTA
130 GAGAAAGCGCCGC--AAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCAGTCGGGGATTTA
14298680 GCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGG
193 GCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGG
14298716 CTTTCTCAAA
Statistics
Matches: 210, Mismatches: 16, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
228 1 0.00
229 129 0.61
232 80 0.38
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.25
Consensus pattern (230 bp):
TTTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAAATCTAAGCTCAACGACGCCGTTTTCAGAGCA
TTCGGGGATTTAGCGGCGCTTTTAAGAAAGAACCGCTAATGCCCAGGGCTTTAGCGGCATTTTTG
AGAAAGCGCCGCAAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCAGTCGGGGATTTAGCG
GCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGTT
Found at i:14298550 original size:115 final size:114
Alignment explanation
Indices: 14298257--14298719 Score: 703
Period size: 114 Copynumber: 4.0 Consensus size: 114
14298247 CTTTCGGGGA
* *
14298257 TTTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAAATCTAAGCTCAACGACGTCGTTTTCTGAGCA
1 TTTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCTCAACGACGCCGTTTTCTGAGCA
14298322 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
66 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
*
14298371 TTTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCA
1 TTTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCTCAACGACGCCGTTTTCTGAGCA
* * *
14298436 GTCGGGGATTTAGCGGTGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGTT
66 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGG-C
* ** * * *
14298486 TTTAGCGGCGTTTTTGAGAAAGCGCCTTAAAAAAATCTAATC-CGAACGACGCCGTTTTCAGAGC
1 TTTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCTC-AACGACGCCGTTTTCTGAGC
* ** *
14298550 ATTCGGGGATTTAGCGGCGCTTTTAAGAAAGAACCGCTAATGCCCAGGGC
65 ATTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
* *
14298600 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAAAAACCTAAGCTCAACGACGCTGTTTTCTGA
1 TTTAGCGGCATTTTTGAGAAAGCGCCGC---AAAAAAACCTAAGCTCAACGACGCCGTTTTCTGA
*
14298665 GCTTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
63 GCATTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
14298717 TTT
1 TTT
14298720 CTCAAAAGCA
Statistics
Matches: 313, Mismatches: 30, Indels: 9
0.89 0.09 0.03
Matches are distributed among these distances:
114 135 0.43
115 99 0.32
117 78 0.25
118 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (114 bp):
TTTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCTCAACGACGCCGTTTTCTGAGCA
TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
Found at i:14298974 original size:15 final size:15
Alignment explanation
Indices: 14298946--14299015 Score: 58
Period size: 15 Copynumber: 4.8 Consensus size: 15
14298936 GGTTTAAAGG
* *
14298946 TTATGTGTTAAGGGT
1 TTATGGGTTTAGGGT
14298961 TTATGGGTTTAGGGT
1 TTATGGGTTTAGGGT
14298976 TT-TAGGGTTTTAGGGT
1 TTAT-GGG-TTTAGGGT
* *
14298992 TTA--AGTTTATGGT
1 TTATGGGTTTAGGGT
14299005 TTA-GGGTTTAG
1 TTATGGGTTTAG
14299016 ATTAACTAGT
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
13 10 0.22
14 7 0.16
15 18 0.40
16 10 0.22
ACGTcount: A:0.17, C:0.00, G:0.34, T:0.49
Consensus pattern (15 bp):
TTATGGGTTTAGGGT
Found at i:14298977 original size:7 final size:7
Alignment explanation
Indices: 14298956--14299015 Score: 68
Period size: 8 Copynumber: 8.3 Consensus size: 7
14298946 TTATGTGTTA
14298956 AGGGTTT
1 AGGGTTT
14298963 ATGGGTTT
1 A-GGGTTT
14298971 AGGGTTTT
1 AGGG-TTT
14298979 AGGGTTTT
1 AGGG-TTT
14298987 AGGGTTT
1 AGGGTTT
*
14298994 A-AGTTT
1 AGGGTTT
*
14299000 ATGGTTT
1 AGGGTTT
14299007 AGGGTTT
1 AGGGTTT
14299014 AG
1 AG
14299016 ATTAACTAGT
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
6 5 0.11
7 20 0.43
8 22 0.47
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (7 bp):
AGGGTTT
Found at i:14299306 original size:21 final size:20
Alignment explanation
Indices: 14299272--14299312 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
14299262 TATGGATTTA
*
14299272 GGGATTATGGTTTAAGGGTT
1 GGGATTAAGGTTTAAGGGTT
*
14299292 GGGATTTAAGGTTTAGGGGTT
1 GGGA-TTAAGGTTTAAGGGTT
14299313 AGTAGTTAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (20 bp):
GGGATTAAGGTTTAAGGGTT
Found at i:14299343 original size:22 final size:22
Alignment explanation
Indices: 14299318--14299364 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
14299308 GGGTTAGTAG
*
14299318 TTAGAGGTTAAGAGTTAGGGAT
1 TTAGAGGTTAAGAGTTAAGGAT
* * *
14299340 TTAGGGGTTAGGATTTAAGGAT
1 TTAGAGGTTAAGAGTTAAGGAT
14299362 TTA
1 TTA
14299365 AGGATTCAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.34, T:0.36
Consensus pattern (22 bp):
TTAGAGGTTAAGAGTTAAGGAT
Found at i:14302551 original size:4 final size:4
Alignment explanation
Indices: 14302544--14302590 Score: 94
Period size: 4 Copynumber: 11.8 Consensus size: 4
14302534 AATATAGATA
14302544 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
14302591 CTAATATACC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 43 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:14303126 original size:6 final size:7
Alignment explanation
Indices: 14303094--14303127 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
14303084 ACATAATATA
14303094 TAAATTC
1 TAAATTC
14303101 TAAATTC
1 TAAATTC
14303108 TAAATTC
1 TAAATTC
14303115 TAAATT-
1 TAAATTC
14303121 TAAATTC
1 TAAATTC
14303128 ATTAATTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.23
7 20 0.77
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (7 bp):
TAAATTC
Found at i:14303368 original size:43 final size:43
Alignment explanation
Indices: 14303300--14303489 Score: 310
Period size: 43 Copynumber: 4.4 Consensus size: 43
14303290 AAAAGTCATA
14303300 TTCTTTAGCGGCGTTTATGGAAAAAGCGCCGCTAAAGGTCTTG
1 TTCTTTAGCGGCGTTTATGGAAAAAGCGCCGCTAAAGGTCTTG
* *
14303343 TTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTG
1 TTCTTTAGCGGCGTTTATGGAAAAAGCGCCGCTAAAGGTCTTG
*
14303386 TTCTTTAGCGGCGTTTATGGAAAAAGCGCCGCTAAAAGTCTTG
1 TTCTTTAGCGGCGTTTATGGAAAAAGCGCCGCTAAAGGTCTTG
* *
14303429 TT-TTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTG
1 TTCTT-TAGCGGCGTTTATGGAAAAAGCGCCGCTAAAGGTCTTG
*
14303472 TTCTTTAGCCGCGTTTAT
1 TTCTTTAGCGGCGTTTAT
14303490 TTCTAAAAAT
Statistics
Matches: 135, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
42 2 0.01
43 131 0.97
44 2 0.01
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.32
Consensus pattern (43 bp):
TTCTTTAGCGGCGTTTATGGAAAAAGCGCCGCTAAAGGTCTTG
Found at i:14303445 original size:86 final size:86
Alignment explanation
Indices: 14303300--14303489 Score: 346
Period size: 86 Copynumber: 2.2 Consensus size: 86
14303290 AAAAGTCATA
*
14303300 TTCTTTAGCGGCGTTTATGGAAAAAGCGCCGCTAAAGGTCTTGTTCTTTAGCGGCGTTTGTGGGA
1 TTCTTTAGCGGCGTTTATGGAAAAAGCGCCGCTAAAAGTCTTGTTCTTTAGCGGCGTTTGTGGGA
14303365 AAAGCGCCGCTAAAGGTCTTG
66 AAAGCGCCGCTAAAGGTCTTG
14303386 TTCTTTAGCGGCGTTTATGGAAAAAGCGCCGCTAAAAGTCTTGTT-TTATAGCGGCGTTTGTGGG
1 TTCTTTAGCGGCGTTTATGGAAAAAGCGCCGCTAAAAGTCTTGTTCTT-TAGCGGCGTTTGTGGG
14303450 AAAAGCGCCGCTAAAGGTCTTG
65 AAAAGCGCCGCTAAAGGTCTTG
*
14303472 TTCTTTAGCCGCGTTTAT
1 TTCTTTAGCGGCGTTTAT
14303490 TTCTAAAAAT
Statistics
Matches: 101, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
85 2 0.02
86 99 0.98
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.32
Consensus pattern (86 bp):
TTCTTTAGCGGCGTTTATGGAAAAAGCGCCGCTAAAAGTCTTGTTCTTTAGCGGCGTTTGTGGGA
AAAGCGCCGCTAAAGGTCTTG
Found at i:14310132 original size:20 final size:20
Alignment explanation
Indices: 14310103--14310155 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
14310093 ACTAAAGGGA
14310103 AATATTGATA-CTCGGATATC
1 AATATTGATACCT-GGATATC
* *
14310123 AATATCGATACCTGGATGTC
1 AATATTGATACCTGGATATC
14310143 AATATTGATACCT
1 AATATTGATACCT
14310156 ACGGACATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 27 0.93
21 2 0.07
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (20 bp):
AATATTGATACCTGGATATC
Found at i:14311726 original size:15 final size:15
Alignment explanation
Indices: 14311706--14311737 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
14311696 GGTTTATTTT
14311706 TGATTGATAACATGG
1 TGATTGATAACATGG
*
14311721 TGATTGATAACGTGG
1 TGATTGATAACATGG
14311736 TG
1 TG
14311738 TGTGAGGCAT
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:0.28, C:0.06, G:0.31, T:0.34
Consensus pattern (15 bp):
TGATTGATAACATGG
Found at i:14314038 original size:12 final size:12
Alignment explanation
Indices: 14314021--14314046 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
14314011 CCTCACACGC
14314021 CCGTGTGCTAGG
1 CCGTGTGCTAGG
14314033 CCGTGTGCTAGG
1 CCGTGTGCTAGG
14314045 CC
1 CC
14314047 TTGTAACAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.31, G:0.38, T:0.23
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:14323806 original size:34 final size:34
Alignment explanation
Indices: 14323768--14323833 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
14323758 ATTCTCAAAG
14323768 ATTGATATAAGGTATTGGTATTATCAGTTTAAGT
1 ATTGATATAAGGTATTGGTATTATCAGTTTAAGT
* * * *
14323802 ATTGATCTGAGGTCTTGGTATTATTAGTTTAA
1 ATTGATATAAGGTATTGGTATTATCAGTTTAA
14323834 TTTTAAGGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.29, C:0.05, G:0.21, T:0.45
Consensus pattern (34 bp):
ATTGATATAAGGTATTGGTATTATCAGTTTAAGT
Found at i:14327315 original size:5 final size:5
Alignment explanation
Indices: 14327305--14327376 Score: 64
Period size: 5 Copynumber: 14.8 Consensus size: 5
14327295 TGTTAAAAAA
* *
14327305 ATATT ATATT ATAGTA ATGATT ATGTT -T-TT ATATT ATATT ATCATT
1 ATATT ATATT ATA-TT AT-ATT ATATT ATATT ATATT ATATT AT-ATT
14327351 A-A-T ATATT ATATT ATATT ATA-T ATAT
1 ATATT ATATT ATATT ATATT ATATT ATAT
14327377 ACATAAAACA
Statistics
Matches: 56, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
3 4 0.07
4 8 0.14
5 33 0.59
6 10 0.18
7 1 0.02
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (5 bp):
ATATT
Found at i:14327358 original size:19 final size:19
Alignment explanation
Indices: 14327334--14327376 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
14327324 ATTATGTTTT
14327334 TATATTATATTATCATTA-A
1 TATATTATATTAT-ATTATA
14327353 TATATTATATTATATTATA
1 TATATTATATTATATTATA
14327372 TATAT
1 TATAT
14327377 ACATAAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
TATATTATATTATATTATA
Found at i:14327408 original size:17 final size:17
Alignment explanation
Indices: 14327386--14327419 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
14327376 TACATAAAAC
*
14327386 AAAAGAAAGAATAGAAA
1 AAAAGAAAGAAAAGAAA
14327403 AAAAGAAAGAAAAGAAA
1 AAAAGAAAGAAAAGAAA
14327420 CAGAATAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (17 bp):
AAAAGAAAGAAAAGAAA
Found at i:14327415 original size:9 final size:9
Alignment explanation
Indices: 14327386--14327419 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
14327376 TACATAAAAC
14327386 AAAAGAAAG
1 AAAAGAAAG
*
14327395 AATAGAAA-
1 AAAAGAAAG
14327403 AAAAGAAAG
1 AAAAGAAAG
14327412 AAAAGAAA
1 AAAAGAAA
14327420 CAGAATAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (9 bp):
AAAAGAAAG
Found at i:14328474 original size:44 final size:45
Alignment explanation
Indices: 14328379--14328512 Score: 144
Period size: 44 Copynumber: 3.0 Consensus size: 45
14328369 ACAGGACAGA
* * *
14328379 ACAGAAATGAGCCATGTAAGTTCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
14328425 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
14328469 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
14328513 CAGGGTATTG
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 36 0.49
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:14333552 original size:5 final size:5
Alignment explanation
Indices: 14333542--14333613 Score: 64
Period size: 5 Copynumber: 14.8 Consensus size: 5
14333532 GTGTTAAAAA
* *
14333542 ATATT ATATT ATAGTA ATGATT ATGTT -T-TT ATATT ATATT ATCATT
1 ATATT ATATT ATA-TT AT-ATT ATATT ATATT ATATT ATATT AT-ATT
14333588 A-A-T ATATT ATATT ATATT ATA-T ATAT
1 ATATT ATATT ATATT ATATT ATATT ATAT
14333614 ACATAAAACA
Statistics
Matches: 56, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
3 4 0.07
4 8 0.14
5 33 0.59
6 10 0.18
7 1 0.02
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (5 bp):
ATATT
Found at i:14333595 original size:19 final size:19
Alignment explanation
Indices: 14333571--14333613 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
14333561 ATTATGTTTT
14333571 TATATTATATTATCATTA-A
1 TATATTATATTAT-ATTATA
14333590 TATATTATATTATATTATA
1 TATATTATATTATATTATA
14333609 TATAT
1 TATAT
14333614 ACATAAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
TATATTATATTATATTATA
Found at i:14333645 original size:17 final size:17
Alignment explanation
Indices: 14333623--14333656 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
14333613 TACATAAAAC
*
14333623 AAAAGAAAGAATAGAAA
1 AAAAGAAAGAAAAGAAA
14333640 AAAAGAAAGAAAAGAAA
1 AAAAGAAAGAAAAGAAA
14333657 CAGAATAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (17 bp):
AAAAGAAAGAAAAGAAA
Found at i:14333652 original size:9 final size:9
Alignment explanation
Indices: 14333623--14333656 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
14333613 TACATAAAAC
14333623 AAAAGAAAG
1 AAAAGAAAG
*
14333632 AATAGAAA-
1 AAAAGAAAG
14333640 AAAAGAAAG
1 AAAAGAAAG
14333649 AAAAGAAA
1 AAAAGAAA
14333657 CAGAATAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (9 bp):
AAAAGAAAG
Found at i:14334675 original size:46 final size:44
Alignment explanation
Indices: 14334616--14334730 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
14334606 ACAGGACAGA
* *
14334616 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
14334662 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
14334706 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
14334731 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:14334711 original size:44 final size:45
Alignment explanation
Indices: 14334616--14334749 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
14334606 ACAGGACAGA
* *
14334616 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
14334662 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
14334706 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
14334750 CAGGGTATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:14348174 original size:12 final size:12
Alignment explanation
Indices: 14348157--14348187 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
14348147 AGATTCGAAG
14348157 AAATGCTTATGA
1 AAATGCTTATGA
*
14348169 AAATGCCTATGA
1 AAATGCTTATGA
14348181 AAATGCT
1 AAATGCT
14348188 GCGATTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (12 bp):
AAATGCTTATGA
Found at i:14349529 original size:21 final size:21
Alignment explanation
Indices: 14349480--14349531 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 21
14349470 TGGCTACTGC
*
14349480 AGAAGAGAAA-ATTGTTGCTGA
1 AGAAGAGAAAGA-AGTTGCTGA
14349501 AG-A-A-AAAGAAGTTGCTGA
1 AGAAGAGAAAGAAGTTGCTGA
14349519 AGAAGAGAAAGAA
1 AGAAGAGAAAGAA
14349532 AGAAAAGAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
18 13 0.50
19 3 0.12
20 2 0.08
21 8 0.31
ACGTcount: A:0.52, C:0.04, G:0.29, T:0.15
Consensus pattern (21 bp):
AGAAGAGAAAGAAGTTGCTGA
Found at i:14349814 original size:5 final size:5
Alignment explanation
Indices: 14349798--14349831 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
14349788 TGCAACACCT
*
14349798 AAAGA AAGGA AAAGA AAAGA AAAGA AAAGA AAAG
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAG
14349832 GAAGCGCTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:14349947 original size:17 final size:17
Alignment explanation
Indices: 14349925--14349962 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
14349915 TTGATAATTG
14349925 AGTTAGTTTTATTTTAA
1 AGTTAGTTTTATTTTAA
14349942 AGTTAGTTTTATTTTAA
1 AGTTAGTTTTATTTTAA
14349959 AGTT
1 AGTT
14349963 GTAGCTGTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.13, T:0.58
Consensus pattern (17 bp):
AGTTAGTTTTATTTTAA
Found at i:14356559 original size:19 final size:20
Alignment explanation
Indices: 14356535--14356573 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
14356525 AGGTAAATTG
14356535 AAAATGAT-TATTTGAGTTT
1 AAAATGATATATTTGAGTTT
* *
14356554 AAAATGCTATGTTTGAGTTT
1 AAAATGATATATTTGAGTTT
14356574 GATTATTGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.33, C:0.03, G:0.18, T:0.46
Consensus pattern (20 bp):
AAAATGATATATTTGAGTTT
Found at i:14360037 original size:44 final size:42
Alignment explanation
Indices: 14359972--14360081 Score: 105
Period size: 44 Copynumber: 2.6 Consensus size: 42
14359962 ATATGTGTTA
* ** * *
14359972 TCGTGTACGACCGCGTCTGGGACGTTGACATC-GATTTGAGATT
1 TCGTGTAAGACCATGTCTGGGACATCGACATCAGATTTG-G-TT
* * *
14360015 TATGTGTAAGACCATGTCTGGGACATCGGCATCATATTTGGTT
1 T-CGTGTAAGACCATGTCTGGGACATCGACATCAGATTTGGTT
*
14360058 TCGTGTAAGACCCTGTCTGGGACA
1 TCGTGTAAGACCATGTCTGGGACA
14360082 GTGGCATTGA
Statistics
Matches: 55, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
42 21 0.38
43 4 0.07
44 25 0.45
45 5 0.09
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (42 bp):
TCGTGTAAGACCATGTCTGGGACATCGACATCAGATTTGGTT
Found at i:14360107 original size:42 final size:42
Alignment explanation
Indices: 14360019--14360114 Score: 115
Period size: 42 Copynumber: 2.3 Consensus size: 42
14360009 GAGATTTATG
* * *
14360019 TGTAAGACCATGTCTGGGACATCGGCATCATATTTGGTTTCG
1 TGTAAGACCATGTCTGGGACATCGGCATCATATTTGATTACA
* *
14360061 TGTAAGACCCTGTCTGGGACAGT-GGCATTGATA-TTGATTACA
1 TGTAAGACCATGTCTGGGACA-TCGGCA-TCATATTTGATTACA
14360103 TGTAAGACCATG
1 TGTAAGACCATG
14360115 CCTGAGACGT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
42 41 0.89
43 5 0.11
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATCGGCATCATATTTGATTACA
Found at i:14367116 original size:26 final size:26
Alignment explanation
Indices: 14367083--14367135 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
14367073 ATTCGTTATC
14367083 TAATTTATATGTAAATAAATGAGATG
1 TAATTTATATGTAAATAAATGAGATG
14367109 TAATTTATATGTAAATAAATGAGATG
1 TAATTTATATGTAAATAAATGAGATG
14367135 T
1 T
14367136 TAATGATATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.15, T:0.40
Consensus pattern (26 bp):
TAATTTATATGTAAATAAATGAGATG
Found at i:14367144 original size:26 final size:26
Alignment explanation
Indices: 14367083--14367145 Score: 92
Period size: 26 Copynumber: 2.4 Consensus size: 26
14367073 ATTCGTTATC
*
14367083 TAATTTATATGTAAATAAATGAGATG
1 TAATTGATATGTAAATAAATGAGATG
*
14367109 TAATTTATATGTAAATAAATGAGATG
1 TAATTGATATGTAAATAAATGAGATG
14367135 TTAA-TGATATG
1 -TAATTGATATG
14367146 GGTTGGAAAG
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
26 32 0.91
27 3 0.09
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (26 bp):
TAATTGATATGTAAATAAATGAGATG
Found at i:14374400 original size:9 final size:9
Alignment explanation
Indices: 14374361--14374420 Score: 57
Period size: 9 Copynumber: 6.7 Consensus size: 9
14374351 GCCCAGAGCT
14374361 ACTTCTTTC
1 ACTTCTTTC
**
14374370 TTTTCTTTC
1 ACTTCTTTC
* *
14374379 TCTTGTTTC
1 ACTTCTTTC
*
14374388 ACTTCTTTT
1 ACTTCTTTC
*
14374397 ACTTCCTTC
1 ACTTCTTTC
14374406 ACTTCTTTC
1 ACTTCTTTC
*
14374415 TCTTCT
1 ACTTCT
14374421 GCTGGAATTG
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
9 40 1.00
ACGTcount: A:0.07, C:0.30, G:0.02, T:0.62
Consensus pattern (9 bp):
ACTTCTTTC
Found at i:14374882 original size:48 final size:48
Alignment explanation
Indices: 14374819--14375000 Score: 267
Period size: 48 Copynumber: 3.8 Consensus size: 48
14374809 TTCCTTCCTT
* *
14374819 TGCAGATTTCGGAACAGAACTTACTGCTCTAGGTTCATTGGCTTCTTC
1 TGCAGATTTCGGAACAGAACTTACTGCTTTCGGTTCATTGGCTTCTTC
* *
14374867 TGCAGATTTCGGAACAGAACTTACCGCTTTCGGTTCATTGACTTCTTC
1 TGCAGATTTCGGAACAGAACTTACTGCTTTCGGTTCATTGGCTTCTTC
*
14374915 TGCAGATTTCGGAACAGAACTTACTGCTTTCGGTTCATCGGCTT-TCTC
1 TGCAGATTTCGGAACAGAACTTACTGCTTTCGGTTCATTGGCTTCT-TC
* * * *
14374963 TACAGATTTTGGAACAGAACTTATTGCTTTCGATTCAT
1 TGCAGATTTCGGAACAGAACTTACTGCTTTCGGTTCAT
14375001 CAGCCATGGC
Statistics
Matches: 122, Mismatches: 11, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
47 1 0.01
48 121 0.99
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.36
Consensus pattern (48 bp):
TGCAGATTTCGGAACAGAACTTACTGCTTTCGGTTCATTGGCTTCTTC
Found at i:14380456 original size:7 final size:7
Alignment explanation
Indices: 14380444--14380471 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
14380434 TCATTTCTTC
14380444 ATTTCAT
1 ATTTCAT
14380451 ATTTCAT
1 ATTTCAT
14380458 ATTTCAT
1 ATTTCAT
14380465 ATTTCAT
1 ATTTCAT
14380472 TTCGTATTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.00, T:0.57
Consensus pattern (7 bp):
ATTTCAT
Found at i:14380456 original size:12 final size:12
Alignment explanation
Indices: 14380441--14380484 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 12
14380431 ATCTCATTTC
14380441 TTCATTTCATAT
1 TTCATTTCATAT
14380453 TTCATATTTCATAT
1 TTC--ATTTCATAT
*
14380467 TTCATTTCGTA-
1 TTCATTTCATAT
14380478 TTCATTT
1 TTCATTT
14380485 ATCATCTTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
11 7 0.24
12 10 0.34
14 12 0.41
ACGTcount: A:0.23, C:0.16, G:0.02, T:0.59
Consensus pattern (12 bp):
TTCATTTCATAT
Found at i:14382980 original size:198 final size:199
Alignment explanation
Indices: 14382642--14383025 Score: 626
Period size: 198 Copynumber: 1.9 Consensus size: 199
14382632 CGATGCCAAA
* * ** * *
14382642 CCCATGCTAGGACAGACGCCAAGGTATGCACCGTCACTGATGGCGGTACCGCTGCAGATACTTGT
1 CCCATGCCAGGACAGACACCAAGGTATGCACCGTCACCAATGGCGATACCGATGCAGATACTTGT
14382707 GCAACAATTGATGATGATGACGATGCCCAACAGCGTTCTGATGTACCCAAGATTTGGGGCACCTT
66 GCAACAATTGATGATGATGACGATGCCCAACAGCGTTCTGATGTACCCAAGATTTGGGGCACCTT
*
14382772 ATGGTTACACGCCTATAGTGACCTAAACACCGCACACATCACTTTTTCATG-GGTTTCTGATACC
131 ATGGTTACACGCCTATAGTGACCCAAACACCGCACACATCACTTTTTCATGAGGTTTCTGATACC
14382836 GAAC
196 GAAC
*
14382840 CCCATGCCAGGACAGACACCAAGGTATGCACCGTCACCAATGGCGATACCGATGCAGATGCTTGT
1 CCCATGCCAGGACAGACACCAAGGTATGCACCGTCACCAATGGCGATACCGATGCAGATACTTGT
* * ** * * *
14382905 GTAGCAATTGATGATGATGACGATGCCTGACAGGGTTTTGATGTACCCAATATTTGGGGCACCTT
66 GCAACAATTGATGATGATGACGATGCCCAACAGCGTTCTGATGTACCCAAGATTTGGGGCACCTT
14382970 ATGGTTACACGCCTATAGTGACCCAAACACCGCACACATCACTTTTTCATGAGGTT
131 ATGGTTACACGCCTATAGTGACCCAAACACCGCACACATCACTTTTTCATGAGGTT
14383026 GGCTCATCAT
Statistics
Matches: 170, Mismatches: 15, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
198 166 0.98
199 4 0.02
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (199 bp):
CCCATGCCAGGACAGACACCAAGGTATGCACCGTCACCAATGGCGATACCGATGCAGATACTTGT
GCAACAATTGATGATGATGACGATGCCCAACAGCGTTCTGATGTACCCAAGATTTGGGGCACCTT
ATGGTTACACGCCTATAGTGACCCAAACACCGCACACATCACTTTTTCATGAGGTTTCTGATACC
GAAC
Done.