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 116 of 228
Found at i:34238725 original size:203 final size:204
Alignment explanation
Indices: 34238360--34238767 Score: 712
Period size: 203 Copynumber: 2.0 Consensus size: 204
34238350 AAAATCATTT
* * *
34238360 TATTTTTGTATTTTAATTTTATTTCTTATAATTTAGTCATTTCTAAAATAAATAATTATACTTAA
1 TATTTTTGTATTTTAATTTTATTTCTTATAATTTAGTCATCTCCAAAATAAATAATTATACCTAA
*
34238425 ATATCCATATGAATCTATTACTTTTTTTAATTTATTTATTAATTCTATTTAAACTAATATTTAAA
66 ATATCCATATGAATCTATTAC-TTTTTTAACTTATTTATTAATTCTATTTAAACTAATATTTAAA
* *
34238490 TATATCAAATGCTTTAGATTAAATTTTTTTAAATATAAAAGTATTAATTAATTGTATAAAATTTT
130 TATATCAAATGCTTTAGATTAAATTTTTTTAAATATAAAAGAATTAATTAATTGTATAAAATTTA
34238555 ATCATTTAAC
195 ATCATTTAAC
*
34238565 TATTTTTGTATTTTAATTTTATTTCTTATAATTT-GATCCTCTCCAAAATAAATAATTATACCTA
1 TATTTTTGTATTTTAATTTTATTTCTTATAATTTAG-TCATCTCCAAAATAAATAATTATACCTA
34238629 AATATCCATATGAATCTATTA-TTTTTTAACTTATTTATTAATTCTATTTAAACTAATATTTAAA
65 AATATCCATATGAATCTATTACTTTTTTAACTTATTTATTAATTCTATTTAAACTAATATTTAAA
*
34238693 TATATCAAATGGTTTAGATTAAATTTTTTTAAATATAAAAGAATTAATTAATTGTATAAAATTTA
130 TATATCAAATGCTTTAGATTAAATTTTTTTAAATATAAAAGAATTAATTAATTGTATAAAATTTA
34238758 ATCATTTAAC
195 ATCATTTAAC
34238768 CAATCTCAAG
Statistics
Matches: 194, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
203 114 0.59
204 1 0.01
205 79 0.41
ACGTcount: A:0.39, C:0.08, G:0.04, T:0.50
Consensus pattern (204 bp):
TATTTTTGTATTTTAATTTTATTTCTTATAATTTAGTCATCTCCAAAATAAATAATTATACCTAA
ATATCCATATGAATCTATTACTTTTTTAACTTATTTATTAATTCTATTTAAACTAATATTTAAAT
ATATCAAATGCTTTAGATTAAATTTTTTTAAATATAAAAGAATTAATTAATTGTATAAAATTTAA
TCATTTAAC
Found at i:34242693 original size:18 final size:18
Alignment explanation
Indices: 34242661--34242703 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
34242651 ACTAATTATT
34242661 ATATTTA-AAATAAAATC-
1 ATATTTATAAATAAAA-CG
*
34242678 ATATTTATATATAAAACG
1 ATATTTATAAATAAAACG
34242696 ATATTTAT
1 ATATTTAT
34242704 TTAATTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (18 bp):
ATATTTATAAATAAAACG
Found at i:34243351 original size:137 final size:137
Alignment explanation
Indices: 34243105--34243379 Score: 541
Period size: 137 Copynumber: 2.0 Consensus size: 137
34243095 CTAGGTCCTT
34243105 TCTGCCATATTTAATCATCTCAAGCTTGATTTCTTCAATTTCTTTCTTAAAATTTTAGTGAAATC
1 TCTGCCATATTTAATCATCTCAAGCTTGATTTCTTCAATTTCTTTCTTAAAATTTTAGTGAAATC
34243170 AATAGAACAAACTCATAGCAAGCTTAATTTCTTGTAGAATCAACTAGTGCTCGTGTTGGAGGAGA
66 AATAGAACAAACTCATAGCAAGCTTAATTTCTTGTAGAATCAACTAGTGCTCGTGTTGGAGGAGA
34243235 GAGAAAA
131 GAGAAAA
34243242 TCTGCCATATTTAATCATCTCAAGCTTGATTTCTTCAATTTCTTTCTTAAAATTTTAGTGAAATC
1 TCTGCCATATTTAATCATCTCAAGCTTGATTTCTTCAATTTCTTTCTTAAAATTTTAGTGAAATC
*
34243307 AATAGAACAAACTCATATCAAGCTTAATTTCTTGTAGAATCAACTAGTGCTCGTGTTGGAGGAGA
66 AATAGAACAAACTCATAGCAAGCTTAATTTCTTGTAGAATCAACTAGTGCTCGTGTTGGAGGAGA
34243372 GAGAAAA
131 GAGAAAA
34243379 T
1 T
34243380 TGAATTTAGG
Statistics
Matches: 137, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 137 1.00
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (137 bp):
TCTGCCATATTTAATCATCTCAAGCTTGATTTCTTCAATTTCTTTCTTAAAATTTTAGTGAAATC
AATAGAACAAACTCATAGCAAGCTTAATTTCTTGTAGAATCAACTAGTGCTCGTGTTGGAGGAGA
GAGAAAA
Found at i:34246531 original size:19 final size:18
Alignment explanation
Indices: 34246508--34246550 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 18
34246498 ATTTAGCCTT
*
34246508 TTTTTATTTTTACTTTAA
1 TTTTTATTTTTAATTTAA
34246526 TATTTTATTTTTAATTTAA
1 T-TTTTATTTTTAATTTAA
34246545 TTTTTA
1 TTTTTA
34246551 CATTCTAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.26
19 17 0.74
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTTATTTTTAATTTAA
Found at i:34246549 original size:13 final size:14
Alignment explanation
Indices: 34246532--34246563 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
34246522 TTAATATTTT
34246532 ATTTTTA-ATT-TA
1 ATTTTTACATTCTA
34246544 ATTTTTACATTCTA
1 ATTTTTACATTCTA
34246558 ATTTTT
1 ATTTTT
34246564 TCGTTTGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.39
13 3 0.17
14 8 0.44
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (14 bp):
ATTTTTACATTCTA
Found at i:34249984 original size:25 final size:25
Alignment explanation
Indices: 34249936--34250010 Score: 89
Period size: 25 Copynumber: 3.0 Consensus size: 25
34249926 CACTTTAATT
*
34249936 TGTCTGAACAATAGACACAA-TTAAAG
1 TGTCTGAACTA-AGAC-CAATTTAAAG
**
34249962 TGTCTGAACTAAGACCAATTTAATT
1 TGTCTGAACTAAGACCAATTTAAAG
*
34249987 TGTCTAAACTAAGACCAATTTAAA
1 TGTCTGAACTAAGACCAATTTAAA
34250011 TCACTCAATA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
24 3 0.07
25 30 0.70
26 10 0.23
ACGTcount: A:0.43, C:0.16, G:0.12, T:0.29
Consensus pattern (25 bp):
TGTCTGAACTAAGACCAATTTAAAG
Found at i:34250714 original size:35 final size:35
Alignment explanation
Indices: 34250668--34250737 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
34250658 ATGGAATGCA
34250668 GAAACCAATGTCAGAGTAGGAGTTATAAGTTGGTC
1 GAAACCAATGTCAGAGTAGGAGTTATAAGTTGGTC
34250703 GAAACCAATGTCAGAGTAGGAGTTATAAGTTGGTC
1 GAAACCAATGTCAGAGTAGGAGTTATAAGTTGGTC
34250738 TTACCTTCTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (35 bp):
GAAACCAATGTCAGAGTAGGAGTTATAAGTTGGTC
Found at i:34251270 original size:23 final size:23
Alignment explanation
Indices: 34251240--34251284 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
34251230 CACTTGTAGA
*
34251240 TTAATTTCATTTCTGATGTTACC
1 TTAATTTCATTTCTGATCTTACC
34251263 TTAATTTCATTTCTGATCTTAC
1 TTAATTTCATTTCTGATCTTAC
34251285 TTTTCTCGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.22, C:0.18, G:0.07, T:0.53
Consensus pattern (23 bp):
TTAATTTCATTTCTGATCTTACC
Found at i:34252063 original size:54 final size:54
Alignment explanation
Indices: 34251972--34252075 Score: 172
Period size: 54 Copynumber: 1.9 Consensus size: 54
34251962 ATTCCTTGAT
* * **
34251972 GAATAGGAATCTCGATATAGATCTCTTCTCAGGAAATCATTAGACATTTGGCTC
1 GAATAGGAATCACGATATAGATCTCTGCTCAAAAAATCATTAGACATTTGGCTC
34252026 GAATAGGAATCACGATATAGATCTCTGCTCAAAAAATCATTAGACATTTG
1 GAATAGGAATCACGATATAGATCTCTGCTCAAAAAATCATTAGACATTTG
34252076 AATCCTTAAC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 46 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (54 bp):
GAATAGGAATCACGATATAGATCTCTGCTCAAAAAATCATTAGACATTTGGCTC
Found at i:34254231 original size:25 final size:25
Alignment explanation
Indices: 34254183--34254257 Score: 71
Period size: 25 Copynumber: 3.0 Consensus size: 25
34254173 CACTTTAATT
*
34254183 TGTCTAAACAATAGACACAA-TTAAAG
1 TGTCTAAACTA-AGAC-CAATTTAAAG
* * **
34254209 TGTCTGATCTAAGACCAATTTAATT
1 TGTCTAAACTAAGACCAATTTAAAG
*
34254234 TGTCTAAAGTAAGACCAATTTAAA
1 TGTCTAAACTAAGACCAATTTAAA
34254258 TCACTCAAAA
Statistics
Matches: 39, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
24 3 0.08
25 28 0.72
26 8 0.21
ACGTcount: A:0.43, C:0.15, G:0.12, T:0.31
Consensus pattern (25 bp):
TGTCTAAACTAAGACCAATTTAAAG
Found at i:34257866 original size:31 final size:34
Alignment explanation
Indices: 34257796--34257872 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 34
34257786 TATTAAATCT
* *
34257796 TATTAAAATAATAGAATATTTATTTACAAGATAAA
1 TATTAAATTAATAAAATATTTATTTA-AAGATAAA
*
34257831 TATTAAATTAATAAAATA-TTA-TT-AAGATAAG
1 TATTAAATTAATAAAATATTTATTTAAAGATAAA
34257862 TATTAAATTAA
1 TATTAAATTAA
34257873 ATTTAATATT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
31 18 0.46
33 2 0.05
34 3 0.08
35 16 0.41
ACGTcount: A:0.55, C:0.01, G:0.05, T:0.39
Consensus pattern (34 bp):
TATTAAATTAATAAAATATTTATTTAAAGATAAA
Found at i:34263125 original size:10 final size:9
Alignment explanation
Indices: 34263110--34263135 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
34263100 GTTTTGTTCT
34263110 AAAAAAAAG
1 AAAAAAAAG
34263119 AAAAAAAAG
1 AAAAAAAAG
34263128 AAAAAAAA
1 AAAAAAAA
34263136 TATTTGATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:34268529 original size:10 final size:10
Alignment explanation
Indices: 34268514--34268539 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
34268504 CACAAACGAT
34268514 TTTTTTTGAA
1 TTTTTTTGAA
34268524 TTTTTTTGAA
1 TTTTTTTGAA
34268534 TTTTTT
1 TTTTTT
34268540 CTAAAAATGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (10 bp):
TTTTTTTGAA
Found at i:34270165 original size:50 final size:50
Alignment explanation
Indices: 34270083--34270315 Score: 245
Period size: 50 Copynumber: 4.7 Consensus size: 50
34270073 AAAGAGATCA
* * * *
34270083 CATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGACGAGAGGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATGAGAGGTCC
* *
34270133 CATGTAAGACCATGTCTGGGACGTGGCGTTGGCACCGACATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATGAGAGGTCC
** * * * **
34270183 CCCGTAAGACCATGTTTGGGACATGGCATAGGCACCGATATGAGAACTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATGAGAGGTCC
* * * * * * **
34270233 CATGTAAGACCATATCAGGGATATGACATTGGTA--GTACATGAAACATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-ACATGAGAGGTCC
*
34270282 CATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA
34270316 TGTTATTATC
Statistics
Matches: 148, Mismatches: 34, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
48 1 0.01
49 37 0.25
50 110 0.74
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.22
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATGAGAGGTCC
Found at i:34277560 original size:50 final size:50
Alignment explanation
Indices: 34277477--34277717 Score: 281
Period size: 50 Copynumber: 4.8 Consensus size: 50
34277467 ATTTGGGTAA
* *
34277477 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
34277527 AGAGGTCACATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
34277577 AGAGGTCCCCA-GTAAGACCATGTTTGGGACATGGCATGGGCACCGATATG
1 AGAGGT-CCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
34277627 AGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* ** * *
34277676 AAACATCCCATGTAAGACTATGTCTGGGACATGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
34277718 TGTTATTATC
Statistics
Matches: 165, Mismatches: 23, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
48 1 0.01
49 43 0.26
50 118 0.72
51 3 0.02
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:34281046 original size:25 final size:26
Alignment explanation
Indices: 34281018--34281074 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
34281008 AGATTAAAGT
*
34281018 CTAACCTA-AAAGGAAAAGATAAAA-C
1 CTAACCTACAAAGGAAAA-AAAAAACC
* *
34281043 CTAAACTACAAATGAAAAAAAAAACC
1 CTAACCTACAAAGGAAAAAAAAAACC
34281069 CTAACC
1 CTAACC
34281075 CTAACCTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 12 0.46
26 14 0.54
ACGTcount: A:0.60, C:0.21, G:0.07, T:0.12
Consensus pattern (26 bp):
CTAACCTACAAAGGAAAAAAAAAACC
Found at i:34281297 original size:22 final size:22
Alignment explanation
Indices: 34281267--34281321 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
34281257 TGCGTCAGTC
* *
34281267 TTAGCTATTGCAATATTCGAGT
1 TTAGGTATTGCAATATCCGAGT
* **
34281289 TTAGGTATTGCGATATCCTTGT
1 TTAGGTATTGCAATATCCGAGT
34281311 TTAGGTATTGC
1 TTAGGTATTGC
34281322 GATACCCAAG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.22, C:0.13, G:0.22, T:0.44
Consensus pattern (22 bp):
TTAGGTATTGCAATATCCGAGT
Found at i:34285040 original size:12 final size:12
Alignment explanation
Indices: 34285019--34285048 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
34285009 TCAGGCTGTT
*
34285019 ACACGACCTAGC
1 ACACGGCCTAGC
34285031 ACACGGCCTAGC
1 ACACGGCCTAGC
34285043 ACACGG
1 ACACGG
34285049 GCGTGTGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.40, G:0.23, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:34285248 original size:30 final size:30
Alignment explanation
Indices: 34285212--34285280 Score: 138
Period size: 30 Copynumber: 2.3 Consensus size: 30
34285202 GTGTGTCTCA
34285212 GCCGTGTGAGTCACACGGCCTGGCCACATG
1 GCCGTGTGAGTCACACGGCCTGGCCACATG
34285242 GCCGTGTGAGTCACACGGCCTGGCCACATG
1 GCCGTGTGAGTCACACGGCCTGGCCACATG
34285272 GCCGTGTGA
1 GCCGTGTGA
34285281 CCCCTACAGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.16, C:0.32, G:0.35, T:0.17
Consensus pattern (30 bp):
GCCGTGTGAGTCACACGGCCTGGCCACATG
Found at i:34285261 original size:17 final size:17
Alignment explanation
Indices: 34285212--34285261 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
34285202 GTGTGTCTCA
34285212 GCCGTGTGAGTCACACG
1 GCCGTGTGAGTCACACG
* *
34285229 GCC---TG-GCCACATG
1 GCCGTGTGAGTCACACG
34285242 GCCGTGTGAGTCACACG
1 GCCGTGTGAGTCACACG
34285259 GCC
1 GCC
34285262 TGGCCACATG
Statistics
Matches: 25, Mismatches: 4, Indels: 8
0.68 0.11 0.22
Matches are distributed among these distances:
13 9 0.36
14 2 0.08
16 2 0.08
17 12 0.48
ACGTcount: A:0.16, C:0.34, G:0.34, T:0.16
Consensus pattern (17 bp):
GCCGTGTGAGTCACACG
Found at i:34286500 original size:11 final size:10
Alignment explanation
Indices: 34286468--34286501 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
34286458 AAAACAAATG
*
34286468 GAATTTTTTG
1 GAATTTTTTT
34286478 GAATTTTTTT
1 GAATTTTTTT
34286488 GAATTTCTTTT
1 GAATTT-TTTT
34286499 GAA
1 GAA
34286502 AATGCATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 15 0.68
11 7 0.32
ACGTcount: A:0.24, C:0.03, G:0.15, T:0.59
Consensus pattern (10 bp):
GAATTTTTTT
Found at i:34288244 original size:25 final size:25
Alignment explanation
Indices: 34288213--34288264 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
34288203 TTAACTGAAT
*
34288213 GTATTTAGTTCAACCAATTAATTTA
1 GTATTTAGTTCAACCAATCAATTTA
**
34288238 GTATTTAGTTCAATTAATCAATTTA
1 GTATTTAGTTCAACCAATCAATTTA
34288263 GT
1 GT
34288265 TTATACAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.46
Consensus pattern (25 bp):
GTATTTAGTTCAACCAATCAATTTA
Found at i:34288469 original size:6 final size:6
Alignment explanation
Indices: 34288458--34288490 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
34288448 GTTCTAACTC
34288458 AAATCA AAATCA AAATCA AAATCA AAAT-A AAAT
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAAT
34288491 TACTTGATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.70, C:0.12, G:0.00, T:0.18
Consensus pattern (6 bp):
AAATCA
Found at i:34290301 original size:121 final size:121
Alignment explanation
Indices: 34290087--34290328 Score: 475
Period size: 121 Copynumber: 2.0 Consensus size: 121
34290077 AAAACCCCTC
*
34290087 CAACTTCACCAGATTTCCATGGTTTACCTTCAACATCAGAATCATGGTTCAGTCCATTAATCAAA
1 CAACTTCACCAGATTTCCATGGTTTACCTTCAAAATCAGAATCATGGTTCAGTCCATTAATCAAA
34290152 TCATGCTTACTTTAGGAATAAAAGAAAAGGTTATAGGCGTTATATAATATCATCTT
66 TCATGCTTACTTTAGGAATAAAAGAAAAGGTTATAGGCGTTATATAATATCATCTT
34290208 CAACTTCACCAGATTTCCATGGTTTACCTTCAAAATCAGAATCATGGTTCAGTCCATTAATCAAA
1 CAACTTCACCAGATTTCCATGGTTTACCTTCAAAATCAGAATCATGGTTCAGTCCATTAATCAAA
34290273 TCATGCTTACTTTAGGAATAAAAGAAAAGGTTATAGGCGTTATATAATATCATCTT
66 TCATGCTTACTTTAGGAATAAAAGAAAAGGTTATAGGCGTTATATAATATCATCTT
34290329 GGAGAGGATG
Statistics
Matches: 120, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
121 120 1.00
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (121 bp):
CAACTTCACCAGATTTCCATGGTTTACCTTCAAAATCAGAATCATGGTTCAGTCCATTAATCAAA
TCATGCTTACTTTAGGAATAAAAGAAAAGGTTATAGGCGTTATATAATATCATCTT
Found at i:34290602 original size:30 final size:28
Alignment explanation
Indices: 34290536--34290604 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 28
34290526 ATGTATGAAA
*
34290536 TTTTTAATACACAAAATTAATTTACTTT
1 TTTTTAATACACAAAACTAATTTACTTT
34290564 TTGATTTAACTTACA-AAAACTAATTTACTTAT
1 TT--TTTAA--TACACAAAACTAATTTACTT-T
34290596 TTTTTAATA
1 TTTTTAATA
34290605 TAAATAAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
28 4 0.11
30 10 0.29
31 14 0.40
32 7 0.20
ACGTcount: A:0.39, C:0.10, G:0.01, T:0.49
Consensus pattern (28 bp):
TTTTTAATACACAAAACTAATTTACTTT
Found at i:34290728 original size:52 final size:52
Alignment explanation
Indices: 34290616--34290720 Score: 210
Period size: 52 Copynumber: 2.0 Consensus size: 52
34290606 AAATAAATAA
34290616 AATACAATTTAACACTCTCTCAATCATACTTTTACTTCTTAGAACTAATATG
1 AATACAATTTAACACTCTCTCAATCATACTTTTACTTCTTAGAACTAATATG
34290668 AATACAATTTAACACTCTCTCAATCATACTTTTACTTCTTAGAACTAATATG
1 AATACAATTTAACACTCTCTCAATCATACTTTTACTTCTTAGAACTAATATG
34290720 A
1 A
34290721 GTTCAATTAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.37, C:0.21, G:0.04, T:0.38
Consensus pattern (52 bp):
AATACAATTTAACACTCTCTCAATCATACTTTTACTTCTTAGAACTAATATG
Found at i:34296425 original size:9 final size:9
Alignment explanation
Indices: 34296411--34296450 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
34296401 CCAATACGAA
*
34296411 CACCTCTGC
1 CACCTCTAC
34296420 CACCTCTAC
1 CACCTCTAC
*
34296429 CACCTCCAC
1 CACCTCTAC
*
34296438 CACCACTAC
1 CACCTCTAC
34296447 CACC
1 CACC
34296451 CTCCCTTTCC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.23, C:0.60, G:0.03, T:0.15
Consensus pattern (9 bp):
CACCTCTAC
Found at i:34299254 original size:2 final size:2
Alignment explanation
Indices: 34299247--34299271 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
34299237 GTGTTTTAAA
34299247 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
34299272 ACTCTGAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:34303245 original size:24 final size:26
Alignment explanation
Indices: 34303198--34303254 Score: 66
Period size: 24 Copynumber: 2.3 Consensus size: 26
34303188 CTGGAGCTCT
*
34303198 TGATTAAAGGCTCTTCACGAGCTTCC
1 TGATTATAGGCTCTTCACGAGCTTCC
* *
34303224 TGATTATA-GCTCTT-ATGAGCTTCT
1 TGATTATAGGCTCTTCACGAGCTTCC
34303248 TG-TTATA
1 TGATTATA
34303255 TGGCCCTGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 5 0.18
24 10 0.36
25 6 0.21
26 7 0.25
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.40
Consensus pattern (26 bp):
TGATTATAGGCTCTTCACGAGCTTCC
Found at i:34304699 original size:43 final size:43
Alignment explanation
Indices: 34304652--34304750 Score: 153
Period size: 43 Copynumber: 2.3 Consensus size: 43
34304642 ATGGCCTAAG
* *
34304652 ACACGGGTGTGTCCCTTGGCCATGTGAACCACACGGTTTGACC
1 ACACGGGTGTGTCCCTTGGCCATGTGAACCACACGGTCTAACC
*
34304695 ACACGGGCGTGTCCCTTGGCCATGTGAACCACACGGTCTAACC
1 ACACGGGTGTGTCCCTTGGCCATGTGAACCACACGGTCTAACC
34304738 ACACAGGCGTGTG
1 ACAC-GG-GTGTG
34304751 ACCCCTGCAC
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
43 44 0.88
44 2 0.04
45 4 0.08
ACGTcount: A:0.20, C:0.31, G:0.28, T:0.20
Consensus pattern (43 bp):
ACACGGGTGTGTCCCTTGGCCATGTGAACCACACGGTCTAACC
Found at i:34307958 original size:3 final size:3
Alignment explanation
Indices: 34307942--34308022 Score: 67
Period size: 3 Copynumber: 26.3 Consensus size: 3
34307932 TAATGAATAC
* * *
34307942 AAT AAT AAGA AAT AAT AAT AAA AAT AAT AA- AAT ATT CAATT AAT AAT
1 AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT -AA-T AAT AAT
* *
34307989 ACT ATAT AAT AAT AAT GAT AAT AAT AA- AAT AAT A
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
34308023 TAAAAAAAGT
Statistics
Matches: 62, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
2 4 0.06
3 50 0.81
4 7 0.11
5 1 0.02
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:34314873 original size:35 final size:35
Alignment explanation
Indices: 34314831--34314933 Score: 134
Period size: 35 Copynumber: 2.9 Consensus size: 35
34314821 ACACTAGATT
* *
34314831 CTCATAAGAGCCAGTCCATCCGAAACACACCAACG
1 CTCATAAGAGCTAATCCATCCGAAACACACCAACG
* * * *
34314866 CTCATAAGAGCTAATCCCTCCAAAAAACACCAATG
1 CTCATAAGAGCTAATCCATCCGAAACACACCAACG
* *
34314901 CTCATAAGAGCTAATACAACCGAAACACACCAA
1 CTCATAAGAGCTAATCCATCCGAAACACACCAA
34314934 AATATCGAGT
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 57 1.00
ACGTcount: A:0.43, C:0.33, G:0.11, T:0.14
Consensus pattern (35 bp):
CTCATAAGAGCTAATCCATCCGAAACACACCAACG
Found at i:34316296 original size:33 final size:33
Alignment explanation
Indices: 34316253--34316480 Score: 125
Period size: 33 Copynumber: 6.4 Consensus size: 33
34316243 GTGGATTCAG
* *
34316253 CACTTGGCAACCACCAGTGATTCGAGGAATCAA
1 CACTTAGCAACCACCAATGATTCGAGGAATCAA
* * *
34316286 CACTTAGCAACCACCAATGATTTGGGGAATCAG
1 CACTTAGCAACCACCAATGATTCGAGGAATCAA
* * * * *
34316319 CACTTACCAACCCCTTTCACATTCAAGATATGGTGGAATCAG
1 CACTTAGCAACCAC---CA-A-T---GAT-TCGAGGAATCAA
*
34316361 CACTTAGCAACCACCAATGATTCG-GGAAATCAG
1 CACTTAGCAACCACCAATGATTCGAGG-AATCAA
* * *
34316394 CACTTAGCAACCCCTTTCACATTCAAGTTACGGTGGAATCAA
1 CACTTAGCAACCAC---CA-A-T-GA-TT-C-GAGGAATCAA
* *
34316436 CACTTAGCAACCACCAATGATTCGGGGAATCAG
1 CACTTAGCAACCACCAATGATTCGAGGAATCAA
*
34316469 CACTTCGCAACC
1 CACTTAGCAACC
34316481 CCTTGGGGGA
Statistics
Matches: 155, Mismatches: 20, Indels: 40
0.72 0.09 0.19
Matches are distributed among these distances:
32 2 0.01
33 80 0.52
34 4 0.03
35 2 0.01
36 5 0.03
37 4 0.03
38 4 0.03
39 5 0.03
40 2 0.01
41 4 0.03
42 41 0.26
43 2 0.01
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (33 bp):
CACTTAGCAACCACCAATGATTCGAGGAATCAA
Found at i:34316372 original size:42 final size:42
Alignment explanation
Indices: 34316311--34316447 Score: 141
Period size: 42 Copynumber: 3.5 Consensus size: 42
34316301 AATGATTTGG
*
34316311 GGAATCAGCACTTACCAACCCCTTTCACATTCAAGATATGGT
1 GGAATCAGCACTTAGCAACCCCTTTCACATTCAAGATATGGT
*
34316353 GGAATCAGCACTTAGCAACCAC---CA-A-T---GAT-TCGG-
1 GGAATCAGCACTTAGCAACCCCTTTCACATTCAAGATAT-GGT
* * *
34316386 GAAATCAGCACTTAGCAACCCCTTTCACATTCAAGTTACGGT
1 GGAATCAGCACTTAGCAACCCCTTTCACATTCAAGATATGGT
*
34316428 GGAATCAACACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
34316448 ACCAATGATT
Statistics
Matches: 76, Mismatches: 8, Indels: 22
0.72 0.08 0.21
Matches are distributed among these distances:
33 21 0.28
34 5 0.07
36 2 0.03
37 2 0.03
38 2 0.03
39 2 0.03
41 4 0.05
42 38 0.50
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (42 bp):
GGAATCAGCACTTAGCAACCCCTTTCACATTCAAGATATGGT
Found at i:34316405 original size:75 final size:75
Alignment explanation
Indices: 34316278--34316484 Score: 351
Period size: 75 Copynumber: 2.8 Consensus size: 75
34316268 AGTGATTCGA
* *
34316278 GGAATCAACACTTAGCAACCACCAATGATTTGGGGAATCAGCACTTACCAACCCCTTTCACATTC
1 GGAATCAACACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTTCACATTC
*
34316343 AAGATATGGT
66 AAGATACGGT
* *
34316353 GGAATCAGCACTTAGCAACCACCAATGATTCGGGAAATCAGCACTTAGCAACCCCTTTCACATTC
1 GGAATCAACACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTTCACATTC
*
34316418 AAGTTACGGT
66 AAGATACGGT
*
34316428 GGAATCAACACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTCGCAACCCCTT
1 GGAATCAACACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTT
34316485 GGGGGAATCA
Statistics
Matches: 123, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 123 1.00
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (75 bp):
GGAATCAACACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTTCACATTC
AAGATACGGT
Found at i:34316493 original size:27 final size:27
Alignment explanation
Indices: 34316459--34316511 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
34316449 CCAATGATTC
* *
34316459 GGGGAATCAGCACTTCGCAACCCCTTG
1 GGGGAATCAACACTTAGCAACCCCTTG
34316486 GGGGAATCAACACTTAGCAACCCCTT
1 GGGGAATCAACACTTAGCAACCCCTT
34316512 TTATATTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.26, C:0.32, G:0.23, T:0.19
Consensus pattern (27 bp):
GGGGAATCAACACTTAGCAACCCCTTG
Found at i:34323770 original size:33 final size:33
Alignment explanation
Indices: 34323728--34323929 Score: 170
Period size: 33 Copynumber: 5.6 Consensus size: 33
34323718 AGATACAGTA
* *
34323728 GAATCAGCACTTAGCAACCACCAATGATTTGGC
1 GAATCAGCACTTAGCAACCACCAATGATTCGGG
* *
34323761 GAATCAGCACTTAGCAACCCCTTTCACATTCAAGATACGGTG
1 GAATCAGCACTTAGCAACCAC---CA-A-T---GATTCGG-G
*
34323803 GAATCAGCACTTAGCAGCCACCAATGATTCGGG
1 GAATCAGCACTTAGCAACCACCAATGATTCGGG
* * *
34323836 AAATCAGCACTTAGCAACCCCTTTCACATTCAAGTTACGGTG
1 GAATCAGCACTTAGCAACCAC---CA-A-T-GA-TT-CGG-G
34323878 GAATCAGCACTTAGCAACCACCAATGATTCGGG
1 GAATCAGCACTTAGCAACCACCAATGATTCGGG
34323911 GAATCAGCACTTAGCAACC
1 GAATCAGCACTTAGCAACC
34323930 CCTTGGGGGA
Statistics
Matches: 137, Mismatches: 14, Indels: 36
0.73 0.07 0.19
Matches are distributed among these distances:
33 59 0.43
34 9 0.07
35 2 0.01
36 5 0.04
37 4 0.03
38 4 0.03
39 5 0.04
40 2 0.01
41 8 0.06
42 39 0.28
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.21
Consensus pattern (33 bp):
GAATCAGCACTTAGCAACCACCAATGATTCGGG
Found at i:34323830 original size:75 final size:75
Alignment explanation
Indices: 34323650--34323933 Score: 451
Period size: 75 Copynumber: 3.8 Consensus size: 75
34323640 CGTTACTCGA
* * * *
34323650 TGGATTCAGCACTTAGCAACCACTAGTGATTCGGGGAATCAACACTTAGCAACCCCTTTCACATT
1 TGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTTCACATT
* *
34323715 AAAAGATACAG
66 -CAAGATACGG
* * *
34323726 TAGAATCAGCACTTAGCAACCACCAATGATTTGGCGAATCAGCACTTAGCAACCCCTTTCACATT
1 TGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTTCACATT
34323791 CAAGATACGG
66 CAAGATACGG
* *
34323801 TGGAATCAGCACTTAGCAGCCACCAATGATTCGGGAAATCAGCACTTAGCAACCCCTTTCACATT
1 TGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTTCACATT
*
34323866 CAAGTTACGG
66 CAAGATACGG
34323876 TGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTT
1 TGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTT
34323934 GGGGGAATCA
Statistics
Matches: 191, Mismatches: 17, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
75 133 0.70
76 58 0.30
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (75 bp):
TGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTTCACATT
CAAGATACGG
Found at i:34324327 original size:31 final size:30
Alignment explanation
Indices: 34324292--34324354 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
34324282 ATCCTCGACT
34324292 AAACTTTTTACAAAATTACGA-TTTTGTCCCC
1 AAACTTTTT-CAAAATTAC-ACTTTTGTCCCC
* *
34324323 AAACTTTTTCATATTTACACTTTTGTCCCC
1 AAACTTTTTCAAAATTACACTTTTGTCCCC
34324353 AA
1 AA
34324355 GCTCGAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 1 0.03
30 19 0.66
31 9 0.31
ACGTcount: A:0.30, C:0.24, G:0.05, T:0.41
Consensus pattern (30 bp):
AAACTTTTTCAAAATTACACTTTTGTCCCC
Found at i:34329001 original size:19 final size:19
Alignment explanation
Indices: 34328979--34329052 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
34328969 CTAGCACATA
34328979 AAGTGCATACTGGCACACG
1 AAGTGCATACTGGCACACG
* *
34328998 AAGTGCATCCTAGCACACG
1 AAGTGCATACTGGCACACG
* * * *
34329017 AAGTGTATATTGACGCACG
1 AAGTGCATACTGGCACACG
*
34329036 AAGTGCATCCTGGCACA
1 AAGTGCATACTGGCACA
34329053 TGAGGTGTAT
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
19 42 1.00
ACGTcount: A:0.31, C:0.26, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGTGCATACTGGCACACG
Found at i:34329021 original size:38 final size:38
Alignment explanation
Indices: 34328969--34329052 Score: 105
Period size: 38 Copynumber: 2.2 Consensus size: 38
34328959 AGATTGTAAA
* *
34328969 CTAGCACATAAAGTGCATACTGGCACACGAAGTGCATC
1 CTAGCACACAAAGTGCATACTGACACACGAAGTGCATC
* * * *
34329007 CTAGCACACGAAGTGTATATTGACGCACGAAGTGCATC
1 CTAGCACACAAAGTGCATACTGACACACGAAGTGCATC
*
34329045 CTGGCACA
1 CTAGCACA
34329053 TGAGGTGTAT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.32, C:0.26, G:0.23, T:0.19
Consensus pattern (38 bp):
CTAGCACACAAAGTGCATACTGACACACGAAGTGCATC
Found at i:34329449 original size:20 final size:20
Alignment explanation
Indices: 34329407--34329449 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
34329397 AAAAAAATTT
*
34329407 AAAACAATTTTCAAAAATGA
1 AAAACAATTTTCAAAAATCA
* * *
34329427 AAAATAATTTTTAAAATTCA
1 AAAACAATTTTCAAAAATCA
34329447 AAA
1 AAA
34329450 TATTTATAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.30
Consensus pattern (20 bp):
AAAACAATTTTCAAAAATCA
Found at i:34329511 original size:18 final size:19
Alignment explanation
Indices: 34329479--34329530 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
34329469 ATTTTATATT
* *
34329479 TTAAAAAATTCAAAAAAAG
1 TTAAAAATTTTAAAAAAAG
**
34329498 TT-AAAATTTT-AAAAATT
1 TTAAAAATTTTAAAAAAAG
34329515 TTAAAAATTTTAAAAA
1 TTAAAAATTTTAAAAA
34329531 TTTTCTAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
17 7 0.26
18 14 0.52
19 6 0.22
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (19 bp):
TTAAAAATTTTAAAAAAAG
Found at i:34329512 original size:9 final size:9
Alignment explanation
Indices: 34329500--34329534 Score: 70
Period size: 9 Copynumber: 3.9 Consensus size: 9
34329490 AAAAAAAGTT
34329500 AAAATTTTA
1 AAAATTTTA
34329509 AAAATTTTA
1 AAAATTTTA
34329518 AAAATTTTA
1 AAAATTTTA
34329527 AAAATTTT
1 AAAATTTT
34329535 CTAAAATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (9 bp):
AAAATTTTA
Found at i:34329530 original size:35 final size:34
Alignment explanation
Indices: 34329435--34329530 Score: 88
Period size: 35 Copynumber: 2.8 Consensus size: 34
34329425 GAAAAATAAT
* * *
34329435 TTTTAAAA-TTCAAAATATTTATAAAAAATTTCAAA
1 TTTTAAAATTTTAAAA-ATTT-TAAAAAAGTTAAAA
* **
34329470 TTTT-ATATTTTAAAAAATTCAAAAAAAGTTAAAA
1 TTTTAAAATTTT-AAAAATTTTAAAAAAGTTAAAA
34329504 TTTTAAAAATTTTAAAAATTTTAAAAA
1 TTTT-AAAATTTTAAAAATTTTAAAAA
34329531 TTTTCTAAAA
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
34 17 0.35
35 21 0.44
36 10 0.21
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (34 bp):
TTTTAAAATTTTAAAAATTTTAAAAAAGTTAAAA
Found at i:34332597 original size:39 final size:36
Alignment explanation
Indices: 34332511--34332597 Score: 102
Period size: 39 Copynumber: 2.3 Consensus size: 36
34332501 GATATTAAGC
* *
34332511 TTATGTATGATTTAAACGCATAAGTTTAAATATCAT
1 TTATATATGATTTAAACGCATAAATTTAAATATCAT
* *
34332547 ATATAACATGATTTAAACGCATAAAATGTTAAATATCAT
1 TTAT-ATATGATTTAAACGCAT-AAAT-TTAAATATCAT
34332586 GTTATATATGAT
1 -TTATATATGAT
34332598 AAAAAGTTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
36 3 0.07
37 15 0.37
38 3 0.07
39 17 0.41
40 3 0.07
ACGTcount: A:0.43, C:0.08, G:0.10, T:0.39
Consensus pattern (36 bp):
TTATATATGATTTAAACGCATAAATTTAAATATCAT
Found at i:34334346 original size:10 final size:10
Alignment explanation
Indices: 34334331--34334367 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
34334321 TACAATGCAT
34334331 AAGTAAATTA
1 AAGTAAATTA
*
34334341 AAGTAAAGTA
1 AAGTAAATTA
34334351 AAGTAAATTA
1 AAGTAAATTA
34334361 AAGTAAA
1 AAGTAAA
34334368 GCTTTAGTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.62, C:0.00, G:0.14, T:0.24
Consensus pattern (10 bp):
AAGTAAATTA
Found at i:34334347 original size:5 final size:5
Alignment explanation
Indices: 34334331--34334368 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
34334321 TACAATGCAT
* *
34334331 AAGTA AATTA AAGTA AAGTA AAGTA AATTA AAGTA AAG
1 AAGTA AAGTA AAGTA AAGTA AAGTA AAGTA AAGTA AAG
34334369 CTTTAGTTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.61, C:0.00, G:0.16, T:0.24
Consensus pattern (5 bp):
AAGTA
Found at i:34335306 original size:14 final size:13
Alignment explanation
Indices: 34335278--34335315 Score: 60
Period size: 14 Copynumber: 2.9 Consensus size: 13
34335268 ACAATAAAAG
34335278 AAGAAGAGAGAAA
1 AAGAAGAGAGAAA
34335291 AAGAAGAGACGAAA
1 AAGAAGAGA-GAAA
34335305 AAGAAGA-AGAA
1 AAGAAGAGAGAA
34335316 GAATTGGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 3 0.12
13 10 0.42
14 11 0.46
ACGTcount: A:0.68, C:0.03, G:0.29, T:0.00
Consensus pattern (13 bp):
AAGAAGAGAGAAA
Found at i:34345251 original size:122 final size:122
Alignment explanation
Indices: 34345034--34345277 Score: 488
Period size: 122 Copynumber: 2.0 Consensus size: 122
34345024 TTTCTCAAAA
34345034 TTGTTATGACTCAGATGGGCTTTGTGGATGGTTAGGTGACTTTGATTATGCAGTTTGTCCGTTCG
1 TTGTTATGACTCAGATGGGCTTTGTGGATGGTTAGGTGACTTTGATTATGCAGTTTGTCCGTTCG
34345099 GTCAAATATGTCATCAAGTGTAACTTGACCCTTTCCGAGGAAATTATTCCGGAGCGT
66 GTCAAATATGTCATCAAGTGTAACTTGACCCTTTCCGAGGAAATTATTCCGGAGCGT
34345156 TTGTTATGACTCAGATGGGCTTTGTGGATGGTTAGGTGACTTTGATTATGCAGTTTGTCCGTTCG
1 TTGTTATGACTCAGATGGGCTTTGTGGATGGTTAGGTGACTTTGATTATGCAGTTTGTCCGTTCG
34345221 GTCAAATATGTCATCAAGTGTAACTTGACCCTTTCCGAGGAAATTATTCCGGAGCGT
66 GTCAAATATGTCATCAAGTGTAACTTGACCCTTTCCGAGGAAATTATTCCGGAGCGT
34345278 GGCCTCCGTC
Statistics
Matches: 122, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
122 122 1.00
ACGTcount: A:0.21, C:0.16, G:0.26, T:0.36
Consensus pattern (122 bp):
TTGTTATGACTCAGATGGGCTTTGTGGATGGTTAGGTGACTTTGATTATGCAGTTTGTCCGTTCG
GTCAAATATGTCATCAAGTGTAACTTGACCCTTTCCGAGGAAATTATTCCGGAGCGT
Found at i:34348190 original size:6 final size:6
Alignment explanation
Indices: 34348167--34348192 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
34348157 TAAAATGTAA
34348167 AAATTT AAATTT AAATTT AAATTT AA
1 AAATTT AAATTT AAATTT AAATTT AA
34348193 CCTAATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
AAATTT
Found at i:34348683 original size:18 final size:18
Alignment explanation
Indices: 34348657--34348692 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
34348647 CATGTCAATC
*
34348657 TAATGTTTTTAAATTTTT
1 TAATATTTTTAAATTTTT
34348675 TAATATTTTTAAATTTTT
1 TAATATTTTTAAATTTTT
34348693 AAAAAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (18 bp):
TAATATTTTTAAATTTTT
Found at i:34348690 original size:8 final size:8
Alignment explanation
Indices: 34348662--34348695 Score: 50
Period size: 9 Copynumber: 4.0 Consensus size: 8
34348652 CAATCTAATG
34348662 TTTTTAAA
1 TTTTTAAA
34348670 TTTTTTAATA
1 -TTTTTAA-A
34348680 TTTTTAAA
1 TTTTTAAA
34348688 TTTTTAAA
1 TTTTTAAA
34348696 AAATTAACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 9 0.38
9 14 0.58
10 1 0.04
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (8 bp):
TTTTTAAA
Found at i:34350304 original size:103 final size:104
Alignment explanation
Indices: 34350034--34350404 Score: 620
Period size: 104 Copynumber: 3.6 Consensus size: 104
34350024 TGTATATAAA
** * *
34350034 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCGTATCT
**
34350098 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
34350138 AGGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
34350203 TTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
34350242 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGATGCTAAGTGCGATATCCACCGTATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCTT
34350307 TGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* **
34350346 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAATGGTGGTGCTAAGTGCGGGATCCACCG
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCG
34350405 ATAACGGTTA
Statistics
Matches: 254, Mismatches: 10, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
103 44 0.17
104 168 0.66
105 41 0.16
106 1 0.00
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.30
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCTT
TGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:34353357 original size:20 final size:20
Alignment explanation
Indices: 34353325--34353363 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
34353315 TTTTAAATTT
*
34353325 ATAATTATAAATATTTAAAA
1 ATAATTATAAATATATAAAA
34353345 ATAA-TATATAATATATAAA
1 ATAATTATA-AATATATAAA
34353364 TAACAACCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
ATAATTATAAATATATAAAA
Found at i:34353561 original size:15 final size:15
Alignment explanation
Indices: 34353511--34353564 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
34353501 GAAAGGACCC
34353511 ATAATTTA-AAAAAA
1 ATAATTTATAAAAAA
* *
34353525 ATACTTTTTAAAATAA
1 ATAATTTATAAAA-AA
*
34353541 ATTAATTTATATAAAA
1 A-TAATTTATAAAAAA
34353557 ATAATTTA
1 ATAATTTA
34353565 ATCTCTCTCC
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
14 6 0.19
15 11 0.34
16 6 0.19
17 9 0.28
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (15 bp):
ATAATTTATAAAAAA
Found at i:34357188 original size:39 final size:39
Alignment explanation
Indices: 34357134--34357253 Score: 174
Period size: 39 Copynumber: 3.1 Consensus size: 39
34357124 AAATATATTT
*
34357134 ATTTTTTTAATTTTAAAATATTTTTTACATACTTTTTAA
1 ATTTTTTTAATTTTAAAATATTTTTTAAATACTTTTTAA
* *
34357173 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTA
1 ATTTTTTTAATTTTAAAATATTTTTTAAATACTTTTTAA
*
34357212 ATTTTTTTAATTTTAAAATACTTTTTTTAAT--TTTTT-A
1 ATTTTTTTAATTTTAAAATA-TTTTTTAAATACTTTTTAA
34357249 ATTTT
1 ATTTT
34357254 AAAATATTTT
Statistics
Matches: 75, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
37 6 0.08
38 5 0.07
39 56 0.75
40 8 0.11
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (39 bp):
ATTTTTTTAATTTTAAAATATTTTTTAAATACTTTTTAA
Found at i:34357225 original size:28 final size:27
Alignment explanation
Indices: 34357194--34357264 Score: 117
Period size: 28 Copynumber: 2.6 Consensus size: 27
34357184 TTTAAAATAT
34357194 TTTTAAAATACTTTTTTAATTTTTTTAA
1 TTTTAAAATACTTTTTTAA-TTTTTTAA
34357222 TTTTAAAATACTTTTTTTAATTTTTTAA
1 TTTTAAAATAC-TTTTTTAATTTTTTAA
34357250 TTTTAAAATA-TTTTT
1 TTTTAAAATACTTTTT
34357265 AAAATACTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
26 5 0.12
28 29 0.69
29 8 0.19
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (27 bp):
TTTTAAAATACTTTTTTAATTTTTTAA
Found at i:34357262 original size:10 final size:11
Alignment explanation
Indices: 34357250--34357301 Score: 56
Period size: 10 Copynumber: 4.9 Consensus size: 11
34357240 AATTTTTTAA
34357250 TTTTAAAATAT
1 TTTTAAAATAT
34357261 TTTTAAAATACT
1 TTTTAAAATA-T
**
34357273 TTTT-TTA-AT
1 TTTTAAAATAT
34357282 TTTTAAAA-AT
1 TTTTAAAATAT
34357292 TTTTAAAATA
1 TTTTAAAATA
34357302 AAAATGGGTC
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
9 5 0.15
10 12 0.35
11 12 0.35
12 5 0.15
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:34357275 original size:28 final size:29
Alignment explanation
Indices: 34357194--34357301 Score: 109
Period size: 28 Copynumber: 3.8 Consensus size: 29
34357184 TTTAAAATAT
* *
34357194 TTTTAAAATACTTTTT-TAATTTTTTTAA
1 TTTTAAAATACTTTTTAAAATATTTTTAA
**
34357222 TTTTAAAATACTTTTTTTAAT-TTTTTAA
1 TTTTAAAATACTTTTTAAAATATTTTTAA
34357250 TTTTAAAATA-TTTTTAAAATACTTTTTTTAA
1 TTTTAAAATACTTTTTAAAATA---TTTTTAA
34357281 TTTTTAAAA-A-TTTTTAAAATA
1 -TTTTAAAATACTTTTTAAAATA
34357302 AAAATGGGTC
Statistics
Matches: 72, Mismatches: 2, Indels: 9
0.87 0.02 0.11
Matches are distributed among these distances:
27 8 0.11
28 33 0.46
29 4 0.06
31 19 0.26
32 8 0.11
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (29 bp):
TTTTAAAATACTTTTTAAAATATTTTTAA
Found at i:34357280 original size:31 final size:30
Alignment explanation
Indices: 34357212--34357301 Score: 107
Period size: 31 Copynumber: 3.0 Consensus size: 30
34357202 TACTTTTTTA
*
34357212 ATTTTTTTAATTTTAAAATACTTTTT---TT
1 ATTTTTTTAATTTTAAAATA-TTTTTAAAAT
*
34357240 AATTTTTTAATTTTAAAATATTTTTAAAAT
1 ATTTTTTTAATTTTAAAATATTTTTAAAAT
34357270 ACTTTTTTTAATTTTTAAAA-ATTTTTAAAAT
1 A-TTTTTTTAA-TTTTAAAATATTTTTAAAAT
34357301 A
1 A
34357302 AAAATGGGTC
Statistics
Matches: 54, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
27 5 0.09
28 19 0.35
30 2 0.04
31 20 0.37
32 8 0.15
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (30 bp):
ATTTTTTTAATTTTAAAATATTTTTAAAAT
Found at i:34357667 original size:42 final size:42
Alignment explanation
Indices: 34357564--34357714 Score: 119
Period size: 43 Copynumber: 3.5 Consensus size: 42
34357554 TACAATACCA
* * *
34357564 ATGTCCCAGACGTGGTCTTACATGTAATCAAATAGCGATGCC
1 ATGTCCCAGACATGGTCTTACATGAAATCAAATAGCAATGCC
* * * *
34357606 ACTGTCCTAGACAGGGTCTTACATGAAATCATATA-CAATGCTG
1 A-TGTCCCAGACATGGTCTTACATGAAATCAAATAGCAATGC-C
* * *
34357649 ATGTCCCAAACATGGTCTTACACGTAAATCTCAAAT--CGATGCC
1 ATGTCCCAGACATGGTCTTACATG-AAA--TCAAATAGCAATGCC
* *
34357692 AACGTCCCAGACGTGGTCTTACA
1 -ATGTCCCAGACATGGTCTTACA
34357715 CAAAATCATA
Statistics
Matches: 86, Mismatches: 17, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
42 25 0.29
43 32 0.37
44 24 0.28
45 5 0.06
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (42 bp):
ATGTCCCAGACATGGTCTTACATGAAATCAAATAGCAATGCC
Found at i:34357723 original size:86 final size:84
Alignment explanation
Indices: 34357564--34357726 Score: 197
Period size: 86 Copynumber: 1.9 Consensus size: 84
34357554 TACAATACCA
* * * *
34357564 ATGTCCCAGACGTGGTCTTACATGTAATCAAATAGCGATGCCACTGTCCTAGACAGGGTCTTACA
1 ATGTCCCAAACATGGTCTTACACGTAATCAAATA-CGATGCCACTGTCCCAGACAGGGTCTTACA
**
34357629 TGAAATCATATACAATGCTG
65 CAAAATCATATACAATGCTG
34357649 ATGTCCCAAACATGGTCTTACACGTAAATCTCAAAT-CGATGCCAAC-GTCCCAGAC-GTGGTCT
1 ATGTCCCAAACATGGTCTTACACGT-AA--TCAAATACGATGCC-ACTGTCCCAGACAG-GGTCT
34357711 TACACAAAATCATATA
61 TACACAAAATCATATA
34357727 TCAGAATCCT
Statistics
Matches: 67, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
85 23 0.34
86 36 0.54
87 2 0.03
88 6 0.09
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.26
Consensus pattern (84 bp):
ATGTCCCAAACATGGTCTTACACGTAATCAAATACGATGCCACTGTCCCAGACAGGGTCTTACAC
AAAATCATATACAATGCTG
Found at i:34360596 original size:24 final size:24
Alignment explanation
Indices: 34360563--34360609 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
34360553 TTCTAGAAGA
* *
34360563 TTTAGTATTTATGAGTATAATATT
1 TTTAGCATTTATGAGCATAATATT
*
34360587 TTTAGCATTTATTAGCATAATAT
1 TTTAGCATTTATGAGCATAATAT
34360610 ATTTGACTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.11, T:0.51
Consensus pattern (24 bp):
TTTAGCATTTATGAGCATAATATT
Found at i:34366670 original size:45 final size:45
Alignment explanation
Indices: 34366576--34366684 Score: 123
Period size: 45 Copynumber: 2.4 Consensus size: 45
34366566 CTAAAATGAG
* * *
34366576 TAAGACCGTAGCTGAAAGATGCTATGAAATCATGATATAAATGAG
1 TAAGACCATAGCTGAAAGATGCTATGAAATCATGATATAAAGGAC
* * *
34366621 TAAGACCAT-GCCTGAAAGATGCTATGACATCTTGTTA-AACAGGAC
1 TAAGACCATAG-CTGAAAGATGCTATGAAATCATGATATAA-AGGAC
*
34366666 TAAGACTATAGCTGAAAGA
1 TAAGACCATAGCTGAAAGA
34366685 CGTTATGGCA
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
44 3 0.06
45 50 0.93
46 1 0.02
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.24
Consensus pattern (45 bp):
TAAGACCATAGCTGAAAGATGCTATGAAATCATGATATAAAGGAC
Found at i:34371928 original size:6 final size:6
Alignment explanation
Indices: 34371917--34371943 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
34371907 TAAAACATAG
34371917 TAATTA TAATTA TAATTA TAATTA TAA
1 TAATTA TAATTA TAATTA TAATTA TAA
34371944 AAAGTCACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
TAATTA
Found at i:34373666 original size:14 final size:14
Alignment explanation
Indices: 34373628--34373670 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
34373618 CAAAATGTAC
34373628 AATATAATTAAA-T
1 AATATAATTAAATT
34373641 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
34373656 AA-ATAATTTAATT
1 AATATAATTAAATT
34373669 AA
1 AA
34373671 CTGTTTACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:34379530 original size:26 final size:26
Alignment explanation
Indices: 34379480--34379535 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
34379470 CTAGTAAAGT
**
34379480 TTTTAACAATTTTACCCTCGTTAAAA
1 TTTTAACAATTTTACCCTCAATAAAA
34379506 TTTTAACAATTTTA-CCTCCAATAAAA
1 TTTTAACAATTTTACCCT-CAATAAAA
34379532 TTTT
1 TTTT
34379536 GAGAAAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 3 0.11
26 24 0.89
ACGTcount: A:0.36, C:0.18, G:0.02, T:0.45
Consensus pattern (26 bp):
TTTTAACAATTTTACCCTCAATAAAA
Found at i:34386207 original size:51 final size:50
Alignment explanation
Indices: 34386131--34386267 Score: 202
Period size: 50 Copynumber: 2.7 Consensus size: 50
34386121 CGCCTATAAA
* * * *
34386131 CACGTGTGTTGTACTATGTGTAGGCTACTATGTGTACCGGAAGGCTTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGGAAAG-TTTGAT
* *
34386182 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGAACCGGAAAGTTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGGAAAGTTTGAT
*
34386232 CACGTGTGTAATACTATGTGAAGGCTACTACGTGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
34386268 TCGAATGATA
Statistics
Matches: 78, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
50 39 0.50
51 39 0.50
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGGAAAGTTTGAT
Found at i:34386251 original size:50 final size:51
Alignment explanation
Indices: 34386131--34386265 Score: 200
Period size: 51 Copynumber: 2.7 Consensus size: 51
34386121 CGCCTATAAA
* * * * *
34386131 CACGTGTGTTGTACTATGTGTAGGCTACTATGTGTACCGGAAGGCTTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGGAAAGCTTTGAT
*
34386182 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGAACCGGAAAG-TTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGGAAAGCTTTGAT
*
34386232 CACGTGTGTAATACTATGTGAAGGCTACTACGTG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
34386266 TATCGAATGA
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
50 38 0.49
51 39 0.51
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGGAAAGCTTTGAT
Found at i:34391832 original size:39 final size:39
Alignment explanation
Indices: 34391778--34391859 Score: 164
Period size: 39 Copynumber: 2.1 Consensus size: 39
34391768 AAATGACACC
34391778 GTATGAAGCATTATATGGACGTAAGTGTAGAACCCCTTT
1 GTATGAAGCATTATATGGACGTAAGTGTAGAACCCCTTT
34391817 GTATGAAGCATTATATGGACGTAAGTGTAGAACCCCTTT
1 GTATGAAGCATTATATGGACGTAAGTGTAGAACCCCTTT
34391856 GTAT
1 GTAT
34391860 TGGACTGAGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (39 bp):
GTATGAAGCATTATATGGACGTAAGTGTAGAACCCCTTT
Found at i:34393936 original size:50 final size:51
Alignment explanation
Indices: 34393814--34393944 Score: 147
Period size: 50 Copynumber: 2.6 Consensus size: 51
34393804 TATAAACACA
* * * ** * **
34393814 TGTGTTGTACTATGTGCAGGCTACTATGTTTACCAGAAGGCTTTGGTCAAG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCAGAAAGCTTTGACCAAG
* * *
34393865 TGTGTAGTACTATGTGTAGGCTACTACGTGAACCGGAAAG-TTTGACCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCAGAAAGCTTTGACCAAG
*
34393915 TGTGTAGTACTATGTGAAGGCTATTACGTG
1 TGTGTAGTACTATGTGAAGGCTACTACGTG
34393945 TATCGAATGA
Statistics
Matches: 68, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
50 35 0.51
51 33 0.49
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.33
Consensus pattern (51 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGAACCAGAAAGCTTTGACCAAG
Found at i:34398970 original size:12 final size:12
Alignment explanation
Indices: 34398953--34398977 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34398943 GAAATCTGAT
34398953 TTCAATGTGTAA
1 TTCAATGTGTAA
34398965 TTCAATGTGTAA
1 TTCAATGTGTAA
34398977 T
1 T
34398978 GTGTATAAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (12 bp):
TTCAATGTGTAA
Found at i:34403231 original size:24 final size:25
Alignment explanation
Indices: 34403187--34403233 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
34403177 CTACTTCTAA
*
34403187 AGAAAATTCAAGAGAGAATTTTTGG
1 AGAAAACTCAAGAGAGAATTTTTGG
34403212 AGAAAACTCAA-AGAGAATTTTT
1 AGAAAACTCAAGAGAGAATTTTT
34403234 CACTCAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (25 bp):
AGAAAACTCAAGAGAGAATTTTTGG
Found at i:34408336 original size:24 final size:24
Alignment explanation
Indices: 34408300--34408347 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
34408290 TCATTTTCAT
*
34408300 CAATAATGTCTCAAAATAATTCGC
1 CAATAATGACTCAAAATAATTCGC
34408324 CAATAATGACTCAAAATAATTCGC
1 CAATAATGACTCAAAATAATTCGC
34408348 AAACAATCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.44, C:0.21, G:0.08, T:0.27
Consensus pattern (24 bp):
CAATAATGACTCAAAATAATTCGC
Found at i:34412807 original size:40 final size:41
Alignment explanation
Indices: 34412751--34412962 Score: 274
Period size: 40 Copynumber: 5.3 Consensus size: 41
34412741 CATTTGAATG
* *
34412751 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
* * *
34412791 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
* * *
34412831 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
* *
34412871 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
* *
34412911 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTTGTAG-TT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
34412951 ATATCC-GGCTAA
1 ATATCCGGGCTAA
34412963 ATTCCGAAGA
Statistics
Matches: 148, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
39 8 0.05
40 135 0.91
41 5 0.03
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (41 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
Found at i:34412958 original size:80 final size:80
Alignment explanation
Indices: 34412751--34412943 Score: 350
Period size: 80 Copynumber: 2.4 Consensus size: 80
34412741 CATTTGAATG
34412751 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
*
34412816 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGAT
*
34412831 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
34412896 TTTGTGCGAGTTGAT
66 TTTGTGCGAGTTGAT
* *
34412911 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCT
1 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCT
34412944 TGTAGTTATA
Statistics
Matches: 108, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 108 1.00
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGAT
Found at i:34415633 original size:23 final size:24
Alignment explanation
Indices: 34415584--34415634 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 24
34415574 ACGCCACAAC
* *
34415584 GACAGATGAAAAACATGTGATAGA
1 GACAGATGAAAAACATGTGAGAAA
* *
34415608 GACAGAT-AGAAACGTGTGAGAAA
1 GACAGATGAAAAACATGTGAGAAA
34415631 GACA
1 GACA
34415635 AACTGTAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.49, C:0.10, G:0.27, T:0.14
Consensus pattern (24 bp):
GACAGATGAAAAACATGTGAGAAA
Found at i:34417494 original size:12 final size:12
Alignment explanation
Indices: 34417477--34417501 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34417467 ACCAAAACAG
34417477 GCTTTTAGCGGC
1 GCTTTTAGCGGC
34417489 GCTTTTAGCGGC
1 GCTTTTAGCGGC
34417501 G
1 G
34417502 GTTGGATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.24, G:0.36, T:0.32
Consensus pattern (12 bp):
GCTTTTAGCGGC
Found at i:34417976 original size:114 final size:114
Alignment explanation
Indices: 34417573--34418248 Score: 862
Period size: 114 Copynumber: 6.0 Consensus size: 114
34417563 AAAATAAGCA
* * * *
34417573 TTAGCGACGTTTTCGA-AAACGCGCCGC-AAAATACCTAAGCCCAACGACGTCGTTTT-TCGAGC
1 TTAGCGACGTTTTTGATAAA-GCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCT-GAGC
* * *
34417635 TTTCGGGGATTTAGCGGCGTTTTTAA-TAAAGTGCCACTAATGCTCAAGGCT
64 TTTCGGGGATTTAGCGGCGTTTTTAAGT-AAGCGCCGCTAATGCTCAGGGCT
* *
34417686 TTAGCGGCGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAATGACGCC----TCTGAGCTT
1 TTAGCGACGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
*
34417747 TCGGGGATTTAGCGGCATTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
66 TCGGGGATTTAGCGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
*
34417796 TTAGCGACGTTTTTGAT-----GCCACAAAAAAATCTAAGCCCAACGACGCCGTTTTCTGAGCTT
1 TTAGCGACGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* *
34417856 TCGGGGATTTAGGGGCGTTTTTAA-TAAAGCGCTGCTAATGCTCAGGGCT
66 TCGGGGATTTAGCGGCGTTTTTAAGT-AAGCGCCGCTAATGCTCAGGGCT
* * * * *
34417905 TTAGCGATGTTTTTTATAAAGCGCCACAAAAAAACCTAAGCCCAACGACGTCATTTTCTTAGCTT
1 TTAGCGACGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
34417970 TCGGGGATTTAGCGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
66 TCGGGGATTTAGCGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
* * * *
34418019 TTAGCGGCGTTTTTGATAAAGGGCCACAAAAAAACATAAGCCCAATGACGCCGTTTTCTGAGCTT
1 TTAGCGACGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* * * *
34418084 TCGAGGATTTAGCAGCTTTTTTAAGTACGCGCCGCTAATGCTCAGGGCT
66 TCGGGGATTTAGCGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
* * * * * *
34418133 TTAGCGACATTTTTGGA-AAAGTGCCGC-AAAAAACCTAAGCCCGACGATGCCGTTTTCTTAGCT
1 TTAGCGACGTTTTT-GATAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
* * * * *
34418196 TTCGGGGATTTAGTGGCGTTTTTAAGGATGCGCCGCTAATGCTGAGGGAT
65 TTCGGGGATTTAGCGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
34418246 TTA
1 TTA
34418249 AAATAATCTA
Statistics
Matches: 493, Mismatches: 54, Indels: 32
0.85 0.09 0.06
Matches are distributed among these distances:
105 28 0.06
108 1 0.00
109 68 0.14
110 66 0.13
111 2 0.00
113 96 0.19
114 229 0.46
115 3 0.01
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (114 bp):
TTAGCGACGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
TCGGGGATTTAGCGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
Found at i:34418734 original size:21 final size:22
Alignment explanation
Indices: 34418708--34418753 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
34418698 TATCATTATA
*
34418708 GTTTAGGGTTTA-ATAAATATG
1 GTTTAGGGTGTATATAAATATG
*
34418729 GTTTAGGGTGTATATATATATG
1 GTTTAGGGTGTATATAAATATG
34418751 GTT
1 GTT
34418754 AATTTAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.46
Consensus pattern (22 bp):
GTTTAGGGTGTATATAAATATG
Found at i:34418893 original size:12 final size:12
Alignment explanation
Indices: 34418864--34418900 Score: 56
Period size: 12 Copynumber: 2.9 Consensus size: 12
34418854 GATTTAAGGT
34418864 TTAGGGGTTAGGGG
1 TTAGGGGTTA--GG
34418878 TTAGGGGTTAGG
1 TTAGGGGTTAGG
34418890 TTAGGGGTTAG
1 TTAGGGGTTAG
34418901 ATGTTAAGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 13 0.57
14 10 0.43
ACGTcount: A:0.16, C:0.00, G:0.51, T:0.32
Consensus pattern (12 bp):
TTAGGGGTTAGG
Found at i:34418900 original size:7 final size:7
Alignment explanation
Indices: 34418864--34418900 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
34418854 GATTTAAGGT
34418864 TTAGGGG
1 TTAGGGG
34418871 TTAGGGG
1 TTAGGGG
34418878 TTAGGGG
1 TTAGGGG
34418885 TTA--GG
1 TTAGGGG
34418890 TTAGGGG
1 TTAGGGG
34418897 TTAG
1 TTAG
34418901 ATGTTAAGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 5 0.18
7 23 0.82
ACGTcount: A:0.16, C:0.00, G:0.51, T:0.32
Consensus pattern (7 bp):
TTAGGGG
Found at i:34418906 original size:19 final size:20
Alignment explanation
Indices: 34418869--34418916 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
34418859 AAGGTTTAGG
*
34418869 GGTTAGGGGTTAGGGGTT-A
1 GGTTAGGGGTTAGAGGTTAA
*
34418888 GGTTAGGGGTTAGATGTTAA
1 GGTTAGGGGTTAGAGGTTAA
34418908 GAGTTAGGG
1 G-GTTAGGG
34418917 ATTTAAGGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 16 0.64
20 2 0.08
21 7 0.28
ACGTcount: A:0.21, C:0.00, G:0.48, T:0.31
Consensus pattern (20 bp):
GGTTAGGGGTTAGAGGTTAA
Found at i:34418906 original size:26 final size:26
Alignment explanation
Indices: 34418864--34418915 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
34418854 GATTTAAGGT
* * *
34418864 TTAGGGGTTAGGGGTTAGGGGTTAGG
1 TTAGGGGTTAGAGGTTAAGAGTTAGG
*
34418890 TTAGGGGTTAGATGTTAAGAGTTAGG
1 TTAGGGGTTAGAGGTTAAGAGTTAGG
34418916 GATTTAAGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.21, C:0.00, G:0.46, T:0.33
Consensus pattern (26 bp):
TTAGGGGTTAGAGGTTAAGAGTTAGG
Found at i:34418940 original size:36 final size:33
Alignment explanation
Indices: 34418890--34418962 Score: 83
Period size: 36 Copynumber: 2.1 Consensus size: 33
34418880 AGGGGTTAGG
* *
34418890 TTAGGGGTTAGATGTTAAGAGTTAGGGATTTAAGGT
1 TTAGGGATTAGATGTT-AG-GTTAGAG-TTTAAGGT
* *
34418926 TTAGGGATTCGATGTTAGGTTAGAGTTTAGGGT
1 TTAGGGATTAGATGTTAGGTTAGAGTTTAAGGT
34418959 TTAG
1 TTAG
34418963 ATTAATTAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
33 11 0.33
34 6 0.18
35 2 0.06
36 14 0.42
ACGTcount: A:0.25, C:0.01, G:0.36, T:0.38
Consensus pattern (33 bp):
TTAGGGATTAGATGTTAGGTTAGAGTTTAAGGT
Found at i:34419010 original size:96 final size:94
Alignment explanation
Indices: 34418904--34419209 Score: 288
Period size: 90 Copynumber: 3.2 Consensus size: 94
34418894 GGGTTAGATG
* * **
34418904 TTAAGAGTTAGGGATTTAAGGTTTAGGGATTCGATGTTAGGTTAGAGTTTAGGGTTTAGATTAAT
1 TTAAGGGTTAGGGATTTAAGG-TTAGGGATTCGAGGTCGGGTTAG-GTTTAGGGTTTAGATTAAT
* *
34418969 TAGTATGTTTTAA-TTATATATTAAATAAGGT
64 TAGTGT-TTTTAATTTATATATTAAATAAAGT
* * *
34419000 TTAAGGGTTAGGGGTTAGGGGTTAAGGGTTAGAGATT-TAGGATCGGGTTATGGTTTAGGGTTTA
1 TTAAGGGTTA-GGG--A---TTTAA-GGTTAGGGATTCGAGG-TCGGGTTA-GGTTTAGGGTTTA
34419064 GATTAATTAGTGTTTTTTAATTTATATATTAAATAAAGT
57 GATTAATTAGTG-TTTTTAATTTATATATTAAATAAAGT
* *
34419103 TTAGGGGTTA-GG------GGTTAGGGATTCGAGGTCGGGTTCAGGGTTTAGGATTTAGATTAAT
1 TTAAGGGTTAGGGATTTAAGGTTAGGGATTCGAGGTCGGGTT-A-GGTTTAGGGTTTAGATTAAT
34419161 TAGTGTTTGTTAATTTATATATTAAATAAAGT
64 TAGTGTTT-TTAATTTATATATTAAATAAAGT
* *
34419193 TTAGGGGTTAGAGATTT
1 TTAAGGGTTAGGGATTT
34419210 GGGGTCAGGT
Statistics
Matches: 176, Mismatches: 15, Indels: 39
0.77 0.07 0.17
Matches are distributed among these distances:
89 20 0.11
90 61 0.35
91 1 0.01
96 9 0.05
97 3 0.02
99 1 0.01
101 4 0.02
102 47 0.27
103 30 0.17
ACGTcount: A:0.28, C:0.02, G:0.28, T:0.42
Consensus pattern (94 bp):
TTAAGGGTTAGGGATTTAAGGTTAGGGATTCGAGGTCGGGTTAGGTTTAGGGTTTAGATTAATTA
GTGTTTTTAATTTATATATTAAATAAAGT
Found at i:34419166 original size:90 final size:86
Alignment explanation
Indices: 34419014--34419271 Score: 328
Period size: 90 Copynumber: 3.0 Consensus size: 86
34419004 GGGTTAGGGG
* * *
34419014 TTAGGGGTTAAGGGTTAGAGATTTAGGATCGGGTTATGGTTTAGGGTTTAGATTAATTAGTGTTT
1 TTAGGGGTT-AGGGTTAG-GATTGAGG-TCGGGTTAGGGTTTAGGATTTAGATTAATTAGTGTTT
34419079 TTTAATTTATATATTAAATAAAGT
63 TTTAATTTATATATTAAATAAAGT
34419103 TTAGGGGTTAGGGGTTAGGGATTCGAGGTCGGGTTCAGGGTTTAGGATTTAGATTAATTAGTGTT
1 TTAGGGGTTA-GGGTTA-GGATT-GAGGTCGGGTT-AGGGTTTAGGATTTAGATTAATTAGTGTT
*
34419168 TGTTAATTTATATATTAAATAAAGT
62 TTTTAATTTATATATTAAATAAAGT
* * * **
34419193 TTAGGGGTTA--G--A-GATTTGGGGTCAGGTTAGGGTTTAAGATTTAGATTAATTAGTACTTTT
1 TTAGGGGTTAGGGTTAGGA-TTGAGGTCGGGTTAGGGTTTAGGATTTAGATTAATTAGTGTTTTT
34419253 TAATTTATATATTAAATAA
65 TAATTTATATATTAAATAA
34419272 GTTCTTTATA
Statistics
Matches: 154, Mismatches: 10, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
82 47 0.31
83 11 0.07
84 2 0.01
85 1 0.01
87 1 0.01
88 1 0.01
89 26 0.17
90 65 0.42
ACGTcount: A:0.29, C:0.02, G:0.26, T:0.42
Consensus pattern (86 bp):
TTAGGGGTTAGGGTTAGGATTGAGGTCGGGTTAGGGTTTAGGATTTAGATTAATTAGTGTTTTTT
AATTTATATATTAAATAAAGT
Found at i:34419768 original size:84 final size:84
Alignment explanation
Indices: 34419680--34419909 Score: 243
Period size: 84 Copynumber: 2.7 Consensus size: 84
34419670 AAATATTTTT
* * * ** *
34419680 GTGGCATTTTTAATAAAAACGCTGCAAG-GATTTATTAAAATTTGCCAA-A-GCGGAGCCGTTTC
1 GTGGCGTTTTTAAGAAAAACGCCGCAAGAG-TGAATTAAAATTTGCCAATATG-GCA-CCGTTTC
34419742 TCTACTAGAATAAAATCTTATA
63 TCTACTAGAATAAAATCTTATA
* * ** *
34419764 GTGGCGTTTTTTAGGAAAACGCCGCAAGAGTGAATTAATGTTTGCTAATATGGCACCGTTTCTCT
1 GTGGCGTTTTTAAGAAAAACGCCGCAAGAGTGAATTAAAATTTGCCAATATGGCACCGTTTCTCT
34419829 ACTAGAATAAAATCTTATA
66 ACTAGAATAAAATCTTATA
* ** * **
34419848 GTGGCGTTTTTTAAG-CAAACGCCGCAAGAGTGAATTAATGTTTGTCAATGCGGCACCGTTTC
1 GTGGCG-TTTTTAAGAAAAACGCCGCAAGAGTGAATTAAAATTTGCCAATATGGCACCGTTTC
34419910 GCTTCATGAA
Statistics
Matches: 125, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
84 113 0.90
85 11 0.09
86 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (84 bp):
GTGGCGTTTTTAAGAAAAACGCCGCAAGAGTGAATTAAAATTTGCCAATATGGCACCGTTTCTCT
ACTAGAATAAAATCTTATA
Found at i:34420977 original size:14 final size:15
Alignment explanation
Indices: 34420950--34420980 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
34420940 TCTGTAGCAG
34420950 TTTTTGTTTCTCTAT
1 TTTTTGTTTCTCTAT
34420965 TTTTTGTTT-TCTAT
1 TTTTTGTTTCTCTAT
34420979 TT
1 TT
34420981 CTGTTTCTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.06, C:0.10, G:0.06, T:0.77
Consensus pattern (15 bp):
TTTTTGTTTCTCTAT
Found at i:34421392 original size:12 final size:12
Alignment explanation
Indices: 34421375--34421403 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
34421365 ATACTTACAT
34421375 AACTTATATATA
1 AACTTATATATA
34421387 AACTTATATATA
1 AACTTATATATA
34421399 AACTT
1 AACTT
34421404 GCATAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.41
Consensus pattern (12 bp):
AACTTATATATA
Found at i:34421417 original size:9 final size:9
Alignment explanation
Indices: 34421399--34421713 Score: 102
Period size: 9 Copynumber: 36.2 Consensus size: 9
34421389 CTTATATATA
*
34421399 AACTTGCAT
1 AACTTACAT
34421408 AACTTACAT
1 AACTTACAT
*
34421417 AA-TAACATAAT
1 AACTTAC---AT
34421428 AACTTACAT
1 AACTTACAT
*
34421437 AA--TACAC
1 AACTTACAT
34421444 AACTTACAT
1 AACTTACAT
*
34421453 AACTTAAAT
1 AACTTACAT
34421462 AACTTACAT
1 AACTTACAT
*
34421471 -A-GTACAT
1 AACTTACAT
**
34421478 AACTTTGAT
1 AACTTACAT
*
34421487 AACTAACAT
1 AACTTACAT
* *
34421496 TA--TACAC
1 AACTTACAT
34421503 AACTTACAT
1 AACTTACAT
34421512 AA--TACAT
1 AACTTACAT
**
34421519 TTCTTACAT
1 AACTTACAT
34421528 AACTTACAT
1 AACTTACAT
*
34421537 AA--TACAC
1 AACTTACAT
34421544 AACTTA-ATT
1 AACTTACA-T
*
34421553 AATATTATACAT
1 -A-ACT-TACAT
*
34421565 AACATACAT
1 AACTTACAT
*
34421574 AA--TACAC
1 AACTTACAT
34421581 AACTTA-ATT
1 AACTTACA-T
*
34421590 AATATTATACAT
1 -A-ACT-TACAT
* *
34421602 GACATACAT
1 AACTTACAT
* *
34421611 GACATACAT
1 AACTTACAT
34421620 AA--TACATAT
1 AACTTAC--AT
34421629 AACTTACAT
1 AACTTACAT
*
34421638 -A-GTACAT
1 AACTTACAT
*
34421645 AACTAACAT
1 AACTTACAT
*
34421654 AA--TACAC
1 AACTTACAT
*
34421661 AACTTACGT
1 AACTTACAT
*
34421670 AACTTAAAT
1 AACTTACAT
34421679 AACTTACAT
1 AACTTACAT
*
34421688 AGCTTACAT
1 AACTTACAT
34421697 AA--TACAT
1 AACTTACAT
34421704 AACTTA-AT
1 AACTTACAT
34421712 AA
1 AA
34421714 TTTTAAAATA
Statistics
Matches: 223, Mismatches: 47, Indels: 73
0.65 0.14 0.21
Matches are distributed among these distances:
7 52 0.23
8 13 0.06
9 131 0.59
10 4 0.02
11 12 0.05
12 9 0.04
13 2 0.01
ACGTcount: A:0.48, C:0.18, G:0.03, T:0.31
Consensus pattern (9 bp):
AACTTACAT
Found at i:34421456 original size:25 final size:25
Alignment explanation
Indices: 34421399--34421549 Score: 104
Period size: 25 Copynumber: 6.2 Consensus size: 25
34421389 CTTATATATA
*
34421399 AACTTGCATAACTTACATAATA-AC
1 AACTTACATAACTTACATAATACAC
34421423 -A--TA-ATAACTTACATAATACAC
1 AACTTACATAACTTACATAATACAC
*
34421444 AACTTACATAACTTAAATAACTTACA-
1 AACTTACATAACTTACATAA--TACAC
* * **
34421470 TA-GTACATAACTTTGATAACTA-AC
1 AACTTACATAACTTACATAA-TACAC
* * *
34421494 -ATTATACACAACTTACATAATACAT
1 AACT-TACATAACTTACATAATACAC
**
34421519 TTCTTACATAACTTACATAATACAC
1 AACTTACATAACTTACATAATACAC
34421544 AACTTA
1 AACTTA
34421550 ATTAATATTA
Statistics
Matches: 97, Mismatches: 18, Indels: 23
0.70 0.13 0.17
Matches are distributed among these distances:
20 15 0.15
21 3 0.03
22 1 0.01
23 3 0.03
24 6 0.06
25 63 0.65
26 2 0.02
27 4 0.04
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.32
Consensus pattern (25 bp):
AACTTACATAACTTACATAATACAC
Found at i:34421507 original size:41 final size:41
Alignment explanation
Indices: 34421462--34421714 Score: 131
Period size: 41 Copynumber: 6.3 Consensus size: 41
34421452 TAACTTAAAT
* ** *
34421462 AACTTACATAGTACATAACTTTGATAACTAACATTATACAC
1 AACTTACATAATACATAACTTACATAACTAACATAATACAC
** *
34421503 AACTTACATAATACATTTCTTACATAACTTACATAATACAC
1 AACTTACATAATACATAACTTACATAACTAACATAATACAC
*
34421544 AACTTA-AT--TA-AT-ATTATACATAAC-ATACATAATACAC
1 AACTTACATAATACATAACT-TACATAACTA-ACATAATACAC
* * * *
34421581 AACTTAATTAATATTATACATGACATACATGAC-ATACATAATACA-
1 AACTT-A--CATA--ATACATAACTTACATAACTA-ACATAATACAC
* * *
34421626 TA-TAAC-T--TACAT-A-GTACATAACTAACATAATACAC
1 AACTTACATAATACATAACTTACATAACTAACATAATACAC
* * * * *
34421661 AACTTACGTAACTTAAATAACTTACATAGCTTACATAATACAT
1 AACTTACATAA--TACATAACTTACATAACTAACATAATACAC
34421704 AACTTA-ATAAT
1 AACTTACATAAT
34421715 TTTAAAATAT
Statistics
Matches: 164, Mismatches: 26, Indels: 45
0.70 0.11 0.19
Matches are distributed among these distances:
34 17 0.10
35 3 0.02
36 9 0.05
37 27 0.16
38 3 0.02
40 4 0.02
41 46 0.28
42 4 0.02
43 25 0.15
44 1 0.01
45 3 0.02
46 21 0.13
47 1 0.01
ACGTcount: A:0.47, C:0.18, G:0.03, T:0.32
Consensus pattern (41 bp):
AACTTACATAATACATAACTTACATAACTAACATAATACAC
Found at i:34421542 original size:16 final size:16
Alignment explanation
Indices: 34421523--34421714 Score: 82
Period size: 16 Copynumber: 12.1 Consensus size: 16
34421513 ATACATTTCT
34421523 TACATAACTTACATAA
1 TACATAACTTACATAA
* *
34421539 TACACAACTTAATTAATATTA
1 TACATAACTT-A--CATA--A
*
34421560 TACATAACATACATAA
1 TACATAACTTACATAA
*
34421576 TACACAACTTA-AT--
1 TACATAACTTACATAA
*
34421589 TA-AT-ATTATACATGACA
1 TACATAACT-TACAT-A-A
* *
34421606 TACATGACATACATAA
1 TACATAACTTACATAA
*
34421622 TACATATAACTTACATAG
1 TAC--ATAACTTACATAA
*
34421640 TACATAACTAACATAA
1 TACATAACTTACATAA
* *
34421656 TACACAACTTACGT-A
1 TACATAACTTACATAA
* * *
34421671 -ACTTAAATAAC-T--
1 TACATAACTTACATAA
*
34421683 TACATAGCTTACATAA
1 TACATAACTTACATAA
34421699 TACATAACTTA-ATAA
1 TACATAACTTACATAA
34421714 T
1 T
34421715 TTTAAAATAT
Statistics
Matches: 129, Mismatches: 28, Indels: 39
0.66 0.14 0.20
Matches are distributed among these distances:
11 2 0.02
12 3 0.02
13 12 0.09
14 8 0.06
15 8 0.06
16 55 0.43
17 4 0.03
18 23 0.18
19 4 0.03
20 1 0.01
21 9 0.07
ACGTcount: A:0.48, C:0.18, G:0.03, T:0.31
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:34421573 original size:37 final size:37
Alignment explanation
Indices: 34421523--34421610 Score: 158
Period size: 37 Copynumber: 2.4 Consensus size: 37
34421513 ATACATTTCT
*
34421523 TACATAACTTACATAATACACAACTTAATTAATATTA
1 TACATAACATACATAATACACAACTTAATTAATATTA
34421560 TACATAACATACATAATACACAACTTAATTAATATTA
1 TACATAACATACATAATACACAACTTAATTAATATTA
*
34421597 TACATGACATACAT
1 TACATAACATACAT
34421611 GACATACATA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.49, C:0.17, G:0.01, T:0.33
Consensus pattern (37 bp):
TACATAACATACATAATACACAACTTAATTAATATTA
Found at i:34421573 original size:46 final size:41
Alignment explanation
Indices: 34421523--34421625 Score: 115
Period size: 37 Copynumber: 2.4 Consensus size: 41
34421513 ATACATTTCT
34421523 TACATAACTTACATAATACACAACTTAATTAATATTATACATA
1 TACAT-AC-TACATAATACACAACTTAATTAATATTATACATA
34421566 -AC--A-TACATAATACACAACTTAATTAATATTATACATGACA
1 TACATACTACATAATACACAACTTAATTAATATTATACAT---A
34421606 TACATGACATACATAATACA
1 TACAT-AC-TACATAATACA
34421626 TATAACTTAC
Statistics
Matches: 51, Mismatches: 0, Indels: 15
0.77 0.00 0.23
Matches are distributed among these distances:
37 33 0.65
39 1 0.02
40 1 0.02
41 2 0.04
42 2 0.04
44 1 0.02
46 11 0.22
ACGTcount: A:0.50, C:0.17, G:0.02, T:0.31
Consensus pattern (41 bp):
TACATACTACATAATACACAACTTAATTAATATTATACATA
Found at i:34421655 original size:25 final size:25
Alignment explanation
Indices: 34421627--34421709 Score: 59
Period size: 25 Copynumber: 3.3 Consensus size: 25
34421617 CATAATACAT
34421627 ATAACTTACATAGTACATAACTAAC
1 ATAACTTACATAGTACATAACTAAC
* * *
34421652 ATAA--TACACAACTTACGTAACTTAA-
1 ATAACTTACA-TA-GTACATAAC-TAAC
34421677 ATAACTTACATAGCTTACATAA-T-AC
1 ATAACTTACATAG--TACATAACTAAC
34421702 ATAACTTA
1 ATAACTTA
34421710 ATAATTTTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 16
0.67 0.09 0.24
Matches are distributed among these distances:
23 4 0.09
24 2 0.05
25 24 0.55
26 4 0.09
27 10 0.23
ACGTcount: A:0.47, C:0.19, G:0.04, T:0.30
Consensus pattern (25 bp):
ATAACTTACATAGTACATAACTAAC
Found at i:34424057 original size:43 final size:43
Alignment explanation
Indices: 34423952--34424166 Score: 171
Period size: 43 Copynumber: 5.2 Consensus size: 43
34423942 CAAAATTTGT
* * ** **
34423952 GGCGTTTTTAAGAAAAGCGCCGCTAAAGGTCATCAGA-CAATAGC
1 GGCGTTTGTGAGAAAAGCGCCGCTAAAGAACAT--GACCTTTAGC
* ** **
34423996 GGCGTTTATGAGGGAAGCGCCGCTAAAGAACATGAATTTTAGC
1 GGCGTTTGTGAGAAAAGCGCCGCTAAAGAACATGACCTTTAGC
* *
34424039 GGCGTTTGTGAGAAAAGCGTCGTTAAAGAACATGACCTTTAGC
1 GGCGTTTGTGAGAAAAGCGCCGCTAAAGAACATGACCTTTAGC
* *
34424082 GGCGTTTGTGAG-AAA-------TGAAGAACATGACCATTAGC
1 GGCGTTTGTGAGAAAAGCGCCGCTAAAGAACATGACCTTTAGC
* * *
34424117 GGCGTTTGTGAGAAAAGCGCCACTAAAGAACA-CATTCTTTAGC
1 GGCGTTTGTGAGAAAAGCGCCGCTAAAGAACATGA-CCTTTAGC
34424160 GGCGTTT
1 GGCGTTT
34424167 ATTTCTATAA
Statistics
Matches: 139, Mismatches: 22, Indels: 21
0.76 0.12 0.12
Matches are distributed among these distances:
35 30 0.22
36 3 0.02
42 6 0.04
43 73 0.53
44 27 0.19
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (43 bp):
GGCGTTTGTGAGAAAAGCGCCGCTAAAGAACATGACCTTTAGC
Found at i:34424110 original size:35 final size:35
Alignment explanation
Indices: 34424064--34424131 Score: 127
Period size: 35 Copynumber: 1.9 Consensus size: 35
34424054 AGCGTCGTTA
*
34424064 AAGAACATGACCTTTAGCGGCGTTTGTGAGAAATG
1 AAGAACATGACCATTAGCGGCGTTTGTGAGAAATG
34424099 AAGAACATGACCATTAGCGGCGTTTGTGAGAAA
1 AAGAACATGACCATTAGCGGCGTTTGTGAGAAA
34424132 AGCGCCACTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.24
Consensus pattern (35 bp):
AAGAACATGACCATTAGCGGCGTTTGTGAGAAATG
Found at i:34424271 original size:21 final size:21
Alignment explanation
Indices: 34424245--34424289 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
34424235 TTTAGCAGCG
* *
34424245 CTAAAAAGTGCCGCTAAAGGC
1 CTAAAAAATGCCGCTAAAAGC
34424266 CTAAAAAATGCCGCTAAAAGC
1 CTAAAAAATGCCGCTAAAAGC
34424287 CTA
1 CTA
34424290 TTTTGGTGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.42, C:0.24, G:0.18, T:0.16
Consensus pattern (21 bp):
CTAAAAAATGCCGCTAAAAGC
Found at i:34429543 original size:175 final size:175
Alignment explanation
Indices: 34429246--34429563 Score: 591
Period size: 175 Copynumber: 1.8 Consensus size: 175
34429236 TGAGCACATC
*
34429246 TAATAACCACAGATTCCCGTTAATTATTCAAAGCACTTCAAATAACAACCGTGCTAGCAAAGGTG
1 TAATAACCACAGATTCCCGTTAATTATTCAAAGCACTTCAAATAACAACCATGCTAGCAAAGGTG
*
34429311 TGGGGACTTTAGCATGCAATAAGCCTCAAGTCTGCTAAAGTAAATATCTAAAAAAGATCAAAGAG
66 TGGGGACTTTAACATGCAATAAGCCTCAAGTCTGCTAAAGTAAATATCTAAAAAAGATCAAAGAG
34429376 ATCCATGTTTGTTTAAACCTAGCCTGACCCGAGCATGAGTACCTT
131 ATCCATGTTTGTTTAAACCTAGCCTGACCCGAGCATGAGTACCTT
* *
34429421 TAATCACCACAGATTCCCGTTAATTATTCAAATCACTTCAAATAACAACCATGCTAGCAAAGGTG
1 TAATAACCACAGATTCCCGTTAATTATTCAAAGCACTTCAAATAACAACCATGCTAGCAAAGGTG
*
34429486 TGGGGACTTTAACATGCAATAAGCCTCAAGTCTGCTAAAGTAAATATCTAGAAAAGATCAAAGAG
66 TGGGGACTTTAACATGCAATAAGCCTCAAGTCTGCTAAAGTAAATATCTAAAAAAGATCAAAGAG
34429551 ATCCATGTTTGTT
131 ATCCATGTTTGTT
34429564 GTTAGGGCAT
Statistics
Matches: 138, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
175 138 1.00
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.26
Consensus pattern (175 bp):
TAATAACCACAGATTCCCGTTAATTATTCAAAGCACTTCAAATAACAACCATGCTAGCAAAGGTG
TGGGGACTTTAACATGCAATAAGCCTCAAGTCTGCTAAAGTAAATATCTAAAAAAGATCAAAGAG
ATCCATGTTTGTTTAAACCTAGCCTGACCCGAGCATGAGTACCTT
Found at i:34430758 original size:30 final size:31
Alignment explanation
Indices: 34430723--34430813 Score: 103
Period size: 31 Copynumber: 3.0 Consensus size: 31
34430713 CTTAACTAAA
* *
34430723 AAAAGTTATAATTT-AGTTATTGAACTATTT
1 AAAAGTTATAATTTAAGTCACTGAACTATTT
* * *
34430753 GAAAGTTTTTATTTAAGTCACTGAACTATTT
1 AAAAGTTATAATTTAAGTCACTGAACTATTT
* * *
34430784 AAAAGTTTTTATTTAAGTCGCTGAACTATT
1 AAAAGTTATAATTTAAGTCACTGAACTATT
34430814 ATCTTTTCTT
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
30 11 0.21
31 42 0.79
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.45
Consensus pattern (31 bp):
AAAAGTTATAATTTAAGTCACTGAACTATTT
Found at i:34430781 original size:31 final size:31
Alignment explanation
Indices: 34430743--34430813 Score: 124
Period size: 31 Copynumber: 2.3 Consensus size: 31
34430733 ATTTAGTTAT
*
34430743 TGAACTATTTGAAAGTTTTTATTTAAGTCAC
1 TGAACTATTTAAAAGTTTTTATTTAAGTCAC
*
34430774 TGAACTATTTAAAAGTTTTTATTTAAGTCGC
1 TGAACTATTTAAAAGTTTTTATTTAAGTCAC
34430805 TGAACTATT
1 TGAACTATT
34430814 ATCTTTTCTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.32, C:0.10, G:0.13, T:0.45
Consensus pattern (31 bp):
TGAACTATTTAAAAGTTTTTATTTAAGTCAC
Found at i:34435769 original size:10 final size:10
Alignment explanation
Indices: 34435754--34435815 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
34435744 TTTGAACCAT
*
34435754 TACCAATTCG
1 TACCAATTCA
*
34435764 TACCAAATACCA
1 TACC-AAT-TCA
*
34435776 TACCATTTCA
1 TACCAATTCA
34435786 TACCAATTCCA
1 TACCAATT-CA
* *
34435797 TACCATTTCG
1 TACCAATTCA
34435807 TACCAATTC
1 TACCAATTC
34435816 CCAAATACCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
10 22 0.54
11 14 0.34
12 5 0.12
ACGTcount: A:0.34, C:0.32, G:0.03, T:0.31
Consensus pattern (10 bp):
TACCAATTCA
Found at i:34435799 original size:21 final size:21
Alignment explanation
Indices: 34435754--34435816 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
34435744 TTTGAACCAT
* *
34435754 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
34435776 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
34435797 TACCATTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
34435817 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 25 0.68
22 12 0.32
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:34442854 original size:14 final size:15
Alignment explanation
Indices: 34442835--34442867 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
34442825 TAATGAGTAT
34442835 TTTTC-TTTTCGTTC
1 TTTTCTTTTTCGTTC
*
34442849 TTTTCTTTTTCTTTC
1 TTTTCTTTTTCGTTC
34442864 TTTT
1 TTTT
34442868 TTACTCACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (15 bp):
TTTTCTTTTTCGTTC
Found at i:34447698 original size:12 final size:12
Alignment explanation
Indices: 34447681--34447708 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
34447671 CAAATGGATT
34447681 ATTTCCATTTTC
1 ATTTCCATTTTC
34447693 ATTTCCATTTTC
1 ATTTCCATTTTC
34447705 ATTT
1 ATTT
34447709 TTGGAAACCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.18, C:0.21, G:0.00, T:0.61
Consensus pattern (12 bp):
ATTTCCATTTTC
Found at i:34457108 original size:39 final size:40
Alignment explanation
Indices: 34456991--34457175 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
34456981 GCTACTCGTT
*
34456991 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
34457031 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
34457071 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
** * * * *
34457110 CAAATGCCTTC-GGATCTTAGTTCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
34457151 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
34457176 CATCATTCAA
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 76 0.62
41 13 0.11
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:34457136 original size:79 final size:81
Alignment explanation
Indices: 34456993--34457175 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
34456983 TACTCGTTCA
* *
34456993 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
* *
34457057 TTTAGTAAC-TCGCACC
66 TATAGTAACTTAGCA-C
* ***
34457073 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTTCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
34457135 ATATGGTCACTTAGCAC
65 ATATAGTAACTTAGCAC
*
34457152 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
34457176 CATCATTCAA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 57 0.65
80 28 0.32
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:34465347 original size:39 final size:40
Alignment explanation
Indices: 34465230--34465414 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
34465220 GCTACTCGTT
* *
34465230 CAAATGCCTTCGGGACATAGCCTGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
34465270 CAAATGCCTTTGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
34465310 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
34465349 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
34465390 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
34465415 CATCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 75 0.61
41 13 0.11
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:34465374 original size:79 final size:81
Alignment explanation
Indices: 34465232--34465414 Score: 205
Period size: 79 Copynumber: 2.3 Consensus size: 81
34465222 TACTCGTTCA
* * * *
34465232 AATGCCTTCGGGACATAGCCTGG-TTATAGTAACTCGCACAAATGCCTTTGGGACTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTTCGGACTTAACCCGGA
* *
34465296 TTTAGTAAC-TCGCACC
66 TATAGTAACTTAGCA-C
* **
34465312 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCC-TTCGGATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTTCGGA-CTTAACCCGG
* *
34465374 ATATGGTCACTTAGCAC
65 ATATAGTAACTTAGCAC
*
34465391 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
34465415 CATCATTCAA
Statistics
Matches: 87, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
78 5 0.06
79 54 0.62
80 28 0.32
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTTCGGACTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:34475565 original size:29 final size:29
Alignment explanation
Indices: 34475533--34475592 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
34475523 AAGAAAGGTG
34475533 AAATCACGAGTGTTGAAACTGAGCGTAAC
1 AAATCACGAGTGTTGAAACTGAGCGTAAC
*
34475562 AAATCACGAGTGTTGAAACTGAGTGTAAC
1 AAATCACGAGTGTTGAAACTGAGCGTAAC
34475591 AA
1 AA
34475593 GTTAATTCCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (29 bp):
AAATCACGAGTGTTGAAACTGAGCGTAAC
Found at i:34482274 original size:11 final size:11
Alignment explanation
Indices: 34482255--34482291 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
34482245 CTTCATTCAT
34482255 CATCCCTCAAG
1 CATCCCTCAAG
* *
34482266 CATCTCTCAAT
1 CATCCCTCAAG
34482277 CATCCCTCAAG
1 CATCCCTCAAG
34482288 CATC
1 CATC
34482292 ATTCTCTCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.27, C:0.43, G:0.05, T:0.24
Consensus pattern (11 bp):
CATCCCTCAAG
Found at i:34487005 original size:12 final size:12
Alignment explanation
Indices: 34486988--34487012 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34486978 TTCTTATTGC
34486988 CTCTTCTTCCAT
1 CTCTTCTTCCAT
34487000 CTCTTCTTCCAT
1 CTCTTCTTCCAT
34487012 C
1 C
34487013 ATATCCCCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.44, G:0.00, T:0.48
Consensus pattern (12 bp):
CTCTTCTTCCAT
Found at i:34488719 original size:131 final size:131
Alignment explanation
Indices: 34488473--34488734 Score: 445
Period size: 131 Copynumber: 2.0 Consensus size: 131
34488463 GCCATATGAC
34488473 CATGTGGCAGGCCGTGTCAATTTCACAAATTTGGACCCAAACAGTGGAAAGAAATGATTTTTAGG
1 CATGTGGCAGGCCGTGTCAATTTCACAAATTTGGACCCAAACAGTGGAAAGAAATGATTTTTAGG
* *
34488538 TTTTTCGGATATTCTAAGACATATATATGTCAAAAAAAGAAGATAAGAGTGAGCCATCATAGGAT
66 TTTTTCAGACATTCTAAGACATATATATGTCAAAAAAAGAAGATAAGAGTGAGCCATCATAGGAT
34488603 A
131 A
* **
34488604 CATGTGGCAGGCTGTGTCAATTTCACAAATTTGGACCCCAAACAGTGGAAAGACGTGATTTTTAG
1 CATGTGGCAGGCCGTGTCAATTTCACAAATTTGGA-CCCAAACAGTGGAAAGAAATGATTTTTAG
* *
34488669 GTTTTTCAGACATTCTAAGACATATATATGTC-AAAAATGAAGATAGGAGTGAGCCATCATAGGA
65 GTTTTTCAGACATTCTAAGACATATATATGTCAAAAAAAGAAGATAAGAGTGAGCCATCATAGGA
34488733 TA
130 TA
34488735 GTCAAGAAAA
Statistics
Matches: 123, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
131 66 0.54
132 57 0.46
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.28
Consensus pattern (131 bp):
CATGTGGCAGGCCGTGTCAATTTCACAAATTTGGACCCAAACAGTGGAAAGAAATGATTTTTAGG
TTTTTCAGACATTCTAAGACATATATATGTCAAAAAAAGAAGATAAGAGTGAGCCATCATAGGAT
A
Found at i:34492634 original size:32 final size:32
Alignment explanation
Indices: 34492598--34492661 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
34492588 ATTCCAAAAA
34492598 GAACACTTACAGGATGTAGAGTTTGTATTGAC
1 GAACACTTACAGGATGTAGAGTTTGTATTGAC
34492630 GAACACTTACAGGATGTAGAGTTTGTATTGAC
1 GAACACTTACAGGATGTAGAGTTTGTATTGAC
34492662 TACAAAAAGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.31
Consensus pattern (32 bp):
GAACACTTACAGGATGTAGAGTTTGTATTGAC
Found at i:34494882 original size:20 final size:20
Alignment explanation
Indices: 34494852--34494905 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
34494842 GATATCACCC
*
34494852 TATCACTCTAGGCCATGTGA
1 TATCACCCTAGGCCATGTGA
* *
34494872 TGTCACCCTAGGCTATGTGA
1 TATCACCCTAGGCCATGTGA
34494892 TATCACCCTAGGCC
1 TATCACCCTAGGCC
34494906 GTCTTTGCCA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (20 bp):
TATCACCCTAGGCCATGTGA
Found at i:34497194 original size:3 final size:3
Alignment explanation
Indices: 34497186--34497320 Score: 58
Period size: 3 Copynumber: 44.3 Consensus size: 3
34497176 TTTTTGGTTC
* * * * * *
34497186 ATT ATT ATTT ATT ATT AGT ACT ATT TTT ATT ACT GTT ACT ATT ATT
1 ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * *
34497232 ATT AGT ATT AGT ATT AGT ATT AGT ATT ATT AGTT GAACT ACT GTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT --ATT ATT ATT ATT
* * * * *
34497280 ATT ATT ACT ATT TTT CTT A-T ATT CTT ATT A-T GTT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
34497321 GTGTACAGCT
Statistics
Matches: 94, Mismatches: 32, Indels: 12
0.68 0.23 0.09
Matches are distributed among these distances:
2 3 0.03
3 84 0.89
4 5 0.05
5 1 0.01
6 1 0.01
ACGTcount: A:0.29, C:0.06, G:0.07, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:34497246 original size:18 final size:17
Alignment explanation
Indices: 34497188--34497260 Score: 71
Period size: 18 Copynumber: 4.4 Consensus size: 17
34497178 TTTGGTTCAT
34497188 TATTAT-TTATTATTAG
1 TATTATATTATTATTAG
* *
34497204 TACTAT-TT-TTATTAC
1 TATTATATTATTATTAG
*
34497219 TGTTACTATTATTATTAG
1 TATTA-TATTATTATTAG
*
34497237 TATTAGTATTAGTATTAG
1 TATTA-TATTATTATTAG
34497255 TATTAT
1 TATTAT
34497261 TAGTTGAACT
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
15 9 0.20
16 8 0.17
17 3 0.07
18 26 0.57
ACGTcount: A:0.30, C:0.04, G:0.08, T:0.58
Consensus pattern (17 bp):
TATTATATTATTATTAG
Done.