Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 223 of 318
Found at i:70189048 original size:40 final size:40
Alignment explanation
Indices: 70188989--70189130 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
70188979 AAATTGAATG
* * *
70188989 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
70189029 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
70189069 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
70189109 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
70189131 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:70189131 original size:40 final size:39
Alignment explanation
Indices: 70189028--70189140 Score: 145
Period size: 40 Copynumber: 2.8 Consensus size: 39
70189018 TGCTGGAAAT
* * *
70189028 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
70189068 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
*
70189108 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGC
70189141 ACGTATTATA
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.05
40 60 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:70190543 original size:19 final size:19
Alignment explanation
Indices: 70190519--70190579 Score: 113
Period size: 19 Copynumber: 3.2 Consensus size: 19
70190509 CACAGGACAT
70190519 GGGCGTGTCCCAAGCACAC
1 GGGCGTGTCCCAAGCACAC
70190538 GGGCGTGTCCCAAGCACAC
1 GGGCGTGTCCCAAGCACAC
*
70190557 GGGCATGTCCCAAGCACAC
1 GGGCGTGTCCCAAGCACAC
70190576 GGGC
1 GGGC
70190580 ATGTGCCCTA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 41 1.00
ACGTcount: A:0.21, C:0.36, G:0.33, T:0.10
Consensus pattern (19 bp):
GGGCGTGTCCCAAGCACAC
Found at i:70204296 original size:43 final size:42
Alignment explanation
Indices: 70204210--70204336 Score: 137
Period size: 43 Copynumber: 3.0 Consensus size: 42
70204200 CATCGACTAA
* * * *
70204210 TGATTTACGTGTAAGACCATGTTTAGGACATCGACATCGTATT
1 TGATTT-CATGTAAGACCATGTCTAGGACATTGGCATCGTATT
* *
70204253 TGATTTCATGTAAGACCCTATCTAGGACATTGGCATCGATATT
1 TGATTTCATGTAAGACCATGTCTAGGACATTGGCATCG-TATT
* * * * *
70204296 TGATTACATTTAAGACCATGTCTGGGACGTTGGCATTGTAT
1 TGATTTCATGTAAGACCATGTCTAGGACATTGGCATCGTAT
70204337 GAGTTTTCCG
Statistics
Matches: 70, Mismatches: 13, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
42 29 0.41
43 41 0.59
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (42 bp):
TGATTTCATGTAAGACCATGTCTAGGACATTGGCATCGTATT
Found at i:70207342 original size:27 final size:28
Alignment explanation
Indices: 70207285--70207354 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
70207275 AAATTTGTAC
**
70207285 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
70207313 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
70207340 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
70207355 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:70207363 original size:27 final size:27
Alignment explanation
Indices: 70207285--70207366 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
70207275 AAATTTGTAC
* *
70207285 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
70207313 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
70207340 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
70207367 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:70215422 original size:27 final size:28
Alignment explanation
Indices: 70215365--70215434 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
70215355 AAATTTGTAC
**
70215365 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
70215393 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
70215420 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
70215435 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:70215443 original size:27 final size:27
Alignment explanation
Indices: 70215365--70215446 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
70215355 AAATTTGTAC
* *
70215365 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
70215393 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
70215420 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
70215447 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:70217925 original size:37 final size:37
Alignment explanation
Indices: 70217875--70217950 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
70217865 AGGAAAAGTG
70217875 TTAGGCTAGGCTTGGGTAAGATAAAAAGTGCATATGT
1 TTAGGCTAGGCTTGGGTAAGATAAAAAGTGCATATGT
*
70217912 TTAGGCTAGGCTTGGGTAAGATAAAAAGTGCATGTGT
1 TTAGGCTAGGCTTGGGTAAGATAAAAAGTGCATATGT
70217949 TT
1 TT
70217951 CATTATACGA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.30, C:0.08, G:0.30, T:0.32
Consensus pattern (37 bp):
TTAGGCTAGGCTTGGGTAAGATAAAAAGTGCATATGT
Found at i:70225224 original size:17 final size:18
Alignment explanation
Indices: 70225202--70225235 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
70225192 CACATTGAAG
70225202 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
70225219 TGTTTTCATTGAAAACC
1 TGTTTTCATCGAAAACC
70225236 CTTCTTTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:70226144 original size:27 final size:28
Alignment explanation
Indices: 70226114--70226171 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
70226104 AAATCTTACA
* *
70226114 TTCCACACATAGGGGTA-TTTTAGTCAT
1 TTCCACACATAGGGGCATTTTTAGTAAT
* *
70226141 TTCCACCCTTAGGGGCATTTTTAGTAAT
1 TTCCACACATAGGGGCATTTTTAGTAAT
70226169 TTC
1 TTC
70226172 TCTTTATTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 14 0.54
28 12 0.46
ACGTcount: A:0.22, C:0.21, G:0.17, T:0.40
Consensus pattern (28 bp):
TTCCACACATAGGGGCATTTTTAGTAAT
Found at i:70226544 original size:3 final size:3
Alignment explanation
Indices: 70226536--70226561 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
70226526 AATTTGGATG
70226536 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
70226562 TAGTATGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:70228620 original size:27 final size:26
Alignment explanation
Indices: 70228582--70228694 Score: 136
Period size: 27 Copynumber: 4.2 Consensus size: 26
70228572 GGAGGAAGCA
70228582 TTCTGGTGGCTATGCCACAAATATCTG
1 TTCTGGTGGCTATGCCAC-AATATCTG
70228609 TTCTGGTGGCTATGCCACAAATATCTG
1 TTCTGGTGGCTATGCCAC-AATATCTG
* * *
70228636 TTCTGGTGGCTCTACCACAGTATCTG
1 TTCTGGTGGCTATGCCACAATATCTG
* * * *
70228662 TATCTGGTGACTCTGTCACATTATCTG
1 T-TCTGGTGGCTATGCCACAATATCTG
70228689 TTCTGG
1 TTCTGG
70228695 CAGCTCTGCT
Statistics
Matches: 78, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
26 13 0.17
27 65 0.83
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (26 bp):
TTCTGGTGGCTATGCCACAATATCTG
Found at i:70229562 original size:20 final size:20
Alignment explanation
Indices: 70229537--70229577 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
70229527 GACTTTAGAT
70229537 AAAACATGACTTTTCTAGTA
1 AAAACATGACTTTTCTAGTA
70229557 AAAACATGACTTTTCTAGTA
1 AAAACATGACTTTTCTAGTA
70229577 A
1 A
70229578 TGCTATAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.34
Consensus pattern (20 bp):
AAAACATGACTTTTCTAGTA
Found at i:70231910 original size:31 final size:31
Alignment explanation
Indices: 70231869--70231932 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
70231859 CCTTTTCATA
* *
70231869 TTTCATATTTCATAACACTGGGCTGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
70231900 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
70231931 TT
1 TT
70231933 ACTGTAACGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:70232177 original size:23 final size:24
Alignment explanation
Indices: 70232125--70232316 Score: 223
Period size: 25 Copynumber: 8.0 Consensus size: 24
70232115 GCTTTATCAT
*
70232125 ATAACTGGAGGCCT-AGCCTCTTTT-
1 ATAACTGG-GGCATAAGCC-CTTTTC
* *
70232149 AGTAACT-GGGCAAAAGCCCTTTTT
1 A-TAACTGGGGCATAAGCCCTTTTC
*
70232173 ATAACTGGGGCAAAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TC
* *
70232198 ACAACTGGGGCATAAGCCCTTCATC
1 ATAACTGGGGCATAAGCCCTT-TTC
70232223 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TC
*
70232248 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTC
*
70232271 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTC
70232294 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
70232317 GCACTTCCTC
Statistics
Matches: 151, Mismatches: 9, Indels: 16
0.86 0.05 0.09
Matches are distributed among these distances:
23 56 0.37
24 27 0.18
25 68 0.45
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTC
Found at i:70232209 original size:25 final size:25
Alignment explanation
Indices: 70232151--70232315 Score: 243
Period size: 25 Copynumber: 6.8 Consensus size: 25
70232141 CCTCTTTTAG
* *
70232151 TAACT-GGGCAAAAGCCCTTT-TTA
1 TAACTGGGGCATAAGCCCTTTATCA
*
70232174 TAACTGGGGCAAAAGCCCTTTATCA
1 TAACTGGGGCATAAGCCCTTTATCA
* *
70232199 CAACTGGGGCATAAGCCCTTCATCA
1 TAACTGGGGCATAAGCCCTTTATCA
70232224 TAACTGGGGCATAAGCCCTTTATCA
1 TAACTGGGGCATAAGCCCTTTATCA
70232249 TAACTGGGGCATAAGCCCTTTA--A
1 TAACTGGGGCATAAGCCCTTTATCA
70232272 TAACTGGGGCATAAGCCCTTTA--A
1 TAACTGGGGCATAAGCCCTTTATCA
70232295 TAACTGGGGCATAAGCCCTTT
1 TAACTGGGGCATAAGCCCTTT
70232316 TGCACTTCCT
Statistics
Matches: 134, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
23 50 0.37
24 15 0.11
25 69 0.51
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (25 bp):
TAACTGGGGCATAAGCCCTTTATCA
Found at i:70232390 original size:20 final size:20
Alignment explanation
Indices: 70232362--70232445 Score: 150
Period size: 20 Copynumber: 4.2 Consensus size: 20
70232352 GCATTTATGA
*
70232362 ACATCTCATGTGCATATCAT
1 ACATGTCATGTGCATATCAT
70232382 ACATGTCATGTGCATATCAT
1 ACATGTCATGTGCATATCAT
*
70232402 ACATATCATGTGCATATCAT
1 ACATGTCATGTGCATATCAT
70232422 ACATGTCATGTGCATATCAT
1 ACATGTCATGTGCATATCAT
70232442 ACAT
1 ACAT
70232446 ACCATGTTTA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.35
Consensus pattern (20 bp):
ACATGTCATGTGCATATCAT
Found at i:70232417 original size:11 final size:11
Alignment explanation
Indices: 70232367--70232441 Score: 63
Period size: 11 Copynumber: 7.4 Consensus size: 11
70232357 TATGAACATC
70232367 TCATGTGCATA
1 TCATGTGCATA
* *
70232378 TCA--TACATG
1 TCATGTGCATA
70232387 TCATGTGCATA
1 TCATGTGCATA
*
70232398 TCA--TACATA
1 TCATGTGCATA
70232407 TCATGTGCATA
1 TCATGTGCATA
* *
70232418 TCA--TACATG
1 TCATGTGCATA
70232427 TCATGTGCATA
1 TCATGTGCATA
70232438 TCAT
1 TCAT
70232442 ACATACCATG
Statistics
Matches: 48, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
9 22 0.46
11 26 0.54
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:70232521 original size:25 final size:25
Alignment explanation
Indices: 70232489--70232536 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
70232479 ATGTATAAAC
* *
70232489 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
70232514 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
70232537 CATATTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:70235983 original size:27 final size:27
Alignment explanation
Indices: 70235940--70236079 Score: 160
Period size: 27 Copynumber: 5.3 Consensus size: 27
70235930 TGGAGGAAGC
*
70235940 GTTCTGGT-GCTATGCCACAAATATTT
1 GTTCTGGTGGCTATGCCACAAATATCT
70235966 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCACAAATATCT
* * *
70235993 ATTCTGGTGGCTCTGCTACAAATATCT
1 GTTCTGGTGGCTATGCCACAAATATCT
*
70236020 GTTCTGGTGGCTCTGCCAC-AATATCT
1 GTTCTGGTGGCTATGCCACAAATATCT
* * * * *
70236046 GTATCTGTTGACTCTGTCAC-ATTATCT
1 GT-TCTGGTGGCTATGCCACAAATATCT
70236073 GTTCTGG
1 GTTCTGG
70236080 CAGCTCTGCT
Statistics
Matches: 101, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
26 21 0.21
27 80 0.79
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.38
Consensus pattern (27 bp):
GTTCTGGTGGCTATGCCACAAATATCT
Found at i:70236078 original size:80 final size:80
Alignment explanation
Indices: 70235940--70236095 Score: 181
Period size: 80 Copynumber: 1.9 Consensus size: 80
70235930 TGGAGGAAGC
* * **
70235940 GTTCTGGTGCTATGCCACAAATATTTGTTCTGGTGGCTATGCCACAAATATCTATTCTGGTGGCT
1 GTTCTGGTGCTATGCCACAAATATCTGTTCTGGTGACTATGCCACAAATATCTATTCTGGCAGCT
70236005 CTGCTACAAATATCT
66 CTGCTACAAATATCT
* * * * * *
70236020 GTTCTGGTGGCTCTGCCAC-AATATCTGTATCTGTTGACTCTGTCAC-ATTATCTGTTCTGGCAG
1 GTTCTGGT-GCTATGCCACAAATATCTGT-TCTGGTGACTATGCCACAAATATCTATTCTGGCAG
*
70236083 CTCTGCTGCAAAT
64 CTCTGCTACAAAT
70236096 TCTATGGTGT
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
80 41 0.65
81 22 0.35
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.37
Consensus pattern (80 bp):
GTTCTGGTGCTATGCCACAAATATCTGTTCTGGTGACTATGCCACAAATATCTATTCTGGCAGCT
CTGCTACAAATATCT
Found at i:70237096 original size:28 final size:28
Alignment explanation
Indices: 70237035--70237102 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
70237025 TTGGCCCCTT
* *
70237035 TAGGCCCAATCTCATTTATATGGCCCAC
1 TAGGCCCAATCACATTCATATGGCCCAC
* *
70237063 TGGGCCCAATCACATTCATATGGCCC-G
1 TAGGCCCAATCACATTCATATGGCCCAC
70237090 TCAGGCCCAATCA
1 T-AGGCCCAATCA
70237103 TACTCATAGT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
27 1 0.03
28 33 0.97
ACGTcount: A:0.25, C:0.34, G:0.18, T:0.24
Consensus pattern (28 bp):
TAGGCCCAATCACATTCATATGGCCCAC
Found at i:70247169 original size:29 final size:29
Alignment explanation
Indices: 70247136--70247200 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
70247126 GTGACGAGAT
*
70247136 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
70247165 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
*
70247194 CGGCACT
1 TGGCACT
70247201 GGGTGTGCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAAAATA
Found at i:70249727 original size:42 final size:43
Alignment explanation
Indices: 70249667--70249759 Score: 100
Period size: 42 Copynumber: 2.2 Consensus size: 43
70249657 GATTTACGTA
** * *
70249667 TAAGACCATGTCAAGGACATCGGCATCG-TGTCTG-ATTTCATG
1 TAAGACCATGTCAAGGACAGAGGCATCGATAT-TGAATTACATG
* **
70249709 TAAGACCCTGTCTCGGACAGAGGCATCGATATTGAATTACATG
1 TAAGACCATGTCAAGGACAGAGGCATCGATATTGAATTACATG
70249752 TAAGACCA
1 TAAGACCA
70249760 CATCCGGGAC
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
42 25 0.61
43 16 0.39
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.26
Consensus pattern (43 bp):
TAAGACCATGTCAAGGACAGAGGCATCGATATTGAATTACATG
Found at i:70253477 original size:19 final size:18
Alignment explanation
Indices: 70253453--70253488 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
70253443 TTAAATTTAG
*
70253453 TGAATTAATTGAATTATGT
1 TGAATTAAATG-ATTATGT
70253472 TGAATTAAATGATTATG
1 TGAATTAAATGATTATG
70253489 GTGCCAAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.39, C:0.00, G:0.17, T:0.44
Consensus pattern (18 bp):
TGAATTAAATGATTATGT
Found at i:70255075 original size:40 final size:39
Alignment explanation
Indices: 70255038--70255220 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
70255028 GCTACTCGTT
*
70255038 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTT-TAGTAACTCGCA
* *
70255078 CAAATGCCTTCGGGACTTAACCCGGATTTAGTGACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTTAGTAACTCGCA
** *
70255118 CCAAA-GCCTTCGGG-CTTAGCCCGAATTAGTAACTCACA
1 -CAAATGCCTTCGGGACTTAGCCCGGTTTAGTAACTCGCA
* * * *
70255156 CAAATGCCTTC-AGATCTTAGTCCGGATTTAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGG-TTTAGTAAC-TCGCA
70255197 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
70255221 ACATCATTCG
Statistics
Matches: 118, Mismatches: 17, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
37 5 0.04
38 17 0.14
39 16 0.14
40 65 0.55
41 15 0.13
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTTAGTAACTCGCA
Found at i:70255158 original size:78 final size:80
Alignment explanation
Indices: 70255038--70255219 Score: 228
Period size: 78 Copynumber: 2.3 Consensus size: 80
70255028 GCTACTCGTT
* ** * *
70255038 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGAATATAGTAACTCACACAAATGCCTTC-AGATCTTAACCCG
* *
70255102 GATTTAGTGAC-TCGCA
64 GATTTAGTCACTTAGCA
**
70255118 CCAAAGCCTTCGGG-CTTAGCCCGAAT-TAGTAACTCACACAAATGCCTTCAGATCTTAGTCCGG
1 -CAAAGCCTTCGGGACTTAGCCCGAATATAGTAACTCACACAAATGCCTTCAGATCTTAACCCGG
70255181 ATTTAGTCACTTAGCA
65 ATTTAGTCACTTAGCA
70255197 CAAAGCCTTCGGGACTTAGCCCG
1 CAAAGCCTTCGGGACTTAGCCCG
70255220 GACATCATTC
Statistics
Matches: 89, Mismatches: 9, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
77 2 0.02
78 52 0.58
79 22 0.25
80 9 0.10
81 4 0.04
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGAATATAGTAACTCACACAAATGCCTTCAGATCTTAACCCGGA
TTTAGTCACTTAGCA
Found at i:70257218 original size:64 final size:64
Alignment explanation
Indices: 70257137--70257320 Score: 185
Period size: 67 Copynumber: 2.8 Consensus size: 64
70257127 AGACATTATG
* *
70257137 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * * *
70257201 ATGTAGCTAGGTCGCATGTGTGGTTCCAAGTGAAGGACACCGTGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
70257266 AA
63 AA
* * * *
70257268 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
70257321 CGAACTATAT
Statistics
Matches: 96, Mismatches: 19, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
62 1 0.01
63 18 0.19
64 21 0.22
65 8 0.08
66 16 0.17
67 30 0.31
68 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:70259665 original size:29 final size:29
Alignment explanation
Indices: 70259580--70259685 Score: 153
Period size: 29 Copynumber: 3.7 Consensus size: 29
70259570 TACATACATC
*
70259580 CATATGGCCCATTAGGCCCAA-TCTTATT
1 CATATGGCCCATTAGGCCCAATTCATATT
* *
70259608 CAAATGGCCCATT-GGCCCAGTTCATATT
1 CATATGGCCCATTAGGCCCAATTCATATT
* *
70259636 CTTATGGCCCATTAGGCCCAATTCACATT
1 CATATGGCCCATTAGGCCCAATTCATATT
70259665 CATATGGCCCATTAGGCCCAA
1 CATATGGCCCATTAGGCCCAA
70259686 ATATATTATA
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
27 6 0.09
28 29 0.43
29 33 0.49
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.28
Consensus pattern (29 bp):
CATATGGCCCATTAGGCCCAATTCATATT
Found at i:70259921 original size:8 final size:8
Alignment explanation
Indices: 70259908--70259958 Score: 57
Period size: 8 Copynumber: 6.4 Consensus size: 8
70259898 GTAGCCCAAC
70259908 TTTCGGCT
1 TTTCGGCT
*
70259916 TTTCGGCA
1 TTTCGGCT
*
70259924 TTTCGACT
1 TTTCGGCT
*
70259932 TTTCAGCT
1 TTTCGGCT
* *
70259940 TTTCAGCA
1 TTTCGGCT
70259948 TTTCGGCT
1 TTTCGGCT
70259956 TTT
1 TTT
70259959 ATCGATTCAT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
8 35 1.00
ACGTcount: A:0.10, C:0.24, G:0.18, T:0.49
Consensus pattern (8 bp):
TTTCGGCT
Found at i:70259940 original size:24 final size:24
Alignment explanation
Indices: 70259908--70259958 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
70259898 GTAGCCCAAC
* *
70259908 TTTCGGCTTTTCGGCATTTCGACT
1 TTTCAGCTTTTCAGCATTTCGACT
*
70259932 TTTCAGCTTTTCAGCATTTCGGCT
1 TTTCAGCTTTTCAGCATTTCGACT
70259956 TTT
1 TTT
70259959 ATCGATTCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.10, C:0.24, G:0.18, T:0.49
Consensus pattern (24 bp):
TTTCAGCTTTTCAGCATTTCGACT
Found at i:70261207 original size:16 final size:16
Alignment explanation
Indices: 70261182--70261212 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
70261172 AAAATTCAAG
70261182 ATTTCAGGATTTTTGA
1 ATTTCAGGATTTTTGA
*
70261198 ATTTCGGGATTTTTG
1 ATTTCAGGATTTTTG
70261213 GGGCGTTACA
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:0.19, C:0.06, G:0.23, T:0.52
Consensus pattern (16 bp):
ATTTCAGGATTTTTGA
Found at i:70265484 original size:26 final size:26
Alignment explanation
Indices: 70265453--70265508 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
70265443 TGAAATGCCC
*
70265453 ATCATGGAACATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
70265479 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
70265505 ATCA
1 ATCA
70265509 ATTTGTACCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:70267114 original size:29 final size:30
Alignment explanation
Indices: 70267051--70267169 Score: 142
Period size: 29 Copynumber: 4.2 Consensus size: 30
70267041 TACATACATG
* *
70267051 CATATGGCCCA-CTAGGCTCAA-TCTTATT
1 CATATGGCCCATCTAGGCCCAATTCATATT
* *
70267079 CAAATGGCCCATCT-GGCCCAGTTCATATT
1 CATATGGCCCATCTAGGCCCAATTCATATT
*
70267108 CATATGGCCCA-CTAGGCCCAATTCACATT
1 CATATGGCCCATCTAGGCCCAATTCATATT
*
70267137 CATATGGCCCAT-TAGGCCCAAATCATATT
1 CATATGGCCCATCTAGGCCCAATTCATATT
70267166 -ATAT
1 CATAT
70267170 TCATGCTCAC
Statistics
Matches: 78, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
28 21 0.27
29 57 0.73
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.29
Consensus pattern (30 bp):
CATATGGCCCATCTAGGCCCAATTCATATT
Found at i:70267261 original size:18 final size:18
Alignment explanation
Indices: 70267238--70267273 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
70267228 TGGGCCCAAC
*
70267238 AGCCCATCATGCCCATTT
1 AGCCCATCAGGCCCATTT
*
70267256 AGCCCATCCGGCCCATTT
1 AGCCCATCAGGCCCATTT
70267274 GGCCAATTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.42, G:0.14, T:0.25
Consensus pattern (18 bp):
AGCCCATCAGGCCCATTT
Found at i:70268660 original size:16 final size:16
Alignment explanation
Indices: 70268639--70268671 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
70268629 AAAAATTCAA
70268639 GATTTCAGGATTTTTG
1 GATTTCAGGATTTTTG
*
70268655 GATTTCGGGATTTTTG
1 GATTTCAGGATTTTTG
70268671 G
1 G
70268672 GACGTTATAG
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:0.15, C:0.06, G:0.30, T:0.48
Consensus pattern (16 bp):
GATTTCAGGATTTTTG
Found at i:70271462 original size:40 final size:40
Alignment explanation
Indices: 70271407--70271506 Score: 182
Period size: 40 Copynumber: 2.5 Consensus size: 40
70271397 ATGTGCATAC
70271407 CATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGG
1 CATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGG
70271447 CATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGG
1 CATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGG
* *
70271487 CATTCGTGCTGGTTGTTATA
1 CATTCGTGCGGGTTATTATA
70271507 TCCGAGCCAA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (40 bp):
CATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGG
Found at i:70279762 original size:39 final size:40
Alignment explanation
Indices: 70279674--70279812 Score: 246
Period size: 40 Copynumber: 3.5 Consensus size: 40
70279664 TATGTGCATA
70279674 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
70279714 GCATTCGTGCGGGTTATTATAACCGGGTTAAGT-CCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
70279753 GCATTCGTGC-GGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
* *
70279792 GCATTCGTGCTGGTTGTTATA
1 GCATTCGTGCGGGTTATTATA
70279813 TCCGAGCCAA
Statistics
Matches: 96, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
38 22 0.23
39 32 0.33
40 42 0.44
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (40 bp):
GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
Found at i:70287342 original size:55 final size:54
Alignment explanation
Indices: 70287200--70287393 Score: 173
Period size: 55 Copynumber: 3.6 Consensus size: 54
70287190 TTACTATTTT
* * * * *
70287200 CATGTCTTGACATTGTCTTACATGGTATCCTTGCCTTAT-GAACTCAT-AATTTC
1 CATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTTATCAA-TGC
* * **
70287253 CATGCCTTGGCATGGTCTTACTTGGGATAT--TTGCCTTATAGTAGTTTATCAATGC
1 CATGCCTTGACATGGTCTTACAT--GATATCCTTGCCTTATAG-AACTTATCAATGC
* * * *
70287308 CATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAGAACTTACCAATGC
1 CATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTTATCAATGC
* *
70287362 CATGCCTTTG-CATGGTCTTACTTGGTATCCTT
1 CATGCC-TTGACATGGTCTTACATGATATCCTT
70287394 AAACCCTAAT
Statistics
Matches: 112, Mismatches: 21, Indels: 15
0.76 0.14 0.10
Matches are distributed among these distances:
53 32 0.29
54 35 0.31
55 43 0.38
56 2 0.02
ACGTcount: A:0.20, C:0.22, G:0.18, T:0.40
Consensus pattern (54 bp):
CATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTTATCAATGC
Found at i:70287393 original size:54 final size:53
Alignment explanation
Indices: 70287214--70287393 Score: 166
Period size: 54 Copynumber: 3.3 Consensus size: 53
70287204 TCTTGACATT
* * * *
70287214 GTCTTACATGGTATCCTTGCCTTAT-GAACTCATAATTTCCATGCCTTGGCATG
1 GTCTTACATGGTATCCTTGCCTTATAGAACTTACAA-TGCCATGCCTTTGCATG
* * ** ** *
70287267 GTCTTACTTGGGATATTTGCCTTATAGTAGTTTATCAATGCCATGTC-TTGACATG
1 GTCTTACATGGTATCCTTGCCTTATAG-AACTTA-CAATGCCATGCCTTTG-CATG
* * *
70287322 GTCTTACATGATTTCCTTGCCTTGTAGAACTTACCAATGCCATGCCTTTGCATG
1 GTCTTACATGGTATCCTTGCCTTATAGAACTTA-CAATGCCATGCCTTTGCATG
*
70287376 GTCTTACTTGGTATCCTT
1 GTCTTACATGGTATCCTT
70287394 AAACCCTAAT
Statistics
Matches: 97, Mismatches: 25, Indels: 9
0.74 0.19 0.07
Matches are distributed among these distances:
53 21 0.22
54 37 0.38
55 37 0.38
56 2 0.02
ACGTcount: A:0.20, C:0.22, G:0.18, T:0.40
Consensus pattern (53 bp):
GTCTTACATGGTATCCTTGCCTTATAGAACTTACAATGCCATGCCTTTGCATG
Found at i:70306072 original size:27 final size:27
Alignment explanation
Indices: 70306033--70306135 Score: 111
Period size: 27 Copynumber: 3.8 Consensus size: 27
70306023 AGTGGATAAG
*
70306033 TTGTAGAATTACCAAAATACCCCT-AGT
1 TTGTAAAATTACCAAAATACCCCTGA-T
*
70306060 TTGTAAAACTACCAAAATACCCCTGAT
1 TTGTAAAATTACCAAAATACCCCTGAT
* ** *
70306087 TTGTGAAATTACTGAAATA-CCCTCGAC
1 TTGTAAAATTACCAAAATACCCCT-GAT
*
70306114 TTGTAAAATTACCAAAGTACCC
1 TTGTAAAATTACCAAAATACCC
70306136 TCAATTTACA
Statistics
Matches: 62, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
26 4 0.06
27 55 0.89
28 3 0.05
ACGTcount: A:0.38, C:0.23, G:0.11, T:0.28
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCCTGAT
Found at i:70306136 original size:27 final size:26
Alignment explanation
Indices: 70306033--70306153 Score: 107
Period size: 27 Copynumber: 4.5 Consensus size: 26
70306023 AGTGGATAAG
* *
70306033 TTGTAGAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCGA-T
*
70306060 TTGTAAAACTACCAAAATACCCCTGAT
1 TTGTAAAATTACCAAAATACCCC-GAT
* ** *
70306087 TTGTGAAATTACTGAAATACCCTCGAC
1 TTGTAAAATTACCAAAATACCC-CGAT
* *
70306114 TTGTAAAATTACCAAAGTACCCTCAAT
1 TTGTAAAATTACCAAAATACCC-CGAT
**
70306141 TTACAAAATTACC
1 TTGTAAAATTACC
70306154 GTTTTACCCT
Statistics
Matches: 76, Mismatches: 16, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
27 74 0.97
28 2 0.03
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.29
Consensus pattern (26 bp):
TTGTAAAATTACCAAAATACCCCGAT
Found at i:70306188 original size:27 final size:28
Alignment explanation
Indices: 70306092--70306190 Score: 80
Period size: 27 Copynumber: 3.7 Consensus size: 28
70306082 CTGATTTGTG
* * **
70306092 AAATTA-CTGAAATACCCTCGACTTGTA
1 AAATTACCAGAAATACCCTCGATTTACA
* *
70306119 AAATTACCA-AAGTACCCTCAATTTACA
1 AAATTACCAGAAATACCCTCGATTTACA
***
70306146 AAATTACC-GTTTTACCCTCGATTTACA
1 AAATTACCAGAAATACCCTCGATTTACA
*
70306173 AAATTA-TAGAAATACCCT
1 AAATTACCAGAAATACCCT
70306191 TGTAAGGTAG
Statistics
Matches: 55, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
27 54 0.98
28 1 0.02
ACGTcount: A:0.39, C:0.23, G:0.07, T:0.30
Consensus pattern (28 bp):
AAATTACCAGAAATACCCTCGATTTACA
Found at i:70306204 original size:27 final size:27
Alignment explanation
Indices: 70306174--70306227 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
70306164 CGATTTACAA
* *
70306174 AATTATAGAAATACCCTTGTAAGGTAG
1 AATTACAGAAATACCCCTGTAAGGTAG
*
70306201 AATTACAGAAATACCCCTGTAGGGTAG
1 AATTACAGAAATACCCCTGTAAGGTAG
70306228 GACTACCGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACAGAAATACCCCTGTAAGGTAG
Found at i:70306972 original size:2 final size:2
Alignment explanation
Indices: 70306965--70306998 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
70306955 GGCTTCGCCA
70306965 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
70306999 GTTCTGGTGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:70311546 original size:40 final size:40
Alignment explanation
Indices: 70311487--70311591 Score: 122
Period size: 40 Copynumber: 2.6 Consensus size: 40
70311477 ATTGAATGAT
* * * * *
70311487 ATCCGGGCTAAGTCTCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTAACTAC
* * * *
70311527 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTAACTAC
70311567 ATCCGGGCTAAGACCC-AAGGCATTT
1 ATCCGGGCTAAGACCCGAAGGCATTT
70311592 GTGCAAATTG
Statistics
Matches: 54, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
39 8 0.15
40 46 0.85
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTAACTAC
Found at i:70317790 original size:93 final size:93
Alignment explanation
Indices: 70317678--70317848 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
70317668 GCCCATAAGT
* *
70317678 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
70317743 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
70317771 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
70317836 CGAGTTCGGATGC
66 CGAGTTCGGATGC
70317849 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:70317864 original size:46 final size:46
Alignment explanation
Indices: 70317670--70317850 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
70317660 TGTAACCCGC
* * *
70317670 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
70317716 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
70317766 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
70317809 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
70317851 AACCATCCTA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 72 0.62
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:70326189 original size:40 final size:39
Alignment explanation
Indices: 70326131--70326323 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 39
70326121 GGATATAGCG
* * * * *
70326131 ACTCGCTCGATTGTCTTCGGAACATAGCCCGGTTATAGTG
1 ACTCGCACGAATGCCTTCGGAACTTAGCCCGGTT-TAGTA
*
70326171 ATTCGCAC-AATTGCCTTCGGGAA-TTAGCCCGGATTTAGTA
1 ACTCGCACGAA-TGCCTTC-GGAACTTAGCCCGG-TTTAGTA
* * *
70326211 ACTCGCACGAATGCCTTCGGGACTTAACCCGGTTTTGGTA
1 ACTCGCACGAATGCCTTCGGAACTTAGCCCGG-TTTAGTA
*
70326251 ACTCGCACGAATGCCTTCGGGAA-TT-GACCCGGATTTAGTC
1 ACTCGCACGAATGCCTTC-GGAACTTAG-CCCGG-TTTAGTA
* * * *
70326291 ACTTAGCACAAAAGCCTTCGGGACTTAGCCCGG
1 AC-TCGCACGAATGCCTTCGGAACTTAGCCCGG
70326324 ACACCATTCG
Statistics
Matches: 123, Mismatches: 20, Indels: 19
0.76 0.12 0.12
Matches are distributed among these distances:
39 4 0.03
40 87 0.71
41 31 0.25
42 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.26
Consensus pattern (39 bp):
ACTCGCACGAATGCCTTCGGAACTTAGCCCGGTTTAGTA
Found at i:70326229 original size:80 final size:80
Alignment explanation
Indices: 70326111--70326323 Score: 223
Period size: 80 Copynumber: 2.6 Consensus size: 80
70326101 CGTACCTTCA
* * ** * * * * * * *
70326111 GAATTGAACCGGATATAGCGACTCGCTCGATTGTCTTCGGAACATAGCCCGGTTATAGTGATTCG
1 GAATTGACCCGGATTTAGTAACTCGCACGAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCG
70326176 CAC-AATTGCCTTCGG
66 CACGAA-TGCCTTCGG
* * *
70326191 GAATT-AGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGGACTTAACCCGGTTTTGGTAACTC
1 GAATTGA-CCCGGATTTAGTAACTCGCACGAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTC
70326255 GCACGAATGCCTTCGG
65 GCACGAATGCCTTCGG
* * * *
70326271 GAATTGACCCGGATTTAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCGG
1 GAATTGACCCGGATTTAGTAAC-TCGCACGAATGCCTTCGGGACTTAGCCCGG
70326324 ACACCATTCG
Statistics
Matches: 110, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
79 1 0.01
80 80 0.73
81 29 0.26
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.26
Consensus pattern (80 bp):
GAATTGACCCGGATTTAGTAACTCGCACGAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCG
CACGAATGCCTTCGG
Found at i:70326312 original size:41 final size:39
Alignment explanation
Indices: 70326173--70326324 Score: 171
Period size: 40 Copynumber: 3.8 Consensus size: 39
70326163 TTATAGTGAT
70326173 TCGCAC-AATTGCCTTCGGGAATTAGCCCGGATTTAGTAAC
1 TCGCACGAA-TGCCTTCGGGAATTA-CCCGGATTTAGTAAC
* * *
70326213 TCGCACGAATGCCTTCGGGACTTAACCCGGTTTTGGTAAC
1 TCGCACGAATGCCTTCGGGAATT-ACCCGGATTTAGTAAC
*
70326253 TCGCACGAATGCCTTCGGGAATTGACCCGGATTTAGTCAC
1 TCGCACGAATGCCTTCGGGAATT-ACCCGGATTTAGTAAC
* * * *
70326293 TTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 -TCGCACGAATGCCTTCGGGAATTA-CCCGGA
70326325 CACCATTCGA
Statistics
Matches: 96, Mismatches: 12, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
40 68 0.71
41 28 0.29
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (39 bp):
TCGCACGAATGCCTTCGGGAATTACCCGGATTTAGTAAC
Found at i:70338969 original size:30 final size:31
Alignment explanation
Indices: 70338934--70338993 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
70338924 ATGGTTATTG
* *
70338934 AACTATTC-AAATTTTTTATTTAAGCCACTA
1 AACTATTCAAAAGTTTTTATTCAAGCCACTA
*
70338964 AACTATTCAAAAGTTTTTATTCAAGTCACT
1 AACTATTCAAAAGTTTTTATTCAAGCCACT
70338994 GGGTTGTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 8 0.31
31 18 0.69
ACGTcount: A:0.37, C:0.17, G:0.05, T:0.42
Consensus pattern (31 bp):
AACTATTCAAAAGTTTTTATTCAAGCCACTA
Found at i:70340787 original size:29 final size:30
Alignment explanation
Indices: 70340723--70340823 Score: 97
Period size: 29 Copynumber: 3.5 Consensus size: 30
70340713 CATACATGCA
* *
70340723 TATGGCCCA-CTAGGCCCAATCTT-ATTCA
1 TATGGCCCATCTAGGCCCAATTTTCATTCT
* * *
70340751 AATGGCCCATCT-GGCCTAGTTTAT-ATTCT
1 TATGGCCCATCTAGGCCCAATTT-TCATTCT
70340780 TATGGCCCA-CTAGGCCCAATTTTCATTCT
1 TATGGCCCATCTAGGCCCAATTTTCATTCT
*
70340809 TAAGGCCCAT-TAGGC
1 TATGGCCCATCTAGGC
70340824 TTAAATCATA
Statistics
Matches: 59, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
28 18 0.31
29 41 0.69
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.32
Consensus pattern (30 bp):
TATGGCCCATCTAGGCCCAATTTTCATTCT
Found at i:70341083 original size:15 final size:16
Alignment explanation
Indices: 70341051--70341085 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
70341041 GTAGCCCAAC
70341051 TTTCGGCTTTTCGTCA
1 TTTCGGCTTTTCGTCA
70341067 TTTCGGCTTTT-GTCA
1 TTTCGGCTTTTCGTCA
70341082 TTTC
1 TTTC
70341086 ATTGTATGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.06, C:0.23, G:0.17, T:0.54
Consensus pattern (16 bp):
TTTCGGCTTTTCGTCA
Found at i:70355107 original size:15 final size:13
Alignment explanation
Indices: 70355082--70355123 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 13
70355072 AGAACTTATA
*
70355082 TTATAAATATTTT
1 TTATGAATATTTT
70355095 TTAGTCGAATATTTT
1 TTA-T-GAATATTTT
70355110 TTATG-ATATTTT
1 TTATGAATATTTT
70355122 TT
1 TT
70355124 TATCAGTGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
12 9 0.35
13 4 0.15
14 2 0.08
15 11 0.42
ACGTcount: A:0.29, C:0.02, G:0.07, T:0.62
Consensus pattern (13 bp):
TTATGAATATTTT
Found at i:70356370 original size:22 final size:20
Alignment explanation
Indices: 70356323--70356377 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 20
70356313 TATTAAATAA
70356323 TATTTTATTATTACTTATTT
1 TATTTTATTATTACTTATTT
70356343 TAATTTTGATTTATTA-TTATTAT
1 T-ATTTT-A-TTATTACTTATT-T
70356366 TATTTTATTATT
1 TATTTTATTATT
70356378 CTCATATCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
20 6 0.19
21 6 0.19
22 11 0.35
23 8 0.26
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (20 bp):
TATTTTATTATTACTTATTT
Found at i:70356701 original size:20 final size:19
Alignment explanation
Indices: 70356676--70356725 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
70356666 ATAAATAATA
70356676 ATTAAAGTTTATGATCATAT
1 ATTAAA-TTTATGATCATAT
* *
70356696 ATTAAATTTTATTATTATAT
1 ATTAAA-TTTATGATCATAT
70356716 -TTAAATTTAT
1 ATTAAATTTAT
70356726 AGTTATTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 5 0.19
19 5 0.19
20 17 0.63
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (19 bp):
ATTAAATTTATGATCATAT
Found at i:70356716 original size:18 final size:20
Alignment explanation
Indices: 70356693--70356736 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 20
70356683 TTTATGATCA
70356693 TATATTAAATTT-TA-TTAT
1 TATATTAAATTTATAGTTAT
70356711 TATATTTAAATTTATAGTTAT
1 TATA-TTAAATTTATAGTTAT
70356732 TATAT
1 TATAT
70356737 AATATATGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.17
19 8 0.35
20 3 0.13
21 8 0.35
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (20 bp):
TATATTAAATTTATAGTTAT
Found at i:70357467 original size:26 final size:26
Alignment explanation
Indices: 70357429--70357501 Score: 110
Period size: 26 Copynumber: 2.8 Consensus size: 26
70357419 GGTGCTTTGA
*
70357429 GAGCGTTTAGTGCTCTAGTGCAGGAAG
1 GAGCG-TTGGTGCTCTAGTGCAGGAAG
70357456 GAGCGTTGGTGCTCTAGTGCAGGAAG
1 GAGCGTTGGTGCTCTAGTGCAGGAAG
* *
70357482 GAGCATTGGTGCTCTTGTGC
1 GAGCGTTGGTGCTCTAGTGC
70357502 CTCGCAAGCC
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
26 38 0.88
27 5 0.12
ACGTcount: A:0.18, C:0.16, G:0.38, T:0.27
Consensus pattern (26 bp):
GAGCGTTGGTGCTCTAGTGCAGGAAG
Found at i:70359081 original size:9 final size:9
Alignment explanation
Indices: 70359067--70359101 Score: 70
Period size: 9 Copynumber: 3.9 Consensus size: 9
70359057 AATATTTTCC
70359067 ATTTCTTCA
1 ATTTCTTCA
70359076 ATTTCTTCA
1 ATTTCTTCA
70359085 ATTTCTTCA
1 ATTTCTTCA
70359094 ATTTCTTC
1 ATTTCTTC
70359102 CTATTCCTAA
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:0.20, C:0.23, G:0.00, T:0.57
Consensus pattern (9 bp):
ATTTCTTCA
Found at i:70363561 original size:125 final size:126
Alignment explanation
Indices: 70363330--70363580 Score: 432
Period size: 125 Copynumber: 2.0 Consensus size: 126
70363320 TAATGGTAAC
*
70363330 AAAAGGCTGGGAAAATAGCCTAAGTACTAGTCACATGGGCAGAGACACGACCATGTGTCTCAACC
1 AAAAGGCTGGGAAAATAGCCTAAGTACTAGTCACACGGGCAGAGACACGACCATGTGTCTCAACC
*
70363395 GTGTGGAGGACACGGCCTAGCGCACAGGCGTATGGCCTGGCCGTGTGGTTAAATTTGTTTT
66 GTGTGGAGGACACGGCCTAGCACACAGGCGTATGGCCTGGCCGTGTGGTTAAATTTGTTTT
* * *
70363456 AAAA-GCTTGGAAAATAGCCTAAGTACTAGTCACACGGGCAGAGACACGGCCATGTGTCTCAACT
1 AAAAGGCTGGGAAAATAGCCTAAGTACTAGTCACACGGGCAGAGACACGACCATGTGTCTCAACC
* *
70363520 GTGTGGAGGACACGGCCTAGCACACGGGCGTGTGGCCTGGCCGTGTGGTTAAATTTGTTTT
66 GTGTGGAGGACACGGCCTAGCACACAGGCGTATGGCCTGGCCGTGTGGTTAAATTTGTTTT
70363581 GATGACGTCA
Statistics
Matches: 118, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
125 114 0.97
126 4 0.03
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.23
Consensus pattern (126 bp):
AAAAGGCTGGGAAAATAGCCTAAGTACTAGTCACACGGGCAGAGACACGACCATGTGTCTCAACC
GTGTGGAGGACACGGCCTAGCACACAGGCGTATGGCCTGGCCGTGTGGTTAAATTTGTTTT
Found at i:70366834 original size:46 final size:46
Alignment explanation
Indices: 70366784--70366956 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
70366774 TGGTTGAGCA
70366784 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
70366830 TCCGAACTCGTTGAGTTGAGTCGGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
70366875 CATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
70366923 CCCGATCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
70366957 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 59 0.57
47 27 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:70366940 original size:93 final size:93
Alignment explanation
Indices: 70366781--70366951 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
70366771 GGATGGTTGA
* *
70366781 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
70366846 TGAGTCGGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
70366874 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACGCCCGATCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
70366939 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
70366952 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:70369909 original size:20 final size:20
Alignment explanation
Indices: 70369884--70369928 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
70369874 CGGAATACAA
70369884 CTCGGACTCAACTCAACGAG
1 CTCGGACTCAACTCAACGAG
70369904 CTCGGACTCAACTCAACGAG
1 CTCGGACTCAACTCAACGAG
70369924 CTCGG
1 CTCGG
70369929 GCGTTTGCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.27, C:0.36, G:0.22, T:0.16
Consensus pattern (20 bp):
CTCGGACTCAACTCAACGAG
Found at i:70370037 original size:93 final size:93
Alignment explanation
Indices: 70369899--70370071 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
70369889 ACTCAACTCA
* * * *
70369899 ACGAGCTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAAGTGAACTCGGACTCAACTC
1 ACGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTC
70369964 AACGAGTTCGGATGCCTAGTTACATCTC
66 AACGAGTTCGGATGCCTAGTTACATCTC
*
70369992 ACGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTC
1 ACGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTC
70370057 AACGAGTTCGGATGC
66 AACGAGTTCGGATGC
70370072 TCAACCATCC
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.21
Consensus pattern (93 bp):
ACGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTC
AACGAGTTCGGATGCCTAGTTACATCTC
Found at i:70370061 original size:46 final size:46
Alignment explanation
Indices: 70369904--70370073 Score: 202
Period size: 46 Copynumber: 3.7 Consensus size: 46
70369894 ACTCAACGAG
* * * *
70369904 CTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAAGTGAA
1 CTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAA
* * * *
70369950 CTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-TCA-CGAA
1 CTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CATCCATAAGTGAA
70369997 CTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAA
1 CTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAA
*
70370043 CTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CTCGGACTCAACTCAACGAGTTCGGACGCTC
70370074 AACCATCCTA
Statistics
Matches: 105, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 61 0.58
47 32 0.30
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.22
Consensus pattern (46 bp):
CTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAA
Found at i:70375520 original size:93 final size:93
Alignment explanation
Indices: 70375413--70375583 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
70375403 GCCCCTAAGT
* *
70375413 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
70375478 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
70375506 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
70375571 CGAGTTCGGATGC
66 CGAGTTCGGATGC
70375584 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:70375580 original size:46 final size:46
Alignment explanation
Indices: 70375408--70375580 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
70375398 AACCCGCCCC
* * *
70375408 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
70375454 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
70375502 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
70375547 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
70375581 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:70378171 original size:15 final size:15
Alignment explanation
Indices: 70378133--70378176 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
70378123 CATAGTATCG
* *
70378133 TATCTTGGGTTTCTT
1 TATCTTGGATTTCTC
70378148 TAT-TCTGGATTTCTC
1 TATCT-TGGATTTCTC
70378163 TATCTTGGATTTCT
1 TATCTTGGATTTCT
70378177 TTATTCGGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 1 0.04
15 23 0.92
16 1 0.04
ACGTcount: A:0.11, C:0.16, G:0.16, T:0.57
Consensus pattern (15 bp):
TATCTTGGATTTCTC
Found at i:70380632 original size:46 final size:46
Alignment explanation
Indices: 70380582--70380754 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
70380572 TGGTTGAGCA
*
70380582 TCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
70380628 TCCGAACTCGTTGAGTTGAGTCGGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
**
70380673 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACA
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
70380721 CCCGATCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
70380755 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 59 0.57
47 28 0.27
48 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:70380738 original size:93 final size:93
Alignment explanation
Indices: 70380579--70380749 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
70380569 GGATGGTTGA
***
70380579 GCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
*
70380644 TGAGTCGGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
70380672 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGATCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
70380737 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
70380750 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:70385135 original size:47 final size:47
Alignment explanation
Indices: 70385074--70385382 Score: 467
Period size: 47 Copynumber: 6.6 Consensus size: 47
70385064 ATGTATATAT
70385074 ATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAACATGCAC
1 ATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAACATGCAC
70385121 ATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAACATGCAC
1 ATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAACATGCAC
70385168 ATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAACATGCAC
1 ATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAACATGCAC
*
70385215 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCAC
1 ATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAACATGCAC
* ** *
70385262 ATATGTGATAAGGCCGAATGGCCAATGGGATAAATGTGAACATGCAT
1 ATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAACATGCAC
* * * * * * *
70385309 ATATGTGGTAAGGCAGAATGGCCAATGTGATGAACGTGGAA-GTGTAT
1 ATATGTGATAAGGCCGAATGGCCAATGTGACGAATGT-GAACATGCAC
* * *
70385356 ATATGTGGTAAAGCCGAATGGCTAATG
1 ATATGTGATAAGGCCGAATGGCCAATG
70385383 CGAAATTCGT
Statistics
Matches: 247, Mismatches: 14, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
47 244 0.99
48 3 0.01
ACGTcount: A:0.34, C:0.14, G:0.29, T:0.23
Consensus pattern (47 bp):
ATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAACATGCAC
Found at i:70385413 original size:46 final size:46
Alignment explanation
Indices: 70385356--70385446 Score: 139
Period size: 46 Copynumber: 2.0 Consensus size: 46
70385346 GGAAGTGTAT
*
70385356 ATATGTGGTAAAGCCGAATGGCTAATGCGAAAT-TCGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATAT-GTATGAGATGG
* *
70385402 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGATG
70385447 TGTATATATA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
46 40 0.98
47 1 0.02
ACGTcount: A:0.34, C:0.09, G:0.30, T:0.27
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGATGG
Found at i:70387525 original size:44 final size:41
Alignment explanation
Indices: 70387431--70387539 Score: 130
Period size: 44 Copynumber: 2.6 Consensus size: 41
70387421 CGATGCCTCT
* * *
70387431 GTCCCACACAGGGTCTTACACGAAATCAAATACTATGCCAAT
1 GTCCCAGACATGGTCTTACACGAAATCAAATAC-ATGCCAAC
*
70387473 GTCTCAGACATGGTCTTACACGTAAATCATAAGTTA-ATGCCAAC
1 GTCCCAGACATGGTCTTACACG-AAATCA-AA--TACATGCCAAC
70387517 GTCCCAGACATGGTCTTACACGA
1 GTCCCAGACATGGTCTTACACGA
70387540 TAACACATAT
Statistics
Matches: 58, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
42 19 0.33
43 7 0.12
44 30 0.52
46 2 0.03
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.24
Consensus pattern (41 bp):
GTCCCAGACATGGTCTTACACGAAATCAAATACATGCCAAC
Found at i:70390505 original size:32 final size:32
Alignment explanation
Indices: 70390469--70390532 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
70390459 TGGATAATCC
**
70390469 ATCGAGACTTTTGAGAAACTCAACGGGATTAA
1 ATCGAGACTTCCGAGAAACTCAACGGGATTAA
70390501 ATCGAGACTTCCGAGAAACTCAACGGGATTAA
1 ATCGAGACTTCCGAGAAACTCAACGGGATTAA
70390533 TATGAGATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.22
Consensus pattern (32 bp):
ATCGAGACTTCCGAGAAACTCAACGGGATTAA
Found at i:70393837 original size:7 final size:7
Alignment explanation
Indices: 70393825--70393880 Score: 85
Period size: 7 Copynumber: 7.7 Consensus size: 7
70393815 AAACACAGCA
70393825 AGGGTTT
1 AGGGTTT
70393832 AGGGTTT
1 AGGGTTT
70393839 AGGGTTTT
1 AGGG-TTT
*
70393847 AGAGTTT
1 AGGGTTT
70393854 AGGGTTTT
1 AGGG-TTT
70393862 AGGGTTT
1 AGGGTTT
70393869 AGGGTTT
1 AGGGTTT
70393876 AGGGT
1 AGGGT
70393881 CCTATATTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
7 32 0.71
8 13 0.29
ACGTcount: A:0.16, C:0.00, G:0.41, T:0.43
Consensus pattern (7 bp):
AGGGTTT
Found at i:70393853 original size:15 final size:15
Alignment explanation
Indices: 70393825--70393880 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
70393815 AAACACAGCA
70393825 AGGG-TTTAGGGTTT
1 AGGGTTTTAGGGTTT
*
70393839 AGGGTTTTAGAGTTT
1 AGGGTTTTAGGGTTT
70393854 AGGGTTTTAGGGTTT
1 AGGGTTTTAGGGTTT
70393869 AGGG-TTTAGGGT
1 AGGGTTTTAGGGT
70393881 CCTATATTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
14 12 0.31
15 27 0.69
ACGTcount: A:0.16, C:0.00, G:0.41, T:0.43
Consensus pattern (15 bp):
AGGGTTTTAGGGTTT
Found at i:70393856 original size:22 final size:21
Alignment explanation
Indices: 70393828--70393880 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 21
70393818 CACAGCAAGG
70393828 GTTTAGGGTTTAGGGTTTTAGA
1 GTTTAGGGTTTAGGG-TTTAGA
*
70393850 GTTTAGGGTTTTAGGGTTTAGG
1 GTTTAGGG-TTTAGGGTTTAGA
70393872 GTTTAGGGT
1 GTTTAGGGT
70393881 CCTATATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 1 0.03
22 21 0.72
23 7 0.24
ACGTcount: A:0.15, C:0.00, G:0.40, T:0.45
Consensus pattern (21 bp):
GTTTAGGGTTTAGGGTTTAGA
Found at i:70395843 original size:169 final size:169
Alignment explanation
Indices: 70395564--70395902 Score: 651
Period size: 169 Copynumber: 2.0 Consensus size: 169
70395554 AGGAAAATAC
70395564 GGGTTATAAAATTTCGTTCCAAATTAAAACCAATCAGACAACATCTTAATGTCCCTATTATATGC
1 GGGTTATAAAATTTCGTTCCAAATTAAAACCAATCAGACAACATCTTAATGTCCCTATTATATGC
70395629 CTACGAGACCCAAAAGATACATTGAGAATGGTTCGGGACTAAACCGAGAGCCTAAGAAAATTTTA
66 CTACGAGACCCAAAAGATACATTGAGAATGGTTCGGGACTAAACCGAGAGCCTAAGAAAATTTTA
70395694 GGAAAATTTTCTAGGTTAAGCCTCACACGCCCTTGTGGA
131 GGAAAATTTTCTAGGTTAAGCCTCACACGCCCTTGTGGA
*
70395733 GGGTTATAAAATTTCGTTCCAAATTAAAACCAATCAGACAACATCTTAGTGTCCCTATTATATGC
1 GGGTTATAAAATTTCGTTCCAAATTAAAACCAATCAGACAACATCTTAATGTCCCTATTATATGC
* *
70395798 CTACGAGACCCAAAAGGTACATTGATAATGGTTCGGGACTAAACCGAGAGCCTAAGAAAATTTTA
66 CTACGAGACCCAAAAGATACATTGAGAATGGTTCGGGACTAAACCGAGAGCCTAAGAAAATTTTA
70395863 GGAAAATTTTCTAGGTTAAGCCTCACACGCCCTTGTGGA
131 GGAAAATTTTCTAGGTTAAGCCTCACACGCCCTTGTGGA
70395902 G
1 G
70395903 ACAATGCACA
Statistics
Matches: 167, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
169 167 1.00
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (169 bp):
GGGTTATAAAATTTCGTTCCAAATTAAAACCAATCAGACAACATCTTAATGTCCCTATTATATGC
CTACGAGACCCAAAAGATACATTGAGAATGGTTCGGGACTAAACCGAGAGCCTAAGAAAATTTTA
GGAAAATTTTCTAGGTTAAGCCTCACACGCCCTTGTGGA
Found at i:70396321 original size:30 final size:30
Alignment explanation
Indices: 70396283--70396351 Score: 104
Period size: 30 Copynumber: 2.3 Consensus size: 30
70396273 ATGGGGCTGA
*
70396283 CCGTGTGTCACACAC-GGTCTAGACACACGC
1 CCGTGTGTCACACACAGCT-TAGACACACGC
*
70396313 CCTTGTGTCACACACAGCTTAGACACACGC
1 CCGTGTGTCACACACAGCTTAGACACACGC
70396343 CCGTGTGTC
1 CCGTGTGTC
70396352 TACCCGTGTG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
30 33 0.94
31 2 0.06
ACGTcount: A:0.22, C:0.36, G:0.22, T:0.20
Consensus pattern (30 bp):
CCGTGTGTCACACACAGCTTAGACACACGC
Found at i:70404114 original size:13 final size:13
Alignment explanation
Indices: 70404096--70404126 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
70404086 GCCGTGCCCT
70404096 ACACATGGTTGAG
1 ACACATGGTTGAG
70404109 ACACATGGTTGAG
1 ACACATGGTTGAG
70404122 ACACA
1 ACACA
70404127 CGGTCGTGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.19
Consensus pattern (13 bp):
ACACATGGTTGAG
Found at i:70409142 original size:48 final size:48
Alignment explanation
Indices: 70408942--70409146 Score: 163
Period size: 48 Copynumber: 4.4 Consensus size: 48
70408932 GGTTATGTAC
* * *
70408942 GATCCCATGTAAGACCATGTAT-GAGACATGGCATTGGCATCGATATGT
1 GATCCCATGTAAGACCATGTCTAG-GACATGACATTGGCATCGATATAT
* ** * * *
70408990 AATTTCGTGTAAGACCATAG-CTAGG-C-T---ATCGGCATCGATATGT
1 GATCCCATGTAAGACCAT-GTCTAGGACATGACATTGGCATCGATATAT
* * *
70409033 GATCCCATGTAAGACCATGTCTAGGACATGACATTGGCATTGATCTAC
1 GATCCCATGTAAGACCATGTCTAGGACATGACATTGGCATCGATATAT
** * * * * *
70409081 GATCCCACATAAGACCATGTTTGGGACGTGGCATTGGCATCAATATAT
1 GATCCCATGTAAGACCATGTCTAGGACATGACATTGGCATCGATATAT
*
70409129 GATTCCATGTAAGACCAT
1 GATCCCATGTAAGACCAT
70409147 ATTCGGGATA
Statistics
Matches: 121, Mismatches: 28, Indels: 16
0.73 0.17 0.10
Matches are distributed among these distances:
42 1 0.01
43 34 0.28
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 80 0.66
49 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.28
Consensus pattern (48 bp):
GATCCCATGTAAGACCATGTCTAGGACATGACATTGGCATCGATATAT
Found at i:70409380 original size:26 final size:26
Alignment explanation
Indices: 70409318--70409371 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
70409308 ATTGAGATTA
** *
70409318 TGAATCGATGAGACCTTGGTAGGATG
1 TGAATCGATGAGACCTCAGTAAGATG
70409344 TGAATCGATGAGACCTCAGTAAGATG
1 TGAATCGATGAGACCTCAGTAAGATG
70409370 TG
1 TG
70409372 GATGAATGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.30, C:0.13, G:0.31, T:0.26
Consensus pattern (26 bp):
TGAATCGATGAGACCTCAGTAAGATG
Found at i:70411738 original size:27 final size:28
Alignment explanation
Indices: 70411682--70411751 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
70411672 AAAATTGTAC
70411682 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
70411710 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
70411737 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
70411752 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:70411762 original size:27 final size:27
Alignment explanation
Indices: 70411682--70411763 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
70411672 AAAATTGTAC
* *
70411682 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
70411710 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
*
70411737 AGCACTGAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
70411764 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.60
28 18 0.38
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:70419647 original size:27 final size:28
Alignment explanation
Indices: 70419591--70419658 Score: 120
Period size: 27 Copynumber: 2.5 Consensus size: 28
70419581 AAACTTGTAC
70419591 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
70419619 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
70419646 AGCACTAAGTGTG
1 AGCACTAAGTGTG
70419659 ACTCATATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.56
28 17 0.44
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:70426009 original size:40 final size:40
Alignment explanation
Indices: 70425950--70426157 Score: 206
Period size: 40 Copynumber: 5.2 Consensus size: 40
70425940 CAGAATACAA
* *
70425950 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
* * * *
70425990 CCGGATACAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
*
70426030 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
* * * *
70426070 CCGGATGTAGTC-ACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACAACTTGCACGAA-TGCCTTCGGGTCTTAGC
* ** * * * *
70426110 CTGGATATAATTACTAG-ACTAAATGTCTTCGGGACTTAGC
1 CCGGATATAACAACTTGCAC-GAATGCCTTCGGGTCTTAGC
70426150 CCGGATAT
1 CCGGATAT
70426158 CATTCAATTG
Statistics
Matches: 141, Mismatches: 22, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
39 4 0.03
40 134 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:70431532 original size:18 final size:19
Alignment explanation
Indices: 70431511--70431546 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
70431501 AATAAAGAAA
*
70431511 GGAATTAAA-AAGAAAAGG
1 GGAATAAAATAAGAAAAGG
70431529 GGAATAAAATAAGAAAAG
1 GGAATAAAATAAGAAAAG
70431547 AAAAAGGGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.64, C:0.00, G:0.25, T:0.11
Consensus pattern (19 bp):
GGAATAAAATAAGAAAAGG
Found at i:70432310 original size:57 final size:57
Alignment explanation
Indices: 70432238--70432354 Score: 234
Period size: 57 Copynumber: 2.1 Consensus size: 57
70432228 ACAAATAGAT
70432238 GTGAAAATATATGCTAGATTAGGAAAATTTGATTAAATGTTCATGAGATGAAATTAG
1 GTGAAAATATATGCTAGATTAGGAAAATTTGATTAAATGTTCATGAGATGAAATTAG
70432295 GTGAAAATATATGCTAGATTAGGAAAATTTGATTAAATGTTCATGAGATGAAATTAG
1 GTGAAAATATATGCTAGATTAGGAAAATTTGATTAAATGTTCATGAGATGAAATTAG
70432352 GTG
1 GTG
70432355 TTTAAAAGAT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 60 1.00
ACGTcount: A:0.41, C:0.03, G:0.22, T:0.33
Consensus pattern (57 bp):
GTGAAAATATATGCTAGATTAGGAAAATTTGATTAAATGTTCATGAGATGAAATTAG
Found at i:70432997 original size:59 final size:58
Alignment explanation
Indices: 70432901--70433032 Score: 246
Period size: 59 Copynumber: 2.3 Consensus size: 58
70432891 AAAATTGTAC
70432901 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
*
70432959 AGCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAA-TATATAGCACTAAGTGTGCGAGCTGAAAATATAT
70433018 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
70433033 GATTCACTAT
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
58 23 0.32
59 49 0.68
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.24
Consensus pattern (58 bp):
AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:70433021 original size:88 final size:89
Alignment explanation
Indices: 70432871--70433032 Score: 263
Period size: 88 Copynumber: 1.8 Consensus size: 89
70432861 GACAAGATTG
* * *
70432871 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
70432936 AAGTGTGCGAGCTGAAAATATATA
66 AAGTGTGCGAGCTGAAAATATATA
* * *
70432960 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
70433024 AAGTGTGCG
66 AAGTGTGCG
70433033 GATTCACTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
88 52 0.78
89 15 0.22
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (89 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
AAGTGTGCGAGCTGAAAATATATA
Found at i:70433044 original size:29 final size:29
Alignment explanation
Indices: 70432901--70433032 Score: 246
Period size: 29 Copynumber: 4.5 Consensus size: 29
70432891 AAAATTGTAC
*
70432901 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
70432930 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
70432959 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGCTGAAAA-TATAT
70432989 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
70433018 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
70433033 GATTCACTAT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 72 0.71
30 29 0.29
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:70442810 original size:16 final size:16
Alignment explanation
Indices: 70442789--70442823 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
70442779 CATAAAGGTA
70442789 ACTATATTCACTGATC
1 ACTATATTCACTGATC
*
70442805 ACTATATTCGCTGATC
1 ACTATATTCACTGATC
70442821 ACT
1 ACT
70442824 CGATGTTGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.26, G:0.09, T:0.37
Consensus pattern (16 bp):
ACTATATTCACTGATC
Found at i:70447707 original size:34 final size:34
Alignment explanation
Indices: 70447641--70447707 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
70447631 TCGAAAAATA
** *
70447641 TTAAGTTTTGTTTGAATGATGAATTTTAATGGAG
1 TTAAGTTCCGTTTGAATGATGAATTTCAATGGAG
*
70447675 TTAAGTTCCGTTTGAATGATGAATTTCGATGGA
1 TTAAGTTCCGTTTGAATGATGAATTTCAATGGA
70447708 TATATGTGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.28, C:0.04, G:0.24, T:0.43
Consensus pattern (34 bp):
TTAAGTTCCGTTTGAATGATGAATTTCAATGGAG
Found at i:70460248 original size:40 final size:40
Alignment explanation
Indices: 70460189--70460284 Score: 131
Period size: 40 Copynumber: 2.4 Consensus size: 40
70460179 ATCTCGATCT
* * *
70460189 CGCACACTAAGTGCCATATATAACCAAAATTAT-TCTAATA
1 CGCACACTAAGTGCTATATATAACCAAAACTATCTCGAA-A
* *
70460229 CGCACACTAAGTGCTATATATAGCCAAAGCTATCTCGAAA
1 CGCACACTAAGTGCTATATATAACCAAAACTATCTCGAAA
70460269 CGCACACTAAGTGCTA
1 CGCACACTAAGTGCTA
70460285 AACATAGTCG
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
40 46 0.92
41 4 0.08
ACGTcount: A:0.39, C:0.25, G:0.12, T:0.24
Consensus pattern (40 bp):
CGCACACTAAGTGCTATATATAACCAAAACTATCTCGAAA
Found at i:70462147 original size:48 final size:48
Alignment explanation
Indices: 70462085--70462245 Score: 182
Period size: 48 Copynumber: 3.4 Consensus size: 48
70462075 TAGCTGGGTT
* *
70462085 ATTGGCATCGATCTATGATCCCATGTAAGTCCATGTCT-AGGATATGGC
1 ATTGGCATCTATCTATGATCCCATGTAAGACCATGTCTGA-GATATGGC
* ** * **
70462133 ATTAGCATCTATCTACAATCCTATGTAAGACCATGTCTGAGACGTGGC
1 ATTGGCATCTATCTATGATCCCATGTAAGACCATGTCTGAGATATGGC
* * * *
70462181 ATTGGCATCAATATGTGATCCCATGTAAGACCATATCTGAGATATGGC
1 ATTGGCATCTATCTATGATCCCATGTAAGACCATGTCTGAGATATGGC
70462229 ATTGGCATCCTA-CTATG
1 ATTGGCAT-CTATCTATG
70462246 TGTATGAGAG
Statistics
Matches: 90, Mismatches: 21, Indels: 4
0.78 0.18 0.03
Matches are distributed among these distances:
48 87 0.97
49 3 0.03
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.30
Consensus pattern (48 bp):
ATTGGCATCTATCTATGATCCCATGTAAGACCATGTCTGAGATATGGC
Found at i:70468768 original size:20 final size:20
Alignment explanation
Indices: 70468735--70468787 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
70468725 GGAAGAATAA
70468735 AGAAATGAAAAAAAA-AAAG
1 AGAAATGAAAAAAAACAAAG
*
70468754 AGAATATGAAGAAAAACAAAG
1 AGAA-ATGAAAAAAAACAAAG
70468775 A-AAA-GAAAAAAAA
1 AGAAATGAAAAAAAA
70468788 AGTGTTCATT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 8 0.27
19 5 0.17
20 12 0.40
21 5 0.17
ACGTcount: A:0.77, C:0.02, G:0.15, T:0.06
Consensus pattern (20 bp):
AGAAATGAAAAAAAACAAAG
Found at i:70469983 original size:29 final size:29
Alignment explanation
Indices: 70469950--70470032 Score: 166
Period size: 29 Copynumber: 2.9 Consensus size: 29
70469940 GTGACGAGAT
70469950 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
70469979 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
70470008 TGGCACTAAGTGTGCATGCTGGAAA
1 TGGCACTAAGTGTGCATGCTGGAAA
70470033 AAATACGGCA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 54 1.00
ACGTcount: A:0.30, C:0.14, G:0.29, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:70470072 original size:59 final size:58
Alignment explanation
Indices: 70469946--70470081 Score: 159
Period size: 59 Copynumber: 2.3 Consensus size: 58
70469936 TACGGTGACG
* * *
70469946 AGAT-TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAA
1 AGATATGGCACTAAGTGTGCATGCTGGAAAAATACGGCACTAAGTGTGCATGCTCGAA
* **
70470003 ATATATGGCACTAAGTGTGCATGCTGGAAAAAATACGGCACTGGGTGTGCGA-GCTCGAA
1 AGATATGGCACTAAGTGTGCATGCTGG-AAAAATACGGCACTAAGTGTGC-ATGCTCGAA
* * *
70470062 GGGTATGGCACTATGTGTGC
1 AGATATGGCACTAAGTGTGC
70470082 GGGCTTAAAT
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
57 3 0.05
58 22 0.33
59 40 0.61
60 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.32, T:0.25
Consensus pattern (58 bp):
AGATATGGCACTAAGTGTGCATGCTGGAAAAATACGGCACTAAGTGTGCATGCTCGAA
Found at i:70476698 original size:21 final size:18
Alignment explanation
Indices: 70476660--70476712 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
70476650 GGAAGAATAA
70476660 AGAAATGAAAAAAAAAAG
1 AGAAATGAAAAAAAAAAG
70476678 AGAATATGAAGAAAAACAAAG
1 AGAA-ATGAA-AAAAA-AAAG
70476699 A-AAA-GAAAAAAAAA
1 AGAAATGAAAAAAAAA
70476713 GTGTTCATTC
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
16 2 0.06
17 5 0.16
18 7 0.22
19 6 0.19
20 7 0.22
21 5 0.16
ACGTcount: A:0.77, C:0.02, G:0.15, T:0.06
Consensus pattern (18 bp):
AGAAATGAAAAAAAAAAG
Found at i:70477891 original size:29 final size:29
Alignment explanation
Indices: 70477856--70477938 Score: 166
Period size: 29 Copynumber: 2.9 Consensus size: 29
70477846 GTGACGAGAT
70477856 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
70477885 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
70477914 TGGCACTAAGTGTGCATGCTGGAAA
1 TGGCACTAAGTGTGCATGCTGGAAA
70477939 AAATACGGCA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 54 1.00
ACGTcount: A:0.30, C:0.14, G:0.29, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:70477978 original size:59 final size:58
Alignment explanation
Indices: 70477852--70477987 Score: 159
Period size: 59 Copynumber: 2.3 Consensus size: 58
70477842 TACGGTGACG
* * *
70477852 AGAT-TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAA
1 AGATATGGCACTAAGTGTGCATGCTGGAAAAATACGGCACTAAGTGTGCATGCTCGAA
* **
70477909 ATATATGGCACTAAGTGTGCATGCTGGAAAAAATACGGCACTGGGTGTGCGA-GCTCGAA
1 AGATATGGCACTAAGTGTGCATGCTGG-AAAAATACGGCACTAAGTGTGC-ATGCTCGAA
* * *
70477968 GGGTATGGCACTATGTGTGC
1 AGATATGGCACTAAGTGTGC
70477988 GGGCTTAAAT
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
57 3 0.05
58 22 0.33
59 40 0.61
60 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.32, T:0.25
Consensus pattern (58 bp):
AGATATGGCACTAAGTGTGCATGCTGGAAAAATACGGCACTAAGTGTGCATGCTCGAA
Found at i:70500481 original size:40 final size:40
Alignment explanation
Indices: 70500415--70500581 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
70500405 AAATTGAATG
* * *
70500415 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
70500454 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
70500494 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
70500534 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
70500574 ATATCCGG
1 ATATCCGG
70500582 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:70508441 original size:40 final size:40
Alignment explanation
Indices: 70508375--70508541 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
70508365 AAATTGAATG
* * *
70508375 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
70508414 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
70508454 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
70508494 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
70508534 ATATCCGG
1 ATATCCGG
70508542 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:70510391 original size:6 final size:6
Alignment explanation
Indices: 70510380--70510413 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
70510370 AGTCTATTTG
* *
70510380 TTTTTA TTTTTA TTTTTA TGTTTA TTGTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
70510414 CTTAGACTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.15, C:0.00, G:0.06, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:70511413 original size:17 final size:17
Alignment explanation
Indices: 70511393--70511424 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
70511383 TAATAATTGA
70511393 AAAAAAAGA-AAGAAAG
1 AAAAAAAGAGAAGAAAG
70511409 AAAAAAAGAGAAGAAA
1 AAAAAAAGAGAAGAAA
70511425 ATCGAGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (17 bp):
AAAAAAAGAGAAGAAAG
Found at i:70513056 original size:14 final size:14
Alignment explanation
Indices: 70513037--70513066 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
70513027 ATTGCGTTCG
70513037 TAGTTAAATTAGAT
1 TAGTTAAATTAGAT
70513051 TAGTTAAATTAGAT
1 TAGTTAAATTAGAT
70513065 TA
1 TA
70513067 AAAACAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.43
Consensus pattern (14 bp):
TAGTTAAATTAGAT
Found at i:70516432 original size:20 final size:20
Alignment explanation
Indices: 70516395--70516434 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
70516385 TATATATATT
*
70516395 AAGAAAAACCATCGATACTA
1 AAGAAAAACCATCAATACTA
**
70516415 AAGAAAAAGGATCAATACTA
1 AAGAAAAACCATCAATACTA
70516435 TCAGGTATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.57, C:0.15, G:0.12, T:0.15
Consensus pattern (20 bp):
AAGAAAAACCATCAATACTA
Found at i:70524133 original size:40 final size:39
Alignment explanation
Indices: 70524022--70524172 Score: 142
Period size: 40 Copynumber: 3.8 Consensus size: 39
70524012 TTAATCACGT
* * *
70524022 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* * *
70524062 GCACGAATGCCTTCGGGCCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *** *
70524102 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *
70524142 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAT
70524173 CATTCAATTT
Statistics
Matches: 93, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
39 15 0.16
40 78 0.84
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
Found at i:70524156 original size:80 final size:79
Alignment explanation
Indices: 70524022--70524172 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
70524012 TTAATCACGT
*
70524022 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
70524087 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
70524102 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
70524165 CCGGATAT
64 CCGGATAT
70524173 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:70532064 original size:40 final size:40
Alignment explanation
Indices: 70532019--70532185 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
70532009 CGGAATATAA
70532019 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
70532059 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
70532099 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
70532139 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
70532178 CCGGATAT
1 CCGGATAT
70532186 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:70532169 original size:80 final size:79
Alignment explanation
Indices: 70532035--70532185 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
70532025 ATAATCACGT
*
70532035 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
70532100 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
70532115 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
70532178 CCGGATAT
64 CCGGATAT
70532186 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:70540061 original size:40 final size:40
Alignment explanation
Indices: 70540016--70540182 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
70540006 CGGAATATAA
70540016 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
70540056 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
70540096 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
70540136 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
70540175 CCGGATAT
1 CCGGATAT
70540183 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:70540166 original size:80 final size:79
Alignment explanation
Indices: 70540032--70540182 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
70540022 ATAATCACGT
*
70540032 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
70540097 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
70540112 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
70540175 CCGGATAT
64 CCGGATAT
70540183 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:70543197 original size:27 final size:27
Alignment explanation
Indices: 70543167--70543288 Score: 174
Period size: 27 Copynumber: 4.5 Consensus size: 27
70543157 TTTTGACCTT
*
70543167 ATAGGGTAAAATGATCGAAATACCCTC
1 ATAGGGTAAAATGACCGAAATACCCTC
* *
70543194 ATAGGGTAAAATGACAGAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCTC
* *
70543221 ATCGGGTAAAATGACCAAAATACCCTC
1 ATAGGGTAAAATGACCGAAATACCCTC
70543248 ATAGGGTAAAATGACCGAAATACCC-C
1 ATAGGGTAAAATGACCGAAATACCCTC
*
70543274 AGTAAGGTAAAATGA
1 A-TAGGGTAAAATGA
70543289 TAGATTTTTT
Statistics
Matches: 84, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
26 2 0.02
27 82 0.98
ACGTcount: A:0.43, C:0.20, G:0.19, T:0.18
Consensus pattern (27 bp):
ATAGGGTAAAATGACCGAAATACCCTC
Found at i:70543679 original size:18 final size:18
Alignment explanation
Indices: 70543635--70543690 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
70543625 GCTTGCATAT
*
70543635 TGCACTGATTACTGTTAC
1 TGCACTGATCACTGTTAC
* *
70543653 TGTATTGATCA-TGGTTAC
1 TGCACTGATCACT-GTTAC
* *
70543671 TGCACTGATTAATGTTAC
1 TGCACTGATCACTGTTAC
70543689 TG
1 TG
70543691 AAATGGGCTA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
17 1 0.03
18 28 0.93
19 1 0.03
ACGTcount: A:0.23, C:0.16, G:0.20, T:0.41
Consensus pattern (18 bp):
TGCACTGATCACTGTTAC
Found at i:70549058 original size:21 final size:21
Alignment explanation
Indices: 70549007--70549060 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
70548997 CAAAATGTGA
*
70549007 TGTCATGACATTGAGGGTCGG
1 TGTCATGACACTGAGGGTCGG
* *
70549028 TTTCGTGACACTGAGGGTCGG
1 TGTCATGACACTGAGGGTCGG
*
70549049 TGTCACGACACT
1 TGTCATGACACT
70549061 ACATCAAATC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.19, C:0.20, G:0.33, T:0.28
Consensus pattern (21 bp):
TGTCATGACACTGAGGGTCGG
Found at i:70550786 original size:14 final size:15
Alignment explanation
Indices: 70550762--70550793 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
70550752 ATTTTCTGTG
70550762 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
70550777 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
70550791 TTT
1 TTT
70550794 TTTGTGATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.25, C:0.00, G:0.19, T:0.56
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:70558810 original size:27 final size:27
Alignment explanation
Indices: 70558791--70558963 Score: 167
Period size: 27 Copynumber: 6.4 Consensus size: 27
70558781 ATTACCAAAG
* *
70558791 TACCCTCGATTTACAGAATTA-CTGATT
1 TACCCTCGATTTACAAAATTACCAG-TT
* * *
70558818 CACCCTCGATTTAGAAAATTA-CTGTT
1 TACCCTCGATTTACAAAATTACCAGTT
* * *
70558844 TCACCCTCGATTTATAGAATTACCATTT
1 T-ACCCTCGATTTACAAAATTACCAGTT
70558872 TACCCTCGATTTACAAAATTACC-GTTT
1 TACCCTCGATTTACAAAATTACCAG-TT
*
70558899 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCAGTT
* *
70558926 TACCCT-TAGTTTACAAAATTA-CTGTTT
1 TACCCTCGA-TTTACAAAATTACCAG-TT
70558953 TACCCTCGATT
1 TACCCTCGATT
70558964 GTGAAATTAC
Statistics
Matches: 123, Mismatches: 16, Indels: 14
0.80 0.10 0.09
Matches are distributed among these distances:
26 4 0.03
27 114 0.93
28 5 0.04
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.38
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCAGTT
Done.