Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chrUn_random
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: 10571689
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.28
Warning! 1662808 characters in sequence are not A, C, G, or T
File 18 of 30
Found at i:6293382 original size:13 final size:13
Alignment explanation
Indices: 6293364--6293389 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6293354 TTCTAGAAAA
6293364 TTTATAAAATCAT
1 TTTATAAAATCAT
6293377 TTTATAAAATCAT
1 TTTATAAAATCAT
6293390 AATTTCTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:6293998 original size:28 final size:29
Alignment explanation
Indices: 6293957--6294016 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
6293947 GTCTATGGGC
* *
6293957 AATTTTTTAATTTT-TGGGGTAAAAATGT
1 AATTTTTGAATTTTAGGGGGTAAAAATGT
* *
6293985 AATTTTTGACTTTTACGGGGGTAAAAGTGT
1 AATTTTTGAATTTTA-GGGGGTAAAAATGT
6294015 AA
1 AA
6294017 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.03, G:0.22, T:0.43
Consensus pattern (29 bp):
AATTTTTGAATTTTAGGGGGTAAAAATGT
Found at i:6294533 original size:20 final size:20
Alignment explanation
Indices: 6294498--6294537 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
6294488 CGGGCATAAG
*
6294498 AGAGCAAAAAGGAAAGCAAAA
1 AGAGCAAAAAGAAAAG-AAAA
6294519 AGAGC-AAAAGAAAAGAAAA
1 AGAGCAAAAAGAAAAGAAAA
6294538 GAAAGTCGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 9 0.50
21 5 0.28
ACGTcount: A:0.70, C:0.07, G:0.23, T:0.00
Consensus pattern (20 bp):
AGAGCAAAAAGAAAAGAAAA
Found at i:6294808 original size:35 final size:34
Alignment explanation
Indices: 6294769--6294889 Score: 122
Period size: 34 Copynumber: 3.5 Consensus size: 34
6294759 AGGGAGGAAG
6294769 GAGCAGCTTGGCTGCTGATTTTTAGAGGACA-AATA
1 GAGCAGCTTGGCTGCTGATTTTT-GAGGA-AGAATA
* * *
6294804 GAGCAGCTTAGTTGTTGATTTTTGAGGAAGAATA
1 GAGCAGCTTGGCTGCTGATTTTTGAGGAAGAATA
* **
6294838 GAGCAGCTTGGCTACTGA-TTTTGAGGTTG-ATA
1 GAGCAGCTTGGCTGCTGATTTTTGAGGAAGAATA
*
6294870 TGAGTAGCTTTGGCTGCTGA
1 -GAGCAGC-TTGGCTGCTGA
6294890 AAATTTGGTT
Statistics
Matches: 72, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
32 3 0.04
33 16 0.22
34 33 0.46
35 20 0.28
ACGTcount: A:0.25, C:0.12, G:0.31, T:0.33
Consensus pattern (34 bp):
GAGCAGCTTGGCTGCTGATTTTTGAGGAAGAATA
Found at i:6295050 original size:5 final size:5
Alignment explanation
Indices: 6295040--6295075 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
6295030 AAAAAGGGAG
6295040 AAAGA AAAGA AAAGA AAA-A AAAGA AAAGA AAA-A AAA
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAA
6295076 ATATAATAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
4 8 0.27
5 22 0.73
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:6295062 original size:19 final size:18
Alignment explanation
Indices: 6295040--6295076 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
6295030 AAAAAGGGAG
6295040 AAAGAAAAGAAAAGAAAAA
1 AAAGAAAAGAAAA-AAAAA
6295059 AAAGAAAAGAAAAAAAAA
1 AAAGAAAAGAAAAAAAAA
6295077 TATAATAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (18 bp):
AAAGAAAAGAAAAAAAAA
Found at i:6295075 original size:14 final size:14
Alignment explanation
Indices: 6295019--6295075 Score: 71
Period size: 14 Copynumber: 4.1 Consensus size: 14
6295009 CTTGCGGGAG
6295019 AGAAAAGAAAGAAAA
1 AGAAAAGAAA-AAAA
** *
6295034 AG-GGAGAAAGAAA
1 AGAAAAGAAAAAAA
6295047 AGAAAAGAAAAAAA
1 AGAAAAGAAAAAAA
6295061 AGAAAAGAAAAAAA
1 AGAAAAGAAAAAAA
6295075 A
1 A
6295076 ATATAATAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
13 5 0.14
14 28 0.80
15 2 0.06
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (14 bp):
AGAAAAGAAAAAAA
Found at i:6317338 original size:11 final size:12
Alignment explanation
Indices: 6317322--6317365 Score: 58
Period size: 11 Copynumber: 3.9 Consensus size: 12
6317312 TAAAATGCCA
6317322 TCAC-AATTCTG
1 TCACAAATTCTG
6317333 TCACAAA-TCTG
1 TCACAAATTCTG
*
6317344 TCACTAATT-TG
1 TCACAAATTCTG
6317355 TCACAAATTCT
1 TCACAAATTCT
6317366 CAAAAACAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
11 24 0.86
12 4 0.14
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.36
Consensus pattern (12 bp):
TCACAAATTCTG
Found at i:6328635 original size:20 final size:20
Alignment explanation
Indices: 6328610--6328647 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
6328600 TGAGAGTATG
6328610 TGGATTGTATGTTAAATGAT
1 TGGATTGTATGTTAAATGAT
6328630 TGGATTGTATGTTAAATG
1 TGGATTGTATGTTAAATG
6328648 GTTGTGAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.45
Consensus pattern (20 bp):
TGGATTGTATGTTAAATGAT
Found at i:6336023 original size:21 final size:21
Alignment explanation
Indices: 6335983--6336028 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
6335973 AGAGGTGAAA
*
6335983 TCTTGATACCTTGAAGCTTGG
1 TCTTGATACCTTGAAGCTTGC
*
6336004 TCTTGATA-CTTTAAGACTTGC
1 TCTTGATACCTTGAAG-CTTGC
6336025 TCTT
1 TCTT
6336029 TGAAACTTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.20, C:0.20, G:0.17, T:0.43
Consensus pattern (21 bp):
TCTTGATACCTTGAAGCTTGC
Found at i:6340163 original size:15 final size:15
Alignment explanation
Indices: 6340119--6340164 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 15
6340109 AGATCAGAGA
*
6340119 TTTTGATTTTAAAGC
1 TTTTGATTTTAAAGT
*
6340134 TTTGGATTTTAAAGT
1 TTTTGATTTTAAAGT
*
6340149 TTTTTATTTTAAAGT
1 TTTTGATTTTAAAGT
6340164 T
1 T
6340165 GTTTTAAGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.26, C:0.02, G:0.13, T:0.59
Consensus pattern (15 bp):
TTTTGATTTTAAAGT
Found at i:6340224 original size:14 final size:14
Alignment explanation
Indices: 6340199--6340234 Score: 63
Period size: 14 Copynumber: 2.5 Consensus size: 14
6340189 TGCGTGGCCC
6340199 AAGTTAAGTTAAGTT
1 AAGTT-AGTTAAGTT
6340214 AAGTTAGTTAAGTT
1 AAGTTAGTTAAGTT
6340228 AAGTTAG
1 AAGTTAG
6340235 GTTAGGTAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 16 0.76
15 5 0.24
ACGTcount: A:0.39, C:0.00, G:0.22, T:0.39
Consensus pattern (14 bp):
AAGTTAGTTAAGTT
Found at i:6340224 original size:19 final size:19
Alignment explanation
Indices: 6340200--6340239 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
6340190 GCGTGGCCCA
6340200 AGTTAAGTTAAGTTAAGTT
1 AGTTAAGTTAAGTTAAGTT
*
6340219 AGTTAAGTTAAGTTAGGTT
1 AGTTAAGTTAAGTTAAGTT
6340238 AG
1 AG
6340240 GTAGAATAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.25, T:0.40
Consensus pattern (19 bp):
AGTTAAGTTAAGTTAAGTT
Found at i:6340241 original size:5 final size:5
Alignment explanation
Indices: 6340199--6340238 Score: 64
Period size: 5 Copynumber: 8.2 Consensus size: 5
6340189 TGCGTGGCCC
*
6340199 AAGTT AAGTT AAGTT AAGTT -AGTT AAGTT AAGTT AGGTT A
1 AAGTT AAGTT AAGTT AAGTT AAGTT AAGTT AAGTT AAGTT A
6340239 GGTAGAATAG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
4 4 0.12
5 29 0.88
ACGTcount: A:0.38, C:0.00, G:0.23, T:0.40
Consensus pattern (5 bp):
AAGTT
Found at i:6345665 original size:13 final size:13
Alignment explanation
Indices: 6345647--6345671 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6345637 AGAGAAATTG
6345647 TGATTTTATAAAA
1 TGATTTTATAAAA
6345660 TGATTTTATAAA
1 TGATTTTATAAA
6345672 TTTTCTAGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:6347241 original size:12 final size:12
Alignment explanation
Indices: 6347224--6347248 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6347214 GCCTTTTGAA
6347224 AATGTATGTATG
1 AATGTATGTATG
6347236 AATGTATGTATG
1 AATGTATGTATG
6347248 A
1 A
6347249 TATGACATGT
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:0.36, C:0.00, G:0.24, T:0.40
Consensus pattern (12 bp):
AATGTATGTATG
Found at i:6366975 original size:23 final size:23
Alignment explanation
Indices: 6366949--6367008 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
6366939 TATACATATA
* * **
6366949 CCCATCATTATCATGCACATTAT
1 CCCATCATCATCATACACACCAT
6366972 CCCATCATCATCATACACACCAT
1 CCCATCATCATCATACACACCAT
*
6366995 CACATCATCATCAT
1 CCCATCATCATCAT
6367009 CACCAGCTCA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.33, C:0.37, G:0.02, T:0.28
Consensus pattern (23 bp):
CCCATCATCATCATACACACCAT
Found at i:6367092 original size:43 final size:43
Alignment explanation
Indices: 6367022--6367123 Score: 125
Period size: 43 Copynumber: 2.4 Consensus size: 43
6367012 CAGCTCATGT
* * ** *
6367022 GCACTCCCTACTCGCACATGATTGGGTCATCAC-CGGGTTATGC
1 GCACTCCCTACTCGCAAATAACCGGGTCATC-CTCGGCTTATGC
*
6367065 GCACTCCCTACTCGCAAATAACCGGGTCATCCTTGGCTTATGC
1 GCACTCCCTACTCGCAAATAACCGGGTCATCCTCGGCTTATGC
*
6367108 GCACTCTCTACTCGCA
1 GCACTCCCTACTCGCA
6367124 CATAGCCGAA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 1 0.02
43 50 0.98
ACGTcount: A:0.20, C:0.35, G:0.20, T:0.25
Consensus pattern (43 bp):
GCACTCCCTACTCGCAAATAACCGGGTCATCCTCGGCTTATGC
Found at i:6373690 original size:144 final size:143
Alignment explanation
Indices: 6373430--6373716 Score: 565
Period size: 144 Copynumber: 2.0 Consensus size: 143
6373420 TTGTGTCTCA
6373430 AATTTATTTTCTCAAATTCACAAGCTAATTCTTCAAAAACATTTTCCAATTCATTAAATGAATAT
1 AATTTATTTTCTCAAATTCACAAGCTAATTCTTCAAAAACATTTTCCAATTCATTAAATGAATAT
6373495 GAGATGGGTTCACAAAGTAAGGAGTTTACCTTGGATTCTTGGATTGAGGATTAGAATTTGTTTGA
66 GAGATGGGTTCACAAAGTAAGGAGTTTACCTTGGATTCTTGGATTGAGGATTAGAATTTGTTTGA
6373560 CTCCTCTTCTTTT
131 CTCCTCTTCTTTT
6373573 NAATTTATTTTCTCAAATTCACAAGCTAATTCTTCAAAAACATTTTCCAATTCATTAAATGAATA
1 -AATTTATTTTCTCAAATTCACAAGCTAATTCTTCAAAAACATTTTCCAATTCATTAAATGAATA
6373638 TGAGATGGGTTCACAAAGTAAGGAGTTTACCTTGGATTCTTGGATTGAGGATTAGAATTTGTTTG
65 TGAGATGGGTTCACAAAGTAAGGAGTTTACCTTGGATTCTTGGATTGAGGATTAGAATTTGTTTG
6373703 ACTCCTCTTCTTTT
130 ACTCCTCTTCTTTT
6373717 GTTGCCTTGT
Statistics
Matches: 143, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
144 143 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.40
Consensus pattern (143 bp):
AATTTATTTTCTCAAATTCACAAGCTAATTCTTCAAAAACATTTTCCAATTCATTAAATGAATAT
GAGATGGGTTCACAAAGTAAGGAGTTTACCTTGGATTCTTGGATTGAGGATTAGAATTTGTTTGA
CTCCTCTTCTTTT
Found at i:6374046 original size:24 final size:26
Alignment explanation
Indices: 6374014--6374064 Score: 88
Period size: 24 Copynumber: 2.0 Consensus size: 26
6374004 AAGAACTTAA
6374014 TTTTATTTATCCAAT-AA-GTAGTTC
1 TTTTATTTATCCAATAAATGTAGTTC
6374038 TTTTATTTATCCAATAAATGTAGTTC
1 TTTTATTTATCCAATAAATGTAGTTC
6374064 T
1 T
6374065 CACCATTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 15 0.60
25 2 0.08
26 8 0.32
ACGTcount: A:0.29, C:0.12, G:0.08, T:0.51
Consensus pattern (26 bp):
TTTTATTTATCCAATAAATGTAGTTC
Found at i:6375824 original size:36 final size:35
Alignment explanation
Indices: 6375767--6375841 Score: 91
Period size: 36 Copynumber: 2.1 Consensus size: 35
6375757 TGAAACTACT
6375767 TTTTCAAGACTCAAGAATAACC-TTTACAACCAAGTC
1 TTTTCAAGACTCAAGAATAACCTTTTAC-ACCAA-TC
* *
6375803 TTTTCAAGACT-TAGACTTAACCTTTTACACCAATC
1 TTTTCAAGACTCAAGA-ATAACCTTTTACACCAATC
6375838 TTTT
1 TTTT
6375842 TATGGATCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
35 9 0.26
36 21 0.60
37 5 0.14
ACGTcount: A:0.33, C:0.24, G:0.07, T:0.36
Consensus pattern (35 bp):
TTTTCAAGACTCAAGAATAACCTTTTACACCAATC
Found at i:6378509 original size:30 final size:29
Alignment explanation
Indices: 6378473--6378530 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
6378463 TAATAAACTT
6378473 TAATATATTTATATTATA-TTATATTATATG
1 TAATATATTTATATTA-AGTT-TATTATATG
*
6378503 TAATATATTTATGTTAAGTTTATTATAT
1 TAATATATTTATATTAAGTTTATTATAT
6378531 AAACTATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 9 0.35
30 17 0.65
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (29 bp):
TAATATATTTATATTAAGTTTATTATATG
Found at i:6380021 original size:2 final size:2
Alignment explanation
Indices: 6380016--6380050 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
6380006 NNNNNNNNNN
6380016 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6380051 TCCATAGCTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6404811 original size:21 final size:21
Alignment explanation
Indices: 6404785--6404826 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
6404775 AGGTAGATCA
6404785 CAAGCTAGAATTGAAAAATCT
1 CAAGCTAGAATTGAAAAATCT
6404806 CAAGCTAGAATTGAAAAATCT
1 CAAGCTAGAATTGAAAAATCT
6404827 TACCTTTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.14, G:0.14, T:0.24
Consensus pattern (21 bp):
CAAGCTAGAATTGAAAAATCT
Found at i:6414579 original size:18 final size:18
Alignment explanation
Indices: 6414556--6414593 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
6414546 CATAACTTCT
6414556 AAAATGGTTTAAAGGACG
1 AAAATGGTTTAAAGGACG
6414574 AAAATGGTTTAAAGGACG
1 AAAATGGTTTAAAGGACG
6414592 AA
1 AA
6414594 CATTCTTAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.47, C:0.05, G:0.26, T:0.21
Consensus pattern (18 bp):
AAAATGGTTTAAAGGACG
Found at i:6415342 original size:122 final size:121
Alignment explanation
Indices: 6415124--6415368 Score: 481
Period size: 122 Copynumber: 2.0 Consensus size: 121
6415114 ATAAAACAAT
6415124 ATTTATAGAACTTTGCGTAAATAATTTTTGTAGCGTAAAAGCAAAATAAATCCATACATACAGTA
1 ATTTATAGAACTTTGCGTAAATAATTTTTGTAGCGTAAAAGCAAAATAAATCCATACATACAGTA
6415189 ACACAGATAACCAGAGTATGTAATTTAATTAACAATGACGTGTGGGCCCCCAAATG
66 ACACAGATAACCAGAGTATGTAATTTAATTAACAATGACGTGTGGGCCCCCAAATG
6415245 ANTTTATAGAACTTTGCGTAAATAATTTTTGTAGCGTAAAAGCAAAATAAATCCATACATACAGT
1 A-TTTATAGAACTTTGCGTAAATAATTTTTGTAGCGTAAAAGCAAAATAAATCCATACATACAGT
6415310 AACACAGATAACCAGAGTATGTAATTTAATTAACAATGACGTGTGGGCCCCCAAATG
65 AACACAGATAACCAGAGTATGTAATTTAATTAACAATGACGTGTGGGCCCCCAAATG
6415367 AT
1 AT
6415369 CAAAGGTAAC
Statistics
Matches: 123, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
121 2 0.02
122 121 0.98
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (121 bp):
ATTTATAGAACTTTGCGTAAATAATTTTTGTAGCGTAAAAGCAAAATAAATCCATACATACAGTA
ACACAGATAACCAGAGTATGTAATTTAATTAACAATGACGTGTGGGCCCCCAAATG
Found at i:6416297 original size:20 final size:20
Alignment explanation
Indices: 6416252--6416289 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6416242 TTTTCGCCCC
*
6416252 ATTTGACTTGTTAGAGTATA
1 ATTTGACTTATTAGAGTATA
*
6416272 ATTTGACTTATTGGAGTA
1 ATTTGACTTATTAGAGTA
6416290 AGATTTGAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.05, G:0.21, T:0.45
Consensus pattern (20 bp):
ATTTGACTTATTAGAGTATA
Found at i:6417693 original size:19 final size:19
Alignment explanation
Indices: 6417669--6417706 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
6417659 ACTTCTAAAC
6417669 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
*
6417688 CTCAAATCATAGTCCAATA
1 CTCAAATCATACTCCAATA
6417707 AGTCAAATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.03, T:0.26
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:6428247 original size:13 final size:13
Alignment explanation
Indices: 6428229--6428253 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6428219 TTCTAGAAAA
6428229 TTTATAAAATCAT
1 TTTATAAAATCAT
6428242 TTTATAAAATCA
1 TTTATAAAATCA
6428254 CAATTTCTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:6429444 original size:27 final size:28
Alignment explanation
Indices: 6429399--6429452 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
6429389 ATGCTCTGGG
*
6429399 GGTGCAAAATTATC-GTTTTGCCCCCAC
1 GGTGCAAAATTATCATTTTTGCCCCCAC
6429426 GGTGACAAAATTA-CATTTTTGCCCCCA
1 GGTG-CAAAATTATCATTTTTGCCCCCA
6429453 AAACTGAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 5 0.21
28 19 0.79
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.30
Consensus pattern (28 bp):
GGTGCAAAATTATCATTTTTGCCCCCAC
Found at i:6429655 original size:19 final size:19
Alignment explanation
Indices: 6429631--6429668 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
6429621 CTGCCAAACC
* *
6429631 CTCAAATTATACTGCAATA
1 CTCAAATCATACTCCAATA
6429650 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
6429669 AGTTAAATAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.42, C:0.26, G:0.03, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:6433490 original size:15 final size:15
Alignment explanation
Indices: 6433470--6433515 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
6433460 TTCTTAAAAC
6433470 AACTTTAAAACCAAA
1 AACTTTAAAACCAAA
6433485 AACTTTAAAATCC-AA
1 AACTTTAAAA-CCAAA
* *
6433500 AGCTTTAAAATCAAA
1 AACTTTAAAACCAAA
6433515 A
1 A
6433516 TCTCTTATCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 1 0.04
15 24 0.89
16 2 0.07
ACGTcount: A:0.57, C:0.17, G:0.02, T:0.24
Consensus pattern (15 bp):
AACTTTAAAACCAAA
Found at i:6436118 original size:19 final size:19
Alignment explanation
Indices: 6436094--6436131 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
6436084 CTGCCAAAAC
*
6436094 CTCAAATTATACTCCAATA
1 CTCAAATCATACTCCAATA
6436113 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
6436132 AGTTAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:6439815 original size:43 final size:43
Alignment explanation
Indices: 6439766--6439889 Score: 142
Period size: 43 Copynumber: 2.9 Consensus size: 43
6439756 ATTGACTCGG
*
6439766 CTATGTGCGAGTAAGGAGTGCGCATAAGCCGATGATGACCCAA
1 CTATGTGCGAGTAGGGAGTGCGCATAAGCCGATGATGACCCAA
* * * * *
6439809 TTATGTGCAAGTAGGGAGTGCGCAGAA-CCCAGTGATGACCCAG
1 CTATGTGCGAGTAGGGAGTGCGCATAAGCCGA-TGATGACCCAA
* * * *
6439852 CCATGTGCGAGTAGGGAGTGTGCATGAGCTGATGATGA
1 CTATGTGCGAGTAGGGAGTGCGCATAAGCCGATGATGA
6439890 TGGGATGGTG
Statistics
Matches: 65, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
42 3 0.05
43 60 0.92
44 2 0.03
ACGTcount: A:0.27, C:0.19, G:0.34, T:0.20
Consensus pattern (43 bp):
CTATGTGCGAGTAGGGAGTGCGCATAAGCCGATGATGACCCAA
Found at i:6439903 original size:28 final size:26
Alignment explanation
Indices: 6439869--6439934 Score: 93
Period size: 23 Copynumber: 2.6 Consensus size: 26
6439859 CGAGTAGGGA
6439869 GTGTGCATGAGCTGATGATGATGGGATG
1 GTGTGCATGA--TGATGATGATGGGATG
6439897 GTGTGC---ATGATGATGATGGGATG
1 GTGTGCATGATGATGATGATGGGATG
6439920 GTGTGCATGATGATG
1 GTGTGCATGATGATG
6439935 TTGGGTATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
23 22 0.63
25 1 0.03
26 6 0.17
28 6 0.17
ACGTcount: A:0.21, C:0.06, G:0.42, T:0.30
Consensus pattern (26 bp):
GTGTGCATGATGATGATGATGGGATG
Found at i:6439911 original size:23 final size:23
Alignment explanation
Indices: 6439881--6439939 Score: 109
Period size: 23 Copynumber: 2.6 Consensus size: 23
6439871 GTGCATGAGC
6439881 TGATGATGATGGGATGGTGTGCA
1 TGATGATGATGGGATGGTGTGCA
6439904 TGATGATGATGGGATGGTGTGCA
1 TGATGATGATGGGATGGTGTGCA
*
6439927 TGATGATGTTGGG
1 TGATGATGATGGG
6439940 TATATATAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.20, C:0.03, G:0.44, T:0.32
Consensus pattern (23 bp):
TGATGATGATGGGATGGTGTGCA
Found at i:6441239 original size:2 final size:2
Alignment explanation
Indices: 6441232--6441257 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6441222 AAAAGACATA
6441232 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
6441258 TAGTAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6453221 original size:19 final size:19
Alignment explanation
Indices: 6453197--6453234 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
6453187 CCATTTGACT
6453197 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
6453216 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
6453235 GTTTAGAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATGATTTGAG
Found at i:6459104 original size:27 final size:27
Alignment explanation
Indices: 6459074--6459147 Score: 114
Period size: 27 Copynumber: 2.7 Consensus size: 27
6459064 CACCCGGTAG
*
6459074 AGGCAAAAACAATCAAAGATG-AGATAA
1 AGGCAAAAACAACCAAAGATGCA-ATAA
*
6459101 AGGCAAAAACAACCAAAGATGCAATAG
1 AGGCAAAAACAACCAAAGATGCAATAA
6459128 AGGCAAAAACAACCAAAGAT
1 AGGCAAAAACAACCAAAGAT
6459148 CAACGGTTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
27 43 0.98
28 1 0.02
ACGTcount: A:0.58, C:0.16, G:0.18, T:0.08
Consensus pattern (27 bp):
AGGCAAAAACAACCAAAGATGCAATAA
Found at i:6460621 original size:20 final size:20
Alignment explanation
Indices: 6460583--6460633 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
6460573 GTCGACGAGG
**
6460583 AAGAGAGAGAAAAGGAAGGAA
1 AAGAGAGA-AAAAAAAAGGAA
6460604 AAGAGAGAAAAAAAAAGGAA
1 AAGAGAGAAAAAAAAAGGAA
6460624 AAGAGAGAAA
1 AAGAGAGAAA
6460634 GAGAGGGGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 20 0.71
21 8 0.29
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (20 bp):
AAGAGAGAAAAAAAAAGGAA
Found at i:6460717 original size:67 final size:70
Alignment explanation
Indices: 6460554--6460758 Score: 224
Period size: 75 Copynumber: 2.9 Consensus size: 70
6460544 AAGAAAAAAA
* *
6460554 AGAAAGAGAGAAGGAAGACGTCGACGAGGAAGAGAGAGA-AAAGGAAGGAAAAGAGAGAAAAAAA
1 AGAAAGAGAGAGGGAAGACGCCGACGAGGAAGAGAGAGAGAAA-GAAGGAAAAGAGAG--AAAAA
6460618 AAGGAAAAGAG
63 AAGG---AGAG
* * *
6460629 AGAAAGAGAGGGGGAAGACGCCGGCGAGGAAGAGAGAGAGAAAGAAAGAAAAGAGAGAAAAAAAG
1 AGAAAGAGAGAGGGAAGACGCCGACGAGGAAGAGAGAGAGAAAGAAGGAAAAGAGAGAAAAAAAG
6460694 G-GAG
66 GAGAG
* * * *
6460698 ATAAA-A-AGAGGGAAGACGCCAACGACGAAGAGAGAGAGAATA-AAGGAAAAAAGA-AAAAAAA
1 AGAAAGAGAGAGGGAAGACGCCGACGAGGAAGAGAGAGAGAA-AGAAGGAAAAGAGAGAAAAAAA
6460759 TAGAAGGGGA
Statistics
Matches: 116, Mismatches: 12, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
66 7 0.06
67 40 0.34
68 2 0.02
69 7 0.06
73 9 0.08
75 48 0.41
76 3 0.03
ACGTcount: A:0.58, C:0.06, G:0.35, T:0.01
Consensus pattern (70 bp):
AGAAAGAGAGAGGGAAGACGCCGACGAGGAAGAGAGAGAGAAAGAAGGAAAAGAGAGAAAAAAAG
GAGAG
Found at i:6460806 original size:28 final size:28
Alignment explanation
Indices: 6460775--6460833 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
6460765 GGGAAGGAAA
*
6460775 GAAAGCCAAAAAGAGAGAAAGAAAGAAG
1 GAAAGCAAAAAAGAGAGAAAGAAAGAAG
* * *
6460803 GAAAGGAAAAAAGAGAGAGAGAATGAAG
1 GAAAGCAAAAAAGAGAGAAAGAAAGAAG
6460831 GAA
1 GAA
6460834 GAAAAGTAGG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.63, C:0.03, G:0.32, T:0.02
Consensus pattern (28 bp):
GAAAGCAAAAAAGAGAGAAAGAAAGAAG
Found at i:6460822 original size:32 final size:34
Alignment explanation
Indices: 6460786--6460855 Score: 90
Period size: 32 Copynumber: 2.1 Consensus size: 34
6460776 AAAGCCAAAA
*
6460786 AGAGAGAAAGAAAGAAG-GAA-AGGAAAAAAGAG
1 AGAGAGAAAGAAAGAAGAAAAGAGGAAAAAAGAG
* *
6460818 AGAGAGAATGAAGGAAGAAAAGTAGGAAAAAAGAG
1 AGAGAGAAAGAAAGAAGAAAAG-AGGAAAAAAGAG
6460853 AGA
1 AGA
6460856 AAACGAAGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
32 15 0.47
33 2 0.06
35 15 0.47
ACGTcount: A:0.63, C:0.00, G:0.34, T:0.03
Consensus pattern (34 bp):
AGAGAGAAAGAAAGAAGAAAAGAGGAAAAAAGAG
Found at i:6471302 original size:2 final size:2
Alignment explanation
Indices: 6471291--6471459 Score: 218
Period size: 2 Copynumber: 85.5 Consensus size: 2
6471281 GGATGTATTA
6471291 AT AT -T AT 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 AT AT AT AT
* ** ** *
6471332 AT AT AT AT AT AT AT AT AT AT AT AT AT AN NN NN NT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
6471374 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
6471416 AT AT AT AG AT AT AT AT AT ACT -T AT AT AC AT AT TT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT
6471457 AT A
1 AT A
6471460 ACAGTCTATG
Statistics
Matches: 151, Mismatches: 12, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
1 3 0.02
2 147 0.97
3 1 0.01
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.47
Consensus pattern (2 bp):
AT
Found at i:6472231 original size:36 final size:35
Alignment explanation
Indices: 6472190--6472257 Score: 109
Period size: 36 Copynumber: 1.9 Consensus size: 35
6472180 CCTGGTTAAA
* *
6472190 ACACTGAGCAGCACTACACTCCTTCACACACAAAAT
1 ACACTGAGAAACACTACACTCCTTCA-ACACAAAAT
6472226 ACACTGAGAAACACTACACTCCTTCAACACAA
1 ACACTGAGAAACACTACACTCCTTCAACACAA
6472258 TATATAGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 6 0.20
36 24 0.80
ACGTcount: A:0.41, C:0.35, G:0.07, T:0.16
Consensus pattern (35 bp):
ACACTGAGAAACACTACACTCCTTCAACACAAAAT
Found at i:6472653 original size:35 final size:35
Alignment explanation
Indices: 6472602--6472697 Score: 111
Period size: 35 Copynumber: 2.7 Consensus size: 35
6472592 TGTTGTACAG
* *
6472602 AGAACAACTACAACAAGTGAAGTGCTACTTCACGC
1 AGAACAACTAAAACAAGTGAAGTACTACTTCACGC
* * * * *
6472637 AGAATAACTAGAACAAGTAAAGCACTACTTCATGC
1 AGAACAACTAAAACAAGTGAAGTACTACTTCACGC
* *
6472672 ATAACAATTAAAACAAGTGAAGTACT
1 AGAACAACTAAAACAAGTGAAGTACT
6472698 GCTTAAAGCA
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
35 49 1.00
ACGTcount: A:0.46, C:0.20, G:0.15, T:0.20
Consensus pattern (35 bp):
AGAACAACTAAAACAAGTGAAGTACTACTTCACGC
Found at i:6472716 original size:35 final size:35
Alignment explanation
Indices: 6472613--6472724 Score: 107
Period size: 35 Copynumber: 3.2 Consensus size: 35
6472603 GAACAACTAC
* * * * *
6472613 AACAAGTGAAGTGCTACTTCACGCAGAATAACTAG
1 AACAAGTGAAGTACTACTTCAAGCAAAATAATTAA
* * * * *
6472648 AACAAGTAAAGCACTACTTCATGCATAACAATTAA
1 AACAAGTGAAGTACTACTTCAAGCAAAATAATTAA
* *
6472683 AACAAGTGAAGTACTGCTTAAAGCAAAATAATTAA
1 AACAAGTGAAGTACTACTTCAAGCAAAATAATTAA
*
6472718 AATAAGT
1 AACAAGT
6472725 AAAGCATTAC
Statistics
Matches: 61, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
35 61 1.00
ACGTcount: A:0.47, C:0.16, G:0.14, T:0.22
Consensus pattern (35 bp):
AACAAGTGAAGTACTACTTCAAGCAAAATAATTAA
Found at i:6472780 original size:18 final size:18
Alignment explanation
Indices: 6472743--6472781 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
6472733 ACACCATATG
*
6472743 GAACAACTAATACAAGTA
1 GAACAACTAATACAAATA
* *
6472761 GAACAACTATTTCAAATA
1 GAACAACTAATACAAATA
6472779 GAA
1 GAA
6472782 TAACCACTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.54, C:0.15, G:0.10, T:0.21
Consensus pattern (18 bp):
GAACAACTAATACAAATA
Found at i:6487107 original size:11 final size:11
Alignment explanation
Indices: 6487091--6487116 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
6487081 CAAATAAATA
6487091 AAATAATTAAT
1 AAATAATTAAT
6487102 AAATAATTAAT
1 AAATAATTAAT
6487113 AAAT
1 AAAT
6487117 TAAAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
AAATAATTAAT
Found at i:6493760 original size:46 final size:46
Alignment explanation
Indices: 6493710--6493801 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
6493700 CTTAATTATT
*
6493710 GCAAGCCATAAAAATTCTTGGACTTTCAGGGATAATAAACCTCCAA
1 GCAAGCCATAAAAATTCTTGGACTTTCAAGGATAATAAACCTCCAA
6493756 GCAAGCCATAAAAATTCTTGGACTTTCAAGGATAATAAACCTCCAA
1 GCAAGCCATAAAAATTCTTGGACTTTCAAGGATAATAAACCTCCAA
6493802 ATTTATGCAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.40, C:0.22, G:0.14, T:0.24
Consensus pattern (46 bp):
GCAAGCCATAAAAATTCTTGGACTTTCAAGGATAATAAACCTCCAA
Found at i:6501409 original size:21 final size:22
Alignment explanation
Indices: 6501385--6501432 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
6501375 TAAGTCTTCA
6501385 ATTTTCAATTATAATT-TAATT
1 ATTTTCAATTATAATTATAATT
* **
6501406 ATTTTTAATTATTTTTATAATT
1 ATTTTCAATTATAATTATAATT
6501428 ATTTT
1 ATTTT
6501433 ATTTTTTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (22 bp):
ATTTTCAATTATAATTATAATT
Found at i:6501414 original size:10 final size:10
Alignment explanation
Indices: 6501385--6501432 Score: 51
Period size: 11 Copynumber: 4.5 Consensus size: 10
6501375 TAAGTCTTCA
*
6501385 ATTTTCAATT
1 ATTTTTAATT
*
6501395 ATAATTTAATT
1 AT-TTTTAATT
6501406 ATTTTTAATT
1 ATTTTTAATT
6501416 ATTTTTATAATT
1 A-TTTT-TAATT
6501428 ATTTT
1 ATTTT
6501433 ATTTTTTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
10 10 0.31
11 16 0.50
12 6 0.19
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (10 bp):
ATTTTTAATT
Found at i:6501428 original size:12 final size:11
Alignment explanation
Indices: 6501399--6501432 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 11
6501389 TCAATTATAA
6501399 TTTAATTA-TT
1 TTTAATTATTT
6501409 TTTAATTATTT
1 TTTAATTATTT
6501420 TTATAATTATTT
1 TT-TAATTATTT
6501432 T
1 T
6501433 ATTTTTTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 8 0.36
11 4 0.18
12 10 0.45
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTTAATTATTT
Found at i:6501449 original size:20 final size:20
Alignment explanation
Indices: 6501401--6501458 Score: 73
Period size: 20 Copynumber: 2.8 Consensus size: 20
6501391 AATTATAATT
*
6501401 TAATTATTTTTAATTATTTTTA
1 TAATTA-TTTTAATT-TTTTAA
6501423 TAATTATTTT-ATTTTTTAA
1 TAATTATTTTAATTTTTTAA
6501442 TGAATTATTTTAATTTT
1 T-AATTATTTTAATTTT
6501459 ATGTTATTCC
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
19 6 0.18
20 12 0.36
21 9 0.27
22 6 0.18
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (20 bp):
TAATTATTTTAATTTTTTAA
Found at i:6501466 original size:31 final size:33
Alignment explanation
Indices: 6501412--6501475 Score: 78
Period size: 32 Copynumber: 2.0 Consensus size: 33
6501402 AATTATTTTT
* *
6501412 AATTATTTTTATAATTATTTTATT-TTTTAATG
1 AATTATTTTAATAATTATGTTATTCTTTTAATG
*
6501444 AATTATTTTAAT-TTTATGTTATTCCTTTTAAT
1 AATTATTTTAATAATTATGTTATT-CTTTTAAT
6501476 TTTGTTATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 9 0.33
32 11 0.41
33 7 0.26
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (33 bp):
AATTATTTTAATAATTATGTTATTCTTTTAATG
Found at i:6503547 original size:35 final size:35
Alignment explanation
Indices: 6503491--6503613 Score: 165
Period size: 35 Copynumber: 3.5 Consensus size: 35
6503481 TGTTGTATAG
*
6503491 AGAACAACTCGAACAAGTGAAGTGCTACTTCACGC
1 AGAACAACTAGAACAAGTGAAGTGCTACTTCACGC
* *
6503526 AGAATAACTAGAACAAGTGAAGCGCTACTTCACGC
1 AGAACAACTAGAACAAGTGAAGTGCTACTTCACGC
* * * *
6503561 AGAACAGCTAGAACAAGTGAAGTACTACTTAAAGC
1 AGAACAACTAGAACAAGTGAAGTGCTACTTCACGC
* *
6503596 AGAACAATTAGAATAAGT
1 AGAACAACTAGAACAAGT
6503614 AAAGCATTAC
Statistics
Matches: 76, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 76 1.00
ACGTcount: A:0.43, C:0.20, G:0.20, T:0.18
Consensus pattern (35 bp):
AGAACAACTAGAACAAGTGAAGTGCTACTTCACGC
Found at i:6503889 original size:29 final size:28
Alignment explanation
Indices: 6503857--6503988 Score: 129
Period size: 29 Copynumber: 4.5 Consensus size: 28
6503847 TGTTCTCGTA
* *
6503857 TACCTATTCATGTACAGCTTCTTCTCCTG
1 TACCTATTC-TGTACAACTTCTTCTCTTG
* *
6503886 TACCTATTCTCGTACAGCTTCTTCTCTTA
1 TACCTATTCT-GTACAACTTCTTCTCTTG
* ** *
6503915 TACCTCTTCTCACACAACTTTTTCTCTTG
1 TACCTATTCT-GTACAACTTCTTCTCTTG
*
6503944 TACATATTCTTGTACAACTTCTTCTCTTG
1 TACCTATTC-TGTACAACTTCTTCTCTTG
*
6503973 TACCTTTTCTTGTACA
1 TACCTATTC-TGTACA
6503989 CCTCTTTTCT
Statistics
Matches: 86, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
28 1 0.01
29 84 0.98
30 1 0.01
ACGTcount: A:0.18, C:0.30, G:0.07, T:0.45
Consensus pattern (28 bp):
TACCTATTCTGTACAACTTCTTCTCTTG
Found at i:6504005 original size:28 final size:29
Alignment explanation
Indices: 6503857--6504013 Score: 102
Period size: 29 Copynumber: 5.4 Consensus size: 29
6503847 TGTTCTCGTA
* * * * *
6503857 TACCTATTCATGTACAGCTTCTTCTCCTG
1 TACCTTTTCTTGTACAACCTCTTCTCTTG
* * * * *
6503886 TACCTATTCTCGTACAGCTTCTTCTCTTA
1 TACCTTTTCTTGTACAACCTCTTCTCTTG
* *** * *
6503915 TACCTCTTCTCACACAACTTTTTCTCTTG
1 TACCTTTTCTTGTACAACCTCTTCTCTTG
* * *
6503944 TACATATTCTTGTACAACTTCTTCTCTTG
1 TACCTTTTCTTGTACAACCTCTTCTCTTG
*
6503973 TACCTTTTCTTGTAC-ACCTCTTTTCTAT-
1 TACCTTTTCTTGTACAACCTCTTCTCT-TG
6504001 TACCTTTTACTTG
1 TACCTTTT-CTTG
6504014 AGAACAAGTC
Statistics
Matches: 106, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
28 17 0.16
29 89 0.84
ACGTcount: A:0.17, C:0.29, G:0.06, T:0.47
Consensus pattern (29 bp):
TACCTTTTCTTGTACAACCTCTTCTCTTG
Found at i:6504622 original size:21 final size:23
Alignment explanation
Indices: 6504578--6504622 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
6504568 TTGAAGGAAG
6504578 AAGAAAGCTGAAAATTTGTGAGGT
1 AAGAAAGCTG-AAATTTGTGAGGT
6504602 AAGAAAGCTG-AATTT-TGAGGT
1 AAGAAAGCTGAAATTTGTGAGGT
6504623 TATGTTGCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 6 0.29
22 5 0.24
24 10 0.48
ACGTcount: A:0.40, C:0.04, G:0.29, T:0.27
Consensus pattern (23 bp):
AAGAAAGCTGAAATTTGTGAGGT
Found at i:6508616 original size:2 final size:2
Alignment explanation
Indices: 6508609--6508646 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
6508599 ATCATTTGAA
6508609 AT AT 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 AT AT
6508647 TAGACATAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6515609 original size:20 final size:20
Alignment explanation
Indices: 6515586--6515626 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
6515576 AATGGTGTGA
6515586 ATGTGGTTTGAATGGGAATG
1 ATGTGGTTTGAATGGGAATG
*
6515606 ATGTGGTTTGGATGGGAATG
1 ATGTGGTTTGAATGGGAATG
6515626 A
1 A
6515627 ATAAAAGCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.00, G:0.41, T:0.34
Consensus pattern (20 bp):
ATGTGGTTTGAATGGGAATG
Found at i:6516212 original size:45 final size:45
Alignment explanation
Indices: 6516161--6516249 Score: 135
Period size: 45 Copynumber: 2.0 Consensus size: 45
6516151 TTTTGTCTAT
*
6516161 AGAAAAATTGGAGCTGTTTGCTACCAATTTTGTGCA-AAAAATTGC
1 AGAAAAATTGGAGCTCTTTGCTACCAA-TTTGTGCAGAAAAATTGC
* *
6516206 AGAAAAATTGGAGCTCTTTGCTGCCGATTTGTGCAGAAAAATTG
1 AGAAAAATTGGAGCTCTTTGCTACCAATTTGTGCAGAAAAATTG
6516250 GAGCTGTTTG
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 8 0.20
45 32 0.80
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.30
Consensus pattern (45 bp):
AGAAAAATTGGAGCTCTTTGCTACCAATTTGTGCAGAAAAATTGC
Found at i:6516246 original size:34 final size:35
Alignment explanation
Indices: 6516203--6516297 Score: 147
Period size: 34 Copynumber: 2.7 Consensus size: 35
6516193 TGCAAAAAAT
* *
6516203 TGCAGAAAAATTGGAGCTCTTTGCTGCCGA-TTTG
1 TGCAGAAAAATTGGAGCTATTTGCTGCCAATTTTG
* *
6516237 TGCAGAAAAATTGGAGCTGTTTGCTGCCAATTTTT
1 TGCAGAAAAATTGGAGCTATTTGCTGCCAATTTTG
6516272 TGCAGAAAAATTGGAGCTATTTGCTG
1 TGCAGAAAAATTGGAGCTATTTGCTG
6516298 GTAGTTTGTG
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
34 28 0.50
35 28 0.50
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (35 bp):
TGCAGAAAAATTGGAGCTATTTGCTGCCAATTTTG
Found at i:6516315 original size:35 final size:33
Alignment explanation
Indices: 6516207--6516320 Score: 83
Period size: 34 Copynumber: 3.3 Consensus size: 33
6516197 AAAAATTGCA
* **
6516207 GAAAAATTGGAGCTCTTTGCTGCCGATTTGTG-CA
1 GAAAAATTGGAGCTATTTGCTG--GATTTGTGTTG
* *
6516241 GAAAAATTGGAGCTGTTTGCTGCCAATTT-T-TTG
1 GAAAAATTGGAGCTATTTGCTG--GATTTGTGTTG
6516274 CAGAAAAATTGGAGCTATTTGCTGGTAGTTTGTGTTG
1 --GAAAAATTGGAGCTATTTGCTGG-A-TTTGTGTTG
6516311 G-AAAATTGGA
1 GAAAAATTGGA
6516321 CAGCTTTGTG
Statistics
Matches: 67, Mismatches: 6, Indels: 14
0.77 0.07 0.16
Matches are distributed among these distances:
33 1 0.01
34 37 0.55
35 25 0.37
36 1 0.01
37 3 0.04
ACGTcount: A:0.26, C:0.11, G:0.27, T:0.35
Consensus pattern (33 bp):
GAAAAATTGGAGCTATTTGCTGGATTTGTGTTG
Found at i:6516316 original size:69 final size:69
Alignment explanation
Indices: 6516202--6516337 Score: 170
Period size: 69 Copynumber: 1.9 Consensus size: 69
6516192 GTGCAAAAAA
*
6516202 TTGCAGAAAAATTGGAGCTCTTTGCTGCCGATTTGTGCAGAAAAATTGG-AGCTGTT-TGCTGCC
1 TTGCAGAAAAATTGGAGCTATTTGCTG-CGATTTGTGCAGAAAAATTGGAAGCT-TTGTGCTGCC
6516265 AATTTT
64 AATTTT
** *
6516271 TTGCAGAAAAATTGGAGCTATTTGCTG-GTAGTTTGTGTTGGAAAATTGGACAGCTTTGTGCTGC
1 TTGCAGAAAAATTGGAGCTATTTGCTGCG-A-TTTGTGCAGAAAAATTGGA-AGCTTTGTGCTGC
6516335 CAA
63 CAA
6516338 AATTAAGGAG
Statistics
Matches: 58, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
67 1 0.02
68 1 0.02
69 41 0.71
70 2 0.03
71 13 0.22
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.35
Consensus pattern (69 bp):
TTGCAGAAAAATTGGAGCTATTTGCTGCGATTTGTGCAGAAAAATTGGAAGCTTTGTGCTGCCAA
TTTT
Found at i:6518934 original size:28 final size:27
Alignment explanation
Indices: 6518898--6518950 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
6518888 ATATCCTGGT
*
6518898 GGTGGAAAATTACAATTTTGCCCCTGA
1 GGTGGAAAATTACAATTTTACCCCTGA
*
6518925 GGTGGCAAAATTACCATTTTACCCCT
1 GGTGG-AAAATTACAATTTTACCCCT
6518951 ATACTCCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTACCCCTGA
Found at i:6519018 original size:20 final size:20
Alignment explanation
Indices: 6518995--6519040 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
6518985 CTTCTAAACC
*
6518995 TCAAATCATACTTCAATAAG
1 TCAAATCATACTCCAATAAG
*
6519015 TCAAATTATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
6519035 TCAAAT
1 TCAAAT
6519041 GGGGTCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.46, C:0.20, G:0.04, T:0.30
Consensus pattern (20 bp):
TCAAATCATACTCCAATAAG
Found at i:6531140 original size:62 final size:62
Alignment explanation
Indices: 6531043--6531167 Score: 241
Period size: 62 Copynumber: 2.0 Consensus size: 62
6531033 ATTCTAGAAT
6531043 TTGTTTGATTCTCTCTCAAGGCGAAATCTTAGATAACACTTAGAATAGGAAGTGATTTAGGC
1 TTGTTTGATTCTCTCTCAAGGCGAAATCTTAGATAACACTTAGAATAGGAAGTGATTTAGGC
*
6531105 TTGTTTGATTCTCTCTCAAGGCGAAATCTTAGATAACACTTAGGATAGGAAGTGATTTAGGC
1 TTGTTTGATTCTCTCTCAAGGCGAAATCTTAGATAACACTTAGAATAGGAAGTGATTTAGGC
6531167 T
1 T
6531168 ATCTTTGGAT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (62 bp):
TTGTTTGATTCTCTCTCAAGGCGAAATCTTAGATAACACTTAGAATAGGAAGTGATTTAGGC
Found at i:6537514 original size:20 final size:21
Alignment explanation
Indices: 6537489--6537527 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
6537479 CTTGTCAAGA
6537489 CATGGATT-CAAGTGTTAAGG
1 CATGGATTACAAGTGTTAAGG
6537509 CATGGATTACAAGTGTTAA
1 CATGGATTACAAGTGTTAA
6537528 AAGGAAGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (21 bp):
CATGGATTACAAGTGTTAAGG
Found at i:6537600 original size:29 final size:29
Alignment explanation
Indices: 6537558--6537622 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
6537548 TACTACAAGT
*
6537558 AACTGCATGTCTTTATCCAAATAATCAGC
1 AACTGCATATCTTTATCCAAATAATCAGC
6537587 AACTGCATATCTTTATCCAAATAATCAGC
1 AACTGCATATCTTTATCCAAATAATCAGC
6537616 AACTGCA
1 AACTGCA
6537623 CATACACGGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.37, C:0.25, G:0.09, T:0.29
Consensus pattern (29 bp):
AACTGCATATCTTTATCCAAATAATCAGC
Found at i:6550055 original size:34 final size:34
Alignment explanation
Indices: 6550016--6550083 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
6550006 ATCATAACAG
*
6550016 AAATCACAATTAACCCTAATGGCATGGGTCATAA
1 AAATCACAATTAACCCCAATGGCATGGGTCATAA
*
6550050 AAATCACAATTAACCCCAGTGGCATGGGTCATAA
1 AAATCACAATTAACCCCAATGGCATGGGTCATAA
6550084 GTATATCGGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.40, C:0.22, G:0.16, T:0.22
Consensus pattern (34 bp):
AAATCACAATTAACCCCAATGGCATGGGTCATAA
Found at i:6550534 original size:12 final size:12
Alignment explanation
Indices: 6550513--6550546 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
6550503 CTTGAATTTT
* *
6550513 ACAAATCATAGG
1 ACAAAACATAAG
6550525 ACAAAACATAAG
1 ACAAAACATAAG
6550537 ACAAAACATA
1 ACAAAACATA
6550547 TTACACATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.62, C:0.18, G:0.09, T:0.12
Consensus pattern (12 bp):
ACAAAACATAAG
Found at i:6550839 original size:3 final size:3
Alignment explanation
Indices: 6550831--6550861 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
6550821 ATAAGTAACA
6550831 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
6550862 TAAATTAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:6558329 original size:40 final size:40
Alignment explanation
Indices: 6558276--6558352 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
6558266 TAACAAGTAA
*
6558276 AATGCCCTAAAACAGTATGAAAACTGAACATTTAAAAAGT
1 AATGCCCTAAAACAGTATGAAAAATGAACATTTAAAAAGT
* *
6558316 AATGCCCTTAAACAGTATGAAAAATGAACCTTTAAAA
1 AATGCCCTAAAACAGTATGAAAAATGAACATTTAAAA
6558353 GGTATGCTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.49, C:0.16, G:0.12, T:0.23
Consensus pattern (40 bp):
AATGCCCTAAAACAGTATGAAAAATGAACATTTAAAAAGT
Found at i:6577733 original size:21 final size:21
Alignment explanation
Indices: 6577707--6577746 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
6577697 TTGTATATCG
6577707 TATTTA-ACTATTTATATTTTA
1 TATTTATACT-TTTATATTTTA
*
6577728 TATTTATAGTTTTATATTT
1 TATTTATACTTTTATATTT
6577747 AGTATTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (21 bp):
TATTTATACTTTTATATTTTA
Found at i:6577740 original size:14 final size:13
Alignment explanation
Indices: 6577715--6577752 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
6577705 CGTATTTAAC
6577715 TATTTATATTTTA
1 TATTTATATTTTA
6577728 TATTTATAGTTTTA
1 TATTTATA-TTTTA
6577742 TATTTAGTATT
1 TATTTA-TATT
6577753 ATAAGTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 8 0.35
14 13 0.57
15 2 0.09
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (13 bp):
TATTTATATTTTA
Found at i:6577752 original size:21 final size:21
Alignment explanation
Indices: 6577717--6577760 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
6577707 TATTTAACTA
6577717 TTTATATTTTATATT-TATAGT
1 TTTATATTTTATATTATA-AGT
6577738 TTTATA-TTTAGTATTATAAGT
1 TTTATATTTTA-TATTATAAGT
6577759 TT
1 TT
6577761 AAATAGAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 4 0.19
21 15 0.71
22 2 0.10
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.64
Consensus pattern (21 bp):
TTTATATTTTATATTATAAGT
Found at i:6579284 original size:27 final size:27
Alignment explanation
Indices: 6579253--6579305 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
6579243 TTGATGCTAG
6579253 AATTAAACATTAAGAATTA-TGTTTGGA
1 AATT-AACATTAAGAATTATTGTTTGGA
* *
6579280 AATTAATATTTAGAATTATTGTTTGG
1 AATTAACATTAAGAATTATTGTTTGG
6579306 GGTTTTAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.40, C:0.02, G:0.15, T:0.43
Consensus pattern (27 bp):
AATTAACATTAAGAATTATTGTTTGGA
Found at i:6579428 original size:169 final size:166
Alignment explanation
Indices: 6579201--6579543 Score: 440
Period size: 169 Copynumber: 2.1 Consensus size: 166
6579191 TTCAAAGACT
* *
6579201 TTAATATTTAGAATTATTGTTTGGATAATTAATTAAAATGATTTGATGCTAGAATTAAACATTAA
1 TTAATATTTAGAATTATTGTTTGGATAATTAATTAAAATAATTTAATGCTAGAATTAAACATTAA
* ** * * *
6579266 GAATTATGTTTGGAAATTAATATTTAGAATTATTGTTTGGGGTTTTAATTAAAATGATTGGTAAT
66 AAATTATGTTTGGAAATTAATATTTAGAATTATTAATTAGAGTTTTAATTAAAATGATTGGCAAT
* *
6579331 ATGTTAGAATTAAACATTAAGAATT-ATGTTTGGGAA
131 ATGCTAGAATTAAACATT-AGAATTAATATTTGGGAA
* * *
6579367 TTAATGTTTAGAATTATTGTTTGGAT-TTTAATTAAAATAATTGGTAATGTGCTAGAATTAAATA
1 TTAATATTTAGAATTATTGTTTGGATAATTAATTAAAATAATT--TAA--TGCTAGAATTAAACA
* * * * *
6579431 TTAAAAATTATGTTTGGGAGTTAATGTTTAGCATTATTAATTAGATTTTTAATTAAAATGATTGG
62 TTAAAAATTATGTTTGGAAATTAATATTTAGAATTATTAATTAGAGTTTTAATTAAAATGATTGG
* *
6579496 CAATATGCTAGAATTAAACATTGGAATTAATATTTGGGTA
127 CAATATGCTAGAATTAAACATTAGAATTAATATTTGGGAA
6579536 TTAA-ATTT
1 TTAATATTT
6579544 TTTTTTTGTA
Statistics
Matches: 151, Mismatches: 21, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
165 14 0.09
166 25 0.17
167 2 0.01
168 8 0.05
169 102 0.68
ACGTcount: A:0.38, C:0.02, G:0.16, T:0.43
Consensus pattern (166 bp):
TTAATATTTAGAATTATTGTTTGGATAATTAATTAAAATAATTTAATGCTAGAATTAAACATTAA
AAATTATGTTTGGAAATTAATATTTAGAATTATTAATTAGAGTTTTAATTAAAATGATTGGCAAT
ATGCTAGAATTAAACATTAGAATTAATATTTGGGAA
Found at i:6579448 original size:84 final size:84
Alignment explanation
Indices: 6579201--6579543 Score: 428
Period size: 85 Copynumber: 4.1 Consensus size: 84
6579191 TTCAAAGACT
* *
6579201 TTAATATTTAGAATTATTGTTTGGATAATTAATTAAAATGATT--T--GATGCTAGAATTAAACA
1 TTAATATTTAGAATTATTGTTTGGAT-TTTAATTAAAATGATTGGTAATATGCTAGAATTAAACA
*
6579262 TTAAGAATTATGTTTGGAAA
65 TTAAGAATTATGTTTGGGAA
* *
6579282 TTAATATTTAGAATTATTGTTTGGGGTTTTAATTAAAATGATTGGTAATATGTTAGAATTAAACA
1 TTAATATTTAGAATTATTGTTT-GGATTTTAATTAAAATGATTGGTAATATGCTAGAATTAAACA
6579347 TTAAGAATTATGTTTGGGAA
65 TTAAGAATTATGTTTGGGAA
* * * *
6579367 TTAATGTTTAGAATTATTGTTTGGATTTTAATTAAAATAATTGGTAATGTGCTAGAATTAAATAT
1 TTAATATTTAGAATTATTGTTTGGATTTTAATTAAAATGATTGGTAATATGCTAGAATTAAACAT
* *
6579432 TAAAAATTATGTTTGGGAG
66 TAAGAATTATGTTTGGGAA
* * ** * *
6579451 TTAATGTTTAGCATTATTAATTAGATTTTTAATTAAAATGATTGGCAATATGCTAGAATTAAACA
1 TTAATATTTAGAATTATTGTTTGGA-TTTTAATTAAAATGATTGGTAATATGCTAGAATTAAACA
* * *
6579516 TT-GGAATTAATATTTGGGTA
65 TTAAGAATT-ATGTTTGGGAA
6579536 TTAA-ATTT
1 TTAATATTT
6579544 TTTTTTTGTA
Statistics
Matches: 228, Mismatches: 27, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
81 37 0.16
82 3 0.01
83 1 0.00
84 83 0.36
85 104 0.46
ACGTcount: A:0.38, C:0.02, G:0.16, T:0.43
Consensus pattern (84 bp):
TTAATATTTAGAATTATTGTTTGGATTTTAATTAAAATGATTGGTAATATGCTAGAATTAAACAT
TAAGAATTATGTTTGGGAA
Found at i:6583283 original size:30 final size:30
Alignment explanation
Indices: 6583218--6583283 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
6583208 TCAATCAAGT
* *
6583218 TCTTATACTTTTATTATGAGCCAGATAAGC
1 TCTTATACTTTTATTATGAGCCAAATAAAC
* * * *
6583248 CCTTATATTTTTATTTTGAGTCAAATAAAC
1 TCTTATACTTTTATTATGAGCCAAATAAAC
6583278 TCTTAT
1 TCTTAT
6583284 TACTAATGAT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.15, G:0.09, T:0.45
Consensus pattern (30 bp):
TCTTATACTTTTATTATGAGCCAAATAAAC
Found at i:6593261 original size:6 final size:6
Alignment explanation
Indices: 6593240--6593273 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
6593230 CCTCTTTTCC
*
6593240 CTTTTT CTTCTTT CTTTTT CTTTTT CCTTTT CTT
1 CTTTTT CTT-TTT CTTTTT CTTTTT CTTTTT CTT
6593274 CCTTCCTTCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (6 bp):
CTTTTT
Found at i:6593279 original size:13 final size:13
Alignment explanation
Indices: 6593242--6593281 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
6593232 TCTTTTCCCT
*
6593242 TTTTCTTCTTTCT
1 TTTTCTTCTTTCC
6593255 TTTTCTT-TTTCC
1 TTTTCTTCTTTCC
*
6593267 TTTTCTTCCTTCC
1 TTTTCTTCTTTCC
6593280 TT
1 TT
6593282 CCTCTAGTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 11 0.46
13 13 0.54
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTCTTCTTTCC
Found at i:6600701 original size:28 final size:30
Alignment explanation
Indices: 6600660--6600719 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 30
6600650 ATCTATGGGC
* *
6600660 AATTTTTCAGTTTT-TGGGG-TAAAAATGT
1 AATTTTTCACTTTTACGGGGATAAAAATGT
* *
6600688 AATTTTTGACTTTTACGGGGATAAAAGTGT
1 AATTTTTCACTTTTACGGGGATAAAAATGT
6600718 AA
1 AA
6600720 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
29 4 0.15
30 10 0.38
ACGTcount: A:0.32, C:0.05, G:0.22, T:0.42
Consensus pattern (30 bp):
AATTTTTCACTTTTACGGGGATAAAAATGT
Found at i:6605954 original size:62 final size:62
Alignment explanation
Indices: 6605888--6606221 Score: 323
Period size: 62 Copynumber: 5.4 Consensus size: 62
6605878 GGATGCTAGT
* * * * *
6605888 TAAATTAGGTTTAAATTCCTTTT-CTGCCAACATAACTGGACTTACACATCTTGAATGCCAGC
1 TAAATTGGGTTTAAAAT-CTTTTGGTGCCAACATAACTGGACTTAAACATCTTGAATGCCAAC
* * * * *
6605950 TAAATTAGGCTTTAAAATCTTTTGGTGCCAACTTAACTGGATTTAAACATCTTGGATGCCATC
1 TAAATT-GGGTTTAAAATCTTTTGGTGCCAACATAACTGGACTTAAACATCTTGAATGCCAAC
* * * * * * *
6606013 TAAATTGGGTTTAAACTATTTTTGTGCCAACATAACTAGACTTAAAGATCTT-AGATGCAAAT
1 TAAATTGGGTTTAAAATCTTTTGGTGCCAACATAACTGGACTTAAACATCTTGA-ATGCCAAC
* * * * * * * *
6606075 TAAATTGGGCTTAAACTTTTTTGGTACCAACAGAACTGGACTTAGACAT-TTTAGATGCAAAC
1 TAAATTGGGTTTAAAATCTTTTGGTGCCAACATAACTGGACTTAAACATCTTGA-ATGCCAAC
** * *
6606137 TAAATTGGGTTTTAAAATCTTTTGGTGTTAACATAACTAGACTTAAACATCTTGGATGCCAAC
1 TAAATTGGG-TTTAAAATCTTTTGGTGCCAACATAACTGGACTTAAACATCTTGAATGCCAAC
* *
6606200 TACATTGGGTTTAAACTCTTTT
1 TAAATTGGGTTTAAAATCTTTT
6606222 ATGCTAAATT
Statistics
Matches: 222, Mismatches: 44, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
61 2 0.01
62 125 0.56
63 93 0.42
64 2 0.01
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.36
Consensus pattern (62 bp):
TAAATTGGGTTTAAAATCTTTTGGTGCCAACATAACTGGACTTAAACATCTTGAATGCCAAC
Found at i:6606002 original size:32 final size:32
Alignment explanation
Indices: 6605960--6606064 Score: 85
Period size: 31 Copynumber: 3.4 Consensus size: 32
6605950 TAAATTAGGC
6605960 TTTAAA-ATCTTTTGGTGCCAACTTAACTGGA
1 TTTAAACATCTTTTGGTGCCAACTTAACTGGA
* * * *
6605991 TTTAAACATC--TTGGATGCCATCTAAATTGGG
1 TTTAAACATCTTTTGG-TGCCAACTTAACTGGA
* *
6606022 TTTAAACTAT-TTTT-GTGCCAACATAACTAGA
1 TTTAAAC-ATCTTTTGGTGCCAACTTAACTGGA
* *
6606053 CTTAAAGATCTT
1 TTTAAACATCTT
6606065 AGATGCAAAT
Statistics
Matches: 56, Mismatches: 12, Indels: 12
0.70 0.15 0.15
Matches are distributed among these distances:
30 6 0.11
31 42 0.75
32 6 0.11
33 2 0.04
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.38
Consensus pattern (32 bp):
TTTAAACATCTTTTGGTGCCAACTTAACTGGA
Found at i:6606003 original size:125 final size:122
Alignment explanation
Indices: 6605839--6606221 Score: 351
Period size: 125 Copynumber: 3.1 Consensus size: 122
6605829 TATAGGGCTT
** * * * *
6605839 AAATCTTTTTATGCCAA-TGTAATTGGATTTAAGCATCTTGGATGCTAGTTAAATTAGGTTTAAA
1 AAATCTTTTGGTGCCAACT-TAACTGGATTTAAACATCTTGGATGC-AATTAAATTGGGTTTAAA
* * * * *
6605903 TTCCTTTTCTGCCAACATAACTGGACTTACACATCTTGAATGCCAGCTAAATTAGGCTTTA
64 AT-CTTTTGTGCCAACATAACTAGACTTAAACATCTTGAATGCCAACTAAATT-GGCTTTA
*
6605964 AAATCTTTTGGTGCCAACTTAACTGGATTTAAACATCTTGGATGCCATCTAAATTGGGTTTAAAC
1 AAATCTTTTGGTGCCAACTTAACTGGATTTAAACATCTTGGATGCAAT-TAAATTGGGTTTAAA-
* * *
6606029 TAT-TTTTGTGCCAACATAACTAGACTTAAAGATCTT-AGATGCAAATTAAATTGGGC-TTA
64 -ATCTTTTGTGCCAACATAACTAGACTTAAACATCTTGA-ATGCCAACTAAATT-GGCTTTA
* * * ** * * * * *
6606088 AACTTTTTTGGTACCAACAGAACTGGACTTAGACATTTTAGATGCAAACTAAATTGGGTTTTAAA
1 AAATCTTTTGGTGCCAACTTAACTGGATTTAAACATCTTGGATGC-AATTAAATTGGG-TTTAAA
** * * *
6606153 ATCTTTTGGTGTTAACATAACTAGACTTAAACATCTTGGATGCCAACTACATTGGGTTTA
64 ATCTTTT-GTGCCAACATAACTAGACTTAAACATCTTGAATGCCAACTAAATTGGCTTTA
*
6606213 AACTCTTTT
1 AAATCTTTT
6606222 ATGCTAAATT
Statistics
Matches: 211, Mismatches: 36, Indels: 22
0.78 0.13 0.08
Matches are distributed among these distances:
123 2 0.01
124 56 0.27
125 151 0.72
126 1 0.00
127 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (122 bp):
AAATCTTTTGGTGCCAACTTAACTGGATTTAAACATCTTGGATGCAATTAAATTGGGTTTAAAAT
CTTTTGTGCCAACATAACTAGACTTAAACATCTTGAATGCCAACTAAATTGGCTTTA
Found at i:6606935 original size:10 final size:10
Alignment explanation
Indices: 6606929--6606958 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
6606919 CAGAAAAGAG
6606929 AAGAAAAAAA
1 AAGAAAAAAA
6606939 AAGAAAAAAA
1 AAGAAAAAAA
6606949 AA-AAAAAAA
1 AAGAAAAAAA
6606958 A
1 A
6606959 CCCTTAGGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 8 0.40
10 12 0.60
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (10 bp):
AAGAAAAAAA
Found at i:6608354 original size:222 final size:221
Alignment explanation
Indices: 6607951--6608393 Score: 818
Period size: 222 Copynumber: 2.0 Consensus size: 221
6607941 GGTTTTTGGG
*
6607951 TTGTGAAATATATAAACTATTTGTTTTCCTTTGACAGGCTGGGTAGTATTATTTTAGCCAGGTTA
1 TTGTGAAATATATAAACTATTTGTTTTCCTTTGACAGGCTGGGTAGTATTATGTTAGCCAGGTTA
6608016 TGCTGTCAAAATTTTATTGATTGGTGGGTTATTTAATTAGCCACTGCAGTAGGCAGGTTTCCGTG
66 TGCTGTCAAAATTTTATTGATTGGTGGGTTATTTAATTAGCCACTGCAGTAGGCAGGTTTCCGTG
*
6608081 GACCAGCTATTAGAGGGGCACGTTAAACCCCATTATATTCTTACCTAGTATCAGAGGCACAAAGG
131 GACCAGCTATTAGAGGGGCACGGTAAACCCCATTATATTCTTACCTAGTATCAGAGGCACAAAGG
6608146 ATATCTCCTAAGGTATGATAGAGTTC
196 ATATCTCCTAAGGTATGATAGAGTTC
6608172 NTTGTGAAATATATAAACTATTTGTTTTCCTTTGACAGGCTGGGTAGTATTATGTTAGCCAGGTT
1 -TTGTGAAATATATAAACTATTTGTTTTCCTTTGACAGGCTGGGTAGTATTATGTTAGCCAGGTT
*
6608237 ATGCTGTCAAAATTTTATTGATTGGTGGGTTATTTAATTAGCCACTGCAGTAGGCAGGTTTTCGT
65 ATGCTGTCAAAATTTTATTGATTGGTGGGTTATTTAATTAGCCACTGCAGTAGGCAGGTTTCCGT
6608302 GGACCAGCCTATTAGAGGGGCACGGTAAACCCCATTATA-T-TTACCTTAGTATCAGAGGCACAA
130 GGACCAG-CTATTAGAGGGGCACGGTAAACCCCATTATATTCTTACC-TAGTATCAGAGGCACAA
6608365 AGGATATCTCCTAAGGTATGATAGAGTTC
193 AGGATATCTCCTAAGGTATGATAGAGTTC
6608394 ACTTCACGCC
Statistics
Matches: 216, Mismatches: 3, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
221 5 0.02
222 181 0.84
223 30 0.14
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.35
Consensus pattern (221 bp):
TTGTGAAATATATAAACTATTTGTTTTCCTTTGACAGGCTGGGTAGTATTATGTTAGCCAGGTTA
TGCTGTCAAAATTTTATTGATTGGTGGGTTATTTAATTAGCCACTGCAGTAGGCAGGTTTCCGTG
GACCAGCTATTAGAGGGGCACGGTAAACCCCATTATATTCTTACCTAGTATCAGAGGCACAAAGG
ATATCTCCTAAGGTATGATAGAGTTC
Found at i:6609579 original size:62 final size:62
Alignment explanation
Indices: 6609367--6609759 Score: 260
Period size: 62 Copynumber: 6.4 Consensus size: 62
6609357 GTTGTGACAG
* * * * *
6609367 TGCTAGATAAATTGTGCTTTAAAATCTTTTGGTGCCAACATAAGTAGACTTAAACATCTTGGA
1 TGCTAGCTAAATTGGGC-TTAAACTCTTTTGGTGCCAATATAACTAGACTTAAACATCTTGGA
* ** *** * * *
6609430 TACCGGCTAAATTAAACTTAAACT-TTCTT-GTGCCAACT-TAACTGGGCTT-AA-ATTTTGG-
1 TGCTAGCTAAATTGGGCTTAAACTCTT-TTGGTGCCAA-TATAACTAGACTTAAACATCTTGGA
* * * * *
6609488 TGGCT-GTTAAATTAGGCCTTTAAA-TCTTTTGGTGTCAATATAA-TCGGACTTAAACATCTTTG
1 T-GCTAGCTAAATT-GGGC-TTAAACTCTTTTGGTGCCAATATAACT-AGACTTAAACATCTTGG
6609550 A
62 A
* * * *
6609551 TGCTAGCTAAATTGGGTTTAAACTCTTTTTGTGCCAACATAACTAGATTTAAACATCTTGGA
1 TGCTAGCTAAATTGGGCTTAAACTCTTTTGGTGCCAATATAACTAGACTTAAACATCTTGGA
* * * * *
6609613 TGCCAACTAAATTGGGCTTGAACTCTTTTGGAT-CCTAATATAACTAGACTTAAAAATCTTAGA
1 TGCTAGCTAAATTGGGCTTAAACTCTTTTGG-TGCC-AATATAACTAGACTTAAACATCTTGGA
* * * * * *
6609676 TGCTCA-TTAAATTGAGCTTAAACTCTTTT-GTGCCAACT-TAATTGGGCTT-AA-ATCTTGGC
1 TGCT-AGCTAAATTGGGCTTAAACTCTTTTGGTGCCAA-TATAACTAGACTTAAACATCTTGGA
*
6609735 GGC-AGCTAAATTGGGCTTAAACTCT
1 TGCTAGCTAAATTGGGCTTAAACTCT
6609760 CAATTAGTTG
Statistics
Matches: 256, Mismatches: 53, Indels: 47
0.72 0.15 0.13
Matches are distributed among these distances:
57 1 0.00
58 26 0.10
59 21 0.08
60 25 0.10
61 35 0.14
62 81 0.32
63 66 0.26
64 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (62 bp):
TGCTAGCTAAATTGGGCTTAAACTCTTTTGGTGCCAATATAACTAGACTTAAACATCTTGGA
Found at i:6609725 original size:30 final size:30
Alignment explanation
Indices: 6609683--6609759 Score: 86
Period size: 28 Copynumber: 2.6 Consensus size: 30
6609673 AGATGCTCAT
* * *
6609683 TAAATTGAGCTTAAACTCTTTTGTGCCAAC
1 TAAATTGGGCTTAAACTCTTTGGCGCCAAC
* * *
6609713 TTAATTGGGCTTAAA-TC-TTGGCGGCAGC
1 TAAATTGGGCTTAAACTCTTTGGCGCCAAC
6609741 TAAATTGGGCTTAAACTCT
1 TAAATTGGGCTTAAACTCT
6609760 CAATTAGTTG
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
28 21 0.55
29 4 0.11
30 13 0.34
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.35
Consensus pattern (30 bp):
TAAATTGGGCTTAAACTCTTTGGCGCCAAC
Found at i:6611829 original size:22 final size:23
Alignment explanation
Indices: 6611804--6611846 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
6611794 CTTATTTTTT
6611804 TTCTT-TTTTTTTGTTTTTTTAC
1 TTCTTCTTTTTTTGTTTTTTTAC
*
6611826 TTCTTCTTTTTTTTTTTTTTT
1 TTCTTCTTTTTTTGTTTTTTT
6611847 TAGTTTCATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.02, C:0.09, G:0.02, T:0.86
Consensus pattern (23 bp):
TTCTTCTTTTTTTGTTTTTTTAC
Found at i:6613327 original size:16 final size:15
Alignment explanation
Indices: 6613302--6613331 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
6613292 AAAAATCTGT
6613302 GGACTATTTGGTTTA
1 GGACTATTTGGTTTA
6613317 GGACTTATTTGGTTT
1 GGAC-TATTTGGTTT
6613332 CAACATAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.17, C:0.07, G:0.27, T:0.50
Consensus pattern (15 bp):
GGACTATTTGGTTTA
Found at i:6616350 original size:72 final size:72
Alignment explanation
Indices: 6616268--6616653 Score: 546
Period size: 72 Copynumber: 5.4 Consensus size: 72
6616258 TCTTACAAAT
* **
6616268 CTCTTTGGAGCATTGCCTAATTCCATTGGCAATTTAGTTTCATTGAAAGATTTGGATCTAAGTGG
1 CTCTCTGGAGCATTGCCTAATTCCATTGGCAATTTAGTTTCATTGAAAGATTTGGATCTAAGTTA
6616333 CACATCC
66 CACATCC
*
6616340 CTCTCTGGAGCATTGCCTAATTCCTTTGGCAATTTAGTTTCATTGAAAGATTTGGATCTAAGTTA
1 CTCTCTGGAGCATTGCCTAATTCCATTGGCAATTTAGTTTCATTGAAAGATTTGGATCTAAGTTA
6616405 CACATCC
66 CACATCC
* * *
6616412 CTCTCTGGAGCATTGCCTAATTCCATTGGTAATTTAGTTTCATTGGAATATTTGGATCTACA-TT
1 CTCTCTGGAGCATTGCCTAATTCCATTGGCAATTTAGTTTCATTGAAAGATTTGGATCTA-AGTT
* *
6616476 ACACGTCG
65 ACACATCC
*
6616484 CTCTCTGGAGCATTGCCTAATTCCATTGGCAATTTAGTTTCATTGAAAGATTTGGATCTACA-TC
1 CTCTCTGGAGCATTGCCTAATTCCATTGGCAATTTAGTTTCATTGAAAGATTTGGATCTA-AGTT
* *
6616548 AGACGTCC
65 ACACATCC
* * *
6616556 CTCTCTGAAGCATTGCCTAATTCCATTGGCAATTTAGTTTCATTGGAACATTTGGATCTAAGTTT
1 CTCTCTGGAGCATTGCCTAATTCCATTGGCAATTTAGTTTCATTGAAAGATTTGGATCTAAG--T
*
6616621 TACAAAT--
64 TACACATCC
* *
6616628 CTGTCTGGAGCATTGCCTAATCCCAT
1 CTCTCTGGAGCATTGCCTAATTCCAT
6616654 CCGCAATCTA
Statistics
Matches: 284, Mismatches: 26, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
71 1 0.00
72 278 0.98
73 1 0.00
74 4 0.01
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.37
Consensus pattern (72 bp):
CTCTCTGGAGCATTGCCTAATTCCATTGGCAATTTAGTTTCATTGAAAGATTTGGATCTAAGTTA
CACATCC
Found at i:6619037 original size:26 final size:26
Alignment explanation
Indices: 6619008--6619060 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
6618998 CTGGTCTTTG
*
6619008 CATGTTCATTATT-TAAATACTTAGTC
1 CATGTTAATTATTAT-AATACTTAGTC
6619034 CATGTTAATTATTATAATACTTAGTC
1 CATGTTAATTATTATAATACTTAGTC
6619060 C
1 C
6619061 CATATTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 24 0.96
27 1 0.04
ACGTcount: A:0.32, C:0.15, G:0.08, T:0.45
Consensus pattern (26 bp):
CATGTTAATTATTATAATACTTAGTC
Found at i:6619400 original size:149 final size:148
Alignment explanation
Indices: 6619115--6619404 Score: 544
Period size: 149 Copynumber: 1.9 Consensus size: 148
6619105 TTTTGCAACC
6619115 TTTGTGGGGAATTGATGAATACGATCAAAATACAGGTTTTGTTGAAATTAATGAAGAAGAAGATG
1 TTTGTGGGGAATTGATGAATACGATCAAAATACAGGTTTTGTTGAAATTAATGAAGAAGAAGATG
*
6619180 AAGAAATCACAAAAGCTGCTGGAATTATTGATAACCCCACAATATGTGTGCTGTCTTTTCTTTTT
66 AAGAAATCACAAAAGCTGCTGGAATTATTAATAACCCCACAATATGTGTGCTGTCTTTTCTTTTT
6619245 CTTTTTTTTTTTCAAAAA
131 CTTTTTTTTTTTCAAAAA
6619263 NTTTGTGGGGAATTGATGAATACGATCAAAATACAGGTTTTGTTGAAATTAATGAAGAAGAAGAT
1 -TTTGTGGGGAATTGATGAATACGATCAAAATACAGGTTTTGTTGAAATTAATGAAGAAGAAGAT
*
6619328 GAAGAAATCACAAAAGCTGCTGGAATTATTAATAACCCCACAATATGTGTGCTTTTCTTTTCTTT
65 GAAGAAATCACAAAAGCTGCTGGAATTATTAATAACCCCACAATATGTGTGC-TGTCTTTTCTTT
6619393 TTCTTTTTTTTT
129 TTCTTTTTTTTT
6619405 CAAGAATAAA
Statistics
Matches: 138, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
149 115 0.83
150 23 0.17
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.37
Consensus pattern (148 bp):
TTTGTGGGGAATTGATGAATACGATCAAAATACAGGTTTTGTTGAAATTAATGAAGAAGAAGATG
AAGAAATCACAAAAGCTGCTGGAATTATTAATAACCCCACAATATGTGTGCTGTCTTTTCTTTTT
CTTTTTTTTTTTCAAAAA
Found at i:6637937 original size:365 final size:365
Alignment explanation
Indices: 6637254--6637988 Score: 1334
Period size: 365 Copynumber: 2.0 Consensus size: 365
6637244 TTGGTGATGG
6637254 TTTGGTTGGATTTAAGTTATATGGATGTTTTCAATGATTTATGGTGTTTAGTGTAAGAATCAAGC
1 TTTGGTTGGATTTAAGTTATATGGATGTTTTCAATGATTTATGGTGTTTAGTGTAAGAATCAAGC
6637319 TTGAAAATCACTCATTCCTTATGTATTCTATTAAGCCTGACCTTATTATAAAATACTTGTCATGA
66 TTGAAAATCACTCATTCCTTATGTATTCTATTAAGCCTGACC-T-TTATAAAATACTTGTCATGA
* *
6637384 CATGCATGTGATGGGTAGCATGTTTGCATGCTGGGAAAGCCCCGAAAATCGTTAAAAGTTAGTAG
129 CATGCATGTGATGGATAGCATGTTTGCATGCTAGGAAAGCCCCGAAAATCGTTAAAAGTTAGTAG
6637449 TGTACTTAATAGTATAACTAAGTTGAACTAAGCCTCGAACTAGATCAAATAGGAGAATTTAAGGT
194 TGTACTTAATAGTATAACTAAGTTGAACTAAGCCTCGAACTAGATCAAATAGGAGAATTTAAGGT
6637514 GAAATTGAGAATTTTAAAGTCCCGGAATAACTAAAATGGTGAGTCGGAGTTCGAGGATCAATTTG
259 GAAATTGAGAATTTTAAAGTCCCGGAATAACTAAAATGGTGAGTCGGAGTTCGAGGATCAATTTG
*
6637579 GAG-TAAAACCAAAATTTTCACTAT-CAGGGGTAAAATGATCA
324 GAGTTAAAACCAAAA-TTTCACTATCCAGGGGTAAAATGATAA
6637620 TTTNGGTTGGATTTTAAGTTATATGGATGTTTTCAATGATTTATGGTGTTTAGTGTAAGAATCAA
1 TTT-GGTTGGA-TTTAAGTTATATGGATGTTTTCAATGATTTATGGTGTTTAGTGTAAGAATCAA
6637685 GCTTGAAAATCACTCATTCCTTATGTATTCTATTAAGCCTGACC-TTATAAAATACTTGTCATGA
64 GCTTGAAAATCACTCATTCCTTATGTATTCTATTAAGCCTGACCTTTATAAAATACTTGTCATGA
6637749 CATGCATGTGATGGATAGCATGTTTGCATGCTAGGAAAGCCCCGAAAATCGTTAAAAGTTAGTAG
129 CATGCATGTGATGGATAGCATGTTTGCATGCTAGGAAAGCCCCGAAAATCGTTAAAAGTTAGTAG
6637814 TGTACTTAATAGTATAACTAAGTTGAACTAAGCCTCGAACTAGATCAAATA-GAGAATTTAAGGT
194 TGTACTTAATAGTATAACTAAGTTGAACTAAGCCTCGAACTAGATCAAATAGGAGAATTTAAGGT
*
6637878 GAAATTGAGAATTTTAAAGTCCCGGAATAACTTAAAATGGTGATTCGGAGTTCGAGGATCAATTT
259 GAAATTGAGAATTTTAAAGTCCCGGAATAAC-TAAAATGGTGAGTCGGAGTTCGAGGATCAATTT
* *
6637943 GGAGTTAAATCGAAAATTTCACTATCCAGGGGTAAAATGATAA
323 GGAGTTAAAACCAAAATTTCACTATCCAGGGGTAAAATGATAA
6637986 TTT
1 TTT
6637989 TGCCACTCGA
Statistics
Matches: 358, Mismatches: 6, Indels: 10
0.96 0.02 0.03
Matches are distributed among these distances:
364 44 0.12
365 179 0.50
366 31 0.09
367 7 0.02
368 97 0.27
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (365 bp):
TTTGGTTGGATTTAAGTTATATGGATGTTTTCAATGATTTATGGTGTTTAGTGTAAGAATCAAGC
TTGAAAATCACTCATTCCTTATGTATTCTATTAAGCCTGACCTTTATAAAATACTTGTCATGACA
TGCATGTGATGGATAGCATGTTTGCATGCTAGGAAAGCCCCGAAAATCGTTAAAAGTTAGTAGTG
TACTTAATAGTATAACTAAGTTGAACTAAGCCTCGAACTAGATCAAATAGGAGAATTTAAGGTGA
AATTGAGAATTTTAAAGTCCCGGAATAACTAAAATGGTGAGTCGGAGTTCGAGGATCAATTTGGA
GTTAAAACCAAAATTTCACTATCCAGGGGTAAAATGATAA
Found at i:6638137 original size:28 final size:27
Alignment explanation
Indices: 6638106--6638159 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 27
6638096 TTTCTGAGCA
* *
6638106 TAGGGGTAAAATGGTAATTTTGCCACCC
1 TAGGGGCAAAATAGTAATTTT-CCACCC
6638134 TAGGGGCAAAATAGTAATTTTCCACC
1 TAGGGGCAAAATAGTAATTTTCCACC
6638160 ACCAGGACAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 5 0.21
28 19 0.79
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (27 bp):
TAGGGGCAAAATAGTAATTTTCCACCC
Found at i:6638770 original size:10 final size:10
Alignment explanation
Indices: 6638735--6638773 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
6638725 TTGTGGCTGA
6638735 ATTTGATGAT
1 ATTTGATGAT
*
6638745 ATTTCATGAT
1 ATTTGATGAT
*
6638755 ATTTTGGTGAT
1 A-TTTGATGAT
6638766 ATTTGATG
1 ATTTGATG
6638774 TTTGGTGAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
10 16 0.67
11 8 0.33
ACGTcount: A:0.26, C:0.03, G:0.21, T:0.51
Consensus pattern (10 bp):
ATTTGATGAT
Found at i:6640488 original size:19 final size:19
Alignment explanation
Indices: 6640464--6640501 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
6640454 CCATTTGACT
6640464 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
6640483 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
6640502 GTTTAGAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATGATTTGAG
Found at i:6649464 original size:19 final size:19
Alignment explanation
Indices: 6649440--6649476 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
6649430 CCATTTGACT
6649440 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
6649459 TATTGGAGTATGATTTGA
1 TATTGGAGTATGATTTGA
6649477 AATTTAGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.27, C:0.00, G:0.30, T:0.43
Consensus pattern (19 bp):
TATTGGAGTATGATTTGAG
Found at i:6658067 original size:65 final size:65
Alignment explanation
Indices: 6657947--6658082 Score: 186
Period size: 65 Copynumber: 2.1 Consensus size: 65
6657937 AGAACATATC
* * *
6657947 AAAGTCATGTTGTTAGTCCTCTGGTTTGAGTCCCACTCTCACACAAGGTGGAAAAGTGGTAGGCG
1 AAAGTCATGTTGTAAGTCCTCTGGTTTGAGTCCCACTCTCACACAAGGTGCAAAAGTGGTAGGCA
* * *
6658012 AAAGTCATGTTGTAAGTTCT-TGGTTTGAGTCCCAC-CTTCACGCAGGGGTGCAAAAGTGGTAGG
1 AAAGTCATGTTGTAAGTCCTCTGGTTTGAGTCCCACTC-TCACACA-AGGTGCAAAAGTGGTAGG
6658075 CA
64 CA
6658077 AAAGTC
1 AAAGTC
6658083 TTGGTCGTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
63 1 0.02
64 21 0.33
65 41 0.65
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (65 bp):
AAAGTCATGTTGTAAGTCCTCTGGTTTGAGTCCCACTCTCACACAAGGTGCAAAAGTGGTAGGCA
Found at i:6659526 original size:18 final size:19
Alignment explanation
Indices: 6659493--6659531 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
6659483 CTATAATATA
* *
6659493 TATATATATGTAATGTTGT
1 TATATATATATAATGTAGT
6659512 TATATAT-TATAATGTAGT
1 TATATATATATAATGTAGT
6659530 TA
1 TA
6659532 ATTATAAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.36, C:0.00, G:0.13, T:0.51
Consensus pattern (19 bp):
TATATATATATAATGTAGT
Found at i:6659728 original size:2 final size:2
Alignment explanation
Indices: 6659721--6659762 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
6659711 CGATTTATTC
6659721 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6659763 GTANNNNNNN
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6659795 original size:2 final size:2
Alignment explanation
Indices: 6659788--6659824 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
6659778 NNNNNNNNNN
6659788 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6659825 GGGAACTACT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6665792 original size:36 final size:36
Alignment explanation
Indices: 6665745--6665822 Score: 138
Period size: 36 Copynumber: 2.2 Consensus size: 36
6665735 TCTTTTTTTC
6665745 TTTACTTAACTTTTAAGCTCCTGTATATATAACTCA
1 TTTACTTAACTTTTAAGCTCCTGTATATATAACTCA
* *
6665781 TTTACTTAACTTTTAAGCTCCTGTATATATAGCTTA
1 TTTACTTAACTTTTAAGCTCCTGTATATATAACTCA
6665817 TTTACT
1 TTTACT
6665823 AAGCCCTAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.28, C:0.18, G:0.06, T:0.47
Consensus pattern (36 bp):
TTTACTTAACTTTTAAGCTCCTGTATATATAACTCA
Found at i:6669728 original size:2 final size:2
Alignment explanation
Indices: 6669721--6669805 Score: 88
Period size: 2 Copynumber: 43.5 Consensus size: 2
6669711 TTTGGAGAAT
*
6669721 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TG TA T- TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
6669760 TA GTA AA TT TA -A GNA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA -TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6669803 TA T
1 TA T
6669806 TGTATTATTT
Statistics
Matches: 71, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
1 4 0.06
2 64 0.90
3 3 0.04
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.49
Consensus pattern (2 bp):
TA
Found at i:6669803 original size:54 final size:53
Alignment explanation
Indices: 6669721--6669826 Score: 185
Period size: 54 Copynumber: 2.0 Consensus size: 53
6669711 TTTGGAGAAT
*
6669721 TATATATATATATATATATATATATATATATTGTATTATTAGTAAATTTAAGNA
1 TATATATATATATATATATATATATATATATTGTATTATTAGAAAATTTAAG-A
*
6669775 TATATATATATATATATATATATATATATATTGTATTATTTGAAAATTTAAG
1 TATATATATATATATATATATATATATATATTGTATTATTAGAAAATTTAAG
6669827 GTTTTATAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.49
Consensus pattern (53 bp):
TATATATATATATATATATATATATATATATTGTATTATTAGAAAATTTAAGA
Found at i:6681621 original size:23 final size:23
Alignment explanation
Indices: 6681567--6681622 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
6681557 CTTGTTAGAC
* * *
6681567 TAGAATAACAATTCTTAATTCTAT
1 TAGAATAA-GATTCGTAATTATAT
6681591 TA-AGATAAGATTCGTAATTATAT
1 TAGA-ATAAGATTCGTAATTATAT
6681614 TAGAATAAG
1 TAGAATAAG
6681623 GTTATTGTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
23 20 0.74
24 7 0.26
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.38
Consensus pattern (23 bp):
TAGAATAAGATTCGTAATTATAT
Found at i:6684856 original size:23 final size:23
Alignment explanation
Indices: 6684830--6684875 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
6684820 TAGAATAACA
*
6684830 ATTCCTAATTCTATTAGGATAAG
1 ATTCCTAATTATATTAGGATAAG
*
6684853 ATTCTTAATTATATTAGGATAAG
1 ATTCCTAATTATATTAGGATAAG
6684876 GTTATTGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.37, C:0.09, G:0.13, T:0.41
Consensus pattern (23 bp):
ATTCCTAATTATATTAGGATAAG
Found at i:6690117 original size:19 final size:19
Alignment explanation
Indices: 6690096--6690167 Score: 99
Period size: 19 Copynumber: 3.8 Consensus size: 19
6690086 ATAATTGGTG
* *
6690096 TCTTCACAATGCCTCAGTG
1 TCTTCACAACGCCTCAGTA
* *
6690115 TCTTCACAATGCCTCATTA
1 TCTTCACAACGCCTCAGTA
*
6690134 TTTTCACAACGCCTCAGTA
1 TCTTCACAACGCCTCAGTA
6690153 TCTTCACAACGCCTC
1 TCTTCACAACGCCTC
6690168 GACATTAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 47 1.00
ACGTcount: A:0.24, C:0.35, G:0.10, T:0.32
Consensus pattern (19 bp):
TCTTCACAACGCCTCAGTA
Found at i:6694444 original size:19 final size:19
Alignment explanation
Indices: 6694420--6694457 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
6694410 ACTTCTAAAC
6694420 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
6694439 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
6694458 AGTCAAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:6708966 original size:7 final size:7
Alignment explanation
Indices: 6708949--6708991 Score: 59
Period size: 8 Copynumber: 5.7 Consensus size: 7
6708939 TGAATTTTAT
6708949 AAATATAA
1 AAAT-TAA
6708957 AAATTAAA
1 AAATT-AA
6708965 AAATTAA
1 AAATTAA
6708972 AAATTAAA
1 AAATT-AA
6708980 AAATTAA
1 AAATTAA
6708987 AAATT
1 AAATT
6708992 GAAGCGTGGC
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
7 15 0.45
8 18 0.55
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AAATTAA
Found at i:6708966 original size:8 final size:8
Alignment explanation
Indices: 6708955--6708989 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
6708945 TTATAAATAT
6708955 AAAAATTA
1 AAAAATTA
6708963 AAAAATT-
1 AAAAATTA
6708970 AAAAATTA
1 AAAAATTA
6708978 AAAAATTA
1 AAAAATTA
6708986 AAAA
1 AAAA
6708990 TTGAAGCGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 7 0.27
8 19 0.73
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (8 bp):
AAAAATTA
Found at i:6708974 original size:15 final size:15
Alignment explanation
Indices: 6708949--6708991 Score: 77
Period size: 15 Copynumber: 2.8 Consensus size: 15
6708939 TGAATTTTAT
6708949 AAATATAAAAATTAAA
1 AAAT-TAAAAATTAAA
6708965 AAATTAAAAATTAAA
1 AAATTAAAAATTAAA
6708980 AAATTAAAAATT
1 AAATTAAAAATT
6708992 GAAGCGTGGC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 23 0.85
16 4 0.15
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
AAATTAAAAATTAAA
Found at i:6709257 original size:36 final size:37
Alignment explanation
Indices: 6709210--6709286 Score: 120
Period size: 39 Copynumber: 2.1 Consensus size: 37
6709200 AGAGAGATTT
6709210 GATACAGACAAT-GAAGACGCAGCCCTGTCAAGCCTA
1 GATACAGACAATAGAAGACGCAGCCCTGTCAAGCCTA
*
6709246 GATACATACAATAGCGAAGACGCAGCCCTGTCAAGCCTA
1 GATACAGACAATA--GAAGACGCAGCCCTGTCAAGCCTA
6709285 GA
1 GA
6709287 CACAAACAGT
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
36 11 0.30
39 26 0.70
ACGTcount: A:0.36, C:0.27, G:0.22, T:0.14
Consensus pattern (37 bp):
GATACAGACAATAGAAGACGCAGCCCTGTCAAGCCTA
Found at i:6710682 original size:42 final size:41
Alignment explanation
Indices: 6710607--6710691 Score: 143
Period size: 42 Copynumber: 2.0 Consensus size: 41
6710597 TCTCACACTT
*
6710607 TTAGATTTCTCTTTTCTACGTTTTAAGACACCAAGAGATGA
1 TTAGATTTCTCTTTACTACGTTTTAAGACACCAAGAGATGA
*
6710648 TTAGATTTCTCTTTACTACTTTTTTAAGACACCAAGAGATGA
1 TTAGATTTCTCTTTACTAC-GTTTTAAGACACCAAGAGATGA
6710690 TT
1 TT
6710692 TTAATGTGTT
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
41 18 0.44
42 23 0.56
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.41
Consensus pattern (41 bp):
TTAGATTTCTCTTTACTACGTTTTAAGACACCAAGAGATGA
Found at i:6711126 original size:27 final size:29
Alignment explanation
Indices: 6711068--6711134 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
6711058 AAATATGACA
*
6711068 TGTAACAACAATATTTTTTCAATATAGTG
1 TGTAACAACAATATTTTTTCAACATAGTG
** * *
6711097 TGTAACATTAATATTTTTTTAACATGGTG
1 TGTAACAACAATATTTTTTCAACATAGTG
6711126 TGTAACAAC
1 TGTAACAAC
6711135 CTTTGTAACC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.42
Consensus pattern (29 bp):
TGTAACAACAATATTTTTTCAACATAGTG
Found at i:6711415 original size:121 final size:121
Alignment explanation
Indices: 6711140--6711446 Score: 330
Period size: 121 Copynumber: 2.5 Consensus size: 121
6711130 ACAACCTTTG
* * *
6711140 TAACCATGGCGTGTGACATGTTTTTGTACATGATGGTGTAAAAACAGTATTTTTTTTCAACATGG
1 TAACCATGGCGTGTAACATGTTTTTGTACATG-TCGTGTAACAACAGTATTTTTTTTCAACAT-G
*** * * *
6711205 CCGTGTAATAACCTAACCATAGTGTGTAACATGTTTTTATATATGACTTGTAATAACT
64 AAATGTAACAACCTAACCATAGTGTGTAACATGTTTTTATATATGACTTGTAACAACC
* * * ** * ** *
6711263 TAACTATGACGTGTAACATATTGGTGTACATGTTGTGTAACAACAAAATTTTTTTTCAATATGAA
1 TAACCATGGCGTGTAACATGTTTTTGTACATGTCGTGTAACAACAGTATTTTTTTTCAACATGAA
* * * *
6711328 ATGTAACAATCTAATCATAGTGTGTAACATGTTTTTGTATATGA-TGTGTGACAACC
66 ATGTAACAACCTAACCATAGTGTGTAACATGTTTTTATATATGACT-TGTAACAACC
* * * * *
6711384 TAACCATGGCATGTAATATGTTTTTGCACATGGCATGTAACAACAGTA-TTTTTTTCAACATGA
1 TAACCATGGCGTGTAACATGTTTTTGTACATGTCGTGTAACAACAGTATTTTTTTTCAACATGA
6711447 CGCGTAACAA
Statistics
Matches: 148, Mismatches: 35, Indels: 5
0.79 0.19 0.03
Matches are distributed among these distances:
120 15 0.10
121 82 0.55
122 25 0.17
123 26 0.18
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (121 bp):
TAACCATGGCGTGTAACATGTTTTTGTACATGTCGTGTAACAACAGTATTTTTTTTCAACATGAA
ATGTAACAACCTAACCATAGTGTGTAACATGTTTTTATATATGACTTGTAACAACC
Found at i:6711744 original size:29 final size:30
Alignment explanation
Indices: 6711712--6711780 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 30
6711702 GAATATGACA
*
6711712 TGTAACAACAATA-TTTTTTCAATATAGTG
1 TGTAACAACAATATTTTTTTCAACATAGTG
** *
6711741 TGTAACATTAATATTTTTTTTCAACATGGTG
1 TGTAACAACAATA-TTTTTTTCAACATAGTG
6711772 TGTAACAAC
1 TGTAACAAC
6711781 CTTTGTAACC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
29 11 0.34
31 21 0.66
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.42
Consensus pattern (30 bp):
TGTAACAACAATATTTTTTTCAACATAGTG
Done.