Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 14 of 199
Found at i:4619357 original size:15 final size:14
Alignment explanation
Indices: 4619319--4619387 Score: 63
Period size: 15 Copynumber: 4.9 Consensus size: 14
4619309 ACTTTGAGTC
4619319 AAAA-AAAAA-GAA
1 AAAATAAAAATGAA
*
4619331 AAAAGAAGAAATGAGA
1 AAAATAA-AAATGA-A
4619347 AAAATAAAAATG-A
1 AAAATAAAAATGAA
4619360 AAAATGAAAAAATGAA
1 AAAAT--AAAAATGAA
*
4619376 AAAGTAAAAATG
1 AAAATAAAAATG
4619388 GAGAGGCTAA
Statistics
Matches: 48, Mismatches: 2, Indels: 12
0.77 0.03 0.19
Matches are distributed among these distances:
12 4 0.08
13 8 0.17
14 10 0.21
15 14 0.29
16 12 0.25
ACGTcount: A:0.75, C:0.00, G:0.14, T:0.10
Consensus pattern (14 bp):
AAAATAAAAATGAA
Found at i:4620672 original size:43 final size:43
Alignment explanation
Indices: 4620625--4620761 Score: 111
Period size: 43 Copynumber: 3.2 Consensus size: 43
4620615 AGAAACAGGT
4620625 CTTGCCTTCCTGCATTAACAGCGAAGCAGATAAAAAACAAAAC
1 CTTGCCTTCCTGCATTAACAGCGAAGCAGATAAAAAACAAAAC
* ** * * ** * *
4620668 CTTGCC-TCTCT-CGGTT-GTAGC-AGAGCTGGTTGAAGACAACAGAT
1 CTTGCCTTC-CTGC-ATTAACAGCGA-AGCAGATAAAAAACAA-A-AC
*
4620712 CTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAAACAAAAC
1 CTTGCCTTCCTGCATTAACAGCGAAGCAGATAAAAAACAAAAC
4620755 CTTGCCT
1 CTTGCCT
4620762 CTCTCGGTTG
Statistics
Matches: 67, Mismatches: 18, Indels: 18
0.65 0.17 0.17
Matches are distributed among these distances:
41 1 0.01
42 17 0.25
43 19 0.28
44 12 0.18
45 17 0.25
46 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (43 bp):
CTTGCCTTCCTGCATTAACAGCGAAGCAGATAAAAAACAAAAC
Found at i:4620764 original size:87 final size:87
Alignment explanation
Indices: 4620614--4621246 Score: 984
Period size: 87 Copynumber: 7.3 Consensus size: 87
4620604 GAACAGATCA
* **
4620614 AAGA-AACAGGTCTTGCCTTCCTGCATTAACAGCGAAGCAGATAAAAAACAAAACCTTGCCTCTC
1 AAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAACCTTGCCTCTC
4620678 TCGGTTGTAGCAGAGCTGGTTG
66 TCGGTTGTAGCAGAGCTGGTTG
*
4620700 AAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAAACAAAACCTTGCCTCTC
1 AAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAACCTTGCCTCTC
4620765 TCGGTTGTAGCAGAGCTGGTTG
66 TCGGTTGTAGCAGAGCTGGTTG
* *
4620787 AAGACAACAGATCTTGCCTTCCTGCATTAACAGTGAAGCAGATCGAAGACACAAACCTTGCCTCT
1 AAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACA-AAACCTTGCCTCT
4620852 CTCGGTTGTAGCAGAGCTGGTTG
65 CTCGGTTGTAGCAGAGCTGGTTG
* * * *
4620875 AAGATAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCACATCAAAAATAAAACCTTGCCTCTC
1 AAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAACCTTGCCTCTC
4620940 TCGGTTGTAGCAGAGCTGGTTG
66 TCGGTTGTAGCAGAGCTGGTTG
*
4620962 AAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCT
1 AAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACA-AAACCTTGCCTCT
4621027 CTCGGTTGTAGCAGAGCTGGTTG
65 CTCGGTTGTAGCAGAGCTGGTTG
* *
4621050 AAGACAACAGATCTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAAACAAAACTTTGCCTCTC
1 AAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAACCTTGCCTCTC
*
4621115 TCGGTTGTAGCAGAGCTAGTTG
66 TCGGTTGTAGCAGAGCTGGTTG
* * * * *
4621137 AAGACAGCAAATCTTGCCTTCCTGCGTTAATAGCGAAGCAGATCGAAAACAAAGCCTTGCCTC-C
1 AAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAACCTTGCCTCTC
* * *
4621201 ATCGGTTGCAG-TGAAGCTGGTTA
66 -TCGGTTGTAGCAG-AGCTGGTTG
* * *
4621224 AAGATAGCAAATCTTGCCTTCCT
1 AAGACAACAGATCTTGCCTTCCT
4621247 AAGTACTAGC
Statistics
Matches: 510, Mismatches: 32, Indels: 9
0.93 0.06 0.02
Matches are distributed among these distances:
86 6 0.01
87 338 0.66
88 166 0.33
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (87 bp):
AAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAACCTTGCCTCTC
TCGGTTGTAGCAGAGCTGGTTG
Found at i:4620914 original size:175 final size:175
Alignment explanation
Indices: 4620614--4621246 Score: 999
Period size: 175 Copynumber: 3.6 Consensus size: 175
4620604 GAACAGATCA
* ** *
4620614 AAGA-AACAGGTCTTGCCTTCCTGCATTAACAGCGAAGCAGATAAAAAACA-AAACCTTGCCTCT
1 AAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCT
4620677 CTCGGTTGTAGCAGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGA
66 CTCGGTTGTAGCAGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGA
4620742 TCAAAAACAAAACCTTGCCTCTCTCGGTTGTAGCAGAGCTGGTTG
131 TCAAAAACAAAACCTTGCCTCTCTCGGTTGTAGCAGAGCTGGTTG
*
4620787 AAGACAACAGATCTTGCCTTCCTGCATTAACAGTGAAGCAGATCGAAGACACAAACCTTGCCTCT
1 AAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCT
* *
4620852 CTCGGTTGTAGCAGAGCTGGTTGAAGATAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCACA
66 CTCGGTTGTAGCAGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGA
*
4620917 TCAAAAATAAAACCTTGCCTCTCTCGGTTGTAGCAGAGCTGGTTG
131 TCAAAAACAAAACCTTGCCTCTCTCGGTTGTAGCAGAGCTGGTTG
4620962 AAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCT
1 AAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCT
*
4621027 CTCGGTTGTAGCAGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTGCATTAACAACGAAGCAGA
66 CTCGGTTGTAGCAGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGA
* * *
4621092 TCGAAAACAAAACTTTGCCTCTCTCGGTTGTAGCAGAGCTAGTTG
131 TCAAAAACAAAACCTTGCCTCTCTCGGTTGTAGCAGAGCTGGTTG
* * * *
4621137 AAGACAGCAAATCTTGCCTTCCTGCGTTAATAGCGAAGCAGATCGAA-A-ACAAAGCCTTGCCTC
1 AAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACACAAA-CCTTGCCTC
* * * * * *
4621200 -CATCGGTTGCAG-TGAAGCTGGTTAAAGATAGCAAATCTTGCCTTCCT
65 TC-TCGGTTGTAGCAG-AGCTGGTTGAAGACAACAGATCTTGCCTTCCT
4621247 AAGTACTAGC
Statistics
Matches: 429, Mismatches: 26, Indels: 9
0.92 0.06 0.02
Matches are distributed among these distances:
173 11 0.03
174 88 0.21
175 330 0.77
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (175 bp):
AAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCT
CTCGGTTGTAGCAGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGA
TCAAAAACAAAACCTTGCCTCTCTCGGTTGTAGCAGAGCTGGTTG
Found at i:4621112 original size:262 final size:261
Alignment explanation
Indices: 4620614--4621271 Score: 993
Period size: 262 Copynumber: 2.5 Consensus size: 261
4620604 GAACAGATCA
* *
4620614 AAGAAACAGGTCTTGCCTTCCTGCATTAACAGCGAAGCAGATAAAAAACAAAACCTTGCCTCTCT
1 AAGAAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAAACAAAACCTTGCCTCTCT
4620679 CGGTTGTAGCAGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATC
66 CGGTTGTAGCAGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATC
* *
4620744 AAAAACAAAACCTTGCCTCTCTCGGTTGTAGCAGAGCTGGTTGAAGACAACAGATCTTGCCTTCC
131 GAAGACAAAACCTTGCCTCTCTCGGTTGTAGCAGAGCTGGTTGAAGACAACAGATCTTGCCTTCC
** * *
4620809 TGCATTAACAGTGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTGTAGCAGAGCTGGTT
196 TGCATTAACAACGAAGCAGATCGAAAACACAAACCTTGCCTCTCTCGGTTGTAGCAGAGCTAGTT
4620874 G
261 G
* *
4620875 AAGATAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCACATCAAAAATAAAACCTTGCCTCTC
1 AAGA-AACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAAACAAAACCTTGCCTCTC
4620940 TCGGTTGTAGCAGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGAT
65 TCGGTTGTAGCAGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGAT
4621005 CGAAGACACAAACCTTGCCTCTCTCGGTTGTAGCAGAGCTGGTTGAAGACAACAGATCTTGCCTT
130 CGAAGACA-AAACCTTGCCTCTCTCGGTTGTAGCAGAGCTGGTTGAAGACAACAGATCTTGCCTT
*
4621070 CCTGCATTAACAACGAAGCAGATCGAAAACA-AAACTTTGCCTCTCTCGGTTGTAGCAGAGCTAG
194 CCTGCATTAACAACGAAGCAGATCGAAAACACAAACCTTGCCTCTCTCGGTTGTAGCAGAGCTAG
4621134 TTG
259 TTG
* * * * * *
4621137 AAGACAGCAAATCTTGCCTTCCTGCGTTAATAGCGAAGCAGATCGAAAACAAAGCCTTGCCTC-C
1 AAGA-AACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAAACAAAACCTTGCCTCTC
* * * * * * * * *
4621201 ATCGGTTGCAG-TGAAGCTGGTTAAAGATAGCAAATCTTGCCTTCCT-AAGT-ACTAGCGGAGCA
65 -TCGGTTGTAGCAG-AGCTGGTTGAAGACAACAGATCTTGCCTTCCTGCATTAAC-AGCGAAGCA
4621263 GATCGAAGA
127 GATCGAAGA
4621272 TGGTGAATCT
Statistics
Matches: 363, Mismatches: 29, Indels: 10
0.90 0.07 0.02
Matches are distributed among these distances:
260 2 0.01
261 25 0.07
262 252 0.69
263 84 0.23
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (261 bp):
AAGAAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAAACAAAACCTTGCCTCTCT
CGGTTGTAGCAGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATC
GAAGACAAAACCTTGCCTCTCTCGGTTGTAGCAGAGCTGGTTGAAGACAACAGATCTTGCCTTCC
TGCATTAACAACGAAGCAGATCGAAAACACAAACCTTGCCTCTCTCGGTTGTAGCAGAGCTAGTT
G
Found at i:4621307 original size:44 final size:44
Alignment explanation
Indices: 4621259--4621573 Score: 180
Period size: 44 Copynumber: 7.3 Consensus size: 44
4621249 GTACTAGCGG
* * * * *
4621259 AGCAGATCGAAGATGGTGAATCTTATCTTCTTAAGCAGTAGTGA
1 AGCAGATCGAAGACGGCGAATCCTATCTCCCTAAGCAGTAGTGA
** ** * * *
4621303 AGCAGATTTAAG-CCACCAGTCCTATCTCCCTAAGCAGTAGTGG
1 AGCAGATCGAAGACGGCGAATCCTATCTCCCTAAGCAGTAGTGA
* * ** *
4621346 AGCAGGTCGAAGA-TGTTAGATCCTATCTCCCTAAGCAGTAGTGG
1 AGCAGATCGAAGACGGCGA-ATCCTATCTCCCTAAGCAGTAGTGA
* * *
4621390 AGTAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTGA
1 AGCAGATCGAAGACGGCGAATCCTATCTCCCTAAGCAGTAGTGA
** ** * * *
4621434 AGCAGATTTAAG-CCACCAGTCCTATCTCCCTAAGCAGTAGTGG
1 AGCAGATCGAAGACGGCGAATCCTATCTCCCTAAGCAGTAGTGA
* * * * **
4621477 AGTAGGTCAAAGA-TGTTAGATCCTATCTCCCTAAGCAGTAGT-A
1 AGCAGATCGAAGACGGCGA-ATCCTATCTCCCTAAGCAGTAGTGA
* * * * * *
4621520 GAGTAGATCGTA-TC--AG-ATCTTATCTCCCTAAGCAGTAGTGG
1 -AGCAGATCGAAGACGGCGAATCCTATCTCCCTAAGCAGTAGTGA
*
4621561 AGTAGATCGAAGA
1 AGCAGATCGAAGA
4621574 TGGTGAATTT
Statistics
Matches: 204, Mismatches: 58, Indels: 21
0.72 0.20 0.07
Matches are distributed among these distances:
40 32 0.16
43 64 0.31
44 106 0.52
45 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (44 bp):
AGCAGATCGAAGACGGCGAATCCTATCTCCCTAAGCAGTAGTGA
Found at i:4621399 original size:131 final size:131
Alignment explanation
Indices: 4621257--4621529 Score: 483
Period size: 131 Copynumber: 2.1 Consensus size: 131
4621247 AAGTACTAGC
* * * *
4621257 GGAGCAGATCGAAGATGGTGAATCTTATCTTCTTAAGCAGTAGTGAAGCAGATTTAAGCCACCAG
1 GGAGTAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAG
*
4621322 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGTTAGATCCTATCTCCCTAAGCAGTAG
66 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGTTAGATCCTATCTCCCTAAGCAGTAG
4621387 T
131 T
4621388 GGAGTAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAG
1 GGAGTAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAG
*
4621453 TCCTATCTCCCTAAGCAGTAGTGGAGTAGGTCAAAGATGTTAGATCCTATCTCCCTAAGCAGTAG
66 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGTTAGATCCTATCTCCCTAAGCAGTAG
4621518 T
131 T
*
4621519 AGAGTAGATCG
1 GGAGTAGATCG
4621530 TATCAGATCT
Statistics
Matches: 135, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
131 135 1.00
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.25
Consensus pattern (131 bp):
GGAGTAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAG
TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGTTAGATCCTATCTCCCTAAGCAGTAG
T
Found at i:4621459 original size:87 final size:84
Alignment explanation
Indices: 4621363--4621573 Score: 239
Period size: 87 Copynumber: 2.5 Consensus size: 84
4621353 CGAAGATGTT
* *
4621363 AGATCCTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGCGA-ATCTTATCTTCCTAAGCA
1 AGATCCTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGA-GGCGAGATCCTATCTCCCTAAGCA
4621427 GTAGT-GAAGCAGATTTAAGCCACC
65 GTAGTAG-AGCAGA--T-AG-CACC
* * * **
4621451 AG-TCCTATCTCCCTAAGCAGTAGTGGAGTAGGTCAAAGATGTTAGATCCTATCTCCCTAAGCAG
1 AGATCCTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGAGGCGAGATCCTATCTCCCTAAGCAG
* * * *
4621515 TAGTAGAGTAGATCGTATC
66 TAGTAGAGCAGATAGCACC
*
4621534 AGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGA
1 AGATCCTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGA
4621574 TGGTGAATTT
Statistics
Matches: 106, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
83 4 0.04
84 35 0.33
85 1 0.01
86 2 0.02
87 61 0.58
88 3 0.03
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (84 bp):
AGATCCTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGAGGCGAGATCCTATCTCCCTAAGCAG
TAGTAGAGCAGATAGCACC
Found at i:4621549 original size:40 final size:41
Alignment explanation
Indices: 4621322--4621570 Score: 189
Period size: 44 Copynumber: 5.8 Consensus size: 41
4621312 AAGCCACCAG
* * * *
4621322 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGTTAGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGTAGATC---GATATCAGA
* *
4621366 TCCTATCTCCCTAAGCAGTAGTGGAGTAGATCGA-AGACGGCGAA
1 TCCTATCTCCCTAAGCAGTAGTGGAGTAGATCGATA-TC--AG-A
* * * * ** * *
4621410 TCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTA-AGCCACCA
1 TCCTATCTCCCTAAGCAGTAGTGGAGTAGATCGATA-TCA-GA
* * *
4621452 GTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTCAAAGATGTTAGA
1 -TCCTATCTCCCTAAGCAGTAGTGGAGTAGATC---GATATCAGA
*
4621497 TCCTATCTCCCTAAGCAGTAGTAGAGTAGATCG-TATCAGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGTAGATCGATATCAGA
*
4621537 TCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGTAGATCGA
4621571 AGATGGTGAA
Statistics
Matches: 162, Mismatches: 32, Indels: 25
0.74 0.15 0.11
Matches are distributed among these distances:
40 36 0.22
41 3 0.02
42 1 0.01
43 27 0.17
44 92 0.57
45 1 0.01
46 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (41 bp):
TCCTATCTCCCTAAGCAGTAGTGGAGTAGATCGATATCAGA
Found at i:4631085 original size:18 final size:17
Alignment explanation
Indices: 4631058--4631092 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
4631048 ATTCATAATG
4631058 TTTAATATTATGTTATT
1 TTTAATATTATGTTATT
4631075 TTTACATATTATGTTATT
1 TTTA-ATATTATGTTATT
4631093 CATAACACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.63
Consensus pattern (17 bp):
TTTAATATTATGTTATT
Found at i:4634058 original size:13 final size:12
Alignment explanation
Indices: 4634022--4634069 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 12
4634012 TGAGAAGTGT
*
4634022 TTTTAAAAAATA
1 TTTTGAAAAATA
*
4634034 TTGTGAAAAAATGA
1 TTTTG-AAAAAT-A
4634048 TTTTGAAAAATA
1 TTTTGAAAAATA
4634060 CTTTTGAAAA
1 -TTTTGAAAA
4634070 GTTTGGTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
12 4 0.13
13 21 0.70
14 5 0.17
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.38
Consensus pattern (12 bp):
TTTTGAAAAATA
Found at i:4642647 original size:21 final size:22
Alignment explanation
Indices: 4642621--4642667 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
4642611 CTAGTAAAGG
4642621 GGAAAAAT-TAGAGTTT-TACAT
1 GGAAAAATATA-AGTTTCTACAT
4642642 GGAAAAATATAAGTTTCTACAT
1 GGAAAAATATAAGTTTCTACAT
4642664 GGAA
1 GGAA
4642668 TTGAGTTACA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 13 0.54
22 11 0.46
ACGTcount: A:0.45, C:0.06, G:0.19, T:0.30
Consensus pattern (22 bp):
GGAAAAATATAAGTTTCTACAT
Found at i:4646718 original size:7 final size:7
Alignment explanation
Indices: 4646706--4646730 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
4646696 AGTTTTTAAA
4646706 AAAAAAT
1 AAAAAAT
4646713 AAAAAAT
1 AAAAAAT
4646720 AAAAAAT
1 AAAAAAT
4646727 AAAA
1 AAAA
4646731 TTAAACCTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:4647710 original size:13 final size:13
Alignment explanation
Indices: 4647692--4647744 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 13
4647682 TATTATGTAT
4647692 ATTTAATCAATTA
1 ATTTAATCAATTA
* *
4647705 ATTTAATTAATTG
1 ATTTAATCAATTA
*
4647718 ATTTAACTAAATTA
1 ATTTAA-TCAATTA
*
4647732 ATTT-TTCAATTA
1 ATTTAATCAATTA
4647744 A
1 A
4647745 AATATTTTGT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
12 7 0.21
13 17 0.52
14 9 0.27
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.49
Consensus pattern (13 bp):
ATTTAATCAATTA
Found at i:4650356 original size:23 final size:24
Alignment explanation
Indices: 4650303--4650357 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 24
4650293 TATTAGCTTG
4650303 CAATTATAATCAATATATACATAT
1 CAATTATAATCAATATATACATAT
* * *
4650327 -AACTATAATCAATATATCCGT-T
1 CAATTATAATCAATATATACATAT
4650349 CAATTATAA
1 CAATTATAA
4650358 ACATAATCGA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 1 0.04
23 25 0.96
ACGTcount: A:0.47, C:0.15, G:0.02, T:0.36
Consensus pattern (24 bp):
CAATTATAATCAATATATACATAT
Found at i:4654579 original size:16 final size:17
Alignment explanation
Indices: 4654545--4654581 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
4654535 TAAAAATATA
4654545 AAAAATTTAAATTTATT
1 AAAAATTTAAATTTATT
4654562 AAAAA-TTAGAATTT-TT
1 AAAAATTTA-AATTTATT
4654578 AAAA
1 AAAA
4654582 GAAAATCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (17 bp):
AAAAATTTAAATTTATT
Found at i:4654879 original size:19 final size:18
Alignment explanation
Indices: 4654855--4654952 Score: 72
Period size: 19 Copynumber: 5.1 Consensus size: 18
4654845 TTTCTATATA
4654855 TTTTATAATTTTTTAAGAT
1 TTTTATAATTTTTTAA-AT
**
4654874 TTTTATAAAATTTTACAA-
1 TTTTATAATTTTTTA-AAT
* *
4654892 TTTTACAATTTTTTTATGAT
1 TTTTATAA-TTTTTTA-AAT
*
4654912 TTTTATATATTTTTCTAATT
1 TTTTATA-ATTTTT-TAAAT
*
4654932 TTTTCTAATTTTTTAATAT
1 TTTTATAATTTTTTAA-AT
4654951 TT
1 TT
4654953 GAATTTTTAA
Statistics
Matches: 61, Mismatches: 12, Indels: 12
0.72 0.14 0.14
Matches are distributed among these distances:
18 10 0.16
19 29 0.48
20 19 0.31
21 3 0.05
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (18 bp):
TTTTATAATTTTTTAAAT
Found at i:4654879 original size:46 final size:48
Alignment explanation
Indices: 4654791--4654888 Score: 130
Period size: 46 Copynumber: 2.1 Consensus size: 48
4654781 TTTTACGAAA
* *
4654791 TTTATATTTCTTTACATTTTGTATAATTTTCTTACGACTTTATAAAAT
1 TTTATATTTCTATACATTTTGTATAATTTTCTTAAGACTTTATAAAAT
* *
4654839 TTTATATTTCTATATA-TTT-TATAATTTT-TTAAGATTTTTATAAAAT
1 TTTATATTTCTATACATTTTGTATAATTTTCTTAAGA-CTTTATAAAAT
4654885 TTTA
1 TTTA
4654889 CAATTTTACA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
45 5 0.11
46 23 0.51
47 3 0.07
48 14 0.31
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (48 bp):
TTTATATTTCTATACATTTTGTATAATTTTCTTAAGACTTTATAAAAT
Found at i:4654959 original size:16 final size:17
Alignment explanation
Indices: 4654938--4654970 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
4654928 AATTTTTTCT
4654938 AATTTTT-TAATATTTG
1 AATTTTTATAATATTTG
4654954 AATTTTTAATAATATTT
1 AATTTTT-ATAATATTT
4654971 AATACTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
AATTTTTATAATATTTG
Found at i:4660245 original size:28 final size:27
Alignment explanation
Indices: 4660190--4660255 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 27
4660180 AAAATTGAAA
4660190 TATTAAATAATTTTTAAAATAATAAAT
1 TATTAAATAATTTTTAAAATAATAAAT
*
4660217 TATTAATATAATTTATT-ATATGAAT-AAT
1 TATTAA-ATAATTT-TTAAAAT-AATAAAT
4660245 TA-TAAATAATT
1 TATTAAATAATT
4660256 AAATATGGAT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
26 6 0.17
27 9 0.26
28 15 0.43
29 5 0.14
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (27 bp):
TATTAAATAATTTTTAAAATAATAAAT
Found at i:4674709 original size:14 final size:15
Alignment explanation
Indices: 4674683--4674712 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
4674673 ATTTAATTTT
4674683 AATAATAAATTTTAA
1 AATAATAAATTTTAA
4674698 AATAAT-AATTTTAA
1 AATAATAAATTTTAA
4674712 A
1 A
4674713 TCTTAAGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
AATAATAAATTTTAA
Found at i:4674713 original size:13 final size:13
Alignment explanation
Indices: 4674676--4674713 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
4674666 TCTTACAATT
4674676 TAATTTT-AATAA
1 TAATTTTAAATAA
4674688 TAAATTTTAAAATAA
1 T-AATTTT-AAATAA
4674703 TAATTTTAAAT
1 TAATTTTAAAT
4674714 CTTAAGTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 1 0.04
13 10 0.43
14 6 0.26
15 6 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
TAATTTTAAATAA
Found at i:4674833 original size:23 final size:23
Alignment explanation
Indices: 4674806--4674852 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
4674796 ATTAATAATA
4674806 AATATTTTATAGTATA-AAATATG
1 AATATTTTA-AGTATATAAATATG
*
4674829 AATATTTTAATTATATAAATATG
1 AATATTTTAAGTATATAAATATG
4674852 A
1 A
4674853 GTATCTGTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.23
23 17 0.77
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (23 bp):
AATATTTTAAGTATATAAATATG
Found at i:4680903 original size:15 final size:13
Alignment explanation
Indices: 4680875--4680916 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 13
4680865 TATTATTAAC
4680875 AAATATTTTAATA
1 AAATATTTTAATA
4680888 AAATA-TTTAATA
1 AAATATTTTAATA
4680900 ATAATACTTTTCAATA
1 A-AATA-TTTT-AATA
4680916 A
1 A
4680917 TCTTTATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 8 0.32
13 9 0.36
15 3 0.12
16 5 0.20
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (13 bp):
AAATATTTTAATA
Found at i:4694764 original size:26 final size:26
Alignment explanation
Indices: 4694735--4694786 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
4694725 TAGCCATGAC
4694735 ATGACCATGTGATTTTCAATCTTCCA
1 ATGACCATGTGATTTTCAATCTTCCA
4694761 ATGACCATGTGATTTTCAATCTTCCA
1 ATGACCATGTGATTTTCAATCTTCCA
4694787 CATGCGATAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.38
Consensus pattern (26 bp):
ATGACCATGTGATTTTCAATCTTCCA
Found at i:4701333 original size:17 final size:18
Alignment explanation
Indices: 4701299--4701334 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
4701289 TCATTGAAGT
4701299 TAATTTTATAAGTTTTAA
1 TAATTTTATAAGTTTTAA
*
4701317 TAATTTT-TAATTTTTAA
1 TAATTTTATAAGTTTTAA
4701334 T
1 T
4701335 TTTTATTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (18 bp):
TAATTTTATAAGTTTTAA
Found at i:4706931 original size:373 final size:377
Alignment explanation
Indices: 4706200--4706946 Score: 1027
Period size: 373 Copynumber: 2.0 Consensus size: 377
4706190 AATCTAGAGT
* * * *
4706200 CAAGGAAAGAACCTATTACAATGTTATCCAGGTATAATAACCCTAACACCTAACCTGAAATTAGG
1 CAAGGAAAGAACCTAATACAATGTGATCCAGGTATAATAACCCTAACACCAAACCTGAAATCAGG
* * * * * *
4706265 TCCAAAATAATTTGATAAATTCCATATTATATAGCAACAAATTAAAAATTGAAGATAAAGATTTG
66 TCCAAAACAAATTGACAAATTCCATATTATATAGAAACAAATTAAAAATTAAAAATAAAGATTTG
*
4706330 AGATTTTACGCACAAAGTGAATATAAATACATTAAACACATACGCATTAGCAACACAATTATAAC
131 AGATTTTA-GCACAAAGTCAATATAAATA-ATTAAACACATA-GCATTAGCAACACAATTATAAC
* *
4706395 TTGATAACAACATTAGAAATTTTGATCACTTATGGAGAGTACAATACTATGTATATTAGCATGTA
193 TTGATAACAAAATTAGAAATTTTGATCACTTATGGAGAGTACAATACTATGTATATTAGCATGCA
*
4706460 TGACCACTTCCATCACGTACAGGATTATAATCTAGTTAGAATATTATTAAATTTTCATGCACAAG
258 TGACCACTTCCATCACG-ACAGGATTATAATCTAGTTAGAATATTATTAAATTTTCATGAACAAG
* *
4706525 TAGTAATTACAAACAAAAGCATGTGCTTAACACAAATAGTAAAAAGTTTCTACAGC
322 TAGTAATTACAAACAAAAGCATGTGCATAACACAAATACTAAAAAGTTTCTACAGC
* * *
4706581 CAAGGAAAGAACTTAATACAATGTGATCCTGGTATAAATAACCCTAATACCAAACCTGAAATCAG
1 CAAGGAAAGAACCTAATACAATGTGATCCAGGTAT-AATAACCCTAACACCAAACCTGAAATCAG
* *
4706646 GTCCAAAACAAATTGACAAATTCCATATTATATAGAAACAAATTATAAATTAAAAATAAAGCTTT
65 GTCCAAAACAAATTGACAAATTCCATATTATATAGAAACAAATTAAAAATTAAAAATAAAGATTT
* * * *
4706711 GATATTTT-G-ACCAATTCACA-A-GAAT-A-TAAACACAT-GCATTAGCAACACAATTATAACT
130 GAGATTTTAGCACAAAGTCA-ATATAAATAATTAAACACATAGCATTAGCAACACAATTATAACT
*
4706769 TGATAACAAAATTAGAGATTTTGATCACTTGA-GGAG-GATACAATACTACT-TATATTAGCATG
194 TGATAACAAAATTAGAAATTTTGATCACTT-ATGGAGAG-TACAATACTA-TGTATATTAGCATG
4706831 CATGACCACTTCCATCAC-ACA-GATTATAATCTAGTTAGAATATTATT-AATTTTCCATGAACA
256 CATGACCACTTCCATCACGACAGGATTATAATCTAGTTAGAATATTATTAAATTTT-CATGAACA
*
4706893 GAG-AGTAATTACAAACAACAAAAGCATGTGCATAACACAAATACTAAAACGTTT
320 -AGTAGTAATTAC--A-AACAAAAGCATGTGCATAACACAAATACTAAAAAGTTT
4706947 AAAACATTTA
Statistics
Matches: 329, Mismatches: 27, Indels: 28
0.86 0.07 0.07
Matches are distributed among these distances:
369 6 0.02
370 42 0.13
371 5 0.02
372 2 0.01
373 129 0.39
374 2 0.01
375 9 0.03
376 1 0.00
378 3 0.01
379 7 0.02
380 2 0.01
381 31 0.09
382 90 0.27
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (377 bp):
CAAGGAAAGAACCTAATACAATGTGATCCAGGTATAATAACCCTAACACCAAACCTGAAATCAGG
TCCAAAACAAATTGACAAATTCCATATTATATAGAAACAAATTAAAAATTAAAAATAAAGATTTG
AGATTTTAGCACAAAGTCAATATAAATAATTAAACACATAGCATTAGCAACACAATTATAACTTG
ATAACAAAATTAGAAATTTTGATCACTTATGGAGAGTACAATACTATGTATATTAGCATGCATGA
CCACTTCCATCACGACAGGATTATAATCTAGTTAGAATATTATTAAATTTTCATGAACAAGTAGT
AATTACAAACAAAAGCATGTGCATAACACAAATACTAAAAAGTTTCTACAGC
Found at i:4707067 original size:84 final size:84
Alignment explanation
Indices: 4706923--4707083 Score: 227
Period size: 84 Copynumber: 1.9 Consensus size: 84
4706913 AAAGCATGTG
* *
4706923 CATAACACAAATACTAAAACGTTTAAAACATTTACATGAAATGATTGAATTTTAATATATTAAAA
1 CATAACACAAATACTAAAACGTTTAAAACATTTACATGAAATAATTGAATTTTAAAATATTAAAA
4706988 GAAAGG-AGAATCCTGTACC
66 G-AAGGAAGAATCCTGTACC
* * * * *
4707007 CATAACACAAATAGT-ACACTGTTTAAATCATTTCCATGAAATAATTGGATTTTAAAATATTAAA
1 CATAACACAAATACTAAAAC-GTTTAAAACATTTACATGAAATAATTGAATTTTAAAATATTAAA
4707071 AGAAGGAAGAATC
65 AGAAGGAAGAATC
4707084 TTGCATCCAC
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
83 7 0.10
84 61 0.90
ACGTcount: A:0.47, C:0.12, G:0.11, T:0.29
Consensus pattern (84 bp):
CATAACACAAATACTAAAACGTTTAAAACATTTACATGAAATAATTGAATTTTAAAATATTAAAA
GAAGGAAGAATCCTGTACC
Found at i:4712652 original size:36 final size:36
Alignment explanation
Indices: 4712595--4712677 Score: 130
Period size: 36 Copynumber: 2.3 Consensus size: 36
4712585 ATCAACTGGA
* * *
4712595 CTACAGCTGCGAATAGGGGTTCGACTTCGACTTGGG
1 CTACGGCTGCGAATAGAGGTTCGACTACGACTTGGG
4712631 CTACGGCTGCGAATAGAGGTTCGACTACGACTTGGG
1 CTACGGCTGCGAATAGAGGTTCGACTACGACTTGGG
*
4712667 CTACGACTGCG
1 CTACGGCTGCG
4712678 GCTATGACCA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 43 1.00
ACGTcount: A:0.20, C:0.24, G:0.33, T:0.23
Consensus pattern (36 bp):
CTACGGCTGCGAATAGAGGTTCGACTACGACTTGGG
Found at i:4713402 original size:36 final size:36
Alignment explanation
Indices: 4713355--4713466 Score: 104
Period size: 36 Copynumber: 3.2 Consensus size: 36
4713345 CTCCTACTTA
4713355 TGCTTCTCCTAGAAGATCTTACAGGACTTCTGCTAG
1 TGCTTCTCCTAGAAGATCTTACAGGACTTCTGCTAG
* ** * *
4713391 TGCTTCTCCT---AGACCTTATGGGGCTTCTGCTAA
1 TGCTTCTCCTAGAAGATCTTACAGGACTTCTGCTAG
* * * * * *
4713424 TGCTTCTCCGAGAATATCTTGCAGGACTTTTACTTG
1 TGCTTCTCCTAGAAGATCTTACAGGACTTCTGCTAG
4713460 TGCTTCT
1 TGCTTCT
4713467 TTTTGAAAGT
Statistics
Matches: 57, Mismatches: 16, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
33 27 0.47
36 30 0.53
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.38
Consensus pattern (36 bp):
TGCTTCTCCTAGAAGATCTTACAGGACTTCTGCTAG
Found at i:4725355 original size:23 final size:24
Alignment explanation
Indices: 4725306--4725355 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 24
4725296 AATTTAAATT
*
4725306 AAAAATATTAATATACATAATTTAA
1 AAAAATATTAATATACATAA-TAAA
4725331 AAAAATATTAAT-TAC-T-ATAAA
1 AAAAATATTAATATACATAATAAA
4725352 AAAA
1 AAAA
4725356 TTATGAGTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 7 0.29
22 1 0.04
23 1 0.04
24 3 0.12
25 12 0.50
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (24 bp):
AAAAATATTAATATACATAATAAA
Found at i:4730781 original size:25 final size:26
Alignment explanation
Indices: 4730753--4730809 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
4730743 CCCGTTATAT
4730753 GGCTCTTCATGAGCTTCCCGA-TAAA
1 GGCTCTTCATGAGCTTCCCGATTAAA
** * *
4730778 GGCTCTTTGTGAGCTTCCTGATTAAT
1 GGCTCTTCATGAGCTTCCCGATTAAA
4730804 GGCTCT
1 GGCTCT
4730810 CCGGATCTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
25 18 0.67
26 9 0.33
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.35
Consensus pattern (26 bp):
GGCTCTTCATGAGCTTCCCGATTAAA
Found at i:4731854 original size:21 final size:21
Alignment explanation
Indices: 4731813--4731874 Score: 97
Period size: 21 Copynumber: 2.9 Consensus size: 21
4731803 GATTTAACTT
*
4731813 TTCTTCTTCTTCTTCTTCTTCAG
1 TTCTTCTT-TT-TTTTTCTTCAG
4731836 TTCTTCTTTTTTTTTCTTCAG
1 TTCTTCTTTTTTTTTCTTCAG
4731857 TTCTTCTTTTTTTTTCTT
1 TTCTTCTTTTTTTTTCTT
4731875 TTTAAGTTCC
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
21 28 0.74
22 2 0.05
23 8 0.21
ACGTcount: A:0.03, C:0.23, G:0.03, T:0.71
Consensus pattern (21 bp):
TTCTTCTTTTTTTTTCTTCAG
Found at i:4733000 original size:18 final size:18
Alignment explanation
Indices: 4732977--4733012 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
4732967 TACATAGATT
4732977 TTTTAATATCTATTTAAA
1 TTTTAATATCTATTTAAA
4732995 TTTTAATATCTATTTAAA
1 TTTTAATATCTATTTAAA
4733013 ATTGGCGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTTAATATCTATTTAAA
Found at i:4735882 original size:9 final size:9
Alignment explanation
Indices: 4735868--4735898 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
4735858 GTAGTGATTC
*
4735868 AATTCGGGT
1 AATTCGGTT
4735877 AATTCGGTT
1 AATTCGGTT
4735886 AATTCGGTT
1 AATTCGGTT
4735895 AATT
1 AATT
4735899 TTTAACTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.26, C:0.10, G:0.23, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:4737493 original size:18 final size:18
Alignment explanation
Indices: 4737470--4737505 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
4737460 TAATTTAAAT
4737470 ATGAATTTATAGATTAAG
1 ATGAATTTATAGATTAAG
4737488 ATGAATTTATAGATTAAG
1 ATGAATTTATAGATTAAG
4737506 TTAGAAAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.17, T:0.39
Consensus pattern (18 bp):
ATGAATTTATAGATTAAG
Found at i:4746093 original size:23 final size:23
Alignment explanation
Indices: 4746028--4746094 Score: 61
Period size: 23 Copynumber: 3.0 Consensus size: 23
4746018 TTTCACTATT
*
4746028 TAATTTCCTTTGTT-TTCATATTC
1 TAATTTTCTTTGTTGTTCAT-TTC
* *
4746051 -GA-TTTCTTTG-TGTTAGATTTC
1 TAATTTTCTTTGTTGTT-CATTTC
4746072 TAATTTTCTTTGTTGTTCATTTC
1 TAATTTTCTTTGTTGTTCATTTC
4746095 AAGTCCTAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 10
0.69 0.10 0.20
Matches are distributed among these distances:
20 1 0.03
21 12 0.35
22 4 0.12
23 13 0.38
24 4 0.12
ACGTcount: A:0.15, C:0.13, G:0.10, T:0.61
Consensus pattern (23 bp):
TAATTTTCTTTGTTGTTCATTTC
Found at i:4746602 original size:19 final size:19
Alignment explanation
Indices: 4746560--4746602 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
4746550 TCTATTTATT
*
4746560 TTTAATTCATTTTATTCTA
1 TTTAATTCATTTTATACTA
*
4746579 GTTAATT-ATTTTTATACTA
1 TTTAATTCA-TTTTATACTA
4746598 TTTAA
1 TTTAA
4746603 GATTAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 1 0.05
19 19 0.95
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.60
Consensus pattern (19 bp):
TTTAATTCATTTTATACTA
Found at i:4752407 original size:43 final size:43
Alignment explanation
Indices: 4752287--4752486 Score: 201
Period size: 43 Copynumber: 4.7 Consensus size: 43
4752277 GCGCCGGAAA
* * * *
4752287 AAACGCCGCTAAAGACTATGACCTTTAGCGGCGC-TTTCCCAC
1 AAACGCCACTAAAGACCAAGACCTTTAGCGGAGCTTTTCCCAC
* * *
4752329 AAACACCACT-AAGACCAAGATCTTTAGC-GATGCTTTCCCCAC
1 AAACGCCACTAAAGACCAAGACCTTTAGCGGA-GCTTTTCCCAC
* *
4752371 AAACGCCACTAAATACCAAGACCTTTAACGGAGCTTTTCCCAC
1 AAACGCCACTAAAGACCAAGACCTTTAGCGGAGCTTTTCCCAC
* ** * * **
4752414 AAATGCCACTGTAGACCATGACCTTTAGCGGCGCTTTTATCAC
1 AAACGCCACTAAAGACCAAGACCTTTAGCGGAGCTTTTCCCAC
* *
4752457 AAACGCCGCTAAAGAACAA-ACCTTTAGCGG
1 AAACGCCACTAAAGACCAAGACCTTTAGCGG
4752487 CGCTACTAGC
Statistics
Matches: 127, Mismatches: 27, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
40 1 0.01
41 17 0.13
42 35 0.28
43 72 0.57
44 2 0.02
ACGTcount: A:0.32, C:0.31, G:0.16, T:0.21
Consensus pattern (43 bp):
AAACGCCACTAAAGACCAAGACCTTTAGCGGAGCTTTTCCCAC
Found at i:4752523 original size:41 final size:42
Alignment explanation
Indices: 4752434--4752523 Score: 121
Period size: 41 Copynumber: 2.2 Consensus size: 42
4752424 GTAGACCATG
** *
4752434 ACCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGAACAA
1 ACCTTTAGCGGCGCTACTAGCACAAACGCCGCTAAAGAACAA
4752476 ACCTTTAGCGGCGCTACTAGCA-AAACGCCGCTAAA-AACATA
1 ACCTTTAGCGGCGCTACTAGCACAAACGCCGCTAAAGAACA-A
*
4752517 ATCTTTA
1 ACCTTTA
4752524 AAAAAAATTA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
40 4 0.09
41 20 0.47
42 19 0.44
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.22
Consensus pattern (42 bp):
ACCTTTAGCGGCGCTACTAGCACAAACGCCGCTAAAGAACAA
Found at i:4755080 original size:30 final size:30
Alignment explanation
Indices: 4755045--4755104 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
4755035 AGAATGTTCA
4755045 TTTTGAACACTTCAATGCCATTTACTGCAT
1 TTTTGAACACTTCAATGCCATTTACTGCAT
4755075 TTTTGAACACTTCAATGCCATTTACTGCAT
1 TTTTGAACACTTCAATGCCATTTACTGCAT
4755105 CATAATAAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (30 bp):
TTTTGAACACTTCAATGCCATTTACTGCAT
Found at i:4757060 original size:7 final size:7
Alignment explanation
Indices: 4757050--4757074 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
4757040 ACTAACTTTT
4757050 AACCCCA
1 AACCCCA
4757057 AACCCCA
1 AACCCCA
4757064 AACCCCA
1 AACCCCA
4757071 AACC
1 AACC
4757075 TTATTTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.56, G:0.00, T:0.00
Consensus pattern (7 bp):
AACCCCA
Found at i:4757322 original size:14 final size:15
Alignment explanation
Indices: 4757305--4757338 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
4757295 CTTAAATCAG
4757305 AATCTCTAA-TCCAT
1 AATCTCTAATTCCAT
4757319 AATCTCTAATTCCAT
1 AATCTCTAATTCCAT
4757334 AATCT
1 AATCT
4757339 ATAAACCTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.35, C:0.26, G:0.00, T:0.38
Consensus pattern (15 bp):
AATCTCTAATTCCAT
Found at i:4757898 original size:40 final size:39
Alignment explanation
Indices: 4757853--4757989 Score: 125
Period size: 40 Copynumber: 3.4 Consensus size: 39
4757843 TGTGCTTAGG
*
4757853 TTTTTAACGGCGTTTTTCCAAAAAACGCCGCTAATGCTCA
1 TTTTTAGCGGCGTTTTT-CAAAAAACGCCGCTAATGCTCA
** * *
4757893 TTTTTAGCGGC-ACTTT-AATAAAAGCGCCACTAATGCTTGA
1 TTTTTAGCGGCGTTTTTCAA-AAAA-CGCCGCTAATGC-TCA
* * ** *
4757933 TCTTTAGCGGCGTTTTACGTAAAGCGCCGCTAATGCTCCA
1 TTTTTAGCGGCGTTTTTCAAAAAACGCCGCTAATGCT-CA
4757973 TTTTTAGCGGCGTTTTT
1 TTTTTAGCGGCGTTTTT
4757990 TGTCCAAACG
Statistics
Matches: 75, Mismatches: 16, Indels: 12
0.73 0.16 0.12
Matches are distributed among these distances:
37 2 0.03
38 4 0.05
39 15 0.20
40 49 0.65
41 5 0.07
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (39 bp):
TTTTTAGCGGCGTTTTTCAAAAAACGCCGCTAATGCTCA
Found at i:4757927 original size:39 final size:40
Alignment explanation
Indices: 4757873--4757983 Score: 127
Period size: 40 Copynumber: 2.8 Consensus size: 40
4757863 CGTTTTTCCA
*
4757873 AAAAACGCCGCTAATGCTCATTTTTAGCGGCACTTTA-AT
1 AAAAGCGCCGCTAATGCTCATTTTTAGCGGCACTTTACAT
* * * ** *
4757912 AAAAGCGCCACTAATGCTTGATCTTTAGCGGCGTTTTACGT
1 AAAAGCGCCGCTAATGC-TCATTTTTAGCGGCACTTTACAT
4757953 -AAAGCGCCGCTAATGCTCCATTTTTAGCGGC
1 AAAAGCGCCGCTAATGCT-CATTTTTAGCGGC
4757984 GTTTTTTGTC
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.27
40 42 0.71
41 1 0.02
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (40 bp):
AAAAGCGCCGCTAATGCTCATTTTTAGCGGCACTTTACAT
Found at i:4758012 original size:12 final size:12
Alignment explanation
Indices: 4757995--4758020 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4757985 TTTTTTGTCC
4757995 AAACGCCGCTAA
1 AAACGCCGCTAA
4758007 AAACGCCGCTAA
1 AAACGCCGCTAA
4758019 AA
1 AA
4758021 GCCTGTTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAACGCCGCTAA
Found at i:4774667 original size:3 final size:3
Alignment explanation
Indices: 4774659--4774687 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
4774649 GCTGTAAGTA
4774659 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
4774688 AAGAAGCTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:4775423 original size:31 final size:31
Alignment explanation
Indices: 4775385--4775454 Score: 113
Period size: 31 Copynumber: 2.3 Consensus size: 31
4775375 TCGAAAAGTG
*
4775385 TACCCAATTGAGTCAATTGAATCATAATTTC
1 TACCCAATTGAGCCAATTGAATCATAATTTC
* *
4775416 TACCCAATTGAGCCATTTGAATCATGATTTC
1 TACCCAATTGAGCCAATTGAATCATAATTTC
4775447 TACCCAAT
1 TACCCAAT
4775455 AAAGCCCCTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.34
Consensus pattern (31 bp):
TACCCAATTGAGCCAATTGAATCATAATTTC
Found at i:4775686 original size:30 final size:31
Alignment explanation
Indices: 4775652--4775717 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 31
4775642 TTAAAAATAT
* * *
4775652 AAATTAAAAAAATCATTA-AAAAATTATTAG
1 AAATTAAAAAAATAATTAGAAAAATTACTAA
* *
4775682 AAATT-TATAAATAATTAGAAAAATTACTAA
1 AAATTAAAAAAATAATTAGAAAAATTACTAA
4775712 AAATTA
1 AAATTA
4775718 TAGAAAGTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
29 9 0.31
30 20 0.69
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (31 bp):
AAATTAAAAAAATAATTAGAAAAATTACTAA
Found at i:4775718 original size:29 final size:29
Alignment explanation
Indices: 4775661--4775719 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
4775651 TAAATTAAAA
* * *
4775661 AAATCATTAAAAAATTATTAGAAATTTAT
1 AAATAATTAAAAAATTACTAGAAAATTAT
4775690 AAATAATTAGAAAAATTACTA-AAAATTAT
1 AAATAATTA-AAAAATTACTAGAAAATTAT
4775719 A
1 A
4775720 GAAAGTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.34
Consensus pattern (29 bp):
AAATAATTAAAAAATTACTAGAAAATTAT
Found at i:4776493 original size:18 final size:19
Alignment explanation
Indices: 4776472--4776519 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
4776462 ATTTAATTTT
4776472 TTTATAATTTTTAAT-AAA
1 TTTATAATTTTTAATGAAA
* *
4776490 TTTATAATATTTTTATGAAT
1 TTTATAAT-TTTTAATGAAA
4776510 TTTATAATTT
1 TTTATAATTT
4776520 ATATTTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 8 0.31
19 8 0.31
20 10 0.38
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
TTTATAATTTTTAATGAAA
Found at i:4776541 original size:41 final size:42
Alignment explanation
Indices: 4776472--4776576 Score: 110
Period size: 41 Copynumber: 2.5 Consensus size: 42
4776462 ATTTAATTTT
* *
4776472 TTTATAATTTTTAATAAATTTATAATA-TTTTTATGAATTTTATAA
1 TTTAT-ATTTTTAA-AAA-TCATAATATTTTTTA-GAATTTAATAA
4776517 TTTATATTTTTAAAAATCAT-ATATTTTTTAGAATTTAATAA
1 TTTATATTTTTAAAAATCATAATATTTTTTAGAATTTAATAA
4776558 TTT-T-TTATTTAAAGAATCA
1 TTTATATT-TTTAAA-AATCA
4776577 ATTAAGTCCC
Statistics
Matches: 55, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
39 2 0.04
40 7 0.13
41 21 0.38
42 9 0.16
43 3 0.05
44 8 0.15
45 5 0.09
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (42 bp):
TTTATATTTTTAAAAATCATAATATTTTTTAGAATTTAATAA
Found at i:4776607 original size:31 final size:29
Alignment explanation
Indices: 4776567--4776642 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 29
4776557 ATTTTTTATT
*
4776567 TAAAGAATCAATTAAGTCCCTCGTAAAATAA
1 TAAA-AATCAATTAAGT-CATCGTAAAATAA
* *
4776598 TAATAAATCAATTAAGTTATTGTAAAATAA
1 TAA-AAATCAATTAAGTCATCGTAAAATAA
4776628 TAAAAAGTCAATTAA
1 TAAAAA-TCAATTAA
4776643 ATCCTCCATG
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
29 3 0.08
30 21 0.52
31 15 0.38
32 1 0.03
ACGTcount: A:0.53, C:0.09, G:0.08, T:0.30
Consensus pattern (29 bp):
TAAAAATCAATTAAGTCATCGTAAAATAA
Found at i:4777647 original size:18 final size:16
Alignment explanation
Indices: 4777600--4777648 Score: 55
Period size: 18 Copynumber: 3.0 Consensus size: 16
4777590 TATTATAGAT
*
4777600 TTATTTTAA-ATATAA
1 TTATTTTAATTTATAA
*
4777615 TTATTTTATTTTATAA
1 TTATTTTAATTTATAA
4777631 TTATTTATTAATTTATAA
1 TTA-TT-TTAATTTATAA
4777649 AATTCCAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 8 0.29
16 8 0.29
17 2 0.07
18 10 0.36
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTATTTTAATTTATAA
Found at i:4792143 original size:188 final size:188
Alignment explanation
Indices: 4791821--4792170 Score: 486
Period size: 188 Copynumber: 1.9 Consensus size: 188
4791811 AAATGAAGAA
* * * * *
4791821 GGTTTAAGGAACGCCCACAAACTACATTTAAGTTAGAAATTTAGTAACTCAGGCTTAAGTACCAA
1 GGTTCAAGGAACGCCCACAAACTACATTTAAGTTAGAAATTTAGCAACCCAAGCATAAGTACCAA
* * * * *
4791886 TGCATGCAGGAAGCATCTCAAAGTAAAGAAAAAAGCTAGAAGTCTGAACAGCATACAGAGGCAAT
66 TGCATACAAGAAGCACCTCAAAGTAAAGAAAAAAGCTAAAAGTCAGAACAGCATACAGAGGCAAT
* * *
4791951 TAACCTAATTTATGTATAAGTACCACATGAAGATAGAAATACCAGTGTTGCTATCTTG
131 TAACCTAATTTATGCAAAAATACCACATGAAGATAGAAATACCAGTGTTGCTATCTTG
* * * ***
4792009 GGTTCAAGGAACTCCCACAAACTACATTTCAGTTATAAATTTAGCAACCCAAGCATAAGTACTGG
1 GGTTCAAGGAACGCCCACAAACTACATTTAAGTTAGAAATTTAGCAACCCAAGCATAAGTACCAA
* *
4792074 TGCATACAAGAAGCACCTCAAAGTAAGGAAAAAAGCTAAAAGTCCAG-GCAGCATACAGAGGCAA
66 TGCATACAAGAAGCACCTCAAAGTAAAGAAAAAAGCTAAAAGT-CAGAACAGCATACAGAGGCAA
*
4792138 TTAACCTAATTTATGCAAAAATCCCACATGAAG
130 TTAACCTAATTTATGCAAAAATACCACATGAAG
4792171 GCAGGAGATG
Statistics
Matches: 139, Mismatches: 22, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
188 137 0.99
189 2 0.01
ACGTcount: A:0.41, C:0.19, G:0.18, T:0.22
Consensus pattern (188 bp):
GGTTCAAGGAACGCCCACAAACTACATTTAAGTTAGAAATTTAGCAACCCAAGCATAAGTACCAA
TGCATACAAGAAGCACCTCAAAGTAAAGAAAAAAGCTAAAAGTCAGAACAGCATACAGAGGCAAT
TAACCTAATTTATGCAAAAATACCACATGAAGATAGAAATACCAGTGTTGCTATCTTG
Found at i:4792783 original size:16 final size:16
Alignment explanation
Indices: 4792762--4792794 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
4792752 AATCTAACTG
4792762 CCCCATGCATATGGAT
1 CCCCATGCATATGGAT
4792778 CCCCATGCATATGGAT
1 CCCCATGCATATGGAT
4792794 C
1 C
4792795 ATTGCAGGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.33, G:0.18, T:0.24
Consensus pattern (16 bp):
CCCCATGCATATGGAT
Found at i:4806141 original size:26 final size:25
Alignment explanation
Indices: 4806091--4806141 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
4806081 TTAGTCTTTT
*
4806091 CTATTAAAAATTCAATTTATCTGTA
1 CTATTAAAAATTCAATCTATCTGTA
*
4806116 CTATTAAAAATTTAATCTATCATGTA
1 CTATTAAAAATTCAATCTATC-TGTA
4806142 TACCTTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.41, C:0.12, G:0.04, T:0.43
Consensus pattern (25 bp):
CTATTAAAAATTCAATCTATCTGTA
Found at i:4814401 original size:4 final size:4
Alignment explanation
Indices: 4814392--4814435 Score: 88
Period size: 4 Copynumber: 11.0 Consensus size: 4
4814382 GGTCAGTTAA
4814392 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
4814436 CATGCGTATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 40 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:4816544 original size:15 final size:15
Alignment explanation
Indices: 4816524--4816561 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
4816514 TGTACTTGTT
4816524 TTACTTCTATGCTTC
1 TTACTTCTATGCTTC
4816539 TTACTTCTATGCTTC
1 TTACTTCTATGCTTC
4816554 TTACTTCT
1 TTACTTCT
4816562 TTCTGCAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.13, C:0.26, G:0.05, T:0.55
Consensus pattern (15 bp):
TTACTTCTATGCTTC
Found at i:4817216 original size:22 final size:22
Alignment explanation
Indices: 4817183--4817234 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
4817173 CAATATCCAA
*
4817183 TAAT-TAACAACAAAATAATAG
1 TAATATAATAACAAAATAATAG
*
4817204 TAATATAATAACAAAATGATAG
1 TAATATAATAACAAAATAATAG
* *
4817226 CAAAATAAT
1 TAATATAAT
4817235 GAAAAAACAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 4 0.15
22 22 0.85
ACGTcount: A:0.62, C:0.08, G:0.06, T:0.25
Consensus pattern (22 bp):
TAATATAATAACAAAATAATAG
Found at i:4826764 original size:18 final size:18
Alignment explanation
Indices: 4826741--4826779 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
4826731 TTAGCAAAGA
4826741 TAGCATCATGGTCCATTT
1 TAGCATCATGGTCCATTT
*
4826759 TAGCATCATGGTCCTTTT
1 TAGCATCATGGTCCATTT
4826777 TAG
1 TAG
4826780 GACCTCCTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.41
Consensus pattern (18 bp):
TAGCATCATGGTCCATTT
Found at i:4827209 original size:13 final size:13
Alignment explanation
Indices: 4827191--4827216 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4827181 ATTCAACCAT
4827191 CAATCCGATTTTG
1 CAATCCGATTTTG
4827204 CAATCCGATTTTG
1 CAATCCGATTTTG
4827217 AAAACCTTAA
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:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (13 bp):
CAATCCGATTTTG
Found at i:4830814 original size:2 final size:2
Alignment explanation
Indices: 4830807--4830834 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4830797 ATAAATATAA
4830807 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
4830835 GAACCTAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4833098 original size:63 final size:63
Alignment explanation
Indices: 4832999--4833187 Score: 317
Period size: 63 Copynumber: 3.0 Consensus size: 63
4832989 GCAAACAGCA
* * * *
4832999 AATACAGAACCTTCTCGTTTATTTGATGAACTCTTACTGTGCAGATGGTTCCTTTCTCTCTTT
1 AATACAGAACCTTCTGGTTTGTTTGATGACCTCTTACTGTGCATATGGTTCCTTTCTCTCTTT
4833062 AATACAGAACCTTCTGGTTTGTTTGATGACCTCTTACTGTGCATATGGTTCCTTTCTCTCTTT
1 AATACAGAACCTTCTGGTTTGTTTGATGACCTCTTACTGTGCATATGGTTCCTTTCTCTCTTT
*
4833125 AATACAGAACCTTCTGGTTTGTTTGATGACCTCTTACTGTGCATACT-GTTCCTTTGTCTCTTT
1 AATACAGAACCTTCTGGTTTGTTTGATGACCTCTTACTGTGCATA-TGGTTCCTTTCTCTCTTT
4833188 CTATTATTGC
Statistics
Matches: 120, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
63 119 0.99
64 1 0.01
ACGTcount: A:0.19, C:0.22, G:0.15, T:0.44
Consensus pattern (63 bp):
AATACAGAACCTTCTGGTTTGTTTGATGACCTCTTACTGTGCATATGGTTCCTTTCTCTCTTT
Found at i:4849151 original size:21 final size:21
Alignment explanation
Indices: 4849125--4849166 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
4849115 TTTCCTTAAC
4849125 CAAAATTCATACTCTAAATTT
1 CAAAATTCATACTCTAAATTT
4849146 CAAAATTCATACTCTAAATTT
1 CAAAATTCATACTCTAAATTT
4849167 TACAGATAAA
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:0.43, C:0.19, G:0.00, T:0.38
Consensus pattern (21 bp):
CAAAATTCATACTCTAAATTT
Found at i:4854988 original size:20 final size:20
Alignment explanation
Indices: 4854963--4855002 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
4854953 CGTAAAATGA
*
4854963 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
4854983 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
4855003 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:4854992 original size:34 final size:34
Alignment explanation
Indices: 4854949--4855014 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 34
4854939 AGTAAAATAT
*
4854949 TTTTCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCGTAAAATGATTTACTGGAAAATATTTTAC
4854982 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTC-GTAAAATGATTTACTGGAAAATATTTT
4855015 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 5 0.17
34 12 0.40
35 13 0.43
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.47
Consensus pattern (34 bp):
TTTTCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:4856259 original size:21 final size:21
Alignment explanation
Indices: 4856234--4856273 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4856224 ATGTGAATTA
* *
4856234 TAAAATATATATAATATATTT
1 TAAAATATAAAGAATATATTT
4856255 TAAAATATAAAGAATATAT
1 TAAAATATAAAGAATATAT
4856274 AAATATGTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (21 bp):
TAAAATATAAAGAATATATTT
Found at i:4856298 original size:28 final size:30
Alignment explanation
Indices: 4856259--4856324 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
4856249 ATATTTTAAA
* *
4856259 ATAT-AAAGAATATATA-A-ATATGTATAT
1 ATATAAAAAAATATATACATATACGTATAT
* *
4856286 ATATAAAAAAATATGTACATATACGTATGT
1 ATATAAAAAAATATATACATATACGTATAT
4856316 ATATAAAAA
1 ATATAAAAA
4856325 TTATGAAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 4 0.12
28 10 0.31
29 1 0.03
30 17 0.53
ACGTcount: A:0.56, C:0.03, G:0.08, T:0.33
Consensus pattern (30 bp):
ATATAAAAAAATATATACATATACGTATAT
Found at i:4856335 original size:28 final size:26
Alignment explanation
Indices: 4856259--4856336 Score: 68
Period size: 30 Copynumber: 2.8 Consensus size: 26
4856249 ATATTTTAAA
4856259 ATATAAAGAATATAT-AAATATGTATAT
1 ATATAAA-AAT-TATGAAATATGTATAT
* * *
4856286 ATATAAAAAAATATGTACATATACGTATGT
1 ATAT-AAAAATTATG-A-A-ATATGTATAT
4856316 ATATAAAAATTATGAAATATG
1 ATATAAAAATTATGAAATATG
4856337 AAGAATATAA
Statistics
Matches: 41, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
26 7 0.17
27 7 0.17
28 5 0.12
29 10 0.24
30 12 0.29
ACGTcount: A:0.54, C:0.03, G:0.09, T:0.35
Consensus pattern (26 bp):
ATATAAAAATTATGAAATATGTATAT
Found at i:4856437 original size:24 final size:24
Alignment explanation
Indices: 4856410--4856456 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
4856400 GTATGAAAGC
*
4856410 ATATTTATATATGTAAGTATATAT
1 ATATTTATAGATGTAAGTATATAT
4856434 ATATTTATAGATGTAAGTATATA
1 ATATTTATAGATGTAAGTATATA
4856457 ATAAAGGCGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.47
Consensus pattern (24 bp):
ATATTTATAGATGTAAGTATATAT
Found at i:4856746 original size:3 final size:3
Alignment explanation
Indices: 4856740--4856779 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
4856730 AACTAATAAT
4856740 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
4856780 CGCTAAATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:4863556 original size:18 final size:18
Alignment explanation
Indices: 4863533--4863574 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
4863523 TATTTTGTTA
4863533 AAAATT-AAATATATAATT
1 AAAATTGAAATA-ATAATT
* *
4863551 AAAATTGCAATAATATTT
1 AAAATTGAAATAATAATT
4863569 AAAATT
1 AAAATT
4863575 TTAAAAACGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (18 bp):
AAAATTGAAATAATAATT
Found at i:4864139 original size:9 final size:9
Alignment explanation
Indices: 4864125--4864153 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
4864115 GTTTACCACC
4864125 TTAGGGTTT
1 TTAGGGTTT
4864134 TTAGGGTTT
1 TTAGGGTTT
4864143 TTAGGGTTT
1 TTAGGGTTT
4864152 TT
1 TT
4864154 GGAAAAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.10, C:0.00, G:0.31, T:0.59
Consensus pattern (9 bp):
TTAGGGTTT
Found at i:4864510 original size:125 final size:125
Alignment explanation
Indices: 4864267--4864524 Score: 365
Period size: 125 Copynumber: 2.1 Consensus size: 125
4864257 GATAAAATCA
* * * *
4864267 AAGCAGGATGATTTATCAGAAGGATTTTTGAAGTCGCGCCCACGTGTACGCGCTTTTGCTAAAGT
1 AAGCAGGATGATTTATCAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTAAAGT
*
4864332 AGGTACTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTC
66 AGGTACTAGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTC
** * * *
4864392 AAGCAGGATTCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGATTTATCAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTAAAGT
* * * *
4864457 TGGT-CTTAGAAGAAATAATTTCGAGTTGATGTTTTTGAGCAAATAGTTTAAAAAACGCTTC
66 AGGTAC-TAGAA-AAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTC
4864518 AAGCAGG
1 AAGCAGG
4864525 GGTGTGAGGT
Statistics
Matches: 117, Mismatches: 14, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
124 1 0.01
125 63 0.54
126 53 0.45
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (125 bp):
AAGCAGGATGATTTATCAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTAAAGT
AGGTACTAGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTC
Found at i:4865193 original size:43 final size:43
Alignment explanation
Indices: 4865146--4865245 Score: 166
Period size: 42 Copynumber: 2.3 Consensus size: 43
4865136 TTTTTGTGGC
*
4865146 TAAAATTAAAATGTTTAAATTATATAATTTTTAAATAAAAAAT
1 TAAAATTAAAATGTTTAAATTATATAAATTTTAAATAAAAAAT
4865189 TAAAATT-AAATGTTTAAATTATATAAATTTTAAATAAAAAAT
1 TAAAATTAAAATGTTTAAATTATATAAATTTTAAATAAAAAAT
* *
4865231 TTAAATTAATATGTT
1 TAAAATTAAAATGTT
4865246 AAGAGATTGA
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
42 40 0.75
43 13 0.25
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (43 bp):
TAAAATTAAAATGTTTAAATTATATAAATTTTAAATAAAAAAT
Found at i:4865235 original size:13 final size:13
Alignment explanation
Indices: 4865175--4865236 Score: 52
Period size: 13 Copynumber: 4.5 Consensus size: 13
4865165 TTATATAATT
4865175 TTTAAATAAAAAA
1 TTTAAATAAAAAA
* * **
4865188 TTAAAATTAAATG
1 TTTAAATAAAAAA
*
4865201 TTTAAATTATATAAAT
1 TTTAAA-TA-A-AAAA
4865217 TTTAAATAAAAAA
1 TTTAAATAAAAAA
4865230 TTTAAAT
1 TTTAAAT
4865237 TAATATGTTA
Statistics
Matches: 37, Mismatches: 9, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
13 24 0.65
14 2 0.05
15 3 0.08
16 8 0.22
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (13 bp):
TTTAAATAAAAAA
Found at i:4865886 original size:25 final size:25
Alignment explanation
Indices: 4865844--4865893 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
4865834 GCTGAGCTTT
4865844 TTACAACTCAATGATGATTAAATAC
1 TTACAACTCAATGATGATTAAATAC
* * * *
4865869 TTACAATTCAGTGGTGATTCAATAC
1 TTACAACTCAATGATGATTAAATAC
4865894 ATTTTAAACT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (25 bp):
TTACAACTCAATGATGATTAAATAC
Found at i:4865972 original size:15 final size:16
Alignment explanation
Indices: 4865947--4865981 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
4865937 ATCATATACA
4865947 AATATTATATTTATAT
1 AATATTATATTTATAT
*
4865963 AATA-TATATTTATGT
1 AATATTATATTTATAT
4865978 AATA
1 AATA
4865982 ATTCGAGAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (16 bp):
AATATTATATTTATAT
Found at i:4868916 original size:28 final size:29
Alignment explanation
Indices: 4868854--4868916 Score: 67
Period size: 30 Copynumber: 2.2 Consensus size: 29
4868844 TTTAAATATG
*
4868854 AAAATTTATTTTATATCATAAAAATAAAT
1 AAAATTTATTATATATCATAAAAATAAAT
** *
4868883 TTAATTATATTATATATCA-AATAA-AAAT
1 AAAATT-TATTATATATCATAAAAATAAAT
4868911 AAAATT
1 AAAATT
4868917 CAATATAATT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
28 8 0.30
29 8 0.30
30 11 0.41
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (29 bp):
AAAATTTATTATATATCATAAAAATAAAT
Found at i:4868975 original size:16 final size:16
Alignment explanation
Indices: 4868954--4868984 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4868944 TTAAACTTAC
*
4868954 ATTTCATAACTGTTCT
1 ATTTCATAACCGTTCT
4868970 ATTTCATAACCGTTC
1 ATTTCATAACCGTTC
4868985 AAATACCTAA
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:0.26, C:0.23, G:0.06, T:0.45
Consensus pattern (16 bp):
ATTTCATAACCGTTCT
Found at i:4874792 original size:21 final size:21
Alignment explanation
Indices: 4874739--4874793 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
4874729 ACCATTGTTT
* * *
4874739 CTAATCTCACCACTACAGTAT
1 CTAATCTCACCGCTACAATAA
*
4874760 CCAATCTCACCGCTACAATAA
1 CTAATCTCACCGCTACAATAA
4874781 CTAATCTCACCGC
1 CTAATCTCACCGC
4874794 CACCGCTGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.33, C:0.38, G:0.05, T:0.24
Consensus pattern (21 bp):
CTAATCTCACCGCTACAATAA
Found at i:4875109 original size:24 final size:24
Alignment explanation
Indices: 4875081--4875131 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
4875071 TCATTATTTT
* * *
4875081 AAATATTCAAAATTTATAATTATA
1 AAATATTAAAAAATTAAAATTATA
4875105 AAATATTAAAAAATTAAAATTATA
1 AAATATTAAAAAATTAAAATTATA
4875129 AAA
1 AAA
4875132 ATAAAACAAC
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:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (24 bp):
AAATATTAAAAAATTAAAATTATA
Found at i:4876637 original size:29 final size:29
Alignment explanation
Indices: 4876595--4876654 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
4876585 AAAACATTGT
4876595 CTGATATCAAACGCCCTGGTACAAAAGCG
1 CTGATATCAAACGCCCTGGTACAAAAGCG
4876624 CTGATATCAAACGCCCTGGTACAAAAGCG
1 CTGATATCAAACGCCCTGGTACAAAAGCG
4876653 CT
1 CT
4876655 TTGGGCTTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.33, C:0.28, G:0.20, T:0.18
Consensus pattern (29 bp):
CTGATATCAAACGCCCTGGTACAAAAGCG
Found at i:4884626 original size:22 final size:22
Alignment explanation
Indices: 4884598--4884641 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
4884588 AAAAGTAAAG
4884598 AAAGACAACTTCTTTCTTGCAA
1 AAAGACAACTTCTTTCTTGCAA
4884620 AAAGACAACTTCTTTCTTGCAA
1 AAAGACAACTTCTTTCTTGCAA
4884642 CTTTCGTGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.23, G:0.09, T:0.32
Consensus pattern (22 bp):
AAAGACAACTTCTTTCTTGCAA
Found at i:4887753 original size:27 final size:27
Alignment explanation
Indices: 4887714--4887777 Score: 110
Period size: 27 Copynumber: 2.3 Consensus size: 27
4887704 GTCCAAGTCC
*
4887714 ATAGGTAACTCTAGACATAATATATAGT
1 ATAGATAA-TCTAGACATAATATATAGT
4887742 ATAGATAATCTAGACATAATATATAGT
1 ATAGATAATCTAGACATAATATATAGT
4887769 ATAGATAAT
1 ATAGATAAT
4887778 TAAATATGAT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 28 0.80
28 7 0.20
ACGTcount: A:0.47, C:0.08, G:0.12, T:0.33
Consensus pattern (27 bp):
ATAGATAATCTAGACATAATATATAGT
Found at i:4894656 original size:17 final size:17
Alignment explanation
Indices: 4894623--4894656 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4894613 TTATTATTAA
* *
4894623 ATATATTTTAATTAAAT
1 ATATAATTTAATAAAAT
4894640 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
4894657 TCTTAATAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:4894794 original size:156 final size:157
Alignment explanation
Indices: 4894510--4894825 Score: 562
Period size: 156 Copynumber: 2.0 Consensus size: 157
4894500 TAGAATACCT
* *
4894510 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTGTTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * *
4894575 TTATCAATAATAAATAATTTAATCATGTTTAAACATAATTATTATTAAATATATTTTAATT-AAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
4894639 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
*
4894666 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
*
4894731 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTGTTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
4894796 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
4894823 TTA
1 TTA
4894826 ATATTCTTAT
Statistics
Matches: 152, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
156 119 0.78
157 33 0.22
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.47
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:4894927 original size:14 final size:15
Alignment explanation
Indices: 4894878--4894929 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
4894868 GTAAAATATA
4894878 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
4894893 TATTAAATATATTAT
1 AATTAAATATATTAT
4894908 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
4894921 AATTTAATA
1 AATTAAATA
4894930 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:4895047 original size:14 final size:15
Alignment explanation
Indices: 4894998--4895049 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
4894988 GTAAAATATA
4894998 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
4895013 TATTAAATATATTAT
1 AATTAAATATATTAT
4895028 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
4895041 AATTTAATA
1 AATTAAATA
4895050 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:4895167 original size:14 final size:15
Alignment explanation
Indices: 4895118--4895169 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
4895108 GTAAAATATA
4895118 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
4895133 TATTAAATATATTAT
1 AATTAAATATATTAT
4895148 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
4895161 AATTTAATA
1 AATTAAATA
4895170 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:4895407 original size:14 final size:15
Alignment explanation
Indices: 4895358--4895409 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
4895348 GTAAAATATA
4895358 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
4895373 TATTAAATATATTAT
1 AATTAAATATATTAT
4895388 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
4895401 AATTTAATA
1 AATTAAATA
4895410 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:4895518 original size:16 final size:16
Alignment explanation
Indices: 4895478--4895520 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
4895468 GTAAAATATA
*
4895478 AATTAACATA-ATTAT
1 AATTAAAATATATTAT
*
4895493 TATT-AAATATATTAT
1 AATTAAAATATATTAT
4895508 AATTAAAATATAT
1 AATTAAAATATAT
4895521 GATTTAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 4 0.17
15 11 0.48
16 8 0.35
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
AATTAAAATATATTAT
Found at i:4895545 original size:120 final size:120
Alignment explanation
Indices: 4894762--4895534 Score: 1501
Period size: 120 Copynumber: 6.4 Consensus size: 120
4894752 ATCATATTTA
*
4894762 AACATAATTGTTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
4894827 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
4894882 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
4894947 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
4895002 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
4895067 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
4895122 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
4895187 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
*
4895242 AACATAATAATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
4895307 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
4895362 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
4895427 TATTCTTATATGAATTTACCCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
*
4895482 AACATAATTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
4895535 TAAAATAATT
Statistics
Matches: 646, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 646 1.00
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:4895645 original size:91 final size:91
Alignment explanation
Indices: 4895550--4895757 Score: 285
Period size: 91 Copynumber: 2.3 Consensus size: 91
4895540 TAATTATAAC
* * * *
4895550 TAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TAATCATTACATATAATTTAATAA
1 TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT-ATTAAATATAATTTAATAA
*
4895614 TAATATATAATTTCATAAAATTCTTGA
65 TAATATATAATTTCATAAAATTCTTAA
* * *
4895641 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAGT
1 TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
4895706 GATATATAATTTCATAAAATTCTTAA
66 AATATATAATTTCATAAAATTCTTAA
*
4895732 TAATAAAATGT-TCTTATATGAATTTA
1 TAAT-AAAT-TATATTATATGAATTTA
4895758 CTAAAATCAA
Statistics
Matches: 105, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
91 81 0.77
92 23 0.22
93 1 0.01
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (91 bp):
TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
AATATATAATTTCATAAAATTCTTAA
Found at i:4915110 original size:25 final size:24
Alignment explanation
Indices: 4915073--4915126 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
4915063 AAGAAAGGCG
**
4915073 AATTATCAAATTTAATGAATA-AA
1 AATTATCAAATTTAAAAAATAGAA
4915096 AATTATACAAAATTTAAAAAATAGAA
1 AATTAT-C-AAATTTAAAAAATAGAA
4915122 AATTA
1 AATTA
4915127 AATTAGTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 6 0.23
24 1 0.04
25 12 0.46
26 7 0.27
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (24 bp):
AATTATCAAATTTAAAAAATAGAA
Found at i:4918469 original size:31 final size:31
Alignment explanation
Indices: 4918434--4918527 Score: 113
Period size: 31 Copynumber: 3.1 Consensus size: 31
4918424 TGAATTTAAA
**
4918434 TGTATATGTTTTATACATTGCCGAATTGATT
1 TGTATATGTGATATACATTGCCGAATTGATT
4918465 TG--TATGTAGATATACATTGCCGAATTTGATT
1 TGTATATGT-GATATACATTGCCGAA-TTGATT
* *
4918496 CGTATATG-GATATATATTGCCGAATTGATT
1 TGTATATGTGATATACATTGCCGAATTGATT
4918526 TG
1 TG
4918528 AGCATTGGAT
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
29 5 0.09
30 21 0.39
31 24 0.44
33 4 0.07
ACGTcount: A:0.28, C:0.10, G:0.19, T:0.44
Consensus pattern (31 bp):
TGTATATGTGATATACATTGCCGAATTGATT
Found at i:4918538 original size:31 final size:30
Alignment explanation
Indices: 4918445--4918527 Score: 121
Period size: 31 Copynumber: 2.7 Consensus size: 30
4918435 GTATATGTTT
* *
4918445 TATACATTGCCGAATTGATTTGTATGTAGA
1 TATACATTGCCGAATTGATTTGTATATGGA
*
4918475 TATACATTGCCGAATTTGATTCGTATATGGA
1 TATACATTGCCGAA-TTGATTTGTATATGGA
*
4918506 TATATATTGCCGAATTGATTTG
1 TATACATTGCCGAATTGATTTG
4918528 AGCATTGGAT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 21 0.45
31 26 0.55
ACGTcount: A:0.29, C:0.11, G:0.19, T:0.41
Consensus pattern (30 bp):
TATACATTGCCGAATTGATTTGTATATGGA
Found at i:4918822 original size:43 final size:43
Alignment explanation
Indices: 4918642--4918812 Score: 279
Period size: 43 Copynumber: 4.0 Consensus size: 43
4918632 ACTTTCGAGG
4918642 TGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATT
1 TGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATT
* * *
4918685 TGAGATTTCGTATAAGACCATAGTTGGGCTATTGGCATCAATT
1 TGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATT
*
4918728 TGAGATTTCGTGTAAGACCATAGCTCGGCTATTGGCATCGATT
1 TGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATT
* * *
4918771 TGAGATTTCGTGTAAGACCATAGTTGGGTTATTAGCATCGAT
1 TGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGAT
4918813 ACAAGATTTC
Statistics
Matches: 117, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 117 1.00
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (43 bp):
TGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATT
Found at i:4920425 original size:5 final size:5
Alignment explanation
Indices: 4920415--4920444 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
4920405 AACGCATCAC
4920415 TTTTA TTTTA TTTTA TTTTA TTTT- TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T
4920445 ATTTTCGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:4933609 original size:4 final size:4
Alignment explanation
Indices: 4933602--4933669 Score: 52
Period size: 4 Copynumber: 16.8 Consensus size: 4
4933592 TTATAAATAA
* *
4933602 AAAG AAAG CAAG ATAG AAACG AAACGG AAAG -AA- AAAG AAAG AAAG AAAG
1 AAAG AAAG AAAG AAAG AAA-G AAA--G AAAG AAAG AAAG AAAG AAAG AAAG
*
4933651 AAAAG AAA- AAGG AAAG AAA
1 -AAAG AAAG AAAG AAAG AAA
4933670 TGAAGGAGAA
Statistics
Matches: 51, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
3 6 0.12
4 33 0.65
5 8 0.16
6 4 0.08
ACGTcount: A:0.71, C:0.04, G:0.24, T:0.01
Consensus pattern (4 bp):
AAAG
Found at i:4933642 original size:33 final size:34
Alignment explanation
Indices: 4933600--4933669 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 34
4933590 TATTATAAAT
* * * *
4933600 AAAAAGAAAGCAAGATAGAAACG-AAACGGAAAG
1 AAAAAGAAAGAAAGAAAGAAAAGAAAAAGGAAAG
4933633 AAAAAGAAAGAAAGAAAGAAAAGAAAAAGGAAAG
1 AAAAAGAAAGAAAGAAAGAAAAGAAAAAGGAAAG
4933667 AAA
1 AAA
4933670 TGAAGGAGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
33 20 0.62
34 12 0.38
ACGTcount: A:0.71, C:0.04, G:0.23, T:0.01
Consensus pattern (34 bp):
AAAAAGAAAGAAAGAAAGAAAAGAAAAAGGAAAG
Found at i:4935855 original size:15 final size:15
Alignment explanation
Indices: 4935835--4935884 Score: 57
Period size: 15 Copynumber: 3.2 Consensus size: 15
4935825 TGATAAATTT
4935835 ATTGAATTTATATTG
1 ATTGAATTTATATTG
4935850 ATTGAATTGGTATATAT-
1 ATTGAATT--TATAT-TG
*
4935867 ATTGAATATATATTG
1 ATTGAATTTATATTG
4935882 ATT
1 ATT
4935885 ATTTGAATTG
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
14 1 0.03
15 16 0.53
17 12 0.40
18 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:4945836 original size:43 final size:42
Alignment explanation
Indices: 4945706--4946057 Score: 200
Period size: 43 Copynumber: 8.2 Consensus size: 42
4945696 TTAGTGGAAG
** *** * *
4945706 CGCCGCTAAAGACCCTGATCTTTAGCGGGATTTTTGGGAGAAG
1 CGCCGCTAAAGACCCTGATCTTTAGC-GGCCTTTTACCACAAA
* ** * * * *
4945749 CGCCGCTAAAGATCAGGGTCTTTAGTGGCGTTTTTATCTA-AAA
1 CGCCGCTAAAGACCCTGATCTTTAGCGGC-CTTTTA-CCACAAA
* *
4945792 CGCCGC-AATAGACCCTGATCTATAGCGGCATTTATACCACAAA
1 CGCCGCTAA-AGACCCTGATCTTTAGCGGCCTTT-TACCACAAA
* * *
4945835 CGCCACTAAAGAACCT-ATTCTTTAGCGGCGCTTTGACCACAAA
1 CGCCGCTAAAGACCCTGA-TCTTTAGCGGC-CTTTTACCACAAA
* * * *
4945878 CGCC-ATAGAAGA-CCT-ATTCTTTAGCGGCGTTTTCCCCTCAAA
1 CGCCGCTA-AAGACCCTGA-TCTTTAGCGGCCTTTT-ACCACAAA
* * *
4945920 CGCCGC-AATAGACTCTGATCTATAGCGGCGC-TGT-CTCACAAA
1 CGCCGCTAA-AGACCCTGATCTTTAGCGGC-CTTTTAC-CACAAA
* * *
4945962 CGCCGCTAAAGACCATGATCTTTAGTGGCGCTTTTTCCACAAA
1 CGCCGCTAAAGACCCTGATCTTTAGCGGC-CTTTTACCACAAA
* * * *
4946005 CGCCGCTAAAGACCCTTATCTTTAGCGGCGCTTTGAACAAAAA
1 CGCCGCTAAAGACCCTGATCTTTAGCGGC-CTTTTACCACAAA
*
4946048 CGCCACTAAA
1 CGCCGCTAAA
4946058 AAGGCCAACA
Statistics
Matches: 243, Mismatches: 47, Indels: 38
0.74 0.14 0.12
Matches are distributed among these distances:
41 5 0.02
42 71 0.29
43 159 0.65
44 8 0.03
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.25
Consensus pattern (42 bp):
CGCCGCTAAAGACCCTGATCTTTAGCGGCCTTTTACCACAAA
Found at i:4945946 original size:85 final size:84
Alignment explanation
Indices: 4945828--4946057 Score: 220
Period size: 85 Copynumber: 2.7 Consensus size: 84
4945818 GGCATTTATA
* * *
4945828 CCACAAACGCCACTAAAGAACCT-ATTCTTTAGCGGCGCTTTGACCACAAACGCCATAGAAGACC
1 CCACAAACGCCGCTAAAGACCCTGA-TCTATAGCGGCGCTTTGACCACAAACGCCATA-AAGACC
4945892 -TATTCTTTAGCGGCG-TTTTCC
64 ATA-TCTTTAGCGGCGCTTTT-C
* * * *
4945913 CCTCAAACGCCGC-AATAGACTCTGATCTATAGCGGCGC--TGTCTCACAAACGCCGCTAAAGAC
1 CCACAAACGCCGCTAA-AGACCCTGATCTATAGCGGCGCTTTGAC-CACAAACGCC-ATAAAGAC
* *
4945975 CATGATCTTTAGTGGCGCTTTTT
63 CAT-ATCTTTAGCGGCGCTTTTC
* * * *
4945998 CCACAAACGCCGCTAAAGACCCTTATCTTTAGCGGCGCTTTGAACAAAAACGCCACTAAA
1 CCACAAACGCCGCTAAAGACCCTGATCTATAGCGGCGCTTTGACCACAAACGCCA-TAAA
4946058 AAGGCCAACA
Statistics
Matches: 117, Mismatches: 17, Indels: 21
0.75 0.11 0.14
Matches are distributed among these distances:
83 3 0.03
84 18 0.15
85 73 0.62
86 21 0.18
87 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.23
Consensus pattern (84 bp):
CCACAAACGCCGCTAAAGACCCTGATCTATAGCGGCGCTTTGACCACAAACGCCATAAAGACCAT
ATCTTTAGCGGCGCTTTTC
Found at i:4953389 original size:92 final size:92
Alignment explanation
Indices: 4953232--4953418 Score: 320
Period size: 92 Copynumber: 2.0 Consensus size: 92
4953222 AATATTAACT
* *
4953232 AAAGATGTCATTTTGTACATTGAAATAGCTACAAAGTAATCATTAACCATACAATGATTAACCCA
1 AAAGATGTCATTTTGTACATTGAAATAACCACAAAGTAATCATTAACCATACAATGATTAACCCA
* **
4953297 AACAACAAAGACTTCACCTTTGCCTAA
66 AACAAAAAAGACTTCACCTTCACCTAA
*
4953324 AAAGATGTCATTTTGTACATTGAAATAACCACAAAGTAATCATTAACCATACTATGATTAACCCA
1 AAAGATGTCATTTTGTACATTGAAATAACCACAAAGTAATCATTAACCATACAATGATTAACCCA
4953389 AACAAAAAAGACTTCACCTTCACCTAA
66 AACAAAAAAGACTTCACCTTCACCTAA
4953416 AAA
1 AAA
4953419 TGACAAATTG
Statistics
Matches: 89, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
92 89 1.00
ACGTcount: A:0.44, C:0.21, G:0.09, T:0.26
Consensus pattern (92 bp):
AAAGATGTCATTTTGTACATTGAAATAACCACAAAGTAATCATTAACCATACAATGATTAACCCA
AACAAAAAAGACTTCACCTTCACCTAA
Found at i:4954030 original size:14 final size:14
Alignment explanation
Indices: 4954011--4954041 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
4954001 AGAATTGTTT
*
4954011 TAATCTAAATTTAC
1 TAATCTAAATTGAC
4954025 TAATCTAAATTGAC
1 TAATCTAAATTGAC
4954039 TAA
1 TAA
4954042 GAACGAGACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.45, C:0.13, G:0.03, T:0.39
Consensus pattern (14 bp):
TAATCTAAATTGAC
Found at i:4956719 original size:6 final size:6
Alignment explanation
Indices: 4956703--4956774 Score: 65
Period size: 6 Copynumber: 11.7 Consensus size: 6
4956693 AATTTAGTTC
* * ** *
4956703 AAAAGAT AAAAAT -AAAAT AAGACT AAGAAAAT AACCAT AAACAT AAAAAT
1 AAAA-AT AAAAAT AAAAAT AAAAAT -A-AAAAT AAAAAT AAAAAT AAAAAT
4956753 AAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAA
4956775 CAAATGGAAT
Statistics
Matches: 54, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
5 5 0.09
6 40 0.74
7 6 0.11
8 3 0.06
ACGTcount: A:0.75, C:0.06, G:0.04, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:4957393 original size:15 final size:16
Alignment explanation
Indices: 4957365--4957395 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
4957355 GGGTGGTTCA
4957365 AATAGGGAGGAAAGGG
1 AATAGGGAGGAAAGGG
4957381 AATAGGG-GGAAAGGG
1 AATAGGGAGGAAAGGG
4957396 TGGGTATGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.42, C:0.00, G:0.52, T:0.06
Consensus pattern (16 bp):
AATAGGGAGGAAAGGG
Found at i:4961169 original size:14 final size:14
Alignment explanation
Indices: 4961150--4961180 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
4961140 GGAATTGTTT
*
4961150 TAATCTAAATTTAC
1 TAATCTAAATTAAC
4961164 TAATCTAAATTAAC
1 TAATCTAAATTAAC
4961178 TAA
1 TAA
4961181 GAATGCAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (14 bp):
TAATCTAAATTAAC
Found at i:4976910 original size:43 final size:43
Alignment explanation
Indices: 4976862--4976944 Score: 166
Period size: 43 Copynumber: 1.9 Consensus size: 43
4976852 TTAATGAAAA
4976862 TTCATTAGAATTCTTCATCTAATGCTCTATTAATTCTTTGGTT
1 TTCATTAGAATTCTTCATCTAATGCTCTATTAATTCTTTGGTT
4976905 TTCATTAGAATTCTTCATCTAATGCTCTATTAATTCTTTG
1 TTCATTAGAATTCTTCATCTAATGCTCTATTAATTCTTTG
4976945 CTTTCTTTTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.24, C:0.17, G:0.08, T:0.51
Consensus pattern (43 bp):
TTCATTAGAATTCTTCATCTAATGCTCTATTAATTCTTTGGTT
Found at i:4982554 original size:33 final size:35
Alignment explanation
Indices: 4982481--4982554 Score: 107
Period size: 35 Copynumber: 2.2 Consensus size: 35
4982471 GGAGAAATAA
**
4982481 AACTATTCACAAGTGTTCATATATAAGTAAACTTT
1 AACTATTCACAAGTGTTCATATATAAGTAAACAGT
*
4982516 AACTATTCACAAGTGTTGATATATAAGTAAA-AGT
1 AACTATTCACAAGTGTTCATATATAAGTAAACAGT
4982550 -ACTAT
1 AACTAT
4982555 GGAGCCTATG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
33 5 0.14
34 1 0.03
35 30 0.83
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.35
Consensus pattern (35 bp):
AACTATTCACAAGTGTTCATATATAAGTAAACAGT
Found at i:4985181 original size:43 final size:43
Alignment explanation
Indices: 4985106--4985333 Score: 244
Period size: 43 Copynumber: 5.3 Consensus size: 43
4985096 ATACGCCGCT
* ** * *
4985106 AAACGCCGCTAAAGACCACGACTTTTAACGGCGCTTCTCCCAC
1 AAACGCCGCTAAAGACAAAAACCTTTAGCGGCGCTTCTCCCAC
* *
4985149 AAATGCCGCTAAAGACAAAAATCTTTAGCGGCGCTTCTCCCAC
1 AAACGCCGCTAAAGACAAAAACCTTTAGCGGCGCTTCTCCCAC
* * * *
4985192 AAACGCCTCTAAAGACCAAGACCTTTAGCGGCGCTAT-TTCCAC
1 AAACGCCGCTAAAGACAAAAACCTTTAGCGGCGCT-TCTCCCAC
* * ** *
4985235 AAACGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTTCCCAC
1 AAACGCCGCTAAAGACAAAAACCTTTAGCGGCGC-TTCTCCCAC
* ** *
4985279 AAACGCCGCTAAAGA-ACAAACCTTTAGCGGCGCTTCTAGCAA
1 AAACGCCGCTAAAGACAAAAACCTTTAGCGGCGCTTCTCCCAC
4985321 AAACGCCGCTAAA
1 AAACGCCGCTAAA
4985334 AACATAATCT
Statistics
Matches: 156, Mismatches: 26, Indels: 7
0.83 0.14 0.04
Matches are distributed among these distances:
42 18 0.12
43 117 0.75
44 21 0.13
ACGTcount: A:0.31, C:0.32, G:0.17, T:0.20
Consensus pattern (43 bp):
AAACGCCGCTAAAGACAAAAACCTTTAGCGGCGCTTCTCCCAC
Found at i:4985224 original size:86 final size:86
Alignment explanation
Indices: 4985106--4985346 Score: 290
Period size: 86 Copynumber: 2.8 Consensus size: 86
4985096 ATACGCCGCT
* * * * * *
4985106 AAACGCCGCTAAAGACCACGACTTTTAACGGCGCTTCTCCCACAAATGCCGCTAAAGACAAAAAT
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTACCACAAACGCCGCTAAAGAC-ATAAT
4985171 CTTTAGCGGCGC-TTCTCCCAC
65 CTTTAGCGGCGCTTTCTCCCAC
* * * *
4985192 AAACGCCTCTAAAGACCAAGACCTTTAGCGGCGCTAT-TTCCACAAACGCCGCTATAGACCATGA
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCT-TCTACCACAAACGCCGCTAAAGA-CATAA
* *
4985256 CCTTTAGCGGCGCTTTTTCCCAC
64 TCTTTAGCGGCGCTTTCTCCCAC
* * * *
4985279 AAACGCCGCTAAAGAACAA-ACCTTTAGCGGCGCTTCTAGCAAAAACGCCGCTAAAAACATAATC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTACCACAAACGCCGCTAAAGACATAATC
4985343 TTTA
66 TTTA
4985347 AAAAAAATTA
Statistics
Matches: 131, Mismatches: 20, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
85 10 0.08
86 94 0.72
87 27 0.21
ACGTcount: A:0.32, C:0.32, G:0.16, T:0.21
Consensus pattern (86 bp):
AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTACCACAAACGCCGCTAAAGACATAATC
TTTAGCGGCGCTTTCTCCCAC
Found at i:4985359 original size:129 final size:129
Alignment explanation
Indices: 4985106--4985352 Score: 275
Period size: 129 Copynumber: 1.9 Consensus size: 129
4985096 ATACGCCGCT
* * *
4985106 AAACGCCGCTAAAGACCACGACTTTTAACGGCGCTTCTCCCACAAATGCCGCTAAAGACAAAAAT
1 AAACGCCGCTAAAGACCACGACCTTTAACGGCGCTTCTCCCACAAACGCCGCTAAAGACAAAAAC
* * * * ******
4985171 CTTTAGCGGCGCTTCTCCCACAAACGCCTCTAAAGACCAAGACCTTTAGCGGCGCTATTTCCAC
66 CTTTAGCGGCGCTTCTACCAAAAACGCCGCTAAAGAACAAGACCTTTAAAAAAACTATTTCCAC
* * * * *
4985235 AAACGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTTCCCACAAACGCCGCTAAAGA-ACAAA
1 AAACGCCGCTAAAGACCACGACCTTTAACGGCGC-TTCTCCCACAAACGCCGCTAAAGACAAAAA
* *
4985299 CCTTTAGCGGCGCTTCTAGCAAAAACGCCGCTAAA-AACATA-ATCTTTAAAAAAA
65 CCTTTAGCGGCGCTTCTACCAAAAACGCCGCTAAAGAACA-AGACCTTTAAAAAAA
4985353 ATTATTTTAA
Statistics
Matches: 96, Mismatches: 20, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
128 9 0.09
129 65 0.68
130 22 0.23
ACGTcount: A:0.33, C:0.31, G:0.16, T:0.20
Consensus pattern (129 bp):
AAACGCCGCTAAAGACCACGACCTTTAACGGCGCTTCTCCCACAAACGCCGCTAAAGACAAAAAC
CTTTAGCGGCGCTTCTACCAAAAACGCCGCTAAAGAACAAGACCTTTAAAAAAACTATTTCCAC
Found at i:4986929 original size:14 final size:14
Alignment explanation
Indices: 4986910--4986938 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
4986900 AATAAAGCAC
4986910 GTTACTACAAATAA
1 GTTACTACAAATAA
4986924 GTTACTACAAATAA
1 GTTACTACAAATAA
4986938 G
1 G
4986939 CTGTACGATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.14, G:0.10, T:0.28
Consensus pattern (14 bp):
GTTACTACAAATAA
Found at i:4989239 original size:14 final size:14
Alignment explanation
Indices: 4989202--4989228 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4989192 CCTAAATCAC
4989202 TAACTCTTAACCCA
1 TAACTCTTAACCCA
4989216 TAACTCTTAACCC
1 TAACTCTTAACCC
4989229 TTAAACCTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (14 bp):
TAACTCTTAACCCA
Found at i:4989561 original size:8 final size:7
Alignment explanation
Indices: 4989530--4989667 Score: 68
Period size: 7 Copynumber: 19.6 Consensus size: 7
4989520 ATCTAAATCT
4989530 TAAACCA
1 TAAACCA
*
4989537 TAAA-CT
1 TAAACCA
*
4989543 TAAACCC
1 TAAACCA
4989550 TAAAACCA
1 T-AAACCA
4989558 TAAACCA
1 TAAACCA
*
4989565 TTAACACA
1 TAAAC-CA
*
4989573 T-AACCTC
1 TAAACC-A
*
4989580 TAAACCT
1 TAAACCA
4989587 TAAACC-
1 TAAACCA
** *
4989593 CCAACCTT
1 TAAACC-A
4989601 TAAACCA
1 TAAACCA
*
4989608 TAAACCG
1 TAAACCA
**
4989615 TAAACTG
1 TAAACCA
4989622 TAAACCA
1 TAAACCA
4989629 TAAACCA
1 TAAACCA
*
4989636 T-AACCC
1 TAAACCA
4989642 TAAACCCA
1 TAAA-CCA
*
4989650 TAATCCA
1 TAAACCA
* *
4989657 CAAACCT
1 TAAACCA
4989664 TAAA
1 TAAA
4989668 TGGTAACACC
Statistics
Matches: 100, Mismatches: 22, Indels: 18
0.71 0.16 0.13
Matches are distributed among these distances:
6 15 0.15
7 63 0.63
8 22 0.22
ACGTcount: A:0.48, C:0.31, G:0.01, T:0.20
Consensus pattern (7 bp):
TAAACCA
Found at i:4989915 original size:40 final size:40
Alignment explanation
Indices: 4989869--4989945 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
4989859 TTAAATCCCT
*
4989869 GAGCATTAACGGCGCTTTTTAAAAAACACCGCTAAAAATA
1 GAGCATTAACGGCGCTTTATAAAAAACACCGCTAAAAATA
** *
4989909 GAGCATTCGCGGCGCTTTATCAAAAACACCGCTAAAA
1 GAGCATTAACGGCGCTTTATAAAAAACACCGCTAAAA
4989946 GCCATGAGCA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.39, C:0.23, G:0.17, T:0.21
Consensus pattern (40 bp):
GAGCATTAACGGCGCTTTATAAAAAACACCGCTAAAAATA
Found at i:4990000 original size:41 final size:41
Alignment explanation
Indices: 4989910--4990154 Score: 312
Period size: 41 Copynumber: 6.0 Consensus size: 41
4989900 CTAAAAATAG
* *** * * *
4989910 AGCATTCGCGGCGCTTTATCAAAAACACCGCTAAAAGCCATG
1 AGCATTAGCGGCGCTTCCCCAAAAACGCCGCT-AAAGCCCTA
*
4989952 AGCATTAGCAGCGCTAT-CCCAAAAACGCCGCTAAAGCCCTA
1 AGCATTAGCGGCGCT-TCCCCAAAAACGCCGCTAAAGCCCTA
* * *
4989993 AGCATTAGCGGCGCTTTCCTAAAAACGCTGCTAAAGCCCTA
1 AGCATTAGCGGCGCTTCCCCAAAAACGCCGCTAAAGCCCTA
* *
4990034 AACATTAGCAGCGCTTCCCCAAAAACGCCGCTAAAGCCCTA
1 AGCATTAGCGGCGCTTCCCCAAAAACGCCGCTAAAGCCCTA
* *
4990075 AGCATTAGCGGCGCTTCCCCAAAAACGCCACTAAAGCCCTG
1 AGCATTAGCGGCGCTTCCCCAAAAACGCCGCTAAAGCCCTA
* *
4990116 AGCATTAGCGGCGCTTACTCAAAAACGCCGCTAAAGCCC
1 AGCATTAGCGGCGCTTCCCCAAAAACGCCGCTAAAGCCC
4990155 CGAAAGCTCA
Statistics
Matches: 179, Mismatches: 22, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
40 1 0.01
41 152 0.85
42 25 0.14
43 1 0.01
ACGTcount: A:0.32, C:0.33, G:0.18, T:0.17
Consensus pattern (41 bp):
AGCATTAGCGGCGCTTCCCCAAAAACGCCGCTAAAGCCCTA
Done.