Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 114 of 172
Found at i:32724212 original size:32 final size:32
Alignment explanation
Indices: 32724169--32724231 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
32724159 ACCAAAAATT
32724169 TATTTTAAAAATTAAAATAAAAATTAAAAAAAG
1 TATTTTAAAAATT-AAATAAAAATTAAAAAAAG
** *
32724202 TATTTT-AAAATTATTTTAAAATTAAAAAAA
1 TATTTTAAAAATTAAATAAAAATTAAAAAAA
32724232 TTTAAAAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 15 0.56
32 6 0.22
33 6 0.22
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (32 bp):
TATTTTAAAAATTAAATAAAAATTAAAAAAAG
Found at i:32724238 original size:10 final size:10
Alignment explanation
Indices: 32724219--32724271 Score: 63
Period size: 10 Copynumber: 5.2 Consensus size: 10
32724209 AAATTATTTT
32724219 AAAA-TTAAA
1 AAAATTTAAA
32724228 AAAATTTAAA
1 AAAATTTAAA
*
32724238 AAGTATTTTAAA
1 AA--AATTTAAA
32724250 AAAATTTAAA
1 AAAATTTAAA
*
32724260 AAAATTTTAA
1 AAAATTTAAA
32724270 AA
1 AA
32724272 TTAAAAAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
9 4 0.11
10 25 0.66
12 9 0.24
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (10 bp):
AAAATTTAAA
Found at i:32724239 original size:11 final size:11
Alignment explanation
Indices: 32724225--32724271 Score: 58
Period size: 11 Copynumber: 4.3 Consensus size: 11
32724215 TTTTAAAATT
32724225 AAAAAAATTTA
1 AAAAAAATTTA
** *
32724236 AAAAGTATTTT
1 AAAAAAATTTA
32724247 AAAAAAATTTA
1 AAAAAAATTTA
*
32724258 AAAAAATTTTA
1 AAAAAAATTTA
32724269 AAA
1 AAA
32724272 TTAAAAAAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (11 bp):
AAAAAAATTTA
Found at i:32724251 original size:22 final size:22
Alignment explanation
Indices: 32724223--32724292 Score: 85
Period size: 21 Copynumber: 3.3 Consensus size: 22
32724213 TATTTTAAAA
32724223 TTAAAAAAATTTAAAAAGTATT
1 TTAAAAAAATTTAAAAAGTATT
*
32724245 TTAAAAAAATTTAAAAA-AATT
1 TTAAAAAAATTTAAAAAGTATT
32724266 TTAAAATTAAA---AAAAAGTATT
1 TTAAAA--AAATTTAAAAAGTATT
32724287 TTAAAA
1 TTAAAA
32724293 TTTAAAAATA
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
20 5 0.12
21 18 0.42
22 17 0.40
23 3 0.07
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (22 bp):
TTAAAAAAATTTAAAAAGTATT
Found at i:32724252 original size:21 final size:19
Alignment explanation
Indices: 32724228--32724300 Score: 76
Period size: 21 Copynumber: 3.6 Consensus size: 19
32724218 TAAAATTAAA
32724228 AAAATTTAAAAAGTATTTT
1 AAAATTTAAAAAGTATTTT
*
32724247 AAAAAAATTTAAAAA-AATTTT
1 ---AAAATTTAAAAAGTATTTT
*
32724268 AAAATTAAAAAAAAGTATTTT
1 AAAATT--TAAAAAGTATTTT
32724289 AAAATTTAAAAA
1 AAAATTTAAAAA
32724301 TAAAATAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
18 6 0.14
19 5 0.11
20 5 0.11
21 16 0.36
22 12 0.27
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (19 bp):
AAAATTTAAAAAGTATTTT
Found at i:32724292 original size:29 final size:29
Alignment explanation
Indices: 32724260--32724316 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
32724250 AAAATTTAAA
* *
32724260 AAAATTTTAAAATTAAAA-AAAAGTATTTT
1 AAAA-TTTAAAAATAAAATAAAAATATTTT
32724289 AAAATTTAAAAATAAAATAAAAATATTT
1 AAAATTTAAAAATAAAATAAAAATATTT
32724317 ATTATTCGGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 12 0.48
29 13 0.52
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (29 bp):
AAAATTTAAAAATAAAATAAAAATATTTT
Found at i:32724310 original size:39 final size:39
Alignment explanation
Indices: 32724172--32724310 Score: 133
Period size: 39 Copynumber: 3.5 Consensus size: 39
32724162 AAAAATTTAT
32724172 TTTAAAAATTAAAATAAAAATTAAAAAAAGTATTTTAAAATTA
1 TTTAAAAA-TAAAAT-AAAATTAAAAAAAGTATTTTAAAA--A
* * *
32724215 TTTTAAAATTAAA-AAAATT-TAAAAAGTATTTTAAAAAAA
1 TTTAAAAATAAAATAAAATTAAAAAAAGTATTTT--AAAAA
**
32724254 TTTAAAAA-AATTTTAAAATTAAAAAAAAGTATTTT-AAAA
1 TTTAAAAATAA-AATAAAATT-AAAAAAAGTATTTTAAAAA
32724293 TTTAAAAATAAAATAAAA
1 TTTAAAAATAAAATAAAA
32724311 ATATTTATTA
Statistics
Matches: 79, Mismatches: 10, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
38 1 0.01
39 37 0.47
40 14 0.18
41 4 0.05
42 16 0.20
43 7 0.09
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (39 bp):
TTTAAAAATAAAATAAAATTAAAAAAAGTATTTTAAAAA
Found at i:32729793 original size:41 final size:41
Alignment explanation
Indices: 32729738--32729817 Score: 142
Period size: 41 Copynumber: 2.0 Consensus size: 41
32729728 CCTAATTGGA
32729738 AAAATAATTCTCTTATTCTAATAAAGAACTAAAAGATAAGG
1 AAAATAATTCTCTTATTCTAATAAAGAACTAAAAGATAAGG
**
32729779 AAAATAATTCTCTTATTCTAATAAATTACTAAAAGATAA
1 AAAATAATTCTCTTATTCTAATAAAGAACTAAAAGATAA
32729818 AATAAAATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.51, C:0.10, G:0.06, T:0.33
Consensus pattern (41 bp):
AAAATAATTCTCTTATTCTAATAAAGAACTAAAAGATAAGG
Found at i:32733676 original size:41 final size:43
Alignment explanation
Indices: 32733581--32733664 Score: 118
Period size: 44 Copynumber: 2.0 Consensus size: 43
32733571 CTTAATTAGA
* * *
32733581 AAAATAATTCCCTTATTCTAATAAATTAGTACTAAAAGATAAGG
1 AAAATAATTCTCTTATTCTAATAAA-TACTACTAAAAGATAAAG
32733625 AAAATAATTCTCTTATTCTAAT-AA-ACTACTAAAAGATAAA
1 AAAATAATTCTCTTATTCTAATAAATACTACTAAAAGATAAA
32733665 ATAAAATATT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
41 14 0.38
43 2 0.05
44 21 0.57
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.32
Consensus pattern (43 bp):
AAAATAATTCTCTTATTCTAATAAATACTACTAAAAGATAAAG
Found at i:32733728 original size:18 final size:19
Alignment explanation
Indices: 32733705--32733740 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
32733695 TTATTCTAAG
32733705 ATTTATCTA-CTAAATAAT
1 ATTTATCTACCTAAATAAT
32733723 ATTTATCTACCTAAATAA
1 ATTTATCTACCTAAATAA
32733741 CTTTAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.44, C:0.14, G:0.00, T:0.42
Consensus pattern (19 bp):
ATTTATCTACCTAAATAAT
Found at i:32736091 original size:60 final size:61
Alignment explanation
Indices: 32735971--32736095 Score: 216
Period size: 60 Copynumber: 2.1 Consensus size: 61
32735961 TTGCGACTAG
*
32735971 TTACAAAAATTAGTTGCATGGTGAGTTGCAACGTAGTTTGTGACTTGTTGCGACAAAGCCA
1 TTACAAAAATTAGTTGCATGGTAAGTTGCAACGTAGTTTGTGACTTGTTGCGACAAAGCCA
* *
32736032 TTACTAAAATTAGTTGCATGGTAAGTTGCAAC-TTGTTTGTGACTTGTTGCGACAAAGCCA
1 TTACAAAAATTAGTTGCATGGTAAGTTGCAACGTAGTTTGTGACTTGTTGCGACAAAGCCA
32736092 TTAC
1 TTAC
32736096 CATGAGCTGA
Statistics
Matches: 61, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
60 31 0.51
61 30 0.49
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (61 bp):
TTACAAAAATTAGTTGCATGGTAAGTTGCAACGTAGTTTGTGACTTGTTGCGACAAAGCCA
Found at i:32740775 original size:19 final size:20
Alignment explanation
Indices: 32740739--32740776 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
32740729 ACTTTGATAA
*
32740739 AATTTGTAATTTTATATATC
1 AATTTGTAATTTGATATATC
*
32740759 AATTT-TAATTTGGTATAT
1 AATTTGTAATTTGATATAT
32740777 TTGTATACAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.34, C:0.03, G:0.08, T:0.55
Consensus pattern (20 bp):
AATTTGTAATTTGATATATC
Found at i:32742888 original size:31 final size:31
Alignment explanation
Indices: 32742848--32742908 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
32742838 TACTCTAATT
* * * *
32742848 TAATTAATTTTAATCTTTATATTTTTTAAAG
1 TAATCAATTTTAATCTATAAACTTTTTAAAG
*
32742879 TAATCAATTTTAGTCTATAAACTTTTTAAA
1 TAATCAATTTTAATCTATAAACTTTTTAAA
32742909 TTTGAAACAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.52
Consensus pattern (31 bp):
TAATCAATTTTAATCTATAAACTTTTTAAAG
Found at i:32754645 original size:23 final size:24
Alignment explanation
Indices: 32754619--32754668 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
32754609 TATTGAAGTC
* * *
32754619 AAACTTAAGTAC-TTAATTTAAAA
1 AAACTCAAGTACATCAAATTAAAA
32754642 AAACTCAAGTACATCAAATTAAAA
1 AAACTCAAGTACATCAAATTAAAA
32754666 AAA
1 AAA
32754669 AAAACCTAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 11 0.48
24 12 0.52
ACGTcount: A:0.58, C:0.12, G:0.04, T:0.26
Consensus pattern (24 bp):
AAACTCAAGTACATCAAATTAAAA
Found at i:32770617 original size:21 final size:22
Alignment explanation
Indices: 32770593--32770637 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
32770583 AGAAAAAGAG
32770593 AAATACAAAAAAG-AATAG-ATC
1 AAAT-CAAAAAAGAAATAGAATC
*
32770614 AAATCAAAAAGGAAATAGAATC
1 AAATCAAAAAAGAAATAGAATC
32770636 AA
1 AA
32770638 CAATTTGCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 7 0.33
21 9 0.43
22 5 0.24
ACGTcount: A:0.67, C:0.09, G:0.11, T:0.13
Consensus pattern (22 bp):
AAATCAAAAAAGAAATAGAATC
Found at i:32773521 original size:35 final size:34
Alignment explanation
Indices: 32773434--32773707 Score: 308
Period size: 35 Copynumber: 8.1 Consensus size: 34
32773424 GTCCAAAAAG
* *
32773434 AAATAATACATGAACAGGAGAGATTCCCTGCAA-G
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAACA
*
32773468 AAATGAT-GTGAACAGGAGAGATTCCCTGCAACA
1 AAATAATCGTGAACAGGAGAGATTCCCTGCAACA
*
32773501 AAATAATCCGTGAACAGGAGAGATTCCCTGCAA-G
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAACA
* *
32773535 AAATGAT-GTGAACAGGAAAGATTCCCTGCAACA
1 AAATAATCGTGAACAGGAGAGATTCCCTGCAACA
* *
32773568 AAATAATGTGTGAACAGGAGAGATTCCTTGCAACA
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAACA
* *
32773603 AAATAATGCATGAACAGGAGAGATTCCCTGCAA-G
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAACA
* *
32773637 AAATGAT-GTGAACAGGAAAGATTCCCTGCAACA
1 AAATAATCGTGAACAGGAGAGATTCCCTGCAACA
* * * * *
32773670 GAATAATGCGTGAACAGTAAATATTCCCTGCAAGA
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAACA
32773705 AAA
1 AAA
32773708 GACAAGTGAA
Statistics
Matches: 206, Mismatches: 25, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
32 68 0.33
33 17 0.08
34 18 0.09
35 103 0.50
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.19
Consensus pattern (34 bp):
AAATAATCGTGAACAGGAGAGATTCCCTGCAACA
Found at i:32773542 original size:67 final size:66
Alignment explanation
Indices: 32773434--32773667 Score: 319
Period size: 67 Copynumber: 3.5 Consensus size: 66
32773424 GTCCAAAAAG
*
32773434 AAATAATACATGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAGAGATTCCCTGCAA
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAGAGATTCCCTGCAA
32773499 CA
65 CA
*
32773501 AAATAATCCGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAAAGATTCCCTGCAA
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAGAGATTCCCTGCAA
32773566 CA
65 CA
* * * *
32773568 AAATAATGTGTGAACAGGAGAGATTCCTTGCAACAAAATAATGCATGAACAGGAGAGATTCCCTG
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAA-GAAATGATG--TGAACAGGAGAGATTCCCTG
*
32773633 CAA-G
62 CAACA
* *
32773637 AAATGAT-GTGAACAGGAAAGATTCCCTGCAA
1 AAATAATCGTGAACAGGAGAGATTCCCTGCAA
32773668 CAGAATAATG
Statistics
Matches: 151, Mismatches: 13, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
67 116 0.77
68 7 0.05
69 6 0.04
70 22 0.15
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.19
Consensus pattern (66 bp):
AAATAATCGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAGAGATTCCCTGCAAC
A
Found at i:32773617 original size:102 final size:102
Alignment explanation
Indices: 32773444--32773707 Score: 399
Period size: 102 Copynumber: 2.6 Consensus size: 102
32773434 AAATAATACA
* * *
32773444 TGAACAGGAGAGATTCCCTGCAA-GAAATGA--TGTGAACAGGAGAGATTCCCTGCAACAAAATA
1 TGAACAGGAAAGATTCCCTGCAACAAAATAATGTGTGAACAGGAGAGATTCCCTGCAACAAAATA
*
32773506 ATCCGTGAACAGGAGAGATTCCCTGCAAGAAATGATG
66 ATCCATGAACAGGAGAGATTCCCTGCAAGAAATGATG
*
32773543 TGAACAGGAAAGATTCCCTGCAACAAAATAATGTGTGAACAGGAGAGATTCCTTGCAACAAAATA
1 TGAACAGGAAAGATTCCCTGCAACAAAATAATGTGTGAACAGGAGAGATTCCCTGCAACAAAATA
*
32773608 ATGCATGAACAGGAGAGATTCCCTGCAAGAAATGATG
66 ATCCATGAACAGGAGAGATTCCCTGCAAGAAATGATG
* * * * * *
32773645 TGAACAGGAAAGATTCCCTGCAACAGAATAATGCGTGAACAGTAAATATTCCCTGCAAGAAAA
1 TGAACAGGAAAGATTCCCTGCAACAAAATAATGTGTGAACAGGAGAGATTCCCTGCAACAAAA
32773708 GACAAGTGAA
Statistics
Matches: 149, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
99 22 0.15
100 5 0.03
102 122 0.82
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.19
Consensus pattern (102 bp):
TGAACAGGAAAGATTCCCTGCAACAAAATAATGTGTGAACAGGAGAGATTCCCTGCAACAAAATA
ATCCATGAACAGGAGAGATTCCCTGCAAGAAATGATG
Found at i:32773668 original size:67 final size:65
Alignment explanation
Indices: 32773444--32773707 Score: 305
Period size: 67 Copynumber: 3.9 Consensus size: 65
32773434 AAATAATACA
* * *
32773444 TGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAGAGATTCCCTGCAACAAAATAATC
1 TGAACAGGAGAGATTCCCTGCAAAAAATAATGTGAACAGGAAAGATTCCCTGCAACAAAATAAT-
32773509 CG
65 -G
* *
32773511 TGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAAAGATTCCCTGCAACAAAATAATG
1 TGAACAGGAGAGATTCCCTGCAAAAAATAATGTGAACAGGAAAGATTCCCTGCAACAAAATAA--
32773576 TG
64 TG
* * * *
32773578 TGAACAGGAGAGATTCCTTGCAACAAAATAATGCATGAACAGGAGAGATTCCCTGCAA-GAAATG
1 TGAACAGGAGAGATTCCCTGCAA-AAAATAATG--TGAACAGGAAAGATTCCCTGCAACAAAATA
32773642 ATG
63 ATG
* * * * *
32773645 TGAACAGGAAAGATTCCCTGCAACAGAATAATGCGTGAACAGTAAATATTCCCTGCAAGAAAA
1 TGAACAGGAGAGATTCCCTGCAA-AAAATAAT--GTGAACAGGAAAGATTCCCTGCAACAAAA
32773708 GACAAGTGAA
Statistics
Matches: 175, Mismatches: 14, Indels: 15
0.86 0.07 0.07
Matches are distributed among these distances:
67 136 0.78
68 10 0.06
69 7 0.04
70 22 0.13
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.19
Consensus pattern (65 bp):
TGAACAGGAGAGATTCCCTGCAAAAAATAATGTGAACAGGAAAGATTCCCTGCAACAAAATAATG
Found at i:32774390 original size:21 final size:22
Alignment explanation
Indices: 32774360--32774404 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
32774350 GAGCAAATTG
32774360 TTGATTCTATTTCCTTTTTG-AT
1 TTGATTCTA-TTCCTTTTTGTAT
*
32774382 TTGA-TCTATTCTTTTTTGTAT
1 TTGATTCTATTCCTTTTTGTAT
32774403 TT
1 TT
32774405 CTCTTTTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 8 0.38
22 4 0.19
ACGTcount: A:0.13, C:0.11, G:0.09, T:0.67
Consensus pattern (22 bp):
TTGATTCTATTCCTTTTTGTAT
Found at i:32779082 original size:15 final size:16
Alignment explanation
Indices: 32779052--32779083 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
32779042 ACTTTAGAGG
32779052 CAAAAATGTAATTTTT
1 CAAAAATGTAATTTTT
*
32779068 CAAAAATGTGATTTTT
1 CAAAAATGTAATTTTT
32779084 GGACTGGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (16 bp):
CAAAAATGTAATTTTT
Found at i:32779363 original size:51 final size:51
Alignment explanation
Indices: 32779308--32779755 Score: 392
Period size: 51 Copynumber: 8.8 Consensus size: 51
32779298 GAAAGTGTTG
* *
32779308 GTCACGTGTGTAGTACTGTGTGAAGGCTACTATGTGAATCGATAAATAATT
1 GTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATT
* * * * * * * *
32779359 GTCACATGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT--TT
1 GTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAA-ATAATT
* *
32779409 GGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATG
1 -GTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATT
* * * ** * * * *
32779461 GTCACATGTGTAGTACTAAGTGAAGGCTACAATATGTACCGAGAAGCT--TT
1 GTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAA-ATAATT
* * * * *
32779511 GGTCACGTGTGTAGTACTGTGTGAAGGCTACTACATGAATTGATAAATGATG
1 -GTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATT
* * * * * ***
32779563 GTCACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGA-AAAGCTTT
1 GTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATT
* * *
32779613 AGTCACATATGTAGTACTATGTGAAGGCTACTACGTGAATCG-TAAA-ACTT
1 -GTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATT
* * * *
32779663 GATAACGTGTATAGTACTATGTGAAGGCTATTACGTGAACCG-TAAA-AATT
1 G-TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATT
*
32779713 GATCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 G-TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGA
32779756 ATGATAATAA
Statistics
Matches: 314, Mismatches: 71, Indels: 24
0.77 0.17 0.06
Matches are distributed among these distances:
49 1 0.00
50 89 0.28
51 220 0.70
52 4 0.01
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (51 bp):
GTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATT
Found at i:32779481 original size:102 final size:102
Alignment explanation
Indices: 32779305--32779755 Score: 613
Period size: 102 Copynumber: 4.4 Consensus size: 102
32779295 AGTGAAAGTG
* *
32779305 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTATGTGAATCGATAAATAATTGTCACATGTGT
1 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGT
32779370 AGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT
66 AGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT
32779407 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGT
1 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGT
*
32779472 AGTACTAAGTGAAGGCTACAATATGTACCGAGAAGCT
66 AGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT
* * *
32779509 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACATGAATTGATAAATGATGGTCACATGTGT
1 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGT
* *
32779574 AGTACTAAGTGAAGGCTACTATGTGTACCGAAAAGCT
66 AGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT
* * * * * * * * *
32779611 TTAGTCACATATGTAGTACTATGTGAAGGCTACTACGTGAATCG-TAAA-ACTTGATAACGTGTA
1 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATA-ATGGTCACATGTG
* ** * * **
32779674 TAGTACTATGTGAAGGCTATTACGTGAACCGTA-AA-AA
65 TAGTACTAAGTGAAGGCTACAATGTGTACCG-AGAAGCT
* * *
32779711 TTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGA
32779756 ATGATAATAA
Statistics
Matches: 314, Mismatches: 32, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
100 39 0.12
101 41 0.13
102 234 0.75
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.30
Consensus pattern (102 bp):
TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGT
AGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT
Found at i:32799349 original size:10 final size:11
Alignment explanation
Indices: 32799331--32799362 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
32799321 TTTCCCTCTC
32799331 TCTTTTCTTTT
1 TCTTTTCTTTT
32799342 TC-TTTC-TTT
1 TCTTTTCTTTT
32799351 TCTTTTCTTTT
1 TCTTTTCTTTT
32799362 T
1 T
32799363 TTTAAGATGC
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
9 5 0.26
10 8 0.42
11 6 0.32
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (11 bp):
TCTTTTCTTTT
Found at i:32799351 original size:15 final size:14
Alignment explanation
Indices: 32799331--32799364 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
32799321 TTTCCCTCTC
32799331 TCTTTTCTTTTTCTT
1 TCTTTTC-TTTTCTT
32799346 TCTTTTCTTTTCTT
1 TCTTTTCTTTTCTT
32799360 T-TTTT
1 TCTTTT
32799365 TAAGATGCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.21
14 8 0.42
15 7 0.37
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (14 bp):
TCTTTTCTTTTCTT
Found at i:32823395 original size:30 final size:30
Alignment explanation
Indices: 32823352--32823410 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
32823342 AAACAGTTAA
* *
32823352 ACTTTAATCAGTATTCAAGCAAGCCCTTAT
1 ACTTTAATCAGTATCCAAACAAGCCCTTAT
* * *
32823382 ACTTTATTTAGTATCCAAATAAGCCCTTA
1 ACTTTAATCAGTATCCAAACAAGCCCTTA
32823411 ATTTTTAATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.36
Consensus pattern (30 bp):
ACTTTAATCAGTATCCAAACAAGCCCTTAT
Found at i:32832520 original size:55 final size:54
Alignment explanation
Indices: 32832454--32832561 Score: 189
Period size: 55 Copynumber: 2.0 Consensus size: 54
32832444 GTCCCATGGA
* *
32832454 ATGATAAATCATCACTTTTAATTTTAATAGTGCTTATGAATAATTAATTTGCAAG
1 ATGATAAATCATCACTTTTAATTTGAATAGTGCTAATGAATAA-TAATTTGCAAG
32832509 ATGATAAATCATCACTTTTAATTTGAATAGTGCTAATGAATAATAATTTGCAA
1 ATGATAAATCATCACTTTTAATTTGAATAGTGCTAATGAATAATAATTTGCAA
32832562 TCTATAATTT
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
54 10 0.20
55 41 0.80
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40
Consensus pattern (54 bp):
ATGATAAATCATCACTTTTAATTTGAATAGTGCTAATGAATAATAATTTGCAAG
Found at i:32835108 original size:43 final size:42
Alignment explanation
Indices: 32835047--32835210 Score: 185
Period size: 43 Copynumber: 3.9 Consensus size: 42
32835037 ATTTCGATAC
*
32835047 GTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGACTT
1 GTGTTTACGTGTAAGACCACGTCTGGGACGTTGGCATCGA-TT
* * *
32835090 GTGTTTACGTGTAAGACCATGTCTGGGACATTGCCATCGTATT
1 GTGTTTACGTGTAAGACCACGTCTGGGACGTTGGCATCG-ATT
32835133 -TGATTT--GTGTAAGACC-CTGTCTGGGACAG-TGGCATCGATAT
1 GTG-TTTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGAT-T
* *
32835174 GTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 GTGTTTACGTGTAAGACCACGTCTGGGACGTTGGCAT
32835211 TGTACGAGTC
Statistics
Matches: 102, Mismatches: 9, Indels: 20
0.78 0.07 0.15
Matches are distributed among these distances:
40 2 0.02
41 29 0.28
42 5 0.05
43 64 0.63
44 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.32
Consensus pattern (42 bp):
GTGTTTACGTGTAAGACCACGTCTGGGACGTTGGCATCGATT
Found at i:32839017 original size:20 final size:20
Alignment explanation
Indices: 32838992--32839032 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
32838982 TTTCTTAAGA
32838992 TAGCCAAAAATCCTACAAAT
1 TAGCCAAAAATCCTACAAAT
32839012 TAGCCAAAAATCCTACAAAT
1 TAGCCAAAAATCCTACAAAT
32839032 T
1 T
32839033 CCTTTCCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.49, C:0.24, G:0.05, T:0.22
Consensus pattern (20 bp):
TAGCCAAAAATCCTACAAAT
Found at i:32843315 original size:5 final size:6
Alignment explanation
Indices: 32843299--32843328 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
32843289 TCTATTCGTT
32843299 TTTTTA TTTTTTA TTTTTA TTTTTA TTTTT
1 TTTTTA -TTTTTA TTTTTA TTTTTA TTTTT
32843329 TTCTGTTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (6 bp):
TTTTTA
Found at i:32843340 original size:19 final size:19
Alignment explanation
Indices: 32843285--32843329 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
32843275 ATTCCAATTC
32843285 TTTTTCTATTCGTT-TTTTTA
1 TTTTT-TATT-GTTATTTTTA
*
32843305 TTTTTTATTTTTATTTTTA
1 TTTTTTATTGTTATTTTTA
32843324 TTTTTT
1 TTTTTT
32843330 TCTGTTGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 2 0.09
19 16 0.70
20 5 0.22
ACGTcount: A:0.11, C:0.04, G:0.02, T:0.82
Consensus pattern (19 bp):
TTTTTTATTGTTATTTTTA
Found at i:32846054 original size:14 final size:14
Alignment explanation
Indices: 32846035--32846066 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
32846025 TAATTTCTCG
32846035 ATTTGTGAAGGATT
1 ATTTGTGAAGGATT
32846049 ATTTGTGAAGGATT
1 ATTTGTGAAGGATT
32846063 ATTT
1 ATTT
32846067 TAGTGTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (14 bp):
ATTTGTGAAGGATT
Found at i:32849286 original size:80 final size:80
Alignment explanation
Indices: 32849153--32849313 Score: 234
Period size: 80 Copynumber: 2.0 Consensus size: 80
32849143 AAGTTTGGAA
* * * *
32849153 AACTAGTCAACTTGTGACAACTTTTTGGATGGAATCCATGCATTTTTGGGTTAATATGTCTTCAT
1 AACTAGCCAACTTGTGACAACTTTTTGGATAGAATCCATGCATTTCTGGGTTAACATGTCTTCAT
32849218 GGTGTTCTAAGATCT
66 GGTGTTCTAAGATCT
** *
32849233 AACTAGCCAACTTGTGATGACTTTTTGGATAGAATTCA-GACATTTCTGGGTTAACATGTCTTCA
1 AACTAGCCAACTTGTGACAACTTTTTGGATAGAATCCATG-CATTTCTGGGTTAACATGTCTTCA
*
32849297 TGTTGTTCTAAGATCT
65 TGGTGTTCTAAGATCT
32849313 A
1 A
32849314 CATCTTATCT
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
79 1 0.01
80 71 0.99
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (80 bp):
AACTAGCCAACTTGTGACAACTTTTTGGATAGAATCCATGCATTTCTGGGTTAACATGTCTTCAT
GGTGTTCTAAGATCT
Found at i:32850683 original size:24 final size:23
Alignment explanation
Indices: 32850656--32850717 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 23
32850646 AATATTTTAA
32850656 TATATAATATTAATTTTAAATATT
1 TATA-AATATTAATTTTAAATATT
* * *
32850680 TATAAGTAATTAATATTAATTATT
1 TATAAAT-ATTAATTTTAAATATT
32850704 TATAAA-ATTTAATT
1 TATAAATA-TTAATT
32850718 AGAATATATA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
22 1 0.03
23 7 0.23
24 23 0.74
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TATAAATATTAATTTTAAATATT
Found at i:32856526 original size:20 final size:20
Alignment explanation
Indices: 32856501--32856539 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
32856491 GATATTTTTA
32856501 AATTTT-AAATAACAAAAATT
1 AATTTTCAAATAA-AAAAATT
*
32856521 AATTTTCAATTAAAAAAAT
1 AATTTTCAAATAAAAAAAT
32856540 GTGGACGGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (20 bp):
AATTTTCAAATAAAAAAATT
Found at i:32856785 original size:26 final size:26
Alignment explanation
Indices: 32856757--32856807 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 26
32856747 AAATAAGGTT
32856757 AAAATATTATTAAATGATAT-TAAATTA
1 AAAATA-TA-TAAATGATATATAAATTA
*
32856784 AAAATATATAAATTATATATAAAT
1 AAAATATATAAATGATATATAAAT
32856808 GTTGTATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 9 0.41
26 7 0.32
27 6 0.27
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (26 bp):
AAAATATATAAATGATATATAAATTA
Found at i:32857036 original size:20 final size:19
Alignment explanation
Indices: 32857011--32857064 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
32857001 AAAAATTACA
32857011 AAAAAAAATCAAAATAATTT
1 AAAAAAAATCAAAAT-ATTT
** *
32857031 -TTAAAATTCAAAATATTT
1 AAAAAAAATCAAAATATTT
32857049 AAAAAAAATTCAAAAT
1 AAAAAAAA-TCAAAAT
32857065 TTATATTTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
18 4 0.15
19 15 0.58
20 7 0.27
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.30
Consensus pattern (19 bp):
AAAAAAAATCAAAATATTT
Found at i:32857095 original size:26 final size:26
Alignment explanation
Indices: 32857046--32857097 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
32857036 ATTCAAAATA
*
32857046 TTTAAAAAAAATTCAAAATTTATATT
1 TTTAAAAAAAATTCAAAATATATATT
*
32857072 TTTAAGAAAAATTCTAAAAATATATA
1 TTTAAAAAAAATTC--AAAATATATA
32857098 AAAAATTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 13 0.59
28 9 0.41
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (26 bp):
TTTAAAAAAAATTCAAAATATATATT
Found at i:32857109 original size:18 final size:18
Alignment explanation
Indices: 32857078--32857133 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
32857068 TATTTTTAAG
32857078 AAAAATTCTAAAAATATATA
1 AAAAATT-T-AAAATATATA
* *
32857098 AAAAATTTAAAATTTTTA
1 AAAAATTTAAAATATATA
*
32857116 AAAAAATTAAAATA-ATA
1 AAAAATTTAAAATATATA
32857133 A
1 A
32857134 TTTGAAGACG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
17 3 0.10
18 20 0.65
19 1 0.03
20 7 0.23
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAAATTTAAAATATATA
Found at i:32857442 original size:21 final size:22
Alignment explanation
Indices: 32857416--32857457 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 22
32857406 TCTCTCAATT
32857416 TTCTCCTTTT-TTTTTTTTTCA
1 TTCTCCTTTTGTTTTTTTTTCA
32857437 TTCTCCTTTTGTTTTTTTTTC
1 TTCTCCTTTTGTTTTTTTTTC
32857458 TTGGCTTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.76
Consensus pattern (22 bp):
TTCTCCTTTTGTTTTTTTTTCA
Found at i:32863973 original size:13 final size:13
Alignment explanation
Indices: 32863955--32863979 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32863945 ACACATATTA
32863955 TAGAAAATCTAAT
1 TAGAAAATCTAAT
32863968 TAGAAAATCTAA
1 TAGAAAATCTAA
32863980 AATAGTTAAA
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:0.56, C:0.08, G:0.08, T:0.28
Consensus pattern (13 bp):
TAGAAAATCTAAT
Found at i:32864943 original size:14 final size:15
Alignment explanation
Indices: 32864921--32864997 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
32864911 CAATCAAACA
32864921 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
32864935 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
32864950 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
32864970 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
32864984 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
32864998 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:32864962 original size:20 final size:20
Alignment explanation
Indices: 32864937--32864976 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
32864927 AATATTTTCC
*
32864937 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
32864957 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
32864977 TCATTTTACG
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:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:32864982 original size:34 final size:35
Alignment explanation
Indices: 32864925--32864991 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
32864915 CAAACACCAG
*
32864925 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
32864960 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
32864992 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:32865283 original size:2 final size:2
Alignment explanation
Indices: 32865278--32865312 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
32865268 CCCTACGTAT
32865278 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
32865313 TCCACTCAAT
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:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:32870389 original size:31 final size:31
Alignment explanation
Indices: 32870318--32870410 Score: 107
Period size: 31 Copynumber: 3.0 Consensus size: 31
32870308 TGTGAATAGC
* * *
32870318 TACCAAGTTCAAGTCCCAATATGAAAAGAAT
1 TACCAAGTTTAAGTCCCAATATGAGAATAAT
* *
32870349 TACCAAGTTTAAGTCTCAATGTGAGAATAAT
1 TACCAAGTTTAAGTCCCAATATGAGAATAAT
* * *
32870380 TATCAAGTTT-AGGCCCGATATGAGAATAAT
1 TACCAAGTTTAAGTCCCAATATGAGAATAAT
32870410 T
1 T
32870411 GTCAAGTTCA
Statistics
Matches: 52, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
30 17 0.33
31 35 0.67
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.29
Consensus pattern (31 bp):
TACCAAGTTTAAGTCCCAATATGAGAATAAT
Found at i:32870608 original size:50 final size:50
Alignment explanation
Indices: 32870533--32870628 Score: 156
Period size: 50 Copynumber: 1.9 Consensus size: 50
32870523 GATATGAGAG
* *
32870533 TTATTACCAAATTTAGGCAACTAATAGTGATTTAACCTTCCAACTTAGAA
1 TTATTACCAAATTTAGGCAACTAATAGTAATTTAACCTTCAAACTTAGAA
* *
32870583 TTATTGCCAAATTTAGGCACCTAATAGTAATTTAACCTTCAAACTT
1 TTATTACCAAATTTAGGCAACTAATAGTAATTTAACCTTCAAACTT
32870629 TAAAGTGAGC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.35
Consensus pattern (50 bp):
TTATTACCAAATTTAGGCAACTAATAGTAATTTAACCTTCAAACTTAGAA
Found at i:32871771 original size:128 final size:127
Alignment explanation
Indices: 32871584--32871824 Score: 331
Period size: 128 Copynumber: 1.9 Consensus size: 127
32871574 ATTAATCTCA
32871584 ATATTTGTTTGGATTTTATGTTAATGTTTCGTCACTTATGTCCAAGATTCATTAAAAGATCAATG
1 ATATTTGTTTGGATTTTATGTTAATGTTTCGTCACTTATGTCCAAGATTCATTAAAAGATCAATG
** *
32871649 TCCATTCATGTATTGCTAATATAAGTGT-CTGTGCAGTATAAAAACCAATCTACCATCTCAAC
66 TCCATTCATACATTGCTAATATAAGCGTCCT-TGCAGTATAAAAACCAATCTACCATCTCAAC
** * * *** *
32871711 ATATTTGTTTGGATTTTATGTTGGTTTTTTTGTCACTTATGTCTGTGATTCATTACAAGATCAAT
1 ATATTTGTTTGGATTTTATGTT-AATGTTTCGTCACTTATGTCCAAGATTCATTAAAAGATCAAT
** *
32871776 GTTTATTCATACATTGCTAATATAAGCGTCCTTGCAGTGTAAAAACCAA
65 GTCCATTCATACATTGCTAATATAAGCGTCCTTGCAGTATAAAAACCAA
32871825 ACCACCGTGC
Statistics
Matches: 98, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
127 22 0.22
128 74 0.76
129 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (127 bp):
ATATTTGTTTGGATTTTATGTTAATGTTTCGTCACTTATGTCCAAGATTCATTAAAAGATCAATG
TCCATTCATACATTGCTAATATAAGCGTCCTTGCAGTATAAAAACCAATCTACCATCTCAAC
Found at i:32871907 original size:136 final size:132
Alignment explanation
Indices: 32871504--32872192 Score: 586
Period size: 136 Copynumber: 5.2 Consensus size: 132
32871494 GATGTTTTCT
* * * * *
32871504 TTAAAAGATCAATGCTT-ATTCATATTTGCTAATACT--GCGTTTTTGCAATGTAAAAACCAGAT
1 TTAAAAGATCAATG-TTCATTCATAATTGCTAATA-TAAGCG-TCTTGCAGTGTAAAAACCAAAC
* ** *
32871566 CACCATGTATTAATCTC-AATATTTGTTTGGATTTTATGTTAATGTTTCGTCACTTATGTCCAAG
63 CACCATGTATTAATCTCAAATATTTGTTTGGATTTTATGTTGATGTTTTATCACTTATGTCTAAG
32871630 ATTCA
128 ATTCA
* * * * * *
32871635 TTAAAAGATCAATGTCCATTCATGTATTGCTAATATAAGTGTCTGTGCAGTATAAAAACCAATCT
1 TTAAAAGATCAATGTTCATTCAT-AATTGCTAATATAAGCGTCT-TGCAGTGTAAAAACCAAACC
* * * **
32871700 ACC--------ATCTCAACATATTTGTTTGGATTTTATGTTGGTTTTTTTGTCACTTATGTCTGT
64 ACCATGTATTAATCTCAA-ATATTTGTTTGGATTTTATGTT-GATGTTTTATCACTTATGTCTAA
32871757 GATTCA
127 GATTCA
* *
32871763 TTACAAGATCAATGTTTATTCATACATTGCTAATATAAGCGTCCTTGCAGTGTAAAAACCAAACC
1 TTAAAAGATCAATGTTCATTCATA-ATTGCTAATATAAGCGT-CTTGCAGTGTAAAAACCAAACC
* * * * *
32871828 ACCGTGCATTAATCTCAATATATTTGTTTTGATTTTTATGTTGATGTTTTATTAATTATGTCTAA
64 ACCATGTATTAATCTCAA-ATATTTGTTTGGA-TTTTATGTTGATGTTTTATCACTTATGTCTAA
32871893 GATTCA
127 GATTCA
* * * * * * * *
32871899 CTAAAAGATCAATTTTTATTCAAATATTTCTAGTATAAGTGTCTGTGCAGTGTAAAAAACCAAGC
1 TTAAAAGATCAATGTTCATTCATA-ATTGCTAATATAAGCGTCT-TGCAGTGT-AAAAACCAAAC
* * * * *
32871964 CATCATGTATTTATCTCAATATGTTTGTTTGGATTTTTATGTTGATAGTTTTGTCAGTTATGTCT
63 CACCATGTATTAATCTCAA-ATATTTGTTTGGA-TTTTATGTTGAT-GTTTTATCACTTATGTCT
*
32872029 AACATTCA
125 AAGATTCA
* * * * * *
32872037 TTAAAAGAGATCAATGCTCATTCATATTTGCTAATAT-TGCGTTTTCGCAATGTAAAAAGCAGAA
1 TT-AAA-AGATCAATGTTCATTCATAATTGCTAATATAAGCGTCTT-GCAGTGTAAAAACCA-AA
* * *
32872101 -CACCATGTAATAATCTC--A-ATGTGTTTGGATTTTATGTTGATGTTTTTATCATTTATGTCTA
62 CCACCATGTATTAATCTCAAATATTTGTTTGGATTTTATGTTGATG-TTTTATCACTTATGTCTA
*
32872162 ACATTCA
126 AGATTCA
32872169 -TACAAAGATCAATGTTCATTCATA
1 TTA-AAAGATCAATGTTCATTCATA
32872193 TGTGTTTTGT
Statistics
Matches: 454, Mismatches: 76, Indels: 57
0.77 0.13 0.10
Matches are distributed among these distances:
125 5 0.01
126 1 0.00
127 22 0.05
128 78 0.17
129 2 0.00
130 20 0.04
131 25 0.06
132 46 0.10
133 28 0.06
134 1 0.00
135 2 0.00
136 83 0.18
137 81 0.18
138 34 0.07
139 11 0.02
140 15 0.03
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (132 bp):
TTAAAAGATCAATGTTCATTCATAATTGCTAATATAAGCGTCTTGCAGTGTAAAAACCAAACCAC
CATGTATTAATCTCAAATATTTGTTTGGATTTTATGTTGATGTTTTATCACTTATGTCTAAGATT
CA
Found at i:32872094 original size:137 final size:134
Alignment explanation
Indices: 32871504--32872193 Score: 598
Period size: 137 Copynumber: 5.2 Consensus size: 134
32871494 GATGTTTTCT
*
32871504 TTAAAAGATCAATGCTT-ATTCATATTTGCTAATACT--GCGTTTTTGCAATGTAAAAACC-AGA
1 TTAAAAGATCAATG-TTCATTCATATTTGCTAATA-TAAGCGTCTTTGCAATGTAAAAACCAAG-
* * * *
32871565 TCACCATGTATTAATCTC-A-ATATTTGTTTGGATTTTATGTTAATGTTTCGTCACTTATGTCCA
63 CCACCATGTATTAATCTCAATATATTTGTTTGGATTTTATGTTGATGTTTTGTCACTTATGTCTA
32871628 AGATTCA
128 AGATTCA
* * * * *
32871635 TTAAAAGATCAATGTCCATTCATGTATTGCTAATATAAGTGTCTGTGC-A-GTATAAA--AA-CC
1 TTAAAAGATCAATGTTCATTCATAT-TTGCTAATATAAGCGTCTTTGCAATGTAAAAACCAAGCC
* ** * * * **
32871695 A--ATCTA-CCATCTCAACATATTTGTTTGGATTTTATGTTGGTTTTTTTGTCACTTATGTCTGT
65 ACCATGTATTAATCTCAATATATTTGTTTGGATTTTATGTT-GATGTTTTGTCACTTATGTCTAA
32871757 GATTCA
129 GATTCA
* * * * * *
32871763 TTACAAGATCAATGTTTATTCATACATTGCTAATATAAGCGTCCTTGCAGTGTAAAAACCAAACC
1 TTAAAAGATCAATGTTCATTCATA-TTTGCTAATATAAGCGTCTTTGCAATGTAAAAACCAAGCC
* * * * * *
32871828 ACCGTGCATTAATCTCAATATATTTGTTTTGATTTTTATGTTGATGTTTTATTAATTATGTCTAA
65 ACCATGTATTAATCTCAATATATTTGTTTGGA-TTTTATGTTGATGTTTTGTCACTTATGTCTAA
32871893 GATTCA
129 GATTCA
* * * * * * *
32871899 CTAAAAGATCAATTTTTATTCAAATATTT-CTAGTATAAGTGTCTGTGCAGTGTAAAAAACCAAG
1 TTAAAAGATCAATGTTCATTC--ATATTTGCTAATATAAGCGTCTTTGCAATGT-AAAAACCAAG
* * * *
32871963 CCATCATGTATTTATCTCAATATGTTTGTTTGGATTTTTATGTTGATAGTTTTGTCAGTTATGTC
63 CCACCATGTATTAATCTCAATATATTTGTTTGGA-TTTTATGTTGAT-GTTTTGTCACTTATGTC
*
32872028 TAACATTCA
126 TAAGATTCA
* * *
32872037 TTAAAAGAGATCAATGCTCATTCATATTTGCTAATAT-TGCGT-TTTCGCAATGTAAAAAGC-AG
1 TT-AAA-AGATCAATGTTCATTCATATTTGCTAATATAAGCGTCTTT-GCAATGTAAAAACCAAG
* * * * *
32872099 AACACCATGTAATAATCTC---A-ATGTGTTTGGATTTTATGTTGATGTTTTTATCATTTATGTC
63 -CCACCATGTATTAATCTCAATATATTTGTTTGGATTTTATGTTGATG-TTTTGTCACTTATGTC
*
32872160 TAACATTCA
126 TAAGATTCA
32872169 -TACAAAGATCAATGTTCATTCATAT
1 TTA-AAAGATCAATGTTCATTCATAT
32872194 GTGTTTTGTC
Statistics
Matches: 451, Mismatches: 79, Indels: 59
0.77 0.13 0.10
Matches are distributed among these distances:
125 5 0.01
126 5 0.01
127 22 0.05
128 63 0.14
130 28 0.06
131 32 0.07
132 47 0.10
133 19 0.04
134 1 0.00
135 2 0.00
136 81 0.18
137 83 0.18
138 41 0.09
139 9 0.02
140 13 0.03
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (134 bp):
TTAAAAGATCAATGTTCATTCATATTTGCTAATATAAGCGTCTTTGCAATGTAAAAACCAAGCCA
CCATGTATTAATCTCAATATATTTGTTTGGATTTTATGTTGATGTTTTGTCACTTATGTCTAAGA
TTCA
Found at i:32883596 original size:10 final size:11
Alignment explanation
Indices: 32883547--32883594 Score: 60
Period size: 11 Copynumber: 4.3 Consensus size: 11
32883537 CGTTTAATTA
*
32883547 TCTATTCTTTT
1 TCTATTTTTTT
32883558 TCTATTTTTTT
1 TCTATTTTTTT
*
32883569 TCTATTTTTTC
1 TCTATTTTTTT
*
32883580 TCTCTTTATTTT
1 TCTATTT-TTTT
32883592 TCT
1 TCT
32883595 TTCTCTTTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
11 26 0.81
12 6 0.19
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.75
Consensus pattern (11 bp):
TCTATTTTTTT
Found at i:32890284 original size:51 final size:51
Alignment explanation
Indices: 32890224--32890446 Score: 211
Period size: 51 Copynumber: 4.4 Consensus size: 51
32890214 CGGTGGTTTG
* * *
32890224 CACATAGTACTACCCATGTGACCATTGTC-ATCCAATACACGTAGTAGCCTA
1 CACATAGTACTACACACGTGACCATTGTCTAT-CAATACACATAGTAGCCTA
* * * ** *
32890275 CACATAGTACTACACACGTGATCA-AG-CTTTCTGGTTCACATAGTAGCCTA
1 CACATAGTACTACACACGTGACCATTGTCTATC-AATACACATAGTAGCCTA
* * * * *
32890325 CACATAGTACTACACACGTGACCA-AGGCCATCAGGTACACATAGTAGCCTG
1 CACATAGTACTACACACGTGACCATTGTCTATCA-ATACACATAGTAGCCTA
* * * *
32890376 CACATAGTACTACACATGTGACCATTATCTATCGATACACATAGTAGCCTT
1 CACATAGTACTACACACGTGACCATTGTCTATCAATACACATAGTAGCCTA
* *
32890427 TACTTAGTACTACACACGTG
1 CACATAGTACTACACACGTG
32890447 TTCATAGGTA
Statistics
Matches: 141, Mismatches: 26, Indels: 10
0.80 0.15 0.06
Matches are distributed among these distances:
49 2 0.01
50 41 0.29
51 94 0.67
52 4 0.03
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.26
Consensus pattern (51 bp):
CACATAGTACTACACACGTGACCATTGTCTATCAATACACATAGTAGCCTA
Found at i:32890327 original size:50 final size:49
Alignment explanation
Indices: 32890259--32890446 Score: 223
Period size: 51 Copynumber: 3.7 Consensus size: 49
32890249 TGTCATCCAA
* * *
32890259 TACACGTAGTAGCCTACACATAGTACTACACACGTGATCAAGCTTTCTGG
1 TACACATAGTAGCCTACACATAGTACTACACACGTGACCAAGCTATC-GG
* *
32890309 TTCACATAGTAGCCTACACATAGTACTACACACGTGACCAAGGCCATCAGG
1 TACACATAGTAGCCTACACATAGTACTACACACGTGACCAA-GCTATC-GG
* * * *
32890360 TACACATAGTAGCCTGCACATAGTACTACACATGTGACCATTATCTATCGA
1 TACACATAGTAGCCTACACATAGTACTACACACGTGACCA--AGCTATCGG
** *
32890411 TACACATAGTAGCCTTTACTTAGTACTACACACGTG
1 TACACATAGTAGCCTACACATAGTACTACACACGTG
32890447 TTCATAGGTA
Statistics
Matches: 119, Mismatches: 16, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
50 38 0.32
51 76 0.64
52 4 0.03
53 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.26
Consensus pattern (49 bp):
TACACATAGTAGCCTACACATAGTACTACACACGTGACCAAGCTATCGG
Found at i:32893569 original size:25 final size:25
Alignment explanation
Indices: 32893541--32893594 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
32893531 GTGAGCCATT
32893541 TATCGGGAAGATCAAGAGAGCCAAA
1 TATCGGGAAGATCAAGAGAGCCAAA
* * **
32893566 TATCTGGAAGCTCGTGAGAGCCAAA
1 TATCGGGAAGATCAAGAGAGCCAAA
32893591 TATC
1 TATC
32893595 AGGATGCTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.37, C:0.19, G:0.26, T:0.19
Consensus pattern (25 bp):
TATCGGGAAGATCAAGAGAGCCAAA
Found at i:32893603 original size:25 final size:25
Alignment explanation
Indices: 32893556--32893636 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 25
32893546 GGAAGATCAA
*
32893556 GAGAGCCAAATATCTGGAAGCTCGT
1 GAGAGCCAAATATCAGGAAGCTCGT
* *
32893581 GAGAGCCAAATATCAGGATGCTCAT
1 GAGAGCCAAATATCAGGAAGCTCGT
* ** * * *
32893606 AAGAGATAAACAACGGGAAGCTCGT
1 GAGAGCCAAATATCAGGAAGCTCGT
32893631 GAGAGC
1 GAGAGC
32893637 TGTGGTGTAT
Statistics
Matches: 43, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.37, C:0.19, G:0.28, T:0.16
Consensus pattern (25 bp):
GAGAGCCAAATATCAGGAAGCTCGT
Found at i:32893955 original size:22 final size:22
Alignment explanation
Indices: 32893924--32893968 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
32893914 GTATTAGGTC
*
32893924 TATCCGGATCTATATGAATGAA
1 TATCCAGATCTATATGAATGAA
32893946 TATCCAGATCTATATGAATGAA
1 TATCCAGATCTATATGAATGAA
32893968 T
1 T
32893969 TTAACTCGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (22 bp):
TATCCAGATCTATATGAATGAA
Found at i:32896585 original size:12 final size:12
Alignment explanation
Indices: 32896568--32896599 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
32896558 TACCCAATTA
32896568 AATTAATTCTAT
1 AATTAATTCTAT
*
32896580 AATTAACTCTAT
1 AATTAATTCTAT
32896592 AATTAATT
1 AATTAATT
32896600 TAATTCAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (12 bp):
AATTAATTCTAT
Found at i:32904587 original size:14 final size:14
Alignment explanation
Indices: 32904568--32904594 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
32904558 ATCAACTAAG
32904568 AATGATATGGCTGA
1 AATGATATGGCTGA
32904582 AATGATATGGCTG
1 AATGATATGGCTG
32904595 GCGGAGCTAC
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:0.07, G:0.30, T:0.30
Consensus pattern (14 bp):
AATGATATGGCTGA
Found at i:32906392 original size:44 final size:44
Alignment explanation
Indices: 32906329--32906419 Score: 155
Period size: 44 Copynumber: 2.1 Consensus size: 44
32906319 ATTTGTAGGT
* *
32906329 AAAATAATATTAAAATAACCTACACTAATCAGAGTTTAAGTGGG
1 AAAATAATATTAAAATAACCTACACTAATCAGAGCTTAAGTGAG
*
32906373 AAAATAATATTAAAATAACCTACACTAATTAGAGCTTAAGTGAG
1 AAAATAATATTAAAATAACCTACACTAATCAGAGCTTAAGTGAG
32906417 AAA
1 AAA
32906420 CTAAAAACAG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.51, C:0.11, G:0.12, T:0.26
Consensus pattern (44 bp):
AAAATAATATTAAAATAACCTACACTAATCAGAGCTTAAGTGAG
Found at i:32909012 original size:16 final size:18
Alignment explanation
Indices: 32908979--32909019 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
32908969 GGGAAGGGAT
32908979 AAAAAATTGTCAGAAGAA
1 AAAAAATTGTCAGAAGAA
32908997 AAAAAATTG-CAG-AGAA
1 AAAAAATTGTCAGAAGAA
32909013 ACAAAAA
1 A-AAAAA
32909020 CGTGGGGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.23
17 8 0.36
18 9 0.41
ACGTcount: A:0.66, C:0.07, G:0.15, T:0.12
Consensus pattern (18 bp):
AAAAAATTGTCAGAAGAA
Found at i:32911319 original size:25 final size:25
Alignment explanation
Indices: 32911291--32911339 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
32911281 TCAAGCCTAA
32911291 TTTGATTTGGATCGTAGAGAGCAAC
1 TTTGATTTGGATCGTAGAGAGCAAC
32911316 TTTGATTTGGATCGTAGAGAGCAA
1 TTTGATTTGGATCGTAGAGAGCAA
32911340 TCTAACCTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.29, C:0.10, G:0.29, T:0.33
Consensus pattern (25 bp):
TTTGATTTGGATCGTAGAGAGCAAC
Found at i:32916232 original size:25 final size:25
Alignment explanation
Indices: 32916193--32916250 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
32916183 ATGTAAACGG
* *
32916193 GAAGCTCTTGCGAGCCAAATATCGA
1 GAAGCTCATGAGAGCCAAATATCGA
* *
32916218 GAAGCTCATGAGAGCCAAGTATCGG
1 GAAGCTCATGAGAGCCAAATATCGA
32916243 GAAGCTCA
1 GAAGCTCA
32916251 AAAGAGCTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.33, C:0.22, G:0.28, T:0.17
Consensus pattern (25 bp):
GAAGCTCATGAGAGCCAAATATCGA
Found at i:32916256 original size:25 final size:25
Alignment explanation
Indices: 32916204--32916257 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
32916194 AAGCTCTTGC
**
32916204 GAGCCAAATATCGAGAAGCTCATGA
1 GAGCCAAATATCGAGAAGCTCAAAA
* *
32916229 GAGCCAAGTATCGGGAAGCTCAAAA
1 GAGCCAAATATCGAGAAGCTCAAAA
32916254 GAGC
1 GAGC
32916258 TATGGTGTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.39, C:0.20, G:0.28, T:0.13
Consensus pattern (25 bp):
GAGCCAAATATCGAGAAGCTCAAAA
Found at i:32917877 original size:35 final size:35
Alignment explanation
Indices: 32917838--32917906 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
32917828 CACAATGTTT
* *
32917838 GTTATGACCATTTAAAGAATTCAAACATATTTTTA
1 GTTATGACCATCTAAAGAATTCAAAAATATTTTTA
32917873 GTTATGACCATCTAAAGAATTCAAAAATATTTTT
1 GTTATGACCATCTAAAGAATTCAAAAATATTTTT
32917907 CTTCACAATC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.39
Consensus pattern (35 bp):
GTTATGACCATCTAAAGAATTCAAAAATATTTTTA
Found at i:32920501 original size:30 final size:28
Alignment explanation
Indices: 32920444--32920505 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 28
32920434 TTTTGAAATC
32920444 TAAAAAAAAAATATATAAGGATCAAATTCT
1 TAAAAAAAAAATATAT-AGGATCAAATT-T
*
32920474 TAAAAAAGAAAAGTATAT-GGATTAAATTT
1 TAAAAAA-AAAA-TATATAGGATCAAATTT
32920503 TAA
1 TAA
32920506 TTCACCCACC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
29 4 0.14
30 16 0.55
31 4 0.14
32 5 0.17
ACGTcount: A:0.58, C:0.03, G:0.10, T:0.29
Consensus pattern (28 bp):
TAAAAAAAAAATATATAGGATCAAATTT
Found at i:32922289 original size:49 final size:49
Alignment explanation
Indices: 32922217--32922316 Score: 200
Period size: 49 Copynumber: 2.0 Consensus size: 49
32922207 CATAACTGCA
32922217 CCCTGAAATCCTCCATTACAACACATGGAGGGTCACCTTCTATAAGGTC
1 CCCTGAAATCCTCCATTACAACACATGGAGGGTCACCTTCTATAAGGTC
32922266 CCCTGAAATCCTCCATTACAACACATGGAGGGTCACCTTCTATAAGGTC
1 CCCTGAAATCCTCCATTACAACACATGGAGGGTCACCTTCTATAAGGTC
32922315 CC
1 CC
32922317 ATTTCAACTA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.28, C:0.32, G:0.16, T:0.24
Consensus pattern (49 bp):
CCCTGAAATCCTCCATTACAACACATGGAGGGTCACCTTCTATAAGGTC
Found at i:32922975 original size:10 final size:10
Alignment explanation
Indices: 32922962--32922986 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
32922952 TCTTTTTCCT
32922962 TTTTTTTACA
1 TTTTTTTACA
32922972 TTTTTTTACA
1 TTTTTTTACA
32922982 TTTTT
1 TTTTT
32922987 ATTTTTTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTTTTTACA
Found at i:32932444 original size:21 final size:20
Alignment explanation
Indices: 32932349--32932445 Score: 72
Period size: 21 Copynumber: 4.7 Consensus size: 20
32932339 TATTTTTAAG
*
32932349 TAATAAATATTAATTATTTA
1 TAATAAATATTAAATATTTA
*
32932369 TAA-AAATTAATTAGAATATATA
1 TAATAAA-T-ATTA-AATATTTA
* * *
32932391 AAATATATTTTAAATATTTA
1 TAATAAATATTAAATATTTA
*
32932411 -AATATAACCATTAAATATTTA
1 TAATA-AA-TATTAAATATTTA
32932432 TAATAAGATATTAA
1 TAATAA-ATATTAA
32932446 TACATTAGTA
Statistics
Matches: 59, Mismatches: 10, Indels: 15
0.70 0.12 0.18
Matches are distributed among these distances:
19 7 0.12
20 12 0.20
21 24 0.41
22 14 0.24
23 2 0.03
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (20 bp):
TAATAAATATTAAATATTTA
Found at i:32945012 original size:3 final size:3
Alignment explanation
Indices: 32945006--32945032 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
32944996 ATACAAAAAA
32945006 AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG
32945033 CATAATGGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:32946188 original size:40 final size:40
Alignment explanation
Indices: 32946109--32946188 Score: 101
Period size: 40 Copynumber: 2.0 Consensus size: 40
32946099 CATTATTCAA
* *
32946109 TTATAATATAATTATTAATTTATGTACTTATTTTATTTAT
1 TTATAATATAATTATTAATTTATATACTTATTATATTTAT
*
32946149 TTATAATATAATTATTAATACTTATATTC-TATTAT-TTTAT
1 TTATAATATAATTATTAAT--TTATATACTTATTATATTTAT
32946189 ATCTAAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
40 24 0.69
41 5 0.14
42 6 0.17
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.59
Consensus pattern (40 bp):
TTATAATATAATTATTAATTTATATACTTATTATATTTAT
Found at i:32949804 original size:24 final size:24
Alignment explanation
Indices: 32949777--32949822 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
32949767 TTTTAAATTC
*
32949777 TTAGGAAAATTATAAAATTATAAA
1 TTAGGAAAATGATAAAATTATAAA
* *
32949801 TTAGTATAATGATAAAATTATA
1 TTAGGAAAATGATAAAATTATA
32949823 TTGGCTTCCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.09, T:0.37
Consensus pattern (24 bp):
TTAGGAAAATGATAAAATTATAAA
Found at i:32951523 original size:14 final size:14
Alignment explanation
Indices: 32951504--32951535 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
32951494 TCCAATCACC
32951504 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
32951518 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
32951532 GGGC
1 GGGC
32951536 TAAATGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.16, G:0.47, T:0.31
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:32956643 original size:14 final size:14
Alignment explanation
Indices: 32956624--32956655 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
32956614 TCCAATCACC
32956624 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
32956638 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
32956652 GGGC
1 GGGC
32956656 TAAATGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.16, G:0.47, T:0.31
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:32961763 original size:14 final size:14
Alignment explanation
Indices: 32961744--32961775 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
32961734 TCCAATCACC
32961744 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
32961758 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
32961772 GGGC
1 GGGC
32961776 TAAATGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.16, G:0.47, T:0.31
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:32967290 original size:95 final size:92
Alignment explanation
Indices: 32967074--32967375 Score: 318
Period size: 97 Copynumber: 3.1 Consensus size: 92
32967064 AAAATATGCC
* * * *
32967074 TTAAATCCAAACCCTCATTACAAGAAATAAATTAGTGAATAAAATTTACCATTTTAGTGGCTATG
1 TTAAATCCAAA-CCTTATTACAAGAAATAAATTAGTGAATAAAATTTATCATTTTA-AGACTATG
* * *
32967139 TCCACTAGGTTTCCAGTACG-CCCCATTACT
64 TCC-TTAGGTTTCTAGTACGTCGCCATTA-T
* * *
32967169 GCTTAAATCCAAACCTTTATTACAAGAAATAAATTCGTGAATAAAATTTATCATGTTAAGAATAT
1 --TTAAATCCAAACC-TTATTACAAGAAATAAATTAGTGAATAAAATTTATCATTTTAAGACTAT
*
32967234 GTCCTTAGGTTTCTAATACGTTTCGCCATTAT
63 GTCCTTAGGTTTCTAGTACG--TCGCCATTAT
* *
32967266 TTAAATCCAAACTCTTATTACAAGAAATAAATTAGTGAATAAAATTTATTATTTTAAGGACCATG
1 TTAAATCCAAAC-CTTATTACAAGAAATAAATTAGTGAATAAAATTTATCATTTTAA-GACTATG
* ** *
32967331 TCCCTTAGGTTTTTAGTACGCTCCGCTGTTAC
64 T-CCTTAGGTTTCTAGTACG-T-CGCCATTAT
32967363 TTAAATCCAAACC
1 TTAAATCCAAACC
32967376 AGTTGAATTT
Statistics
Matches: 175, Mismatches: 22, Indels: 17
0.82 0.10 0.08
Matches are distributed among these distances:
95 65 0.37
96 19 0.11
97 84 0.48
98 7 0.04
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.35
Consensus pattern (92 bp):
TTAAATCCAAACCTTATTACAAGAAATAAATTAGTGAATAAAATTTATCATTTTAAGACTATGTC
CTTAGGTTTCTAGTACGTCGCCATTAT
Found at i:32974829 original size:43 final size:43
Alignment explanation
Indices: 32974764--32974927 Score: 174
Period size: 43 Copynumber: 3.9 Consensus size: 43
32974754 TACCGTAACA
* * * *
32974764 ATGCCAA-ATCCCAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCAATAGCCCAGACATGGTCTTACACGTAATCTCATATCG
* * * *
32974806 ATGCCAATAGCCCAGCCACGGTCTTACACGAAATCACATATCG
1 ATGCCAATAGCCCAGACATGGTCTTACACGTAATCTCATATCG
**
32974849 ATGCCAAT-GTCCCAGACATGGTCTTATTCG-AAGTCTCATATCG
1 ATGCCAATAG-CCCAGACATGGTCTTACACGTAA-TCTCATATCG
* *
32974892 ATGCC-ATATCCCAGATATGGTCTTACACGTAATCTC
1 ATGCCAATAGCCCAGACATGGTCTTACACGTAATCTC
32974928 GGTAACCCTA
Statistics
Matches: 100, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
42 33 0.33
43 67 0.67
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.27
Consensus pattern (43 bp):
ATGCCAATAGCCCAGACATGGTCTTACACGTAATCTCATATCG
Found at i:32976288 original size:16 final size:18
Alignment explanation
Indices: 32976254--32976295 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
32976244 CCTTGCTACT
*
32976254 TTCTTTTTTTCCTTCTTC
1 TTCTTTTTTTCCATCTTC
32976272 TTCTTTTTTT-CAT-TTC
1 TTCTTTTTTTCCATCTTC
32976288 TTCCTTTT
1 TT-CTTTT
32976296 AGTTTTCTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 5 0.23
17 7 0.32
18 10 0.45
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.74
Consensus pattern (18 bp):
TTCTTTTTTTCCATCTTC
Found at i:32977024 original size:63 final size:64
Alignment explanation
Indices: 32976952--32977076 Score: 216
Period size: 64 Copynumber: 2.0 Consensus size: 64
32976942 AGTGCAGGGG
* * *
32976952 TCACACAGGCCAAGGACACGGG-TTGTGTCTAGGCCGTGTAACTCACTGATTACAAAATAAGAA
1 TCACACAGGCCAAGGACACGGGCGTGTGTCCAGGCCGTGTAACCCACTGATTACAAAATAAGAA
32977015 TCACACAGGCCAAGGACACGGGCGTGTGTCCAGGCCGTGTAACCCACTGATTACAAAATAAG
1 TCACACAGGCCAAGGACACGGGCGTGTGTCCAGGCCGTGTAACCCACTGATTACAAAATAAG
32977077 GACCATACGG
Statistics
Matches: 58, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
63 22 0.38
64 36 0.62
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.18
Consensus pattern (64 bp):
TCACACAGGCCAAGGACACGGGCGTGTGTCCAGGCCGTGTAACCCACTGATTACAAAATAAGAA
Found at i:32980471 original size:32 final size:34
Alignment explanation
Indices: 32980433--32980498 Score: 91
Period size: 32 Copynumber: 2.0 Consensus size: 34
32980423 CACGCCCCTA
* *
32980433 TGGCCCACACGGCCTAAATGGCCTA-ACC-TGTG
1 TGGCCCACACGGCCCAAATAGCCTAGACCATGTG
*
32980465 TGGCCCACATGGCCCAAATAGCCTAGACCATGTG
1 TGGCCCACACGGCCCAAATAGCCTAGACCATGTG
32980499 GCTTACAAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 22 0.76
33 3 0.10
34 4 0.14
ACGTcount: A:0.24, C:0.33, G:0.24, T:0.18
Consensus pattern (34 bp):
TGGCCCACACGGCCCAAATAGCCTAGACCATGTG
Found at i:32987287 original size:17 final size:17
Alignment explanation
Indices: 32987240--32987294 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 17
32987230 AGTTAGAATT
*
32987240 TTTTAAAAA-CAAAAAA
1 TTTTAAAAATAAAAAAA
32987256 TATTTAAAATGATAAAAAAA
1 T-TTTAAAA--ATAAAAAAA
*
32987276 TTTTAAAAATAAACAAA
1 TTTTAAAAATAAAAAAA
32987293 TT
1 TT
32987295 ATACTTTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
16 1 0.03
17 17 0.52
19 8 0.24
20 7 0.21
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.31
Consensus pattern (17 bp):
TTTTAAAAATAAAAAAA
Found at i:32987321 original size:18 final size:17
Alignment explanation
Indices: 32987300--32987352 Score: 61
Period size: 18 Copynumber: 3.0 Consensus size: 17
32987290 AAATTATACT
*
32987300 TTTTAAAAATTATAATGA
1 TTTTAAAAATTATAA-AA
* *
32987318 TTTTAAACATTTTAAAA
1 TTTTAAAAATTATAAAA
32987335 TTTTCAAAAATTATAAAA
1 TTTT-AAAAATTATAAAA
32987353 AAATGGAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
17 5 0.17
18 24 0.83
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (17 bp):
TTTTAAAAATTATAAAA
Found at i:32987721 original size:55 final size:55
Alignment explanation
Indices: 32987653--32987766 Score: 149
Period size: 55 Copynumber: 2.1 Consensus size: 55
32987643 GAAAGTGGCG
* *
32987653 AGCACTCATAACGGG-TGAGCTCTTAGGGAGCTCACCAGAGCCTACGTGTCAAGCA
1 AGCACTCACAACGGGCAG-GCTCTTAGGGAGCTCACCAGAGCCTACGTGTCAAGCA
* *** *
32987708 AGCACTCACAACGGGCAGGCTCTTGGGGAGCTCGTTAGAGCCTACGTGTCAAGCG
1 AGCACTCACAACGGGCAGGCTCTTAGGGAGCTCACCAGAGCCTACGTGTCAAGCA
32987763 AGCA
1 AGCA
32987767 GGGTTTATGT
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
55 50 0.98
56 1 0.02
ACGTcount: A:0.25, C:0.27, G:0.30, T:0.18
Consensus pattern (55 bp):
AGCACTCACAACGGGCAGGCTCTTAGGGAGCTCACCAGAGCCTACGTGTCAAGCA
Found at i:32989997 original size:2 final size:2
Alignment explanation
Indices: 32989992--32990017 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
32989982 ACACACACAC
32989992 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
32990018 TCTATAAACT
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:32994063 original size:25 final size:25
Alignment explanation
Indices: 32993982--32994214 Score: 134
Period size: 25 Copynumber: 9.4 Consensus size: 25
32993972 GTTGTATAAT
*
32993982 GGGAAGCT--TGCGAGCCAATTATC
1 GGGAAGCTCATGCGAGCCAAATATC
*
32994005 GGGAAGCTCATACGAGCCATAA-A-C
1 GGGAAGCTCATGCGAGCCA-AATATC
* * *
32994029 AGGAAACTCATGCGAGCCAAATATT
1 GGGAAGCTCATGCGAGCCAAATATC
* * *
32994054 GGGAAGCTCATGAGAGTCATATATC
1 GGGAAGCTCATGCGAGCCAAATATC
* * * *
32994079 GGGAAGCTCGTGAGAGCCATATAAC
1 GGGAAGCTCATGCGAGCCAAATATC
* *** * *
32994104 GAGAAGCTCAAAAGAGTC-ATTAATC
1 GGGAAGCTCATGCGAGCCAAAT-ATC
** * *
32994129 GGGAAGCTCATTAGAGCTAAATAAC
1 GGGAAGCTCATGCGAGCCAAATATC
* * *
32994154 GGGAAACTCGTGAGAGCCAAATATC
1 GGGAAGCTCATGCGAGCCAAATATC
* * ** *
32994179 AGGAAGCTCGTAAGAGCCAAATATA
1 GGGAAGCTCATGCGAGCCAAATATC
*
32994204 GGGACGCTCAT
1 GGGAAGCTCAT
32994215 AATAGTTATG
Statistics
Matches: 161, Mismatches: 42, Indels: 12
0.75 0.20 0.06
Matches are distributed among these distances:
23 10 0.06
24 19 0.12
25 129 0.80
26 3 0.02
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.18
Consensus pattern (25 bp):
GGGAAGCTCATGCGAGCCAAATATC
Found at i:32994110 original size:50 final size:50
Alignment explanation
Indices: 32994042--32994201 Score: 160
Period size: 50 Copynumber: 3.2 Consensus size: 50
32994032 AAACTCATGC
** * *
32994042 GAGCCAAATATTGGGAAGCTCATGAGAGTCATATATCGGGAAGCTCGTGA
1 GAGCCAAATAACGAGAAGCTCATGAGAGTCATATATCGGGAAGCTCGTAA
* ** * *
32994092 GAGCCATATAACGAGAAGCTCAAAAGAGTCAT-TAATCGGGAAGCTCATTA
1 GAGCCAAATAACGAGAAGCTCATGAGAGTCATAT-ATCGGGAAGCTCGTAA
* * * * * * *
32994142 GAGCTAAATAACGGGAAACTCGTGAGAGCCAAATATCAGGAAGCTCGTAA
1 GAGCCAAATAACGAGAAGCTCATGAGAGTCATATATCGGGAAGCTCGTAA
32994192 GAGCCAAATA
1 GAGCCAAATA
32994202 TAGGGACGCT
Statistics
Matches: 87, Mismatches: 21, Indels: 4
0.78 0.19 0.04
Matches are distributed among these distances:
49 1 0.01
50 85 0.98
51 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.26, T:0.19
Consensus pattern (50 bp):
GAGCCAAATAACGAGAAGCTCATGAGAGTCATATATCGGGAAGCTCGTAA
Found at i:32994213 original size:75 final size:75
Alignment explanation
Indices: 32994042--32994214 Score: 181
Period size: 75 Copynumber: 2.3 Consensus size: 75
32994032 AAACTCATGC
* * * * *
32994042 GAGCCAAATATTGGGAAGCTCATGAGAGTCATATATCGGGAAGCTCGTGAGAGCCATATAACGAG
1 GAGCCAAATATAGGGAAGCTCATGAGAGTCAAATAACGGGAAACTCGTGAGAGCCAAATAACGAG
32994107 AAGCTCAAAA
66 AAGCTCAAAA
* * * * *
32994117 GAGTC-ATTAATCGGGAAGCTCATTAGAG-CTAAATAACGGGAAACTCGTGAGAGCCAAATATC-
1 GAGCCAAAT-ATAGGGAAGCTCATGAGAGTC-AAATAACGGGAAACTCGTGAGAGCCAAATAACG
**
32994179 AGGAAGCTCGTAA
64 A-GAAGCTCAAAA
*
32994192 GAGCCAAATATAGGGACGCTCAT
1 GAGCCAAATATAGGGAAGCTCAT
32994215 AATAGTTATG
Statistics
Matches: 79, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
74 4 0.05
75 73 0.92
76 2 0.03
ACGTcount: A:0.37, C:0.18, G:0.26, T:0.19
Consensus pattern (75 bp):
GAGCCAAATATAGGGAAGCTCATGAGAGTCAAATAACGGGAAACTCGTGAGAGCCAAATAACGAG
AAGCTCAAAA
Found at i:32996560 original size:31 final size:31
Alignment explanation
Indices: 32996525--32996589 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
32996515 TATAAAATGA
* *
32996525 TCACTAAATTATTCAAAAATTTTCATTTAAG
1 TCACTAAACTACTCAAAAATTTTCATTTAAG
* * *
32996556 TCACTGAACTACTCAAAAGTTTTTATTTAAG
1 TCACTAAACTACTCAAAAATTTTCATTTAAG
32996587 TCA
1 TCA
32996590 TTGGTTGATT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.15, G:0.06, T:0.40
Consensus pattern (31 bp):
TCACTAAACTACTCAAAAATTTTCATTTAAG
Found at i:32998050 original size:27 final size:27
Alignment explanation
Indices: 32997977--32998034 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
32997967 CCTTGGTCAG
*
32997977 GCCAAAGCCATTGGCAGCACCAATGGT
1 GCCAAAGCCATTGGCGGCACCAATGGT
32998004 GCCAAAGCCATTGGCGGCACCAATGGT
1 GCCAAAGCCATTGGCGGCACCAATGGT
32998031 GCCA
1 GCCA
32998035 TACTGATTGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.28, C:0.31, G:0.28, T:0.14
Consensus pattern (27 bp):
GCCAAAGCCATTGGCGGCACCAATGGT
Found at i:32998152 original size:10 final size:11
Alignment explanation
Indices: 32998133--32998171 Score: 71
Period size: 11 Copynumber: 3.6 Consensus size: 11
32998123 GGTGCTACGG
32998133 AAAAGAAGAGA
1 AAAAGAAGAGA
32998144 AAAAG-AGAGA
1 AAAAGAAGAGA
32998154 AAAAGAAGAGA
1 AAAAGAAGAGA
32998165 AAAAGAA
1 AAAAGAA
32998172 TGTATTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 10 0.37
11 17 0.63
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (11 bp):
AAAAGAAGAGA
Found at i:32998304 original size:3 final size:3
Alignment explanation
Indices: 32998298--32998326 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
32998288 AGTATTATTA
32998298 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
32998327 AGTATTAAGA
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:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:32999213 original size:18 final size:18
Alignment explanation
Indices: 32999190--32999227 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
32999180 GGTTGGTGGT
32999190 GAAGAAGAAGGTGCTGGC
1 GAAGAAGAAGGTGCTGGC
*
32999208 GAAGAAGAAGGTGGTGGC
1 GAAGAAGAAGGTGCTGGC
32999226 GA
1 GA
32999228 TCATTGGGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.34, C:0.08, G:0.47, T:0.11
Consensus pattern (18 bp):
GAAGAAGAAGGTGCTGGC
Found at i:33003104 original size:5 final size:5
Alignment explanation
Indices: 33003094--33003119 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
33003084 ATTTTTTAAC
33003094 TCAAT TCAAT TCAAT TCAAT TCAAT T
1 TCAAT TCAAT TCAAT TCAAT TCAAT T
33003120 GTGCTCATCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.42
Consensus pattern (5 bp):
TCAAT
Found at i:33005448 original size:29 final size:28
Alignment explanation
Indices: 33005406--33005464 Score: 82
Period size: 29 Copynumber: 2.1 Consensus size: 28
33005396 TGGACCTTGG
* *
33005406 ACTTTGAACGTTAGACCCCAGACCCCTAA
1 ACTTTAAACCTTAGACCCCA-ACCCCTAA
*
33005435 ACTTTAAACCTTAGACCCCAAGCCCTAA
1 ACTTTAAACCTTAGACCCCAACCCCTAA
33005463 AC
1 AC
33005465 CCTGGACCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 9 0.33
29 18 0.67
ACGTcount: A:0.34, C:0.36, G:0.10, T:0.20
Consensus pattern (28 bp):
ACTTTAAACCTTAGACCCCAACCCCTAA
Found at i:33011166 original size:18 final size:18
Alignment explanation
Indices: 33011143--33011185 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
33011133 TCTACCCAGT
33011143 TGAAAAGCACTTTTTGGG
1 TGAAAAGCACTTTTTGGG
***
33011161 TGAAAAGTGTTTTTTGGG
1 TGAAAAGCACTTTTTGGG
33011179 TGAAAAG
1 TGAAAAG
33011186 TAAAAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.30, C:0.05, G:0.30, T:0.35
Consensus pattern (18 bp):
TGAAAAGCACTTTTTGGG
Found at i:33011363 original size:16 final size:16
Alignment explanation
Indices: 33011342--33011375 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
33011332 ATAGCTTCTT
33011342 TTTGATACCTCAAATA
1 TTTGATACCTCAAATA
*
33011358 TTTGATATCTCAAATA
1 TTTGATACCTCAAATA
33011374 TT
1 TT
33011376 ATCCCTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.35, C:0.15, G:0.06, T:0.44
Consensus pattern (16 bp):
TTTGATACCTCAAATA
Found at i:33011621 original size:19 final size:19
Alignment explanation
Indices: 33011576--33011636 Score: 70
Period size: 19 Copynumber: 3.1 Consensus size: 19
33011566 ATCTAATTAA
33011576 AAATATTTAATTATTATATTT
1 AAATATTTAATTA-TA-ATTT
*
33011597 AAATATTTAAATATAATTT
1 AAATATTTAATTATAATTT
*
33011616 ATATATTCTAATTA-AATTT
1 AAATATT-TAATTATAATTT
33011635 AA
1 AA
33011637 TAAATAATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
19 16 0.46
20 7 0.20
21 12 0.34
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (19 bp):
AAATATTTAATTATAATTT
Found at i:33016042 original size:10 final size:9
Alignment explanation
Indices: 33016005--33016043 Score: 53
Period size: 10 Copynumber: 4.2 Consensus size: 9
33015995 TGGAATCAGG
33016005 TTTTATAAT
1 TTTTATAAT
33016014 TTTTA-AAT
1 TTTTATAAT
33016022 TTTTATAAAT
1 TTTTAT-AAT
33016032 TTTTAATAAT
1 TTTT-ATAAT
33016042 TT
1 TT
33016044 ATTTAATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
8 8 0.30
9 5 0.19
10 12 0.44
11 2 0.07
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
TTTTATAAT
Found at i:33020937 original size:125 final size:126
Alignment explanation
Indices: 33020642--33021031 Score: 514
Period size: 125 Copynumber: 3.0 Consensus size: 126
33020632 CAGGATAGGT
* * *
33020642 GTATGTACACAATTGAACCTTGTGTGGAACGCTTGTTGTAGTTTATGTAGAACTTGTAATGTTGA
1 GTATGTAAACAATTGAACCTTGTGTGGAACTCTTGTTGTAGTTTATATAGAACTTGTAATGTTGA
* *
33020707 TCGATAGTAATGTTCTACTATGTTACTTGGACCAGGACTGAGGACTCAAGTGTATGTGTGGATAC
66 TAGATAGTAATGCTCTACTATGTTACTTGG---A--ACT-AGGACTCAAGTGTATGTGTGGATAC
33020772 GA
125 GA
* * *
33020774 GTATGTAAACAATTGAACCTTGTGTTGAACTCTTGTTGTAGTTTATACAGAACTGGTAATGTTGA
1 GTATGTAAACAATTGAACCTTGTGTGGAACTCTTGTTGTAGTTTATATAGAACTTGTAATGTTGA
* * *
33020839 TAGATACTAATGCTCTACTATGTTACTT-GAACTAGGACTCGAGTGTATGTGTGGATATGA
66 TAGATAGTAATGCTCTACTATGTTACTTGGAACTAGGACTCAAGTGTATGTGTGGATACGA
* *
33020899 GTATGTAAACAATTGAACCTTGTGTGGAATTCTTGTTGTAGTTTATATAGAACTTGTAATGTTAA
1 GTATGTAAACAATTGAACCTTGTGTGGAACTCTTGTTGTAGTTTATATAGAACTTGTAATGTTGA
* * * * *
33020964 TAGATAGTAGTAATGCTCCACTATCTTACTTGGAA-TTGGACTCCAGTGTATGTGTGAATACCGA
66 TAG--A-TAGTAATGCTCTACTATGTTACTTGGAACTAGGACTCAAGTGTATGTGTGGATA-CGA
33021028 GTAT
1 GTAT
33021032 ATGTCCAACA
Statistics
Matches: 230, Mismatches: 23, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
125 88 0.38
126 3 0.01
127 1 0.00
128 44 0.19
129 9 0.04
131 1 0.00
132 84 0.37
ACGTcount: A:0.28, C:0.12, G:0.23, T:0.36
Consensus pattern (126 bp):
GTATGTAAACAATTGAACCTTGTGTGGAACTCTTGTTGTAGTTTATATAGAACTTGTAATGTTGA
TAGATAGTAATGCTCTACTATGTTACTTGGAACTAGGACTCAAGTGTATGTGTGGATACGA
Found at i:33024777 original size:2 final size:2
Alignment explanation
Indices: 33024770--33024798 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
33024760 GGTTTTCTGT
33024770 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
33024799 TACAAAAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:33034058 original size:12 final size:11
Alignment explanation
Indices: 33034026--33034054 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
33034016 TTGAGTTGTC
33034026 AAAATATTATA
1 AAAATATTATA
33034037 AAAA-ATTATA
1 AAAATATTATA
33034047 AAAATATT
1 AAAATATT
33034055 TATATATTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
AAAATATTATA
Found at i:33039901 original size:31 final size:31
Alignment explanation
Indices: 33039846--33039923 Score: 106
Period size: 31 Copynumber: 2.5 Consensus size: 31
33039836 TTTTCCTTAA
* *
33039846 TGGCTTGGATAAGCCTT--GATGCAATTGAGT
1 TGGCTT-GAGAAGCCTTGAGATGCAATTGAAT
*
33039876 TGGCTTGAGTAGCCTTGAGATGCAATTGAAT
1 TGGCTTGAGAAGCCTTGAGATGCAATTGAAT
33039907 TGGCTTGAGAAGCCTTG
1 TGGCTTGAGAAGCCTTG
33039924 TGGAAAACAA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
29 8 0.19
30 6 0.14
31 28 0.67
ACGTcount: A:0.23, C:0.14, G:0.31, T:0.32
Consensus pattern (31 bp):
TGGCTTGAGAAGCCTTGAGATGCAATTGAAT
Found at i:33040714 original size:26 final size:26
Alignment explanation
Indices: 33040684--33040734 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
33040674 AGCCATGAGT
33040684 TTGAG-TCGAGATGAGTCGGAGGACCC
1 TTGAGTTCGAGATG-GTCGGAGGACCC
* *
33040710 TTGAGTTTGAGTTGGTCGGAGGACC
1 TTGAGTTCGAGATGGTCGGAGGACC
33040735 ATAAGTGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 16 0.73
27 6 0.27
ACGTcount: A:0.20, C:0.16, G:0.39, T:0.25
Consensus pattern (26 bp):
TTGAGTTCGAGATGGTCGGAGGACCC
Found at i:33042199 original size:164 final size:165
Alignment explanation
Indices: 33041914--33042232 Score: 437
Period size: 164 Copynumber: 1.9 Consensus size: 165
33041904 TTGCTGGCTA
* * ** **
33041914 TGTTAACATTCTCATAATTGCATTAGTGTACAAGTTTGTTGCTTGTGGGGAGTTTTTAACATAAT
1 TGTTAACA-TCTCATAATTGCATTAGAGTACAAATCAGTTGCTTGTGGGGAGTTCATAACATAAT
* * *
33041979 TATTTAGTTGTTGAAATTGCGAGTATTAGGCTTTTGAAGAAGATTGACTTATGTTTCTGGATTTA
65 TATGTAGTTGTTGAAAATGCGAATATTAGGCTTTTGAAGAAGATTGACTTATGTTTCTGGATTTA
*
33042044 CCAATGTATCCGGCTGAGAAATTCTCAACTGGAATC
130 CCAATGTATCCGACTGAGAAATTCTCAACTGGAATC
* *
33042080 TGTTAAC-TCTCTTAATTGCATTAGAGTACAAATCAGTTGCTTGTGGGGAG-TCATAACATGCA-
1 TGTTAACATCTCATAATTGCATTAGAGTACAAATCAGTTGCTTGTGGGGAGTTCATAACAT-AAT
* *
33042142 TATGTAGTTGTTGAAAATGCTGAATATTAGGCTTTTGAAGAATATTGACTTATGTTTCTTGATTT
65 TATGTAGTTGTTGAAAATGC-GAATATTAGGCTTTTGAAGAAGATTGACTTATGTTTCTGGATTT
* * *
33042207 ACTAATGTGTCTGACTGAGAAATTCT
129 ACCAATGTATCCGACTGAGAAATTCT
33042233 AAACCAAAAT
Statistics
Matches: 134, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
163 25 0.19
164 102 0.76
166 7 0.05
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.39
Consensus pattern (165 bp):
TGTTAACATCTCATAATTGCATTAGAGTACAAATCAGTTGCTTGTGGGGAGTTCATAACATAATT
ATGTAGTTGTTGAAAATGCGAATATTAGGCTTTTGAAGAAGATTGACTTATGTTTCTGGATTTAC
CAATGTATCCGACTGAGAAATTCTCAACTGGAATC
Found at i:33067512 original size:18 final size:19
Alignment explanation
Indices: 33067489--33067530 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
33067479 TTTACAGAAC
*
33067489 TTAAAAAGGATA-TAAAAT
1 TTAAAAAGGATACAAAAAT
*
33067507 TT-AAAATGATACAAAAAT
1 TTAAAAAGGATACAAAAAT
33067525 TTAAAA
1 TTAAAA
33067531 TTTAACTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 8 0.40
18 9 0.45
19 3 0.15
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (19 bp):
TTAAAAAGGATACAAAAAT
Found at i:33073489 original size:30 final size:30
Alignment explanation
Indices: 33073455--33073534 Score: 76
Period size: 30 Copynumber: 2.7 Consensus size: 30
33073445 AATTGAATCA
33073455 AAATCAAAGTTCTATGTATAGAATTGCAC-T
1 AAATCAAAGTTCTATGTATA-AATTGCACAT
* * *
33073485 AAATCAAAATTCGTATAT-TATATTGCACATT
1 AAATCAAAGTTC-TATGTATAAATTGCACA-T
*
33073516 AAATCCAAGTTC-ATGTATA
1 AAATCAAAGTTCTATGTATA
33073535 CTTTTGAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
29 10 0.25
30 15 0.38
31 15 0.38
ACGTcount: A:0.41, C:0.14, G:0.10, T:0.35
Consensus pattern (30 bp):
AAATCAAAGTTCTATGTATAAATTGCACAT
Found at i:33077064 original size:23 final size:24
Alignment explanation
Indices: 33077012--33077060 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 24
33077002 ATTTTTACCC
33077012 CAAA-TTAGCCCTATAAAATTTTA
1 CAAATTTAGCCCTATAAAATTTTA
*
33077035 CAAATTTAGCCCT-TAACA-TTTA
1 CAAATTTAGCCCTATAAAATTTTA
33077057 CAAA
1 CAAA
33077061 ATTTGTCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 8 0.33
23 8 0.33
24 8 0.33
ACGTcount: A:0.43, C:0.20, G:0.04, T:0.33
Consensus pattern (24 bp):
CAAATTTAGCCCTATAAAATTTTA
Found at i:33081219 original size:24 final size:24
Alignment explanation
Indices: 33081148--33081219 Score: 76
Period size: 24 Copynumber: 3.0 Consensus size: 24
33081138 AATTAACTCC
33081148 TTTATTCAAAATCTTGTATTTAAAA
1 TTTATTCAAAATCTTGTATTT-AAA
* * * *
33081173 TATT-TT-TAAAGCTTTTATCTAAA
1 T-TTATTCAAAATCTTGTATTTAAA
33081196 TTTATTCAAAATCTTGTATTTAAA
1 TTTATTCAAAATCTTGTATTTAAA
33081220 ATAATTTAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 7
0.71 0.16 0.14
Matches are distributed among these distances:
22 2 0.06
23 6 0.17
24 23 0.64
25 3 0.08
26 2 0.06
ACGTcount: A:0.38, C:0.08, G:0.04, T:0.50
Consensus pattern (24 bp):
TTTATTCAAAATCTTGTATTTAAA
Found at i:33083043 original size:24 final size:24
Alignment explanation
Indices: 33083011--33083066 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
33083001 GGGATAAAAA
*
33083011 ACTAGTTACTAATATAATAAGT-ATT
1 ACTA-TTACTAAGATAATAA-TAATT
**
33083036 ACTATTACTTCGATAATAATAATT
1 ACTATTACTAAGATAATAATAATT
33083060 ACTATTA
1 ACTATTA
33083067 AATCCATGCA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 1 0.04
24 22 0.81
25 4 0.15
ACGTcount: A:0.43, C:0.11, G:0.05, T:0.41
Consensus pattern (24 bp):
ACTATTACTAAGATAATAATAATT
Found at i:33111410 original size:164 final size:163
Alignment explanation
Indices: 33111105--33111431 Score: 380
Period size: 164 Copynumber: 2.0 Consensus size: 163
33111095 CTAAGCTGCT
* * *
33111105 GATATGCTCTTTCTTTTGGGACTGTTTTTTTGGTTATATGATATAATGATCTTTGGATTCGTTTT
1 GATATGCTCTTTCTTTTAGGACTGTTTTTATGGTTATATGATATAATGATCTATGGATTCGTTTT
* * *
33111170 TCTTTGCGGATTGCTGGATATAACTCTATTTGAGCCTTGCTTATTACTATAAAATATTGTTGTTT
66 TCTTTGCCGATTGCTAGATATAACTCTATTTGAGCCTTGCTTATTACTATAAAATATTGTTGTTC
** *
33111235 GGGGAAGCTTAATTGATGATCTTTT-TATTTTCC
131 CAGGAAGCTTAATCGATGAT-TTTTGTATTTTCC
*
33111268 GATATGCTCTTTCTTTTAGGACT-TTTTTATGGTTGACTATGATATAATGATCTATGGGTTC-TC
1 GATATGCTCTTTCTTTTAGGACTGTTTTTATGGTT-A-TATGATATAATGATCTATGGATTCGT-
* * * * *
33111331 TTTT-TTATGCCTATAT-CTAGATATTACTCTATTTGAG-CTATTCTTATTA-TGATCAAATTTT
63 TTTTCTT-TGCCGAT-TGCTAGATATAACTCTATTTGAGCCT-TGCTTATTACT-ATAAAATATT
* *
33111392 GTTGTTCCAGGTAGCTTAATCGATGATTTTTGTGTTTTCC
124 GTTGTTCCAGGAAGCTTAATCGATGATTTTTGTATTTTCC
33111432 ATGTGGTTTT
Statistics
Matches: 139, Mismatches: 17, Indels: 15
0.81 0.10 0.09
Matches are distributed among these distances:
162 10 0.07
163 33 0.24
164 95 0.68
165 1 0.01
ACGTcount: A:0.21, C:0.13, G:0.17, T:0.49
Consensus pattern (163 bp):
GATATGCTCTTTCTTTTAGGACTGTTTTTATGGTTATATGATATAATGATCTATGGATTCGTTTT
TCTTTGCCGATTGCTAGATATAACTCTATTTGAGCCTTGCTTATTACTATAAAATATTGTTGTTC
CAGGAAGCTTAATCGATGATTTTTGTATTTTCC
Found at i:33118521 original size:25 final size:25
Alignment explanation
Indices: 33118487--33118536 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
33118477 GTAGGGAGAA
33118487 GGGTCTTGGTGCTAGCCTTAAGCCT
1 GGGTCTTGGTGCTAGCCTTAAGCCT
33118512 GGGTCTTGGTGCTAGCCTTAAGCCT
1 GGGTCTTGGTGCTAGCCTTAAGCCT
33118537 TTAGGCTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.12, C:0.24, G:0.32, T:0.32
Consensus pattern (25 bp):
GGGTCTTGGTGCTAGCCTTAAGCCT
Found at i:33126049 original size:25 final size:25
Alignment explanation
Indices: 33126008--33126061 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
33125998 AAAAAGTAAC
33126008 ATTGAATTAGTTAAATTAAAAATTG
1 ATTGAATTAGTTAAATTAAAAATTG
* *
33126033 ATTGAATGTA-TTGAATTAAAAATTT
1 ATTGAAT-TAGTTAAATTAAAAATTG
33126058 ATTG
1 ATTG
33126062 TTTTTTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 24 0.92
26 2 0.08
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.43
Consensus pattern (25 bp):
ATTGAATTAGTTAAATTAAAAATTG
Found at i:33130107 original size:30 final size:30
Alignment explanation
Indices: 33130046--33130107 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
33130036 CATTTTACTT
*
33130046 TTAGGTACAGTTTGGAAAACTATTTAGTAA
1 TTAGGTACAGTTTGGAAAACTATTTAATAA
* *
33130076 TTAGGTACTGTTTGGAAAA-TCGTTTAATAA
1 TTAGGTACAGTTTGGAAAACT-ATTTAATAA
33130106 TT
1 TT
33130108 GAATTTGGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 1 0.04
30 27 0.96
ACGTcount: A:0.34, C:0.06, G:0.19, T:0.40
Consensus pattern (30 bp):
TTAGGTACAGTTTGGAAAACTATTTAATAA
Found at i:33130728 original size:14 final size:16
Alignment explanation
Indices: 33130697--33130730 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
33130687 TATAATTTTT
33130697 TTATAAAGATTATATA
1 TTATAAAGATTATATA
33130713 TTATAAA-ATT-TATA
1 TTATAAAGATTATATA
33130727 TTAT
1 TTAT
33130731 TTTTTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 3 0.17
16 7 0.39
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (16 bp):
TTATAAAGATTATATA
Found at i:33132789 original size:3 final size:3
Alignment explanation
Indices: 33132783--33132813 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
33132773 TATTTAGTCT
33132783 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
33132814 AAAACAACTT
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):
TTA
Found at i:33133339 original size:13 final size:12
Alignment explanation
Indices: 33133322--33133355 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
33133312 TATAAAAAAA
33133322 TTATTTTTATTT
1 TTATTTTTATTT
*
33133334 TCTATTTTAATTT
1 T-TATTTTTATTT
33133347 TTATTTTTA
1 TTATTTTTA
33133356 GAGTCACTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (12 bp):
TTATTTTTATTT
Found at i:33133341 original size:7 final size:6
Alignment explanation
Indices: 33133322--33133355 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
33133312 TATAAAAAAA
*
33133322 TTATTT TTATTT TCTATTT TAATTT TTATTT TTA
1 TTATTT TTATTT T-TATTT TTATTT TTATTT TTA
33133356 GAGTCACTGA
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:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (6 bp):
TTATTT
Found at i:33141075 original size:15 final size:15
Alignment explanation
Indices: 33141055--33141084 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
33141045 ATTGATGGTT
*
33141055 AATATTTTTCTGAAA
1 AATATTTGTCTGAAA
33141070 AATATTTGTCTGAAA
1 AATATTTGTCTGAAA
33141085 TTCTGCTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (15 bp):
AATATTTGTCTGAAA
Found at i:33144375 original size:23 final size:23
Alignment explanation
Indices: 33144328--33144378 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
33144318 GGATTTAAAC
*
33144328 AAATATTCATATTTATATAATTA
1 AAATATTCATATTTATATAAATA
*
33144351 AAATATTCATATTT-TGTAACATA
1 AAATATTCATATTTATATAA-ATA
33144374 AAATA
1 AAATA
33144379 ATAATTACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 4 0.16
23 21 0.84
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (23 bp):
AAATATTCATATTTATATAAATA
Found at i:33144812 original size:19 final size:19
Alignment explanation
Indices: 33144774--33144812 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
33144764 TGACTAGTAC
* *
33144774 ATTATTTTTCATTAACCAA
1 ATTATTTTTCATGAAACAA
*
33144793 ATTATTTTTCGTGAAACAA
1 ATTATTTTTCATGAAACAA
33144812 A
1 A
33144813 CATACAAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.13, G:0.05, T:0.44
Consensus pattern (19 bp):
ATTATTTTTCATGAAACAA
Found at i:33148786 original size:59 final size:62
Alignment explanation
Indices: 33148671--33148786 Score: 157
Period size: 62 Copynumber: 1.9 Consensus size: 62
33148661 AATGATTATC
* * *
33148671 TTAATATTAAATTAAATTTAATGTTTATCTTGTAGATAAATATTCTATTAATTTAATCAGAT
1 TTAATATTAAATTAAATCTAATATTTATCTTGTAGATAAATATTATATTAATTTAATCAGAT
* * *
33148733 TTAATATTCAATTTAATCTAATATTTATC-T-T-GATAATTATTATATTAATTTAAT
1 TTAATATTAAATTAAATCTAATATTTATCTTGTAGATAAATATTATATTAATTTAAT
33148787 ATTAAAGTGA
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
59 21 0.44
60 1 0.02
61 1 0.02
62 25 0.52
ACGTcount: A:0.40, C:0.05, G:0.04, T:0.51
Consensus pattern (62 bp):
TTAATATTAAATTAAATCTAATATTTATCTTGTAGATAAATATTATATTAATTTAATCAGAT
Done.