Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold215
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: 2124891
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 14 of 16
Found at i:1702469 original size:13 final size:13
Alignment explanation
Indices: 1702451--1702478 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1702441 CATTATTCAA
1702451 TGTATCGATACAT
1 TGTATCGATACAT
1702464 TGTATCGATACAT
1 TGTATCGATACAT
1702477 TG
1 TG
1702479 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1702473 original size:33 final size:33
Alignment explanation
Indices: 1702431--1702496 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1702421 GCCAAAGAAA
1702431 TGTATCGATACATT-ATTCAATGTATCGATACAT
1 TGTATCGATACATTGA-TCAATGTATCGATACAT
**
1702464 TGTATCGATACATTGATCTTTGTATCGATACAT
1 TGTATCGATACATTGATCAATGTATCGATACAT
1702497 CTGGGAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.41
Consensus pattern (33 bp):
TGTATCGATACATTGATCAATGTATCGATACAT
Found at i:1706710 original size:33 final size:33
Alignment explanation
Indices: 1706649--1706711 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 33
1706639 AAGAGAACTA
*
1706649 AAGTGCTCATCCATGCACTACGAGAGTGAAGTG
1 AAGTGCTCATCCATGCACTACGAAAGTGAAGTG
* ** *
1706682 AAGTGCTCATTCATGTGCTGCGAAAGTGAA
1 AAGTGCTCATCCATGCACTACGAAAGTGAA
1706712 ATGATCAACT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 25 1.00
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (33 bp):
AAGTGCTCATCCATGCACTACGAAAGTGAAGTG
Found at i:1713504 original size:34 final size:35
Alignment explanation
Indices: 1713466--1713532 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1713456 CCTTACAACA
1713466 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
1713500 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
1713533 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:1714029 original size:13 final size:13
Alignment explanation
Indices: 1714011--1714036 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1714001 CTATTTATGA
1714011 TGTATCGATACAC
1 TGTATCGATACAC
1714024 TGTATCGATACAC
1 TGTATCGATACAC
1714037 ACAAATATGT
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:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:1714159 original size:21 final size:21
Alignment explanation
Indices: 1714133--1714174 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1714123 CCTATGAAAC
*
1714133 AGTGATGCATCGATACATGAA
1 AGTGATGCATCAATACATGAA
*
1714154 AGTGATGTATCAATACATGAA
1 AGTGATGCATCAATACATGAA
1714175 CAGTTATGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.12, G:0.21, T:0.26
Consensus pattern (21 bp):
AGTGATGCATCAATACATGAA
Found at i:1714288 original size:53 final size:53
Alignment explanation
Indices: 1714224--1714360 Score: 247
Period size: 53 Copynumber: 2.6 Consensus size: 53
1714214 CTACTTTCAA
1714224 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* *
1714277 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
1714330 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
1714361 TATGCAATTT
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
53 67 0.84
54 13 0.16
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:1714393 original size:20 final size:20
Alignment explanation
Indices: 1714330--1714400 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
1714320 GCCAATGTCC
**
1714330 TGTATCGATACATATTTGTG
1 TGTATCGATACATATTAATG
* *
1714350 TGTATCGATAC-TATGCAATT
1 TGTATCGATACATAT-TAATG
1714370 TGTATCGATACAT-TTAAATG
1 TGTATCGATACATATT-AATG
1714390 TGTATCGATAC
1 TGTATCGATAC
1714401 TTTTCAGGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.07
20 38 0.90
21 1 0.02
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATATTAATG
Found at i:1714466 original size:21 final size:21
Alignment explanation
Indices: 1714440--1714480 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1714430 GTCAACCTTG
1714440 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
1714461 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
1714481 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:1715130 original size:83 final size:83
Alignment explanation
Indices: 1715028--1715201 Score: 341
Period size: 83 Copynumber: 2.1 Consensus size: 83
1715018 TATGCAAAAA
1715028 TCTCTCATTTTGTTATAAAGAAATTTTATACCAATATTCTTCAATATTTTCAGTTTCTTCCTTTA
1 TCTCTCATTTTGTTATAAAGAAATTTTATACCAATATTCTTCAATATTTTCAGTTTCTTCCTTTA
1715093 TAACAAATAATCAATTCT
66 TAACAAATAATCAATTCT
1715111 TCTCTCATTTTGTTATAAAGAAATTTTATACCAATATTCTTCAATATTTTCAGTTTCTTCCTTTA
1 TCTCTCATTTTGTTATAAAGAAATTTTATACCAATATTCTTCAATATTTTCAGTTTCTTCCTTTA
1715176 TAACAAATAATCAATTCT
66 TAACAAATAATCAATTCT
1715194 TCTC-CATT
1 TCTCTCATT
1715202 GTGAAACATC
Statistics
Matches: 91, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
82 4 0.04
83 87 0.96
ACGTcount: A:0.32, C:0.18, G:0.03, T:0.47
Consensus pattern (83 bp):
TCTCTCATTTTGTTATAAAGAAATTTTATACCAATATTCTTCAATATTTTCAGTTTCTTCCTTTA
TAACAAATAATCAATTCT
Found at i:1716212 original size:13 final size:13
Alignment explanation
Indices: 1716194--1716218 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1716184 ACTAAAGTAA
1716194 TGTATCGATACAT
1 TGTATCGATACAT
1716207 TGTATCGATACA
1 TGTATCGATACA
1716219 ATCTGGAAAA
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1716826 original size:23 final size:24
Alignment explanation
Indices: 1716781--1716827 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
1716771 CAAAGAATTG
*
1716781 AACACAAATTCAATTAAGCACAAA
1 AACACAAATTCAATTAAGAACAAA
1716805 AACACAAA-TCAATTGAA-AACAAA
1 AACACAAATTCAATT-AAGAACAAA
1716828 TTTTCAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.15
Consensus pattern (24 bp):
AACACAAATTCAATTAAGAACAAA
Found at i:1719452 original size:34 final size:35
Alignment explanation
Indices: 1719414--1719480 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1719404 CCTTACAACA
1719414 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
1719448 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
1719481 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:1719977 original size:13 final size:13
Alignment explanation
Indices: 1719959--1719984 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1719949 CTATTTATGA
1719959 TGTATCGATACAC
1 TGTATCGATACAC
1719972 TGTATCGATACAC
1 TGTATCGATACAC
1719985 ACAAATATGT
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:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:1720108 original size:21 final size:21
Alignment explanation
Indices: 1720082--1720122 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
1720072 CTATGAAACA
1720082 GTGATGCATCGATACATGAAT
1 GTGATGCATCGATACATGAAT
*
1720103 GTGATGTATCGATACATGAA
1 GTGATGCATCGATACATGAA
1720123 CAGTTATGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.29
Consensus pattern (21 bp):
GTGATGCATCGATACATGAAT
Found at i:1720236 original size:53 final size:53
Alignment explanation
Indices: 1720172--1720308 Score: 238
Period size: 53 Copynumber: 2.6 Consensus size: 53
1720162 CTACTTTCAA
*
1720172 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACT
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* *
1720225 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
1720278 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
1720309 TATGCAATTT
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
53 66 0.84
54 13 0.16
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:1720341 original size:20 final size:20
Alignment explanation
Indices: 1720278--1720348 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
1720268 GCCAATGTCC
**
1720278 TGTATCGATACATATTTGTG
1 TGTATCGATACATATTAATG
* *
1720298 TGTATCGATAC-TATGCAATT
1 TGTATCGATACATAT-TAATG
1720318 TGTATCGATACAT-TTAAATG
1 TGTATCGATACATATT-AATG
1720338 TGTATCGATAC
1 TGTATCGATAC
1720349 TTTTCAGGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.07
20 38 0.90
21 1 0.02
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATATTAATG
Found at i:1720414 original size:21 final size:21
Alignment explanation
Indices: 1720388--1720428 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1720378 GTCAACCTTG
1720388 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
1720409 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
1720429 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:1721669 original size:20 final size:21
Alignment explanation
Indices: 1721644--1721695 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
1721634 TTAAGGCAAG
*
1721644 GTATCGATACAATTCT-TCAT
1 GTATCGATACAATTCTGCCAT
*
1721664 GTATCGATAC-ATTGTGCCAT
1 GTATCGATACAATTCTGCCAT
1721684 GTATCGATACAA
1 GTATCGATACAA
1721696 ATAGTGGTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 4 0.14
20 23 0.82
21 1 0.04
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (21 bp):
GTATCGATACAATTCTGCCAT
Found at i:1721922 original size:22 final size:22
Alignment explanation
Indices: 1721873--1721924 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
1721863 AAGTATTTTT
*
1721873 ACTT-AAAAATATTTGATTTAA
1 ACTTCAAAAATATTTGATTCAA
1721894 AGC-TCAAAAATATTTG-TTCATA
1 A-CTTCAAAAATATTTGATTCA-A
1721916 ACTTCAAAA
1 ACTTCAAAA
1721925 CACTTTTTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 6 0.23
22 20 0.77
ACGTcount: A:0.46, C:0.12, G:0.06, T:0.37
Consensus pattern (22 bp):
ACTTCAAAAATATTTGATTCAA
Found at i:1723960 original size:186 final size:186
Alignment explanation
Indices: 1723646--1724017 Score: 717
Period size: 186 Copynumber: 2.0 Consensus size: 186
1723636 TAAAGGAAGA
1723646 TGAAAGCTTATGAAGTAATGAACCAAGAGGGGGGTGAATTGGTTCTTTTCGAATTTTCGGGTTTT
1 TGAAAGCTTATGAAGTAATGAACCAAGAGGGGGGTGAATTGGTTCTTTTCGAATTTTCGGGTTTT
*
1723711 GTACAAATTTGAAACAAAACAATTCGAAATGAAAAGAGATTAGGGAAGGAAAACTTGACACAAGA
66 GTACAAATTTGAAACAAAACAATTCAAAATGAAAAGAGATTAGGGAAGGAAAACTTGACACAAGA
1723776 TATTTATAGAGGTTCGGTCCAAACACGGCACCTACGTCCTCTCTCCTCGACACTTC
131 TATTTATAGAGGTTCGGTCCAAACACGGCACCTACGTCCTCTCTCCTCGACACTTC
1723832 TGAAAGCTTATGAAGTAATGAACCAAGAGGGGGGTGAATTGGTTCTTTTCGAATTTTCGGGTTTT
1 TGAAAGCTTATGAAGTAATGAACCAAGAGGGGGGTGAATTGGTTCTTTTCGAATTTTCGGGTTTT
* *
1723897 GTATAAGTTTGAAACAAAACAATTCAAAATGAAAAGAGATTAGGGAAGGAAAACTTGACACAAGA
66 GTACAAATTTGAAACAAAACAATTCAAAATGAAAAGAGATTAGGGAAGGAAAACTTGACACAAGA
1723962 TATTTATAGAGGTTCGGTCCAAACACGGCACCTACGTCCTCTCTCCTCGACACTTC
131 TATTTATAGAGGTTCGGTCCAAACACGGCACCTACGTCCTCTCTCCTCGACACTTC
1724018 CTTGTCGAGT
Statistics
Matches: 183, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
186 183 1.00
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (186 bp):
TGAAAGCTTATGAAGTAATGAACCAAGAGGGGGGTGAATTGGTTCTTTTCGAATTTTCGGGTTTT
GTACAAATTTGAAACAAAACAATTCAAAATGAAAAGAGATTAGGGAAGGAAAACTTGACACAAGA
TATTTATAGAGGTTCGGTCCAAACACGGCACCTACGTCCTCTCTCCTCGACACTTC
Found at i:1724621 original size:13 final size:13
Alignment explanation
Indices: 1724603--1724628 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1724593 CAATTTTTGG
1724603 TGTATCGATACAT
1 TGTATCGATACAT
1724616 TGTATCGATACAT
1 TGTATCGATACAT
1724629 ACTTGGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1724640 original size:32 final size:33
Alignment explanation
Indices: 1724583--1724646 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
1724573 TACAAGCCAA
**
1724583 TGTATCGATACAATTTTTGGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
1724616 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
1724647 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:1724653 original size:19 final size:18
Alignment explanation
Indices: 1724583--1724653 Score: 62
Period size: 19 Copynumber: 4.0 Consensus size: 18
1724573 TACAAGCCAA
1724583 TGTATCGATACAATTTTTGG
1 TGTATCGATACAA--TTTGG
1724603 TGTATCGATAC-A--T--
1 TGTATCGATACAATTTGG
*
1724616 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
1724635 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
1724654 CTACTGCCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 1 0.02
18 1 0.02
19 17 0.40
20 11 0.26
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:1726748 original size:21 final size:20
Alignment explanation
Indices: 1726719--1726761 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
1726709 GGCTAGTCTG
*
1726719 GGGACTGCCCGGTTGCGACCT
1 GGGACTG-CCGGTCGCGACCT
* *
1726740 GGGAGTGCCGGTCGTGACCT
1 GGGACTGCCGGTCGCGACCT
1726760 GG
1 GG
1726762 TGGGTGCTGC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.09, C:0.28, G:0.44, T:0.19
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:1727060 original size:21 final size:21
Alignment explanation
Indices: 1727036--1727082 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
1727026 TTTGAAGCTG
1727036 ATTTTG-A-TGAAAAACGAAGT
1 ATTTTGAAGTGAAAAAC-AAGT
*
1727056 AATTTGAAGTGAAAAACAAGT
1 ATTTTGAAGTGAAAAACAAGT
1727077 ATTTTG
1 ATTTTG
1727083 CAAAAGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 5 0.22
21 10 0.43
22 8 0.35
ACGTcount: A:0.45, C:0.04, G:0.19, T:0.32
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAACAAGT
Found at i:1727220 original size:13 final size:13
Alignment explanation
Indices: 1727202--1727240 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1727192 ATAAACAGCC
*
1727202 TGTATCGATACAG
1 TGTATCGATACAA
1727215 TGTATCGATACAA
1 TGTATCGATACAA
1727228 TGTATCGATACAA
1 TGTATCGATACAA
1727241 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1727251 original size:20 final size:20
Alignment explanation
Indices: 1727226--1727304 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
1727216 GTATCGATAC
1727226 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
**
1727246 AATGTATCGATACATTGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
*
1727271 AATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
1727291 CATGTATCGATACA
1 AATGTATCGATACA
1727305 TTTTGGACAT
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
20 31 0.63
25 18 0.37
ACGTcount: A:0.44, C:0.15, G:0.14, T:0.27
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:1733421 original size:13 final size:13
Alignment explanation
Indices: 1733403--1733428 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1733393 CAATTTTTGG
1733403 TGTATCGATACAT
1 TGTATCGATACAT
1733416 TGTATCGATACAT
1 TGTATCGATACAT
1733429 ACTTGGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1733440 original size:32 final size:33
Alignment explanation
Indices: 1733383--1733446 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
1733373 TACAAGCCAA
**
1733383 TGTATCGATACAATTTTTGGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
1733416 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
1733447 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:1733453 original size:19 final size:18
Alignment explanation
Indices: 1733383--1733453 Score: 62
Period size: 19 Copynumber: 4.0 Consensus size: 18
1733373 TACAAGCCAA
1733383 TGTATCGATACAATTTTTGG
1 TGTATCGATACAA--TTTGG
1733403 TGTATCGATAC-A--T--
1 TGTATCGATACAATTTGG
*
1733416 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
1733435 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
1733454 CTACTGCCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 1 0.02
18 1 0.02
19 17 0.40
20 11 0.26
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:1734345 original size:20 final size:22
Alignment explanation
Indices: 1734315--1734358 Score: 74
Period size: 20 Copynumber: 2.1 Consensus size: 22
1734305 TGATTTCCCG
1734315 TGTGAATGTATCGATACA-ATT
1 TGTGAATGTATCGATACATATT
1734336 TGTG-ATGTATCGATACATATT
1 TGTGAATGTATCGATACATATT
1734357 TG
1 TG
1734359 AAAATATAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (22 bp):
TGTGAATGTATCGATACATATT
Found at i:1734431 original size:13 final size:13
Alignment explanation
Indices: 1734413--1734438 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1734403 AATTTTTTTG
1734413 TGTATCGATACAT
1 TGTATCGATACAT
1734426 TGTATCGATACAT
1 TGTATCGATACAT
1734439 ACTTGGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1735355 original size:20 final size:22
Alignment explanation
Indices: 1735325--1735368 Score: 74
Period size: 20 Copynumber: 2.1 Consensus size: 22
1735315 TGATTTCCCG
1735325 TGTGAATGTATCGATACA-ATT
1 TGTGAATGTATCGATACATATT
1735346 TGTG-ATGTATCGATACATATT
1 TGTGAATGTATCGATACATATT
1735367 TG
1 TG
1735369 AAAATATAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (22 bp):
TGTGAATGTATCGATACATATT
Found at i:1735441 original size:13 final size:13
Alignment explanation
Indices: 1735423--1735448 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1735413 AATTTTTTTG
1735423 TGTATCGATACAT
1 TGTATCGATACAT
1735436 TGTATCGATACAT
1 TGTATCGATACAT
1735449 ACTTGGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1737906 original size:21 final size:20
Alignment explanation
Indices: 1737860--1737906 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
1737850 TTTGAAGTTG
*
1737860 ATTTTGATGAAAAACGATGT
1 ATTTTGATGAAAAACGAAGT
*
1737880 AATTTGAAGTGAAAAAC-AAGT
1 ATTTTG-A-TGAAAAACGAAGT
1737901 ATTTTG
1 ATTTTG
1737907 CAAAAGATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.34
Consensus pattern (20 bp):
ATTTTGATGAAAAACGAAGT
Found at i:1738046 original size:13 final size:13
Alignment explanation
Indices: 1738028--1738052 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1738018 ATAATCCTCC
1738028 TGTATCGATACAG
1 TGTATCGATACAG
1738041 TGTATCGATACA
1 TGTATCGATACA
1738053 AAGAAAAATG
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:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1744176 original size:20 final size:22
Alignment explanation
Indices: 1744146--1744189 Score: 74
Period size: 20 Copynumber: 2.1 Consensus size: 22
1744136 TGATTTCCCG
1744146 TGTGAATGTATCGATACA-ATT
1 TGTGAATGTATCGATACATATT
1744167 TGTG-ATGTATCGATACATATT
1 TGTGAATGTATCGATACATATT
1744188 TG
1 TG
1744190 AAAATATAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (22 bp):
TGTGAATGTATCGATACATATT
Found at i:1744252 original size:13 final size:13
Alignment explanation
Indices: 1744234--1744259 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1744224 AATTTTTTGG
1744234 TGTATCGATACAT
1 TGTATCGATACAT
1744247 TGTATCGATACAT
1 TGTATCGATACAT
1744260 ACTTGGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1745870 original size:19 final size:20
Alignment explanation
Indices: 1745833--1745870 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1745823 TCCCGTAGCC
1745833 ATGTATCGATACAATTCATA
1 ATGTATCGATACAATTCATA
*
1745853 ATGTATTGATAC-ATTCAT
1 ATGTATCGATACAATTCAT
1745871 TTGAAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACAATTCATA
Found at i:1745942 original size:33 final size:33
Alignment explanation
Indices: 1745905--1745968 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 33
1745895 GTTACAAACT
1745905 ATGTATCGATACATT-T-CTTCATGTATCGATATA
1 ATGTATCGATACATTGTAC--CATGTATCGATATA
1745938 ATGTATCGATACATTGTACCATGTATCGATA
1 ATGTATCGATACATTGTACCATGTATCGATA
1745969 CAAATAGTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 27 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (33 bp):
ATGTATCGATACATTGTACCATGTATCGATATA
Found at i:1746045 original size:19 final size:19
Alignment explanation
Indices: 1746000--1746056 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
1745990 CTGCCAGTTT
**
1746000 CATGTATCGATACAATTTGTC
1 CATGTATCGATACAA--TGAA
1746021 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
1746040 CATGTATCGATACAATG
1 CATGTATCGATACAATG
1746057 TATCGATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 19 0.56
21 15 0.44
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1746059 original size:13 final size:13
Alignment explanation
Indices: 1746041--1746067 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1746031 TACAATGAAC
1746041 ATGTATCGATACA
1 ATGTATCGATACA
1746054 ATGTATCGATACA
1 ATGTATCGATACA
1746067 A
1 A
1746068 AGCAACATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1746080 original size:33 final size:32
Alignment explanation
Indices: 1746022--1746086 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
1746012 CAATTTGTCC
*
1746022 ATGTATCGATACAATGAACATGTATCGATACA
1 ATGTATCGATACAAAGAACATGTATCGATACA
*
1746054 ATGTATCGATACAAAGCAACATGTATCGTTACA
1 ATGTATCGATACAAAG-AACATGTATCGATACA
1746087 TCTGGGTGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (32 bp):
ATGTATCGATACAAAGAACATGTATCGATACA
Found at i:1746851 original size:22 final size:22
Alignment explanation
Indices: 1746820--1746880 Score: 86
Period size: 22 Copynumber: 2.8 Consensus size: 22
1746810 ACATACATGT
*
1746820 AGTTAAAGTCATATGTATATGC
1 AGTTATAGTCATATGTATATGC
* *
1746842 TGTTATAGTCATATGTATATTC
1 AGTTATAGTCATATGTATATGC
*
1746864 AATTATAGTCATATGTA
1 AGTTATAGTCATATGTA
1746881 CATATTCTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.34, C:0.08, G:0.15, T:0.43
Consensus pattern (22 bp):
AGTTATAGTCATATGTATATGC
Found at i:1747016 original size:22 final size:22
Alignment explanation
Indices: 1746991--1747045 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
1746981 ATGTAGTTCA
*
1746991 AGTCATATGTACATGTT-GTTAT
1 AGTCATATGTACAT-TTACTTAT
*
1747013 AGTCATATCTACATTTACTTAT
1 AGTCATATGTACATTTACTTAT
*
1747035 AGTCTTATGTA
1 AGTCATATGTA
1747046 TATATTTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 2 0.07
22 26 0.93
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.45
Consensus pattern (22 bp):
AGTCATATGTACATTTACTTAT
Found at i:1747600 original size:13 final size:13
Alignment explanation
Indices: 1747582--1747606 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1747572 ATAATGCACA
1747582 GTATCGATACATT
1 GTATCGATACATT
1747595 GTATCGATACAT
1 GTATCGATACAT
1747607 GACCAAATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:1747619 original size:20 final size:21
Alignment explanation
Indices: 1747594--1747646 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
1747584 ATCGATACAT
*
1747594 TGTATCGATACATG-ACCA-AA
1 TGTATCGATACATGCA-AAGAA
*
1747614 TGTATCGATACTTGCAAAGAA
1 TGTATCGATACATGCAAAGAA
1747635 TGTATCGATACA
1 TGTATCGATACA
1747647 GGTGATTGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGCAAAGAA
Found at i:1747725 original size:13 final size:13
Alignment explanation
Indices: 1747707--1747732 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1747697 ACATACAAGA
1747707 TGTATCGATACAT
1 TGTATCGATACAT
1747720 TGTATCGATACAT
1 TGTATCGATACAT
1747733 GACCAAATGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1747748 original size:33 final size:32
Alignment explanation
Indices: 1747687--1747754 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
1747677 CCTTAACTAT
1747687 TTGTATCGATACATACAAGATGTATCGATACA
1 TTGTATCGATACATACAAGATGTATCGATACA
1747719 TTGTATCGATACATGACCAA-ATGTATCGATACA
1 TTGTATCGATACAT-A-CAAGATGTATCGATACA
1747752 TTG
1 TTG
1747755 GCTAGTAACG
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
32 14 0.41
33 17 0.50
34 3 0.09
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.32
Consensus pattern (32 bp):
TTGTATCGATACATACAAGATGTATCGATACA
Found at i:1754421 original size:21 final size:21
Alignment explanation
Indices: 1754377--1754418 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
1754367 TCTCTAGGCA
*
1754377 GCACTCACCAGGTCGCGACCG
1 GCACTCACCAGGTCGCAACCG
1754398 GCACTC-CCAGGTCGCAACCG
1 GCACTCACCAGGTCGCAACCG
1754418 G
1 G
1754419 GCAGCCCCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.19, C:0.43, G:0.29, T:0.10
Consensus pattern (21 bp):
GCACTCACCAGGTCGCAACCG
Found at i:1756388 original size:13 final size:13
Alignment explanation
Indices: 1756370--1756407 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
1756360 ATAATGCACA
1756370 GTATCGATACATT
1 GTATCGATACATT
1756383 GTATCGATACATT
1 GTATCGATACATT
1756396 GTATCGATACAT
1 GTATCGATACAT
1756408 GACCAAATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:1756420 original size:20 final size:21
Alignment explanation
Indices: 1756395--1756447 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
1756385 ATCGATACAT
*
1756395 TGTATCGATACATG-ACCA-AA
1 TGTATCGATACATGCA-AAGAA
*
1756415 TGTATCGATACTTGCAAAGAA
1 TGTATCGATACATGCAAAGAA
1756436 TGTATCGATACA
1 TGTATCGATACA
1756448 AGTGATTGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGCAAAGAA
Found at i:1756526 original size:13 final size:13
Alignment explanation
Indices: 1756508--1756533 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1756498 ACAGACAAGA
1756508 TGTATCGATACAT
1 TGTATCGATACAT
1756521 TGTATCGATACAT
1 TGTATCGATACAT
1756534 GACCAAATGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1756549 original size:33 final size:32
Alignment explanation
Indices: 1756488--1756555 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
1756478 CCTTAACTGT
1756488 TTGTATCGATACAGACAAGATGTATCGATACA
1 TTGTATCGATACAGACAAGATGTATCGATACA
1756520 TTGTATCGATACATGACCAA-ATGTATCGATACA
1 TTGTATCGATACA-GA-CAAGATGTATCGATACA
1756553 TTG
1 TTG
1756556 GCTTGTAACG
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
32 13 0.38
33 18 0.53
34 3 0.09
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (32 bp):
TTGTATCGATACAGACAAGATGTATCGATACA
Found at i:1758640 original size:20 final size:21
Alignment explanation
Indices: 1758612--1758650 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
1758602 ATTTAAAGCA
*
1758612 CTAAAATGA-CATGCAAATGT
1 CTAAAATGATCATCCAAATGT
*
1758632 CTAACATGATCATCCAAAT
1 CTAAAATGATCATCCAAAT
1758651 TTTCGCTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.44, C:0.21, G:0.10, T:0.26
Consensus pattern (21 bp):
CTAAAATGATCATCCAAATGT
Found at i:1759285 original size:13 final size:13
Alignment explanation
Indices: 1759267--1759293 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1759257 ACATGTTGCT
1759267 TTGTATCGATACA
1 TTGTATCGATACA
1759280 TTGTATCGATACA
1 TTGTATCGATACA
1759293 T
1 T
1759294 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1759290 original size:33 final size:32
Alignment explanation
Indices: 1759248--1759312 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 32
1759238 CACACCCAGA
*
1759248 TGTATCGATACATGTTGCTTTGTATCGATACAT
1 TGTATCGATACATGTT-CATTGTATCGATACAT
1759281 TGTATCGATACATGTTCATTGTATCGATACAT
1 TGTATCGATACATGTTCATTGTATCGATACAT
1759313 GGACAAATTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 15 0.48
33 16 0.52
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.42
Consensus pattern (32 bp):
TGTATCGATACATGTTCATTGTATCGATACAT
Found at i:1759324 original size:21 final size:19
Alignment explanation
Indices: 1759277--1759334 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 19
1759267 TTGTATCGAT
*
1759277 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
*
1759296 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
*
1759315 ACAAATTGTATTGATACATG
1 AC--ATTGTATCGATACATG
1759335 AAACTGGCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 18 0.55
21 15 0.45
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:1759389 original size:20 final size:20
Alignment explanation
Indices: 1759364--1759401 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1759354 TATCACTATT
1759364 TGTATCGATACATGGTATAA
1 TGTATCGATACATGGTATAA
*
1759384 TGTATCGATACATTGTAT
1 TGTATCGATACATGGTAT
1759402 CAATACATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATGGTATAA
Found at i:1759408 original size:33 final size:32
Alignment explanation
Indices: 1759363--1759429 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 32
1759353 CTATCACTAT
*
1759363 TTGTATCGATACATG-GTATAATGTATCGATACA
1 TTGTATCAATACATGAG-A-AATGTATCGATACA
1759396 TTGTATCAATACATGAAGAAATGTATCGATACA
1 TTGTATCAATACATG-AGAAATGTATCGATACA
1759429 T
1 T
1759430 AGCTTGTAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 29 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.34
Consensus pattern (32 bp):
TTGTATCAATACATGAGAAATGTATCGATACA
Found at i:1760696 original size:21 final size:24
Alignment explanation
Indices: 1760664--1760715 Score: 74
Period size: 22 Copynumber: 2.3 Consensus size: 24
1760654 ATGCATTCAC
*
1760664 CTTTTATATCAC-TCTTTTCTTTT
1 CTTTTATATCACTTATTTTCTTTT
1760687 -TTTTAT-TCACTTATTTTCTTTT
1 CTTTTATATCACTTATTTTCTTTT
1760709 CTTTTAT
1 CTTTTAT
1760716 CTTACACTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 4 0.15
22 16 0.62
23 6 0.23
ACGTcount: A:0.13, C:0.17, G:0.00, T:0.69
Consensus pattern (24 bp):
CTTTTATATCACTTATTTTCTTTT
Found at i:1762594 original size:28 final size:28
Alignment explanation
Indices: 1762544--1762607 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
1762534 ATAAGAAAGA
* *
1762544 CAAAAGAAGCAAAATCAAAAAGAAATATT
1 CAAAGGAAACAAAATCAAAAAGAAAT-TT
**
1762573 -AAAGGAAACAAAATCAGCAAGAAATTT
1 CAAAGGAAACAAAATCAAAAAGAAATTT
1762600 CAAAGGAA
1 CAAAGGAA
1762608 GAGAAATCGA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 2 0.07
28 28 0.93
ACGTcount: A:0.62, C:0.11, G:0.14, T:0.12
Consensus pattern (28 bp):
CAAAGGAAACAAAATCAAAAAGAAATTT
Found at i:1765536 original size:19 final size:19
Alignment explanation
Indices: 1765512--1765549 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
1765502 GCGGACCTGA
1765512 TTATCATTGACACTAAGGT
1 TTATCATTGACACTAAGGT
1765531 TTATCATTGACACTAAGGT
1 TTATCATTGACACTAAGGT
1765550 ACCCGATAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (19 bp):
TTATCATTGACACTAAGGT
Found at i:1765866 original size:154 final size:154
Alignment explanation
Indices: 1765640--1766488 Score: 1026
Period size: 154 Copynumber: 5.5 Consensus size: 154
1765630 CTAAATTCAA
* * * * * * *
1765640 GAAAAATTACGAAAATGCCTCTATGGGTATACCTT-AGACGTGAAAGTATCTCGATAACCCTAAA
1 GAAAAATTATGAAAATGCCCCTA-GGGGATACCTTCA-ACGTAAAAGTATCCCGGTACCCCTAAA
* * * * * * *
1765704 GAACTTAAGAAGGTTTGAAAGGGATGAACCTATCCTAAATACCTACCTTTGGCATAAAAACGGAT
64 GGACTTAAAAAGGTTTAAAAGGGATGAACCTATCCTAAATACCTACCTTCGGCATAAAAGCAGAC
* *
1765769 CCGGTGATAACCTAAGACTCAGTTCT
129 CCGGTGATAACCTAGGACTCAGTTTT
* * * *
1765795 GAAAAATTATAAAAATGCCCCTAAGGGATACCTTCAATGTGAAAGTATCCCGGTACCCCTAAAGG
1 GAAAAATTATGAAAATGCCCCTAGGGGATACCTTCAACGTAAAAGTATCCCGGTACCCCTAAAGG
* * * * *
1765860 ACTTAAGAAGGACTATAAAAGGGATGAACCTATCCTAAATACCTACCTTTGACATAAAAGTAGAC
66 ACTTAAAAAGG--TTTAAAAGGGATGAACCTATCCTAAATACCTACCTTCGGCATAAAAGCAGAC
1765925 CCGGTGATAACCTAGGACTC-GATTTT
129 CCGGTGATAACCTAGGACTCAG-TTTT
* *** * * *
1765951 AAAAAATTATGAAAATGCTAATAGGGGATACCTTCGACGTAAAAGTATCTCAGTACCCCTAAAGG
1 GAAAAATTATGAAAATGCCCCTAGGGGATACCTTCAACGTAAAAGTATCCCGGTACCCCTAAAGG
1766016 ACTTAAAAAGGTTTAAAAGGGATGAACCTATCCTAAATACCTACCTTCGGCATAAAAGC-GAACC
66 ACTTAAAAAGGTTTAAAAGGGATGAACCTATCCTAAATACCTACCTTCGGCATAAAAGCAG-ACC
* *
1766080 CAGTGATAACCTATGACTC-GATTTT
130 CGGTGATAACCTAGGACTCAG-TTTT
* * * ** *
1766105 GGAAAATTATGAAAATGCCCTTAGGGGATACCTTCGAA-GTAAAAATATCCTAGCACCCCTAAAG
1 GAAAAATTATGAAAATGCCCCTAGGGGATACCTTC-AACGTAAAAGTATCCCGGTACCCCTAAAG
* *
1766169 GACTTAAAAAGGTTTGAAAGGGATGAACCTATCCTAAATACCTACCTTCAGCATAAAAGCAGACC
65 GACTTAAAAAGGTTTAAAAGGGATGAACCTATCCTAAATACCTACCTTCGGCATAAAAGCAGACC
*
1766234 CAGTGATAACCTAGGACTCAGTTTT
130 CGGTGATAACCTAGGACTCAGTTTT
* ** * *
1766259 GAACAATTATGAAAATGCCCCTAGGGGATACCTTTGACGTAAAAGTATCTCGGTACCCCTAAAAG
1 GAAAAATTATGAAAATGCCCCTAGGGGATACCTTCAACGTAAAAGTATCCCGGTACCCCTAAAGG
*
1766324 ACTTAAAAAGGACTATAAAAGGGATGAACCTATCCTAAATACCTACCTTCGGCATAAAAGTC-GA
66 ACTTAAAAAGG--TTTAAAAGGGATGAACCTATCCTAAATACCTACCTTCGGCATAAAAG-CAGA
* * * *
1766388 CCCGATGATAACCTAGGACTTAATTCT
128 CCCGGTGATAACCTAGGACTCAGTTTT
* * * * * *
1766415 AAAAAATTACGAAAATACCCCTAGAGGATACCTTCGACGTAAAAGTATCCCGGTACCTCTAAAGG
1 GAAAAATTATGAAAATGCCCCTAGGGGATACCTTCAACGTAAAAGTATCCCGGTACCCCTAAAGG
1766480 ACTTAAAAA
66 ACTTAAAAA
1766489 TGACAATTAA
Statistics
Matches: 604, Mismatches: 78, Indels: 23
0.86 0.11 0.03
Matches are distributed among these distances:
153 2 0.00
154 312 0.52
155 25 0.04
156 264 0.44
157 1 0.00
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (154 bp):
GAAAAATTATGAAAATGCCCCTAGGGGATACCTTCAACGTAAAAGTATCCCGGTACCCCTAAAGG
ACTTAAAAAGGTTTAAAAGGGATGAACCTATCCTAAATACCTACCTTCGGCATAAAAGCAGACCC
GGTGATAACCTAGGACTCAGTTTT
Found at i:1766345 original size:310 final size:306
Alignment explanation
Indices: 1765641--1766488 Score: 1094
Period size: 310 Copynumber: 2.7 Consensus size: 306
1765631 TAAATTCAAG
* * * * * *
1765641 AAAAATTACGAAAATGCCTCTATGGGTATACCTTAGACGTGAAAGTATCTCGATAACCCT-AAAG
1 AAAAATTATGAAAATGCCACTA-GGGGATACCTTAGACGTAAAAGTATCTCGGTACCCCTAAAAG
* * * *
1765705 AACTTAAGAAGGTTTGAAAGGGATGAACCTATCCTAAATACCTACCTTTGGCATAAAAACGGATC
65 -ACTTAAAAAGGTTTAAAAGGGATGAACCTATCCTAAATACCTACCTTCGGCATAAAAGC-GA-C
* * *
1765770 CGGTGATAACCTAAGACTCAGTTCTGAAAAATTATAAAAATGCCCCTAAGGGATACCTTC-AATG
127 CCGTGATAACCTAAGACTCA-TTCTGAAAAATTATGAAAATGCCCCTAGGGGATACCTTCGAA-G
* *
1765834 TGAAAGTATCCCGGTACCCCTAAAGGACTTAAGAAGGACTATAAAAGGGATGAACCTATCCTAAA
190 TAAAAGTATCCCGGTACCCCTAAAGGACTTAAAAAGGA-TATAAAAGGGATGAACCTATCCTAAA
* * *
1765899 TACCTACCTTTGACATAAAAGTAGACCCGGTGATAACCTAGGACTCGATTTTA
254 TACCTACCTTAGACATAAAAGCAGACCCAGTGATAACCTAGGACTCGATTTTA
* * * * *
1765952 AAAAATTATGAAAATGCTAATAGGGGATACCTTCGACGTAAAAGTATCTCAGTACCCCTAAAGGA
1 AAAAATTATGAAAATGCCACTAGGGGATACCTTAGACGTAAAAGTATCTCGGTACCCCTAAAAGA
1766017 CTTAAAAAGGTTTAAAAGGGATGAACCTATCCTAAATACCTACCTTCGGCATAAAAGCGAACCCA
66 CTTAAAAAGGTTTAAAAGGGATGAACCTATCCTAAATACCTACCTTCGGCATAAAAGCG-ACCC-
* * * *
1766082 GTGATAACCTATGACTCGATTTTGGAAAATTATGAAAATGCCCTTAGGGGATACCTTCGAAGTAA
129 GTGATAACCTAAGACTC-ATTCTGAAAAATTATGAAAATGCCCCTAGGGGATACCTTCGAAGTAA
* ** * * *
1766147 AAATATCCTAGCACCCCTAAAGGACTTAAAAAGG-TTTGAAAGGGATGAACCTATCCTAAATACC
193 AAGTATCCCGGTACCCCTAAAGGACTTAAAAAGGATATAAAAGGGATGAACCTATCCTAAATACC
*
1766211 TACCTTCAG-CATAAAAGCAGACCCAGTGATAACCTAGGACTC-AGTTTTG
258 TACCTT-AGACATAAAAGCAGACCCAGTGATAACCTAGGACTCGA-TTTTA
* * *
1766260 AACAATTATGAAAATGCCCCTAGGGGATACCTTTGACGTAAAAGTATCTCGGTACCCCTAAAAGA
1 AAAAATTATGAAAATGCCACTAGGGGATACCTTAGACGTAAAAGTATCTCGGTACCCCTAAAAGA
*
1766325 CTTAAAAAGGACTATAAAAGGGATGAACCTATCCTAAATACCTACCTTCGGCATAAAAGTCGACC
66 CTTAAAAAGG--TTTAAAAGGGATGAACCTATCCTAAATACCTACCTTCGGCATAAAAG-CGACC
* * * * * * *
1766390 CGATGATAACCTAGGACTTAATTCTAAAAAATTACGAAAATACCCCTAGAGGATACCTTCGACGT
128 CG-TGATAACCTAAGAC-TCATTCTGAAAAATTATGAAAATGCCCCTAGGGGATACCTTCGAAGT
*
1766455 AAAAGTATCCCGGTACCTCTAAAGGACTTAAAAA
191 AAAAGTATCCCGGTACCCCTAAAGGACTTAAAAA
1766489 TGACAATTAA
Statistics
Matches: 468, Mismatches: 57, Indels: 25
0.85 0.10 0.05
Matches are distributed among these distances:
307 1 0.00
308 137 0.29
309 5 0.01
310 298 0.64
311 27 0.06
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.24
Consensus pattern (306 bp):
AAAAATTATGAAAATGCCACTAGGGGATACCTTAGACGTAAAAGTATCTCGGTACCCCTAAAAGA
CTTAAAAAGGTTTAAAAGGGATGAACCTATCCTAAATACCTACCTTCGGCATAAAAGCGACCCGT
GATAACCTAAGACTCATTCTGAAAAATTATGAAAATGCCCCTAGGGGATACCTTCGAAGTAAAAG
TATCCCGGTACCCCTAAAGGACTTAAAAAGGATATAAAAGGGATGAACCTATCCTAAATACCTAC
CTTAGACATAAAAGCAGACCCAGTGATAACCTAGGACTCGATTTTA
Found at i:1770679 original size:22 final size:21
Alignment explanation
Indices: 1770639--1770712 Score: 107
Period size: 20 Copynumber: 3.6 Consensus size: 21
1770629 TGCCTACATG
1770639 ATCGATACA-TTGAATAATGT
1 ATCGATACATTTGAATAATGT
*
1770659 ATCGATACAATTTGAAGAATGT
1 ATCGATAC-ATTTGAATAATGT
*
1770681 ATCGATACATTT-ATTAATGT
1 ATCGATACATTTGAATAATGT
1770701 ATCGATACATTT
1 ATCGATACATTT
1770713 CCTAGGTAGT
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
20 26 0.53
21 5 0.10
22 18 0.37
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.38
Consensus pattern (21 bp):
ATCGATACATTTGAATAATGT
Found at i:1770755 original size:13 final size:13
Alignment explanation
Indices: 1770737--1770762 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1770727 AGAGTAGTTT
1770737 TGTATCGATACAA
1 TGTATCGATACAA
1770750 TGTATCGATACAA
1 TGTATCGATACAA
1770763 AACTTATTTA
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1771631 original size:13 final size:13
Alignment explanation
Indices: 1771613--1771638 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1771603 CAATTTTTTG
1771613 TGTATCGATACAT
1 TGTATCGATACAT
1771626 TGTATCGATACAT
1 TGTATCGATACAT
1771639 ACTTTCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1771654 original size:32 final size:33
Alignment explanation
Indices: 1771593--1771656 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
1771583 TACAAGCCAA
** *
1771593 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTCTGTATCGATACAT
1771626 TGTATCGATAC-ATACTTTCTGTATCGATACA
1 TGTATCGATACAATACTTTCTGTATCGATACA
1771657 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTCTGTATCGATACAT
Found at i:1771723 original size:20 final size:20
Alignment explanation
Indices: 1771698--1771770 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1771688 CATCCTTTTT
1771698 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
1771718 ATGTATCGATACATTTTTTTC
1 ATGTATCGATACA-TTGCAAC
1771739 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
1771759 ATGTATCGATAC
1 ATGTATCGATAC
1771771 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:1771743 original size:21 final size:21
Alignment explanation
Indices: 1771677--1771753 Score: 86
Period size: 21 Copynumber: 3.7 Consensus size: 21
1771667 CTGCCAAGAA
*
1771677 ATGTATCGATACATCCTTTTT-
1 ATGTATCGATACAT-TTTTTTC
****
1771698 ATGTATCGATACA-TTGCAAC
1 ATGTATCGATACATTTTTTTC
1771718 ATGTATCGATACATTTTTTTC
1 ATGTATCGATACATTTTTTTC
1771739 ATGTATCGATACATT
1 ATGTATCGATACATT
1771754 GCAACATGTA
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
19 1 0.02
20 13 0.29
21 31 0.69
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.43
Consensus pattern (21 bp):
ATGTATCGATACATTTTTTTC
Found at i:1771743 original size:41 final size:41
Alignment explanation
Indices: 1771677--1771770 Score: 163
Period size: 41 Copynumber: 2.3 Consensus size: 41
1771667 CTGCCAAGAA
1771677 ATGTATCGATACATCCTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCCTTTTTATGTATCGATACATTGCAAC
*
1771718 ATGTATCGATACAT-TTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCCTTTTT-ATGTATCGATACATTGCAAC
1771759 ATGTATCGATAC
1 ATGTATCGATAC
1771771 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
40 5 0.10
41 46 0.90
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCCTTTTTATGTATCGATACATTGCAAC
Found at i:1773360 original size:17 final size:16
Alignment explanation
Indices: 1773333--1773377 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
1773323 TATACCGTAA
*
1773333 AAATTAATAAAAAAATC
1 AAATTATTAAAAAAA-C
*
1773350 ATATTATTAAAAAAAC
1 AAATTATTAAAAAAAC
1773366 AAATT-TTAAAAA
1 AAATTATTAAAAA
1773378 TTAAGATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 7 0.28
16 5 0.20
17 13 0.52
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (16 bp):
AAATTATTAAAAAAAC
Found at i:1773779 original size:176 final size:173
Alignment explanation
Indices: 1773535--1773856 Score: 391
Period size: 176 Copynumber: 1.8 Consensus size: 173
1773525 AAAAAACAAG
* * * * * *
1773535 AAATAAATTGAATTTTGTAAAACTGAATTACTTGGAGTTTAATAACAATATTTAATGAATTCTAA
1 AAATAAATTAAAATTTGTAAAACTGAATTAATTGGAATTAAATAACAATATTTAATAAATTCTAA
* * * *
1773600 AAATTAAAAAT-TAAGAAAAATCCTCACGAAAATATTTATGGAGTAGAAAACTCGATTTTTTGAG
66 AAATTAAAAATCTAAG-AAAATCCTC-C-AAAAAATTTACGGA--AAAAAACTCGATATTTTG-G
1773664 AAA-AGGAGAATTTCAAAGAAAGAAAAGAAAAAAATTCAAAACTCATGA
125 AAACAGGAGAATTTCAAAGAAAGAAAAGAAAAAAATTCAAAACTCATGA
* * *
1773712 AAATAAATTAAAATTT-TAAAACTGAATTAATAT-GAATTAAATAATAATATTTGATAAATTTTA
1 AAATAAATTAAAATTTGTAAAACTGAATTAAT-TGGAATTAAATAACAATATTTAATAAATTCTA
** * **
1773775 AAAATTTTAAATCTATGAAAATCCTCCAAAAAATTTACGGAAAAAAACTTTATATTTTGGAAACA
65 AAAATTAAAAATCTAAGAAAATCCTCCAAAAAATTTACGGAAAAAAACTCGATATTTTGGAAACA
1773840 GGAGAATTTCAAAGAAA
130 GGAGAATTTCAAAGAAA
1773857 AATGAAAAAC
Statistics
Matches: 124, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
171 4 0.03
172 32 0.26
174 12 0.10
175 1 0.01
176 57 0.46
177 18 0.15
ACGTcount: A:0.51, C:0.07, G:0.11, T:0.31
Consensus pattern (173 bp):
AAATAAATTAAAATTTGTAAAACTGAATTAATTGGAATTAAATAACAATATTTAATAAATTCTAA
AAATTAAAAATCTAAGAAAATCCTCCAAAAAATTTACGGAAAAAAACTCGATATTTTGGAAACAG
GAGAATTTCAAAGAAAGAAAAGAAAAAAATTCAAAACTCATGA
Found at i:1774829 original size:22 final size:22
Alignment explanation
Indices: 1774734--1774829 Score: 79
Period size: 22 Copynumber: 4.4 Consensus size: 22
1774724 ACAAATCAAA
*
1774734 ACAATAACATAATAAACATATC
1 ACAATAACATAATATACATATC
* * * * *
1774756 ACATTAATAAAATGTACTTATC
1 ACAATAACATAATATACATATC
*
1774778 A-ATATAAAAGT-ATATACATATC
1 ACA-ATAACA-TAATATACATATC
* *
1774800 ATAATAACATAATGTACATATC
1 ACAATAACATAATATACATATC
1774822 ACAATAAC
1 ACAATAAC
1774830 TATAGGAACT
Statistics
Matches: 56, Mismatches: 14, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
21 2 0.04
22 53 0.95
23 1 0.02
ACGTcount: A:0.53, C:0.15, G:0.03, T:0.29
Consensus pattern (22 bp):
ACAATAACATAATATACATATC
Found at i:1774995 original size:36 final size:36
Alignment explanation
Indices: 1774955--1775027 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
1774945 CAAAAATATA
*
1774955 TGTATATTTTTATAAGAGTGATGAAATTCTCTGAAT
1 TGTATATTTTTATAAAAGTGATGAAATTCTCTGAAT
1774991 TGTATATTTTTATAAAAGTGATGAAATTCTCTGAAT
1 TGTATATTTTTATAAAAGTGATGAAATTCTCTGAAT
1775027 T
1 T
1775028 TCAATTAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.34, C:0.05, G:0.15, T:0.45
Consensus pattern (36 bp):
TGTATATTTTTATAAAAGTGATGAAATTCTCTGAAT
Found at i:1775269 original size:20 final size:19
Alignment explanation
Indices: 1775244--1775300 Score: 51
Period size: 20 Copynumber: 2.7 Consensus size: 19
1775234 TACTATATAC
1775244 ATATATAATAATAATTAAAT
1 ATATATAAT-ATAATTAAAT
* *
1775264 ATATATGAGTATAACTAAAT
1 ATATAT-AATATAATTAAAT
1775284 ATACATATAATTATAAT
1 AT--ATATAA-TATAAT
1775301 AATACGTACA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
20 17 0.59
21 3 0.10
22 9 0.31
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.39
Consensus pattern (19 bp):
ATATATAATATAATTAAAT
Found at i:1775467 original size:31 final size:31
Alignment explanation
Indices: 1775429--1775499 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
1775419 TTATCAAATT
* *
1775429 AAATTAAACCCAATGC-AAGATCGACACTTTC
1 AAATTAAACCCAATGCTAA-ATCAACACATTC
** *
1775460 AAATTAAACGTAATGCTAATTCAACACATTC
1 AAATTAAACCCAATGCTAAATCAACACATTC
1775491 AAATTAAAC
1 AAATTAAAC
1775500 ATAATACAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
31 32 0.94
32 2 0.06
ACGTcount: A:0.46, C:0.21, G:0.07, T:0.25
Consensus pattern (31 bp):
AAATTAAACCCAATGCTAAATCAACACATTC
Found at i:1777126 original size:54 final size:53
Alignment explanation
Indices: 1776960--1777315 Score: 252
Period size: 53 Copynumber: 6.9 Consensus size: 53
1776950 TTCCTTAGTC
*
1776960 AAAAATATTTTATATTAAA-C-ATGAATTAAC-ATTTAAAAATAATGAATAAA--T
1 AAAAATATTTTATATTAAATCTA-GAATT-ACTATTTAAAAATAAT-AAAAAATTT
* * * *
1777011 --ATATATTTTATATTATATCTCA-AATTACTATTTAAAAAGAATAAAAAATTA
1 AAAAATATTTTATATTAAATCT-AGAATTACTATTTAAAAATAATAAAAAATTT
* * **
1777062 AAAAATATTTTACATTAAATCTAGAATTACTATGTAAACAATAATAAAATTTTT
1 AAAAATATTTTATATTAAATCTAGAATTACTATTTAAA-AATAATAAAAAATTT
* * ** *
1777116 TAAAATATTTTATATTAAATCTCGAATTAAAATTTAAAAATAATAAAACATTT
1 AAAAATATTTTATATTAAATCTAGAATTACTATTTAAAAATAATAAAAAATTT
* * * * * *
1777169 AAAAATATTTTATGTT-TACCT-TAATTACCA-TT-----T--TAAAAAA-TA
1 AAAAATATTTTATATTAAATCTAGAATTACTATTTAAAAATAATAAAAAATTT
*
1777211 AAAAATATTTTATATTAAATCCCA-AATTACTATTTAAAAAATAATTAAAAAATTTT
1 AAAAATATTTTATATTAAAT-CTAGAATTACTATTT-AAAAATAA-TAAAAAA-TTT
* * *
1777267 AAAAATATTTTATATTAAAGACCA-AATTGCTATTT-AAAATAATAAAAAA
1 AAAAATATTTTATATTAAA-TCTAGAATTACTATTTAAAAATAATAAAAAA
1777316 ATTTTATTTT
Statistics
Matches: 241, Mismatches: 38, Indels: 50
0.73 0.12 0.15
Matches are distributed among these distances:
42 16 0.07
43 7 0.03
44 8 0.03
45 3 0.01
49 22 0.09
50 19 0.08
51 7 0.03
52 5 0.02
53 64 0.27
54 57 0.24
56 33 0.14
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (53 bp):
AAAAATATTTTATATTAAATCTAGAATTACTATTTAAAAATAATAAAAAATTT
Found at i:1777221 original size:107 final size:107
Alignment explanation
Indices: 1777013--1777221 Score: 242
Period size: 107 Copynumber: 2.0 Consensus size: 107
1777003 GAATAAATAT
* **
1777013 ATATTTTATATTATATCTCAAATTACTATTTAAAAAGAATAAAAAATTAAAAAATATTTTACATT
1 ATATTTTATATTAAATCTCAAATTAAAATTTAAAAAGAATAAAAAATTAAAAAATATTTTACATT
* * * *
1777078 AAATCTAGAATTACTATGTAAACAATAATAAAATTTTTTAAA
66 AAACCTAGAATTACCATGTAAAAAATAAAAAAATTTTTTAAA
* * * * **
1777120 ATATTTTATATTAAATCTCGAATTAAAATTTAAAAATAATAAAACATTTAAAAATATTTTATGTT
1 ATATTTTATATTAAATCTCAAATTAAAATTTAAAAAGAATAAAAAATTAAAAAATATTTTACATT
* * *
1777185 -TACCT-TAATTACCATTTTAAAAAATAAAAAATATTTT
66 AAACCTAGAATTACCA-TGTAAAAAATAAAAAA-ATTTT
1777222 ATATTAAATC
Statistics
Matches: 84, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
105 7 0.08
106 16 0.19
107 61 0.73
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.41
Consensus pattern (107 bp):
ATATTTTATATTAAATCTCAAATTAAAATTTAAAAAGAATAAAAAATTAAAAAATATTTTACATT
AAACCTAGAATTACCATGTAAAAAATAAAAAAATTTTTTAAA
Found at i:1777316 original size:54 final size:55
Alignment explanation
Indices: 1777211--1777321 Score: 170
Period size: 56 Copynumber: 2.0 Consensus size: 55
1777201 TTAAAAAATA
** *
1777211 AAAAATATTTTATATTAAATCCCAAATTACTATTTAAAAAATAATTAAAAAATTTT
1 AAAAATATTTTATATTAAAGACCAAATTACTATTT-AAAAATAATAAAAAAATTTT
*
1777267 AAAAATATTTTATATTAAAGACCAAATTGCTATTT-AAAATAATAAAAAAATTTT
1 AAAAATATTTTATATTAAAGACCAAATTACTATTTAAAAATAATAAAAAAATTTT
1777321 A
1 A
1777322 TTTTTATTAT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
54 19 0.37
56 32 0.63
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (55 bp):
AAAAATATTTTATATTAAAGACCAAATTACTATTTAAAAATAATAAAAAAATTTT
Found at i:1777345 original size:26 final size:26
Alignment explanation
Indices: 1777309--1777369 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 26
1777299 TTTAAAATAA
* * *
1777309 TAAAAAAATTTTATTTTTATTATTTT
1 TAAAAATATTTTAATTTTACTATTTT
*
1777335 TAAAAATATTTTAATTTTGCTATTTT
1 TAAAAATATTTTAATTTTACTATTTT
*
1777361 T-TAAATATT
1 TAAAAATATT
1777370 ATTTGGGATT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 7 0.23
26 23 0.77
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (26 bp):
TAAAAATATTTTAATTTTACTATTTT
Found at i:1779441 original size:12 final size:12
Alignment explanation
Indices: 1779426--1779458 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
1779416 ACCATCAAAG
1779426 ATGATGAAGATA
1 ATGATGAAGATA
*
1779438 ATGATGATGATA
1 ATGATGAAGATA
1779450 ATGATGAAG
1 ATGATGAAG
1779459 TTGACTCGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.27, T:0.27
Consensus pattern (12 bp):
ATGATGAAGATA
Found at i:1783829 original size:20 final size:20
Alignment explanation
Indices: 1783804--1783901 Score: 98
Period size: 20 Copynumber: 5.6 Consensus size: 20
1783794 AAAACCCAGA
1783804 TGTATCGATACAATGTTCTT
1 TGTATCGATACAATGTTCTT
1783824 TGTATCGATAC-A------T
1 TGTATCGATACAATGTTCTT
1783837 TGTATCGATACAATGTTCTT
1 TGTATCGATACAATGTTCTT
1783857 TGTATCGATAC-A------T
1 TGTATCGATACAATGTTCTT
1783870 TGTATCGATACAATGTTCTT
1 TGTATCGATACAATGTTCTT
1783890 TGTATCGATACA
1 TGTATCGATACA
1783902 TTGTATCGAT
Statistics
Matches: 64, Mismatches: 0, Indels: 28
0.70 0.00 0.30
Matches are distributed among these distances:
13 24 0.38
14 2 0.03
19 2 0.03
20 36 0.56
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (20 bp):
TGTATCGATACAATGTTCTT
Found at i:1783841 original size:13 final size:13
Alignment explanation
Indices: 1783823--1783913 Score: 80
Period size: 13 Copynumber: 7.9 Consensus size: 13
1783813 ACAATGTTCT
1783823 TTGTATCGATACA
1 TTGTATCGATACA
1783836 TTGTATCGATACA
1 TTGTATCGATACA
*
1783849 ATGT-TC--T---
1 TTGTATCGATACA
1783856 TTGTATCGATACA
1 TTGTATCGATACA
1783869 TTGTATCGATACA
1 TTGTATCGATACA
*
1783882 ATGT-TC--T---
1 TTGTATCGATACA
1783889 TTGTATCGATACA
1 TTGTATCGATACA
1783902 TTGTATCGATAC
1 TTGTATCGATAC
1783914 GTGGGTTACA
Statistics
Matches: 62, Mismatches: 4, Indels: 24
0.69 0.04 0.27
Matches are distributed among these distances:
7 6 0.10
8 4 0.06
10 4 0.06
12 4 0.06
13 44 0.71
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.42
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1783846 original size:33 final size:33
Alignment explanation
Indices: 1783804--1783913 Score: 220
Period size: 33 Copynumber: 3.3 Consensus size: 33
1783794 AAAACCCAGA
1783804 TGTATCGATACAATGTTCTTTGTATCGATACAT
1 TGTATCGATACAATGTTCTTTGTATCGATACAT
1783837 TGTATCGATACAATGTTCTTTGTATCGATACAT
1 TGTATCGATACAATGTTCTTTGTATCGATACAT
1783870 TGTATCGATACAATGTTCTTTGTATCGATACAT
1 TGTATCGATACAATGTTCTTTGTATCGATACAT
1783903 TGTATCGATAC
1 TGTATCGATAC
1783914 GTGGGTTACA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 77 1.00
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATGTTCTTTGTATCGATACAT
Found at i:1786518 original size:19 final size:20
Alignment explanation
Indices: 1786494--1786531 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1786484 ATAATTTCAA
1786494 ATGAA-TGTATCGATACATT
1 ATGAATTGTATCGATACATT
1786513 ATGAATTGTATCGATACAT
1 ATGAATTGTATCGATACAT
1786532 AGCAACGGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.37
Consensus pattern (20 bp):
ATGAATTGTATCGATACATT
Found at i:1787263 original size:52 final size:51
Alignment explanation
Indices: 1787202--1787942 Score: 684
Period size: 49 Copynumber: 14.2 Consensus size: 51
1787192 TTGAACTTTC
* * *
1787202 ATTTTTAAATAGTAATTCAGGATTTAATATAAAATATTTTTAATTCTATATT
1 ATTTTTAAATAGTAATTTAAGATTTAATATAAAATATTTTTAATT-TTTATT
** * *
1787254 ATTTTTAAATAGTAATTTGGGATTTAATGTAAAATATTTTAAATATTTTATT
1 ATTTTTAAATAGTAATTTAAGATTTAATATAAAATATTTTTAAT-TTTTATT
* *
1787306 ATTTTTAAAAAGTAATTTAAGATTTAATATAAAATATTTTTTTATTTTTTATT
1 ATTTTTAAATAGTAATTTAAGATTTAATATAAAATA--TTTTTAATTTTTATT
* * * *
1787359 -TTTTGTAAATAGTAATTTGATATTTAATATAAAATATTTTTTATTTTTTACT
1 ATTTT-TAAATAGTAATTTAAGATTTAATATAAAATA-TTTTTAATTTTTATT
* * * *
1787411 -TTTTTAAATAGTAATTCAAGTTTTAATGT-AAATATTTTT-ATTTTTTTT
1 ATTTTTAAATAGTAATTTAAGATTTAATATAAAATATTTTTAATTTTTATT
* *** *
1787459 ATTTTTAACTAGTAAATATTTTTTATTTTTTAGATATCAATTCAAGATTTAATATTAATATTTTA
1 ATTTTTAAATAGT--A-A---TTTAAGATTTA-ATAT-AA---AATA-TT--T-TTAAT-TTTTA
1787524 TT
50 TT
*
1787526 ATTTTTAAATAGTAATTTGAG-TTGTAATAT-AAATATTTTTAATTTTTTATT
1 ATTTTTAAATAGTAATTTAAGATT-TAATATAAAATATTTTTAA-TTTTTATT
* * *
1787577 ATTTTTAACTAGTAATTTGAGA-TTAATATCAAATATTTTT-ATTTTTATT
1 ATTTTTAAATAGTAATTTAAGATTTAATATAAAATATTTTTAATTTTTATT
* *
1787626 ATTTTTAAATATTAATTCAAGATTTAATATAAAAT-TTTTT-ATTTTTATT
1 ATTTTTAAATAGTAATTTAAGATTTAATATAAAATATTTTTAATTTTTATT
* *
1787675 ATTTTCAAATAGTAATTCAAGATTTAATATAAAATATTTTTAATTTTTATT
1 ATTTTTAAATAGTAATTTAAGATTTAATATAAAATATTTTTAATTTTTATT
* * * * * *
1787726 GTTTTTGAATAGCAATTTTAGATTTAATATAAAATATTTTTTACTTTT-TT
1 ATTTTTAAATAGTAATTTAAGATTTAATATAAAATATTTTTAATTTTTATT
* *
1787776 ATTTTTAAATAATAATTTAAAATTTAATATAAAATATATTTTAAATTTTTATT
1 ATTTTTAAATAGTAATTTAAGATTTAATATAAAATAT-TTTT-AATTTTTATT
* * * *
1787829 ATTTTTAAATAATAATTT-GGTATTTAACATGAAATAATTTTT-A-TTTT-TT
1 ATTTTTAAATAGTAATTTAAG-ATTTAATATAAAAT-ATTTTTAATTTTTATT
* * *
1787878 ATTTTTAAATAATAATTGAAAATTTAATATAAAATATATTTATAATTTTTTATT
1 ATTTTTAAATAGTAATTTAAGATTTAATATAAAATAT-TTT-TAA-TTTTTATT
1787932 ATTGTTTAAAT
1 ATT-TTTAAAT
1787943 TTTATTTTAG
Statistics
Matches: 578, Mismatches: 68, Indels: 83
0.79 0.09 0.11
Matches are distributed among these distances:
48 8 0.01
49 123 0.21
50 66 0.11
51 118 0.20
52 108 0.19
53 76 0.13
54 15 0.03
55 18 0.03
56 3 0.01
58 2 0.00
60 6 0.01
61 8 0.01
62 2 0.00
64 2 0.00
65 3 0.01
66 2 0.00
67 18 0.03
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (51 bp):
ATTTTTAAATAGTAATTTAAGATTTAATATAAAATATTTTTAATTTTTATT
Found at i:1787521 original size:42 final size:42
Alignment explanation
Indices: 1787471--1787574 Score: 115
Period size: 42 Copynumber: 2.5 Consensus size: 42
1787461 TTTTAACTAG
*
1787471 TAAATATTTTTTATTTTTTAGATA-TCAATTCAAGATT-TAATA
1 TAAATATTTTTTATTTTTTAAATAGT-AATTCAAG-TTGTAATA
* **
1787513 TTAATATTTTATTA-TTTTTAAATAGTAATTTGAGTTGTAATA
1 TAAATATTTT-TTATTTTTTAAATAGTAATTCAAGTTGTAATA
*
1787555 TAAATATTTTTAATTTTTTA
1 TAAATATTTTTTATTTTTTA
1787575 TTATTTTTAA
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
41 4 0.08
42 44 0.85
43 4 0.08
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.56
Consensus pattern (42 bp):
TAAATATTTTTTATTTTTTAAATAGTAATTCAAGTTGTAATA
Found at i:1791130 original size:14 final size:16
Alignment explanation
Indices: 1791104--1791148 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
1791094 ACTGAAAAAT
1791104 TAAGTGTTTGAATTTT-
1 TAAGTG-TTGAATTTTG
1791120 T-AGTGTTGAATTTTG
1 TAAGTGTTGAATTTTG
*
1791135 TAAGTATTGAATTT
1 TAAGTGTTGAATTT
1791149 GAATTATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
14 9 0.35
15 5 0.19
16 12 0.46
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.53
Consensus pattern (16 bp):
TAAGTGTTGAATTTTG
Found at i:1793675 original size:5 final size:5
Alignment explanation
Indices: 1793667--1793693 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
1793657 ATTAATTAAA
1793667 TTTAT TTTAT TTTAT TTTAT TTTAT TT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TT
1793694 CTTTTTCCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:1794684 original size:20 final size:21
Alignment explanation
Indices: 1794653--1794691 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
1794643 AGGTCAAAAC
1794653 CCTAGAATGTATCGATACACA
1 CCTAGAATGTATCGATACACA
1794674 CCTAG-ATGTATCGATACA
1 CCTAGAATGTATCGATACA
1794692 TATTGCTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (21 bp):
CCTAGAATGTATCGATACACA
Found at i:1794720 original size:13 final size:13
Alignment explanation
Indices: 1794702--1794789 Score: 50
Period size: 13 Copynumber: 5.8 Consensus size: 13
1794692 TATTGCTTAG
1794702 TATCGATACATTA
1 TATCGATACATTA
*
1794715 TATCGATACATGTTCTTTG
1 TATCGATACA------TTA
1794734 TATCGATACATTA
1 TATCGATACATTA
*
1794747 TATCGATACATGTTCTTTG
1 TATCGATACA------TTA
1794766 TATCGATACATTA
1 TATCGATACATTA
1794779 TATCGATACAT
1 TATCGATACAT
1794790 GCCATGAAAT
Statistics
Matches: 59, Mismatches: 4, Indels: 24
0.68 0.05 0.28
Matches are distributed among these distances:
13 35 0.59
19 24 0.41
ACGTcount: A:0.31, C:0.16, G:0.11, T:0.42
Consensus pattern (13 bp):
TATCGATACATTA
Found at i:1794739 original size:19 final size:19
Alignment explanation
Indices: 1794715--1794776 Score: 73
Period size: 19 Copynumber: 3.6 Consensus size: 19
1794705 CGATACATTA
1794715 TATCGATACATGTTCTTTG
1 TATCGATACATGTTCTTTG
*
1794734 TATCGATACA------TTA
1 TATCGATACATGTTCTTTG
1794747 TATCGATACATGTTCTTTG
1 TATCGATACATGTTCTTTG
1794766 TATCGATACAT
1 TATCGATACAT
1794777 TATATCGATA
Statistics
Matches: 35, Mismatches: 2, Indels: 12
0.71 0.04 0.24
Matches are distributed among these distances:
13 12 0.34
19 23 0.66
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.44
Consensus pattern (19 bp):
TATCGATACATGTTCTTTG
Found at i:1794742 original size:32 final size:32
Alignment explanation
Indices: 1794682--1794790 Score: 191
Period size: 32 Copynumber: 3.4 Consensus size: 32
1794672 CACCTAGATG
* *
1794682 TATCGATACATATTGCTTAGTATCGATACATTA
1 TATCGATACATGTT-CTTTGTATCGATACATTA
1794715 TATCGATACATGTTCTTTGTATCGATACATTA
1 TATCGATACATGTTCTTTGTATCGATACATTA
1794747 TATCGATACATGTTCTTTGTATCGATACATTA
1 TATCGATACATGTTCTTTGTATCGATACATTA
1794779 TATCGATACATG
1 TATCGATACATG
1794791 CCATGAAATG
Statistics
Matches: 74, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
32 61 0.82
33 13 0.18
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (32 bp):
TATCGATACATGTTCTTTGTATCGATACATTA
Found at i:1794924 original size:52 final size:52
Alignment explanation
Indices: 1794838--1794937 Score: 128
Period size: 52 Copynumber: 1.9 Consensus size: 52
1794828 ACCCTAAGTG
* * *
1794838 AATTGTATTGATACATGGTAAATTGTATCAATACATTAAGTCCAATGGCTAT
1 AATTGTATCGATACATGATAAATTATATCAATACATTAAGTCCAATGGCTAT
* * * * *
1794890 AATTGTATCGATACATTATGAATTATATCGATACATTGAGTTCAATGG
1 AATTGTATCGATACATGATAAATTATATCAATACATTAAGTCCAATGG
1794938 TTAGAATTTC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
52 40 1.00
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.37
Consensus pattern (52 bp):
AATTGTATCGATACATGATAAATTATATCAATACATTAAGTCCAATGGCTAT
Found at i:1796228 original size:145 final size:148
Alignment explanation
Indices: 1795967--1796309 Score: 378
Period size: 145 Copynumber: 2.3 Consensus size: 148
1795957 TTAATTTTAG
* ** *** * *
1795967 AAGTTTAGGGACC-TTTTAGCAAAAGTCTTGCA-TTTCAAATCTATTTAGATCATTTCTAACATT
1 AAGTTTAAGGACCATTTTAGCAAAAACCTTGCAGTTT-AGGGCTATTTAGGTAATTTCT-ACATT
* *
1796030 AAATTACCCATTTAGGGTATTTTGGACATTTTAGGAGCATTTTTAGCATTTTTAAGTCATTTAAG
64 AAATTACCCATTTAGGATATTTTGGACACTTTAGGAGCATTTTTAGCATTTTTAAGTCATTT-AG
*
1796095 GG-TTAAAGTGTAAATTTAAA
128 GGACTAAAGTGTAAATTTAAA
* * *
1796115 AAGTTTACGGACTA-TTTAGC-AAAGCCTTGCAGTTTAGGGCTATTTAGGTAATTTCT-CATGTA
1 AAGTTTAAGGACCATTTTAGCAAAAACCTTGCAGTTTAGGGCTATTTAGGTAATTTCTACAT-TA
* * * *
1796177 AATTA-CCATTTAGGATATTTTGGATACTTTAGGGGCATTTTTATGCA-TTTTATGTCATTTTGG
65 AATTACCCATTTAGGATATTTTGGACACTTTAGGAGCATTTTTA-GCATTTTTAAGTCATTTAGG
*
1796240 GACTAAATTGTAAATTTAAA
129 GACTAAAGTGTAAATTTAAA
* * * *
1796260 AATTTTAAGGACCATTTTAGCAAAAATCTTGCATTTTAGGGCTAATTAGG
1 AAGTTTAAGGACCATTTTAGCAAAAACCTTGCAGTTTAGGGCTATTTAGG
1796310 CCATTTTAAC
Statistics
Matches: 165, Mismatches: 23, Indels: 15
0.81 0.11 0.07
Matches are distributed among these distances:
144 3 0.02
145 76 0.46
146 16 0.10
147 50 0.30
148 20 0.12
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.40
Consensus pattern (148 bp):
AAGTTTAAGGACCATTTTAGCAAAAACCTTGCAGTTTAGGGCTATTTAGGTAATTTCTACATTAA
ATTACCCATTTAGGATATTTTGGACACTTTAGGAGCATTTTTAGCATTTTTAAGTCATTTAGGGA
CTAAAGTGTAAATTTAAA
Found at i:1797317 original size:32 final size:32
Alignment explanation
Indices: 1797276--1797340 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
1797266 ACTATTCATA
*
1797276 ATGTATCGATACATGAATAGTGATGAACAGTG
1 ATGTATCGATACATAAATAGTGATGAACAGTG
*
1797308 ATGTATCGATACATAAATAGTGTTGAACAGTG
1 ATGTATCGATACATAAATAGTGATGAACAGTG
1797340 A
1 A
1797341 AAATGAGATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.29
Consensus pattern (32 bp):
ATGTATCGATACATAAATAGTGATGAACAGTG
Found at i:1799577 original size:154 final size:154
Alignment explanation
Indices: 1799136--1799830 Score: 558
Period size: 154 Copynumber: 4.5 Consensus size: 154
1799126 TAAGTTAAAG
* * * * *
1799136 AAAAATTACGAAAATGCCTCTATGGGATAACTTCGATGTAAAAGTATTCCAGTACCCCTAAAGGA
1 AAAAATTACGAAAATGCCCCTATGGGAT-ACTTTGACGTAAAAGTACTCGA-TACCCCTAAAGGA
* * * * *
1799201 CTTAAAAATGACCATAAAAGGGATGAACCTATCCTAAATACCTA-ATTTTGGCATAAGAGCGAAC
64 CTTAAAAAGGACAATAAAAGGGATGAACCTATCCTAAATATCTACA-TTCGGCATAAAAGCGAAC
* ** * *
1799265 CCGACGATAACCTAGGACTCGATTCTG
128 TCGGTGACAACCTAGGACTCGATTCTA
* * * * * * *
1799292 AAAAATTATGAAAATGCCTCTAAGGGACACTTTCGACGTAAAAGTATCGCGGTACCCTTAAAGGA
1 AAAAATTACGAAAATGCCCCTATGGGATACTTT-GACGTAAAAGTA-CTCGATACCCCTAAAGGA
** *** * *
1799357 CTTAAAATTGACAATAAAAGGGGCAAACCTATCCTAAAT-TCCCACCTTCGGCATAAAAGCGAAC
64 CTTAAAAAGGACAATAAAAGGGATGAACCTATCCTAAATAT-CTACATTCGGCATAAAAGCGAAC
* *
1799421 TCGGTAACAACCTAGGATTCGATTCTA
128 TCGGTGACAACCTAGGACTCGATTCTA
* *
1799448 AAAAATTACGAAAATGCCCCTATGGGATACCTTTGACGT-AAAGTGCTCGATACTCCTAAAGGAC
1 AAAAATTACGAAAATGCCCCTATGGGATA-CTTTGACGTAAAAGTACTCGATACCCCTAAAGGAC
* ** * * * * *
1799512 TTAAAAAGGATAATGGATGAGATGAACCTATCCTAAATATCTACATTCAGTATAAAAGCGGACTC
65 TTAAAAAGGACAATAAAAGGGATGAACCTATCCTAAATATCTACATTCGGCATAAAAGCGAACTC
*
1799577 GGTGACAATCTAGGACTCGATTCTA
130 GGTGACAACCTAGGACTCGATTCTA
** * ** *
1799602 AAAAATTATAAAAATACCCCTCGGGGATATTTTTGACGTAAAAGTAC-CTGATACCCCTAAAGGA
1 AAAAATTACGAAAATGCCCCTATGGGATA-CTTTGACGTAAAAGTACTC-GATACCCCTAAAGGA
** * * ** * * * * *
1799666 CTTAAAAAGG--TTTGAAATGGGATGAACCTATCCTAATTGCCCACCTTTGGCCTAAAAGTGAAC
64 CTTAAAAAGGACAAT-AAAAGGGATGAACCTATCCTAAATATCTACATTCGGCATAAAAGCGAAC
** * * *
1799729 -CTAATGACAACCTAGGAGTTGGTTCTA
128 TC-GGTGACAACCTAGGACTCGATTCTA
* * * * ** *
1799756 AAAAATTATGAAAATGCCGCTAGGGGATATACCTTTGACGTAAAAGTATCCCGGCAACCCTAAAG
1 AAAAATTACGAAAATGCCCCTATGGG--ATA-CTTTGACGTAAAAGTA-CTCGATACCCCTAAAG
*
1799821 GACGTAAAAA
62 GACTTAAAAA
1799831 TATTAGAAAT
Statistics
Matches: 430, Mismatches: 95, Indels: 27
0.78 0.17 0.05
Matches are distributed among these distances:
153 2 0.00
154 194 0.45
155 40 0.09
156 168 0.39
157 25 0.06
158 1 0.00
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (154 bp):
AAAAATTACGAAAATGCCCCTATGGGATACTTTGACGTAAAAGTACTCGATACCCCTAAAGGACT
TAAAAAGGACAATAAAAGGGATGAACCTATCCTAAATATCTACATTCGGCATAAAAGCGAACTCG
GTGACAACCTAGGACTCGATTCTA
Found at i:1801041 original size:23 final size:23
Alignment explanation
Indices: 1801015--1801174 Score: 89
Period size: 23 Copynumber: 6.7 Consensus size: 23
1801005 TTTGTGTTTG
* * *
1801015 TTTGTTTGCTGTTTGCTGTTGCT
1 TTTGCTTGCTGTTTGCTGCTACT
1801038 TTTGCTTGCTGTTTGCTGCTACT
1 TTTGCTTGCTGTTTGCTGCTACT
*
1801061 TTTACTTGCTGTTTTTGTGCTTGCTA-T
1 TTTGCTTGCTG---TT-TGC-TGCTACT
* *
1801088 CTTGC-TGCTTGTTCATGCTTGCTGC-
1 TTTGCTTGC-TGTT--TGC-TGCTACT
* *
1801113 -TTGCTTGCTGTTTGCTACT-GT
1 TTTGCTTGCTGTTTGCTGCTACT
*
1801134 TTTGCTTGCTGTGTTGCTGCT-GT
1 TTTGCTTGCTGT-TTGCTGCTACT
*
1801157 TTTGCTTGTTGTGTTGCT
1 TTTGCTTGCTGT-TTGCT
1801175 ATTCGTTCCC
Statistics
Matches: 113, Mismatches: 12, Indels: 24
0.76 0.08 0.16
Matches are distributed among these distances:
21 3 0.03
22 14 0.12
23 56 0.50
24 10 0.09
25 11 0.10
26 5 0.04
27 9 0.08
28 5 0.04
ACGTcount: A:0.03, C:0.18, G:0.24, T:0.54
Consensus pattern (23 bp):
TTTGCTTGCTGTTTGCTGCTACT
Found at i:1801054 original size:11 final size:11
Alignment explanation
Indices: 1801013--1801174 Score: 82
Period size: 11 Copynumber: 13.7 Consensus size: 11
1801003 TTTTTGTGTT
*
1801013 TGTTTGTTTGC
1 TGTTTGCTTGC
1801024 TGTTTGCTGTTGC
1 TGTTTGC--TTGC
1801037 T-TTTGCTTGC
1 TGTTTGCTTGC
1801047 TGTTTGC-TGC
1 TGTTTGCTTGC
* *
1801057 TACTTTTACTTGC
1 T--GTTTGCTTGC
1801070 TGTTTTTGTGCTTGC
1 TG---TT-TGCTTGC
*
1801085 TATCTTGC-TGC
1 TGT-TTGCTTGC
1801096 TTGTTCATGCTTGC
1 -TGTT--TGCTTGC
*
1801110 TGCTTGCTTGC
1 TGTTTGCTTGC
*
1801121 TGTTTGC-TAC
1 TGTTTGCTTGC
1801131 TGTTTTGCTTGC
1 TG-TTTGCTTGC
1801143 TGTGTTGC-TGC
1 TGT-TTGCTTGC
*
1801154 TGTTTTGCTTGT
1 TG-TTTGCTTGC
1801166 TGTGTTGCT
1 TGT-TTGCT
1801175 ATTCGTTCCC
Statistics
Matches: 118, Mismatches: 12, Indels: 41
0.69 0.07 0.24
Matches are distributed among these distances:
10 13 0.11
11 44 0.37
12 33 0.28
13 16 0.14
14 5 0.04
15 7 0.06
ACGTcount: A:0.03, C:0.18, G:0.25, T:0.54
Consensus pattern (11 bp):
TGTTTGCTTGC
Found at i:1801142 original size:26 final size:24
Alignment explanation
Indices: 1801110--1801175 Score: 91
Period size: 23 Copynumber: 2.8 Consensus size: 24
1801100 TCATGCTTGC
1801110 TGCTTGCTTGCTGTTTGCTACTGTTT
1 TGCTTGCTTG-TG-TTGCTACTGTTT
*
1801136 TGCTTGC-TGTGTTGCTGCTGTTT
1 TGCTTGCTTGTGTTGCTACTGTTT
1801159 TGCTTG-TTGTGTTGCTA
1 TGCTTGCTTGTGTTGCTA
1801176 TTCGTTCCCG
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
23 26 0.70
24 2 0.05
25 2 0.05
26 7 0.19
ACGTcount: A:0.03, C:0.17, G:0.27, T:0.53
Consensus pattern (24 bp):
TGCTTGCTTGTGTTGCTACTGTTT
Found at i:1801528 original size:25 final size:25
Alignment explanation
Indices: 1801467--1801541 Score: 78
Period size: 25 Copynumber: 3.0 Consensus size: 25
1801457 TCTTTTCTTT
* * *
1801467 TTTAGCTACTATCGTTACTTGCTTA
1 TTTAGCTACTGTCGTTGCTTGCTTC
* ** *
1801492 TTCAATTGCTGTCGTTGCTTGCTTC
1 TTTAGCTACTGTCGTTGCTTGCTTC
*
1801517 TTTAGCTACTGTCATTGCTTGCTTC
1 TTTAGCTACTGTCGTTGCTTGCTTC
1801542 AGGTGCTACT
Statistics
Matches: 38, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (25 bp):
TTTAGCTACTGTCGTTGCTTGCTTC
Found at i:1801711 original size:26 final size:26
Alignment explanation
Indices: 1801656--1801715 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
1801646 ACAGCTCCTA
* *
1801656 TTTTTTTCTTTTTTCCTTCCATTATC
1 TTTTTTTCTTTCTTCATTCCATTATC
* * *
1801682 -TTTTTTCTTTCTTCATTTCTTTTTC
1 TTTTTTTCTTTCTTCATTCCATTATC
1801707 TTTTTTTCT
1 TTTTTTTCT
1801716 CTCCATGTTC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
25 20 0.71
26 8 0.29
ACGTcount: A:0.05, C:0.20, G:0.00, T:0.75
Consensus pattern (26 bp):
TTTTTTTCTTTCTTCATTCCATTATC
Found at i:1801726 original size:25 final size:25
Alignment explanation
Indices: 1801680--1801727 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
1801670 CCTTCCATTA
* *
1801680 TCTTTTTTCTTTCTTCATTTCTTTT
1 TCTTTTTTCTCTCTCCATTTCTTTT
1801705 TCTTTTTT-TCTCTCCATGTTCTT
1 TCTTTTTTCTCTCTCCAT-TTCTT
1801728 ACATTTTCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.04, C:0.23, G:0.02, T:0.71
Consensus pattern (25 bp):
TCTTTTTTCTCTCTCCATTTCTTTT
Found at i:1801866 original size:17 final size:17
Alignment explanation
Indices: 1801846--1801882 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
1801836 TTTTTTTTTG
1801846 CTTCTTTTTTATCCTTT
1 CTTCTTTTTTATCCTTT
* *
1801863 CTTCTTTTTTTTCTTTT
1 CTTCTTTTTTATCCTTT
1801880 CTT
1 CTT
1801883 TCTCCCTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.03, C:0.22, G:0.00, T:0.76
Consensus pattern (17 bp):
CTTCTTTTTTATCCTTT
Found at i:1801890 original size:29 final size:29
Alignment explanation
Indices: 1801831--1801897 Score: 75
Period size: 28 Copynumber: 2.3 Consensus size: 29
1801821 TTCCCGATTG
*
1801831 TTTCTTTTTTTTTTGCTTCTTTTTTATCC
1 TTTCTTTTTTTTTTGCTTCTTCTTTATCC
*
1801860 TTTCTTCTTTTTTTT-CTT-TTCTTTCTCC
1 TTTCTT-TTTTTTTTGCTTCTTCTTTATCC
* *
1801888 CTTCTCTTTT
1 TTTCTTTTTT
1801898 CTCCTTCTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
27 4 0.12
28 12 0.36
29 9 0.27
30 8 0.24
ACGTcount: A:0.01, C:0.22, G:0.01, T:0.75
Consensus pattern (29 bp):
TTTCTTTTTTTTTTGCTTCTTCTTTATCC
Found at i:1804232 original size:21 final size:21
Alignment explanation
Indices: 1804208--1804249 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
1804198 ATAGAGAAAC
1804208 AAAGGATTCATGAAATGCTTG
1 AAAGGATTCATGAAATGCTTG
1804229 AAAGGATTCATGAAATGCTTG
1 AAAGGATTCATGAAATGCTTG
1804250 TTAAATCATC
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:0.38, C:0.10, G:0.24, T:0.29
Consensus pattern (21 bp):
AAAGGATTCATGAAATGCTTG
Found at i:1812176 original size:21 final size:21
Alignment explanation
Indices: 1812112--1812184 Score: 82
Period size: 20 Copynumber: 3.6 Consensus size: 21
1812102 TTCAACAATT
*
1812112 TGTATCGATAC--AATAGTAAA
1 TGTATCGATACATAATTG-AAA
1812132 TGTATCGATACATAATTG-AA
1 TGTATCGATACATAATTGAAA
*
1812152 TGTATCGATACAT-GTCTGAAA
1 TGTATCGATACATAAT-TGAAA
1812173 TGTATCGATACA
1 TGTATCGATACA
1812185 GGACCATCTT
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
19 1 0.02
20 28 0.60
21 14 0.30
22 4 0.09
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.33
Consensus pattern (21 bp):
TGTATCGATACATAATTGAAA
Found at i:1812242 original size:20 final size:20
Alignment explanation
Indices: 1812208--1812264 Score: 87
Period size: 20 Copynumber: 2.8 Consensus size: 20
1812198 TTTTGGTCGA
*
1812208 AAAATTGTATTGATACATTTC
1 AAAA-TGTATCGATACATTTC
1812229 AAAATGTATCGATACATTTC
1 AAAATGTATCGATACATTTC
*
1812249 AAAATGTATCAATACA
1 AAAATGTATCGATACA
1812265 ATTTGCTATG
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
20 30 0.88
21 4 0.12
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (20 bp):
AAAATGTATCGATACATTTC
Found at i:1823525 original size:20 final size:20
Alignment explanation
Indices: 1823502--1823547 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
1823492 AATTGTATCA
* *
1823502 ATACATAAGTGAATGTATTG
1 ATACATAACTCAATGTATTG
* *
1823522 ATACATCACTCATTGTATTG
1 ATACATAACTCAATGTATTG
1823542 ATACAT
1 ATACAT
1823548 TCTAGATTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (20 bp):
ATACATAACTCAATGTATTG
Found at i:1824463 original size:17 final size:17
Alignment explanation
Indices: 1824421--1824462 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
1824411 ATAGTTTTAG
*
1824421 GATTATTTTGATGTCTC
1 GATTGTTTTGATGTCTC
*
1824438 GATTGTTTTGATGTCTT
1 GATTGTTTTGATGTCTC
1824455 GA-TGTTTT
1 GATTGTTTT
1824463 TTGTGTGATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 6 0.26
17 17 0.74
ACGTcount: A:0.14, C:0.07, G:0.21, T:0.57
Consensus pattern (17 bp):
GATTGTTTTGATGTCTC
Found at i:1827504 original size:195 final size:193
Alignment explanation
Indices: 1827148--1827532 Score: 646
Period size: 195 Copynumber: 2.0 Consensus size: 193
1827138 GAGATCTATA
* * *
1827148 AAATCAAGCTCAAAATTAGTTACACTAGGAGTAAGGACTCTATCCCTCTCGTGATGCCCAGAAAT
1 AAATCAAGCTCAAAATTAGTTACACCAGGAGTAAGGACTCTATCCCTCTCATGATGCCCAAAAAT
* * *
1827213 CGGTACCAACTAATCATATGTTTTCAATTTTTTTTCTTGATTTCTATTATTCCATTATTCAACAA
66 CGGTACCAACTAATCACATGTTTTCAATTTTTTTTCTCGATTTCTATTATTCCAATATTCAACAA
1827278 TAATCCCCTTTATTCATAAAAACAAACATATATCAATGAAAAAGAG-AAACATGTATTTTCAG
131 TAATCCCCTTTATTCATAAAAACAAACATATATCAATGAAAAAGAGAAAACATGTATTTTCAG
* *
1827340 AAATCAAGCTCGAGAATTAGTTACACCAGGAGTAAGGACTCTATCTCTCTCATGATGCCCAAAAA
1 AAATCAAGCTC-AAAATTAGTTACACCAGGAGTAAGGACTCTATCCCTCTCATGATGCCCAAAAA
*
1827405 TTGGTACCAACTAATCACATGTTTTCAAATTTGTTTTTCTCGATTTCTATTATTCCAATATTCAA
65 TCGGTACCAACTAATCACATGTTTTC-AATTT-TTTTTCTCGATTTCTATTATTCCAATATTCAA
*
1827470 CAATAATCCCCTTTATTCATGAAAACAAACATATATCAATGAAAAAGAGAAAACATGTATTTT
128 CAATAATCCCCTTTATTCATAAAAACAAACATATATCAATGAAAAAGAGAAAACATGTATTTT
1827533 GAGACTTGTA
Statistics
Matches: 179, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
192 11 0.06
193 72 0.40
194 5 0.03
195 78 0.44
196 13 0.07
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (193 bp):
AAATCAAGCTCAAAATTAGTTACACCAGGAGTAAGGACTCTATCCCTCTCATGATGCCCAAAAAT
CGGTACCAACTAATCACATGTTTTCAATTTTTTTTCTCGATTTCTATTATTCCAATATTCAACAA
TAATCCCCTTTATTCATAAAAACAAACATATATCAATGAAAAAGAGAAAACATGTATTTTCAG
Found at i:1833140 original size:79 final size:79
Alignment explanation
Indices: 1833009--1833703 Score: 488
Period size: 79 Copynumber: 8.8 Consensus size: 79
1832999 ACAACGGGGC
* * * * *
1833009 TGGAGTATCCTCGATTATGAAAAATCGATGTTCTGGAAATAAAATTGGGGTTGGAGTATCCCCTC
1 TGGAGTATCCCCGATTATGAAAAATCGATGTTTTGAAAATAAAATCGAGGTTGGAGTATCCCCTC
*
1833074 AGAAATAACAGGGT
66 AAAAATAACAGGGT
* * *
1833088 TGGAGTATCCCTGATTAT-AGAAAATCGGTGTTTTGAAAATAAAATCAAGGTTGGAGTATCCCCT
1 TGGAGTATCCCCGATTATGA-AAAATCGATGTTTTGAAAATAAAATCGAGGTTGGAGTATCCCCT
*
1833152 CAAAAATAACAGGAT
65 CAAAAATAACAGGGT
* * *
1833167 TGGAGTGTCCCCGATTGTGAAAAATCGATGTTTTGAAAATAAAATCGAGGTTGGAGTATCCGCTC
1 TGGAGTATCCCCGATTATGAAAAATCGATGTTTTGAAAATAAAATCGAGGTTGGAGTATCCCCTC
*
1833232 AAAAATAACGGGGT
66 AAAAATAACAGGGT
* * **** * * *
1833246 TGGAGTATCCCCGATTGTGAAAAATCGATGCTTT-AGAAATAGGGCCGGGGTTTGAGTATCCCCA
1 TGGAGTATCCCCGATTATGAAAAATCGATGTTTTGA-AAATAAAATCGAGGTTGGAGTATCCCCT
* *
1833310 CGAAAATAACGGGGT
65 CAAAAATAACAGGGT
* * * * * ** *
1833325 TGGAGTATACCCGATTGTGAGAAATCAATATTTT-AGAAATAATGTCGAGGTTGGAGTATCCCTT
1 TGGAGTATCCCCGATTATGAAAAATCGATGTTTTGA-AAATAAAATCGAGGTTGGAGTATCCCCT
*
1833389 CGAAAATAAC-GGGAT
65 CAAAAATAACAGGG-T
* * * * ** ** * * **
1833404 TGGAGTATCCTCG---ATGAAATAA-CG-GGGTTGGAGTATCCCTGATTGTGAAAAATT-G-GTA
1 TGGAGTATCCCCGATTATGAAA-AATCGATGTTTTGAAAAT---AAAAT-CG--AGGTTGGAGTA
* ** *
1833462 T---TTTGAAAATAAAATCGGAGT
59 TCCCCTCAAAAATAACA--GG-GT
* * * * *
1833483 TGGAGTATCCCCGATTGTGAAAAATTGGTGTTTT-AGAAATAAAATTGGGGTTGGAGTATCCCCT
1 TGGAGTATCCCCGATTATGAAAAATCGATGTTTTGA-AAATAAAATCGAGGTTGGAGTATCCCCT
* **
1833547 CAGAAATAATGGGGT
65 CAAAAATAACAGGGT
* * * * **
1833562 TGGAGTATCCCCGATTGTGAAAAATTGGTATTTTGGGAATAAAATCGAGGTTGGAGTATCCCCTC
1 TGGAGTATCCCCGATTATGAAAAATCGATGTTTTGAAAATAAAATCGAGGTTGGAGTATCCCCTC
* *
1833627 AGAAATAAC-GAGAT
66 AAAAATAACAG-GGT
* * * *
1833641 TGGAGAATCCCTGATTATGAAAAATTGATGTTTTGAAAATAAAA-CTGGGGTTGGAGTATCCCC
1 TGGAGTATCCCCGATTATGAAAAATCGATGTTTTGAAAATAAAATC-GAGGTTGGAGTATCCCC
1833704 GAGATGAAAA
Statistics
Matches: 490, Mismatches: 96, Indels: 60
0.76 0.15 0.09
Matches are distributed among these distances:
75 4 0.01
76 16 0.03
77 4 0.01
78 9 0.02
79 426 0.87
80 7 0.01
81 5 0.01
82 14 0.03
83 5 0.01
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.28
Consensus pattern (79 bp):
TGGAGTATCCCCGATTATGAAAAATCGATGTTTTGAAAATAAAATCGAGGTTGGAGTATCCCCTC
AAAAATAACAGGGT
Found at i:1833210 original size:158 final size:159
Alignment explanation
Indices: 1833009--1833703 Score: 562
Period size: 158 Copynumber: 4.4 Consensus size: 159
1832999 ACAACGGGGC
* * * *
1833009 TGGAGTATCCTCGATTATGAAAAATCGATGTTCTGGAAATAAAATTGGGGTTGGAGTATCCCCTC
1 TGGAGTATCCCCGATTGTGAAAAATCGATGTTTTGAAAATAAAATTGGGGTTGGAGTATCCCCTC
* *
1833074 AGAAATAACAGGGTTGGAGTATCCCTGATTAT-AGAAAATCGGTGTTTTGA-AAATAAAATCAAG
66 AGAAATAACGGGGTTGGAGTATCCCCGATTATGA-AAAATCGGTGTTTTGAGAAATAAAATCAAG
1833137 GTTGGAGTATCCCCTCAAAAATAACAGGAT
130 GTTGGAGTATCCCCTCAAAAATAACAGGAT
* * * *
1833167 TGGAGTGTCCCCGATTGTGAAAAATCGATGTTTTGAAAATAAAATCGAGGTTGGAGTATCCGCTC
1 TGGAGTATCCCCGATTGTGAAAAATCGATGTTTTGAAAATAAAATTGGGGTTGGAGTATCCCCTC
* * * * **** **
1833232 AAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGCTTT-AGAAATAGGGCCGGGG
66 AGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATCGGTGTTTTGAGAAATAAAATCAAGG
* * * * *
1833296 TTTGAGTATCCCCACGAAAATAACGGGGT
131 TTGGAGTATCCCCTCAAAAATAACAGGAT
* * * * ** * * *
1833325 TGGAGTATACCCGATTGTGAGAAATCAATATTTT-AGAAATAATGTCGAGGTTGGAGTATCCCTT
1 TGGAGTATCCCCGATTGTGAAAAATCGATGTTTTGA-AAATAAAATTGGGGTTGGAGTATCCCCT
* * * * ** **
1833389 C-GAAAATAACGGGATTGGAGTATCCTCG---ATGAAATAA-CGG-GGTTGGAGTATCCCTGATT
65 CAG-AAATAACGGGGTTGGAGTATCCCCGATTATGAAA-AATCGGTGTTTTGAG-A--AAT-AAA
* * ** * ** *
1833448 GTGAAAAATT-G-GTAT---TTTGAAAATAAAATCGGAGT
124 AT-CAAGGTTGGAGTATCCCCTCAAAAATAACA--GGA-T
* *
1833483 TGGAGTATCCCCGATTGTGAAAAATTGGTGTTTT-AGAAATAAAATTGGGGTTGGAGTATCCCCT
1 TGGAGTATCCCCGATTGTGAAAAATCGATGTTTTGA-AAATAAAATTGGGGTTGGAGTATCCCCT
* * * * * *
1833547 CAGAAATAATGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTG-GGAATAAAATCGAG
65 CAGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATCGGTGTTTTGAGAAATAAAATCAAG
*
1833611 GTTGGAGTATCCCCTCAGAAATAAC-GAGAT
130 GTTGGAGTATCCCCTCAAAAATAACAG-GAT
* * * * *
1833641 TGGAGAATCCCTGATTATGAAAAATTGATGTTTTGAAAATAAAACTGGGGTTGGAGTATCCCC
1 TGGAGTATCCCCGATTGTGAAAAATCGATGTTTTGAAAATAAAATTGGGGTTGGAGTATCCCC
1833704 GAGATGAAAA
Statistics
Matches: 414, Mismatches: 96, Indels: 54
0.73 0.17 0.10
Matches are distributed among these distances:
154 3 0.01
155 17 0.04
156 6 0.01
157 7 0.02
158 351 0.85
159 8 0.02
160 4 0.01
161 15 0.04
162 3 0.01
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.28
Consensus pattern (159 bp):
TGGAGTATCCCCGATTGTGAAAAATCGATGTTTTGAAAATAAAATTGGGGTTGGAGTATCCCCTC
AGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATCGGTGTTTTGAGAAATAAAATCAAGG
TTGGAGTATCCCCTCAAAAATAACAGGAT
Found at i:1833408 original size:28 final size:29
Alignment explanation
Indices: 1833375--1833443 Score: 99
Period size: 28 Copynumber: 2.4 Consensus size: 29
1833365 AATGTCGAGG
1833375 TTGGAGTATCCCTTCGA-AAATAACGGGA
1 TTGGAGTATCCCTTCGAGAAATAACGGGA
*
1833403 TTGGAGTAT-CC-TCGATGAAATAACGGGG
1 TTGGAGTATCCCTTCGA-GAAATAACGGGA
1833431 TTGGAGTATCCCT
1 TTGGAGTATCCCT
1833444 GATTGTGAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
26 4 0.11
27 2 0.06
28 28 0.78
29 2 0.06
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (29 bp):
TTGGAGTATCCCTTCGAGAAATAACGGGA
Found at i:1833499 original size:51 final size:51
Alignment explanation
Indices: 1833430--1833545 Score: 180
Period size: 51 Copynumber: 2.3 Consensus size: 51
1833420 AAATAACGGG
*
1833430 GTTGGAGTATCCCTGATTGTGAAAAATTGGTATTTT-GAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTAG-AAATAAAATCGGA
* * *
1833481 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAATTGGG
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAATAAAATCGGA
1833532 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
1833546 TCAGAAATAA
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
51 59 0.98
52 1 0.02
ACGTcount: A:0.31, C:0.10, G:0.26, T:0.33
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAATAAAATCGGA
Found at i:1836887 original size:48 final size:47
Alignment explanation
Indices: 1836812--1836905 Score: 143
Period size: 48 Copynumber: 2.0 Consensus size: 47
1836802 CCACCAACTT
* *
1836812 GTGTGGGTTTAAAAAGAAAAGGTGTCCTACTCTTTGAGGACTGAAAA
1 GTGTGGGTTTAAAAAGAAAAGGCGTCCTACTCCTTGAGGACTGAAAA
* *
1836859 GTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCCTTGAGGACTGAAA
1 GTGTGGG-TTTAAAAAGAAAAGGCGTCCTACTCCTTGAGGACTGAAA
1836906 TGTGCCACCA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 7 0.17
48 35 0.83
ACGTcount: A:0.31, C:0.14, G:0.30, T:0.26
Consensus pattern (47 bp):
GTGTGGGTTTAAAAAGAAAAGGCGTCCTACTCCTTGAGGACTGAAAA
Found at i:1836958 original size:61 final size:61
Alignment explanation
Indices: 1836859--1837648 Score: 1003
Period size: 62 Copynumber: 12.8 Consensus size: 61
1836849 GGACTGAAAA
*
1836859 GTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCCTTGAGGACTGAAATGTGCCACCAACTT
1 GTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCCTTGAGGACTGAAAAGTGCCACCAACTT
* * * *
1836920 ATGTGGGCTTTAAAAGGAAAAGGTGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAAAC-T
1 GTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCCTTGAGGACTGAAAAGTGCCACC-AACTT
*
1836981 GTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTTCTTGAGGACTGAAAAGTGCCACCAACTT
1 GTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCCTTGAGGACTGAAAAGTGCCACCAACTT
* * * *
1837042 GTGTGTGCTTTAAAAGGAAAAGGCATCCTACTCCTTGAGGACCGAAAAGTGCCACCAACTT
1 GTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCCTTGAGGACTGAAAAGTGCCACCAACTT
* * * * * * *
1837103 GTGTGGGCTTTAAGAGAAAAAAAGCATCCTACTCCTCGAGGACTG-AAGGTGCCACCAACTT
1 GTGTGGGCTTTAAAAG-GAAAAGGCGTCCTGCTCCTTGAGGACTGAAAAGTGCCACCAACTT
* * * * * *
1837164 GTGTGGGTTTTAAAAGGAAAAGGTGTCTTGCTCTTTGAAGACTAGAAAAGTGCCACCGACTT
1 GTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCCTTGAGGACT-GAAAAGTGCCACCAACTT
* * * * *
1837226 ATGTGGGCATTAAAAGGAAAAGGCATCCTGCTCCTTGAGGACCAGAAAAATGCCACCAACTT
1 GTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCCTTGAGGA-CTGAAAAGTGCCACCAACTT
* * * * *
1837288 GTGTGGGCTTTAAAAGGAAAATGCATCCTACTCTTTGAGGACT-AGAAGGTGCCACCAACTT
1 GTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCCTTGAGGACTGA-AAAGTGCCACCAACTT
* *** *
1837349 GTGTGGGCTTTAAAAGAATAAAAAAGTAACCTGCTCCTTGAGGACTG-AAGGTGCCACCAACTT
1 GTGTGGGCTTTAAAAGGA-AAAGGCGT--CCTGCTCCTTGAGGACTGAAAAGTGCCACCAACTT
* * *
1837412 GTGTGGGCTTTAAAAGGAAAAGGCGTCTTGCTCTTTGAAGACTAGAAAAGTGCCACCAACTT
1 GTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCCTTGAGGACT-GAAAAGTGCCACCAACTT
* * * *
1837474 GTGTGGGCTTTAAAAAGAAAAGACGTCCTGCTCCTTAAGGACCAGAAAAGTGCCACCAACTT
1 GTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCCTTGAGGA-CTGAAAAGTGCCACCAACTT
* * *
1837536 GTGTGGGCTTTAAAAGGAAAAGGCATCCTCCTCCTTGAGGACTAGAAAAGTGCCATCAACTT
1 GTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCCTTGAGGACT-GAAAAGTGCCACCAACTT
* *
1837598 GTGTGGGCTTTAAAAGGAAAAGGTGTCCTGCTCTTTGAGGACTGAAAAGTG
1 GTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCCTTGAGGACTGAAAAGTG
1837649 AAAGGAGAAA
Statistics
Matches: 627, Mismatches: 87, Indels: 30
0.84 0.12 0.04
Matches are distributed among these distances:
60 36 0.06
61 246 0.39
62 295 0.47
63 35 0.06
64 15 0.02
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (61 bp):
GTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCCTTGAGGACTGAAAAGTGCCACCAACTT
Done.