Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168027.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_280, whole genome shotgun sequence
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: 39219
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Found at i:834 original size:26 final size:26
Alignment explanation
Indices: 784--836 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
774 GTTGGCTTAG
*
784 GCATACAGAGTTCATTCCATGTCTAA
1 GCATACAGAGTTCATTCCATATCTAA
*
810 GCATACGGAGTTCATTCCCA-ATCTAA
1 GCATACAGAGTTCATT-CCATATCTAA
836 G
1 G
837 ATCGGACCAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 21 0.88
27 3 0.12
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (26 bp):
GCATACAGAGTTCATTCCATATCTAA
Found at i:998 original size:26 final size:26
Alignment explanation
Indices: 968--1020 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
958 GTTGGCTTAG
*
968 GCATATGAAGTTCATT-CCATGTCTAA
1 GCATACGAAGTTCATTCCCA-GTCTAA
*
994 GCATACGGAGTTCATTCCCAGTCTAA
1 GCATACGAAGTTCATTCCCAGTCTAA
1020 G
1 G
1021 AGTTTGAGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 21 0.88
27 3 0.12
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (26 bp):
GCATACGAAGTTCATTCCCAGTCTAA
Found at i:1472 original size:159 final size:158
Alignment explanation
Indices: 1151--1493 Score: 377
Period size: 159 Copynumber: 2.2 Consensus size: 158
1141 CCCAGTCTAA
*** *
1151 GCATACGGAGTTCATTCCCA-GTCTAA-GATCAGATCGGACCGAGGGTTGTGGTAGCAGGATCAG
1 GCATACGGAGTTCATT-CCATGTCTAATCCCCAG-CCGGACCGAGGGTTGTGGTAGCAGGATCAG
* * * * * *
1214 CAGCACGTAAGTGGGATCGGGCCGATCCCCGACTTGCGTATTCTTCCTTTCCGACCGGCTGAGTG
64 CAGCACGCAAGGGGGATCGGGCCGATCCCCGACTTGCGCATTCTACCTCTCCGACCGGCTGAGCG
* *
1279 CCCGCACGCCCGTTTCGTGGGTTAGCTTAG
129 CCCGCACACCCATTTCGTGGGTTAGCTTAG
* * * *
1309 GCATAGGGAGTTCATTGCATGTCTAATCCCCAGCCGGACCGAGGGTTGTGGTAGCGGGA-CTGAC
1 GCATACGGAGTTCATTCCATGTCTAATCCCCAGCCGGACCGAGGGTTGTGGTAGCAGGATCAG-C
* * * * * * *
1373 AGCACGCAGAGGGGGATTGGGTCGATCCTCGGCTTGCGCATTCTACCTCTCTGGCCGGTTGAGCG
65 AGCACGCA-AGGGGGATCGGGCCGATCCCCGACTTGCGCATTCTACCTCTCCGACCGGCTGAGCG
** * * *
1438 CTTGTACACTCATTTCGTGGGTTGGCTTAG
129 CCCGCACACCCATTTCGTGGGTTAGCTTAG
1468 GCATACGGAGTTCATTCCATGTCTAA
1 GCATACGGAGTTCATTCCATGTCTAA
1494 GCATACAGAG
Statistics
Matches: 151, Mismatches: 30, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
157 4 0.03
158 53 0.35
159 94 0.62
ACGTcount: A:0.18, C:0.26, G:0.31, T:0.25
Consensus pattern (158 bp):
GCATACGGAGTTCATTCCATGTCTAATCCCCAGCCGGACCGAGGGTTGTGGTAGCAGGATCAGCA
GCACGCAAGGGGGATCGGGCCGATCCCCGACTTGCGCATTCTACCTCTCCGACCGGCTGAGCGCC
CGCACACCCATTTCGTGGGTTAGCTTAG
Found at i:1504 original size:26 final size:26
Alignment explanation
Indices: 1468--1520 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
1458 GTTGGCTTAG
*
1468 GCATACGGAGTTCATT-CCATGTCTAA
1 GCATACAGAGTTCATTCCCA-GTCTAA
1494 GCATACAGAGTTCATTCCCAGTCTAA
1 GCATACAGAGTTCATTCCCAGTCTAA
1520 G
1 G
1521 AGTTTGAGCC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 22 0.88
27 3 0.12
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (26 bp):
GCATACAGAGTTCATTCCCAGTCTAA
Found at i:2584 original size:26 final size:26
Alignment explanation
Indices: 2555--2607 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
2545 GTTGGCTTAG
*
2555 GCATACGAAGTTCATT-CCATGTCTAA
1 GCATACGAAGTACATTCCCA-GTCTAA
*
2581 GCATACGGAGTACATTCCCAGTCTAA
1 GCATACGAAGTACATTCCCAGTCTAA
2607 G
1 G
2608 ATTTTGAGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 21 0.88
27 3 0.12
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (26 bp):
GCATACGAAGTACATTCCCAGTCTAA
Found at i:3647 original size:159 final size:160
Alignment explanation
Indices: 3343--3778 Score: 420
Period size: 159 Copynumber: 2.8 Consensus size: 160
3333 GGATCGATAG
* * * *
3343 CACACAG-GGGAGACCGGGTCGATCCCCGGCTTACGCATTATACCTC-TCTGGTCGACTGAGT-G
1 CACACAGAGGGGGACCGGGTCGATCCCCGGCTTACACATTATGCCTCTTC-GGTCGGCTGA-TCG
* * * * * *
3405 CCCGCACGCCCATTTTGTGGGTTGGCTTAGGCATAGGGAGTTCATT-AAATGTCTAAGCCCCAAT
64 CCCGCACGCTCATTTCGTGGGTTGGTTTAGGCATACGGAGTTCATTCCAATGTCTAAGCACCAAT
** * *
3469 CAGACCGAGGGATGTGGTAGCGGGACCGGCAA
129 CAGACCGAGGGATACGGTAGCAGGACCGACAA
** * *
3501 CATGCAGAGGGGGATCGGGTCGATCCCCGGCTTACACATTATGCCTCTTCGGTCGGCTCATCGCC
1 CACACAGAGGGGGACCGGGTCGATCCCCGGCTTACACATTATGCCTCTTCGGTCGGCTGATCGCC
* * * *
3566 CGCACTCTCATTTCGTGGGTTGATTTAGGCATACGGAGTTCATTCCTA-GTCTAAG-ATCAGATC
66 CGCACGCTCATTTCGTGGGTTGGTTTAGGCATACGGAGTTCATTCCAATGTCTAAGCACCA-ATC
* * * ** *
3629 GGACCGAGGGTTACGGTAGTAGGATTGACAG
130 AGACCGAGGGATACGGTAGCAGGACCGACAA
* * * * * * * * *
3660 CACACAG-GGGGGACCGGGCCAATCCCTGGCTTGCACATTCTGCCTCTCCGGCCGGCTGAGCGCT
1 CACACAGAGGGGGACCGGGTCGATCCCCGGCTTACACATTATGCCTCTTCGGTCGGCTGATCGCC
* * * *
3724 CGTACGGTCATTTCGTGGGTTGGTTTAGGCATACAGAGTTCATTCC-ATGTTTAAG
66 CGCACGCTCATTTCGTGGGTTGGTTTAGGCATACGGAGTTCATTCCAATGTCTAAG
3779 AATGCAGAGT
Statistics
Matches: 225, Mismatches: 47, Indels: 12
0.79 0.17 0.04
Matches are distributed among these distances:
157 1 0.00
158 101 0.45
159 120 0.53
160 3 0.01
ACGTcount: A:0.20, C:0.26, G:0.30, T:0.25
Consensus pattern (160 bp):
CACACAGAGGGGGACCGGGTCGATCCCCGGCTTACACATTATGCCTCTTCGGTCGGCTGATCGCC
CGCACGCTCATTTCGTGGGTTGGTTTAGGCATACGGAGTTCATTCCAATGTCTAAGCACCAATCA
GACCGAGGGATACGGTAGCAGGACCGACAA
Found at i:3744 original size:158 final size:158
Alignment explanation
Indices: 3203--3779 Score: 505
Period size: 158 Copynumber: 3.6 Consensus size: 158
3193 TACCATCCAT
* *** * * * * * *
3203 TCGATCCCCGGCTTGCACAACCTGCCTTTCTGGTCGACTGAGCACACGCACGCTC-GTTCAGTGG
1 TCGATCCCCGGCTTACACATTATGCCTCTCCGGTCGGCTGAGCGCCCGCACGCTCATTTC-GTGG
* * * * * * *
3267 GTTGACTTAGGCATACGAAGTTCATCCCCAGTTTAAGAT-TGAACTAGACCGAGGGTTGCGGCAG
65 GTTGACTTAGGCATACGGAGTTCATTCCAAGTCTAAGATCAGATC-AGACCGAGGGTTGCGGTAG
* *
3331 TAGGATCGATAGCACACAGGGGAGACCGGG
129 TAGGATCGACAGCACACAGGGGGGACCGGG
* * * * * * *
3361 TCGATCCCCGGCTTACGCATTATACCTCTCTGGTCGACTGAGTGCCCGCACGCCCATTTTGTGGG
1 TCGATCCCCGGCTTACACATTATGCCTCTCCGGTCGGCTGAGCGCCCGCACGCTCATTTCGTGGG
* * * ** * *
3426 TTGGCTTAGGCATAGGGAGTTCATT-AAATGTCTAAGCCCCA-ATCAGACCGAGGGATGTGGTAG
66 TTGACTTAGGCATACGGAGTTCATTCCAA-GTCTAAG-ATCAGATCAGACCGAGGGTTGCGGTAG
** * * * ** *
3489 CGGGACCGGCAACATGCAGAGGGGGATCGGG
129 TAGGATCGACAGCACACAG-GGGGGACCGGG
* * * *
3520 TCGATCCCCGGCTTACACATTATGCCTCTTCGGTCGGCTCATCGCCCGCACTCTCATTTCGTGGG
1 TCGATCCCCGGCTTACACATTATGCCTCTCCGGTCGGCTGAGCGCCCGCACGCTCATTTCGTGGG
* * * *
3585 TTGATTTAGGCATACGGAGTTCATTCCTAGTCTAAGATCAGATCGGACCGAGGGTTACGGTAGTA
66 TTGACTTAGGCATACGGAGTTCATTCCAAGTCTAAGATCAGATCAGACCGAGGGTTGCGGTAGTA
*
3650 GGATTGACAGCACACAGGGGGGACCGGG
131 GGATCGACAGCACACAGGGGGGACCGGG
* * * * * * * * *
3678 CCAATCCCTGGCTTGCACATTCTGCCTCTCCGGCCGGCTGAGCGCTCGTACGGTCATTTCGTGGG
1 TCGATCCCCGGCTTACACATTATGCCTCTCCGGTCGGCTGAGCGCCCGCACGCTCATTTCGTGGG
** * * *
3743 TTGGTTTAGGCATACAGAGTTCATTCCATGTTTAAGA
66 TTGACTTAGGCATACGGAGTTCATTCCAAGTCTAAGA
3780 ATGCAGAGTT
Statistics
Matches: 326, Mismatches: 86, Indels: 14
0.77 0.20 0.03
Matches are distributed among these distances:
157 1 0.00
158 199 0.61
159 125 0.38
160 1 0.00
ACGTcount: A:0.20, C:0.26, G:0.29, T:0.24
Consensus pattern (158 bp):
TCGATCCCCGGCTTACACATTATGCCTCTCCGGTCGGCTGAGCGCCCGCACGCTCATTTCGTGGG
TTGACTTAGGCATACGGAGTTCATTCCAAGTCTAAGATCAGATCAGACCGAGGGTTGCGGTAGTA
GGATCGACAGCACACAGGGGGGACCGGG
Found at i:4169 original size:26 final size:26
Alignment explanation
Indices: 4133--4185 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
4123 GTTGACTTAG
*
4133 GCATACGGAGTTCATCCCCAGTCTAA
1 GCATACAGAGTTCATCCCCAGTCTAA
*
4159 GCATACAGAGTTCATTCCCAGTCTAA
1 GCATACAGAGTTCATCCCCAGTCTAA
4185 G
1 G
4186 ATCATATCGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (26 bp):
GCATACAGAGTTCATCCCCAGTCTAA
Found at i:4506 original size:26 final size:26
Alignment explanation
Indices: 4476--4526 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
4466 GTTGGCTTAG
*
4476 GCATACGGAGTTCATCCCCAGTCTAA
1 GCATACAGAGTTCATCCCCAGTCTAA
*
4502 GCATACAGAGTTCATTCCCAGTCTA
1 GCATACAGAGTTCATCCCCAGTCTA
4527 TGATCGGACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.25
Consensus pattern (26 bp):
GCATACAGAGTTCATCCCCAGTCTAA
Found at i:5348 original size:26 final size:26
Alignment explanation
Indices: 5312--5362 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
5302 GTTGACTTAG
*
5312 GCATAGGGAGTTCATCCCCAGTCTAA
1 GCATACGGAGTTCATCCCCAGTCTAA
*
5338 GCATACGGAGTTCATTCCCAGTCTA
1 GCATACGGAGTTCATCCCCAGTCTA
5363 GGATCAGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (26 bp):
GCATACGGAGTTCATCCCCAGTCTAA
Found at i:5633 original size:159 final size:160
Alignment explanation
Indices: 5338--5843 Score: 405
Period size: 159 Copynumber: 3.2 Consensus size: 160
5328 CCCAGTCTAA
* *** * * * * * *
5338 GCATACGGAGTTCATTCCCA-GTCT-AGGATCAGAATGGATCGAGGGTTGCGGCAGCAGGATCGA
1 GCATACGGAGTTCATT-CCATGTCTAAGCATCAGACCAGACCGACGATTGCAGTAGCAGGACCGA
* * * * ** * * ** * * *
5401 TAGCACGCAGGGGGGA-CCGGGCCGATCTACGACTTGAGCATTCTGCCTCTCCGGCAGGCTGAGC
65 CAGCACGTAGGGGGCAGCCGGGCTGATCCCCGGCTTGCGCATTCAACCTCTCTGACCGGCTGAGC
* *
5465 GCCCGCACGCCCATTTCGTGGGTTGGCTTAG
130 GCCCGCACGCTCATTTCATGGGTTGGCTTAG
* * *** ** * *
5496 GCATAGGGAGTTCATTCCATGTCTAAGCCTCAG-TTTGACCGACGATTGTGGTAGCGGGACCGGC
1 GCATACGGAGTTCATTCCATGTCTAAGCATCAGACCAGACCGACGATTGCAGTAGCAGGACCGAC
* * ** *
5560 AGCACGTAGAGGGGGA-CCGGGTTGATCCTTGGCTTGCGCATT-AAGCCTCTCTGACCGGCTCAG
66 AGCACGTAG-GGGGCAGCCGGGCTGATCCCCGGCTTGCGCATTCAA-CCTCTCTGACCGGCTGAG
* *
5623 CGCCCGCACGCTCGTTTCATGGGTTGACTTAG
129 CGCCCGCACGCTCATTTCATGGGTTGGCTTAG
* * *** * * * *
5655 GCGTACAGAGTTCATTCCCCATCTAAG-ATCGGACCAGACCGAGGGTTGCAGTAGCAGGATCGAC
1 GCATACGGAGTTCATTCCATGTCTAAGCATCAGACCAGACCGACGATTGCAGTAGCAGGACCGAC
* * * * *
5719 AGCACGTAGGGGGCAGTCGGGCTGATCCCCGGCTTGCGCATTCTATCTCTCTGATCGGCTGAGTG
66 AGCACGTAGGGGGCAGCCGGGCTGATCCCCGGCTTGCGCATTCAACCTCTCTGACCGGCTGAGCG
* * *
5784 CTCGCATGCTAATTTCATGGGTTGGCTTAG
131 CCCGCACGCTCATTTCATGGGTTGGCTTAG
*
5814 GCATATGGAGTTCATTCCATGTCTAAGCAT
1 GCATACGGAGTTCATTCCATGTCTAAGCAT
5844 ACGGAGTTCA
Statistics
Matches: 269, Mismatches: 71, Indels: 14
0.76 0.20 0.04
Matches are distributed among these distances:
157 3 0.01
158 55 0.20
159 208 0.77
160 3 0.01
ACGTcount: A:0.19, C:0.26, G:0.31, T:0.24
Consensus pattern (160 bp):
GCATACGGAGTTCATTCCATGTCTAAGCATCAGACCAGACCGACGATTGCAGTAGCAGGACCGAC
AGCACGTAGGGGGCAGCCGGGCTGATCCCCGGCTTGCGCATTCAACCTCTCTGACCGGCTGAGCG
CCCGCACGCTCATTTCATGGGTTGGCTTAG
Found at i:5844 original size:26 final size:26
Alignment explanation
Indices: 5814--5866 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
5804 GTTGGCTTAG
*
5814 GCATATGGAGTTCATT-CCATGTCTAA
1 GCATACGGAGTTCATTCCCA-GTCTAA
5840 GCATACGGAGTTCATTCCCAGTCTAA
1 GCATACGGAGTTCATTCCCAGTCTAA
5866 G
1 G
5867 ATTTTAAGCC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 22 0.88
27 3 0.12
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (26 bp):
GCATACGGAGTTCATTCCCAGTCTAA
Found at i:5957 original size:11 final size:11
Alignment explanation
Indices: 5936--5992 Score: 60
Period size: 11 Copynumber: 5.2 Consensus size: 11
5926 CCCAGGGCAC
*
5936 CATCATCGGAG
1 CATCGTCGGAG
*
5947 CATTGTCGGAG
1 CATCGTCGGAG
5958 CATCGTCGGAG
1 CATCGTCGGAG
** *
5969 CATTTTCAGAG
1 CATCGTCGGAG
*
5980 CATCGTCGAAG
1 CATCGTCGGAG
5991 CA
1 CA
5993 CCACCGGAGA
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
11 36 1.00
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.23
Consensus pattern (11 bp):
CATCGTCGGAG
Found at i:5966 original size:22 final size:22
Alignment explanation
Indices: 5936--5992 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
5926 CCCAGGGCAC
* *
5936 CATCATCGGAGCATTGTCGGAG
1 CATCGTCGGAGCATTGTCAGAG
*
5958 CATCGTCGGAGCATTTTCAGAG
1 CATCGTCGGAGCATTGTCAGAG
*
5980 CATCGTCGAAGCA
1 CATCGTCGGAGCA
5993 CCACCGGAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.23
Consensus pattern (22 bp):
CATCGTCGGAGCATTGTCAGAG
Found at i:6471 original size:26 final size:26
Alignment explanation
Indices: 6435--6487 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
6425 GTTGACTTAG
6435 GCATACGGAGTTCATCCCCAGTCTAA
1 GCATACGGAGTTCATCCCCAGTCTAA
*
6461 GCATACGGAGTTCATTCCCAGTCTAA
1 GCATACGGAGTTCATCCCCAGTCTAA
6487 G
1 G
6488 ATCGGACCAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (26 bp):
GCATACGGAGTTCATCCCCAGTCTAA
Found at i:6827 original size:26 final size:26
Alignment explanation
Indices: 6791--6841 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
6781 TGACTTAGAC
*
6791 ATACAGAGTTCA-TCCACAGTCTAAGG
1 ATACAAAGTTCATTCC-CAGTCTAAGG
6817 ATACAAAGTTCATTCCCAGTCTAAG
1 ATACAAAGTTCATTCCCAGTCTAAG
6842 ATCAGACCAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 20 0.87
27 3 0.13
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.25
Consensus pattern (26 bp):
ATACAAAGTTCATTCCCAGTCTAAGG
Found at i:7384 original size:26 final size:26
Alignment explanation
Indices: 7355--7407 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
7345 GTTGACTTAG
7355 GCATACGGAGTTCA-TCCTCAGTCTAA
1 GCATACGGAGTTCATTCC-CAGTCTAA
*
7381 GCATATGGAGTTCATTCCCAGTCTAA
1 GCATACGGAGTTCATTCCCAGTCTAA
7407 G
1 G
7408 ATCAGATCGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 22 0.88
27 3 0.12
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (26 bp):
GCATACGGAGTTCATTCCCAGTCTAA
Found at i:7783 original size:159 final size:158
Alignment explanation
Indices: 7381--7883 Score: 431
Period size: 159 Copynumber: 3.2 Consensus size: 158
7371 CTCAGTCTAA
* * * *
7381 GCATATGGAGTTCATTCCCAGTCTAAGATCAGATCGAACCGAGGGTTGCGACAGCAGGATCGACA
1 GCATACGGAGTTCATTCCCAGTCTAAGATCAGACCGAACCGAGGGTTACGATAGCAGGATCGACA
* * * * * * * * * *
7446 GCACGTAAGAGGGATCGGGTCGATCCTCGACTTGCGCATTCTGCCTCTCTGATCGGTTGAGCACC
66 GCACGTAGGGGGGATCGGGTCGATCCCCGGCTTACGCAATATGCCTCTCCGATCGGCTCAGCACC
*
7511 CGCACGCCCGTTTCATGGGTTGGCTTAG
131 CGCACGCCCGTTTCATGGGTTGACTTAG
* * * ** * *
7539 GCATAGGGAGTTCATT-CCATGTCTAAGACCCAG-CCGAACCGAAGGTTGTGGCTA-CGGGA-CT
1 GCATACGGAGTTCATTCCCA-GTCTAAGA-TCAGACCGAACCGAGGGTT-ACGATAGCAGGATC-
** * * *
7600 GGTAGCACGCAGAGGGGGACCGGGTCGATCCCCGGCTTACGCAATATGCCTCTCCGGTCGGCTCA
62 GACAGCACGTAG-GGGGGATCGGGTCGATCCCCGGCTTACGCAATATGCCTCTCCGATCGGCTCA
** * * *
7665 GCACTTGCACGCTCTTTTCGTGGGTTGACTTAG
126 GCACCCGCACGCCCGTTTCATGGGTTGACTTAG
* * * *
7698 GCTTACGGAGTTCATTCCCAGCCTAAGATCAGACCGGACAGAGGGTTACGATAGCAGGATCGACA
1 GCATACGGAGTTCATTCCCAGTCTAAGATCAGACCGAACCGAGGGTTACGATAGCAGGATCGACA
* * * * * * * * * * **
7763 GCATGTAGGTGGGGATCGGGTTGATCCCCGGCTTGCCCATTCTACCTCTTCGGTCGGCTGAGTGC
66 GCACGTAGG-GGGGATCGGGTCGATCCCCGGCTTACGCAATATGCCTCTCCGATCGGCTCAGCAC
** * *
7828 CCGCACGCTTGTTTAATGGGTTGGCTTAG
130 CCGCACGCCCGTTTCATGGGTTGACTTAG
*
7857 GCATACAGAGTTCATT-CCATGTCTAAG
1 GCATACGGAGTTCATTCCCA-GTCTAAG
7884 CATACGTAGT
Statistics
Matches: 268, Mismatches: 66, Indels: 21
0.75 0.19 0.06
Matches are distributed among these distances:
157 4 0.01
158 57 0.21
159 203 0.76
160 4 0.01
ACGTcount: A:0.20, C:0.26, G:0.30, T:0.24
Consensus pattern (158 bp):
GCATACGGAGTTCATTCCCAGTCTAAGATCAGACCGAACCGAGGGTTACGATAGCAGGATCGACA
GCACGTAGGGGGGATCGGGTCGATCCCCGGCTTACGCAATATGCCTCTCCGATCGGCTCAGCACC
CGCACGCCCGTTTCATGGGTTGACTTAG
Found at i:7894 original size:26 final size:26
Alignment explanation
Indices: 7857--7909 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 26
7847 GTTGGCTTAG
7857 GCATACAGAGTTCATT-CCATGTCTAA
1 GCATACAGAGTTCATTCCCA-GTCTAA
7883 GCATAC-GTAGTTCATTCCCAGTCTAA
1 GCATACAG-AGTTCATTCCCAGTCTAA
7909 G
1 G
7910 ATCGGACTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 1 0.04
26 21 0.84
27 3 0.12
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (26 bp):
GCATACAGAGTTCATTCCCAGTCTAA
Found at i:8237 original size:159 final size:158
Alignment explanation
Indices: 7947--8238 Score: 354
Period size: 159 Copynumber: 1.8 Consensus size: 158
7937 CAGGACCAAT
* * * * * *
7947 AGCAGGATCGGCCGCACGCAGGGGGGATTAGGCTGATCCTCGGTTTGTGCATTTTACCTTTTCGG
1 AGCAGGATCGGCAGCACGCAGGGGGGATCAGGCCGATCCTCGGCTTGTGCATTATACCTCTTCGG
* * * * * * * *
8012 TCGGCTGAGCGCCCGCACGCCCGTTTCGTGGGTTGGCTTAAGCATAGGGAGTTCATTCCATGTCT
66 CCAGCTGAGCGCCCGCACGCCCATTCCGTGGGTTGACTTAAGCACACGGAGTTCATTCCATATCT
8077 AAGCCCCAGTCAGACCAAGGGTTGTGGC
131 AAGCCCCAGTCAGACCAAGGGTTGTGGC
* * *
8105 AGCAGGATCGGTAGCACGCAGAGGGGGATCGGGCCGATACC-CGGCTTGTGCATTATGCCTCTTC
1 AGCAGGATCGGCAGCACGCAG-GGGGGATCAGGCCGAT-CCTCGGCTTGTGCATTATACCTCTTC
* * * *
8169 GGCCAGCTTAGTGCCCGCACGCTCATTCCGTGGGTTGACTTAGGCACACGGAGTTCATTCTCA-A
64 GGCCAGCTGAGCGCCCGCACGCCCATTCCGTGGGTTGACTTAAGCACACGGAGTTCATTC-CATA
8233 TCTAAG
128 TCTAAG
8239 ATTGGATCGG
Statistics
Matches: 110, Mismatches: 21, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
158 19 0.17
159 87 0.79
160 4 0.04
ACGTcount: A:0.18, C:0.27, G:0.31, T:0.24
Consensus pattern (158 bp):
AGCAGGATCGGCAGCACGCAGGGGGGATCAGGCCGATCCTCGGCTTGTGCATTATACCTCTTCGG
CCAGCTGAGCGCCCGCACGCCCATTCCGTGGGTTGACTTAAGCACACGGAGTTCATTCCATATCT
AAGCCCCAGTCAGACCAAGGGTTGTGGC
Found at i:8487 original size:514 final size:514
Alignment explanation
Indices: 7325--8594 Score: 1289
Period size: 514 Copynumber: 2.5 Consensus size: 514
7315 CAGCTGAGCA
* * * * * * * * *
7325 CCCGTACGCTCGTTTTATGGGTTGACTTAGGCATACGGAGTTCATCCTCA-GTCTAAGCATATGG
1 CCCGCACGCTTGTTTAATGAGTTGGCTTAGGCATACAGAGTTCATTC-CATGTCTAAGCATACGT
* *
7389 AGTTCATTCCCAGTCTAAGATCAGATC-GAACCGAGGGTT------GC--GA-C---AGCAGGAT
65 AGTTCATTCCCAGTCTAAGATCGGACCAGAA-CGAGGGTTACGACAGCAGGACCAATAGCAGGAT
* * * * * ** ** * *
7441 CGACAGCACGTAA-GAGGGATCGGGTCGATCCTCGACTTGCGCATTCTGCCTCTCT-GATCGGTT
129 CGACAGCACG-AAGGGGGGATAGGCTCAATCCCCGGTTTATGCATTCTACCTCCCTAG-TCGGTT
* *
7504 GAGCACCCGCACGCCCGTTTCATGGGTTGGCTTAGGCATAGGGAGTTCATTCCATGTCTAAGACC
192 GAGCGCCCGCACGCCCGTTTCATGGGTTGGCTTAGGCATAGGGAGTTCATTCCATGTCTAAGCCC
* * * *
7569 CAGCCGAACCGAAGGTTGTGGCTACGGGACTGGTAGCACGCAGAGGGGGACCGGGTCGATCCCCG
257 CAGCAGAACCGAAGGTTGTGGCTACAGGACTGGTAGCACGCAGAGGGGGACCGGGCCGATACCCG
* * ** * *
7634 GCTTACGCAATATGCCTCTCCGGTCGGCTCAGCACTTGCACGCTCTTTTCGTGGGTTGACTTAGG
322 GCTTACGCAATATGCCTCTCCGGCCAGCTCAGCACCCGCACGCTCATTCCGTGGGTTGACTTAGG
** * * *
7699 CTTACGGAGTTCATTCCCAGCCTAAGATCAGACCGGACAGAGGGTTACGATAGCAGGATCGACAG
387 CACACGGAGTTCATTCCCAACCTAAGATCAGACCGGACAGAGGATTACGACAGCAGGATCGACAG
* * * * * * * *
7764 CATGTAGGTGGGGATCGGGTTGATCCCCGGCTTGCCCATTCTACCTCTTCGGTCGGCTGAGTG
452 CATGTAGGTGGGAATCGGGTCGATCCCCGACTTGCCCATTCTACCTCTCCGGCCGACTAAGCG
*
7827 CCCGCACGCTTGTTTAATGGGTTGGCTTAGGCATACAGAGTTCATTCCATGTCTAAGCATACGTA
1 CCCGCACGCTTGTTTAATGAGTTGGCTTAGGCATACAGAGTTCATTCCATGTCTAAGCATACGTA
**
7892 GTTCATTCCCAGTCTAAGATCGGACTGGAACGAGGGTTACGACAGCAGGACCAATAGCAGGATCG
66 GTTCATTCCCAGTCTAAGATCGGACCAGAACGAGGGTTACGACAGCAGGACCAATAGCAGGATCG
* * * * * * * ** * *
7957 GCCGCACGCAGGGGGGATTAGGCT-GATCCTCGGTTTGTGCATTTTACCT-TTTCGGTCGGCTGA
131 ACAGCACGAAGGGGGGA-TAGGCTCAATCCCCGGTTTATGCATTCTACCTCCCT-AGTCGGTTGA
* *
8020 GCGCCCGCACGCCCGTTTCGTGGGTTGGCTTAAGCATAGGGAGTTCATTCCATGTCTAAGCCCCA
194 GCGCCCGCACGCCCGTTTCATGGGTTGGCTTAGGCATAGGGAGTTCATTCCATGTCTAAGCCCCA
*
8085 GTCAG-ACC-AAGGGTTGTGGC-AGCAGGA-TCGGTAGCACGCAGAGGGGGATCGGGCCGATACC
259 G-CAGAACCGAA-GGTTGTGGCTA-CAGGACT-GGTAGCACGCAGAGGGGGACCGGGCCGATACC
** * * * **
8146 CGGCTTGTGCATTATGCCTCTTCGGCCAGCTTAGTGCCCGCACGCTCATTCCGTGGGTTGACTTA
320 CGGCTTACGCAATATGCCTCTCCGGCCAGCTCAGCACCCGCACGCTCATTCCGTGGGTTGACTTA
* * ** * * * * *
8211 GGCACACGGAGTTCATTCTCAATCTAAGATTGGATCGGACTGAGGATTATGGCAGCAGGATCGAT
385 GGCACACGGAGTTCATTCCCAACCTAAGATCAGACCGGACAGAGGATTACGACAGCAGGATCGAC
* * *
8276 AGCATGTAGG-GGGAAATTGGGTCGATCCCCGACTTGCGCATTCTGCCTCTCCGGCCGACTAAGC
450 AGCATGTAGGTGGG-AATCGGGTCGATCCCCGACTTGCCCATTCTACCTCTCCGGCCGACTAAGC
8340 G
514 G
** * *
8341 CCCGCACGCTTGTTTCCT-AGTTGGCTTAGGCGTACGGAGTTCATTCCATGTCTAAGCATACAG-
1 CCCGCACGCTTGTTTAATGAGTTGGCTTAGGCATACAGAGTTCATTCCATGTCTAAGCATAC-GT
* * * * * * * *
8404 AGTTCATTCCTAGTCTAAGATTGGACCAGACCGAGGGTTGC-AGTAGTAGGACCAGTAGTAGGA-
65 AGTTCATTCCCAGTCTAAGATCGGACCAGAACGAGGGTTACGA-CAGCAGGACCAATAGCAGGAT
* * * *
8467 CTGACAGCACGAAGGGGGGGATCGGGTCAATCCCCGGTTTATGCATTCTGCCTCCCTAGCCGGTT
129 C-GACAGCACGAA-GGGGGGATAGGCTCAATCCCCGGTTTATGCATTCTACCTCCCTAGTCGGTT
* * * *
8532 GAGGGCCCGCACGCTCATTTCATGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGC
192 GAGCGCCCGCACGCCCGTTTCATGGGTTGGCTTAGGCATAGGGAGTTCATTCCATGTCTAAGC
8595 ATACGGATTT
Statistics
Matches: 632, Mismatches: 107, Indels: 46
0.81 0.14 0.06
Matches are distributed among these distances:
501 2 0.00
502 85 0.13
503 3 0.00
508 2 0.00
510 2 0.00
511 1 0.00
512 2 0.00
513 113 0.18
514 414 0.66
515 8 0.01
ACGTcount: A:0.20, C:0.26, G:0.29, T:0.25
Consensus pattern (514 bp):
CCCGCACGCTTGTTTAATGAGTTGGCTTAGGCATACAGAGTTCATTCCATGTCTAAGCATACGTA
GTTCATTCCCAGTCTAAGATCGGACCAGAACGAGGGTTACGACAGCAGGACCAATAGCAGGATCG
ACAGCACGAAGGGGGGATAGGCTCAATCCCCGGTTTATGCATTCTACCTCCCTAGTCGGTTGAGC
GCCCGCACGCCCGTTTCATGGGTTGGCTTAGGCATAGGGAGTTCATTCCATGTCTAAGCCCCAGC
AGAACCGAAGGTTGTGGCTACAGGACTGGTAGCACGCAGAGGGGGACCGGGCCGATACCCGGCTT
ACGCAATATGCCTCTCCGGCCAGCTCAGCACCCGCACGCTCATTCCGTGGGTTGACTTAGGCACA
CGGAGTTCATTCCCAACCTAAGATCAGACCGGACAGAGGATTACGACAGCAGGATCGACAGCATG
TAGGTGGGAATCGGGTCGATCCCCGACTTGCCCATTCTACCTCTCCGGCCGACTAAGCG
Found at i:8597 original size:26 final size:26
Alignment explanation
Indices: 8567--8619 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
8557 GTTGGCTTAG
8567 GCATACGGAGTTCATT-CCATGTCTAA
1 GCATACGGAGTTCATTCCCA-GTCTAA
*
8593 GCATACGGATTTCATTCCCAGTCTAA
1 GCATACGGAGTTCATTCCCAGTCTAA
8619 G
1 G
8620 ATTTTAAGCC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 22 0.88
27 3 0.12
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (26 bp):
GCATACGGAGTTCATTCCCAGTCTAA
Found at i:8705 original size:11 final size:11
Alignment explanation
Indices: 8689--8721 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
8679 CCCAGGGCAC
8689 CATCGTCGGAG
1 CATCGTCGGAG
8700 CATCGTCGGAG
1 CATCGTCGGAG
*
8711 CATCGCCGGAG
1 CATCGTCGGAG
8722 AGCCTAACCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.18, C:0.30, G:0.36, T:0.15
Consensus pattern (11 bp):
CATCGTCGGAG
Found at i:9330 original size:26 final size:26
Alignment explanation
Indices: 9300--9352 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
9290 GTTGACTTAG
*
9300 GCATACGGAGTTCATCCCCAGTCTAA
1 GCATACGAAGTTCATCCCCAGTCTAA
*
9326 GCATACGAAGTTCATTCCCAGTCTAA
1 GCATACGAAGTTCATCCCCAGTCTAA
9352 G
1 G
9353 ATCGGACCGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (26 bp):
GCATACGAAGTTCATCCCCAGTCTAA
Found at i:9828 original size:159 final size:156
Alignment explanation
Indices: 9539--10145 Score: 510
Period size: 159 Copynumber: 3.8 Consensus size: 156
9529 GACTGGCAGT
* * * ** * **
9539 AGGATCGACAGCATGTAGAAGGGGACCGGGTTGATCCCCAGCTTGCGCATTATGCCTCTCCGGCC
1 AGGATCGATAGCACGCAG-AGGGGACCGGGCCGAT-CCCAGCTTGCGCATTCTGCCTCTCCGATC
* * * * * *
9604 GGCTGAGCTCTCGCACGCTTGTTTCATGGGTTGACTTAGGCATACGGAGTTCATTCC-TAGTCTA
64 GACTGAGCACCCGCACACTCGTTTCATGGGTTGACTTAGGCATACAGAGTTCATTCCAT-GTCTA
9668 AGATCAGACTGGATCGAGGGTTGCGATAGC
128 AGATCAGACTGGATCGAGGGTTGCG-TAGC
*
9698 AGGATCGATAGCACGCAGAGGGGAACCGGGCCGATCCTCAGCTTGCGCATTCTACCTCTCCGATC
1 AGGATCGATAGCACGCAGAGGGG-ACCGGGCCGATCC-CAGCTTGCGCATTCTGCCTCTCCGATC
* * * * * * **
9763 GACTGAACACCAGCACACCCGTTTCGTGGGTTGGCTTAGGCAAAGGGAGTTCATTCCATGTCTAA
64 GACTGAGCACCCGCACACTCGTTTCATGGGTTGACTTAGGCATACAGAGTTCATTCCATGTCTAA
** * *
9828 GCCCCA-A-TCGGATCGAGGGTTGTTGCAGC
129 G-ATCAGACT-GGATCGAGGGTTG-CGTAGC
* * * * * * * * * *
9857 -GAGACCGGTAGCATGCTGAGGGGGACCGGGTCGATACCCGGCTTGCGTATTATGCCTTTTC-AG
1 AG-GATCGATAGCACGCAGA-GGGGACCGGGCCGAT-CCCAGCTTGCGCATTCTGCCTCTCCGA-
* * ** * *
9920 TCTACTCAGTGCCCGCACGCTCGTTTCATGGGTCGACTTAGGCATACAGAGTTCATTCCCA-GTC
62 TCGACTGAGCACCCGCACACTCGTTTCATGGGTTGACTTAGGCATACAGAGTTCATT-CCATGTC
* *
9984 TAAGATCAGACCGGA-CTGATGGTTGCGGTAGC
126 TAAGATCAGACTGGATC-GAGGGTTGC-GTAGC
** * * *
10016 AGGATCGATATTACGCAG-GAGGGATCGGGCTGATCCCTAGCTTGTGCATTCTGCCTCTCCGATC
1 AGGATCGATAGCACGCAGAG-GGGACCGGGCCGATCCC-AGCTTGCGCATTCTGCCTCTCCGATC
** * *
10080 GGGTGTGCACCCGCACACTCGTTTCATGGGTTGGCTTAGGCATACAGAGTTCATTCCATGTCTAA
64 GACTGAGCACCCGCACACTCGTTTCATGGGTTGACTTAGGCATACAGAGTTCATTCCATGTCTAA
10145 G
129 G
10146 CATGCGGAGT
Statistics
Matches: 347, Mismatches: 81, Indels: 41
0.74 0.17 0.09
Matches are distributed among these distances:
157 7 0.02
158 94 0.27
159 232 0.67
160 14 0.04
ACGTcount: A:0.20, C:0.26, G:0.29, T:0.25
Consensus pattern (156 bp):
AGGATCGATAGCACGCAGAGGGGACCGGGCCGATCCCAGCTTGCGCATTCTGCCTCTCCGATCGA
CTGAGCACCCGCACACTCGTTTCATGGGTTGACTTAGGCATACAGAGTTCATTCCATGTCTAAGA
TCAGACTGGATCGAGGGTTGCGTAGC
Found at i:10926 original size:26 final size:26
Alignment explanation
Indices: 10897--10949 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
10887 GTTGACTTAG
10897 GCATACGGAGTTCATCCCTAGTCTAA
1 GCATACGGAGTTCATCCCTAGTCTAA
* *
10923 GCATATGGAGTTCATTCCTAGTCTAA
1 GCATACGGAGTTCATCCCTAGTCTAA
10949 G
1 G
10950 ATCAGATCGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (26 bp):
GCATACGGAGTTCATCCCTAGTCTAA
Found at i:11427 original size:26 final size:26
Alignment explanation
Indices: 11391--11443 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
11381 GTTGGCTTAG
11391 GCATACAGAGTTCATT-CCATGTCTAA
1 GCATACAGAGTTCATTCCCA-GTCTAA
*
11417 GCATACGGAGTTCATTCCCAGTCTAA
1 GCATACAGAGTTCATTCCCAGTCTAA
11443 G
1 G
11444 ATCGGATCGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 22 0.88
27 3 0.12
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (26 bp):
GCATACAGAGTTCATTCCCAGTCTAA
Found at i:11800 original size:26 final size:26
Alignment explanation
Indices: 11770--11822 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
11760 GTTGACTTAT
*
11770 GCATACGGAGTTCGTCCCTAGTCTAA
1 GCATACGGAGTTCATCCCTAGTCTAA
* *
11796 GCATACGGAGTTCATTCTTAGTCTAA
1 GCATACGGAGTTCATCCCTAGTCTAA
11822 G
1 G
11823 ATCGGACTGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.30
Consensus pattern (26 bp):
GCATACGGAGTTCATCCCTAGTCTAA
Found at i:12290 original size:26 final size:26
Alignment explanation
Indices: 12240--12292 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
12230 GTTGGCTTAG
*
12240 GCATACGGAGTTCATTCCATGTCTAA
1 GCATACGGAGTTCATTCCATATCTAA
*
12266 GCATATGGAGTTCATTCCCA-ATCTAA
1 GCATACGGAGTTCATT-CCATATCTAA
12292 G
1 G
12293 ATCGGACTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 21 0.88
27 3 0.12
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (26 bp):
GCATACGGAGTTCATTCCATATCTAA
Found at i:12646 original size:26 final size:26
Alignment explanation
Indices: 12616--12668 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
12606 TTTGACTTAG
*
12616 GCATATAGAGTTCA-TCCCTAGTCTAA
1 GCATACAGAGTTCATTCCC-AGTCTAA
* *
12642 GCATACGGAGTTGATTCCCAGTCTAA
1 GCATACAGAGTTCATTCCCAGTCTAA
12668 G
1 G
12669 ATCGGACCGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (26 bp):
GCATACAGAGTTCATTCCCAGTCTAA
Found at i:15129 original size:159 final size:157
Alignment explanation
Indices: 14833--15296 Score: 378
Period size: 157 Copynumber: 2.9 Consensus size: 157
14823 ATCAAACTGA
*
14833 ACCGAGGGTTACGGCAGTAGGATCGACAGCACGCAGGGGGGACCGAGCCGATCCCCGGCTTGCGC
1 ACCGAGGGTTACGGCAGTAGGATCGACAGCACGCAGAGGGGACCGAGCCGATCCCCGGCTTGCGC
* * * * * * * * ** * *
14898 ATTCTGCCTCTCCGGCCGGTTGAGGGCCCGCATGCCAGTTTTGTGGGTTGGCTTAGGCATAGGGG
66 ATTATGCCTCTCCGACCGGCTCAGCGCCCGCACGCCAGTTTCGTCGGTTAACTTAGGCATACGGA
*
14963 GTTCATTCCATGTCTAAGCCCCAGCCGG
131 GTACATTCCA-GTCTAAGCCCCAGCCGG
* * * * * * *
14991 ACCGAGGGTTGA-GGCAGTGGGATTGGCAGCACGCAGAAGGGGATCGAGTCGATTCTCGGCTTGC
1 ACCGAGGGTT-ACGGCAGTAGGATCGACAGCACGCAG-AGGGGACCGAGCCGATCCCCGGCTTGC
* * *
15055 GCATTATGCCTTTTCGACTGGCTCAGCGCCCGCACGCTC-GTTTCGTCGGTTAACTTAGGCATAC
64 GCATTATGCCTCTCCGACCGGCTCAGCGCCCGCACGC-CAGTTTCGTCGGTTAACTTAGGCATAC
* ** *
15119 GTAGTACATTCCAGTCTAAG-ATCGGACCGG
128 GGAGTACATTCCAGTCTAAGCCCCAG-CCGG
* ** * * * * * * * * *
15149 ACCGAGAGTTGTGACAGCAGGATTGATAGCACGCAGGGGGGATCGAGCCGATCCCTGACTTACGC
1 ACCGAGGGTTACGGCAGTAGGATCGACAGCACGCAGAGGGGACCGAGCCGATCCCCGGCTTGCGC
* * ** * * * * **
15214 ATTCTGCCTCTCCGGCCTACTGAGTGCCTGCACGCTC-GTTTCGTGGGTTGGCTTAGGCATACGG
66 ATTATGCCTCTCCGACCGGCTCAGCGCCCGCACGC-CAGTTTCGTCGGTTAACTTAGGCATACGG
*
15278 AGTTCATTCCCAGTCTAAG
130 AGTACATT-CCAGTCTAAG
15297 ATTGGATCGA
Statistics
Matches: 243, Mismatches: 57, Indels: 12
0.78 0.18 0.04
Matches are distributed among these distances:
157 81 0.33
158 80 0.33
159 81 0.33
160 1 0.00
ACGTcount: A:0.18, C:0.27, G:0.32, T:0.23
Consensus pattern (157 bp):
ACCGAGGGTTACGGCAGTAGGATCGACAGCACGCAGAGGGGACCGAGCCGATCCCCGGCTTGCGC
ATTATGCCTCTCCGACCGGCTCAGCGCCCGCACGCCAGTTTCGTCGGTTAACTTAGGCATACGGA
GTACATTCCAGTCTAAGCCCCAGCCGG
Found at i:15936 original size:26 final size:26
Alignment explanation
Indices: 15900--15952 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
15890 GTTGGCTTAG
15900 GCATACGGAGTTCATT-CCATGTCTAA
1 GCATACGGAGTTCATTCCCA-GTCTAA
*
15926 GCATGCGGAGTTCATTCCCAGTCTAA
1 GCATACGGAGTTCATTCCCAGTCTAA
15952 G
1 G
15953 ATTTTGAGCC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 22 0.88
27 3 0.12
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.28
Consensus pattern (26 bp):
GCATACGGAGTTCATTCCCAGTCTAA
Found at i:16658 original size:26 final size:26
Alignment explanation
Indices: 16622--16674 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
16612 GTTAGCTTAG
16622 GCATATGGAGTTCATCCCCAGTCTAA
1 GCATATGGAGTTCATCCCCAGTCTAA
* *
16648 GCATATGGAGTTCATTCCTAGTCTAA
1 GCATATGGAGTTCATCCCCAGTCTAA
16674 G
1 G
16675 ATCGGATCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (26 bp):
GCATATGGAGTTCATCCCCAGTCTAA
Found at i:17173 original size:26 final size:26
Alignment explanation
Indices: 17122--17174 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
17112 TTTGGCTTAG
**
17122 GCATACGGAGTTCATTCCATGTCTAA
1 GCATACGGAGTTCATTCCATAACTAA
17148 GCATACGGAGTTCATTCCCA-AACTAA
1 GCATACGGAGTTCATT-CCATAACTAA
17174 G
1 G
17175 ATCGAACCAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 21 0.88
27 3 0.12
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (26 bp):
GCATACGGAGTTCATTCCATAACTAA
Found at i:17553 original size:26 final size:26
Alignment explanation
Indices: 17500--17555 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
17490 TGGGTTGACA
* *
17500 TAAGCATACGGAGTTCATCCCTAGTC
1 TAAGCATAAGGAGTTCATCCCTAATC
17526 TAAGCATAAGGAGTTCATTCCC-AATC
1 TAAGCATAAGGAGTTCA-TCCCTAATC
17552 TAAG
1 TAAG
17556 ATCAGACCGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 23 0.85
27 4 0.15
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (26 bp):
TAAGCATAAGGAGTTCATCCCTAATC
Found at i:18040 original size:26 final size:26
Alignment explanation
Indices: 18004--18056 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 26
17994 GTTAGCTTAG
18004 GCATACGGAGTTCA-TCCCATGTCTAA
1 GCATACGGAGTTCATTCCCA-GTCTAA
18030 GCATACGGAGTTCATTCCCAGTCTAA
1 GCATACGGAGTTCATTCCCAGTCTAA
18056 G
1 G
18057 ATTTTGAGCC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 21 0.81
27 5 0.19
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (26 bp):
GCATACGGAGTTCATTCCCAGTCTAA
Found at i:19093 original size:157 final size:155
Alignment explanation
Indices: 18826--19264 Score: 436
Period size: 157 Copynumber: 2.8 Consensus size: 155
18816 AGTAGGATCT
* * * *
18826 GCAGCACGCAGGGGTGACTGTGTCAGTCCCCGGCTTGCGCATTCTGCCTCTCTGGTCGGCTGAGC
1 GCAGCACGCAGGGGGGAC-GGGTCA-TCCCCGGCTTGCGCATTCTGCCTCTCTGG-CCGCTGAGT
** * * *
18891 ATCCGCACGCTCGTTTCATGGGTTGGCTTAGGCATAGGGATTTCATTCCATGTCTAAGCCCCAG-
63 GCCCGCACGCTCGTTTCATGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAG-ACCAGA
** * ***
18955 CCGGACCGAGGGTTATGGCTGTGGGACCG
127 CCGGACCGAGGGTTACAGCAGCAAGACCG
* * *
18984 GCAGCACGCAGAGGGGGATCGGGTCATCCCCGGCTTGC-CATTATGCCTCTTTGGCCAGCTTAGT
1 GCAGCACGCAG-GGGGGA-CGGGTCATCCCCGGCTTGCGCATTCTGCCTCTCTGGCC-GCTGAGT
* * * *
19048 GCCCGCACGCTCGTTTCATGGGTTGACATATGCATACGGAGTTCATTCCCA-GTCTAAGATCAGA
63 GCCCGCACGCTCGTTTCATGGGTTGGCTTAGGCATACGGAGTTCATT-CCATGTCTAAGACCAGA
* * * *
19112 GCGGACTGAGGGTTGCAGCAGCAAGATCG
127 CCGGACCGAGGGTTACAGCAGCAAGACCG
* * * * *
19141 ACAGCACGTAGGGGTGGACCGGGCCGATCCCCGACTTGCGCATTCTGCCTCTCCGGCCGACTGAG
1 GCAGCACGCAGGGG-GGA-CGGGTC-ATCCCCGGCTTGCGCATTCTGCCTCTCTGGCCG-CTGAG
* *
19206 TGCCCGCACGCTTGTTTCGTGGGTTGGCTTAGGCATACGGAGTTCATTCC-TCGTCTAAG
62 TGCCCGCACGCTCGTTTCATGGGTTGGCTTAGGCATACGGAGTTCATTCCAT-GTCTAAG
19265 GATACAGAGT
Statistics
Matches: 230, Mismatches: 40, Indels: 21
0.79 0.14 0.07
Matches are distributed among these distances:
156 7 0.03
157 102 0.44
158 41 0.18
159 79 0.34
160 1 0.00
ACGTcount: A:0.17, C:0.28, G:0.31, T:0.24
Consensus pattern (155 bp):
GCAGCACGCAGGGGGGACGGGTCATCCCCGGCTTGCGCATTCTGCCTCTCTGGCCGCTGAGTGCC
CGCACGCTCGTTTCATGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGACCAGACCGG
ACCGAGGGTTACAGCAGCAAGACCG
Found at i:19288 original size:26 final size:26
Alignment explanation
Indices: 19240--19290 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
19230 TGGCTTAGGC
* *
19240 ATACGGAGTTCATTCCTCGTCTAAGG
1 ATACAGAGTTCATTCCTCATCTAAGG
19266 ATACAGAGTTCATTCC-CAATCTAAG
1 ATACAGAGTTCATTCCTC-ATCTAAG
19291 ATTTTAAGCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 1 0.05
26 21 0.95
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (26 bp):
ATACAGAGTTCATTCCTCATCTAAGG
Found at i:19990 original size:26 final size:26
Alignment explanation
Indices: 19960--20038 Score: 122
Period size: 26 Copynumber: 3.0 Consensus size: 26
19950 GTTGACTTAG
*
19960 GCATACGGAGTTCATCCCTAGTCTAA
1 GCATATGGAGTTCATCCCTAGTCTAA
* *
19986 GCATATGGAGTTCATCCCCAGTTTAA
1 GCATATGGAGTTCATCCCTAGTCTAA
*
20012 GCATATGGAGTTCATTCCTAGTCTAA
1 GCATATGGAGTTCATCCCTAGTCTAA
20038 G
1 G
20039 ATCGGACCGG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 47 1.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (26 bp):
GCATATGGAGTTCATCCCTAGTCTAA
Found at i:20790 original size:26 final size:26
Alignment explanation
Indices: 20754--20806 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
20744 GTTGACTTAG
* *
20754 GCATACGGAGTTCATCCCCAGTCTAA
1 GCATACAGAGTTCATCCCCAATCTAA
*
20780 GCATACAGAGTTCATTCCCAATCTAA
1 GCATACAGAGTTCATCCCCAATCTAA
20806 G
1 G
20807 ATCAGACCGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (26 bp):
GCATACAGAGTTCATCCCCAATCTAA
Found at i:21286 original size:26 final size:26
Alignment explanation
Indices: 21250--21302 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
21240 GTTACCTTAG
*
21250 GCATACAGAGTTCATTCCATGTCTAA
1 GCATACAGAGTTCATTCCAGGTCTAA
*
21276 GCATACAGAGTTCATTCCCGGTCTAA
1 GCATACAGAGTTCATTCCAGGTCTAA
21302 G
1 G
21303 ATCGGATCGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (26 bp):
GCATACAGAGTTCATTCCAGGTCTAA
Found at i:21663 original size:26 final size:26
Alignment explanation
Indices: 21634--21686 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
21624 GTTGACTTAG
21634 GCATACAGAGATCA-TCCCTAGTCTAA
1 GCATACAGAGATCATTCCC-AGTCTAA
* *
21660 GCATACGGAGTTCATTCCCAGTCTAA
1 GCATACAGAGATCATTCCCAGTCTAA
21686 G
1 G
21687 ATTTTGAGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (26 bp):
GCATACAGAGATCATTCCCAGTCTAA
Found at i:23795 original size:26 final size:25
Alignment explanation
Indices: 23765--23816 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 25
23755 GTTGGCTTAG
23765 GCATACGGAGTTCATTCCATGTCTAA
1 GCATACGGAGTTCATTCCA-GTCTAA
*
23791 GCATATGGAGTTCATTCCAGTCTAA
1 GCATACGGAGTTCATTCCAGTCTAA
23816 G
1 G
23817 ATTGGAGCAG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 7 0.28
26 18 0.72
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (25 bp):
GCATACGGAGTTCATTCCAGTCTAA
Found at i:24157 original size:26 final size:26
Alignment explanation
Indices: 24128--24183 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
24118 TGGGTTGGCT
**
24128 TAAGCATATGGAGTTCA-TCCCTAGTC
1 TAAGCATACAGAGTTCATTCCC-AGTC
24154 TAAGCATACAGAGTTCATTCCCAGTC
1 TAAGCATACAGAGTTCATTCCCAGTC
24180 TAAG
1 TAAG
24184 ATCGGATCGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 23 0.85
27 4 0.15
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (26 bp):
TAAGCATACAGAGTTCATTCCCAGTC
Found at i:24585 original size:26 final size:26
Alignment explanation
Indices: 24556--24608 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
24546 GTTGGCTTAG
*
24556 GCATATGGAGTTCATT-CCATGTCTAA
1 GCATACGGAGTTCATTCCCA-GTCTAA
24582 GCATACGGAGTTCATTCCCAGTCTAA
1 GCATACGGAGTTCATTCCCAGTCTAA
24608 G
1 G
24609 ATTGGACTGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 22 0.88
27 3 0.12
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (26 bp):
GCATACGGAGTTCATTCCCAGTCTAA
Found at i:25586 original size:157 final size:155
Alignment explanation
Indices: 25126--25653 Score: 463
Period size: 159 Copynumber: 3.3 Consensus size: 155
25116 CCCAGTCTAA
*** * * *
25126 GCATAAAAAGTTCATTCCCAGTCTAAG-ATTGGATCGGACCGAGGGTTGCGGCAGCAGGATCAAC
1 GCAT-AAAAGTTCATTCCCAGTCTAAGCACCAG-CCGGACCGAGGGTTGTGGCAGCAGGATCGAC
* * * * * * * *
25190 GGCTCGCAGGGGGGACCGAGCCGATCCTCGGCTTGCGCATTCTGCCTCTCCGACCGACTGAGCAC
64 AGCACGCA-GGGGGACCGGGCCGATCCCCGACTTGCGCATTCTGCCTCTCAGGCCGGCTGAGCAC
* * *
25255 CCGCACGCCGGTTTTGTGGTTTGGCTTAG
128 CCGAACGCC-GTTTCGTGGGTTGGCTTAG
** * ** * * * * *
25284 GCATAGGGAGTTCATT-CCATGTCTAAGCCCCAGTTGGACCAAGGGTTATGGTAGCAGGACCGAT
1 GCATA-AAAGTTCATTCCCA-GTCTAAGCACCAGCCGGACCGAGGGTTGTGGCAGCAGGATCGAC
* * **
25348 AGCACGCAGAGGTGGACCGGGCCGATCCCCGTCTTGCGCATTAC-GCCTCT-ACGGCTGGCACAG
64 AGCACGCAG-GG-GGACCGGGCCGATCCCCGACTTGCGCATT-CTGCCTCTCA-GGCCGGCTGAG
* *
25411 CACCCGAACGCTCATTTCGTGGGTTGACTTAG
125 CACCCGAACGC-CGTTTCGTGGGTTGGCTTAG
* * * *
25443 GCATACAAAGTTCATTCCCAGTCTATG-ATCAGACCAGACCGAGGGTTGTGGCAACAGGATCGAC
1 GCATA-AAAGTTCATTCCCAGTCTAAGCACCAG-CCGGACCGAGGGTTGTGGCAGCAGGATCGAC
* * *
25507 AGCACGTAGGGGGACCGGGTCGATCCCCGACTTGCGCATTCTACCTCTCAGGCCGGCTGAGCACC
64 AGCACGCAGGGGGACCGGGCCGATCCCCGACTTGCGCATTCTGCCTCTCAGGCCGGCTGAGCACC
* *
25572 CGTATGTCCGTTTCGTGGGTTGGCTTAG
129 CGAACG-CCGTTTCGTGGGTTGGCTTAG
* * * * *
25600 GCATAAGGAGTTCATTCCAAGTCTATGCCCCAGCCGGACCGAGGATTGTGGCAG
1 GCATAA-AAGTTCATTCCCAGTCTAAGCACCAGCCGGACCGAGGGTTGTGGCAG
25654 TGGGACCGGT
Statistics
Matches: 292, Mismatches: 63, Indels: 31
0.76 0.16 0.08
Matches are distributed among these distances:
156 2 0.01
157 112 0.38
158 60 0.21
159 113 0.39
160 5 0.02
ACGTcount: A:0.20, C:0.28, G:0.30, T:0.22
Consensus pattern (155 bp):
GCATAAAAGTTCATTCCCAGTCTAAGCACCAGCCGGACCGAGGGTTGTGGCAGCAGGATCGACAG
CACGCAGGGGGACCGGGCCGATCCCCGACTTGCGCATTCTGCCTCTCAGGCCGGCTGAGCACCCG
AACGCCGTTTCGTGGGTTGGCTTAG
Found at i:25675 original size:157 final size:156
Alignment explanation
Indices: 25160--25676 Score: 475
Period size: 157 Copynumber: 3.3 Consensus size: 156
25150 AAGATTGGAT
* * * ** * * * * *
25160 CGGACCGAGGGTTGCGGCAGCAGGATCAACGGCTCGCAGGGGGGACCGAGCCGATCCTCGGCTTG
1 CGGACCGAGGGTTGTGGCAGCAGGACCGATAGCACG-AAGGGGGACCGGGCCGATCCCCGACTTG
* * * * * * *
25225 CGCATTCTGCCTCTCCGACCGACTGAGCACCCGCACGCCGGTTTTGTGGTTTGGCTTAGGCATAG
65 CGCATTCTGCCTCTCAGGCCGGCTGAGCACCCGAACGCC-GTTTCGTGGGTTGGCTTAGGCATAA
* * *
25290 GGAGTTCATTCCATGTCTAAGCCCCAGT
129 GGAGTTCATTCCAAGTCTATGCCCCAGC
* * * * * *
25318 TGGACCAAGGGTTATGGTAGCAGGACCGATAGCACGCAGAGGTGGACCGGGCCGATCCCCGTCTT
1 CGGACCGAGGGTTGTGGCAGCAGGACCGATAGCACG-A-AGGGGGACCGGGCCGATCCCCGACTT
* ** * *
25383 GCGCATTAC-GCCTCT-ACGGCTGGCACAGCACCCGAACGCTCATTTCGTGGGTTGACTTAGGCA
64 GCGCATT-CTGCCTCTCA-GGCCGGCTGAGCACCCGAACGC-CGTTTCGTGGGTTGGCTTAGGCA
* * **
25446 TACA-AAGTTCATTCCCAGTCTATG-ATCAGAC
126 TA-AGGAGTTCATTCCAAGTCTATGCCCCAG-C
* * * * * *
25477 CAGACCGAGGGTTGTGGCAACAGGATCGACAGCACGTAGGGGGACCGGGTCGATCCCCGACTTGC
1 CGGACCGAGGGTTGTGGCAGCAGGACCGATAGCACGAAGGGGGACCGGGCCGATCCCCGACTTGC
* * *
25542 GCATTCTACCTCTCAGGCCGGCTGAGCACCCGTATGTCCGTTTCGTGGGTTGGCTTAGGCATAAG
66 GCATTCTGCCTCTCAGGCCGGCTGAGCACCCGAACG-CCGTTTCGTGGGTTGGCTTAGGCATAAG
25607 GAGTTCATTCCAAGTCTATGCCCCAGC
130 GAGTTCATTCCAAGTCTATGCCCCAGC
* ** * *
25634 CGGACCGAGGATTGTGGCAGTGGGACCGGTAGCATGAAGGGGG
1 CGGACCGAGGGTTGTGGCAGCAGGACCGATAGCACGAAGGGGG
25677 GGATTGGCCC
Statistics
Matches: 280, Mismatches: 68, Indels: 23
0.75 0.18 0.06
Matches are distributed among these distances:
156 2 0.01
157 126 0.45
158 36 0.13
159 114 0.41
160 2 0.01
ACGTcount: A:0.20, C:0.28, G:0.32, T:0.21
Consensus pattern (156 bp):
CGGACCGAGGGTTGTGGCAGCAGGACCGATAGCACGAAGGGGGACCGGGCCGATCCCCGACTTGC
GCATTCTGCCTCTCAGGCCGGCTGAGCACCCGAACGCCGTTTCGTGGGTTGGCTTAGGCATAAGG
AGTTCATTCCAAGTCTATGCCCCAGC
Found at i:25802 original size:26 final size:26
Alignment explanation
Indices: 25772--25824 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
25762 GTTGACTTAG
*
25772 GCATACAGAGTTCATCCCCAGTCTAA
1 GCATACAGAGTTCATCCCCAATCTAA
*
25798 GCATACGGAGTTCATCCCCAATCTAA
1 GCATACAGAGTTCATCCCCAATCTAA
25824 G
1 G
25825 ATCAAATCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (26 bp):
GCATACAGAGTTCATCCCCAATCTAA
Found at i:26867 original size:26 final size:26
Alignment explanation
Indices: 26838--26890 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
26828 GTTGACTTAG
26838 GCATACGGAGTTCATCCCCAGTCTAA
1 GCATACGGAGTTCATCCCCAGTCTAA
* *
26864 GCATATGGAGTTCATTCCCAGTCTAA
1 GCATACGGAGTTCATCCCCAGTCTAA
26890 G
1 G
26891 ATCGGACCGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (26 bp):
GCATACGGAGTTCATCCCCAGTCTAA
Found at i:27357 original size:26 final size:26
Alignment explanation
Indices: 27307--27359 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
27297 GTCGACTTAG
*
27307 GCATACAGAGTTCATTCCATGTCTAA
1 GCATACAGAGTTCATTCCATCTCTAA
*
27333 GCATACGGAGTTCATTCCCA-CTCTAA
1 GCATACAGAGTTCATT-CCATCTCTAA
27359 G
1 G
27360 ATCGGACAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 21 0.88
27 3 0.12
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.28
Consensus pattern (26 bp):
GCATACAGAGTTCATTCCATCTCTAA
Found at i:29316 original size:25 final size:26
Alignment explanation
Indices: 29268--29319 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
29258 GTTGGCTTCG
29268 GCATACGGAGTTCATTCCATGTCTAA
1 GCATACGGAGTTCATTCCATGTCTAA
29294 GCATACGGAG-TCATTCCCA-GTCTAA
1 GCATACGGAGTTCATT-CCATGTCTAA
29319 G
1 G
29320 ATTTTAAGCC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 12 0.48
26 13 0.52
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (26 bp):
GCATACGGAGTTCATTCCATGTCTAA
Found at i:30275 original size:61 final size:63
Alignment explanation
Indices: 30111--30276 Score: 223
Period size: 61 Copynumber: 2.7 Consensus size: 63
30101 TTATGCAGGA
* * *
30111 AAAATTGATACTTTGAACTTTTCCCTAAAAATATT-TTTTCTGGAAAATTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTCTTTTTTGGAAAATTTTGATTTTCAAGG
* * ** *
30173 AAAATTGATACTTTCAACTTTTCCTCAAAAAAAACCCTTTTTT-G-AAATTTT-ATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCC-CCAAAAATATTCTTTTTTGGAAAATTTTGATTTTCAAGG
30234 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTCTTTTTTG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTCTTTTTTG
30277 ATTTTTATTT
Statistics
Matches: 90, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
60 14 0.16
61 33 0.37
62 30 0.33
63 8 0.09
64 5 0.06
ACGTcount: A:0.34, C:0.14, G:0.08, T:0.43
Consensus pattern (63 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTCTTTTTTGGAAAATTTTGATTTTCAAGG
Found at i:30324 original size:30 final size:30
Alignment explanation
Indices: 30290--30346 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
30280 TTTATTTAAA
*
30290 GAAAATAAAATAATAAAACAAAATAAAAGT
1 GAAAATAAAAAAATAAAACAAAATAAAAGT
*
30320 GAAAATAAAAAAATAAAATAAAATAAA
1 GAAAATAAAAAAATAAAACAAAATAAA
30347 GAAAAGTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.16
Consensus pattern (30 bp):
GAAAATAAAAAAATAAAACAAAATAAAAGT
Found at i:30334 original size:20 final size:19
Alignment explanation
Indices: 30286--30379 Score: 88
Period size: 18 Copynumber: 4.9 Consensus size: 19
30276 GATTTTTATT
*
30286 TAAAGAAAATAAAATAATA
1 TAAAGAAAATAAAATAAAA
*
30305 -AAACAAAATAAAAGTGAAAA
1 TAAAGAAAATAAAA-T-AAAA
30325 TAAA-AAAATAAAATAAAA
1 TAAAGAAAATAAAATAAAA
* *
30343 TAAAGAAAAGTAAAACCAAGA
1 TAAAGAAAA-TAAAA-TAAAA
30364 T-AA-AAAATAAAATAAA
1 TAAAGAAAATAAAATAAA
30380 GGTAAAAAGG
Statistics
Matches: 63, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
17 2 0.03
18 25 0.40
19 10 0.16
20 19 0.30
21 7 0.11
ACGTcount: A:0.76, C:0.03, G:0.06, T:0.15
Consensus pattern (19 bp):
TAAAGAAAATAAAATAAAA
Found at i:30377 original size:5 final size:5
Alignment explanation
Indices: 30291--30346 Score: 57
Period size: 5 Copynumber: 11.6 Consensus size: 5
30281 TTATTTAAAG
*
30291 AAAAT AAAAT --AAT AAAAC AAAAT AAAAGT GAAAAT -AAA- AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA-T -AAAAT AAAAT AAAAT AAAAT
30339 AAAAT AAA
1 AAAAT AAA
30347 GAAAAGTAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
3 3 0.07
4 6 0.14
5 28 0.65
6 2 0.05
7 4 0.09
ACGTcount: A:0.79, C:0.02, G:0.04, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:30882 original size:19 final size:19
Alignment explanation
Indices: 30858--30894 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
30848 TGGCCAAAAT
30858 TTTCGTCAAAAAATTCAAC
1 TTTCGTCAAAAAATTCAAC
*
30877 TTTCGTCAGAAAATTCAA
1 TTTCGTCAAAAAATTCAA
30895 TCGAAATCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (19 bp):
TTTCGTCAAAAAATTCAAC
Found at i:31377 original size:17 final size:16
Alignment explanation
Indices: 31325--31381 Score: 59
Period size: 17 Copynumber: 3.8 Consensus size: 16
31315 AAAATACAAA
*
31325 AATAAATAAA-ATAAA
1 AATAAATAAATATAAT
31340 AATAAA-AAATAT-AT
1 AATAAATAAATATAAT
*
31354 -ATTAATAAATAGTAAT
1 AATAAATAAATA-TAAT
31370 AATAAATAAATA
1 AATAAATAAATA
31382 ATAAATACAT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
13 4 0.12
14 9 0.26
15 9 0.26
16 2 0.06
17 10 0.29
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (16 bp):
AATAAATAAATATAAT
Found at i:31447 original size:16 final size:17
Alignment explanation
Indices: 31426--31465 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
31416 TAAAATATAG
*
31426 AATAAAATAATTA-AAA
1 AATAAAATAATAACAAA
31442 AATAAAA-AATAACAAA
1 AATAAAATAATAACAAA
31458 AATAAAAT
1 AATAAAAT
31466 TGGACTTACC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.20
Consensus pattern (17 bp):
AATAAAATAATAACAAA
Found at i:31745 original size:42 final size:41
Alignment explanation
Indices: 31685--32067 Score: 538
Period size: 42 Copynumber: 9.1 Consensus size: 41
31675 TTTAACCAAA
* * *
31685 GCTCCTCTAAACAGAGGCTCAACGACTTTGAAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-AAAAGTAAATT
* * * * *
31727 ACTCCTCTAAACAGAGGCTCAACAACTTTGGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
* *
31769 GCTCCTCTAAATAGAGGCACCATGACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATT
31811 GCTCCTCTAAACAGAACAAAGGCACCACGACTTTG-AAAGTAAATT
1 GCTCCTCTAAACAG-----AGGCACCACGACTTTGAAAAGTAAATT
31856 GCTCCTCTAAACAGAGGCACCACGACTTTTG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATT
*
31897 GCTCCTCTAAACAGAGGCACCATGACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATT
31939 GCTCCTCTAAACAGAGGCACCACGACTTTG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
*
31979 GCTGCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATT
32021 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
32062 GCTCCT
1 GCTCCT
32068 TGACAATCAT
Statistics
Matches: 315, Mismatches: 15, Indels: 23
0.89 0.04 0.07
Matches are distributed among these distances:
40 47 0.15
41 73 0.23
42 152 0.48
43 4 0.01
45 24 0.08
46 4 0.01
47 11 0.03
ACGTcount: A:0.37, C:0.23, G:0.16, T:0.24
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
Found at i:31988 original size:82 final size:83
Alignment explanation
Indices: 31685--32067 Score: 549
Period size: 82 Copynumber: 4.6 Consensus size: 83
31675 TTTAACCAAA
* * * * * *
31685 GCTCCTCTAAACAGAGGCTCAACGACTTTGAAAAAATAAATTACTCCTCTAAACAGAGGCTCAAC
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-AAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
* * *
31750 AACTTTGGAAAAATAAATT
65 GACTTTTGAAAAGTAAATT
* *
31769 GCTCCTCTAAATAGAGGCACCATGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAACAAAGGC
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATTGCTCCTCTAAACAG-----AGGC
31834 ACCACGAC-TTTG-AAAGTAAATT
60 ACCACGACTTTTGAAAAGTAAATT
*
31856 GCTCCTCTAAACAGAGGCACCACGACTTTTG-AAAGTAAATTGCTCCTCTAAACAGAGGCACCAT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
31920 GACTTTTGAAAAGTAAATT
65 GACTTTTGAAAAGTAAATT
*
31939 GCTCCTCTAAACAGAGGCACCACGACTTTG-AAAGTAAATTGCTGCTCTAAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
32003 ACTTTTGAAAAGTAAATT
66 ACTTTTGAAAAGTAAATT
32021 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCT
32068 TGACAATCAT
Statistics
Matches: 273, Mismatches: 17, Indels: 19
0.88 0.06 0.06
Matches are distributed among these distances:
81 11 0.04
82 88 0.32
83 51 0.19
84 45 0.16
85 4 0.01
86 24 0.09
87 38 0.14
88 3 0.01
89 9 0.03
ACGTcount: A:0.37, C:0.23, G:0.16, T:0.24
Consensus pattern (83 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
ACTTTTGAAAAGTAAATT
Found at i:32051 original size:123 final size:124
Alignment explanation
Indices: 31685--32067 Score: 581
Period size: 123 Copynumber: 3.0 Consensus size: 124
31675 TTTAACCAAA
* * * * * *
31685 GCTCCTCTAAACAGAGGCTCAACGACTTTGAAAAAATAAATTACTCCTCTAAACAGAGGCTCAAC
1 GCTCCTCTAAACAGAGGCACCACGACTTTG--AAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
* * * *
31750 AACTTTGGAAAAATAAATTGCTCCTCTAAATAGAGGCACCATGACTTTTGAAAAGTAAATT
64 GACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCATGACTTTTGAAAAGTAAATT
31811 GCTCCTCTAAACAGAACAAAGGCACCACGACTTTGAAAGTAAATTGCTCCTCTAAACAGAGGCAC
1 GCTCCTCTAAACAG-----AGGCACCACGACTTTGAAAGTAAATTGCTCCTCTAAACAGAGGCAC
31876 CACGACTTTTG-AAAGTAAATTGCTCCTCTAAACAGAGGCACCATGACTTTTGAAAAGTAAATT
61 CACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCATGACTTTTGAAAAGTAAATT
*
31939 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAGTAAATTGCTGCTCTAAACAGAGGCACCACGA
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGA
*
32004 CTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATT
66 CTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCATGACTTTTGAAAAGTAAATT
32062 GCTCCT
1 GCTCCT
32068 TGACAATCAT
Statistics
Matches: 239, Mismatches: 12, Indels: 15
0.90 0.05 0.06
Matches are distributed among these distances:
123 77 0.32
124 35 0.15
126 14 0.06
128 64 0.27
129 35 0.15
131 14 0.06
ACGTcount: A:0.37, C:0.23, G:0.16, T:0.24
Consensus pattern (124 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGA
CTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCATGACTTTTGAAAAGTAAATT
Found at i:33117 original size:16 final size:15
Alignment explanation
Indices: 33081--33140 Score: 65
Period size: 16 Copynumber: 4.1 Consensus size: 15
33071 CCTTTTTCAC
33081 TTTTCTTTTTTC-A-
1 TTTTCTTTTTTCTAT
33094 -TTT-TTTTTTCTAT
1 TTTTCTTTTTTCTAT
33107 TTTTCTATTTTTCTATT
1 TTTTCT-TTTTTCTA-T
*
33124 TTTTCTTTTTTTTAT
1 TTTTCTTTTTTCTAT
33139 TT
1 TT
33141 CATCATTTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
11 7 0.17
12 4 0.10
14 3 0.08
15 4 0.10
16 15 0.38
17 7 0.17
ACGTcount: A:0.08, C:0.10, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTCTTTTTTCTAT
Found at i:38073 original size:15 final size:16
Alignment explanation
Indices: 38040--38077 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
38030 ATTATTCCGT
38040 CTTTCT-CCTTCTTTAG
1 CTTTCTCCCTTC-TTAG
38056 CTTTCTCCCTTC-TAG
1 CTTTCTCCCTTCTTAG
38071 CTTTCTC
1 CTTTCTC
38078 TAACATTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 10 0.48
16 6 0.29
17 5 0.24
ACGTcount: A:0.05, C:0.37, G:0.05, T:0.53
Consensus pattern (16 bp):
CTTTCTCCCTTCTTAG
Found at i:38372 original size:26 final size:26
Alignment explanation
Indices: 38343--38395 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
38333 GTTGGCTTAG
*
38343 GCATATGGAGTTCATT-CCATGTCTAA
1 GCATACGGAGTTCATTCCCA-GTCTAA
38369 GCATACGGAGTTCATTCCCAGTCTAA
1 GCATACGGAGTTCATTCCCAGTCTAA
38395 G
1 G
38396 ATTTTGAGCC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 22 0.88
27 3 0.12
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (26 bp):
GCATACGGAGTTCATTCCCAGTCTAA
Found at i:38499 original size:12 final size:12
Alignment explanation
Indices: 38482--38507 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
38472 GGAGCATCGT
38482 CCATGTCTAAGC
1 CCATGTCTAAGC
38494 CCATGTCTAAGC
1 CCATGTCTAAGC
38506 CC
1 CC
38508 CAACCGGACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.38, G:0.15, T:0.23
Consensus pattern (12 bp):
CCATGTCTAAGC
Found at i:38978 original size:158 final size:158
Alignment explanation
Indices: 38550--38979 Score: 512
Period size: 158 Copynumber: 2.7 Consensus size: 158
38540 ACAGCACGCA
* * *
38550 AAGG-GGGATCGGGCCGGTCCCTGGCTTGCGCATTATGCCTCTCCGATCGGCTCAGCACCCGCAC
1 AAGGAGGGATCGGGCCGGTCCCCGGCTTGCGCATTCTGCCTCTCCGATCGGCTCAGCGCCCGCAC
38614 GCTCATTTCGTGGGTTGACTTAGGTATACGGAGTTCATTCCCAGTCTAAGATCAGACCGAACCAA
66 GCTCATTTCGTGGGTTGACTTAGGTATACGGAGTTCATTCCCAGTCTAAGATCAGACCGAACCAA
*
38679 GGGTTCTGACAGCAGGATCGACTGCATG
131 GGGTTCTGACAGCAGGATCGACTGCATC
* * ** * * * *
38707 AAGGGGGGATCGGGCCGATCCCCGGCTTAAGCATTCTGCCTCTCCGACCGGCTCAGTGCTCGTAC
1 AAGGAGGGATCGGGCCGGTCCCCGGCTTGCGCATTCTGCCTCTCCGATCGGCTCAGCGCCCGCAC
* * * * * * *
38772 GCTCATTTTGTGGGTTGACATAAGCATACGGAGTTCATTCCCAATCTAAGATCAGACCGGACCGA
66 GCTCATTTCGTGGGTTGACTTAGGTATACGGAGTTCATTCCCAGTCTAAGATCAGACCGAACCAA
** *
38837 GGGTTAC-GGTAGCAGGATTGA-TAGCA-C
131 GGGTT-CTGACAGCAGGATCGACT-GCATC
* * * *
38864 ACAGGAGGGATCGGGCCGGTCCCCGACTTGCGCATTCTACCTCTTCGATCGGCTAAAG-GCCCGC
1 A-AGGAGGGATCGGGCCGGTCCCCGGCTTGCGCATTCTGCCTCTCCGATCGGCT-CAGCGCCCGC
* * *
38928 ACGCTCGTTTCGTGGGTTGGCTTAGGTATACGGAGTTCGTT-CCATGTCTAAG
64 ACGCTCATTTCGTGGGTTGACTTAGGTATACGGAGTTCATTCCCA-GTCTAAG
38980 CATATGAAGT
Statistics
Matches: 227, Mismatches: 40, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
157 9 0.04
158 215 0.95
159 3 0.01
ACGTcount: A:0.20, C:0.27, G:0.29, T:0.24
Consensus pattern (158 bp):
AAGGAGGGATCGGGCCGGTCCCCGGCTTGCGCATTCTGCCTCTCCGATCGGCTCAGCGCCCGCAC
GCTCATTTCGTGGGTTGACTTAGGTATACGGAGTTCATTCCCAGTCTAAGATCAGACCGAACCAA
GGGTTCTGACAGCAGGATCGACTGCATC
Done.