Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001401.1 Hibiscus syriacus cultivar Beakdansim tig00002737_pilon, 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: 154828
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:10540 original size:19 final size:19
Alignment explanation
Indices: 10516--10569 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
10506 GCCTTAGCCG
* *
10516 AAAACCGCTTACACCCGAT
1 AAAACCGCTGACACCCAAT
* *
10535 AAAACCGCTGATATCCAAT
1 AAAACCGCTGACACCCAAT
*
10554 AAAACCGCTGATACCC
1 AAAACCGCTGACACCC
10570 CTGGAAGGCG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.39, C:0.33, G:0.11, T:0.17
Consensus pattern (19 bp):
AAAACCGCTGACACCCAAT
Found at i:10772 original size:23 final size:24
Alignment explanation
Indices: 10741--10800 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 24
10731 ATAGTTGTTT
* * *
10741 ATAA-TTTATTATTTTATTCATTA
1 ATAATTTTATTATTTAAGTAATTA
*
10764 A-AATTTTATTGTTTAAGTAATTA
1 ATAATTTTATTATTTAAGTAATTA
*
10787 ATTATTTTATTATT
1 ATAATTTTATTATT
10801 ATTTTAATTT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
22 2 0.07
23 17 0.59
24 10 0.34
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.60
Consensus pattern (24 bp):
ATAATTTTATTATTTAAGTAATTA
Found at i:11029 original size:14 final size:14
Alignment explanation
Indices: 11006--11036 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
10996 TATATTTAAA
11006 TTATTAGAATTTAT
1 TTATTAGAATTTAT
*
11020 TTATTTGAATTTAT
1 TTATTAGAATTTAT
11034 TTA
1 TTA
11037 AATAATTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.61
Consensus pattern (14 bp):
TTATTAGAATTTAT
Found at i:11830 original size:20 final size:21
Alignment explanation
Indices: 11788--11831 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
11778 GATTTCTGGG
*
11788 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAATCGATACCCATT
*
11809 CAAGGGGAA-CGATACCCCTT
1 CAAGGGGAATCGATACCCATT
11829 CAA
1 CAA
11832 ACGACAGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.32, C:0.27, G:0.25, T:0.16
Consensus pattern (21 bp):
CAAGGGGAATCGATACCCATT
Found at i:12430 original size:18 final size:18
Alignment explanation
Indices: 12407--12441 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
12397 CTAGGAGATT
12407 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
12425 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
12442 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:12521 original size:21 final size:22
Alignment explanation
Indices: 12497--12540 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
12487 GGTTTATGAT
12497 AGAAAATTAT-GAAGTTATATG
1 AGAAAATTATAGAAGTTATATG
* *
12518 AGAAGATTATAGGAGTTATATG
1 AGAAAATTATAGAAGTTATATG
12540 A
1 A
12541 AATTGAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.45, C:0.00, G:0.23, T:0.32
Consensus pattern (22 bp):
AGAAAATTATAGAAGTTATATG
Found at i:13443 original size:149 final size:147
Alignment explanation
Indices: 13257--13558 Score: 532
Period size: 149 Copynumber: 2.0 Consensus size: 147
13247 GAGTCGAGGG
13257 TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACAT
1 TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACAT
* *
13322 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGC--ATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTA
*
13387 TATGGCACTACGGTGCAAT
129 TATGGCACTACAGTGCAAT
* * *
13406 TCTATGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
1 TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACAT
13471 ACTTGATCCCTAGCATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTATA
66 ACTTGATCCCTAGCATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTATA
13536 TGGCACTACAGTGCAAT
131 TGGCACTACAGTGCAAT
13553 TCTACG
1 TCTACG
13559 GGGCACTTCG
Statistics
Matches: 146, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
147 70 0.48
149 76 0.52
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (147 bp):
TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACAT
ACTTGATCCCTAGCATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTATA
TGGCACTACAGTGCAAT
Found at i:13568 original size:147 final size:148
Alignment explanation
Indices: 13257--13569 Score: 511
Period size: 147 Copynumber: 2.1 Consensus size: 148
13247 GAGTCGAGGG
** *
13257 TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACAT
1 TCTACGCGGCACTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACAT
* *
13322 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGCA-ATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTA
*
13387 TATGGCACTACGGTGCAAT
130 TATGGCACTACAGTGCAAT
* ** *
13406 TCTATGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
1 TCTACGCGGCACTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACAT
13471 ACTTGATCCCTAGC-ATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTAT
66 ACTTGATCCCTAGCAATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTAT
13535 ATGGCACTACAGTGCAAT
131 ATGGCACTACAGTGCAAT
*
13553 TCTACGGGGCACTTCGG
1 TCTACGCGGCACTTCGG
13570 TGCATTTATA
Statistics
Matches: 154, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
147 78 0.51
149 76 0.49
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (148 bp):
TCTACGCGGCACTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACAT
ACTTGATCCCTAGCAATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTAT
ATGGCACTACAGTGCAAT
Found at i:13581 original size:23 final size:23
Alignment explanation
Indices: 13537--13581 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
13527 ATCATTATAT
*
13537 GGCACTACAGTGCAATTCTACGG
1 GGCACTACAGTGCAATTATACGG
* * *
13560 GGCACTTCGGTGCATTTATACG
1 GGCACTACAGTGCAATTATACG
13582 AGCTGTGGTG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACAGTGCAATTATACGG
Found at i:16137 original size:9 final size:9
Alignment explanation
Indices: 16083--16138 Score: 55
Period size: 9 Copynumber: 6.6 Consensus size: 9
16073 TGAGAGTGAT
*
16083 GATGACGAG
1 GATGAGGAG
*
16092 GAGGAGGAG
1 GATGAGGAG
*
16101 GAAGAGGAG
1 GATGAGGAG
*
16110 GATGAGGAC
1 GATGAGGAG
16119 GATGA--A-
1 GATGAGGAG
16125 GATGAGGAG
1 GATGAGGAG
16134 GATGA
1 GATGA
16139 TGATAAGAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
6 5 0.13
7 1 0.03
8 1 0.03
9 32 0.82
ACGTcount: A:0.38, C:0.04, G:0.50, T:0.09
Consensus pattern (9 bp):
GATGAGGAG
Found at i:18125 original size:20 final size:20
Alignment explanation
Indices: 17986--18125 Score: 58
Period size: 20 Copynumber: 7.0 Consensus size: 20
17976 AAATGACCAA
* *
17986 CAAATTCGCAACGAGAATTC
1 CAAATTCGCAACGCGAATTT
* * *
18006 CAATTTCGCAAC-CCAGTTT
1 CAAATTCGCAACGCGAATTT
* *
18025 CCAATTTGGCAACGCGAATATGT
1 -CAAATTCGCAACGCGAAT-T-T
**
18048 -AAA-TCGCATTGC-AATTTT
1 CAAATTCGCAACGCGAA-TTT
* *
18066 CCAAATTTGCAACGCG-ATAGT
1 -CAAATTCGCAACGCGAAT-TT
* * *
18087 CAAATTTGTAAC-TGAATTT
1 CAAATTCGCAACGCGAATTT
18106 CAAATTCGCAACGCGAATTT
1 CAAATTCGCAACGCGAATTT
18126 AATTTTGCAA
Statistics
Matches: 86, Mismatches: 22, Indels: 24
0.65 0.17 0.18
Matches are distributed among these distances:
18 1 0.01
19 18 0.21
20 52 0.60
21 13 0.15
22 1 0.01
23 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (20 bp):
CAAATTCGCAACGCGAATTT
Found at i:21712 original size:20 final size:20
Alignment explanation
Indices: 21689--21746 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
21679 TTGCGATAGT
*
21689 CAAATTCGCAACCCGAAAGA
1 CAAATTCGCAACGCGAAAGA
* *
21709 CAAATTCGCAACGCGATAGT
1 CAAATTCGCAACGCGAAAGA
*
21729 CAAATTCACAACGCGAAA
1 CAAATTCGCAACGCGAAA
21747 TCGCAAACCA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.43, C:0.28, G:0.16, T:0.14
Consensus pattern (20 bp):
CAAATTCGCAACGCGAAAGA
Found at i:21780 original size:20 final size:20
Alignment explanation
Indices: 21757--21815 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
21747 TCGCAAACCA
21757 AATTTGACTTTCGCGATGCG
1 AATTTGACTTTCGCGATGCG
* * *
21777 AATTTTACTTTAGCGTTGCG
1 AATTTGACTTTCGCGATGCG
* *
21797 AATTTGACTATCGCAATGC
1 AATTTGACTTTCGCGATGC
21816 TTATTTCGCG
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (20 bp):
AATTTGACTTTCGCGATGCG
Found at i:21834 original size:34 final size:34
Alignment explanation
Indices: 21789--21869 Score: 153
Period size: 34 Copynumber: 2.4 Consensus size: 34
21779 TTTTACTTTA
21789 GCGTTGCGAATTTGACTATCGCAATGCTTATTTC
1 GCGTTGCGAATTTGACTATCGCAATGCTTATTTC
*
21823 GCGTTGTGAATTTGACTATCGCAATGCTTATTTC
1 GCGTTGCGAATTTGACTATCGCAATGCTTATTTC
21857 GCGTTGCGAATTT
1 GCGTTGCGAATTT
21870 ACCTTCAACA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 45 1.00
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.40
Consensus pattern (34 bp):
GCGTTGCGAATTTGACTATCGCAATGCTTATTTC
Found at i:21973 original size:25 final size:25
Alignment explanation
Indices: 21935--21986 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
21925 AAATCAATTA
* *
21935 AACATTGTTGTGGGTATATTATTTG
1 AACATTGTTATGGGTACATTATTTG
21960 AACATTGTTATGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
21985 AA
1 AA
21987 AAAAATAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.29, C:0.06, G:0.21, T:0.44
Consensus pattern (25 bp):
AACATTGTTATGGGTACATTATTTG
Found at i:22384 original size:18 final size:18
Alignment explanation
Indices: 22363--22399 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
22353 GTAATTGGAG
22363 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
22381 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
22399 T
1 T
22400 ATAAATTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:22406 original size:24 final size:24
Alignment explanation
Indices: 22355--22407 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
22345 TTTCATATGT
* * *
22355 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
*
22379 AATTTGAGTTTGAATTTCAATATA
1 AATTTGAGTTTGAATTTAAATATA
22403 AATTT
1 AATTT
22408 TGGCTCTACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:22792 original size:38 final size:39
Alignment explanation
Indices: 22709--22794 Score: 129
Period size: 39 Copynumber: 2.2 Consensus size: 39
22699 TCCGATGCTC
*
22709 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCAAAAGCTCATATGGTGCCAAGCAAAAGGAA
* * *
22748 ATCAAAATCAAAATCTCATATGGTGTCAAG-TAAAGGAA
1 ATCAAAATCAAAAGCTCATATGGTGCCAAGCAAAAGGAA
22786 ATCAAAATC
1 ATCAAAATC
22795 TACAACTTGA
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
38 16 0.37
39 27 0.63
ACGTcount: A:0.48, C:0.17, G:0.15, T:0.20
Consensus pattern (39 bp):
ATCAAAATCAAAAGCTCATATGGTGCCAAGCAAAAGGAA
Found at i:23144 original size:14 final size:14
Alignment explanation
Indices: 23125--23184 Score: 50
Period size: 14 Copynumber: 4.4 Consensus size: 14
23115 ATTCTTATTT
23125 ACAAATCAAATTAA
1 ACAAATCAAATTAA
* **
23139 ACAAATCAACTTTT
1 ACAAATCAAATTAA
* **
23153 ACAAATCAACTTTT
1 ACAAATCAAATTAA
23167 ACAAATC-AATTAA
1 ACAAATCAAATTAA
*
23180 TCAAA
1 ACAAA
23185 AAATAAATCT
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
13 7 0.18
14 32 0.82
ACGTcount: A:0.53, C:0.18, G:0.00, T:0.28
Consensus pattern (14 bp):
ACAAATCAAATTAA
Found at i:23154 original size:28 final size:28
Alignment explanation
Indices: 23122--23175 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
23112 ATAATTCTTA
23122 TTTACAAATCAAATTAAACAAATCAACT
1 TTTACAAATCAAATTAAACAAATCAACT
* **
23150 TTTACAAATCAACTTTTACAAATCAA
1 TTTACAAATCAAATTAAACAAATCAA
23176 TTAATCAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.50, C:0.19, G:0.00, T:0.31
Consensus pattern (28 bp):
TTTACAAATCAAATTAAACAAATCAACT
Found at i:24619 original size:21 final size:21
Alignment explanation
Indices: 24595--24693 Score: 87
Period size: 21 Copynumber: 4.7 Consensus size: 21
24585 GCGGGTGGGA
24595 CCTCTTGAACGATGACG-GGGG
1 CCTCTTGAACGATGA-GAGGGG
* * *
24616 CCTCTTAAACGGTGGGAGGGG
1 CCTCTTGAACGATGAGAGGGG
* *
24637 CTTCTTCG-ATGATGAGAGGGG
1 CCTCTT-GAACGATGAGAGGGG
*
24658 CCTCTTGAACGAT-AGGAGGCG
1 CCTCTTGAACGATGA-GAGGGG
*
24679 CCTCTTGAATGATGA
1 CCTCTTGAACGATGA
24694 TAGGTGCATC
Statistics
Matches: 61, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
20 3 0.05
21 57 0.93
22 1 0.02
ACGTcount: A:0.21, C:0.20, G:0.35, T:0.23
Consensus pattern (21 bp):
CCTCTTGAACGATGAGAGGGG
Found at i:24676 original size:42 final size:42
Alignment explanation
Indices: 24595--24693 Score: 112
Period size: 42 Copynumber: 2.4 Consensus size: 42
24585 GCGGGTGGGA
* * * *
24595 CCTCTTGAACGATGACG-GGGGCCTCTTAAACGGTGGGAGGGG
1 CCTCTTGAATGATGA-GAGGGGCCTCTTAAACGATAGGAGGCG
* *
24637 CTTCTTCG-ATGATGAGAGGGGCCTCTTGAACGATAGGAGGCG
1 CCTCTT-GAATGATGAGAGGGGCCTCTTAAACGATAGGAGGCG
24679 CCTCTTGAATGATGA
1 CCTCTTGAATGATGA
24694 TAGGTGCATC
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
41 2 0.04
42 44 0.94
43 1 0.02
ACGTcount: A:0.21, C:0.20, G:0.35, T:0.23
Consensus pattern (42 bp):
CCTCTTGAATGATGAGAGGGGCCTCTTAAACGATAGGAGGCG
Found at i:25120 original size:21 final size:21
Alignment explanation
Indices: 25093--25142 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
25083 ACTATTATCT
* *
25093 TCACGTAAAGTACCGACTTCA
1 TCACGTAAAGCACCGACCTCA
*
25114 TGACGTAAAGCACCGACCTCA
1 TCACGTAAAGCACCGACCTCA
25135 TCACGTAA
1 TCACGTAA
25143 TTCCTCTAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.34, C:0.30, G:0.16, T:0.20
Consensus pattern (21 bp):
TCACGTAAAGCACCGACCTCA
Found at i:27167 original size:22 final size:22
Alignment explanation
Indices: 27139--27189 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
27129 GATGGAGATA
27139 GACGGATTTCGTCGGAAATGGG
1 GACGGATTTCGTCGGAAATGGG
*
27161 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGTCGGAAATGGG
27183 GACGGAT
1 GACGGAT
27190 GTCGCCGTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.22, C:0.14, G:0.43, T:0.22
Consensus pattern (22 bp):
GACGGATTTCGTCGGAAATGGG
Found at i:27342 original size:20 final size:20
Alignment explanation
Indices: 27317--27365 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
27307 GCGTAAAAAC
27317 ATTTGACTTTCGCGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
*
27337 ATTTGACTATCGCGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
27357 ATTTGACTT
1 ATTTGACTT
27366 CTGTGTTGCG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.41
Consensus pattern (20 bp):
ATTTGACTTTCGCGTTGCGA
Found at i:27373 original size:20 final size:20
Alignment explanation
Indices: 27317--27376 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
27307 GCGTAAAAAC
27317 ATTTGACTT-TCGCGTTGCGA
1 ATTTGACTTCT-GCGTTGCGA
27337 ATTTGACTATC-GCGTTGCGA
1 ATTTGACT-TCTGCGTTGCGA
*
27357 ATTTGACTTCTGTGTTGCGA
1 ATTTGACTTCTGCGTTGCGA
27377 TTTACAAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
19 2 0.06
20 33 0.92
21 1 0.03
ACGTcount: A:0.17, C:0.18, G:0.25, T:0.40
Consensus pattern (20 bp):
ATTTGACTTCTGCGTTGCGA
Found at i:27374 original size:40 final size:40
Alignment explanation
Indices: 27317--27397 Score: 96
Period size: 40 Copynumber: 2.0 Consensus size: 40
27307 GCGTAAAAAC
*
27317 ATTTGACTTTCGCGTTGCGAATTTGAC-TA-TCGCGTTGCGA
1 ATTTGACTTTCGCGTTGCG-ATTT-ACAAATTCGCGTTGCGA
*
27357 ATTTGAC-TTCTGTGTTGCGATTTACAAATTCGCGTTGCGA
1 ATTTGACTTTC-GCGTTGCGATTTACAAATTCGCGTTGCGA
27397 A
1 A
27398 ATTGGAAACT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
38 2 0.06
39 8 0.22
40 26 0.72
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (40 bp):
ATTTGACTTTCGCGTTGCGATTTACAAATTCGCGTTGCGA
Found at i:35806 original size:20 final size:19
Alignment explanation
Indices: 35781--35819 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
35771 AATTAGTGTA
35781 ATTTTACACGTAAAATTTTG
1 ATTTTA-ACGTAAAATTTTG
**
35801 ATTTTAGTGTAAAATTTTG
1 ATTTTAACGTAAAATTTTG
35820 GTGGGTTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.33, C:0.05, G:0.13, T:0.49
Consensus pattern (19 bp):
ATTTTAACGTAAAATTTTG
Found at i:36684 original size:30 final size:30
Alignment explanation
Indices: 36633--36715 Score: 141
Period size: 30 Copynumber: 2.8 Consensus size: 30
36623 TTTATATTTC
36633 CAATTTGTTGTTGCA-TTGTGTTATTATCT
1 CAATTTGTTGTTGCATTTGTGTTATTATCT
*
36662 CAATTTGATGTTGCATTTGTGTTATTATCT
1 CAATTTGTTGTTGCATTTGTGTTATTATCT
*
36692 CAATTTGTTGTTGTATTTGTGTTA
1 CAATTTGTTGTTGCATTTGTGTTA
36716 CTGTTAGAGA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 14 0.28
30 36 0.72
ACGTcount: A:0.18, C:0.08, G:0.18, T:0.55
Consensus pattern (30 bp):
CAATTTGTTGTTGCATTTGTGTTATTATCT
Found at i:37269 original size:28 final size:28
Alignment explanation
Indices: 37211--37269 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 28
37201 ACCTAATGAG
* * *
37211 TTAAAAAAATATAAATTACTAAATTATA
1 TTAAAAAAATATAAATTACAAAAATAAA
* * *
37239 TTAAAAATATTTATATTACAAAAATAAA
1 TTAAAAAAATATAAATTACAAAAATAAA
37267 TTA
1 TTA
37270 TATAAAATTA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.37
Consensus pattern (28 bp):
TTAAAAAAATATAAATTACAAAAATAAA
Found at i:37270 original size:18 final size:16
Alignment explanation
Indices: 37230--37281 Score: 54
Period size: 15 Copynumber: 3.2 Consensus size: 16
37220 TATAAATTAC
37230 TAAATTATATTAAAAA
1 TAAATTATATTAAAAA
*
37246 T-ATTTATATTACAAAAA
1 TAAATTATATT--AAAAA
*
37263 TAAATTATA-TAAAAT
1 TAAATTATATTAAAAA
37278 TAAA
1 TAAA
37282 AATATATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
15 16 0.53
16 1 0.03
17 7 0.23
18 6 0.20
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (16 bp):
TAAATTATATTAAAAA
Found at i:38117 original size:22 final size:22
Alignment explanation
Indices: 38089--38130 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
38079 TCAAACTGCT
38089 CATCTTTGTTCTC-TTATATTTC
1 CATCTTTGTTC-CATTATATTTC
38111 CATCTTTGTTCCATTATATT
1 CATCTTTGTTCCATTATATT
38131 CCCTTAGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.17, C:0.21, G:0.05, T:0.57
Consensus pattern (22 bp):
CATCTTTGTTCCATTATATTTC
Found at i:45270 original size:45 final size:45
Alignment explanation
Indices: 45206--45340 Score: 234
Period size: 45 Copynumber: 3.0 Consensus size: 45
45196 AAATCCTCCA
*
45206 ACTTTAGGGTGATGCTTTGTTGAATCTCCGACTATTTATATGTTC
1 ACTTTAGGGTGATGCTTTGTTGAATCTCCGACTATTCATATGTTC
*
45251 ACTTTAGGGTGCTGCTTTGTTGAATCTCCGACTATTCATATGTTC
1 ACTTTAGGGTGATGCTTTGTTGAATCTCCGACTATTCATATGTTC
* *
45296 ACTTTAGGGTGTTGCTTTGTTGAATATCCGACTATTCATATGTTC
1 ACTTTAGGGTGATGCTTTGTTGAATCTCCGACTATTCATATGTTC
45341 TAGACTTATC
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 86 1.00
ACGTcount: A:0.19, C:0.17, G:0.20, T:0.44
Consensus pattern (45 bp):
ACTTTAGGGTGATGCTTTGTTGAATCTCCGACTATTCATATGTTC
Found at i:48166 original size:17 final size:17
Alignment explanation
Indices: 48144--48181 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
48134 CGTGTCCCGA
48144 CCGGATGTTT-CAGGTAC
1 CCGGAT-TTTGCAGGTAC
*
48161 CCGGATTTTGCGGGTAC
1 CCGGATTTTGCAGGTAC
48178 CCGG
1 CCGG
48182 TAACCGGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 3 0.16
17 16 0.84
ACGTcount: A:0.13, C:0.26, G:0.34, T:0.26
Consensus pattern (17 bp):
CCGGATTTTGCAGGTAC
Found at i:50616 original size:51 final size:51
Alignment explanation
Indices: 50560--50670 Score: 145
Period size: 51 Copynumber: 2.2 Consensus size: 51
50550 GGCCTATATA
*
50560 CCGCGCCTTACGCTAATGT-GGCA-CCATTTGGGGTAAGGCGCAGTGCATGCG
1 CCGCGCCTTACGCT-A-GTAGGCAGCCATATGGGGTAAGGCGCAGTGCATGCG
* * *
50611 TCGCGCCTTATGCTAGTAGGGAGCCATATGGGGTAAGGCGCAGTGCATGCG
1 CCGCGCCTTACGCTAGTAGGCAGCCATATGGGGTAAGGCGCAGTGCATGCG
*
50662 CCTCGCCTT
1 CCGCGCCTT
50671 TCTACCGGCT
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
49 2 0.04
50 4 0.08
51 46 0.88
ACGTcount: A:0.17, C:0.27, G:0.33, T:0.23
Consensus pattern (51 bp):
CCGCGCCTTACGCTAGTAGGCAGCCATATGGGGTAAGGCGCAGTGCATGCG
Found at i:50850 original size:10 final size:10
Alignment explanation
Indices: 50818--50851 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
50808 CATAACACCG
50818 AATCTTCTCA
1 AATCTTCTCA
* *
50828 AAACCTCTCA
1 AATCTTCTCA
50838 AATCTTCTCA
1 AATCTTCTCA
50848 AATC
1 AATC
50852 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.35, C:0.32, G:0.00, T:0.32
Consensus pattern (10 bp):
AATCTTCTCA
Found at i:50858 original size:20 final size:20
Alignment explanation
Indices: 50818--50859 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
50808 CATAACACCG
* *
50818 AATCTTCTCAAAACCTCTCA
1 AATCTTCTCAAAACATATCA
*
50838 AATCTTCTCAAATCATATCA
1 AATCTTCTCAAAACATATCA
50858 AA
1 AA
50860 AATCAAACCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.29, G:0.00, T:0.31
Consensus pattern (20 bp):
AATCTTCTCAAAACATATCA
Found at i:50943 original size:31 final size:26
Alignment explanation
Indices: 50875--50937 Score: 126
Period size: 26 Copynumber: 2.4 Consensus size: 26
50865 AACCCCGATC
50875 AAATTTTATTTAGAAGGTAATATATT
1 AAATTTTATTTAGAAGGTAATATATT
50901 AAATTTTATTTAGAAGGTAATATATT
1 AAATTTTATTTAGAAGGTAATATATT
50927 AAATTTTATTT
1 AAATTTTATTT
50938 TATTTAATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (26 bp):
AAATTTTATTTAGAAGGTAATATATT
Found at i:50958 original size:20 final size:20
Alignment explanation
Indices: 50933--50971 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
50923 TATTAAATTT
*
50933 TATTTTATTTAATTTTTTAG
1 TATTTTATTTAATTATTTAG
50953 TATTTTATTTAATTATTTA
1 TATTTTATTTAATTATTTA
50972 ATTTTTTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (20 bp):
TATTTTATTTAATTATTTAG
Found at i:50974 original size:28 final size:29
Alignment explanation
Indices: 50937--50992 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
50927 AAATTTTATT
50937 TTATTTAA-TTTTTTAGTATTTTATTTAA
1 TTATTTAATTTTTTTAGTATTTTATTTAA
50965 TTATTTAATTTTTTTAGTATTTTATTTA
1 TTATTTAATTTTTTTAGTATTTTATTTA
50993 TTTTTTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
28 8 0.30
29 19 0.70
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.70
Consensus pattern (29 bp):
TTATTTAATTTTTTTAGTATTTTATTTAA
Found at i:50978 original size:20 final size:20
Alignment explanation
Indices: 50935--51004 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
50925 TTAAATTTTA
* * *
50935 TTTTATTTAATTTTTTAGTA
1 TTTTATTTAATTATTTAATT
50955 TTTTATTTAATTATTTAATTT
1 TTTTATTTAATTATTTAA-TT
*
50976 TTTTAGTATT--TTATTTATTT
1 TTTTA-T-TTAATTATTTAATT
50996 TTTTATTTA
1 TTTTATTTA
51005 TTTGCAGTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
18 2 0.05
19 1 0.02
20 23 0.55
21 13 0.31
22 1 0.02
23 2 0.05
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (20 bp):
TTTTATTTAATTATTTAATT
Found at i:51000 original size:29 final size:28
Alignment explanation
Indices: 50931--51000 Score: 104
Period size: 29 Copynumber: 2.4 Consensus size: 28
50921 TATATTAAAT
50931 TTTATTTTATTTAATTTTTTAGTATTTTA
1 TTTATTTT-TTTAATTTTTTAGTATTTTA
* *
50960 TTTAATTATTTAATTTTTTTAGTATTTTA
1 TTTATTTTTTTAA-TTTTTTAGTATTTTA
50989 TTTATTTTTTTA
1 TTTATTTTTTTA
51001 TTTATTTGCA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
28 5 0.14
29 31 0.86
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (28 bp):
TTTATTTTTTTAATTTTTTAGTATTTTA
Found at i:52980 original size:6 final size:6
Alignment explanation
Indices: 52967--53006 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
52957 TTTGCTCCTA
* * *
52967 ATGACG ACGACG ACGATG ATGACG ATGACG ATGACG ATGA
1 ATGACG ATGACG ATGACG ATGACG ATGACG ATGACG ATGA
53007 TGGTGATGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.35, C:0.17, G:0.33, T:0.15
Consensus pattern (6 bp):
ATGACG
Found at i:52990 original size:9 final size:9
Alignment explanation
Indices: 52967--53027 Score: 50
Period size: 9 Copynumber: 6.4 Consensus size: 9
52957 TTTGCTCCTA
*
52967 ATGACGACG
1 ATGACGATG
*
52976 ACGACGATG
1 ATGACGATG
52985 ATGACGATGACG
1 ATGACGAT---G
52997 ATGACGATG
1 ATGACGATG
**
53006 ATGGTGATG
1 ATGACGATG
*
53015 ATGATGATG
1 ATGACGATG
53024 ATGA
1 ATGA
53028 TAATGAGGAA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
9 34 0.79
12 9 0.21
ACGTcount: A:0.33, C:0.11, G:0.34, T:0.21
Consensus pattern (9 bp):
ATGACGATG
Found at i:53008 original size:15 final size:15
Alignment explanation
Indices: 52967--53008 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
52957 TTTGCTCCTA
*
52967 ATGACGACGACGACG
1 ATGACGACGATGACG
*
52982 ATGATGACGATGACG
1 ATGACGACGATGACG
*
52997 ATGACGATGATG
1 ATGACGACGATG
53009 GTGATGATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.33, C:0.17, G:0.33, T:0.17
Consensus pattern (15 bp):
ATGACGACGATGACG
Found at i:53013 original size:6 final size:6
Alignment explanation
Indices: 52981--53033 Score: 61
Period size: 6 Copynumber: 8.8 Consensus size: 6
52971 CGACGACGAC
* * * *
52981 GATGAT GACGAT GACGAT GACGAT GATGGT GATGAT GATGAT GATGAT
1 GATGAT GATGAT GATGAT GATGAT GATGAT GATGAT GATGAT GATGAT
*
53029 AATGA
1 GATGA
53034 GGAATCAGAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.34, C:0.06, G:0.34, T:0.26
Consensus pattern (6 bp):
GATGAT
Found at i:53028 original size:9 final size:9
Alignment explanation
Indices: 52981--53033 Score: 61
Period size: 9 Copynumber: 5.9 Consensus size: 9
52971 CGACGACGAC
*
52981 GATGATGAC
1 GATGATGAT
*
52990 GATGACGAT
1 GATGATGAT
*
52999 GACGATGAT
1 GATGATGAT
*
53008 GGTGATGAT
1 GATGATGAT
53017 GATGATGAT
1 GATGATGAT
*
53026 GATAATGA
1 GATGATGA
53034 GGAATCAGAA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.34, C:0.06, G:0.34, T:0.26
Consensus pattern (9 bp):
GATGATGAT
Found at i:53033 original size:12 final size:12
Alignment explanation
Indices: 52975--53024 Score: 64
Period size: 12 Copynumber: 4.2 Consensus size: 12
52965 TAATGACGAC
*
52975 GACGACGATGAT
1 GACGATGATGAT
*
52987 GACGATGACGAT
1 GACGATGATGAT
*
52999 GACGATGATGGT
1 GACGATGATGAT
*
53011 GATGATGATGAT
1 GACGATGATGAT
53023 GA
1 GA
53025 TGATAATGAG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.32, C:0.10, G:0.36, T:0.22
Consensus pattern (12 bp):
GACGATGATGAT
Found at i:58907 original size:25 final size:27
Alignment explanation
Indices: 58866--58947 Score: 80
Period size: 25 Copynumber: 3.0 Consensus size: 27
58856 TGGTGAGGGA
58866 AAATATATTATTGAACTTATTTTAGTTT
1 AAATATA-TATTGAACTTATTTTAGTTT
* *
58894 AAA-A-ATATTAAACTAAGTTTTA-TTAT
1 AAATATATATTGAACTTA-TTTTAGTT-T
*
58920 AAATATTATAGTGAACTTATTTTAGTTT
1 AAATA-TATATTGAACTTATTTTAGTTT
58948 TTAAAACATT
Statistics
Matches: 43, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
25 11 0.26
26 10 0.23
27 2 0.05
28 9 0.21
29 11 0.26
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.49
Consensus pattern (27 bp):
AAATATATATTGAACTTATTTTAGTTT
Found at i:61037 original size:33 final size:33
Alignment explanation
Indices: 60985--61069 Score: 118
Period size: 33 Copynumber: 2.6 Consensus size: 33
60975 GGTCATCTGA
* * * *
60985 CCGAGGCCATCCGAACGAGCTATGCGAGGGCAT
1 CCGAGGGCAACCGAGCGAGCTATGCGAGGGAAT
61018 CCGAGGGCAACCGAGCGAGCTATGCGAGGGAAT
1 CCGAGGGCAACCGAGCGAGCTATGCGAGGGAAT
61051 CCGAGGG-AAGCCGAGCGAG
1 CCGAGGGCAA-CCGAGCGAG
61070 GGTAGGTCGC
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
32 2 0.04
33 45 0.96
ACGTcount: A:0.26, C:0.27, G:0.39, T:0.08
Consensus pattern (33 bp):
CCGAGGGCAACCGAGCGAGCTATGCGAGGGAAT
Found at i:61106 original size:29 final size:29
Alignment explanation
Indices: 61073--61128 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
61063 GAGCGAGGGT
*
61073 AGGTCGCCCGGAGTGCATGGCGACCTACA
1 AGGTCGCCCGGAGGGCATGGCGACCTACA
61102 AGGTCGCCCGGAGGGCATGGCGACCTA
1 AGGTCGCCCGGAGGGCATGGCGACCTA
61129 TGTGTTGGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.20, C:0.30, G:0.38, T:0.12
Consensus pattern (29 bp):
AGGTCGCCCGGAGGGCATGGCGACCTACA
Found at i:61250 original size:29 final size:29
Alignment explanation
Indices: 61208--61263 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
61198 GAGCAAGGGT
*
61208 AGGTCGCCCGGAGTGCATGACGACCTATA
1 AGGTCGCCCAGAGTGCATGACGACCTATA
*
61237 AGGTCGCCCAGAGTGCATGGCGACCTA
1 AGGTCGCCCAGAGTGCATGACGACCTA
61264 CGGCCAACAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.23, C:0.29, G:0.32, T:0.16
Consensus pattern (29 bp):
AGGTCGCCCAGAGTGCATGACGACCTATA
Found at i:63776 original size:72 final size:72
Alignment explanation
Indices: 63659--63806 Score: 278
Period size: 72 Copynumber: 2.1 Consensus size: 72
63649 ACAACATTTC
*
63659 TGGTCCCATTCCACTGTCGATAGGGGAGTTATCATCTTTGAAGGTCTTTGATGTTTCAGAAAATC
1 TGGTCACATTCCACTGTCGATAGGGGAGTTATCATCTTTGAAGGTCTTTGATGTTTCAGAAAATC
63724 AATTAAA
66 AATTAAA
*
63731 TGGTCACATTCCACTGTCGATAGGGGAGTTATCATCTTTGGAGGTCTTTGATGTTTCAGAAAATC
1 TGGTCACATTCCACTGTCGATAGGGGAGTTATCATCTTTGAAGGTCTTTGATGTTTCAGAAAATC
63796 AATTAAA
66 AATTAAA
63803 TGGT
1 TGGT
63807 ACTCTTCCTC
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 74 1.00
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (72 bp):
TGGTCACATTCCACTGTCGATAGGGGAGTTATCATCTTTGAAGGTCTTTGATGTTTCAGAAAATC
AATTAAA
Found at i:65488 original size:3 final size:3
Alignment explanation
Indices: 65480--65536 Score: 60
Period size: 3 Copynumber: 18.0 Consensus size: 3
65470 CAGTTTGCTT
* * *
65480 TTA TTA TTA TTA TTTG TTA TTAA TTA TTA TTA TCA TTA TTA TACA TTA
1 TTA TTA TTA TTA -TTA TTA TT-A TTA TTA TTA TTA TTA TTA T-TA TTA
65528 TTA TTA TTA
1 TTA TTA TTA
65537 AATAAATATT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
3 38 0.84
4 7 0.16
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:67948 original size:18 final size:18
Alignment explanation
Indices: 67927--67973 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
67917 TTATTTCAAT
*
67927 TTTTTTTATTATTTATTA
1 TTTTATTATTATTTATTA
*
67945 TTTTCA-TAATATTTATTA
1 TTTT-ATTATTATTTATTA
67963 TATTTATTATT
1 T-TTTATTATT
67974 TTATTTTCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
18 17 0.74
19 6 0.26
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTTATTATTATTTATTA
Found at i:67967 original size:9 final size:9
Alignment explanation
Indices: 67936--67978 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
67926 TTTTTTTTAT
67936 TATTTATTA
1 TATTTATTA
*
67945 T-TTTCATAA
1 TATTT-ATTA
67954 TATTTATTA
1 TATTTATTA
67963 TATTTATTA
1 TATTTATTA
67972 T-TTTATT
1 TATTTATT
67979 TTCAAGTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
8 9 0.30
9 18 0.60
10 3 0.10
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (9 bp):
TATTTATTA
Found at i:70197 original size:43 final size:44
Alignment explanation
Indices: 70150--70232 Score: 123
Period size: 43 Copynumber: 1.9 Consensus size: 44
70140 AATAAAGAAA
* * *
70150 TTAGGAGTGAAAGTTATTCCCTATATGT-AAAGTTTTGTTGAAG
1 TTAGGACTGAAAGTTATCCCCTACATGTAAAAGTTTTGTTGAAG
*
70193 TTAGGACTGAAAGTTGTCCCCTACATGTAAAAGTTTTGTT
1 TTAGGACTGAAAGTTATCCCCTACATGTAAAAGTTTTGTT
70233 TGATGTACTG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
43 24 0.69
44 11 0.31
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.39
Consensus pattern (44 bp):
TTAGGACTGAAAGTTATCCCCTACATGTAAAAGTTTTGTTGAAG
Found at i:72802 original size:13 final size:13
Alignment explanation
Indices: 72784--72808 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
72774 TCCAACAAAG
72784 AAAGAAGAAAAAA
1 AAAGAAGAAAAAA
72797 AAAGAAGAAAAA
1 AAAGAAGAAAAA
72809 GGAAAATTGA
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:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (13 bp):
AAAGAAGAAAAAA
Found at i:75256 original size:115 final size:114
Alignment explanation
Indices: 74998--75311 Score: 502
Period size: 115 Copynumber: 2.7 Consensus size: 114
74988 GAATGTGCTC
* *
74998 ATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATCTAATTTGGTATGAACTCCAAAATCAAT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGTATGAACTCCAAAATCAAT
* * *
75063 CATTGGATTTGAAAGATGAATTTGCTCATGGTAGAAATAAGGAGGCTCA
66 CATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACCCA
75112 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGTATGAACTCCAAAATCAAT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGTATGAACTCCAAAATCAAT
*
75177 CATTGGATTTGAAAGATGAGTTTTGCTCATAGTAGAAATAAGGAGACCCA
66 CATTGGATTTGAAAGATGA-ATTTGCTCATAGTAGAAATAAGGAGACCCA
* * * * * *
75227 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTCGGTAGGAACCCCAGAACCGAT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGTATGAACTCCAAAATCAAT
*
75292 CATTGGAATTGAAAGATGAA
66 CATTGGATTTGAAAGATGAA
75312 CTGCATGATC
Statistics
Matches: 185, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
114 82 0.44
115 103 0.56
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.33
Consensus pattern (114 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGTATGAACTCCAAAATCAAT
CATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACCCA
Found at i:77560 original size:54 final size:54
Alignment explanation
Indices: 77459--77570 Score: 143
Period size: 54 Copynumber: 2.1 Consensus size: 54
77449 CAATGATTGA
***
77459 GAACATCTGAGCAGAAGCCACAAAAAAGAATAAATGTGTTGTCAAATGTTTTAC
1 GAACATCTGAGCAGAAGCCACAAAAAAGAATAAATGCACTGTCAAATGTTTTAC
* ** * * *
77513 GAACATCTGAGCAGAAGCCATAGGAAAGGATGAATGCACTGTTAAATGTTTTAC
1 GAACATCTGAGCAGAAGCCACAAAAAAGAATAAATGCACTGTCAAATGTTTTAC
77567 GAAC
1 GAAC
77571 CTGCTATTCG
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.23
Consensus pattern (54 bp):
GAACATCTGAGCAGAAGCCACAAAAAAGAATAAATGCACTGTCAAATGTTTTAC
Found at i:78898 original size:76 final size:76
Alignment explanation
Indices: 78770--81033 Score: 1418
Period size: 76 Copynumber: 29.6 Consensus size: 76
78760 CTATTTCCCA
* *
78770 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
78835 AGCCTCAGGGT
66 AGCCTCAGGGT
78846 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGC-TTTTTGATGTTTTCA
78911 AAGCCTCAGGGT
65 AAGCCTCAGGGT
78923 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGC-TTTTTGATGTTTTCA
78988 AAGCCTCAGGGT
65 AAGCCTCAGGGT
* *
79000 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
79065 AGCCTTAGGGT
66 AGCCTCAGGGT
*
79076 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
79141 AGCCTTAGGGG
66 AGCCTCAGGGT
79152 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
79217 AACCTCAGGGT
66 AGCCTCAGGGT
* * *
79228 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
79293 A-CCTTAGGGT
66 AGCCTCAGGGT
* * * * * * **
79303 CATCTGTAAGTCCTACAGTACATG-T-TATTTCAAAAA-CATAAT-GAGAAAACGATTTCCATAG
1 CATCTGTAAGTCCTTCAGTGCATGATGT-TTTCAAAAAGCCT--TCG-G-GAGC-TTTTTGAT-G
***** ***
79364 TTTCTCATTTTATC-TTTT
59 TTT-TCAAAGCCTCAGGGT
* ** * ** * ** * ** * **** **
79382 AAAATG-AAATTGTTGAAAAGTAAG-AAAACGATTTTC--TTAG-TTTTTTTA-CTTATTAAACT
1 CATCTGTAAGTCCTT---CAGT--GCATGATG-TTTTCAAAAAGCCTTCGGGAGCTT-TTTGA-T
* * * * * *
79441 ATTTCCAACAACCTTATCTGGA
58 GTTTTCAA-AGCCTCA--GGGT
* * * * ** * *** ** ** * * **
79463 GAT-TGGGGCATGTTACC--CAAT-CAACATGTTATCTTGAAAAATAATGAGAAAACGATTTCCA
1 CATCT---GTAAG-T-CCTTCAGTGCATGATG-T-T-TTCAAAAAGCCTTCGGGAGC-TTTTTGA
* ***
79524 TAGTTTCTC--A--TTCAATCT
57 T-GTTT-TCAAAGCCTCAGGGT
** * *** * *** ** ***
79542 TTTCTGAAAATGAAATT--GTTGAAT-A-G-TAAGAAAACA-ATTTCCATAG-TTTCTT-ACT-T
1 CATCTG-TAA-GTCCTTCAG-TGCATGATGTTTTCAAAA-AGCCTTCGGGAGCTTT-TTGA-TGT
** * ******
79598 AGT-AAA-CTATTTCCCA
60 TTTCAAAGC-CTCAGGGT
* *
79614 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
79679 AGCCTCAGGGT
66 AGCCTCAGGGT
79690 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGC-TTTTTGATGTTTTCA
79755 AAGCCTCAGGGT
65 AAGCCTCAGGGT
* *
79767 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
79832 AGCCTTAGGGT
66 AGCCTCAGGGT
*
79843 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
79908 AGCCTTAGGGG
66 AGCCTCAGGGT
79919 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
79984 AACCTCAGGGT
66 AGCCTCAGGGT
* * *
79995 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
80060 A-CCTTAGGGT
66 AGCCTCAGGGT
* * * * * * **
80070 CATCTGTAAGTCCTACAGTACATG-T-TATTTCAAAAA-CATAAT-GAGAAAACGATTTCCATAG
1 CATCTGTAAGTCCTTCAGTGCATGATGT-TTTCAAAAAGCCT--TCG-G-GAGC-TTTTTGAT-G
***** ***
80131 TTTCTCATTTTATC-TTTT
59 TTT-TCAAAGCCTCAGGGT
* ** * ** * ** * ** * **** **
80149 AAAATG-AAATTGTTGAAAAGTAAG-AAAACGATTTTC--TTAG-TTTTTTTA-CTTATTAAACT
1 CATCTGTAAGTCCTT---CAGT--GCATGATG-TTTTCAAAAAGCCTTCGGGAGCTT-TTTGA-T
* * * * * *
80208 ATTTCCAACAACCTTATCTGGA
58 GTTTTCAA-AGCCTCA--GGGT
* * * * ** * *** ** ** * * **
80230 GAT-TGGGGCATGTTACC--CAAT-CAACATGTTATCTTGAAAAATAATGAGAAAACGATTTCCA
1 CATCT---GTAAG-T-CCTTCAGTGCATGATG-T-T-TTCAAAAAGCCTTCGGGAGC-TTTTTGA
* ***
80291 TAGTTTCTC--A--TTCAATCT
57 T-GTTT-TCAAAGCCTCAGGGT
** * *** * *** ** ***
80309 TTTCTGAAAATGAAATT--GTTGAAT-A-G-TAAGAAAACA-ATTTCCATAG-TTTCTT-ACT-T
1 CATCTG-TAA-GTCCTTCAG-TGCATGATGTTTTCAAAA-AGCCTTCGGGAGCTTT-TTGA-TGT
** * ******
80365 AGT-AAA-CTATTTCCCA
60 TTTCAAAGC-CTCAGGGT
* *
80381 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
80446 AGCCTCAGGGT
66 AGCCTCAGGGT
80457 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGC-TTTTTGATGTTTTCA
80522 AAGCCTCAGGGT
65 AAGCCTCAGGGT
80534 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGC-TTTTTGATGTTTTCA
80599 AAGCCTCAGGGT
65 AAGCCTCAGGGT
* *
80611 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
80676 AGCCTTAGGGT
66 AGCCTCAGGGT
*
80687 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
80752 AGCCTTAGGGG
66 AGCCTCAGGGT
80763 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
80828 AACCTCAGGGT
66 AGCCTCAGGGT
* * *
80839 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
80904 A-CCTTAGGGT
66 AGCCTCAGGGT
* *
80914 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
80979 AGCCTTAGGGT
66 AGCCTCAGGGT
80990 CATCTGTAAGTCCTTCAGTGCATGATGTTTTC-AAAA-CCTTCGGG
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGG
81034 TCATCTGTAA
Statistics
Matches: 1733, Mismatches: 319, Indels: 274
0.75 0.14 0.12
Matches are distributed among these distances:
69 2 0.00
70 10 0.01
71 18 0.01
72 20 0.01
73 28 0.02
74 56 0.03
75 150 0.09
76 897 0.52
77 398 0.23
78 38 0.02
79 34 0.02
80 10 0.01
81 22 0.01
82 6 0.00
83 6 0.00
84 16 0.01
85 18 0.01
86 4 0.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (76 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTCAGGGT
Found at i:79211 original size:152 final size:152
Alignment explanation
Indices: 78770--82190 Score: 2170
Period size: 152 Copynumber: 22.2 Consensus size: 152
78760 CTATTTCCCA
*
78770 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
78835 AGCCTCAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTT
*
78900 TGATGTTTTCAAAGCCTCAGGGT
130 TGATGTTTTCAAAGCCTTAGGGT
*
78923 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTTGATGTTTTCA
* *
78988 AAGCCTCAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTT
65 AAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
79053 TGATGTTTTCAAAGCCTTAGGGT
130 TGATGTTTTCAAAGCCTTAGGGT
79076 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
79141 AGCCTTAGGGGCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
* *
79206 GATGTTTTCAAAACCTCAGGGT
131 GATGTTTTCAAAGCCTTAGGGT
* *
79228 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* * * * * * *
79293 A-CCTTAGGGTCATCTGTAAGTCCTACAGTACATGTTATTT-CAAAAA-CATAAT-GAGAAAACG
66 AGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCT--TCG-G-GAGC-
* ** * * * ** *
79354 ATTTCCATAGTTTCTCATTTTATCTTTTAAAATGA
126 TTTTTGAT-GTTT-TCA---AAGC-CTT--AGGGT
* *** * *** * ** * **** ** *
79389 AAT-TGTTGAA--AAGTAAGAAAACGAT-TTT-C--TTAG-TTTTTTTA-CTTATTAAACTATTT
1 CATCTG-T-AAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTT-TTTGA-TGTTT
* * * ** * * * ** * **
79445 CCAACAACCTTATCTGGAGAT-TGGGGCATGTTACC--CAAT-CAACATGTTATCTTGAAAAATA
62 TCAA-AGCCTTA--GGGTCATCT---GTAAG-T-CCTTCAGTGCATGATGTT-TC--CAAAAAGC
* ** ** * * ** *
79506 ATGAGAAAACGATTTCCATAGTTTCTCATTCAA-TCTT----T
116 CTTCGGGAGC-TTTTTGAT-GTTT-TCA---AAGCCTTAGGGT
* *** * *** ** ***
79544 --TCTGAAAATGAAATT--GTTGAAT-A-G-TAAGAAAACA-ATTTCCATAG-TTTCTT-ACT-T
1 CATCTG-TAA-GTCCTTCAG-TGCATGATGTTTCCAAAA-AGCCTTCGGGAGCTTT-TTGA-TGT
** * *****
79598 AGT-AAA-CTATTTCCCACATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGA
60 TTTCAAAGC-CTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGA
* *
79661 TCTTTTTGATGTTTTCAAAGCCTCAGGGT
124 GCTTTTTGATGTTTTCAAAGCCTTAGGGT
*
79690 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTTGATGTTTTCA
* *
79755 AAGCCTCAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTT
65 AAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
79820 TGATGTTTTCAAAGCCTTAGGGT
130 TGATGTTTTCAAAGCCTTAGGGT
79843 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
79908 AGCCTTAGGGGCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
* *
79973 GATGTTTTCAAAACCTCAGGGT
131 GATGTTTTCAAAGCCTTAGGGT
* *
79995 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* * * * * * *
80060 A-CCTTAGGGTCATCTGTAAGTCCTACAGTACATGTTATTT-CAAAAA-CATAAT-GAGAAAACG
66 AGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCT--TCG-G-GAGC-
* ** * * * ** *
80121 ATTTCCATAGTTTCTCATTTTATCTTTTAAAATGA
126 TTTTTGAT-GTTT-TCA---AAGC-CTT--AGGGT
* *** * *** * ** * **** ** *
80156 AAT-TGTTGAA--AAGTAAGAAAACGAT-TTT-C--TTAG-TTTTTTTA-CTTATTAAACTATTT
1 CATCTG-T-AAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTT-TTTGA-TGTTT
* * * ** * * * ** * **
80212 CCAACAACCTTATCTGGAGAT-TGGGGCATGTTACC--CAAT-CAACATGTTATCTTGAAAAATA
62 TCAA-AGCCTTA--GGGTCATCT---GTAAG-T-CCTTCAGTGCATGATGTT-TC--CAAAAAGC
* ** ** * * ** *
80273 ATGAGAAAACGATTTCCATAGTTTCTCATTCAA-TCTT----T
116 CTTCGGGAGC-TTTTTGAT-GTTT-TCA---AAGCCTTAGGGT
* *** * *** ** ***
80311 --TCTGAAAATGAAATT--GTTGAAT-A-G-TAAGAAAACA-ATTTCCATAG-TTTCTT-ACT-T
1 CATCTG-TAA-GTCCTTCAG-TGCATGATGTTTCCAAAA-AGCCTTCGGGAGCTTT-TTGA-TGT
** * *****
80365 AGT-AAA-CTATTTCCCACATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGA
60 TTTCAAAGC-CTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGA
* *
80428 TCTTTTTGATGTTTTCAAAGCCTCAGGGT
124 GCTTTTTGATGTTTTCAAAGCCTTAGGGT
*
80457 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTTGATGTTTTCA
* *
80522 AAGCCTCAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTT
65 AAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTT
*
80587 TTGATGTTTTCAAAGCCTCAGGGT
129 TTGATGTTTTCAAAGCCTTAGGGT
*
80611 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
80676 AGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
*
80741 GATGTTTTCAAAGCCTTAGGGG
131 GATGTTTTCAAAGCCTTAGGGT
*
80763 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* * * *
80828 AACCTCAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
80893 GATGTTTTCAAA-CCTTAGGGT
131 GATGTTTTCAAAGCCTTAGGGT
*
80914 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* * * *
80979 AGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTC-AAAA-CCTTCGGG-TC-ATCT
66 AGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
* ** ** * * **
81040 GTAAGCCCTTCAGTGCATGATGTTTT
131 G-ATG-TTTTCAAAGCCTTA-G-GGT
* * * * * *** * *
81066 CAACATTTCCA-TCCTGTTCAAAAGAAGCCA-AATG--AAAAAATTATTATTGTCTTTTTCGTCT
1 CATC-TGT-AAGTCC--TTC---AG-TG-CATGATGTTTCCAAA--A--A--G-C--CTTCG--G
** * ** ** *** * * * * ** *
81127 TTGCTCTATTCTTGTTAACACAAGGATGAGCAAAGAGGGGCAGCTGTAGACATCAATT-TTTTCA
46 GAGCT-TTTTGATGTT--TTC-A--A--AGC-CTTAGGGTCATCTGTA-A-GTC-CTTCAGTGCA
* ** *** **** ** * * * *** *
81191 TTTTAAATTT--AAATTTATTATTATTATTAAAATTATTATTAT-TATTAAAATTATTA--TT
99 --TGATGTTTCCAAA---A--AGCCTTCGGGAGCTT-TT-TGATGTTTTCAAAGCCTTAGGGT
* * ** * * ** *** * ***** **
81249 AATAT-TAA-TAATAT-A-T--ATTATTTATTAAATATTACAAGCC--CAAAACCCGGAGGCCCG
1 CATCTGTAAGTCCT-TCAGTGCATGATGT-TTCCA-A--A-AAGCCTTCGGGAGCTTTTTG-ATG
* * *
81306 TTTTACAAA-TCTGGAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGG
59 TTTT-CAAAGCCT-TAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGG
*
81370 GAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
122 GAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
* *
81401 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAACTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* * *
81466 AGCCTCAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGACTTCGGTAGCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
*
81531 GATGTTTTCAAAGCCTCAGGGT
131 GATGTTTTCAAAGCCTTAGGGT
81553 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
81618 AGCCTCAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
81683 GATGTTTTCAAAGCCTTAGGGT
131 GATGTTTTCAAAGCCTTAGGGT
* *
81705 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAACTTTTTGATGTTTTTAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* * *
81770 AGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAACTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
*
81835 GATGTTTTCAAAGCCTCAGGGT
131 GATGTTTTCAAAGCCTTAGGGT
* *
81857 CATCTGTATGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
81922 AGCCTTAGGGTAATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
*
81987 GATGTTTTCAAAGCCTTAGGGG
131 GATGTTTTCAAAGCCTTAGGGT
82009 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* * * *
82074 AACCTCAGGGTCATCTGTAAGTCCTGCAGTGCATGGTGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
* * *
82139 GATGTTCTCAAACCCTCAGGGT
131 GATGTTTTCAAAGCCTTAGGGT
* *
82161 CATCTGTAAGACCTACAGTGCATGATGTTT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTT
82191 TCAACACTTC
Statistics
Matches: 2579, Mismatches: 473, Indels: 433
0.74 0.14 0.12
Matches are distributed among these distances:
141 4 0.00
142 4 0.00
144 6 0.00
145 8 0.00
146 18 0.01
147 37 0.01
148 17 0.01
149 38 0.01
150 65 0.03
151 201 0.08
152 1198 0.46
153 415 0.16
154 188 0.07
155 30 0.01
156 43 0.02
157 29 0.01
158 30 0.01
159 16 0.01
160 26 0.01
161 26 0.01
162 18 0.01
163 54 0.02
164 6 0.00
165 16 0.01
166 8 0.00
167 1 0.00
168 3 0.00
169 7 0.00
170 1 0.00
171 4 0.00
172 2 0.00
174 5 0.00
175 2 0.00
176 4 0.00
177 12 0.00
178 2 0.00
179 6 0.00
180 6 0.00
181 6 0.00
182 1 0.00
183 4 0.00
185 1 0.00
186 2 0.00
187 6 0.00
189 2 0.00
190 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (152 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
GATGTTTTCAAAGCCTTAGGGT
Found at i:80370 original size:767 final size:767
Alignment explanation
Indices: 78846--80862 Score: 3854
Period size: 767 Copynumber: 2.6 Consensus size: 767
78836 GCCTCAGGGT
* *
78846 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATC-TTTTTGATGTTTTCA
78911 AAGCCTCAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTT
65 AAGCCTCAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTT
78976 TTGATGTTTTCAAAGCCTCAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCT
130 TTGATGTTTTCAAAGCCTCAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCT
79041 TCGGGATCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTT
195 TCGGGATCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTT
79106 CCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGGCATCTGTAAGTCCTTCAGT
260 CCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGGCATCTGTAAGTCCTTCAGT
79171 GCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTCAGGGTCATCTGTA
325 GCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTCAGGGTCATCTGTA
79236 AGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATGTTTTCAAACCTTAGG
390 AGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATGTTTTCAAACCTTAGG
79301 GTCATCTGTAAGTCCTACAGTACATGTTATTTCAAAAACATAATGAGAAAACGATTTCCATAGTT
455 GTCATCTGTAAGTCCTACAGTACATGTTATTTCAAAAACATAATGAGAAAACGATTTCCATAGTT
79366 TCTCATTTTATCTTTTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTTCTTAGTTTTTTTAC
520 TCTCATTTTATCTTTTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTTCTTAGTTTTTTTAC
79431 TTATTAAACTATTTCCAACAACCTTATCTGGAGATTGGGGCATGTTACCCAATCAACATGTTATC
585 TTATTAAACTATTTCCAACAACCTTATCTGGAGATTGGGGCATGTTACCCAATCAACATGTTATC
79496 TTGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTGAAAATGAAATTGT
650 TTGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTGAAAATGAAATTGT
79561 TGAATAGTAAGAAAACAATTTCCATAGTTTCTTACTTAGTAAACTATTTCCCA
715 TGAATAGTAAGAAAACAATTTCCATAGTTTCTTACTTAGTAAACTATTTCCCA
79614 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
79679 AGCCTCAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTCAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTT
79744 TGATGTTTTCAAAGCCTCAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
131 TGATGTTTTCAAAGCCTCAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
79809 CGGGATCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTC
196 CGGGATCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTC
79874 CAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGGCATCTGTAAGTCCTTCAGTG
261 CAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGGCATCTGTAAGTCCTTCAGTG
79939 CATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTCAGGGTCATCTGTAA
326 CATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTCAGGGTCATCTGTAA
80004 GTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATGTTTTCAAACCTTAGGG
391 GTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATGTTTTCAAACCTTAGGG
80069 TCATCTGTAAGTCCTACAGTACATGTTATTTCAAAAACATAATGAGAAAACGATTTCCATAGTTT
456 TCATCTGTAAGTCCTACAGTACATGTTATTTCAAAAACATAATGAGAAAACGATTTCCATAGTTT
80134 CTCATTTTATCTTTTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTTCTTAGTTTTTTTACT
521 CTCATTTTATCTTTTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTTCTTAGTTTTTTTACT
80199 TATTAAACTATTTCCAACAACCTTATCTGGAGATTGGGGCATGTTACCCAATCAACATGTTATCT
586 TATTAAACTATTTCCAACAACCTTATCTGGAGATTGGGGCATGTTACCCAATCAACATGTTATCT
80264 TGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTGAAAATGAAATTGTT
651 TGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTGAAAATGAAATTGTT
80329 GAATAGTAAGAAAACAATTTCCATAGTTTCTTACTTAGTAAACTATTTCCCA
716 GAATAGTAAGAAAACAATTTCCATAGTTTCTTACTTAGTAAACTATTTCCCA
80381 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
80446 AGCCTCAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTCAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTT
*
80511 TGATGTTTTCAAAGCCTCAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTT
131 TGATGTTTTCAAAGCCTCAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
* *
80576 CGGGAGCTTTTTTGATGTTTTCAAAGCCTCAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTT
196 CGGGATC-TTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTT
* *
80641 CCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGT
260 CCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGGCATCTGTAAGTCCTTCAGT
* * * *
80706 GCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGGCATCTGTA
325 GCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTCAGGGTCATCTGTA
* * * *
80771 AGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTCAG
390 AGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATGTTTTC-AAACCTTAG
* *
80836 GGTCATCTGTAAGTCCTGCAGTGCATG
454 GGTCATCTGTAAGTCCTACAGTACATG
80863 ATGTTTCCAA
Statistics
Matches: 1230, Mismatches: 17, Indels: 3
0.98 0.01 0.00
Matches are distributed among these distances:
767 918 0.75
768 279 0.23
769 33 0.03
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.36
Consensus pattern (767 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
AGCCTCAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTT
TGATGTTTTCAAAGCCTCAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
CGGGATCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTC
CAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGGCATCTGTAAGTCCTTCAGTG
CATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTCAGGGTCATCTGTAA
GTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATGTTTTCAAACCTTAGGG
TCATCTGTAAGTCCTACAGTACATGTTATTTCAAAAACATAATGAGAAAACGATTTCCATAGTTT
CTCATTTTATCTTTTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTTCTTAGTTTTTTTACT
TATTAAACTATTTCCAACAACCTTATCTGGAGATTGGGGCATGTTACCCAATCAACATGTTATCT
TGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTGAAAATGAAATTGTT
GAATAGTAAGAAAACAATTTCCATAGTTTCTTACTTAGTAAACTATTTCCCA
Found at i:81020 original size:45 final size:45
Alignment explanation
Indices: 80967--81068 Score: 177
Period size: 45 Copynumber: 2.3 Consensus size: 45
80957 GGGAGCTTTT
* *
80967 TGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTAGGGTCATCTGTAAGCCCTTCAGTGCA
*
81012 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTAGGGTCATCTGTAAGCCCTTCAGTGCA
81057 TGATGTTTTCAA
1 TGATGTTTTCAA
81069 CATTTCCATC
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 54 1.00
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.36
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTAGGGTCATCTGTAAGCCCTTCAGTGCA
Found at i:81213 original size:3 final size:3
Alignment explanation
Indices: 81205--81275 Score: 61
Period size: 3 Copynumber: 23.0 Consensus size: 3
81195 AAATTTAAAT
** ** *
81205 TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA AAA TTA TTA TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
81253 TTA ATA ATA TATA TTA TTTA TTA
1 TTA TTA TTA T-TA TTA -TTA TTA
81276 AATATTACAA
Statistics
Matches: 54, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
3 48 0.89
4 6 0.11
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (3 bp):
TTA
Found at i:81226 original size:18 final size:18
Alignment explanation
Indices: 81199--81282 Score: 107
Period size: 18 Copynumber: 4.5 Consensus size: 18
81189 CATTTTAAAT
*
81199 TTAAATTTATTATTATTA
1 TTAAAATTATTATTATTA
81217 TTAAAATTATTATTATTA
1 TTAAAATTATTATTATTA
*
81235 TTAAAATTATTATTAATA
1 TTAAAATTATTATTATTA
81253 TTAATAA-TATATATTATTTA
1 TTAA-AATTAT-TATTA-TTA
81273 TTAAATATTA
1 TTAAA-ATTA
81283 CAAGCCCAAA
Statistics
Matches: 58, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
18 41 0.71
19 8 0.14
20 7 0.12
21 2 0.03
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TTAAAATTATTATTATTA
Found at i:81416 original size:76 final size:76
Alignment explanation
Indices: 81320--82190 Score: 1494
Period size: 76 Copynumber: 11.5 Consensus size: 76
81310 ACAAATCTGG
*
81320 AGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTT
1 AGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTT
81385 TTCAAAGCCTTC
66 TTCAAAGCC-TC
* *
81397 -GGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAACTTTTTGATGTT
1 AGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTT
81461 TTCAAAGCCTC
66 TTCAAAGCCTC
* *
81472 AGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGACTTCGGTAGCTTTTTGATGTT
1 AGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTT
81537 TTCAAAGCCTC
66 TTCAAAGCCTC
81548 AGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTT
1 AGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTT
81613 TTCAAAGCCTC
66 TTCAAAGCCTC
81624 AGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTT
1 AGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTT
*
81689 TTCAAAGCCTT
66 TTCAAAGCCTC
*
81700 AGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAACTTTTTGATGTT
1 AGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTT
*
81765 TTTAAAGCCTTC
66 TTCAAAGCC-TC
* *
81777 -GGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAACTTTTTGATGTT
1 AGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTT
81841 TTCAAAGCCTC
66 TTCAAAGCCTC
* *
81852 AGGGTCATCTGTATGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTT
1 AGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTT
*
81917 TTCAAAGCCTT
66 TTCAAAGCCTC
* *
81928 AGGGTAATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTT
1 AGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTT
*
81993 TTCAAAGCCTT
66 TTCAAAGCCTC
*
82004 AGGGGCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTT
1 AGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTT
*
82069 TTCAAAACCTC
66 TTCAAAGCCTC
* *
82080 AGGGTCATCTGTAAGTCCTGCAGTGCATGGTGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTT
1 AGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTT
* *
82145 CTCAAACCCTC
66 TTCAAAGCCTC
* *
82156 AGGGTCATCTGTAAGACCTACAGTGCATGATGTTT
1 AGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTT
82191 TCAACACTTC
Statistics
Matches: 755, Mismatches: 36, Indels: 7
0.95 0.05 0.01
Matches are distributed among these distances:
75 4 0.01
76 750 0.99
77 1 0.00
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.35
Consensus pattern (76 bp):
AGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTT
TTCAAAGCCTC
Found at i:82327 original size:3 final size:3
Alignment explanation
Indices: 82319--82375 Score: 60
Period size: 3 Copynumber: 18.0 Consensus size: 3
82309 CAGTTTGCTT
* * *
82319 TTA TTA TTA TTA TTTG TTA TTAA TTA TTA TTA TCA TTA TTA TACA TTA
1 TTA TTA TTA TTA -TTA TTA TT-A TTA TTA TTA TTA TTA TTA T-TA TTA
82367 TTA TTA TTA
1 TTA TTA TTA
82376 AATAAATATT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
3 38 0.84
4 7 0.16
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:85545 original size:29 final size:29
Alignment explanation
Indices: 85491--85546 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
85481 AATTATTTTA
*
85491 AAATTTAGTTTTTATATTTCTTCAAAAGT
1 AAATTTAGTTTTTATATTTCTACAAAAGT
* *
85520 AAATTT-GTTTGTTATTTTTGTACAAAA
1 AAATTTAGTTT-TTATATTTCTACAAAA
85547 ATTTTAATTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 4 0.17
29 19 0.83
ACGTcount: A:0.34, C:0.05, G:0.09, T:0.52
Consensus pattern (29 bp):
AAATTTAGTTTTTATATTTCTACAAAAGT
Found at i:93499 original size:16 final size:16
Alignment explanation
Indices: 93475--93508 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
93465 TATCGCCGAC
*
93475 CGAATTTCACTATTCA
1 CGAAATTCACTATTCA
93491 CGAAATTCACTATTCA
1 CGAAATTCACTATTCA
93507 CG
1 CG
93509 TGAATAGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.26, G:0.09, T:0.32
Consensus pattern (16 bp):
CGAAATTCACTATTCA
Found at i:97275 original size:22 final size:21
Alignment explanation
Indices: 97236--97276 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
97226 AAACTTAATG
* *
97236 GAAAGCTTTTTTTAATATATA
1 GAAAGCCTTTTTAAATATATA
97257 GAAAGCCTTTTT-AATATATA
1 GAAAGCCTTTTTAAATATATA
97277 AATATTTTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.44
Consensus pattern (21 bp):
GAAAGCCTTTTTAAATATATA
Found at i:101994 original size:14 final size:13
Alignment explanation
Indices: 101960--101995 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 13
101950 GATTGACTTC
101960 TTTTATATATAAT
1 TTTTATATATAAT
101973 TTTATATATATAAT
1 TTT-TATATATAAT
101987 TTCTTATAT
1 TT-TTATAT
101996 TAGCATGATG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 3 0.14
14 17 0.81
15 1 0.05
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (13 bp):
TTTTATATATAAT
Found at i:105289 original size:21 final size:21
Alignment explanation
Indices: 105263--105302 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
105253 AATTTTTCAG
105263 TCTTATTTGTTGGTCATTTGA
1 TCTTATTTGTTGGTCATTTGA
* *
105284 TCTTATTTTTTGGTTATTT
1 TCTTATTTGTTGGTCATTT
105303 TTTTCTCAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.12, C:0.07, G:0.15, T:0.65
Consensus pattern (21 bp):
TCTTATTTGTTGGTCATTTGA
Found at i:114171 original size:37 final size:37
Alignment explanation
Indices: 114098--114172 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 37
114088 GTTGAAAAAT
* *
114098 ATTTATATATTTTTTTTAAAAAATTTAAATTCATAAA
1 ATTTATATATTTTTTTTAAAAAATTGAAAATCATAAA
*
114135 ATTTATATAATTTTTTTTACAAAATTGAAAAT-ATAAA
1 ATTTATAT-ATTTTTTTTAAAAAATTGAAAATCATAAA
114172 A
1 A
114173 AGGTTTAATG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 14 0.41
38 20 0.59
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.48
Consensus pattern (37 bp):
ATTTATATATTTTTTTTAAAAAATTGAAAATCATAAA
Found at i:115713 original size:15 final size:15
Alignment explanation
Indices: 115693--115726 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
115683 AAAATATATG
115693 TAAAA-TATTAATTAT
1 TAAAATTATTAATT-T
115708 TAAAATTATTAATTT
1 TAAAATTATTAATTT
115723 TAAA
1 TAAA
115727 TGAATTGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TAAAATTATTAATTT
Found at i:117593 original size:91 final size:93
Alignment explanation
Indices: 117482--117724 Score: 237
Period size: 101 Copynumber: 2.6 Consensus size: 93
117472 TTAAACAAAA
* *
117482 AATATGTTAAATCAAAATAAATAGTCTAATTAATTTATATTTACAATAAAAAA-A-A-TTAAACT
1 AATATGTAAAATCAAAATAAATAGTATAA-TAATTTATATTTACAATAAAAAATATATTTAAACT
* ** *
117544 AAACTTACCAAACCACTCAAATATGATTT
65 AAACTTAACAAACCACTCAAATACAACTT
* * * *
117573 AATATGTAAAATCAAGATAAATACTTTAATCATTTATA-TTACTCAATAAAAATAAAAATATATT
1 AATATGTAAAATCAAAATAAATAGTATAATAATTTATATTTA--CAAT----A-AAAAATATA--
*
117637 TTTAAACTAAACTTAACAAACTACTCAAATACAACTT
57 TTTAAACTAAACTTAACAAACCACTCAAATACAACTT
*
117674 AATATGTAAAATCAAAATAAATAGTATAATAA-TTATAATTTA-AATGAAAAA
1 AATATGTAAAATCAAAATAAATAGTATAATAATTTAT-ATTTACAATAAAAAA
117725 CAAAAAAATT
Statistics
Matches: 123, Mismatches: 15, Indels: 25
0.75 0.09 0.15
Matches are distributed among these distances:
89 3 0.02
90 8 0.07
91 29 0.24
94 5 0.04
95 1 0.01
96 5 0.04
97 1 0.01
98 1 0.01
99 3 0.02
100 4 0.03
101 60 0.49
102 3 0.02
ACGTcount: A:0.53, C:0.10, G:0.03, T:0.33
Consensus pattern (93 bp):
AATATGTAAAATCAAAATAAATAGTATAATAATTTATATTTACAATAAAAAATATATTTAAACTA
AACTTAACAAACCACTCAAATACAACTT
Found at i:117731 original size:101 final size:100
Alignment explanation
Indices: 117537--117731 Score: 241
Period size: 101 Copynumber: 1.9 Consensus size: 100
117527 ATAAAAAAAA
* ** * * *
117537 TTAAACTAAACTTACCAAACCACTCAAATATGATTTAATATGTAAAATCAAGATAAATACTTTAA
1 TTAAACTAAACTTAACAAACCACTCAAATACAACTTAATATGTAAAATCAAAATAAATACTATAA
* * *
117602 TCATTTATATTACTCAATAAAAATAAAAATATATTT
66 TAATTTATATTA-TAAATAAAAAAAAAAATATATTT
* *
117638 TTAAACTAAACTTAACAAACTACTCAAATACAACTTAATATGTAAAATCAAAATAAATAGTATAA
1 TTAAACTAAACTTAACAAACCACTCAAATACAACTTAATATGTAAAATCAAAATAAATACTATAA
117703 TAA-TTATAATT-TAAATGAAAAACAAAAAA
66 TAATTTAT-ATTATAAAT-AAAAA-AAAAAA
117732 ATTAGACTAA
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
99 4 0.05
100 9 0.11
101 67 0.84
ACGTcount: A:0.54, C:0.12, G:0.03, T:0.31
Consensus pattern (100 bp):
TTAAACTAAACTTAACAAACCACTCAAATACAACTTAATATGTAAAATCAAAATAAATACTATAA
TAATTTATATTATAAATAAAAAAAAAAATATATTT
Found at i:119734 original size:20 final size:21
Alignment explanation
Indices: 119706--119746 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
119696 CCTTGTTAAG
119706 TTTAGTTTATA-ATTTATTGT
1 TTTAGTTTATATATTTATTGT
* *
119726 TTTATTTTATATTTTTATTGT
1 TTTAGTTTATATATTTATTGT
119747 AAAAATAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.71
Consensus pattern (21 bp):
TTTAGTTTATATATTTATTGT
Found at i:123795 original size:38 final size:38
Alignment explanation
Indices: 123743--123856 Score: 165
Period size: 38 Copynumber: 3.0 Consensus size: 38
123733 TTCAACCACC
* * * *
123743 AACCACTAATCTACCTGGGATATTAATGGATAATTAAT
1 AACCACCAACCTACCCGGGTTATTAATGGATAATTAAT
*
123781 AACCACCAACCTACCCGAGTTATTAATGGATAATTAAT
1 AACCACCAACCTACCCGGGTTATTAATGGATAATTAAT
* *
123819 AACCACCAACCTACCCGGGTTATTAACGTATAATTAAT
1 AACCACCAACCTACCCGGGTTATTAATGGATAATTAAT
123857 GGTGTTATTA
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 68 1.00
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.28
Consensus pattern (38 bp):
AACCACCAACCTACCCGGGTTATTAATGGATAATTAAT
Found at i:124101 original size:45 final size:45
Alignment explanation
Indices: 124042--124131 Score: 126
Period size: 45 Copynumber: 2.0 Consensus size: 45
124032 TTTCCCGTTC
* * * *
124042 AACCACCAATCACCAACCTACTCGGGTTATTAATGAATAGTTAAT
1 AACCACCAACCACCAACCTACCCGGATTATTAATGAATAATTAAT
* *
124087 AACCATCAACCACCAACCTACCCGGATTATTAATGGATAATTAAT
1 AACCACCAACCACCAACCTACCCGGATTATTAATGAATAATTAAT
124132 TTTGCCATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.39, C:0.26, G:0.10, T:0.26
Consensus pattern (45 bp):
AACCACCAACCACCAACCTACCCGGATTATTAATGAATAATTAAT
Found at i:124173 original size:25 final size:25
Alignment explanation
Indices: 124145--124192 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
124135 GCCATTTTTT
124145 TCATTATAATAAATATTATTTTTCG
1 TCATTATAATAAATATTATTTTTCG
124170 TCATTATAATAAATATTATTTTT
1 TCATTATAATAAATATTATTTTT
124193 TACTACAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.54
Consensus pattern (25 bp):
TCATTATAATAAATATTATTTTTCG
Found at i:124749 original size:203 final size:203
Alignment explanation
Indices: 124392--124804 Score: 625
Period size: 203 Copynumber: 2.0 Consensus size: 203
124382 ACTTGAAAGT
* * * *
124392 TTCTTCTGACAAGTTGATGTTATAAAAAAATCTTTTCGAATTTCTTATTCACTTCTTTTTTACCT
1 TTCTTCCGACAAGTTGACGTTATAAAAAAA-CTTTTCGAATTTCTTACTCACTTCTTTTTTACAT
* * * *
124457 GCAACAACATATTAAAAATAATATTTTAATAACTTTTTCGAAATAGAGATATATTATTCGAATAC
65 GCAACAACATAGTAAAAATAATATTTTAAAAACTTTTCCGAAATAGAGATATATTATTAGAATAC
* *
124522 GAATAAAATTTTATTCGAATAATACTTACAGATTATAGATTGAAAGAAAATTTTGTTCAAATTTT
130 GAATAAAATTTTATTCGAATAATACTTACAGATTATAGATTGAAAGAAAATTTCGTTCAAAATTT
*
124587 TTTCTACTA
195 TCTCTACTA
124596 TTCTTCCGACAAGTTGACGTTAT-AAAAAACATTTTCGAATTTCTTACTCACTTCTTTTTTACAT
1 TTCTTCCGACAAGTTGACGTTATAAAAAAAC-TTTTCGAATTTCTTACTCACTTCTTTTTTACAT
*
124660 GCAATAACATAGTAAAAATAATATTTTAAAAA-TCTTTCCGAAATAGAGATAT-TTCATTAGAAT
65 GCAACAACATAGTAAAAATAATATTTTAAAAACT-TTTCCGAAATAGAGATATATT-ATTAGAAT
** * *
124723 ACGAATAAAATTTTATTCGAATAATACTTACAGATTATAGATTGGGATAAAATTTCGTTTAAAAT
128 ACGAATAAAATTTTATTCGAATAATACTTACAGATTATAGATTGAAAGAAAATTTCGTTCAAAAT
124788 TTTCTCTACTA
193 TTTCTCTACTA
124799 TTCTTC
1 TTCTTC
124805 TCGGATGTTT
Statistics
Matches: 190, Mismatches: 16, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
202 4 0.02
203 165 0.87
204 21 0.11
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.41
Consensus pattern (203 bp):
TTCTTCCGACAAGTTGACGTTATAAAAAAACTTTTCGAATTTCTTACTCACTTCTTTTTTACATG
CAACAACATAGTAAAAATAATATTTTAAAAACTTTTCCGAAATAGAGATATATTATTAGAATACG
AATAAAATTTTATTCGAATAATACTTACAGATTATAGATTGAAAGAAAATTTCGTTCAAAATTTT
CTCTACTA
Found at i:130249 original size:26 final size:27
Alignment explanation
Indices: 130215--130268 Score: 101
Period size: 26 Copynumber: 2.0 Consensus size: 27
130205 TTATGTCAAG
130215 TTCATTTTTTTTCTCATTATACTTGCT
1 TTCATTTTTTTTCTCATTATACTTGCT
130242 TTCA-TTTTTTTCTCATTATACTTGCT
1 TTCATTTTTTTTCTCATTATACTTGCT
130268 T
1 T
130269 ATAATCAGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 23 0.85
27 4 0.15
ACGTcount: A:0.15, C:0.19, G:0.04, T:0.63
Consensus pattern (27 bp):
TTCATTTTTTTTCTCATTATACTTGCT
Found at i:142294 original size:28 final size:28
Alignment explanation
Indices: 142261--142316 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
142251 AATTAACTTT
* * *
142261 TTTTTATTTATATTTTATTTTTAAAATAG
1 TTTTAATTTATATATT-TTTTAAAAATAG
*
142290 TTTTAATTTGTATATTTTTTAAAAATA
1 TTTTAATTTATATATTTTTTAAAAATA
142317 AAATAATCTC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 10 0.43
29 13 0.57
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (28 bp):
TTTTAATTTATATATTTTTTAAAAATAG
Found at i:144698 original size:103 final size:101
Alignment explanation
Indices: 144575--144788 Score: 353
Period size: 103 Copynumber: 2.1 Consensus size: 101
144565 TAACATTAGC
*
144575 AAAAAA-A-TTGACATTAGTTTAACAAGCTTGACAAATTTTCTATTAATTGGTTTAACTTAAAAT
1 AAAAAATATTTGACATTAGTTTAACAAGCCTGACAAATTTTCTATTAATTGGTTTAAC---AAAT
144638 AATAAATA-TTAAAAAAATAAAAAGATGAAAAAGTAAAA
63 AATAAATATTTAAAAAAATAAAAAGATGAAAAAGTAAAA
144676 AAAAAATATTTGACATTAGTTTAACAAGCCTGACAAATTTTCTATTAATTGGTTTAACAAATAAT
1 AAAAAATATTTGACATTAGTTTAACAAGCCTGACAAATTTTCTATTAATTGGTTTAACAAATAAT
144741 AAATATTTAAAAAAATAAAAAGATGAAAAAGTAAAA
66 AAATATTTAAAAAAATAAAAAGATGAAAAAGTAAAA
*
144777 AATAAATTATTT
1 AA-AAAATATTT
144789 TTAACAAAAT
Statistics
Matches: 107, Mismatches: 2, Indels: 7
0.92 0.02 0.06
Matches are distributed among these distances:
100 12 0.11
101 38 0.36
102 9 0.08
103 48 0.45
ACGTcount: A:0.54, C:0.06, G:0.08, T:0.32
Consensus pattern (101 bp):
AAAAAATATTTGACATTAGTTTAACAAGCCTGACAAATTTTCTATTAATTGGTTTAACAAATAAT
AAATATTTAAAAAAATAAAAAGATGAAAAAGTAAAA
Found at i:145136 original size:21 final size:21
Alignment explanation
Indices: 145107--145159 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
145097 ATTTTGACTA
145107 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * *
145128 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
*
145149 TCGCAATGCGA
1 TCGCATTGCGA
145160 ATACGTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:145174 original size:20 final size:20
Alignment explanation
Indices: 145149--145321 Score: 211
Period size: 20 Copynumber: 8.3 Consensus size: 20
145139 TTTTCCTAAT
145149 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* ** *
145169 TCGCAACGCGAATTTGGAAAA
1 TCGCAATGCGAA-TACGTAAA
*
145190 TCGCAATCGCAATGCGATTACGTAAA
1 TCG------CAATGCGAATACGTAAA
*
145216 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
*
145236 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
145256 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
145276 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
145296 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
145316 TCGCAA
1 TCGCAA
145322 CGAGATTCTG
Statistics
Matches: 134, Mismatches: 12, Indels: 14
0.84 0.08 0.09
Matches are distributed among these distances:
20 111 0.83
21 8 0.06
26 8 0.06
27 7 0.05
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:145287 original size:60 final size:60
Alignment explanation
Indices: 145194--145321 Score: 238
Period size: 60 Copynumber: 2.1 Consensus size: 60
145184 GGAAAATCGC
* *
145194 AATCGCAATGCGATTACGTAAATCGCAATGCGATTACGTAAATCGCAATGCGATTACGTA
1 AATCGCAATGCGAATACGTAAATCGCAATGCGATTACGTAAATCGCAATGCGAATACGTA
145254 AATCGCAATGCGAATACGTAAATCGCAATGCGATTACGTAAATCGCAATGCGAATACGTA
1 AATCGCAATGCGAATACGTAAATCGCAATGCGATTACGTAAATCGCAATGCGAATACGTA
145314 AATCGCAA
1 AATCGCAA
145322 CGAGATTCTG
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 66 1.00
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.23
Consensus pattern (60 bp):
AATCGCAATGCGAATACGTAAATCGCAATGCGATTACGTAAATCGCAATGCGAATACGTA
Found at i:145342 original size:40 final size:40
Alignment explanation
Indices: 145194--145321 Score: 247
Period size: 40 Copynumber: 3.2 Consensus size: 40
145184 GGAAAATCGC
*
145194 AATCGCAATGCGATTACGTAAATCGCAATGCGATTACGTA
1 AATCGCAATGCGATTACGTAAATCGCAATGCGAATACGTA
145234 AATCGCAATGCGATTACGTAAATCGCAATGCGAATACGTA
1 AATCGCAATGCGATTACGTAAATCGCAATGCGAATACGTA
145274 AATCGCAATGCGATTACGTAAATCGCAATGCGAATACGTA
1 AATCGCAATGCGATTACGTAAATCGCAATGCGAATACGTA
145314 AATCGCAA
1 AATCGCAA
145322 CGAGATTCTG
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 87 1.00
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.23
Consensus pattern (40 bp):
AATCGCAATGCGATTACGTAAATCGCAATGCGAATACGTA
Found at i:145699 original size:12 final size:12
Alignment explanation
Indices: 145682--145706 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
145672 AATATATGCC
145682 TTTACCCATGAA
1 TTTACCCATGAA
145694 TTTACCCATGAA
1 TTTACCCATGAA
145706 T
1 T
145707 CTTCAACTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.24, G:0.08, T:0.36
Consensus pattern (12 bp):
TTTACCCATGAA
Found at i:146223 original size:24 final size:24
Alignment explanation
Indices: 146196--146249 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
146186 GTATTCGAAA
146196 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
146220 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
146244 TTTGAT
1 TTTGAT
146250 GATTTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:148568 original size:23 final size:24
Alignment explanation
Indices: 148538--148586 Score: 91
Period size: 23 Copynumber: 2.1 Consensus size: 24
148528 CCTCTAACTC
148538 ATCCTATTTTGATGA-TTTATCTT
1 ATCCTATTTTGATGATTTTATCTT
148561 ATCCTATTTTGATGATTTTATCTT
1 ATCCTATTTTGATGATTTTATCTT
148585 AT
1 AT
148587 GATGAGTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 15 0.60
24 10 0.40
ACGTcount: A:0.22, C:0.12, G:0.08, T:0.57
Consensus pattern (24 bp):
ATCCTATTTTGATGATTTTATCTT
Found at i:152502 original size:20 final size:21
Alignment explanation
Indices: 152479--152558 Score: 65
Period size: 21 Copynumber: 3.8 Consensus size: 21
152469 TTTGTGCAGA
*
152479 GGGAATCGATCCCCCCATGA-
1 GGGAACCGATCCCCCCATGAG
* **
152499 GGGAACCGATTCCCCTTTGAAG
1 GGGAACCGATCCCCCCATG-AG
*
152521 GGGAACCGATTCCCCCCA-CAG
1 GGGAACCGA-TCCCCCCATGAG
*
152542 GGGAATCGATACCCCCC
1 GGGAACCGAT-CCCCCC
152559 TGGGGTTATG
Statistics
Matches: 47, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
20 16 0.34
21 17 0.36
22 9 0.19
23 5 0.11
ACGTcount: A:0.24, C:0.36, G:0.25, T:0.15
Consensus pattern (21 bp):
GGGAACCGATCCCCCCATGAG
Found at i:154472 original size:17 final size:17
Alignment explanation
Indices: 154450--154483 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
154440 TTCAACATTT
*
154450 TGAATTGTTTGATTTTG
1 TGAATTGTTGGATTTTG
154467 TGAATTGTTGGATTTTG
1 TGAATTGTTGGATTTTG
154484 GATTTATGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.00, G:0.26, T:0.56
Consensus pattern (17 bp):
TGAATTGTTGGATTTTG
Done.