Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008492.1 Hibiscus syriacus cultivar Beakdansim tig00111334_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: 1113585
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 5
Found at i:1356 original size:18 final size:18
Alignment explanation
Indices: 1330--1374 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
1320 CTCCACTTCG
*
1330 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
* *
1348 GAGCTATCACCTCACCTA
1 GAGCCATCACCTCACCCA
1366 GAGCCATCA
1 GAGCCATCA
1375 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.42, G:0.16, T:0.16
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:1871 original size:20 final size:20
Alignment explanation
Indices: 1846--1891 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
1836 TAGTTTACTT
*
1846 TCGCAACATGAAAATGACTA
1 TCGCAACACGAAAATGACTA
* * *
1866 TCGCAACGCGGAAATGGCTA
1 TCGCAACACGAAAATGACTA
1886 TCGCAA
1 TCGCAA
1892 TGCGAAATGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (20 bp):
TCGCAACACGAAAATGACTA
Found at i:1900 original size:19 final size:20
Alignment explanation
Indices: 1857--1912 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
1847 CGCAACATGA
1857 AAATGACTATCGCAACGCGG
1 AAATGACTATCGCAACGCGG
* *
1877 AAATGGCTATCGCAATGC-G
1 AAATGACTATCGCAACGCGG
**
1896 AAATGAAAATCGCAACG
1 AAATGACTATCGCAACG
1913 ACAAAATCGC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.16
Consensus pattern (20 bp):
AAATGACTATCGCAACGCGG
Found at i:1920 original size:14 final size:14
Alignment explanation
Indices: 1901--1958 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
1891 ATGCGAAATG
1901 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
1915 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
1931 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
1947 AAAATCGCAACG
1 AAAATCGCAACG
1959 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:1943 original size:32 final size:33
Alignment explanation
Indices: 1885--1975 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
1875 GGAAATGGCT
*
1885 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
1918 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
1950 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAACGCGAAATGAAAATCGCAA
1976 TGCGATTTGT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 32 0.57
33 24 0.43
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:1969 original size:19 final size:19
Alignment explanation
Indices: 1865--1980 Score: 83
Period size: 19 Copynumber: 6.6 Consensus size: 19
1855 GAAAATGACT
***
1865 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGAAA
*
1885 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
1904 ATCGCAA--CG--A-CAAA
1 ATCGCAACGCGAAATGAAA
1918 ATCGCAACGCGAAATG-AA
1 ATCGCAACGCGAAATGAAA
*
1936 ATCGCAA--CG--A-CAAA
1 ATCGCAACGCGAAATGAAA
1950 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
1969 ATCGCAATGCGA
1 ATCGCAACGCGA
1981 TTTGTGTTTC
Statistics
Matches: 76, Mismatches: 9, Indels: 23
0.70 0.08 0.21
Matches are distributed among these distances:
14 20 0.26
15 1 0.01
16 6 0.08
17 2 0.03
18 11 0.14
19 27 0.36
20 9 0.12
ACGTcount: A:0.43, C:0.23, G:0.22, T:0.12
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:2050 original size:19 final size:19
Alignment explanation
Indices: 1987--2108 Score: 103
Period size: 19 Copynumber: 6.7 Consensus size: 19
1977 GCGATTTGTG
1987 TTTCGCGTTGCGA-TTTCA
1 TTTCGCGTTGCGATTTTCA
2005 TTTCGCGTTGCGA-TTT--
1 TTTCGCGTTGCGATTTTCA
*
2021 TGT--CGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCA
* ***
2038 TTTCGCATTGCGATAGCCA
1 TTTCGCGTTGCGATTTTCA
**
2057 TTTCGCGTTGCGATAGTCA
1 TTTCGCGTTGCGATTTTCA
* *
2076 TTTCACGTTGCGATTTTAA
1 TTTCGCGTTGCGATTTTCA
*
2095 GTTTCGTGTTGCGA
1 -TTTCGCGTTGCGA
2109 AGTAAACTAT
Statistics
Matches: 84, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
14 8 0.10
15 3 0.04
16 2 0.02
17 2 0.02
18 16 0.19
19 42 0.50
20 11 0.13
ACGTcount: A:0.14, C:0.20, G:0.24, T:0.43
Consensus pattern (19 bp):
TTTCGCGTTGCGATTTTCA
Found at i:4143 original size:19 final size:19
Alignment explanation
Indices: 4088--4135 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
4078 ATCGCAACGA
4088 GAAAA-CGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
4106 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
4125 GAAAATCGCAA
1 GAAAATCGCAA
4136 CGAGAAATCG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 5 0.17
19 24 0.83
ACGTcount: A:0.50, C:0.17, G:0.21, T:0.12
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:4229 original size:20 final size:20
Alignment explanation
Indices: 4179--4229 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
4169 GCGATATTCT
*
4179 CGTTGCGATAACCATTTTCA
1 CGTTGCGATAGCCATTTTCA
4199 CGTTGCGATAGCCATTTTCA
1 CGTTGCGATAGCCATTTTCA
4219 CGTTGCGATAG
1 CGTTGCGATAG
4230 TCAAATGAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.33
Consensus pattern (20 bp):
CGTTGCGATAGCCATTTTCA
Found at i:4587 original size:14 final size:14
Alignment explanation
Indices: 4568--4603 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
4558 ATTGTTTAAT
4568 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
4582 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
4596 TGATTTGT
1 TGATTTGT
4604 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:4727 original size:14 final size:14
Alignment explanation
Indices: 4708--4762 Score: 56
Period size: 14 Copynumber: 3.5 Consensus size: 14
4698 CGAAATGGCT
4708 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
4722 ATCGCAATGCGAAAATGAAA
1 ATCGCAA--CG---A-GAAA
4742 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
4756 ATCGCAA
1 ATCGCAA
4763 TGCGATTATC
Statistics
Matches: 35, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
14 18 0.51
15 1 0.03
16 2 0.06
18 2 0.06
19 1 0.03
20 11 0.31
ACGTcount: A:0.49, C:0.20, G:0.20, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAAA
Found at i:4755 original size:20 final size:20
Alignment explanation
Indices: 4718--4757 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
4708 ATCGCAACGA
* *
4718 GAAAATCGCAATGCGAAAAT
1 GAAAATCGCAACGAGAAAAT
4738 GAAAATCGCAACGAGAAAAT
1 GAAAATCGCAACGAGAAAAT
4758 CGCAATGCGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.53, C:0.15, G:0.20, T:0.12
Consensus pattern (20 bp):
GAAAATCGCAACGAGAAAAT
Found at i:4840 original size:19 final size:20
Alignment explanation
Indices: 4793--4845 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
4783 GCGATATTCT
**
4793 CGTTGCGATAACCATTTTCA
1 CGTTGCGATAGTCATTTTCA
4813 CGTTGCGATAGTCATTTTCA
1 CGTTGCGATAGTCATTTTCA
4833 CG-TGCGATAGTCA
1 CGTTGCGATAGTCA
4846 AATGAATGTC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 11 0.35
20 20 0.65
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.34
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCA
Found at i:4897 original size:614 final size:621
Alignment explanation
Indices: 3692--4989 Score: 2223
Period size: 614 Copynumber: 2.1 Consensus size: 621
3682 TGGTAAGTCA
3692 AATGCAAGTTTTGTTAACATATATACTCC-TTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT
1 AATGCAAGTTTTGTTAACA-ATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT
3756 TCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT
65 TCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT
3821 CTGCAGGTTAATCCTTAAGAGAGCTGCGTGAAATGGATGTACGGGGTCACAAAGTTGTTGATTCT
130 CTGCAGGTT-ATCCTTAAGAGAGCTGCGTGAAATGGATGTACGGGGTCACAAAGTTGTTGATTCT
3886 TGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTGTAAA
194 TGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTGTAAA
3951 AGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATAGT
259 AGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATAGT
4016 TGATTTGTGATTTTCAATCTGCTTATGTTGAAGGCAAAACAGACTCGCAACGCGAAATGGCTATC
324 TGATTTGTGATTTTCAATCTGCTTATGTTGAAGGCAAAACAGACTCGCAACGCGAAATGGCTATC
4081 GCAACGAGAAAACGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAAATCG
389 GCAACGAG-AAA--CAATGCGAAATG---A-CG-AA---GAAATGAAAATCGCAACGAGAAATCG
*
4146 CAATGCGATTATCATTTCGCGTTGCGATATTCTCGTTGCGATAACCATTTTCACGTTGCGATAGC
443 CAATGCGATTATCATTTCGCATTGCGATATTCTCGTTGCGATAACCATTTTCACGTTGCGATAGC
4211 CATTTTCACGTTGCGATAGTCAAATGAATGTCTAATAAGTGATAGCATGTTCAAACTCAAGTTAC
508 CATTTTCACGTTGCGATAGTCAAATGAATGTCTAATAAGTGATAGCATGTTCAAACTCAAGTTAC
4276 TAATACATGCCTAACTGAAAATGTTAAAAGTGCACACATAAAATACACAT
573 TAATACATGCCTAACTG-AAATGTTAAAAGTGCACACATAAAATACACAT
4326 AATGCAAGTTTTGTTAAC-ATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAATT
1 AATGCAAGTTTTGTTAACAATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAATT
4390 CAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGC-AATGTTTGGTTTC
66 CAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTTC
** *
4454 TGCAGGTT-TCCTTAATTGAGCTGCGTGAAATGGATGTACGGGGTCACAAAGTTGTTGATTCTTT
131 TGCAGGTTATCCTTAAGAGAGCTGCGTGAAATGGATGTACGGGGTCACAAAGTTGTTGATTCTTG
4518 ATTCAATAATTGATGAAG-AATAAGAATTA-TATTA-TTTTTGATTGTTTAATTGATTTGTAAAA
196 ATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTTGATTGTTTAATTGA-TTGTAAAA
4580 GATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATAG-T
260 GATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATAGTT
4644 GATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGC-AAACAGACTATCGCAACGCGAAATGGCT
325 GATTTG-TGATTTTCAATCTGC-TTATGTTGAAGGCAAAACAGAC--TCGCAACGCGAAATGGCT
*
4708 ATCGCAACGAG-AA-AAT-CGCAATG-CG-A-AAATGAAAATCGCAACGAGAAAATCGCAATGCG
386 ATCGCAACGAGAAACAATGCGAAATGACGAAGAAATGAAAATCGCAACGAG-AAATCGCAATGCG
*
4767 ATTATCATTTCGCATTGCGATATTCTCGTTGCGATAACCATTTTCACGTTGCGATAGTCATTTTC
450 ATTATCATTTCGCATTGCGATATTCTCGTTGCGATAACCATTTTCACGTTGCGATAGCCATTTTC
4832 ACG-TGCGATAGTCAAATGAATGTCTAATAAGTGATAGCAATGTTCAAACTCAAGTTACTAATAC
515 ACGTTGCGATAGTCAAATGAATGTCTAATAAGTGATAGC-ATGTTCAAACTCAAGTTACTAATAC
4896 ATGCCTAACTGAAATGTTAAAAGTGCACACATAAAATACACAT
579 ATGCCTAACTGAAATGTTAAAAGTGCACACATAAAATACACAT
4939 AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAAATGTTTGG
1 AATGCAAGTTTTGTTAACA-ATATACTCCTTTTGGTTTG-AAAATGTTTGG
4990 AATTTAAAAA
Statistics
Matches: 647, Mismatches: 6, Indels: 40
0.93 0.01 0.06
Matches are distributed among these distances:
613 104 0.16
614 115 0.18
615 19 0.03
616 11 0.02
617 1 0.00
619 2 0.00
624 6 0.01
625 3 0.00
627 26 0.04
628 101 0.16
629 24 0.04
630 100 0.15
632 30 0.05
633 87 0.13
634 18 0.03
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.35
Consensus pattern (621 bp):
AATGCAAGTTTTGTTAACAATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAATT
CAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTTC
TGCAGGTTATCCTTAAGAGAGCTGCGTGAAATGGATGTACGGGGTCACAAAGTTGTTGATTCTTG
ATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTGTAAAAG
ATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATAGTTG
ATTTGTGATTTTCAATCTGCTTATGTTGAAGGCAAAACAGACTCGCAACGCGAAATGGCTATCGC
AACGAGAAACAATGCGAAATGACGAAGAAATGAAAATCGCAACGAGAAATCGCAATGCGATTATC
ATTTCGCATTGCGATATTCTCGTTGCGATAACCATTTTCACGTTGCGATAGCCATTTTCACGTTG
CGATAGTCAAATGAATGTCTAATAAGTGATAGCATGTTCAAACTCAAGTTACTAATACATGCCTA
ACTGAAATGTTAAAAGTGCACACATAAAATACACAT
Found at i:5101 original size:40 final size:41
Alignment explanation
Indices: 5037--5133 Score: 117
Period size: 40 Copynumber: 2.4 Consensus size: 41
5027 CGCTTTGAAA
* * *
5037 ATCGCATTGCGA-TTATGTATTATCGCGTTGCGAAAGTAAGT
1 ATCG-ATTGCGATTTTTTTATTATCGCATTGCGAAAGTAAGT
* *
5078 ATCG-TTGCGATTTTTTTATTATCGCATTGCGATAGTCAGT
1 ATCGATTGCGATTTTTTTATTATCGCATTGCGAAAGTAAGT
5118 ATCGCATTGCGATTTT
1 ATCG-ATTGCGATTTT
5134 CCCAATTCGC
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
39 6 0.12
40 28 0.58
41 4 0.08
42 10 0.21
ACGTcount: A:0.23, C:0.15, G:0.22, T:0.40
Consensus pattern (41 bp):
ATCGATTGCGATTTTTTTATTATCGCATTGCGAAAGTAAGT
Found at i:5163 original size:20 final size:20
Alignment explanation
Indices: 5119--5210 Score: 94
Period size: 20 Copynumber: 4.5 Consensus size: 20
5109 ATAGTCAGTA
* **
5119 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACTTAT
*
5140 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
* * **
5160 TCGCATTGCGAATTCCCAAT
1 TCGCATTGCGATTTACTTAT
*
5180 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
5200 TCGCATTGCGA
1 TCGCATTGCGA
5211 ATTGGGAAAC
Statistics
Matches: 56, Mismatches: 15, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
20 46 0.82
21 10 0.18
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.38
Consensus pattern (20 bp):
TCGCATTGCGATTTACTTAT
Found at i:5187 original size:40 final size:40
Alignment explanation
Indices: 5119--5213 Score: 172
Period size: 40 Copynumber: 2.4 Consensus size: 40
5109 ATAGTCAGTA
*
5119 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGA-ATTCCCAATTCGCGTTGCGATTTACTTAT
5160 TCGCATTGCGAATTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTCCCAATTCGCGTTGCGATTTACTTAT
5200 TCGCATTGCGAATT
1 TCGCATTGCGAATT
5214 GGGAAACGCA
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
40 42 0.79
41 11 0.21
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.39
Consensus pattern (40 bp):
TCGCATTGCGAATTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:9591 original size:2 final size:2
Alignment explanation
Indices: 9584--9621 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
9574 TCATAAAATT
9584 TA TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9622 TTACAAAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10689 original size:3 final size:3
Alignment explanation
Indices: 10681--10738 Score: 107
Period size: 3 Copynumber: 19.0 Consensus size: 3
10671 AAACCACCCC
10681 TAA TAA TAA CTAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
10727 TAA TAA TAA TAA
1 TAA TAA TAA TAA
10739 GAAGAAGAAG
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 51 0.94
4 3 0.06
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:13718 original size:9 final size:9
Alignment explanation
Indices: 13700--13778 Score: 104
Period size: 9 Copynumber: 8.6 Consensus size: 9
13690 GGTCGGGTCG
*
13700 GGTCAGACC
1 GGTCAAACC
13709 GGTCAAACC
1 GGTCAAACC
*
13718 GGTCAAACA
1 GGTCAAACC
13727 GGTCAAACC
1 GGTCAAACC
*
13736 GGTTCAGACC
1 GG-TCAAACC
*
13746 AGTCAAACC
1 GGTCAAACC
13755 GGTCGAAACC
1 GGTC-AAACC
13765 GGTCAAACC
1 GGTCAAACC
13774 GGTCA
1 GGTCA
13779 GAAATGGTTG
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
9 45 0.74
10 16 0.26
ACGTcount: A:0.32, C:0.30, G:0.25, T:0.13
Consensus pattern (9 bp):
GGTCAAACC
Found at i:13744 original size:37 final size:37
Alignment explanation
Indices: 13700--13780 Score: 128
Period size: 37 Copynumber: 2.2 Consensus size: 37
13690 GGTCGGGTCG
*
13700 GGTCAGACCGGTCAAACCGGTC-AAACAGGTCAAACC
1 GGTCAGACCAGTCAAACCGGTCGAAACAGGTCAAACC
*
13736 GGTTCAGACCAGTCAAACCGGTCGAAACCGGTCAAACC
1 GG-TCAGACCAGTCAAACCGGTCGAAACAGGTCAAACC
13774 GGTCAGA
1 GGTCAGA
13781 AATGGTTGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
36 2 0.05
37 24 0.59
38 15 0.37
ACGTcount: A:0.32, C:0.30, G:0.26, T:0.12
Consensus pattern (37 bp):
GGTCAGACCAGTCAAACCGGTCGAAACAGGTCAAACC
Found at i:13752 original size:19 final size:18
Alignment explanation
Indices: 13700--13780 Score: 92
Period size: 19 Copynumber: 4.4 Consensus size: 18
13690 GGTCGGGTCG
*
13700 GGTCAGACCGGTCAAACC
1 GGTCAGACCAGTCAAACC
*
13718 GGTCA-AACAGGTCAAACC
1 GGTCAGACCA-GTCAAACC
13736 GGTTCAGACCAGTCAAACC
1 GG-TCAGACCAGTCAAACC
* *
13755 GGTCGAAACCGGTCAAACC
1 GGTC-AGACCAGTCAAACC
13774 GGTCAGA
1 GGTCAGA
13781 AATGGTTGAA
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
17 2 0.04
18 19 0.36
19 29 0.55
20 3 0.06
ACGTcount: A:0.32, C:0.30, G:0.26, T:0.12
Consensus pattern (18 bp):
GGTCAGACCAGTCAAACC
Found at i:13778 original size:28 final size:27
Alignment explanation
Indices: 13700--13778 Score: 104
Period size: 28 Copynumber: 2.9 Consensus size: 27
13690 GGTCGGGTCG
*
13700 GGTCAGACCGGTCAAACCGGTCAAACA
1 GGTCAAACCGGTCAAACCGGTCAAACA
* * *
13727 GGTCAAACCGGTTCAGACCAGTCAAACC
1 GGTCAAACCGG-TCAAACCGGTCAAACA
13755 GGTCGAAACCGGTCAAACCGGTCA
1 GGTC-AAACCGGTCAAACCGGTCA
13779 GAAATGGTTG
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
27 10 0.23
28 27 0.61
29 7 0.16
ACGTcount: A:0.32, C:0.30, G:0.25, T:0.13
Consensus pattern (27 bp):
GGTCAAACCGGTCAAACCGGTCAAACA
Found at i:20891 original size:22 final size:22
Alignment explanation
Indices: 20863--20922 Score: 93
Period size: 22 Copynumber: 2.7 Consensus size: 22
20853 GAAAGTCAAC
* * *
20863 GGTCAACGATCGGGTCGGGTCT
1 GGTCAACGGTCGGGTCGGGACG
20885 GGTCAACGGTCGGGTCGGGACG
1 GGTCAACGGTCGGGTCGGGACG
20907 GGTCAACGGTCGGGTC
1 GGTCAACGGTCGGGTC
20923 AGACGGTCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.13, C:0.23, G:0.45, T:0.18
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCGGGACG
Found at i:20895 original size:12 final size:12
Alignment explanation
Indices: 20863--20930 Score: 54
Period size: 12 Copynumber: 5.9 Consensus size: 12
20853 GAAAGTCAAC
*
20863 GGTCAACGATCG
1 GGTCAACGGTCG
* *
20875 GGTC--GGGTCT
1 GGTCAACGGTCG
20885 GGTCAACGGTCG
1 GGTCAACGGTCG
* *
20897 GGTC--GGGACG
1 GGTCAACGGTCG
20907 GGTCAACGGTCG
1 GGTCAACGGTCG
20919 GGTCAGACGGTC
1 GGTCA-ACGGTC
20931 AAACTGGTTC
Statistics
Matches: 42, Mismatches: 9, Indels: 9
0.70 0.15 0.15
Matches are distributed among these distances:
10 15 0.36
12 21 0.50
13 6 0.14
ACGTcount: A:0.15, C:0.24, G:0.44, T:0.18
Consensus pattern (12 bp):
GGTCAACGGTCG
Found at i:20958 original size:18 final size:18
Alignment explanation
Indices: 20921--20972 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
20911 AACGGTCGGG
**
20921 TCAGACGGTCAAACTGGT
1 TCAGACGGTCAAACCAGT
20939 TCAGACGGTCAAACCAGT
1 TCAGACGGTCAAACCAGT
20957 TC-GAACCGGTCAAACC
1 TCAG-A-CGGTCAAACC
20973 GATCAGAACC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
17 1 0.03
18 19 0.63
19 10 0.33
ACGTcount: A:0.31, C:0.29, G:0.23, T:0.17
Consensus pattern (18 bp):
TCAGACGGTCAAACCAGT
Found at i:20968 original size:19 final size:19
Alignment explanation
Indices: 20944--20985 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
20934 CTGGTTCAGA
*
20944 CGGTCAAACCAGTTC-GAAC
1 CGGTCAAACC-GATCAGAAC
20963 CGGTCAAACCGATCAGAAC
1 CGGTCAAACCGATCAGAAC
20982 CGGT
1 CGGT
20986 TGAAAACCGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.31, C:0.31, G:0.24, T:0.14
Consensus pattern (19 bp):
CGGTCAAACCGATCAGAAC
Found at i:35760 original size:2 final size:2
Alignment explanation
Indices: 35753--35786 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
35743 TAAGCAGTTC
35753 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
35787 GTCTTCCAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:40181 original size:16 final size:17
Alignment explanation
Indices: 40149--40183 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
40139 CCTCATAGAA
40149 TTTACAAATCAATTTTT
1 TTTACAAATCAATTTTT
40166 TTTACAAATC-ATTTTT
1 TTTACAAATCAATTTTT
40182 TT
1 TT
40184 CGAAAACTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.31, C:0.11, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTACAAATCAATTTTT
Found at i:40815 original size:26 final size:25
Alignment explanation
Indices: 40786--40845 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 25
40776 ATCAAGTAGA
40786 TCAAACATGTACTTTTCCA-TCACACT
1 TCAAACATGTACTTTT-CATTC-CACT
* *
40812 TCAATTCATGTACTTTTCATTCCATT
1 TCAA-ACATGTACTTTTCATTCCACT
40838 TCAAACAT
1 TCAAACAT
40846 TTTGCTTTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
25 3 0.10
26 13 0.45
27 13 0.45
ACGTcount: A:0.30, C:0.27, G:0.03, T:0.40
Consensus pattern (25 bp):
TCAAACATGTACTTTTCATTCCACT
Found at i:51747 original size:20 final size:20
Alignment explanation
Indices: 51724--51768 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
51714 TTGGCCATTA
*
51724 ACTTTGATCATTAACCGTTT
1 ACTTTGACCATTAACCGTTT
*
51744 ACTTTGACCATTGACCGTTT
1 ACTTTGACCATTAACCGTTT
51764 ACTTT
1 ACTTT
51769 TTGTTGACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.22, C:0.22, G:0.11, T:0.44
Consensus pattern (20 bp):
ACTTTGACCATTAACCGTTT
Found at i:61346 original size:40 final size:38
Alignment explanation
Indices: 61293--61368 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 38
61283 ATTAGTTCCT
61293 AAATAAAATAATAATAAAATAATCAAACTAAAAATCTG
1 AAATAAAATAATAATAAAATAATCAAACTAAAAATCTG
*
61331 AAATAAGAAGTAATAATAAAATAATCAAACTAGAAATC
1 AAATAA-AA-TAATAATAAAATAATCAAACTAAAAATC
61369 ATAAATCTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
38 6 0.17
39 2 0.06
40 27 0.77
ACGTcount: A:0.64, C:0.08, G:0.05, T:0.22
Consensus pattern (38 bp):
AAATAAAATAATAATAAAATAATCAAACTAAAAATCTG
Found at i:62921 original size:15 final size:15
Alignment explanation
Indices: 62884--62915 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
62874 ACTATTATGA
*
62884 CAAATTTAATTTTGT
1 CAAAATTAATTTTGT
62899 CAAAATTAATTTTGT
1 CAAAATTAATTTTGT
62914 CA
1 CA
62916 CTATTAGTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (15 bp):
CAAAATTAATTTTGT
Found at i:63436 original size:14 final size:14
Alignment explanation
Indices: 63417--63456 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
63407 ATGTTTTAAT
63417 TATATTGACAAAAA
1 TATATTGACAAAAA
* *
63431 TATATTGTCACAAA
1 TATATTGACAAAAA
*
63445 TATAGTGACAAA
1 TATATTGACAAA
63457 TTTTGTTACT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (14 bp):
TATATTGACAAAAA
Found at i:63933 original size:138 final size:138
Alignment explanation
Indices: 63684--63949 Score: 390
Period size: 138 Copynumber: 1.9 Consensus size: 138
63674 TTATCACATC
63684 AAATAATAAAATTTAAGTTTTTTGTAATAAATTATTTTTGTACTTATATATTTTAATCATTATGA
1 AAATAATAAAATTTAAGTTTTTTGTAATAAATTATTTTTGTACTTATATATTTTAATCATTATGA
* * *
63749 AAAAAATACTATCAGAACCATTTCTCCCTATTTTTTACTGTAAAAAATGTTATATAGTAACAAAA
66 AAAAAATACTATCAGAAACAGTTCTCCCTACTTTTTACTGTAAAAAATGTTATATAGTAACAAAA
63814 TATATTGT
131 TATATTGT
*
63822 AAATAATAAAATTTAAGTTTTTTGTAATAAATTATTTTTGTAGTTATATATTTTAATCATTATGA
1 AAATAATAAAATTTAAGTTTTTTGTAATAAATTATTTTTGTACTTATATATTTTAATCATTATGA
** ** * * ** * *
63887 AAACTTATTTTATTAGAAATAGTTCTCCCTACTTTTTGGTG-CAAAAATGTTATATAGTGACAA
66 AAA-AAATACTATCAGAAACAGTTCTCCCTACTTTTTACTGTAAAAAATGTTATATAGTAACAA
63950 GTTTTGTAAC
Statistics
Matches: 113, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
138 87 0.77
139 26 0.23
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.44
Consensus pattern (138 bp):
AAATAATAAAATTTAAGTTTTTTGTAATAAATTATTTTTGTACTTATATATTTTAATCATTATGA
AAAAAATACTATCAGAAACAGTTCTCCCTACTTTTTACTGTAAAAAATGTTATATAGTAACAAAA
TATATTGT
Found at i:64153 original size:2 final size:2
Alignment explanation
Indices: 64148--64182 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
64138 TTTTCTGATA
* *
64148 AT AT AT AT AT AT AT AT GT AT AT AT TT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
64183 ATTAAATGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
AT
Found at i:65457 original size:30 final size:31
Alignment explanation
Indices: 65391--65463 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 31
65381 TAAAGGATAT
*
65391 ATAATAAATTTAATTTTAAAATATAAAAATC
1 ATAATAAATTTAATTTTAAAATATAAAAATA
* * * * *
65422 TTAATAAATTTTATTTT-AAATATTATATTA
1 ATAATAAATTTAATTTTAAAATATAAAAATA
65452 ATAAT-AATTTAA
1 ATAATAAATTTAA
65464 ATTATATATG
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
29 6 0.18
30 13 0.38
31 15 0.44
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (31 bp):
ATAATAAATTTAATTTTAAAATATAAAAATA
Found at i:67845 original size:2 final size:2
Alignment explanation
Indices: 67840--67873 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
67830 AGAAATGAAG
67840 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
67874 TATTACCTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:70353 original size:20 final size:20
Alignment explanation
Indices: 70318--70355 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
70308 ATCTTCTTCT
**
70318 TTTTTTTTAATGTTTTAAAA
1 TTTTTTTTAAAATTTTAAAA
70338 TTTTTTTTAAAATTTTAA
1 TTTTTTTTAAAATTTTAA
70356 TTTAAACCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (20 bp):
TTTTTTTTAAAATTTTAAAA
Found at i:71675 original size:20 final size:20
Alignment explanation
Indices: 71650--71698 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
71640 TACCCCTTAC
71650 CAACCAATTAGGGATGGGCA
1 CAACCAATTAGGGATGGGCA
71670 CAACCAATTAGGGATGGGCA
1 CAACCAATTAGGGATGGGCA
*
71690 CAATCAATT
1 CAACCAATT
71699 TATATTTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.18
Consensus pattern (20 bp):
CAACCAATTAGGGATGGGCA
Found at i:72908 original size:22 final size:22
Alignment explanation
Indices: 72866--72910 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
72856 GGTGATTTGG
72866 TTTTATCTCAATTAAATGAATA
1 TTTTATCTCAATTAAATGAATA
* *
72888 TTTTAT-TCATTTAAGTAGAATA
1 TTTTATCTCAATTAAAT-GAATA
72910 T
1 T
72911 AATGTAAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.49
Consensus pattern (22 bp):
TTTTATCTCAATTAAATGAATA
Found at i:74606 original size:45 final size:45
Alignment explanation
Indices: 74542--74724 Score: 276
Period size: 45 Copynumber: 4.1 Consensus size: 45
74532 GTAAGCATGC
* *
74542 AAATAAGCTTACGAGCTTATGGAATAAATGGCAAGTGTATTGATA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTTTATTGATA
*
74587 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTTTATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTTTATTGATA
* * * *
74632 AAATAAGCTTACGAGCTCATGAAATAAATGGTAAGTTTGTTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTTTATTGATA
* * *
74677 AAATAAGCTTACGAGCTTATGGAATAAAGGGTAAATATATTGATA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTTTATTGATA
74722 AAA
1 AAA
74725 AAATGTTTTA
Statistics
Matches: 125, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 125 1.00
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.30
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTTTATTGATA
Found at i:77622 original size:17 final size:18
Alignment explanation
Indices: 77600--77633 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
77590 TTAAGCTAAC
*
77600 AAATTAA-GAAGAAAATT
1 AAATTAATGAAAAAAATT
77617 AAATTAATGAAAAAAAT
1 AAATTAATGAAAAAAAT
77634 AAACGGATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.68, C:0.00, G:0.09, T:0.24
Consensus pattern (18 bp):
AAATTAATGAAAAAAATT
Found at i:79620 original size:31 final size:30
Alignment explanation
Indices: 79560--79620 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
79550 TAAAATAATT
* *
79560 ATTAAAATATTAAAATATTTATTAAATTTA
1 ATTAAAATATTAAAATAATCATTAAATTTA
* *
79590 ATTAAATTATTAAAAATAATCATTAGATTTA
1 ATTAAAATATT-AAAATAATCATTAAATTTA
79621 TCAAGTTCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 10 0.38
31 16 0.62
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (30 bp):
ATTAAAATATTAAAATAATCATTAAATTTA
Found at i:80682 original size:2 final size:2
Alignment explanation
Indices: 80675--80717 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
80665 AACGAAGTAA
*
80675 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
80717 A
1 A
80718 AGAAGGATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:80919 original size:11 final size:11
Alignment explanation
Indices: 80903--80936 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
80893 GACTAGTATG
80903 AAAATAATAAT
1 AAAATAATAAT
80914 AAAATAATAATT
1 AAAATAATAA-T
*
80926 AAAGTAATAAT
1 AAAATAATAAT
80937 TTAAACATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (11 bp):
AAAATAATAAT
Found at i:80933 original size:12 final size:12
Alignment explanation
Indices: 80903--80937 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
80893 GACTAGTATG
80903 AAAATAATAA-T
1 AAAATAATAATT
80914 AAAATAATAATT
1 AAAATAATAATT
*
80926 AAAGTAATAATT
1 AAAATAATAATT
80938 TAAACATATC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 10 0.45
12 12 0.55
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (12 bp):
AAAATAATAATT
Found at i:81290 original size:21 final size:21
Alignment explanation
Indices: 81264--81358 Score: 129
Period size: 21 Copynumber: 4.6 Consensus size: 21
81254 GCGTTGCATT
*
81264 TCGCGTTGCGATAATTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
81285 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* ** **
81306 TCGCGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
81326 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
81347 TCGCGTTGCGAT
1 TCGCGTTGCGAT
81359 TTTCCAGTTC
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
20 15 0.24
21 47 0.76
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:81331 original size:20 final size:20
Alignment explanation
Indices: 81306--81377 Score: 81
Period size: 20 Copynumber: 3.5 Consensus size: 20
81296 TAGTTGAAAA
*
81306 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCAAT
* ** *
81326 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCAAT
*
81347 TCGCGTTGCGATTTTCCAGT
1 TCGCGTTGCGATTTTCCAAT
81367 TCGCGTTGCGA
1 TCGCGTTGCGA
81378 GAGTCTACAG
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
20 26 0.63
21 15 0.37
ACGTcount: A:0.15, C:0.22, G:0.26, T:0.36
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCAAT
Found at i:81337 original size:41 final size:41
Alignment explanation
Indices: 81285--81377 Score: 177
Period size: 41 Copynumber: 2.3 Consensus size: 41
81275 TAATTGAAAA
*
81285 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAGT
81326 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAGT
1 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAGT
81367 TCGCGTTGCGA
1 TCGCGTTGCGA
81378 GAGTCTACAG
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.18, C:0.20, G:0.27, T:0.34
Consensus pattern (41 bp):
TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAGT
Found at i:81441 original size:22 final size:22
Alignment explanation
Indices: 81413--81457 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
81403 TCGAAATTCG
*
81413 TAGTCTACAGTTGTTGTTGCGA
1 TAGTCTACAGTTGTCGTTGCGA
81435 TAGTCTACAGTTGTCGTTGCGA
1 TAGTCTACAGTTGTCGTTGCGA
81457 T
1 T
81458 TTTCCAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.16, G:0.27, T:0.40
Consensus pattern (22 bp):
TAGTCTACAGTTGTCGTTGCGA
Found at i:81486 original size:57 final size:57
Alignment explanation
Indices: 81371--81486 Score: 162
Period size: 57 Copynumber: 2.0 Consensus size: 57
81361 TCCAGTTCGC
* * * *
81371 GTTGCGAGAGTCTACAGTTGTCGTTGCGATTTTCGAAATTCGTAGTCTACAGTTGTT
1 GTTGCGAGAGTCTACAGTTGTCGTTGCGATTTTCCAAATTCGTAGTCGAAAATTGTT
* *
81428 GTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATTCGTTG-CGAAAATTCGTT
1 GTTGCGAGAGTCTACAGTTGTCGTTGCGATTTTCCAAATTCGTAGTCGAAAATT-GTT
81485 GT
1 GT
81487 GATAGTTAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
56 5 0.10
57 47 0.90
ACGTcount: A:0.20, C:0.16, G:0.25, T:0.39
Consensus pattern (57 bp):
GTTGCGAGAGTCTACAGTTGTCGTTGCGATTTTCCAAATTCGTAGTCGAAAATTGTT
Found at i:81609 original size:5 final size:6
Alignment explanation
Indices: 81570--81606 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
81560 GACACGTATT
81570 ACCACG ACCACG ACCACG ACCACG ACC-CG ACC-CG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
81607 CGAGACGGAC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 10 0.32
6 21 0.68
ACGTcount: A:0.30, C:0.54, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:82248 original size:22 final size:21
Alignment explanation
Indices: 82221--82357 Score: 122
Period size: 22 Copynumber: 6.5 Consensus size: 21
82211 AATTTGAAAA
82221 ATCGCAACGACAACTGTAGACT
1 ATCGCAACG-CAACTGTAGACT
*
82243 ATCGCAACAACAACTGTAGACT
1 ATCGCAAC-GCAACTGTAGACT
* * **
82265 ATCGCAACG-AA-TTTGGAAA
1 ATCGCAACGCAACTGTAGACT
82284 ATCGCAACGACAACTGTAGACT
1 ATCGCAACG-CAACTGTAGACT
**
82306 ATCGCAACGCGAACTG--GAAA
1 ATCGCAACGC-AACTGTAGACT
82326 ATCGCAAC-CAACATTGTAGACT
1 ATCGCAACGCAAC--TGTAGACT
82348 ATCGCAACGC
1 ATCGCAACGC
82358 GAAATGGAAA
Statistics
Matches: 91, Mismatches: 14, Indels: 19
0.73 0.11 0.15
Matches are distributed among these distances:
18 3 0.03
19 14 0.15
20 14 0.15
21 3 0.03
22 56 0.62
23 1 0.01
ACGTcount: A:0.38, C:0.26, G:0.18, T:0.18
Consensus pattern (21 bp):
ATCGCAACGCAACTGTAGACT
Found at i:82297 original size:41 final size:41
Alignment explanation
Indices: 82243--82376 Score: 175
Period size: 42 Copynumber: 3.2 Consensus size: 41
82233 ACTGTAGACT
* *
82243 ATCGCAACAACAACTGTAGACTATCGCAA-CGAATTTGGAAA
1 ATCGCAACGACAACTGTAGACTATCGCAACCGAA-ATGGAAA
*
82284 ATCGCAACGACAACTGTAGACTATCGCAACGCGAACTGGAAA
1 ATCGCAACGACAACTGTAGACTATCGCAAC-CGAAATGGAAA
82326 ATCGCAAC--CAACATTGTAGACTATCGCAACGCGAAATGGAAA
1 ATCGCAACGACAAC--TGTAGACTATCGCAAC-CGAAATGGAAA
82368 ATCGCAACG
1 ATCGCAACG
82377 CGATTTTCAA
Statistics
Matches: 85, Mismatches: 3, Indels: 8
0.89 0.03 0.08
Matches are distributed among these distances:
40 4 0.05
41 28 0.33
42 49 0.58
43 4 0.05
ACGTcount: A:0.40, C:0.25, G:0.19, T:0.16
Consensus pattern (41 bp):
ATCGCAACGACAACTGTAGACTATCGCAACCGAAATGGAAA
Found at i:82331 original size:20 final size:20
Alignment explanation
Indices: 82278--82379 Score: 75
Period size: 20 Copynumber: 4.9 Consensus size: 20
82268 GCAACGAATT
82278 TGGAAAATCGCAACGAC-AAC
1 TGGAAAATCGCAACG-CGAAC
**
82298 TGTAGACTATCGCAACGCGAAC
1 TG--GAAAATCGCAACGCGAAC
82320 TGGAAAATCGCAAC-C-AAC
1 TGGAAAATCGCAACGCGAAC
** *
82338 ATTGTAGACTATCGCAACGCGAAA
1 --TG--GAAAATCGCAACGCGAAC
82362 TGGAAAATCGCAACGCGA
1 TGGAAAATCGCAACGCGA
82380 TTTTCAACTA
Statistics
Matches: 64, Mismatches: 9, Indels: 18
0.70 0.10 0.20
Matches are distributed among these distances:
18 3 0.05
19 1 0.02
20 28 0.44
21 1 0.02
22 28 0.44
23 1 0.02
24 2 0.03
ACGTcount: A:0.39, C:0.25, G:0.22, T:0.15
Consensus pattern (20 bp):
TGGAAAATCGCAACGCGAAC
Found at i:82349 original size:83 final size:82
Alignment explanation
Indices: 82243--82401 Score: 207
Period size: 83 Copynumber: 1.9 Consensus size: 82
82233 ACTGTAGACT
*
82243 ATCGCAACAACAACTGTAGACTATCGCAA-CGAATTTGGAAAATCGCAACGACAACTGT-AGACT
1 ATCGCAACAACAACTGTAGACTATCGCAACCGAA-ATGGAAAATCGCAACG-CAACTGTCA-ACT
82306 ATCGCAACGCGAACTGGAAA
63 ATCGCAACGCGAACTGGAAA
* * * *
82326 ATCGCAACCAAC-ATTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTA
1 ATCGCAA-CAACAACTGTAGACTATCGCAAC-CGAAATGGAAAATCGCAACGCAACTGTCAACTA
82390 TCGCAACGCGAA
64 TCGCAACGCGAA
82402 ATGCAACGCG
Statistics
Matches: 67, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
83 43 0.64
84 20 0.30
85 4 0.06
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.18
Consensus pattern (82 bp):
ATCGCAACAACAACTGTAGACTATCGCAACCGAAATGGAAAATCGCAACGCAACTGTCAACTATC
GCAACGCGAACTGGAAA
Found at i:82402 original size:41 final size:41
Alignment explanation
Indices: 82243--82404 Score: 170
Period size: 41 Copynumber: 3.9 Consensus size: 41
82233 ACTGTAGACT
* * *
82243 ATCGCAACAACAACTGTAGACTATCGCAA--CGAATTTGGAAA
1 ATCGCAACCAC-ATTGTAGACTATCGCAACGCGAA-ATGGAAA
* * *
82284 ATCGCAACGACAACTGTAGACTATCGCAACGCGAACTGGAAA
1 ATCGCAACCAC-ATTGTAGACTATCGCAACGCGAAATGGAAA
82326 ATCGCAACCAACATTGTAGACTATCGCAACGCGAAATGGAAA
1 ATCGCAACC-ACATTGTAGACTATCGCAACGCGAAATGGAAA
* *
82368 ATCGCAACGC-GATTTTCA-ACTATCGCAACGCGAAATG
1 ATCGCAAC-CACATTGT-AGACTATCGCAACGCGAAATG
82405 CAACGCGAAT
Statistics
Matches: 109, Mismatches: 7, Indels: 10
0.87 0.06 0.08
Matches are distributed among these distances:
41 51 0.47
42 51 0.47
43 7 0.06
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.18
Consensus pattern (41 bp):
ATCGCAACCACATTGTAGACTATCGCAACGCGAAATGGAAA
Found at i:83682 original size:3 final size:3
Alignment explanation
Indices: 83674--83726 Score: 92
Period size: 3 Copynumber: 18.3 Consensus size: 3
83664 ATTTATTTAG
83674 TAA TAA TAA T-A TAA TAA TAA TAA TAA TAA TAA T-A TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
83720 TAA TAA T
1 TAA TAA T
83727 TTTAAAATGA
Statistics
Matches: 48, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 4 0.08
3 44 0.92
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:83700 original size:23 final size:23
Alignment explanation
Indices: 83674--83726 Score: 106
Period size: 23 Copynumber: 2.3 Consensus size: 23
83664 ATTTATTTAG
83674 TAATAATAATATAATAATAATAA
1 TAATAATAATATAATAATAATAA
83697 TAATAATAATATAATAATAATAA
1 TAATAATAATATAATAATAATAA
83720 TAATAAT
1 TAATAAT
83727 TTTAAAATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (23 bp):
TAATAATAATATAATAATAATAA
Found at i:83991 original size:45 final size:45
Alignment explanation
Indices: 83899--84127 Score: 361
Period size: 45 Copynumber: 5.1 Consensus size: 45
83889 GAGGTCTTAT
* * *
83899 CATCTTGCACTGAAGGTCTTACAGATGA-CCGAAGGCTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
83943 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
* *
83988 CATCATGCACTGAAGGTCTTACAGATGACCCGAAGGTTTTGATAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
* * *
84033 CATCATGCACTAAAGGGCTTATAGATGACCCGAAGGCTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
*
84078 CATCATACACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
*
84123 AATCA
1 CATCA
84128 AAAAGCTCCT
Statistics
Matches: 169, Mismatches: 15, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
44 26 0.15
45 143 0.85
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (45 bp):
CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
Found at i:84208 original size:45 final size:45
Alignment explanation
Indices: 84145--84248 Score: 147
Period size: 45 Copynumber: 2.3 Consensus size: 45
84135 CCTGAAGGCT
* *
84145 TTTTGAAAACATCCTGCACTGTAGGTCTTA-AGGATGACCCGAAGG
1 TTTTGAAAACATCATGCACTGTAGGACTTACA-GATGACCCGAAGG
* *
84190 TTTTGAAAACATCATGCACTGTATGACTTACAGATGACCCGTAGG
1 TTTTGAAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGG
*
84235 CTTTGAAAACATCA
1 TTTTGAAAACATCA
84249 AAAAGCTTCC
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
45 52 0.98
46 1 0.02
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (45 bp):
TTTTGAAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGG
Found at i:84240 original size:121 final size:120
Alignment explanation
Indices: 84017--84445 Score: 560
Period size: 121 Copynumber: 3.6 Consensus size: 120
84007 TACAGATGAC
* * *
84017 CCGAAGG--TTTTGATAACATCATGCACTAAAGGGCTTATAGATGACCCGAAGGCTTTGAAAACA
1 CCGAAGGCTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACA
* * * * *
84080 TCATACACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAAAATCAAAAAGCT
66 TCATGCACTGTATGACTTACAGATGACCCGAAGGCTTTGAAAAAATCAAAAAGCT
* * * *
84135 CCTGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTA-AGGATGACCCGAAGGTTTTGAAAA
1 CC-GAAGGCTTTTTGAAAACATCATGCACTGAAGGGCTTACA-GATGACCCGAAGGCTTTGAAAA
* *
84199 CATCATGCACTGTATGACTTACAGATGACCCGTAGGCTTTGAAAACATCAAAAAGCTT
64 CATCATGCACTGTATGACTTACAGATGACCCGAAGGCTTTGAAAAAATCAAAAAGC-T
* ** * * ** *
84257 CCGAAGGCTTTTTGAAAACATCCTTTACTGTAGGTCTTATGGATGACCCGAAGGTTTTGAAAACA
1 CCGAAGGCTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACA
* *
84322 TCATGCATTGTATGACTTACAGATGACCCGAAGGCTTT-AAAAACATCAAAAATCT
66 TCATGCACTGTATGACTTACAGATGACCCGAAGGCTTTGAAAAA-ATCAAAAAGCT
*
84377 CCCAAAGGCTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
1 -CCGAAGGCTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
84442 ATCA
65 ATCA
84446 AAAAGCTCCT
Statistics
Matches: 274, Mismatches: 29, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
118 2 0.01
119 5 0.02
120 6 0.02
121 258 0.94
122 3 0.01
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (120 bp):
CCGAAGGCTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACA
TCATGCACTGTATGACTTACAGATGACCCGAAGGCTTTGAAAAAATCAAAAAGCT
Found at i:84270 original size:76 final size:74
Alignment explanation
Indices: 84183--84324 Score: 185
Period size: 76 Copynumber: 1.9 Consensus size: 74
84173 TAAGGATGAC
* *
84183 CCGAAGGTTTTGAAAACATCATGCACTGTATGACTTACAGATGACCCGTAGGCTTTGAAAACATC
1 CCGAAGGTTTTGAAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAACATC
84248 AAAAAGCTT
66 AAAAAGCTT
* ** * ** *
84257 CCGAAGGCTTTTTGAAAACATCCTTTACTGTAGGTCTTATGGATGACCCGAAGGTTTTGAAAACA
1 CCGAAGG--TTTTGAAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAACA
84322 TCA
64 TCA
84325 TGCATTGTAT
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
74 7 0.12
76 50 0.88
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (74 bp):
CCGAAGGTTTTGAAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAACATC
AAAAAGCTT
Found at i:84323 original size:45 final size:45
Alignment explanation
Indices: 84257--84369 Score: 118
Period size: 45 Copynumber: 2.5 Consensus size: 45
84247 CAAAAAGCTT
* ** * **
84257 CCGAAGGCTTTTTGAAAACATCCTTTACTGTAGGTCTTATGGATGAC
1 CCGAAGG--TTTTGAAAACATCATGCACTGTAGGACTTACAGATGAC
* *
84304 CCGAAGGTTTTGAAAACATCATGCATTGTATGACTTACAGATGAC
1 CCGAAGGTTTTGAAAACATCATGCACTGTAGGACTTACAGATGAC
* *
84349 CCGAAGGCTTTAAAAACATCA
1 CCGAAGGTTTTGAAAACATCA
84370 AAAATCTCCC
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
45 49 0.88
47 7 0.12
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.29
Consensus pattern (45 bp):
CCGAAGGTTTTGAAAACATCATGCACTGTAGGACTTACAGATGAC
Found at i:84395 original size:76 final size:76
Alignment explanation
Indices: 84311--84521 Score: 296
Period size: 76 Copynumber: 2.8 Consensus size: 76
84301 GACCCGAAGG
* * * *
84311 TTTTGAAAACATCATGCATTGTATGACTTACAGATGACCCGAAGGCTTTAAAAACATCAAAAATC
1 TTTTGAAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGC
84376 TCCCAAAGGCT
66 TCCCAAAGGCT
* *
84387 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGC
1 TTTTGAAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGC
**
84452 TCCTGAAGGCT
66 TCCCAAAGGCT
* * ** * *
84463 TTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGACCCAAAGGTTTTGAAAACATCA
1 TTTTGAAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCA
84522 TGAACTGTAG
Statistics
Matches: 120, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
76 120 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (76 bp):
TTTTGAAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGC
TCCCAAAGGCT
Found at i:85239 original size:22 final size:22
Alignment explanation
Indices: 85214--85287 Score: 121
Period size: 22 Copynumber: 3.4 Consensus size: 22
85204 AAAGCTTATT
*
85214 TTTGAAAAGAGAATCTATCATC
1 TTTGAAGAGAGAATCTATCATC
85236 TTTGAAGAGAGAATCTATCATC
1 TTTGAAGAGAGAATCTATCATC
* *
85258 TTTGAAGAGGGAATCTATCATA
1 TTTGAAGAGAGAATCTATCATC
85280 TTTGAAGA
1 TTTGAAGA
85288 ATGTAGATGT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (22 bp):
TTTGAAGAGAGAATCTATCATC
Found at i:86938 original size:75 final size:75
Alignment explanation
Indices: 86843--87013 Score: 236
Period size: 75 Copynumber: 2.3 Consensus size: 75
86833 GATATAGGCC
* * * * *
86843 TTCAGCATGCCTCAATATTTGCTAATATAGACGTTCAAAATGCGCCAATATTCC-AATTTCTGAT
1 TTCAGCATGCCCCAACATTTGCTAATACAAACGTTCAAAATGCGCCAATATTCCTAA-TTATGAT
86907 TGAAATGGACT
65 TGAAATGGACT
* * *
86918 TTCAGCATGCCCCAACATTTGCTGATACAAACGTTCAAAATGCGTCAATATTCCTGATTATGATT
1 TTCAGCATGCCCCAACATTTGCTAATACAAACGTTCAAAATGCGCCAATATTCCTAATTATGATT
*
86983 GAAATGGGCT
66 GAAATGGACT
*
86993 TTGAGCATGCCCCAACATTTG
1 TTCAGCATGCCCCAACATTTG
87014 TTTTTTTTTT
Statistics
Matches: 85, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
75 84 0.99
76 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (75 bp):
TTCAGCATGCCCCAACATTTGCTAATACAAACGTTCAAAATGCGCCAATATTCCTAATTATGATT
GAAATGGACT
Found at i:94931 original size:11 final size:11
Alignment explanation
Indices: 94915--94948 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
94905 GACTAGTATG
94915 AAAATAATAAT
1 AAAATAATAAT
94926 AAAATAATAATT
1 AAAATAATAA-T
*
94938 AAAGTAATAAT
1 AAAATAATAAT
94949 TTAAACATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (11 bp):
AAAATAATAAT
Found at i:94945 original size:12 final size:12
Alignment explanation
Indices: 94915--94949 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
94905 GACTAGTATG
94915 AAAATAATAA-T
1 AAAATAATAATT
94926 AAAATAATAATT
1 AAAATAATAATT
*
94938 AAAGTAATAATT
1 AAAATAATAATT
94950 TAAACATATC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 10 0.45
12 12 0.55
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (12 bp):
AAAATAATAATT
Found at i:96305 original size:3 final size:3
Alignment explanation
Indices: 96293--96346 Score: 83
Period size: 3 Copynumber: 18.3 Consensus size: 3
96283 ATTTATTTAT
* *
96293 TAA T-A TAA TAA TAA TAA TAC TTA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
96340 TAA TAA T
1 TAA TAA T
96347 TTAAAAATGA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
2 2 0.04
3 44 0.96
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:104551 original size:33 final size:32
Alignment explanation
Indices: 104489--104551 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 32
104479 TTTTTCAAAC
**
104489 TCAATTTTCTTTATTCAATACTTTTTTTTAAT
1 TCAATTTTCTTTATTCAATACTTCATTTTAAT
* *
104521 TCAATTTTCTTTCGTTCATTACTTCATTTTA
1 TCAATTTTCTTT-ATTCAATACTTCATTTTA
104552 TCCTCTTTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
32 12 0.46
33 14 0.54
ACGTcount: A:0.22, C:0.16, G:0.02, T:0.60
Consensus pattern (32 bp):
TCAATTTTCTTTATTCAATACTTCATTTTAAT
Found at i:110696 original size:5 final size:5
Alignment explanation
Indices: 110686--110711 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
110676 TTAATGTTTC
110686 ACCCG ACCCG ACCCG ACCCG ACCCG A
1 ACCCG ACCCG ACCCG ACCCG ACCCG A
110712 AATAATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.58, G:0.19, T:0.00
Consensus pattern (5 bp):
ACCCG
Found at i:123055 original size:16 final size:16
Alignment explanation
Indices: 123034--123067 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
123024 GCAAATGCAA
123034 ATAAAATGACAAATGC
1 ATAAAATGACAAATGC
*
123050 ATAAAATGTCAAATGC
1 ATAAAATGACAAATGC
123066 AT
1 AT
123068 CAACCGAGTC
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:0.53, C:0.12, G:0.12, T:0.24
Consensus pattern (16 bp):
ATAAAATGACAAATGC
Found at i:124737 original size:26 final size:26
Alignment explanation
Indices: 124708--124763 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
124698 AAAGGGGGTT
*
124708 TAAAAATTAAAATTAAAAGA-TGAGGA
1 TAAAAA-TAAAAATAAAAGAGTGAGGA
* * *
124734 TAAAGATAAAAATGAGAGAGTGAGGA
1 TAAAAATAAAAATAAAAGAGTGAGGA
124760 TAAA
1 TAAA
124764 GTAAACTGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 10 0.40
26 15 0.60
ACGTcount: A:0.59, C:0.00, G:0.21, T:0.20
Consensus pattern (26 bp):
TAAAAATAAAAATAAAAGAGTGAGGA
Found at i:132968 original size:20 final size:20
Alignment explanation
Indices: 132940--132978 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
132930 TCTCTCTGGC
* *
132940 TTCTTTCTTCCTTCCCTCGT
1 TTCTCTCTTCCCTCCCTCGT
132960 TTCTCTCTTCCCTCCCTCG
1 TTCTCTCTTCCCTCCCTCG
132979 GATGGAGGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.00, C:0.46, G:0.05, T:0.49
Consensus pattern (20 bp):
TTCTCTCTTCCCTCCCTCGT
Found at i:133637 original size:13 final size:13
Alignment explanation
Indices: 133618--133651 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
133608 TTTTATTAAT
*
133618 AGTGAACAGTACC
1 AGTGAACAGTAAC
*
133631 CGTGAACAGTAAC
1 AGTGAACAGTAAC
133644 AGTGAACA
1 AGTGAACA
133652 ATGGCAATGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.41, C:0.21, G:0.24, T:0.15
Consensus pattern (13 bp):
AGTGAACAGTAAC
Found at i:134067 original size:45 final size:45
Alignment explanation
Indices: 133994--134124 Score: 192
Period size: 45 Copynumber: 2.9 Consensus size: 45
133984 TTGCATAACC
133994 AATATTTTACCATTTATTAACCATAAGCTCGTAAGCTTATTTTACCAA
1 AATA-TTTACCATTT-TT-ACCATAAGCTCGTAAGCTTATTTTACCAA
134042 AATATTTACCATTTTTACCATAAGCTCGTAAGCTTATTTTACCAA
1 AATATTTACCATTTTTACCATAAGCTCGTAAGCTTATTTTACCAA
* * * *
134087 TATACTTACCATTATT-CTATAAGCTCGTAAGCTTATTT
1 AATATTTACCATTTTTACCATAAGCTCGTAAGCTTATTT
134125 GCATGCTTAC
Statistics
Matches: 79, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
44 21 0.27
45 42 0.53
46 2 0.03
47 10 0.13
48 4 0.05
ACGTcount: A:0.33, C:0.19, G:0.07, T:0.41
Consensus pattern (45 bp):
AATATTTACCATTTTTACCATAAGCTCGTAAGCTTATTTTACCAA
Found at i:134085 original size:24 final size:24
Alignment explanation
Indices: 134013--134085 Score: 71
Period size: 24 Copynumber: 3.2 Consensus size: 24
134003 CCATTTATTA
134013 ACCATAAGCTCGTAAGCTTATTTT
1 ACCATAAGCTCGTAAGCTTATTTT
* ** * * *
134037 ACCA-AA-ATATTTACCAT-TTTT
1 ACCATAAGCTCGTAAGCTTATTTT
134058 ACCATAAGCTCGTAAGCTTATTTT
1 ACCATAAGCTCGTAAGCTTATTTT
134082 ACCA
1 ACCA
134086 ATATACTTAC
Statistics
Matches: 34, Mismatches: 12, Indels: 6
0.65 0.23 0.12
Matches are distributed among these distances:
21 8 0.24
22 7 0.21
23 7 0.21
24 12 0.35
ACGTcount: A:0.33, C:0.22, G:0.08, T:0.37
Consensus pattern (24 bp):
ACCATAAGCTCGTAAGCTTATTTT
Found at i:134289 original size:40 final size:40
Alignment explanation
Indices: 134229--134390 Score: 279
Period size: 40 Copynumber: 4.0 Consensus size: 40
134219 ACCGTAGTGC
*
134229 TACACATAAGGTCGTGCCCACCATATACACTGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
* * *
134269 TACACATAAGGTTGTACCCACCACATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
134309 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
*
134349 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGAAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
134389 TA
1 TA
134391 TAAACCTGCA
Statistics
Matches: 114, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 114 1.00
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.23
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:139849 original size:79 final size:77
Alignment explanation
Indices: 139699--139854 Score: 276
Period size: 79 Copynumber: 2.0 Consensus size: 77
139689 ATGATCTAAA
*
139699 CTCGTTAATGATAATCCCATAAGATTCACCGGTAACATAAACTCCTGAATTTTTATTGAACATTT
1 CTCGTTAATGATAATCCCATAAAATTCACCGGTAACATAAACTCCTGAATTTTTATTGAACATTT
139764 ACTATTTGTCCG
66 ACTATTTGTCCG
139776 CTCGTTAATGATAATCCCATAAAATTCACCGGTAACACATAAACTCCTGAATTTTTATTGAACAT
1 CTCGTTAATGATAATCCCATAAAATTCACCGGT-A-ACATAAACTCCTGAATTTTTATTGAACAT
*
139841 TTATTATTTGTCCG
64 TTACTATTTGTCCG
139855 ACTAACACAT
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
77 32 0.43
78 1 0.01
79 42 0.56
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.37
Consensus pattern (77 bp):
CTCGTTAATGATAATCCCATAAAATTCACCGGTAACATAAACTCCTGAATTTTTATTGAACATTT
ACTATTTGTCCG
Found at i:141638 original size:44 final size:45
Alignment explanation
Indices: 141516--141640 Score: 164
Period size: 45 Copynumber: 2.8 Consensus size: 45
141506 AACTAATATT
*
141516 TTACCATATATTAACCATAAGCTCGTAAGCTTATTTTACCAAAATAT
1 TTACCAT-TATT-ACCATAAGCTCGTAAGCTTATTTTACCAAAATAC
* * **
141563 TTACCATT-TGTACCATAATCTCGTCAGCTTATTTTACCAGTATAC
1 TTACCATTAT-TACCATAAGCTCGTAAGCTTATTTTACCAAAATAC
141608 TTACCATTATT-CCATAAGCTCGTAAGCTTATTT
1 TTACCATTATTACCATAAGCTCGTAAGCTTATTT
141641 GCATGCTTAC
Statistics
Matches: 69, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
44 20 0.29
45 39 0.57
46 3 0.04
47 7 0.10
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (45 bp):
TTACCATTATTACCATAAGCTCGTAAGCTTATTTTACCAAAATAC
Found at i:141789 original size:40 final size:40
Alignment explanation
Indices: 141745--141826 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 40
141735 ACCGTAGTGC
*
141745 TACACATAAGGCCTTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGCCGTGCCCACCATATACACCGAAGTGTAT
*
141785 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGCCGTGCCCACCATATACACCGAAGTGTAT
141825 TA
1 TA
141827 TAAACCTGCA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (40 bp):
TACACATAAGGCCGTGCCCACCATATACACCGAAGTGTAT
Found at i:144165 original size:3 final size:3
Alignment explanation
Indices: 144157--144213 Score: 55
Period size: 3 Copynumber: 18.7 Consensus size: 3
144147 GAAAATTATG
* *
144157 TAA TAA TAA -AA TTAA TAA TGAA -AA TAA TAA TAT TAAA TAA TAG TAA
1 TAA TAA TAA TAA -TAA TAA T-AA TAA TAA TAA TAA T-AA TAA TAA TAA
144203 TAA TAA TAA TA
1 TAA TAA TAA TA
144214 TAACCCAGAC
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
2 4 0.09
3 35 0.78
4 6 0.13
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:144576 original size:19 final size:20
Alignment explanation
Indices: 144548--144593 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
144538 AAAGTTAAAA
*
144548 GAGTATAGATTAA-TTGGTT
1 GAGTAGAGATTAATTTGGTT
144567 GAGTAGAGATTAATTTGGTT
1 GAGTAGAGATTAATTTGGTT
144587 GAGTAGA
1 GAGTAGA
144594 ATACCAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.33, C:0.00, G:0.30, T:0.37
Consensus pattern (20 bp):
GAGTAGAGATTAATTTGGTT
Found at i:146440 original size:13 final size:13
Alignment explanation
Indices: 146422--146455 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
146412 AAGGGTACCA
146422 TGAGTTTGAAACT
1 TGAGTTTGAAACT
146435 TGAGTTTGAAACT
1 TGAGTTTGAAACT
146448 TGAGTTTG
1 TGAGTTTG
146456 TTGGCTATCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.26, C:0.06, G:0.26, T:0.41
Consensus pattern (13 bp):
TGAGTTTGAAACT
Found at i:147027 original size:45 final size:43
Alignment explanation
Indices: 146948--147031 Score: 116
Period size: 45 Copynumber: 1.9 Consensus size: 43
146938 GCCAGATTAG
*
146948 TGATGAAAGTATACAGATAATTGACGGTGAAATACTTTATGTA
1 TGATGAAAGTATACAAATAATTGACGGTGAAATACTTTATGTA
*
146991 TGATGAAAGTTTATA-AAATAATTGAAGGGTGAAATACTTTA
1 TGATGAAAG--TATACAAATAATTG-ACGGTGAAATACTTTA
147032 CGTGATCCAC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
43 9 0.25
44 8 0.22
45 19 0.53
ACGTcount: A:0.42, C:0.05, G:0.20, T:0.33
Consensus pattern (43 bp):
TGATGAAAGTATACAAATAATTGACGGTGAAATACTTTATGTA
Found at i:149240 original size:22 final size:22
Alignment explanation
Indices: 149212--149266 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
149202 TAAATTCTTG
*
149212 TATTTTTTTTAAATTTGAATACT
1 TATTTTTATT-AATTTGAATACT
149235 TATTTTTATTAATTTGAATACT
1 TATTTTTATTAATTTGAATACT
149257 TATTTTTATT
1 TATTTTTATT
149267 TGAACCAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 22 0.71
23 9 0.29
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.64
Consensus pattern (22 bp):
TATTTTTATTAATTTGAATACT
Found at i:149652 original size:106 final size:109
Alignment explanation
Indices: 149467--149675 Score: 397
Period size: 106 Copynumber: 1.9 Consensus size: 109
149457 ATATTTGTAA
149467 TATTAACCTATAATCGAACCATTAATAATTGTTAACCATTAGCGGTTAACCGTTTCTTAATGGTT
1 TATTAACCTATAATCGAACCATTAATAATTGTTAACCATTAGCGGTTAACCGTTTCTTAATGGTT
149532 ATAGTATGATTAC-AATATC-CGTAACCG-TATAATGATATTTG
66 ATAGTATGATTACAAATATCTCGTAACCGTTATAATGATATTTG
149573 TATTAACCTATAATCGAACCATTAATAATTGTTAACCATTAGCGGTTAACCGTTTCTTAATGGTT
1 TATTAACCTATAATCGAACCATTAATAATTGTTAACCATTAGCGGTTAACCGTTTCTTAATGGTT
149638 ATAGTATGATTACAAATATCTCGTAACCGTTATAATGA
66 ATAGTATGATTACAAATATCTCGTAACCGTTATAATGA
149676 CTAACTGACT
Statistics
Matches: 100, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
106 78 0.78
107 6 0.06
108 8 0.08
109 8 0.08
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.37
Consensus pattern (109 bp):
TATTAACCTATAATCGAACCATTAATAATTGTTAACCATTAGCGGTTAACCGTTTCTTAATGGTT
ATAGTATGATTACAAATATCTCGTAACCGTTATAATGATATTTG
Found at i:150668 original size:20 final size:19
Alignment explanation
Indices: 150642--150691 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 19
150632 AAATAACTAC
150642 CCCAACAACTATAATTTAT
1 CCCAACAACTATAATTTAT
150661 CACCAACAACTATAATTTAT
1 C-CCAACAACTATAATTTAT
150681 CCTCAACAACT
1 CC-CAACAACT
150692 CTAAAAGATT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 2 0.07
20 27 0.93
ACGTcount: A:0.42, C:0.30, G:0.00, T:0.28
Consensus pattern (19 bp):
CCCAACAACTATAATTTAT
Found at i:151609 original size:28 final size:27
Alignment explanation
Indices: 151554--151615 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
151544 TAGAGATTGA
* *
151554 AGAAAATGAGTTTTTGAGTGTTATGTT
1 AGAATATGAGTTTTTAAGTGTTATGTT
151581 AGAATATGAGTTTTTAATGATGTT-TGTT
1 AGAATATGAGTTTTTAA-G-TGTTATGTT
*
151609 AGTATAT
1 AGAATAT
151616 TTGACTTGTC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
27 15 0.50
28 11 0.37
29 4 0.13
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.47
Consensus pattern (27 bp):
AGAATATGAGTTTTTAAGTGTTATGTT
Found at i:151973 original size:20 final size:20
Alignment explanation
Indices: 151947--151997 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
151937 CTATTCAAGT
151947 GGTATCGATACCAAGA-GAG
1 GGTATCGATACCAAGAGGAG
* *
151966 GAGTATCGATACCATGAGGAT
1 G-GTATCGATACCAAGAGGAG
151987 GGTATCGATAC
1 GGTATCGATAC
151998 TATTGAGTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 1 0.04
20 24 0.86
21 3 0.11
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.22
Consensus pattern (20 bp):
GGTATCGATACCAAGAGGAG
Found at i:153447 original size:24 final size:25
Alignment explanation
Indices: 153420--153471 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
153410 TTCAATTCAA
* *
153420 ATTCAAAATACTAATCATCCAAA-C
1 ATTCAAAACACCAATCATCCAAATC
*
153444 ATTCAAAACACCAATTATCCAAATC
1 ATTCAAAACACCAATCATCCAAATC
153469 ATT
1 ATT
153472 TAATTATTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 20 0.83
25 4 0.17
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.27
Consensus pattern (25 bp):
ATTCAAAACACCAATCATCCAAATC
Found at i:154554 original size:18 final size:17
Alignment explanation
Indices: 154515--154557 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
154505 ATTATATGGA
154515 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
154531 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
154549 TATTATTAT
1 TATTATTAT
154558 ATGTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:154847 original size:30 final size:30
Alignment explanation
Indices: 154813--154869 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
154803 ATATATTTAT
154813 ATTATT-TT-TATTATTTTCGTTTTTTTATTC
1 ATTATTATTATATTATTTT--TTTTTTTATTC
154843 ATTATTATTATATTATTTTTTTTTTTA
1 ATTATTATTATATTATTTTTTTTTTTA
154870 AAAAACCTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
30 14 0.56
31 2 0.08
32 9 0.36
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.74
Consensus pattern (30 bp):
ATTATTATTATATTATTTTTTTTTTTATTC
Found at i:155158 original size:27 final size:28
Alignment explanation
Indices: 155110--155163 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
155100 TATATAATTA
*
155110 TTACTTTACTATTTTTTCTTATCTTATC
1 TTACTTTACTATTTTATCTTATCTTATC
*
155138 TTAC-TTACTTATTTTAT-TTATTTTAT
1 TTACTTTAC-TATTTTATCTTATCTTAT
155164 TTTTCCCTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 12 0.52
28 11 0.48
ACGTcount: A:0.20, C:0.13, G:0.00, T:0.67
Consensus pattern (28 bp):
TTACTTTACTATTTTATCTTATCTTATC
Found at i:156276 original size:5 final size:5
Alignment explanation
Indices: 156255--156289 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
156245 CACTAACTCT
*
156255 TTTTA TCTTTC TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA T-TTTA TTTTA TTTTA TTTTA TTTTA TTTT
156290 TCATCACTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
5 23 0.85
6 4 0.15
ACGTcount: A:0.14, C:0.06, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:157689 original size:8 final size:8
Alignment explanation
Indices: 157676--157714 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
157666 GAACATTTCA
*
157676 TGCATTCT
1 TGCATTTT
157684 TGCA-TTT
1 TGCATTTT
157691 TGCATTTT
1 TGCATTTT
*
157699 TGCCTTTT
1 TGCATTTT
157707 TGCATTTT
1 TGCATTTT
157715 CATCTACAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
7 6 0.22
8 21 0.78
ACGTcount: A:0.10, C:0.18, G:0.13, T:0.59
Consensus pattern (8 bp):
TGCATTTT
Found at i:158911 original size:9 final size:9
Alignment explanation
Indices: 158899--158949 Score: 57
Period size: 9 Copynumber: 5.3 Consensus size: 9
158889 TAAAAAGGGC
158899 AAAAAGAAAA
1 AAAAAG-AAA
158909 AAAAAGCAAAA
1 AAAAAG--AAA
*
158920 AAAAAGCAA
1 AAAAAGAAA
*
158929 AAAAAGAAC
1 AAAAAGAAA
158938 AAAAAGAAA
1 AAAAAGAAA
158947 AAA
1 AAA
158950 GAAAAAGGGA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
9 20 0.56
10 6 0.17
11 10 0.28
ACGTcount: A:0.84, C:0.06, G:0.10, T:0.00
Consensus pattern (9 bp):
AAAAAGAAA
Found at i:158911 original size:18 final size:17
Alignment explanation
Indices: 158897--158949 Score: 52
Period size: 20 Copynumber: 2.8 Consensus size: 17
158887 AATAAAAAGG
158897 GCAAAAAGAAAAAAAAA
1 GCAAAAAGAAAAAAAAA
*
158914 GCAAAAAAAAAGCAAAAAAA
1 GC-AAAAAGAA--AAAAAAA
158934 GAACAAAAAGAAAAAA
1 G--CAAAAAGAAAAAA
158950 GAAAAAGGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
17 2 0.07
18 7 0.24
19 4 0.14
20 8 0.28
21 7 0.24
22 1 0.03
ACGTcount: A:0.81, C:0.08, G:0.11, T:0.00
Consensus pattern (17 bp):
GCAAAAAGAAAAAAAAA
Found at i:158919 original size:11 final size:11
Alignment explanation
Indices: 158899--158947 Score: 66
Period size: 11 Copynumber: 4.5 Consensus size: 11
158889 TAAAAAGGGC
158899 AAAAAG-AAAA
1 AAAAAGCAAAA
158909 AAAAAGCAAAA
1 AAAAAGCAAAA
158920 AAAAAGCAAAA
1 AAAAAGCAAAA
158931 AAAGAA-CAAAA
1 AAA-AAGCAAAA
158942 AGAAAA
1 A-AAAA
158948 AAGAAAAAGG
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
10 6 0.17
11 26 0.72
12 4 0.11
ACGTcount: A:0.84, C:0.06, G:0.10, T:0.00
Consensus pattern (11 bp):
AAAAAGCAAAA
Found at i:159581 original size:22 final size:22
Alignment explanation
Indices: 159553--159596 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
159543 AGCTACCCCA
159553 TCAAACC-TTTGAGCATCAAATG
1 TCAAACCATTT-AGCATCAAATG
159575 TCAAACCATTTAGCATCAAATG
1 TCAAACCATTTAGCATCAAATG
159597 AACAAAAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.39, C:0.23, G:0.11, T:0.27
Consensus pattern (22 bp):
TCAAACCATTTAGCATCAAATG
Found at i:160607 original size:36 final size:36
Alignment explanation
Indices: 160560--160822 Score: 263
Period size: 36 Copynumber: 7.4 Consensus size: 36
160550 ATTGAAAACA
* * *
160560 TTTCCCTTGAAATAAATTTCGTCTCTTTTGAGATAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
*
160596 TTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAAC-AAATTTCGTCTCTCTTGAGACAG
* * *
160633 TTTCTCTTGAAATAAATTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
* * *
160669 TTTCCCTTGAAACAAA------ATAT-TTGA-ATATG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACA-G
* * *
160698 TTTTCTTTGAAACAAATTTCGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
** * * *
160734 TTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAAC-AAATTTCGTCTCTCTTGAGACAG
* *
160771 TTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
160807 TTTCCCTTGAAACAAA
1 TTTCCCTTGAAACAAA
160823 ATCTTTGAAT
Statistics
Matches: 187, Mismatches: 29, Indels: 22
0.79 0.12 0.09
Matches are distributed among these distances:
28 2 0.01
29 19 0.10
30 2 0.01
35 1 0.01
36 99 0.53
37 64 0.34
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.41
Consensus pattern (36 bp):
TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
Found at i:160692 original size:102 final size:102
Alignment explanation
Indices: 160586--160786 Score: 298
Period size: 102 Copynumber: 2.0 Consensus size: 102
160576 TTTCGTCTCT
* *
160586 TTTGAGATA-GTTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCTCTT-GAAATAAA
1 TTTGA-ATATGTTTCCCTTGAAAC-AAATTTCGTCTCCCTTGAGACAGTTTCTCTTGGAAATAAA
160649 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATA
64 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATA
* * * * *
160688 TTTGAATATGTTTTCTTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTT
1 TTTGAATATGTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTCTTGGAAATAAATT
*
160753 TTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAA
66 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
160787 TTTCGTCTAT
Statistics
Matches: 89, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
101 31 0.35
102 58 0.65
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.41
Consensus pattern (102 bp):
TTTGAATATGTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTCTTGGAAATAAATT
TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATA
Found at i:160760 original size:138 final size:138
Alignment explanation
Indices: 160494--160885 Score: 491
Period size: 138 Copynumber: 2.8 Consensus size: 138
160484 ACTCATGATT
* * * * *
160494 GTTTTTCTTAAAACAAGA-TTTGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAACA-TTGAAA
1 GTTTCTCTTGAAACAA-ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACA-AAATATTTGAAT
* * ** *
160557 ACATTTCCCTTGAAATAAATTTCGTCTCTTTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTC
64 ATATTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTC
160622 TCTTGAGACA
129 TCTTGAGACA
*
160632 GTTTCTCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATAT
1 GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATAT
* * * ** * * *
160697 GTTTTCTTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTC
66 ATTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCTC
160762 TTGAGACA
131 TTGAGACA
* * * *
160770 GTTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATTT
1 GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATAT
* * * * * *
160835 ATTTCCCCTAAAACAAATTTTGTCTCCCTTGAGACAATTACTCTTGAAACA
66 ATTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCCCTTGAAACA
160886 CAAAATCTTC
Statistics
Matches: 217, Mismatches: 35, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
137 5 0.02
138 212 0.98
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (138 bp):
GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATAT
ATTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCTC
TTGAGACA
Found at i:160884 original size:65 final size:67
Alignment explanation
Indices: 160780--160937 Score: 203
Period size: 65 Copynumber: 2.4 Consensus size: 67
160770 GTTTCTCTTG
* ** * * **
160780 AAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTG-AA-ACAAAATCTTTGAATTTATTTCCCC
1 AAACAAATTTTGTCTCCCTTGAGACAATTACCCTTGAAACACAAAATCTTCAAATTTATTTCCCC
160843 TA
66 TA
* *
160845 AAACAAATTTTGTCTCCCTTGAGACAATTACTCTTGAAACACAAAATCTTCAAATTTATTTCCCT
1 AAACAAATTTTGTCTCCCTTGAGACAATTACCCTTGAAACACAAAATCTTCAAATTTATTTCCCC
160910 TA
66 TA
*
160912 AAACATAATTTTGTTTCCCTTGAGAC
1 AAACA-AATTTTGTCTCCCTTGAGAC
160938 CGTTTCTCAT
Statistics
Matches: 80, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
65 30 0.38
66 2 0.03
67 29 0.36
68 19 0.24
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.37
Consensus pattern (67 bp):
AAACAAATTTTGTCTCCCTTGAGACAATTACCCTTGAAACACAAAATCTTCAAATTTATTTCCCC
TA
Found at i:161719 original size:105 final size:105
Alignment explanation
Indices: 161558--162007 Score: 676
Period size: 105 Copynumber: 4.3 Consensus size: 105
161548 GCCATCCGCG
* * * *
161558 ATTTCAACTCCACGACGGAGGATATCGTGGCACTCGAGACAACGCAAGTTCAACTTCACGACGAA
1 ATTTCAACTTCACAACGAAGGATAT--TGG-ACTCCAGACAACGCAAGTTCAACTTCACGACGAA
* *
161623 GGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
63 GGGACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
* *
161666 ATTTCAACTTCACAATGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* *
161731 ACCGCTGCTTGTCAATAACAACTTCCCAATCGCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
* *
161771 ATTTTAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
161836 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
161876 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * **
161941 ACCGCTGCTGGTCAACAA-AA-TT-TC-AT-TCAGATTCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
* *
161976 ATTTCAACTTCACGACGGAGGATATTGGACTC
1 ATTTCAACTTCACAACGAAGGATATTGGACTC
162008 TGAACAATGC
Statistics
Matches: 318, Mismatches: 24, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
100 37 0.12
101 2 0.01
102 1 0.00
103 2 0.01
104 2 0.01
105 250 0.79
106 3 0.01
108 21 0.07
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (105 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
Found at i:163198 original size:18 final size:17
Alignment explanation
Indices: 163159--163201 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
163149 ATTATATGGA
163159 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
163175 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
163193 TATTATTAT
1 TATTATTAT
163202 ATGTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:166681 original size:2 final size:2
Alignment explanation
Indices: 166674--166708 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
166664 GAATCATTTG
*
166674 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
166709 CATGTGATCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:167608 original size:22 final size:22
Alignment explanation
Indices: 167544--167608 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
167534 CGAGGGTTAA
* * *
167544 AGAGGTCCTACGTGACATATAC
1 AGAGGTCCTTCGGGACATATTC
167566 AGAGGTCCTTCGGGACATATTC
1 AGAGGTCCTTCGGGACATATTC
167588 ATG-GGTCCTTCGGGACATATT
1 A-GAGGTCCTTCGGGACATATT
167609 TCATATGCCA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
22 38 0.97
23 1 0.03
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.28
Consensus pattern (22 bp):
AGAGGTCCTTCGGGACATATTC
Found at i:183509 original size:24 final size:24
Alignment explanation
Indices: 183480--183527 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
183470 TGCATGACAT
*
183480 TGTACATAGATGTTTTATGCATCA
1 TGTACATAGATGTTTTATACATCA
183504 TGTACATAGATGTTTTATACATCA
1 TGTACATAGATGTTTTATACATCA
183528 CAAGGAAGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.42
Consensus pattern (24 bp):
TGTACATAGATGTTTTATACATCA
Found at i:183889 original size:40 final size:40
Alignment explanation
Indices: 183845--183994 Score: 187
Period size: 40 Copynumber: 3.8 Consensus size: 40
183835 AAGGACACTA
*
183845 AGTGTATATGGTGGGCACGGCCTTATGTGTAATGCACTTT
1 AGTGTATATGGTGGGCACGACCTTATGTGTAATGCACTTT
* *
183885 AGTGTATATGGTGGGCACGAACTTATGTGTAATACA-TTT
1 AGTGTATATGGTGGGCACGACCTTATGTGTAATGCACTTT
* * * * *
183924 CGGCGTATATGGTGAGCACAACCTTATGTGTAATGCACTTC
1 -AGTGTATATGGTGGGCACGACCTTATGTGTAATGCACTTT
* *
183965 AGTGTATATGGT-GGTACAACCTTATGTGTA
1 AGTGTATATGGTGGGCACGACCTTATGTGTA
183995 GCACTACGGT
Statistics
Matches: 94, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
39 19 0.20
40 73 0.78
41 2 0.02
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.34
Consensus pattern (40 bp):
AGTGTATATGGTGGGCACGACCTTATGTGTAATGCACTTT
Found at i:183963 original size:80 final size:79
Alignment explanation
Indices: 183848--183994 Score: 224
Period size: 80 Copynumber: 1.8 Consensus size: 79
183838 GACACTAAGT
* ** *
183848 GTATATGGTGGGCACGGCCTTATGTGTAATGCACTTTAGTGTATATGGTGGGCACGAA-CTTATG
1 GTATATGGTGAGCACAACCTTATGTGTAATGCACTTCAGTGTATATGGT-GGCAC-AACCTTATG
183912 TGTAATACATTTCGGC
64 TGTAATACATTTCGGC
*
183928 GTATATGGTGAGCACAACCTTATGTGTAATGCACTTCAGTGTATATGGTGGTACAACCTTATGTG
1 GTATATGGTGAGCACAACCTTATGTGTAATGCACTTCAGTGTATATGGTGGCACAACCTTATGTG
183993 TA
66 TA
183995 GCACTACGGT
Statistics
Matches: 61, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
78 2 0.03
79 14 0.23
80 45 0.74
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (79 bp):
GTATATGGTGAGCACAACCTTATGTGTAATGCACTTCAGTGTATATGGTGGCACAACCTTATGTG
TAATACATTTCGGC
Found at i:194354 original size:44 final size:44
Alignment explanation
Indices: 194290--194385 Score: 140
Period size: 44 Copynumber: 2.2 Consensus size: 44
194280 CAACCCAACG
* * *
194290 GTATCGATACCGTCCAAGGAGTATTGATACTACTATGTATAATA
1 GTATCAATACCGTACAAGGAGTATCGATACTACTATGTATAATA
* *
194334 GTATCAATGCCGTACAAGGAGTATCGATACTACTATGTATAGTA
1 GTATCAATACCGTACAAGGAGTATCGATACTACTATGTATAATA
194378 -TATCAATA
1 GTATCAATA
194386 TCGAAGCATG
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
43 7 0.15
44 39 0.85
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (44 bp):
GTATCAATACCGTACAAGGAGTATCGATACTACTATGTATAATA
Found at i:194520 original size:20 final size:22
Alignment explanation
Indices: 194470--194527 Score: 66
Period size: 24 Copynumber: 2.6 Consensus size: 22
194460 CCGTGTTTAT
*
194470 GGTATCGATACTACTATAAGGCA
1 GGTATCAATACTAC-ATAAGGCA
194493 TGGTATCAATACTAC-TAAGGCA
1 -GGTATCAATACTACATAAGGCA
*
194515 -GTATCAGTACTAC
1 GGTATCAATACTAC
194528 CTTTTTGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.38
22 7 0.22
24 13 0.41
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (22 bp):
GGTATCAATACTACATAAGGCA
Found at i:195000 original size:54 final size:54
Alignment explanation
Indices: 194924--195080 Score: 172
Period size: 54 Copynumber: 2.9 Consensus size: 54
194914 GGCACTATAT
* * * * *
194924 GTGTGCAACACTAAGGATTTCATACTAAGTGTATGAATTTTCGTATGGTCACTAT
1 GTGTG-AAAACTAAGAAATTCATACTAAGTGTATGAATTTTCGTATGGGCACTAG
* * *
194979 GTGT-AAAAGCTAAGAAATTCATACTAAGTGTATGAATTTCCTTATGGGCACTCG
1 GTGTGAAAA-CTAAGAAATTCATACTAAGTGTATGAATTTTCGTATGGGCACTAG
** * * *
195033 GTGTGCGAACTAAGAAATTCATACTAAGTCTATAAATTTTCGCATGGG
1 GTGTGAAAACTAAGAAATTCATACTAAGTGTATGAATTTTCGTATGGG
195081 AAATAGATGT
Statistics
Matches: 85, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
53 3 0.04
54 76 0.89
55 6 0.07
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (54 bp):
GTGTGAAAACTAAGAAATTCATACTAAGTGTATGAATTTTCGTATGGGCACTAG
Found at i:195422 original size:81 final size:81
Alignment explanation
Indices: 195282--203531 Score: 9213
Period size: 81 Copynumber: 102.2 Consensus size: 81
195272 ATTCTAAGAT
* * * *
195282 TAAAAGATAAATGGTCTAGTTGGGCATTTGGCAGAAATGTGTTAATTATGCCAGTTAGATGAACG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
* *
195347 ATTAAAGACCGTTAAG
66 GTTAAAGACCGTTGAG
* * * ** * *
195363 TAAACGATAAATGGCCTAGTTATGCATTTCACAGAAAGGTGTTAATTATGCCAGTTAGATGAACG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
195428 GTTAAAGACCGTTGAG
66 GTTAAAGACCGTTGAG
* * *
195444 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTATATAAATG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
*
195509 GTTAAAGAGCGTTGAG
66 GTTAAAGACCGTTGAG
* * * *
195525 TAAAAGATAACTGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATAATGCCAGTTAGATGAACA
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
* *
195590 GTTAAAGATCATTGAG
66 GTTAAAGACCGTTGAG
* * * *
195606 TAAAAGATAAATGGTCTAGCTATGCATTTGGAAGAAATGTGTCAATTATGCTAGTTAGATGAACG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
**
195671 GTTAAAGACCACTGAG
66 GTTAAAGACCGTTGAG
* * *
195687 TAAAAGATAAATGGCCTAGCTATGCATTTGGCAGAAATGTCTCAATTATGCCATTTAGATGAACG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
* *
195752 GTTAATGACCATTGAG
66 GTTAAAGACCGTTGAG
** * *
195768 TAAAAGATAAATTACCTAGCTGTGCATCTGGCATAAATGTGTCAATTATGCCAGTTAGATGAACG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
**
195833 ACTAAAGACCGTTGAG
66 GTTAAAGACCGTTGAG
* * * *
195849 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCATAAAGGTGTCAATTGTGCCAGTTAGATGAATG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
* * *
195914 GTTAAAAATCATTGAG
66 GTTAAAGACCGTTGAG
* * * * * * * * *
195930 TAAAAGAAAAATCGCCTAGATGTCCATTTGGCATAAAGGTGTCAGTTATACCAGTTAGATGAATG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
*
195995 GTTAAAGACCATTGAG
66 GTTAAAGACCGTTGAG
*
196011 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATAAACG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
* **
196076 GTAAAAGGTCGTTGAG
66 GTTAAAGACCGTTGAG
* * * * *
196092 TATAAGATAAATGGCCTAGCTATGCATTTGGTAGAAATGTGTCAATTTTGCCAGTTAGGTGAACG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
*
196157 GTTAAAGACTGCTT-AG
66 GTTAAAGACCG-TTGAG
* * * *
196173 TAAAAGATAAATGGCCTAGCTGTACATTTGGCATAAAGGTGTCAATTATGCAAGTTAGATG-A--
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
**
196235 G-TAAAGAATGTTGAG
66 GTTAAAGACCGTTGAG
* * * * *
196250 TAAAAGATAAATGGCCTAGTTGTGCAATTGGAAGAAGTGTGTTAATTATGCCAGTTAGATGAACG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
*
196315 GTTAAAGATCAG-TGAG
66 GTTAAAGA-CCGTTGAG
* * *
196331 TAAAAGATAAATGGCCTAGCTGTTCATTTGGCAGAAATGTGGCAATTATGCCAGTTAGATGAATG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
* *
196396 ATTAATGACCGTTGAG
66 GTTAAAGACCGTTGAG
* * * *
196412 TAAAAGATAAATTGCATAGCTGTGCATTTGGCAAAAATGTGTCAATTATGCCAGTTAGATGAATG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
*
196477 ATTAAAGACCGTTGAG
66 GTTAAAGACCGTTGAG
* *
196493 TAAAAGATAAATGGCCTAGCTATGCATTTGGCAGAAA-GTTGTCAATTGTGCCAGTTAGATGAAC
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATG-TGTCAATTATGCCAGTTAGATGAAC
* * *
196557 GATTAAAGATCGTTAAG
65 GGTTAAAGACCGTTGAG
* * * * *
196574 TAAAAGAAAAATGGCCTAGCTGTGCATTTTGCACAAAGGTGTCAGTTATGCCAGTTAGATGAACG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
* *
196639 ATTAAAGATCCATTGAG
66 GTTAAAGA-CCGTTGAG
* * * * * *
196656 TAAAAGATAAATGGACTAGCTGTGTATTTGGAAGAAA-GATGTCAATTGTGCTAGTTGGATGAAC
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATG-TGTCAATTATGCCAGTTAGATGAAC
* *
196720 GGTTAAAGATCGTTGTG
65 GGTTAAAGACCGTTGAG
* * *
196737 TAAAAGA-AACATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTGTGCCAGTTAGATGAAC
1 TAAAAGATAA-ATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAAC
* * **
196801 AGTTAAAAATTGTTGAG
65 GGTTAAAGACCGTTGAG
* * * * * * *
196818 TAAAATAAAAATGGCCTAGCTATGGATTTGGAAGAAATGTGTCAATTATG-TAGTTCGATGAACG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
196882 GTTAAAGACCGTTGAG
66 GTTAAAGACCGTTGAG
* * * * * *
196898 TAAAAGATAAATGGTCTTA-CTATGCATTTGGCAGAAATGTGTCAATTAAGTCAGTTATATTAAC
1 TAAAAGATAAATGG-CCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAAC
* * *
196962 AGTTTAAGACAGTTGAG
65 GGTTAAAGACCGTTGAG
* * *
196979 TAAAAGATAACTGGCATAGCTGTGCATTAGGCCA-AAA-GATGTCAATTATGCCAGTTAGATGAA
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGG-CAGAAATG-TGTCAATTATGCCAGTTAGATGAA
* *
197042 CAGTTAAAGA-AGCTTGAG
64 CGGTTAAAGACCG-TTGAG
* * * * ** *
197060 TAAAAGATTAATGGTCAAGCTCTATATTTGGCAGAAATATGTCAATTATGCCAGTTAGATGAACG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
* ** *
197125 GTTAAACACCACTAAG
66 GTTAAAGACCGTTGAG
* * * * * * *
197141 TAAAAGATAAATGGCATAGCTATGCATTTAGTAGAAATGTATCAATTATGCCAATTAGATGAATG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
* *
197206 GTTAATGACAGTTGAG
66 GTTAAAGACCGTTGAG
* * ** * * * * *
197222 TAAAAGATAAATTGCCTAGTTGTGCATTTGAAAGAAATTTGCCAACTATGCTAGTTAGAAGAACG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
197287 GTTAAAGACCGTTGAG
66 GTTAAAGACCGTTGAG
* * * * * * *
197303 TAAAAGATAAATGGCCTAGTTATGAATTTGGCAGAAAGGAGTCAATTATGTCAATTAGATGAACG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
* *
197368 GTTAAAAACCATTGAG
66 GTTAAAGACCGTTGAG
* * * * * * * *
197384 TAAAATATAAATGGCCTAGTTGTGCATTTGGGATAAATATGTCAATTATGCTAGTTATATGAATG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
197449 GTTAAAGACCGTTGAG
66 GTTAAAGACCGTTGAG
* * * * *
197465 TAAAAGATAAATTGCTTAGCTATGCAATTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACA
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
*
197530 GTTAAAGATCGTTGAG
66 GTTAAAGACCGTTGAG
* * * * * *
197546 TAAAAGATAAATGGCCTACCTATGCATTTGGAAGAAAGGTGTCAATTATGCCAATTAGAGGAACG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
*
197611 GTTAAAGATCGTTGAG
66 GTTAAAGACCGTTGAG
* ** * *
197627 TAAAAGA-AAATGGCCTAGCTGTGCTTTTGG-TTAAAGGTGTCAGTTATGCCAGTTAGATGAACG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
*
197690 GTTAAAGACAGTTGAG
66 GTTAAAGACCGTTGAG
* * * *
197706 TAAAAGATAAATGGCCTAGTTGTGCATTTGGCAGAAATGTGTCAATTTTTCCAGTTAGATAAACG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
197771 GTTAAAGACCGTTGAG
66 GTTAAAGACCGTTGAG
* * *
197787 TAAAAGATAAATGGCCTTGCTGTACATTTGGCAGAAATGTGTCAATTATGCTAGTTAGATGAACG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
* *
197852 ATTAATGACCGTTGAG
66 GTTAAAGACCGTTGAG
* * * * *
197868 TAAAAGATAAATTGCCTAGCTGTGCATTTGGTAGAAATGTGTCAGTTATTCAAGTTAGATGAACG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
197933 GTTAAAGACCGTTGAG
66 GTTAAAGACCGTTGAG
* * * *
197949 TAAAAGATAAATGGCCTAGCTGTGCATTTGGTAGAAATTTGTCAATTGTGCCAGTTAGATGAAAG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
* *
198014 GTTAAATATCGTTGAG
66 GTTAAAGACCGTTGAG
* * * * * ** * *
198030 TAAAAGAAAAATGGCCTAGTTTTTCATTTGGAAGAACGGTGTAAATTATGCCAGTTAGATGAAAG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
198095 GTTAAAGACCGTTGAG
66 GTTAAAGACCGTTGAG
* * * * *
198111 TAAAAGATAAATGGCCTAGTTGTGCATTTGGCAGAAATGTTTCAATTATGTCAGTTAGATAAACA
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
* *
198176 ATTAAAAACCGTTGAG
66 GTTAAAGACCGTTGAG
* * * * * *
198192 TAAAAGAT-AATGGCCTAGATGTACATTTCGTAGAAAGGTGTCAATTATGCCAGTTAGATGAACA
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
* * *
198256 GATAAAGACCATAGAG
66 GTTAAAGACCGTTGAG
* * * *
198272 TAAAAGATAAATGGCCTAGTTCTGCATTTAGG-AGAAAGGTTTCAATTATG-CATGTTAGATGAA
1 TAAAAGATAAATGGCCTAGCTGTGCATTT-GGCAGAAATGTGTCAATTATGCCA-GTTAGATGAA
*
198335 CAGTTAAAGATCC-TTGAG
64 CGGTTAAAGA-CCGTTGAG
* * * * * * * * *
198353 TAAAAGAAAAATGGCCTAGCTGTGCATTTGGCATATAGGTTTCAGTTATGCTAGTTAGATAAACA
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
*
198418 GTTAAAGACCATTGAG
66 GTTAAAGACCGTTGAG
* * * * * *
198434 TAAAAGATAAGTGGCCTAGCTATGCATTTCGCTGAAAGGTGTCAATTGTGCCAGTTAGATGAACG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
* *
198499 GTTAAAGATCGTTAAG
66 GTTAAAGACCGTTGAG
* * ** * * * * *
198515 TAAAAGAAAAATTGAATAGATGTGCATTTGGTAGAAAAGGTGTCAATTGTGCCAGTTATATGAAC
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAG-AAATGTGTCAATTATGCCAGTTAGATGAAC
* *
198580 AGTTAAAGATCGTTGAG
65 GGTTAAAGACCGTTGAG
* ** * * *
198597 TAAAAGAAAAATGGCCTAGCTGTGTTTTTGGTAGAAATATGTCAATTATGCTAGTTAGATGAACG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
198662 GTTAAAGACCGTTGAG
66 GTTAAAGACCGTTGAG
* * * * * * *
198678 TAAAAGATAAATAGCCTAACTATGCATTTGGCAGAAATGTGTGAATTAAGCCAGTTGGATGAACA
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
*
198743 GTTAAAGACAGTTGAG
66 GTTAAAGACCGTTGAG
* * * * * * *
198759 TAGAAGATAATTGGCTTAGCTGTACATTTGGGAGAAATATGTCAATTATGCCAGTTAGATGAATG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
* *
198824 GTTAAAGAACTTTGAG
66 GTTAAAGACCGTTGAG
* ** * *
198840 TAAAAGATAAATAGCCTAGCTGTGCATTTATCAGAAATGTGTCAATTATGCCAATTAGATGAATG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
* *
198905 GTTAATGATCGTTGAG
66 GTTAAAGACCGTTGAG
* * * * * * *
198921 TAAAAGATAAATTGCCTAGTTATGTATCTGGAAGAAATGCGTCAATTATGCCAGTTAGATGAACG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
*
198986 GTGAAAGACCGTTGAG
66 GTTAAAGACCGTTGAG
* * * * * * *
199002 TAAAAAATAAATGGCCTAGCTGTTCATTTAGAAGAAATGTGTCATTTGTGCCAGTTAGATGAACA
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
* **
199067 TTTAAAGACCGTTCCG
66 GTTAAAGACCGTTGAG
* * * * *
199083 TAAGAGATAAATGGCCTAGTTGTTCATTTGACAGAAATATGTCAATTATGCCAGTTAGAT-AACG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
*
199147 GTTAAAGATCGTTGAG
66 GTTAAAGACCGTTGAG
* * * * * * *
199163 GAAAAGATAAATAGCCTAGTTGTGTATTTGGTAGAAATGTGCCAATTATGCCAATT--AT--A--
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
* **
199222 -TTAAGGATTGTTGAG
66 GTTAAAGACCGTTGAG
* ** * * * **
199237 TAAAAGATAAATGGCTTAGCTGTATAATTGGCAGAGAGGTGTCAATTGCGCCAGTTAGATGAACG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
* *
199302 ATTAAAGATCGTTGAG
66 GTTAAAGACCGTTGAG
** * * * * * * ** *
199318 TAAATTAAAAATGGACTAGCTGTGTATTTGGCATAAAGGTGTCAGTTATGCCTCTTAGATGAATG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
* * *
199383 GTTAAGGACCGTTTAA
66 GTTAAAGACCGTTGAG
* * *
199399 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTTAATTATGCCAGTTAGATGAATG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
*
199464 GTTAATGACCGTTGAG
66 GTTAAAGACCGTTGAG
* ** * * * * *
199480 TAAAATATAAATTTCCTAGCTGTGTATTCGGTAGAAATGTGTCAATTATGCCAGTTACATGAATG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
*
199545 GTTAAACACCGTTGAG
66 GTTAAAGACCGTTGAG
* * * ** *
199561 TAAAAGATAAATGGCCTAGTTGTGCATTTGGTAGAAACGTGTCAATTGCGCTAGTTAGATGAACG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
199626 GTTAAAGACCGTTGAG
66 GTTAAAGACCGTTGAG
* * * * * * *
199642 TAAAAGATAAATGGCCTAGTTTTGCATTTGGCATATAGGTGTAAATTATACCAGTTAGATGAACG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
199707 GTTAAAGACCGTTGAG
66 GTTAAAGACCGTTGAG
* * * ** *
199723 TAAATGATAAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGTTAGTTAGATGAACA
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
199788 GTTAAAGACCGTTGAG
66 GTTAAAGACCGTTGAG
* * * *
199804 TAAAAGATAAATGGCCTAGCTATACATTTGGCAGAAAGGTGTCAATTATGCCAAG-TAAATGAAC
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCC-AGTTAGATGAAC
* * *
199868 GATTAAAGACCATTAAG
65 GGTTAAAGACCGTTGAG
* * * * * * **
199885 TAAAAGATAAATGACCTAGTTGTGCATTTGGCAGAAAGGTGTTAATTATTCCAGTTAGATAAATA
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
* *
199950 ATTAAAGACCATTGAG
66 GTTAAAGACCGTTGAG
* * * * * * *
199966 TAAAAAATAAATGGCATAGTTGTGCATTGGGAAGAAAGGTGT-ATATTATGCCAGTTAGATGAAT
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCA-ATTATGCCAGTTAGATGAAC
200030 GGTTAAAGACCGTTGAG
65 GGTTAAAGACCGTTGAG
* * *
200047 TAAAAGATAAATGGCCTAGTTGTGCATTTGGCAGAAATCTGTCAATTATGCCAGTGAGATGAACG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
*
200112 ATTAAAGACCGTTGAG
66 GTTAAAGACCGTTGAG
* *** *
200128 TAAAAGATAAATGGCCTAGATGTGCATTTATTAGAAATGTGTCAATTATGCCAGTTAGATGAATG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
** * *
200193 AATAATGATCGTTGAG
66 GTTAAAGACCGTTGAG
* * * * *
200209 TAAAAGATAAATTGCCTAGCTGTGTATCTGGAAGAAATGCGTCAATTATGCCAGTTAGATGAACG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
*
200274 GTGAAAGACCGTTGAG
66 GTTAAAGACCGTTGAG
* * * * * *
200290 TAAAAGATAAATGGCATAGCTGTGCATTTAGAAGAAATGTGTCATTTGTGCCAGTTAGATGAACA
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
* **
200355 GTTAAAGATCGTTTCG
66 GTTAAAGACCGTTGAG
* * * * * *
200371 TAAGAGATAAATGGCCTAGTTGTTCATTTGACAGAAATATGTCAATTATGCCAGTTAGAT-AATG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
* *
200435 GTTAAAGATCGTCGAG
66 GTTAAAGACCGTTGAG
* * * * * * *
200451 GAAAAGATAAATAGCCTAGTTGTGTATTTGGTAGAAATGTGCCAATTATGCCAATT--AT--A--
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
* **
200510 -TTAAGGATTGTTGAG
66 GTTAAAGACCGTTGAG
* ** * * * **
200525 TAAAAGATAAATGGCTTAGCTGTATAATTGGCAGAGAGGTGTCAATTGCGCCAGTTAGATGAACG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
* *
200590 ATTAAAGATCGTTGAG
66 GTTAAAGACCGTTGAG
** * * * * * ** *
200606 TAAATTAAAAATGGACTAGCTGTGTATTTGGCATAAATGTGTCAGTTATGCCTCTTAGATGAATG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
*
200671 GTTAAAGACCGTTGAA
66 GTTAAAGACCGTTGAG
* * * * *
200687 TAAAAGATAAATGGCCTAGCTTTGCATTTGACAGAAAGGTGTTAATTATGCCAGTTAGATGAATG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
* *
200752 GTTAATGATCGTTGAG
66 GTTAAAGACCGTTGAG
* ** * *
200768 TAAAATATAAATTTCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTACATGAATG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
*
200833 GTTAAAGACCATTGAG
66 GTTAAAGACCGTTGAG
* * * * *
200849 TAAAAGATAAATGGCCTAGTTGTGCATTTGGTAGAAAGGTGTCAATTGTGCTAGTTAGATGAACG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
200914 GTTAAAGACCGTTGAG
66 GTTAAAGACCGTTGAG
* * * * * * *
200930 TAAAAGATAAATGGCCTAGTTTTGCATTTGGCATATAGGTGTAAATTATACCAGTTAGATGAACG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
200995 GTTAAAGACCGTTGAG
66 GTTAAAGACCGTTGAG
* * * ** *
201011 TAAATGATAAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGTTAGTTAGATGAACA
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
201076 GTTAAAGACCGTTGAG
66 GTTAAAGACCGTTGAG
* * * *
201092 TAAAAGATAAATGGCCTAGCTATACATTTGGCAGAAAGGTGTCAATTATGCCAGTTAAATGAACG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
* * *
201157 ATTAAAGACCATTAAG
66 GTTAAAGACCGTTGAG
* * * * * * * **
201173 TAAAAGATAAATGACCTAGTTGTGTATTTGGCAGAAAGGTGTTAATTATTCCAGTTAGATAAATA
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
* *
201238 ATTAAAGACCATTGAG
66 GTTAAAGACCGTTGAG
* * * * * *
201254 TAAAAAATAAATGGCATAGTTGTGCATTTGGAAGAAAGGTGT-ATATTATGCCAGTTAGATGAAT
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCA-ATTATGCCAGTTAGATGAAC
201318 GGTTAAAGACCGTTGAG
65 GGTTAAAGACCGTTGAG
* *
201335 TAAAAGATAAATGGCCTAGTTGTGCATTTGGCAGAAATCTGTCAATTATGCCAGTTAGATGAACG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
*
201400 ATTAAAGACCGTTGAG
66 GTTAAAGACCGTTGAG
* ***
201416 TAAAAGATAAATGGCCTAGATGTGCATTTATTAGAAATGTGTCAATTATGCCAGTTAGATGAACG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
*
201481 GTTAAAGATCGTTGAG
66 GTTAAAGACCGTTGAG
* * * * *
201497 TAAAAGATAAATTGCCTAGCTGTGTATCTGGAAGAAATGCGTCAATTATGCCAGTTAGATGAACG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
*
201562 GTGAAAGACCGTTGAG
66 GTTAAAGACCGTTGAG
* * * * * *
201578 TAAAAGATAAATGGCATAGCTATGCATTTAGAAGAAATGTGTCATTTATGCCAGTTAGATGAACA
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
* * **
201643 TTTAAAGATCGTTTCG
66 GTTAAAGACCGTTGAG
* * * * * * *
201659 TAAGAGATAAATGACCTAGTTGTTCATTTGACATAAATATGTCAATTATGCCAGTTAGAT-AACG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
*
201723 GTTAAAGATCGTTGAG
66 GTTAAAGACCGTTGAG
* * * * * * ** *
201739 GAAAAGATAAATAGACTAGTTGTGTATTTGGTAGAAATGTCCCAATTATGCCAATT--AT--A--
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
* **
201798 -TTAAGGATTGTTGAG
66 GTTAAAGACCGTTGAG
* ** * * * **
201813 TAAAAGATAAATGGCTTAGCTGTATAATTGGCAGAGAGGTGTCAATTGCGCCAGTTAGATGAACG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
* *
201878 ATTAAAGATCGTTGAG
66 GTTAAAGACCGTTGAG
** * * * * * ** **
201894 TAAATTAAAAATGGACTAGCTGTGTATTTGGCATAAATGTGTCAGTTATGCCTCTTAGATGAATT
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
*
201959 GTTAAAGACCGTTGAA
66 GTTAAAGACCGTTGAG
* * * *
201975 TAAAAGATAAATGGCCTAGCTTTGCATTTGGCAGAAAGGTGTTAATTATGCCAGTTAGATGAATG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
* *
202040 GTTAATGAACGTTGAG
66 GTTAAAGACCGTTGAG
* ** * * **
202056 TAAAATATAAATTTCCTAGCTGTGCATTTGGTAGAAATGTGTCAATTATGCCAGTTACATGAATT
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
202121 GTTAAAGACCGTTGAG
66 GTTAAAGACCGTTGAG
* * * * *
202137 TAAAAGATAAATGGCCTAGTTGTGCATTTGGTAGAAAGGTGTCAATTGTGCTAGTTAGATGAACG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
202202 GTTAAAGACCGTTGAG
66 GTTAAAGACCGTTGAG
* * * * * * *
202218 TAAAAGATAAATGGCCTAGTTTTGCATTTGGCATATAGGTGTAAATTATACCAGTTAGATGAACG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
202283 GTTAAAGACCGTTGAG
66 GTTAAAGACCGTTGAG
* * * ** **
202299 TAAATGATAAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGTTAGTTAGATGAATA
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
*
202364 GTTAAAGATCGTTGAG
66 GTTAAAGACCGTTGAG
* * * *
202380 TAAAAGATAAATGGCCTAGCTATACATTTGGCAGAAAGGTGTCAATTATGCCAGTTAAATGAACG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
* * *
202445 ATTAAAGACCATTAAG
66 GTTAAAGACCGTTGAG
* * * * * * **
202461 TAAAAGATAAATGACCTAGTTGTGCATTTGGCAGAAAGGTGTTAATTATTCCAGTTAGATAAATA
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
* *
202526 ATTAAAGACCATTGAG
66 GTTAAAGACCGTTGAG
* * * * * *
202542 TAAAAAATAAATGGCATAGTTGTGCATTTGGAAGAAAGGTGT-ATATTATGCCAGTTAGATGAAT
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCA-ATTATGCCAGTTAGATGAAC
202606 GGTTAAAGACCGTTGAG
65 GGTTAAAGACCGTTGAG
* * *
202623 TAAAAGATAAATGGCCTAGTTGTACATTTGGCAGAAATCTGTCAATTATGCCAGTTAGATGAACG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
*
202688 ATTAAAGACCGTTGAG
66 GTTAAAGACCGTTGAG
* * * ***
202704 TAAAATATAAATGGCCTAGATGCGCATTTATTAGAAATGTGTCAATTATGCCAGTTAGATGAACG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
* *
202769 GTTAATGATCGTTGAG
66 GTTAAAGACCGTTGAG
* * * * *
202785 TAAAAGATAAATTGCCTAGCTGTGTATCTGGAAGAAATGCGTCAATTATGCCAGTTAGATGAACG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
*
202850 GTAAAAGACCGTTGAG
66 GTTAAAGACCGTTGAG
* * * * * * *
202866 TAAAAGATAAATGGCATAACTGTGCATTTAGAAGAAATGTGTCATTTGTGCCAGTTAGATGAACA
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
* **
202931 GTTAAAGATCGTTTCG
66 GTTAAAGACCGTTGAG
* * * * * * *
202947 TAAGAGATAAATGGCCTAGTTCTTCATTTGACAGACATATGTCAATTATGCCAGTTAGAT-AACG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
**
203011 GTTAAAGTTCGTTGAG
66 GTTAAAGACCGTTGAG
* * * * * * * *
203027 GAAAAGATAAATAGCCTAGTTGTGTATTTGGTAGAAATGTGCCAATTATGCCAGTTATATTAA-G
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
*
203091 GATT-AAGAATCGTTGAG
66 G-TTAAAG-ACCGTTGAG
** * * **
203108 TAAAAGATAAATGGCCTAGCTGTATATTTGGCAGAGAGGTGTCAATTGCGCCAGTTAGATGAACG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
* *
203173 ATTAAAGATCGTTGAG
66 GTTAAAGACCGTTGAG
* * * * * * * ** *
203189 TAAATGAAAAATGGACTAGCTGTGTATTTGGCATAAAGGTGTCAGTTATGCCTCTTAGATGAACT
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
203254 GTTAAAGACCGTTGAG
66 GTTAAAGACCGTTGAG
* * * * * * * *
203270 TAAAATATAAATGGCCTAACTGTGCATTTGGCAAAAATATGTTAATTTTGCTAGTTAGATGAATG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
* *
203335 GTTAATGACTGTTGAG
66 GTTAAAGACCGTTGAG
* ** *
203351 TAAAATATAAATTTCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAATG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
203416 GTTAAAGACCGTTGAG
66 GTTAAAGACCGTTGAG
* * *
203432 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTGTGCTAGTTAGATGAACG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
203497 GTTAAAGACCGTTGAG
66 GTTAAAGACCGTTGAG
203513 TAAAAGATAAATGGCCTAG
1 TAAAAGATAAATGGCCTAG
203532 TTTTGTGTTC
Statistics
Matches: 6883, Mismatches: 1218, Indels: 136
0.84 0.15 0.02
Matches are distributed among these distances:
74 165 0.02
76 8 0.00
77 65 0.01
78 11 0.00
79 49 0.01
80 447 0.06
81 5979 0.87
82 159 0.02
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (81 bp):
TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
GTTAAAGACCGTTGAG
Found at i:203879 original size:17 final size:16
Alignment explanation
Indices: 203857--203890 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
203847 TAAAAACAGT
203857 AAATAAAAAGATAAATA
1 AAATAAAAAGA-AAATA
*
203874 AAATAAGAAGAAAATA
1 AAATAAAAAGAAAATA
203890 A
1 A
203891 TCCTCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Found at i:207532 original size:23 final size:22
Alignment explanation
Indices: 207457--207532 Score: 62
Period size: 23 Copynumber: 3.1 Consensus size: 22
207447 AAGATGAGTA
*
207457 AAAGAGAGAGAAAAAGTAAAAGTT
1 AAAGAAAGAGAAAAA--AAAAGTT
* *
207481 AACATGAAAAGAGAAAAAAAATGAAT
1 AA-A-G-AAAGAGAAAAAAAAAG-TT
207507 AAAGAAAGAGAAAATAAAAAGTT
1 AAAGAAAGAGAAAA-AAAAAGTT
207530 AAA
1 AAA
207533 AAATTTGGGA
Statistics
Matches: 42, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
23 14 0.33
24 8 0.19
25 6 0.14
26 4 0.10
27 10 0.24
ACGTcount: A:0.68, C:0.01, G:0.18, T:0.12
Consensus pattern (22 bp):
AAAGAAAGAGAAAAAAAAAGTT
Found at i:213897 original size:17 final size:16
Alignment explanation
Indices: 213875--213908 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
213865 TAAAAACAGT
213875 AAATAAAAAGATAAATA
1 AAATAAAAAGA-AAATA
*
213892 AAATAAGAAGAAAATA
1 AAATAAAAAGAAAATA
213908 A
1 A
213909 TCCTCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Done.