Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008290.1 Hibiscus syriacus cultivar Beakdansim tig00110954_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: 1890093
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 9
Found at i:1630926 original size:50 final size:51
Alignment explanation
Indices: 1630851--1630946 Score: 140
Period size: 50 Copynumber: 1.9 Consensus size: 51
1630841 CAACTCCAGA
** * *
1630851 TTGAATGTTCTTCTGAGCTGGATATCCTTCGTTGTGAAGTTGAAATCCAAC
1 TTGAATGTTCTTCTGAGCTCAATATCCTTCATTGCGAAGTTGAAATCCAAC
*
1630902 TTGAATGTTCTTC-GAGTTCAATATCCTTCATTGCGAAGTTGAAAT
1 TTGAATGTTCTTCTGAGCTCAATATCCTTCATTGCGAAGTTGAAAT
1630947 TGACTTTGAC
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
50 27 0.68
51 13 0.32
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.39
Consensus pattern (51 bp):
TTGAATGTTCTTCTGAGCTCAATATCCTTCATTGCGAAGTTGAAATCCAAC
Found at i:1637900 original size:21 final size:21
Alignment explanation
Indices: 1637874--1637925 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
1637864 TAAAATATCT
*
1637874 AATAATAATAAAATCGGTAGA
1 AATAATAATAAAACCGGTAGA
1637895 AATAATAATAAAACCGGTAGA
1 AATAATAATAAAACCGGTAGA
1637916 AATAATAATA
1 AATAATAATA
1637926 TTTTCGATCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.60, C:0.06, G:0.12, T:0.23
Consensus pattern (21 bp):
AATAATAATAAAACCGGTAGA
Found at i:1639687 original size:16 final size:16
Alignment explanation
Indices: 1639666--1639696 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
1639656 TATTTATTAT
1639666 TAAAAATAATATAATA
1 TAAAAATAATATAATA
1639682 TAAAAATAATATAAT
1 TAAAAATAATATAAT
1639697 GGTAGCAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
TAAAAATAATATAATA
Found at i:1643128 original size:7 final size:8
Alignment explanation
Indices: 1643115--1643139 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
1643105 CCCGGTTAGT
1643115 TTTTTTTA
1 TTTTTTTA
1643123 TTTTTTTA
1 TTTTTTTA
1643131 TTTTTTTA
1 TTTTTTTA
1643139 T
1 T
1643140 ATATAATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTTTA
Found at i:1643179 original size:16 final size:15
Alignment explanation
Indices: 1643155--1643190 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
1643145 ATTATATAAA
*
1643155 ATATAATGGATTATTT
1 ATATTATGGATTA-TT
1643171 ATATTATGGATTATT
1 ATATTATGGATTATT
1643186 ATATT
1 ATATT
1643191 TTGTATTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (15 bp):
ATATTATGGATTATT
Found at i:1643337 original size:15 final size:15
Alignment explanation
Indices: 1643317--1643373 Score: 69
Period size: 15 Copynumber: 3.7 Consensus size: 15
1643307 AACCGGGTAT
1643317 CGGGTACCCGATTAC
1 CGGGTACCCGATTAC
**
1643332 CGGGTACCCGCAAAATC
1 CGGGTACCCG-ATTA-C
1643349 CGGGTACCCGATTAC
1 CGGGTACCCGATTAC
*
1643364 TGGGTACCCG
1 CGGGTACCCG
1643374 TAACATCCGG
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
15 20 0.57
16 4 0.11
17 11 0.31
ACGTcount: A:0.21, C:0.33, G:0.28, T:0.18
Consensus pattern (15 bp):
CGGGTACCCGATTAC
Found at i:1643358 original size:32 final size:32
Alignment explanation
Indices: 1643317--1643385 Score: 111
Period size: 32 Copynumber: 2.2 Consensus size: 32
1643307 AACCGGGTAT
1643317 CGGGTACCCGATTACCGGGTACCCGCAAAATC
1 CGGGTACCCGATTACCGGGTACCCGCAAAATC
* * *
1643349 CGGGTACCCGATTACTGGGTACCCGTAACATC
1 CGGGTACCCGATTACCGGGTACCCGCAAAATC
1643381 CGGGT
1 CGGGT
1643386 CGGGACACGG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.22, C:0.32, G:0.28, T:0.19
Consensus pattern (32 bp):
CGGGTACCCGATTACCGGGTACCCGCAAAATC
Found at i:1646882 original size:32 final size:34
Alignment explanation
Indices: 1646841--1646947 Score: 89
Period size: 34 Copynumber: 3.2 Consensus size: 34
1646831 GGTAAGAAAT
* *
1646841 TTATTTTTATGTTAGTAT-TTT-T-TAAATAGTTA
1 TTATTTTTATATTAATATATTTATGTAAATA-TTA
1646873 TTATTTTTATATTAATATATTTATGTAAATATTA
1 TTATTTTTATATTAATATATTTATGTAAATATTA
* * * *
1646907 TT-TTATTAT-TAAAATAATATTTATATAATTATTA
1 TTATTTTTATAT-TAAT-ATATTTATGTAAATATTA
1646941 TTTATTT
1 -TTATTT
1646948 AGAATTATTA
Statistics
Matches: 61, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
32 17 0.28
33 12 0.20
34 22 0.36
35 8 0.13
36 2 0.03
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.61
Consensus pattern (34 bp):
TTATTTTTATATTAATATATTTATGTAAATATTA
Found at i:1646909 original size:31 final size:34
Alignment explanation
Indices: 1646871--1646943 Score: 91
Period size: 34 Copynumber: 2.2 Consensus size: 34
1646861 TTTAAATAGT
*
1646871 TATTATTTTTA-TATT-AAT-ATATTTATGTAAA
1 TATTATTTTTATTATTAAATAATATTTATATAAA
*
1646902 TATTA-TTTTATTATTAAAATAATATTTATATAAT
1 TATTATTTTTATTATT-AAATAATATTTATATAAA
1646936 TATTATTT
1 TATTATTT
1646944 ATTTAGAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
30 5 0.14
31 9 0.26
33 3 0.09
34 16 0.46
35 2 0.06
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (34 bp):
TATTATTTTTATTATTAAATAATATTTATATAAA
Found at i:1648122 original size:21 final size:21
Alignment explanation
Indices: 1648092--1648139 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
1648082 GCAGGGGTAC
* *
1648092 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
* *
1648113 ATGCCAAGCCCACCAGTTTAT
1 ATGCCAAGCCCACCACTTCAT
1648134 ATGCCA
1 ATGCCA
1648140 TCTCCGCAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.40, G:0.12, T:0.23
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:1648210 original size:21 final size:22
Alignment explanation
Indices: 1648146--1648211 Score: 100
Period size: 21 Copynumber: 3.1 Consensus size: 22
1648136 GCCATCTCCG
*
1648146 CAGGGTTACATTCCGAGCCCG-
1 CAGGGTTACATTCCTAGCCCGC
1648167 CAGGGTTACATTCCTAGCCCGC
1 CAGGGTTACATTCCTAGCCCGC
*
1648189 CA-GGTTACATGCCTAGCCCGC
1 CAGGGTTACATTCCTAGCCCGC
1648210 CA
1 CA
1648212 TCATTACGTG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
21 40 0.95
22 2 0.05
ACGTcount: A:0.20, C:0.36, G:0.24, T:0.20
Consensus pattern (22 bp):
CAGGGTTACATTCCTAGCCCGC
Found at i:1649724 original size:13 final size:14
Alignment explanation
Indices: 1649706--1649734 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
1649696 TACATAAATA
1649706 TATTTAAT-ATATT
1 TATTTAATAATATT
1649719 TATTTAATAATATT
1 TATTTAATAATATT
1649733 TA
1 TA
1649735 ATATTATTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TATTTAATAATATT
Found at i:1649789 original size:23 final size:23
Alignment explanation
Indices: 1649750--1649808 Score: 104
Period size: 23 Copynumber: 2.7 Consensus size: 23
1649740 ATTAGTTATA
1649750 ATTTTACAT--TATAATCGAAAC
1 ATTTTACATAATATAATCGAAAC
1649771 ATTTTACATAATATAATCGAAAC
1 ATTTTACATAATATAATCGAAAC
1649794 ATTTTACATAATATA
1 ATTTTACATAATATA
1649809 TTATTAATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
21 9 0.25
23 27 0.75
ACGTcount: A:0.46, C:0.12, G:0.03, T:0.39
Consensus pattern (23 bp):
ATTTTACATAATATAATCGAAAC
Found at i:1651215 original size:10 final size:10
Alignment explanation
Indices: 1651200--1651228 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
1651190 GTACTTTGGT
1651200 TTTAAAAATA
1 TTTAAAAATA
1651210 TTTAAAAAT-
1 TTTAAAAATA
1651219 TTTAAAAATA
1 TTTAAAAATA
1651229 CCTAATTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
TTTAAAAATA
Found at i:1661913 original size:17 final size:17
Alignment explanation
Indices: 1661886--1661936 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
1661876 TTTTTTAAGG
*
1661886 ATAACTTAAACAAATT-
1 ATAATTTAAACAAATTC
*
1661902 ATCAATTTAAACTTAATTC
1 AT-AATTTAAAC-AAATTC
1661921 ATAATTTAAACAAATT
1 ATAATTTAAACAAATT
1661937 TTAACATTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
16 2 0.07
17 12 0.41
18 13 0.45
19 2 0.07
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (17 bp):
ATAATTTAAACAAATTC
Found at i:1666017 original size:65 final size:65
Alignment explanation
Indices: 1665884--1666043 Score: 211
Period size: 65 Copynumber: 2.5 Consensus size: 65
1665874 TGCACTAAGA
* *
1665884 GTGCATCGATGCATAAAATGCATTCGATG-TTTCAAAATAGCCTGAGTGCATCGATGTATGGCTG
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAAATAGCCTGAGTGCATCGATGCATAGCTG
*
1665948 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-A-CTCTGAGTGCATCGATGCATAG-
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCA-AAATAGC-CTGAGTGCATCGATGCATAGC
*
1666010 TAT
64 T-G
* *
1666013 GTGCATCGGTGCATGAAATGCATTCGATGTT
1 GTGCATCGATGCATAAAATGCATTCGATGTT
1666044 CAATTTATTC
Statistics
Matches: 86, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
64 30 0.35
65 53 0.62
66 3 0.03
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAAATAGCCTGAGTGCATCGATGCATAGCTG
Found at i:1678862 original size:106 final size:106
Alignment explanation
Indices: 1678673--1678882 Score: 357
Period size: 106 Copynumber: 2.0 Consensus size: 106
1678663 CTGCAACTCA
* *
1678673 TAGTACTTGTAGAATACATTGAGTTACTCCACCTCATGTATCACTAAGATACCCGAGTCTCATAT
1 TAGTACTCGTAGAATACACTGAGTTACTCCACCTCATGTATCACTAAGATACCCGAGTCTCATAT
*
1678738 GAGCAATTAGTGCGATATCATATAACACATGTAATATCTTG
66 GAGCAATTAGTGCCATATCATATAACACATGTAATATCTTG
* * *
1678779 TAGTACTCGTAGAATGCACTGAGTTACTCCATCTCGTGTATCACTAAGATACCCGAGTCTCATAT
1 TAGTACTCGTAGAATACACTGAGTTACTCCACCTCATGTATCACTAAGATACCCGAGTCTCATAT
*
1678844 GAGCAATTGGTGCCATATCATATAACACATGTAATATCT
66 GAGCAATTAGTGCCATATCATATAACACATGTAATATCT
1678883 CGATAGATTA
Statistics
Matches: 97, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
106 97 1.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (106 bp):
TAGTACTCGTAGAATACACTGAGTTACTCCACCTCATGTATCACTAAGATACCCGAGTCTCATAT
GAGCAATTAGTGCCATATCATATAACACATGTAATATCTTG
Found at i:1681590 original size:2 final size:2
Alignment explanation
Indices: 1681583--1681692 Score: 175
Period size: 2 Copynumber: 54.5 Consensus size: 2
1681573 CGACCAAAGA
1681583 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
*
1681625 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG ACT
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A-G
* * *
1681668 AT AG AG AA AT AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
1681693 ACAAGTGAGC
Statistics
Matches: 102, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
2 101 0.99
3 1 0.01
ACGTcount: A:0.51, C:0.01, G:0.45, T:0.03
Consensus pattern (2 bp):
AG
Found at i:1683822 original size:16 final size:17
Alignment explanation
Indices: 1683800--1683832 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1683790 TCTGTTTGAA
*
1683800 AAAAAAACCGGTTTTTT
1 AAAAAAACCGATTTTTT
1683817 AAAAAAACCGATTTTT
1 AAAAAAACCGATTTTT
1683833 AATCCAGTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.33
Consensus pattern (17 bp):
AAAAAAACCGATTTTTT
Found at i:1683886 original size:20 final size:20
Alignment explanation
Indices: 1683861--1683905 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
1683851 GTCATCCAAT
*
1683861 TTTTTAAACCTCAGACCGGA
1 TTTTTAAACCCCAGACCGGA
1683881 TTTTTAAACCCCAGACCGGA
1 TTTTTAAACCCCAGACCGGA
1683901 TTTTT
1 TTTTT
1683906 TCCGAATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.36
Consensus pattern (20 bp):
TTTTTAAACCCCAGACCGGA
Found at i:1684044 original size:19 final size:20
Alignment explanation
Indices: 1684005--1684045 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
1683995 CGGTTACACT
* *
1684005 ATCCGGTTTTAAAATATTCG
1 ATCCGGTTTTAAAAAAATCG
1684025 ATCCGG-TTTAAAAAAATCG
1 ATCCGGTTTTAAAAAAATCG
1684044 AT
1 AT
1684046 TTTTCCCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.34
Consensus pattern (20 bp):
ATCCGGTTTTAAAAAAATCG
Found at i:1684608 original size:11 final size:11
Alignment explanation
Indices: 1684592--1684619 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
1684582 AATCCCTGAC
1684592 CTTCTTTCTTT
1 CTTCTTTCTTT
1684603 CTTCTTTCTTT
1 CTTCTTTCTTT
1684614 CTTCTT
1 CTTCTT
1684620 CTTCCCACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (11 bp):
CTTCTTTCTTT
Found at i:1689846 original size:105 final size:106
Alignment explanation
Indices: 1689681--1689940 Score: 260
Period size: 105 Copynumber: 2.5 Consensus size: 106
1689671 TCTTCAAATG
* * * * * *
1689681 ACGGGTCCGCTCCCTCTTG-TTCAGGGATTAAGGAACTCGAAAAATCTTCTAAAAATGGGTTCGC
1 ACGGGTTCGCTCCCTCTTGCTTCAGGGAGT-A-GAACTCGAACAATCTTCTGAAAACGGGTTCAC
* * * *
1689745 TCCTTATTACTTCAGGGAGTAGAACTCGAATAATCTTATG-TT
64 TCCCTATTACTTAAGGGAGTAGAACTCGAACAATCTTATGCCT
* ***
1689787 ACGGGTTCGCTCCCTCTTGCTTCGGGGAGTAGAACTCGAACAATCTTCTGCCTACGGGTTCACTC
1 ACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGAAAACGGGTTCACTC
* * * *
1689852 CCTCTTGCTTAAGGGTGTAGAACTCGAACAATCTTCTGCCT
66 CCTATTACTTAAGGGAGTAGAACTCGAACAATCTTATGCCT
** * * *
1689893 AC--AATC-CTCCCTCTTTCTTTAGGGAGTAAAACTCGAACAATCTTCTGA
1 ACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGA
1689941 TGTGATTCTG
Statistics
Matches: 127, Mismatches: 25, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
103 37 0.29
104 2 0.02
105 58 0.46
106 22 0.17
107 8 0.06
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.30
Consensus pattern (106 bp):
ACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGAAAACGGGTTCACTC
CCTATTACTTAAGGGAGTAGAACTCGAACAATCTTATGCCT
Found at i:1689861 original size:53 final size:52
Alignment explanation
Indices: 1689681--1689939 Score: 238
Period size: 53 Copynumber: 4.9 Consensus size: 52
1689671 TCTTCAAATG
* * * ****
1689681 ACGGGTCCGCTCCCTCTTG-TTCAGGGATTAAGGAACTCGAAAAATCTTCTAAAA
1 ACGGGTTC-CTCCCTCTTGCTTCAGGGAGT-A-GAACTCGAACAATCTTCTGCCT
* * * * * * *
1689735 ATGGGTTCGCTCCTTATTACTTCAGGGAGTAGAACTCGAATAATCTTATG-TT
1 ACGGGTTC-CTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCT
*
1689787 ACGGGTTCGCTCCCTCTTGCTTCGGGGAGTAGAACTCGAACAATCTTCTGCCT
1 ACGGGTTC-CTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCT
* *
1689840 ACGGGTTCACTCCCTCTTGCTTAAGGGTGTAGAACTCGAACAATCTTCTGCCT
1 ACGGGTTC-CTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCT
** * * *
1689893 AC--AATCCTCCCTCTTTCTTTAGGGAGTAAAACTCGAACAATCTTCTG
1 ACGGGTTCCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTG
1689940 ATGTGATTCT
Statistics
Matches: 174, Mismatches: 29, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
50 37 0.21
51 2 0.01
52 43 0.25
53 68 0.39
54 15 0.09
55 9 0.05
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (52 bp):
ACGGGTTCCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCT
Found at i:1690495 original size:80 final size:80
Alignment explanation
Indices: 1690350--1690562 Score: 300
Period size: 80 Copynumber: 2.7 Consensus size: 80
1690340 GCTCGAAAGA
* * * ** *
1690350 CTTACAAATGACCCAAAGGATTTCATCATCATGCTCGAAAGACTTACTAATCAATTTGCTACACT
1 CTTACAAATTACCCAAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGATTTACTACACT
*
1690415 ACTCTTCAATGAAGG
66 ACTCTTCAATGAAGC
* * *
1690430 CTTACAAATTACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGGTTTACTTCACT
1 CTTACAAATTACCCAAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGATTTACTACACT
**
1690495 ACTCTTCCGTGAAGC
66 ACTCTTCAATGAAGC
* *
1690510 CTTACAAATTACCCTAAGGATTTAATCATCATGCTTGAAAGACTTACTGATGG
1 CTTACAAATTACCCAAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGG
1690563 CCCGAAGGAC
Statistics
Matches: 119, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
80 119 1.00
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.31
Consensus pattern (80 bp):
CTTACAAATTACCCAAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGATTTACTACACT
ACTCTTCAATGAAGC
Found at i:1690580 original size:42 final size:42
Alignment explanation
Indices: 1690525--1690617 Score: 141
Period size: 42 Copynumber: 2.2 Consensus size: 42
1690515 AAATTACCCT
* * *
1690525 AAGGATTTAATCATCATGCTTGAAAGACTTACTGATGGCCCG
1 AAGGACTTAATCATCATGCTCGAAAGACTTACTGATGGCCCA
* *
1690567 AAGGACTTCATCATCATGCTCGAAAGACTTATTGATGGCCCA
1 AAGGACTTAATCATCATGCTCGAAAGACTTACTGATGGCCCA
1690609 AAGGACTTA
1 AAGGACTTA
1690618 CTAAGTGCGA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.27
Consensus pattern (42 bp):
AAGGACTTAATCATCATGCTCGAAAGACTTACTGATGGCCCA
Found at i:1690595 original size:22 final size:21
Alignment explanation
Indices: 1690534--1690598 Score: 62
Period size: 22 Copynumber: 3.1 Consensus size: 21
1690524 TAAGGATTTA
*
1690534 ATCATCATGCTTGAAAGACTT
1 ATCATCATGCTCGAAAGACTT
* * *
1690555 A-C-TGATGGCCCGAAGGACTT
1 ATCATCAT-GCTCGAAAGACTT
1690575 CATCATCATGCTCGAAAGACTT
1 -ATCATCATGCTCGAAAGACTT
1690597 AT
1 AT
1690599 TGATGGCCCA
Statistics
Matches: 33, Mismatches: 7, Indels: 8
0.69 0.15 0.17
Matches are distributed among these distances:
19 3 0.09
20 11 0.33
21 4 0.12
22 12 0.36
23 3 0.09
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (21 bp):
ATCATCATGCTCGAAAGACTT
Found at i:1690810 original size:42 final size:41
Alignment explanation
Indices: 1690737--1690829 Score: 114
Period size: 42 Copynumber: 2.2 Consensus size: 41
1690727 TCTTATGGAT
* ** *
1690737 GAAGGACTTATCATCTTGCTTTAAAGGCTTACAGATGACCC
1 GAAGGACTTATCATCATGCTCGAAAGACTTACAGATGACCC
* * *
1690778 GAAGGATTTCATCATCATGCTCGAAAGACTTACTGATGGCCC
1 GAAGGACTT-ATCATCATGCTCGAAAGACTTACAGATGACCC
1690820 GAAGGACTTA
1 GAAGGACTTA
1690830 AATTGTTTAC
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
41 9 0.21
42 34 0.79
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.27
Consensus pattern (41 bp):
GAAGGACTTATCATCATGCTCGAAAGACTTACAGATGACCC
Found at i:1712922 original size:20 final size:18
Alignment explanation
Indices: 1712883--1712918 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
1712873 GTATGTCCCT
1712883 AGGGCAAGATCGTTTGTG
1 AGGGCAAGATCGTTTGTG
1712901 AGGGCAAGATCGTTTGTG
1 AGGGCAAGATCGTTTGTG
1712919 TGAGTGTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.11, G:0.39, T:0.28
Consensus pattern (18 bp):
AGGGCAAGATCGTTTGTG
Found at i:1715296 original size:18 final size:18
Alignment explanation
Indices: 1715273--1715385 Score: 165
Period size: 18 Copynumber: 6.3 Consensus size: 18
1715263 TTGTCCGTAT
*
1715273 GACCACTATGTCCTGAAG
1 GACCACTATGTCCCGAAG
*
1715291 GACCACTGTGT-CCGAAG
1 GACCACTATGTCCCGAAG
*
1715308 GACCATTATGTCCCGAAG
1 GACCACTATGTCCCGAAG
1715326 GACCACTATGTCCCGAAG
1 GACCACTATGTCCCGAAG
1715344 GACCACTATGTCCCGAAG
1 GACCACTATGTCCCGAAG
* * *
1715362 GCCCATTATGTCCCAAAG
1 GACCACTATGTCCCGAAG
1715380 GACCAC
1 GACCAC
1715386 GTAGACCCTC
Statistics
Matches: 84, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
17 14 0.17
18 70 0.83
ACGTcount: A:0.27, C:0.32, G:0.22, T:0.19
Consensus pattern (18 bp):
GACCACTATGTCCCGAAG
Found at i:1715331 original size:53 final size:54
Alignment explanation
Indices: 1715273--1715385 Score: 183
Period size: 54 Copynumber: 2.1 Consensus size: 54
1715263 TTGTCCGTAT
* * *
1715273 GACCACTATGTCCTGAAGGACCACTGTGT-CCGAAGGACCATTATGTCCCGAAG
1 GACCACTATGTCCCGAAGGACCACTATGTCCCGAAGGACCATTATGTCCCAAAG
*
1715326 GACCACTATGTCCCGAAGGACCACTATGTCCCGAAGGCCCATTATGTCCCAAAG
1 GACCACTATGTCCCGAAGGACCACTATGTCCCGAAGGACCATTATGTCCCAAAG
1715380 GACCAC
1 GACCAC
1715386 GTAGACCCTC
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
53 27 0.49
54 28 0.51
ACGTcount: A:0.27, C:0.32, G:0.22, T:0.19
Consensus pattern (54 bp):
GACCACTATGTCCCGAAGGACCACTATGTCCCGAAGGACCATTATGTCCCAAAG
Found at i:1715891 original size:159 final size:155
Alignment explanation
Indices: 1715605--1715900 Score: 522
Period size: 155 Copynumber: 1.9 Consensus size: 155
1715595 ACACATGTAC
* *
1715605 ATACATATTCTTGCTCTCACATGGTCATGTATCTCATTTTAATTAATCATTTTATTTATATACCA
1 ATACATATTCTTGCTCTCACATGGTCATGTATCTCATGTTAATTAATCATTTTATTCATATACCA
1715670 CTCATATCACATATCTTATTTCATATAAAACTTATATTTATATCTATATCATCACAGAATCCTAC
66 CTCATATCACATATCTTATTTCATATAAAACTTATATTTATATCTATATCATCACAGAATCCTAC
1715735 ATCTTATCTCAGAACATGTTCACAT
131 ATCTTATCTCAGAACATGTTCACAT
1715760 ATACATATTCTTGCTCTCACATGGTCATGTATCTCATGTTAATTAATCATTTATATTCATATACC
1 ATACATATTCTTGCTCTCACATGGTCATGTATCTCATGTTAATTAATCATTT-TATTCATATACC
1715825 ACCTTCATATCACATTATCTTATTTCATAT-AAACTTATATTTATATCTATTATCATCACAGAAT
65 A-C-TCATATCACA-TATCTTATTTCATATAAAACTTATATTTATATCTA-TATCATCACAGAAT
1715889 CCTACATCTTAT
126 CCTACATCTTAT
1715901 TATCACATAA
Statistics
Matches: 134, Mismatches: 2, Indels: 6
0.94 0.01 0.04
Matches are distributed among these distances:
155 51 0.38
156 12 0.09
157 1 0.01
158 29 0.22
159 41 0.31
ACGTcount: A:0.32, C:0.21, G:0.04, T:0.43
Consensus pattern (155 bp):
ATACATATTCTTGCTCTCACATGGTCATGTATCTCATGTTAATTAATCATTTTATTCATATACCA
CTCATATCACATATCTTATTTCATATAAAACTTATATTTATATCTATATCATCACAGAATCCTAC
ATCTTATCTCAGAACATGTTCACAT
Found at i:1716377 original size:20 final size:22
Alignment explanation
Indices: 1716352--1716409 Score: 84
Period size: 20 Copynumber: 2.6 Consensus size: 22
1716342 TTCCCCTTGA
1716352 AGTGCATCGATGCATTC-T-AC
1 AGTGCATCGATGCATTCTTAAC
1716372 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC-TTAAC
1716395 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
1716410 CTACCCATGC
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 17 0.50
22 1 0.03
23 3 0.09
24 13 0.38
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (22 bp):
AGTGCATCGATGCATTCTTAAC
Found at i:1718447 original size:2 final size:2
Alignment explanation
Indices: 1718440--1718466 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1718430 AGTAGTTTTA
1718440 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1718467 GTTTAAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1718666 original size:2 final size:2
Alignment explanation
Indices: 1718659--1718696 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1718649 AATAACTTTA
1718659 AT AT 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 AT AT
1718697 CCATATTTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1720603 original size:2 final size:2
Alignment explanation
Indices: 1720596--1720633 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
1720586 TTTAGACTAA
1720596 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1720634 AATTAAGTTA
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:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1721684 original size:14 final size:14
Alignment explanation
Indices: 1721665--1721712 Score: 68
Period size: 14 Copynumber: 3.7 Consensus size: 14
1721655 ATTATGTGTT
1721665 TTTATGTTCGTTCA
1 TTTATGTTCGTTCA
1721679 TTTA---T-GTTCA
1 TTTATGTTCGTTCA
1721689 TTTATGTTCGTTCA
1 TTTATGTTCGTTCA
1721703 TTTATGTTCG
1 TTTATGTTCG
1721713 AACAGGCAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
10 9 0.30
11 1 0.03
13 1 0.03
14 19 0.63
ACGTcount: A:0.15, C:0.12, G:0.15, T:0.58
Consensus pattern (14 bp):
TTTATGTTCGTTCA
Found at i:1721692 original size:24 final size:24
Alignment explanation
Indices: 1721665--1721711 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
1721655 ATTATGTGTT
1721665 TTTATGTTCGTTCATTTATGTTCA
1 TTTATGTTCGTTCATTTATGTTCA
1721689 TTTATGTTCGTTCATTTATGTTC
1 TTTATGTTCGTTCATTTATGTTC
1721712 GAACAGGCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.15, C:0.13, G:0.13, T:0.60
Consensus pattern (24 bp):
TTTATGTTCGTTCATTTATGTTCA
Found at i:1721770 original size:29 final size:29
Alignment explanation
Indices: 1721736--1721800 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
1721726 AATATGTTAC
1721736 GAAGATTATTAAAGTTGTTTGGATTTCAA
1 GAAGATTATTAAAGTTGTTTGGATTTCAA
*
1721765 GAAGATTATTGAAGTTGTTTGGATTTCAA
1 GAAGATTATTAAAGTTGTTTGGATTTCAA
1721794 GAAGATT
1 GAAGATT
1721801 GTTTTGTTGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.34, C:0.03, G:0.23, T:0.40
Consensus pattern (29 bp):
GAAGATTATTAAAGTTGTTTGGATTTCAA
Found at i:1723611 original size:29 final size:27
Alignment explanation
Indices: 1723538--1723611 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 27
1723528 TCTATAAACA
* *
1723538 TTAATTAAAATTAATTTTACCCATAATT
1 TTAAATAAAATTAA-TTTAACCATAATT
*
1723566 TTAAATAAATATCAATTTAACCATTGAATT
1 TTAAATAAA-ATTAATTTAACCA-T-AATT
*
1723596 TTAGATAAAATTAATT
1 TTAAATAAAATTAATT
1723612 ATTAAACACA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
28 15 0.39
29 11 0.29
30 12 0.32
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.43
Consensus pattern (27 bp):
TTAAATAAAATTAATTTAACCATAATT
Found at i:1727084 original size:21 final size:21
Alignment explanation
Indices: 1727046--1727114 Score: 74
Period size: 21 Copynumber: 3.4 Consensus size: 21
1727036 AATTAAACAA
*
1727046 AATAATTATATATAATAAATAT
1 AATAATTA-ATTTAATAAATAT
* *
1727068 AATATTTAATTTAATAAATTT
1 AATAATTAATTTAATAAATAT
1727089 AATAATTAATTT--TAAAT-T
1 AATAATTAATTTAATAAATAT
1727107 AA-AATTAA
1 AATAATTAA
1727115 AATTTTAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
17 6 0.14
18 3 0.07
19 5 0.12
21 22 0.51
22 7 0.16
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
AATAATTAATTTAATAAATAT
Found at i:1727133 original size:23 final size:23
Alignment explanation
Indices: 1727107--1727162 Score: 105
Period size: 22 Copynumber: 2.5 Consensus size: 23
1727097 ATTTTAAATT
1727107 AAAATTAAAATTTTAAATGTGTA
1 AAAATTAAAATTTTAAATGTGTA
1727130 AAAATT-AAATTTTAAATGTGTA
1 AAAATTAAAATTTTAAATGTGTA
1727152 AAAATTAAAAT
1 AAAATTAAAAT
1727163 GACCCAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
22 22 0.69
23 10 0.31
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (23 bp):
AAAATTAAAATTTTAAATGTGTA
Found at i:1728117 original size:21 final size:20
Alignment explanation
Indices: 1728084--1728123 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
1728074 TATACTTTTG
1728084 TATATTTCAAATTAAAATAA
1 TATATTTCAAATTAAAATAA
* *
1728104 TATATGTTTAAATTTAAATA
1 TATAT-TTCAAATTAAAATA
1728124 GTAAAGGAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (20 bp):
TATATTTCAAATTAAAATAA
Found at i:1731463 original size:17 final size:17
Alignment explanation
Indices: 1731429--1731463 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
1731419 TTGTCCTATC
*
1731429 TATATATATATATATAT
1 TATATATATAGATATAT
*
1731446 TATATATATAGATTTAT
1 TATATATATAGATATAT
1731463 T
1 T
1731464 GAACTTCTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (17 bp):
TATATATATAGATATAT
Found at i:1732918 original size:26 final size:27
Alignment explanation
Indices: 1732881--1732968 Score: 119
Period size: 26 Copynumber: 3.4 Consensus size: 27
1732871 TTGAATGGCT
*
1732881 CTGAATCATTCATAATGTAATTCTGTG
1 CTGAATCATTCATAATGTACTTCTGTG
*
1732908 -TGAATCGTTCATAATGTACTT-TGTG
1 CTGAATCATTCATAATGTACTTCTGTG
*
1732933 CTGAATCATTCAGAATGTACTTCT-TG
1 CTGAATCATTCATAATGTACTTCTGTG
*
1732959 TTGAATCATT
1 CTGAATCATT
1732969 AACACTGATC
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
25 4 0.07
26 49 0.91
27 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.42
Consensus pattern (27 bp):
CTGAATCATTCATAATGTACTTCTGTG
Found at i:1736047 original size:20 final size:21
Alignment explanation
Indices: 1736022--1736073 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
1736012 TTTTCCCAAT
*
1736022 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
1736042 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
1736063 TCGCAATGCGA
1 TCGCAATGCGA
1736074 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:1736087 original size:20 final size:20
Alignment explanation
Indices: 1736062--1736216 Score: 161
Period size: 20 Copynumber: 7.7 Consensus size: 20
1736052 AATTGGGAAA
1736062 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
1736082 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
*
1736102 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
* *
1736122 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
* *
1736143 ATCGCAACGAGATACTGACT
1 ATCGCAATGCGATACTGACT
* * *
1736163 TTCGCAACGCGATTCTGACT
1 ATCGCAATGCGATACTGACT
* * *
1736183 TTCGCAACGCGATAAT-ACAT
1 ATCGCAATGCGATACTGAC-T
1736203 AATCGCAATGCGAT
1 -ATCGCAATGCGAT
1736217 TTTCTAAGCG
Statistics
Matches: 116, Mismatches: 14, Indels: 9
0.83 0.10 0.06
Matches are distributed among these distances:
19 4 0.03
20 86 0.74
21 24 0.21
22 2 0.02
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:1736147 original size:61 final size:61
Alignment explanation
Indices: 1736082--1736216 Score: 189
Period size: 61 Copynumber: 2.2 Consensus size: 61
1736072 GATACTGACT
* * *
1736082 ATCGCAATGCGATACTGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATACAAA
1 ATCGCAATGCGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATACAAA
* * * * * *
1736143 ATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGATAATACATA
1 ATCGCAATGCGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATACAAA
1736204 ATCGCAATGCGAT
1 ATCGCAATGCGAT
1736217 TTTCTAAGCG
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.24
Consensus pattern (61 bp):
ATCGCAATGCGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATACAAA
Found at i:1736409 original size:22 final size:22
Alignment explanation
Indices: 1736381--1736425 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
1736371 CACTCTCTCA
1736381 CCCCATCTCCGACGAAATCCGT
1 CCCCATCTCCGACGAAATCCGT
*
1736403 CCCCATCTCCGGCGAAATCCGT
1 CCCCATCTCCGACGAAATCCGT
1736425 C
1 C
1736426 TATCTCCATC
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:0.20, C:0.47, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCCATCTCCGACGAAATCCGT
Found at i:1738075 original size:18 final size:18
Alignment explanation
Indices: 1738054--1738098 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
1738044 TCCACTTCGG
*
1738054 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
1738072 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
1738090 GAGCCATCA
1 GAGCCATCA
1738099 TCTAATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:1738632 original size:19 final size:20
Alignment explanation
Indices: 1738578--1738644 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
1738568 TAGTTTACTT
* *
1738578 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
1738598 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
1738618 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
1738637 TCGCAACG
1 TCGCAACG
1738645 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:1738652 original size:14 final size:14
Alignment explanation
Indices: 1738633--1738690 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
1738623 ATGCGAAATG
1738633 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
1738647 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
1738663 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
1738679 AAAATCGCAACG
1 AAAATCGCAACG
1738691 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:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:1738675 original size:32 final size:33
Alignment explanation
Indices: 1738617--1738707 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
1738607 GGAAATGGCT
1738617 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1738650 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
1738682 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
1738708 TGCGATTTGT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 31 0.55
33 25 0.45
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:1738743 original size:14 final size:14
Alignment explanation
Indices: 1738724--1738813 Score: 72
Period size: 14 Copynumber: 5.9 Consensus size: 14
1738714 TTGTGTTTCG
1738724 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
* *
1738738 CGTTGCTATTTCATTT
1 CGTTGCGATTT--TGT
*
1738754 CGCATTACGATTTTGT
1 CG--TTGCGATTTTGT
*
1738770 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
1738786 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
1738802 CGTTGCGATTTT
1 CGTTGCGATTTT
1738814 CATTTCGCAT
Statistics
Matches: 60, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
14 28 0.47
16 16 0.27
18 16 0.27
ACGTcount: A:0.12, C:0.18, G:0.21, T:0.49
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:1738765 original size:32 final size:32
Alignment explanation
Indices: 1738719--1738829 Score: 186
Period size: 32 Copynumber: 3.4 Consensus size: 32
1738709 GCGATTTGTG
* *
1738719 TTTCGCGTTGCGATTTTGTCGTTGCTATTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTCA
*
1738751 TTTCGCATTACGATTTTGTCGTTGCGATTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTCA
1738783 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGA-TTTCA
1738816 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
1738830 AGTCATTTTC
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
32 55 0.74
33 19 0.26
ACGTcount: A:0.13, C:0.19, G:0.21, T:0.48
Consensus pattern (32 bp):
TTTCGCATTGCGATTTTGTCGTTGCGATTTCA
Found at i:1738859 original size:20 final size:19
Alignment explanation
Indices: 1738770--1738868 Score: 75
Period size: 20 Copynumber: 5.4 Consensus size: 19
1738760 ACGATTTTGT
1738770 CGTTGCGA-TTTCATTTCG
1 CGTTGCGATTTTCATTTCG
* *
1738788 CATTGCGA-TTT--TGT--
1 CGTTGCGATTTTCATTTCG
1738802 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
* **
1738821 CATTGCGATAGTCATTTTCG
1 CGTTGCGATTTTCA-TTTCG
*
1738841 CGTTGCGATTTTAAGTTTCG
1 CGTTGCGATTTTCA-TTTCG
*
1738861 TGTTGCGA
1 CGTTGCGA
1738869 AAGTAAACTA
Statistics
Matches: 62, Mismatches: 13, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
14 7 0.11
15 3 0.05
16 2 0.03
17 2 0.03
18 10 0.16
19 11 0.18
20 27 0.44
ACGTcount: A:0.14, C:0.18, G:0.23, T:0.44
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:1739714 original size:17 final size:17
Alignment explanation
Indices: 1739692--1739725 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1739682 TTAAAAATTA
1739692 ATGTAATTCACTAATAT
1 ATGTAATTCACTAATAT
*
1739709 ATGTAATTCACTTATAT
1 ATGTAATTCACTAATAT
1739726 CGCAACACGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (17 bp):
ATGTAATTCACTAATAT
Found at i:1739781 original size:19 final size:19
Alignment explanation
Indices: 1739757--1739821 Score: 95
Period size: 19 Copynumber: 3.7 Consensus size: 19
1739747 GCAACGAGAG
1739757 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1739776 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1739795 AATCGCAA--CG--A-GAA
1 AATCGCAATGCGAAATGAA
1739809 AATCGCAATGCGA
1 AATCGCAATGCGA
1739822 TTTTCATTTC
Statistics
Matches: 43, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
14 11 0.26
15 1 0.02
16 2 0.05
17 2 0.05
19 27 0.63
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:1739865 original size:20 final size:20
Alignment explanation
Indices: 1739840--1739877 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1739830 TCGCATTGCG
*
1739840 ATTTTCTCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
1739860 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
1739878 TCAAATGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.16, C:0.21, G:0.24, T:0.39
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:1740237 original size:115 final size:115
Alignment explanation
Indices: 1740035--1740264 Score: 442
Period size: 115 Copynumber: 2.0 Consensus size: 115
1740025 GGAAGGATGT
1740035 AGGAACGGATATAGGAACGGATGTCGCCAGAGAGTGAAAGATGGAGAGGAATGAGTTGCGATTTA
1 AGGAACGGATATAGGAACGGATGTCGCCAGAGAGTGAAAGATGGAGAGGAATGAGTTGCGATTTA
**
1740100 GGGATTTATTTTTTGAGTTGTTGCTGCTGCGTAGATATATACCCAAAAAA
66 GGGATTTAGGTTTTGAGTTGTTGCTGCTGCGTAGATATATACCCAAAAAA
1740150 AGGAACGGATATAGGAACGGATGTCGCCAGAGAGTGAAAGATGGAGAGGAATGAGTTGCGATTTA
1 AGGAACGGATATAGGAACGGATGTCGCCAGAGAGTGAAAGATGGAGAGGAATGAGTTGCGATTTA
1740215 GGGATTTAGGTTTTGAGTTGTTGCTGCTGCGTAGATATATACCCAAAAAA
66 GGGATTTAGGTTTTGAGTTGTTGCTGCTGCGTAGATATATACCCAAAAAA
1740265 TTTGTGTTGT
Statistics
Matches: 113, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
115 113 1.00
ACGTcount: A:0.32, C:0.10, G:0.31, T:0.26
Consensus pattern (115 bp):
AGGAACGGATATAGGAACGGATGTCGCCAGAGAGTGAAAGATGGAGAGGAATGAGTTGCGATTTA
GGGATTTAGGTTTTGAGTTGTTGCTGCTGCGTAGATATATACCCAAAAAA
Found at i:1740418 original size:20 final size:20
Alignment explanation
Indices: 1740324--1740418 Score: 93
Period size: 20 Copynumber: 4.7 Consensus size: 20
1740314 GATTCTGTAT
* *
1740324 TATCTCGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
* * *
1740344 AATCGCGTTGCGAAAGTCAA
1 TATCGCGTTGCGATAGTCAG
* *
1740364 TATCGCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--TAGTCAG
1740385 TATCGCGTTGCGATAGTCAG
1 TATCGCGTTGCGATAGTCAG
*
1740405 TATCGCATTGCGAT
1 TATCGCGTTGCGAT
1740419 TTTACCAATT
Statistics
Matches: 62, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
19 3 0.05
20 43 0.69
21 14 0.23
22 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (20 bp):
TATCGCGTTGCGATAGTCAG
Found at i:1740432 original size:41 final size:41
Alignment explanation
Indices: 1740345--1740439 Score: 120
Period size: 41 Copynumber: 2.3 Consensus size: 41
1740335 GAAAGTCAGA
* * ** *
1740345 ATCGCGTTGCGAAAGTCAATATCGCGTTGCGATTTTGTATT
1 ATCGCGTTGCGATAGTCAATATCGCATTGCGATTTTCCAAT
*
1740386 ATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTTACCAAT
1 ATCGCGTTGCGATAGTCAATATCGCATTGCGATTTT-CCAAT
1740428 -TCGCGTTGCGAT
1 ATCGCGTTGCGAT
1740440 TTATTTATTC
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
41 45 0.96
42 2 0.04
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.35
Consensus pattern (41 bp):
ATCGCGTTGCGATAGTCAATATCGCATTGCGATTTTCCAAT
Found at i:1740529 original size:21 final size:21
Alignment explanation
Indices: 1740489--1740529 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1740479 ACTGTAGACC
**
1740489 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
1740510 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
1740530 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:1740570 original size:28 final size:28
Alignment explanation
Indices: 1740530--1740598 Score: 129
Period size: 28 Copynumber: 2.5 Consensus size: 28
1740520 GAAATGCAAC
1740530 GCGAATTTGCGATAATGGAGATCGCGTT
1 GCGAATTTGCGATAATGGAGATCGCGTT
1740558 GCGAATTTGCGATAATGGAGATCGCGTT
1 GCGAATTTGCGATAATGGAGATCGCGTT
*
1740586 GCGAATTAGCGAT
1 GCGAATTTGCGAT
1740599 CGCATTGCGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.26, C:0.14, G:0.32, T:0.28
Consensus pattern (28 bp):
GCGAATTTGCGATAATGGAGATCGCGTT
Found at i:1756944 original size:13 final size:13
Alignment explanation
Indices: 1756926--1756955 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1756916 GAATCATACA
*
1756926 ATGAATTATGACC
1 ATGAATTACGACC
1756939 ATGAATTACGACC
1 ATGAATTACGACC
1756952 ATGA
1 ATGA
1756956 CTTAAACTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.27
Consensus pattern (13 bp):
ATGAATTACGACC
Found at i:1763547 original size:64 final size:64
Alignment explanation
Indices: 1763420--1763539 Score: 222
Period size: 64 Copynumber: 1.9 Consensus size: 64
1763410 TATGTTATAT
*
1763420 CATTTAACTGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATAAAATAGG
1 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATAAAATAGG
*
1763484 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCTCTTATATAAT
1 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAAT
1763540 GTAATAGGTA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
64 54 1.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.33
Consensus pattern (64 bp):
CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATAAAATAGG
Found at i:1764008 original size:198 final size:199
Alignment explanation
Indices: 1763584--1764282 Score: 630
Period size: 198 Copynumber: 3.5 Consensus size: 199
1763574 AGTAAATCGG
* * * *
1763584 TATATTTATACCGGTAACATTGCAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTT
1 TATATTTATATCGGTTACATTGTAAATTTACCTATTACATTATAATTTTC-GTTTCGATGTTTTT
** * * * **
1763649 TAGATCGATACAATTT--TAAATGTATCGACTCTTTATGCTTGCACCTCG-TTGGGCATTCATAT
65 GGGATCGATAC-TTTTAATAAATGTATCGACACTCTATGAGTGCACCTCGTTTGGGCATTC--A-
* * ** * * * * * * * * * *
1763711 TTCATTCTAGAAAAAAGTATTGACATAAACTAAAAAAATATCGATATATTAT-TTAAACCTATTT
126 TT-A---TGGAAAATAGTACCGACACAAATTCAACAAGTGTCAATACATTATGCT-GACCTATTT
*
1763775 TCTCATAAAA-TCA
186 TCTCATAAAACTGA
* * *
1763788 GTATATTTATATCGGGTACATTGTAAATTTACCTATCACATTGTAATTTTCGTTTCGATGTTTTT
1 -TATATTTATATCGGTTACATTGTAAATTTACCTATTACATTATAATTTTCGTTTCGATGTTTTT
*
1763853 GGGATCGATACTTTTAATAAATGTATCGACACTCTATGCGTGCACC-CGTTT-GGCATTCATTAT
65 GGGATCGATACTTTTAATAAATGTATCGACACTCTATGAGTGCACCTCGTTTGGGCATTCATTAT
* * * *
1763916 GGACAGAAT-GTATCGACACAAATTTAACAAGTGTTAATACTTTATGCTGACCTATTTTCTCATA
130 GGA-A-AATAGTACCGACACAAATTCAACAAGTGTCAATACATTATGCTGACCTATTTTCTCATA
1763980 AAACTGA
193 AAACTGA
* *
1763987 TATATTTATATCGGTTACATTGTAAATTTACTTATTACATTATAATTATCGGTTTCGATGTTTTT
1 TATATTTATATCGGTTACATTGTAAATTTACCTATTACATTATAATTTTC-GTTTCGATGTTTTT
* * * * *
1764052 GGGA-CTGATACTTTTAATAAATATATCAACACTTTATGAGTGCACCTCGTTTGGGCATTTATTC
65 GGGATC-GATACTTTTAATAAATGTATCGACACTCTATGAGTGCACCTCGTTTGGGCATTCATTA
* * * ** * *
1764116 TGGAAAATAAGTACCGACACAAATTCCACAAGTGTCGATACATTATGTTGATATGTTTTCTAAT-
129 TGGAAAAT-AGTACCGACACAAATTCAACAAGTGTCAATACATTATGCTGACCTATTTTCTCATA
* *
1764180 TAACTGG
193 AAACTGA
* * * *
1764187 TATATTTATACCGGTTACATTGTTAATTTACCTATTACATTATAATTATTGGTTTTGATGTTTTT
1 TATATTTATATCGGTTACATTGTAAATTTACCTATTACATTATAATT-TTCGTTTCGATG-TTTT
* * *
1764252 TTGG-TCGATACTTGTAGA-AAATGTGTCGACA
64 TGGGATCGATACTTTTA-ATAAATGTATCGACA
1764283 TATATTTATG
Statistics
Matches: 413, Mismatches: 64, Indels: 39
0.80 0.12 0.08
Matches are distributed among these distances:
197 3 0.01
198 90 0.22
199 62 0.15
200 83 0.20
201 68 0.16
202 1 0.00
203 3 0.01
204 32 0.08
205 71 0.17
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.41
Consensus pattern (199 bp):
TATATTTATATCGGTTACATTGTAAATTTACCTATTACATTATAATTTTCGTTTCGATGTTTTTG
GGATCGATACTTTTAATAAATGTATCGACACTCTATGAGTGCACCTCGTTTGGGCATTCATTATG
GAAAATAGTACCGACACAAATTCAACAAGTGTCAATACATTATGCTGACCTATTTTCTCATAAAA
CTGA
Found at i:1764225 original size:200 final size:200
Alignment explanation
Indices: 1763582--1764282 Score: 692
Period size: 200 Copynumber: 3.5 Consensus size: 200
1763572 GAAGTAAATC
* *
1763582 GGTATATTTATACCGGTAACATTGCAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT
1 GGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT
** * * *
1763647 TTTAGATCGATACAATTT--TAAATGTATCGACTCTTTATGCTTGCACCTCG-TTGGGCATTCAT
66 TTGGGATCGATAC-TTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGG----C--
* * * * * * * *
1763709 ATTTCATTCTAGAAAA-AAGTATTGACATAAACTAAAAAAATATCGATATATTAT-TT-AAACCT
124 ATTT-ATTCTGGAAAATAAGTATCGACACAAATTAAACAAGTGTCGATACATTATGTTGAAA--T
*
1763771 ATTTTCTCATAAAAT
186 ATTTTCTCATAAACT
* * * * * *
1763786 CAGTATATTTATATCGGGTACATTGTAAATTTACCTATCACATTGTAATTTTC-GTTTCGATGTT
1 -GGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTT
* *
1763850 TTTGGGATCGATACTTTTAATAAATGTATCGACACTCTATGCGTGCACC-CGTTT-GGCATTCAT
65 TTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGGCATTTAT
* * ** * * **
1763913 TATGGACAGAAT--GTATCGACACAAATTTAACAAGTGTTAATACTTTATGCTGACCTATTTTCT
130 TCTGGA-A-AATAAGTATCGACACAAATTAAACAAGTGTCGATACATTATGTTGAAATATTTTCT
1763976 CATAAAACT
193 CAT-AAACT
* * *
1763985 GATATATTTATATCGGTTACATTGTAAATTTACTTATTACATTATAATTATCGGTTTCGATGTTT
1 GGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT
* * *
1764050 TTGGGA-CTGATACTTTTAATAAATATATCAACACTTTATGAGTGCACCTCGTTTGGGCATTTAT
66 TTGGGATC-GATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGGCATTTAT
* ** * * *
1764114 TCTGGAAAATAAGTACCGACACAAATTCCACAAGTGTCGATACATTATGTTGATATGTTTTCTAA
130 TCTGGAAAATAAGTATCGACACAAATTAAACAAGTGTCGATACATTATGTTGAAATATTTTCTCA
*
1764179 TTAACT
195 TAAACT
* * *
1764185 GGTATATTTATACCGGTTACATTGTTAATTTACCTATTACATTATAATTATTGGTTTTGATGTTT
1 GGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATG-TT
* * *
1764250 TTTTGG-TCGATACTTGTAGA-AAATGTGTCGACA
65 TTTGGGATCGATACTTTTA-ATAAATGTATCGACA
1764283 TATATTTATG
Statistics
Matches: 410, Mismatches: 68, Indels: 41
0.79 0.13 0.08
Matches are distributed among these distances:
197 6 0.01
198 86 0.21
199 64 0.16
200 87 0.21
201 65 0.16
203 3 0.01
204 27 0.07
205 72 0.18
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.41
Consensus pattern (200 bp):
GGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT
TTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGGCATTTATT
CTGGAAAATAAGTATCGACACAAATTAAACAAGTGTCGATACATTATGTTGAAATATTTTCTCAT
AAACT
Found at i:1766767 original size:17 final size:17
Alignment explanation
Indices: 1766742--1766775 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1766732 TAACTTTTCT
* *
1766742 CATCTCATACATAATTA
1 CATCACATACAAAATTA
1766759 CATCACATACAAAATTA
1 CATCACATACAAAATTA
1766776 TAAATCGTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (17 bp):
CATCACATACAAAATTA
Found at i:1769468 original size:201 final size:200
Alignment explanation
Indices: 1768370--1769916 Score: 2129
Period size: 200 Copynumber: 7.7 Consensus size: 200
1768360 TGAGTTATTT
* * *
1768370 AAAAGTATCGACAC-AAATAAAAAAGTGTCGCTACATATTGTAGACCTATTCTCTCATAAAACCG
1 AAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCG
* ** * *
1768434 GTATATTTATACCGGTTATATTAAAAAATTATATATTACATTATAATTATGAGTTTCGATGTTTT
66 GTATATTTATACCGGTTACATTAAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTC
1768499 TGGGATCGATACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATTCATTCT
131 TGGGATCGATACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATTCATTCT
1768564 GGACA
196 GGACA
* * * * * *
1768569 AAAAGTATCGACACAATATTAAAAAGTATCTATACATGTTATAGACCTATTCTCTCATAAAATCA
1 AAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCG
* * *
1768634 GTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTT
66 GTATATTTATACCGGTTACATTAAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTC
* * * * * *
1768699 TGGGATCGACACTTTTTGAAAATGTATCGACACTCTGTGCGTTCATCATTTTTGGCATCCATTCT
131 TGGGATCGATACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATTCATTCT
1768764 GGACA
196 GGACA
* * * * *
1768769 AAAAGTATCGATACCAAATTAAAAAGTATCGATACATGTTATAAACCTATTCTCTCATAAAACCG
1 AAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCG
** * *
1768834 GTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTAT-GGTTTCGATGTTTT
66 GTATATTTATACCGGTTACATTAAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTC
* * * * * * *
1768898 TGGAATCGACACTTTTTGAAAATATATTGACACTTTGTACGTTCACCCTTTTTGGCATCCATTCT
131 TGGGATCGATACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATTCATTCT
1768963 GGACA
196 GGACA
* * * * * * *
1768968 AAAAGTATTGATACAATATTAAAAAGTGTCAATGCATGTTGTATACCTATTCTCTCATAAAATCG
1 AAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCG
* * ** * * * *
1769033 GTATATTTTTTCTAGTTATATTACAAAATTACATATTACATTATAATTATGGGTTTCGATGTTTT
66 GTATATTTATACCGGTTACATTAAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTC
* * * * *
1769098 TGGGATCGACACTTTTTGAAAATGTATCGACACTTTGTGTGTTCACCCTTTTTGACATCCATTCT
131 TGGGATCGATACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATTCATTCT
1769163 GGACA
196 GGACA
* * * * * *
1769168 AAAAGTATCAACACAATATTAAAAAGTATCGATACATATTGTAGACATATTCTCTCATAAAATCG
1 AAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCG
* * *
1769233 GTATAATTATACCGGTTACATTAAAAAATTACCTATTACATTATACTTATGGGTTTCAATGTTTC
66 GTATATTTATACCGGTTACATTAAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTC
* * * *
1769298 TGGGATCGATACTTTTT-ATAAATGTATCGACACTTTATGGGTACACCCTTTTTGGGATTTGATT
131 TGGGATCGATACTTTTTGA-AAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCA-TTCATT
1769362 CTGGACA
194 CTGGACA
* * *
1769369 AAAAGTATCGACACAAAATTAAAAAATGTCGATACATGTTGTAGACTTATTCTCTCATAAAACCT
1 AAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCG
* * * *
1769434 GTATATTTATACAGGTTACATTGAAAATTTACCTATTACATTATACTTATGGGTTTCGATGTTTC
66 GTATATTTATACCGGTTACATTAAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTC
* *
1769499 TGGGATCGATTCTTTTT-ATAAATGTATCGACACTTTATAG-GTGCACCCTTTTTGGCATTCATT
131 TGGGATCGATACTTTTTGA-AAATGTATCGACACTTTAT-GCGTTCACCCTTTTTGGCATTCATT
*
1769562 CTGGACC
194 CTGGACA
* *
1769569 AAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACTTATTCTCTCATAAAACTG
1 AAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCG
* *
1769634 GTATATTTATACCGGTTACATTAAAAAATTACCTATTACATTATACTTATGGGCTTCGATGTTTC
66 GTATATTTATACCGGTTACATTAAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTC
*
1769699 TGGGATCGATACTTTTT-ATAAAT-TGATCGACACTTTATG-GTTGCACCCTTTTTTTGCATTCA
131 TGGGATCGATACTTTTTGA-AAATGT-ATCGACACTTTATGCGTT-CACCC-TTTTTGGCATTCA
1769761 TTCTGGACA
192 TTCTGGACA
1769770 AAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCG
1 AAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCG
* * * * * *
1769835 GTATACTTATACCGGTTAAATTGAAAATTTACCTATTACATTATACTTATGGGTTTCGATATTTC
66 GTATATTTATACCGGTTACATTAAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTC
1769900 TGGGATCGATACTTTTT
131 TGGGATCGATACTTTTT
1769917 ATATATGGAT
Statistics
Matches: 1214, Mismatches: 126, Indels: 14
0.90 0.09 0.01
Matches are distributed among these distances:
199 193 0.16
200 681 0.56
201 339 0.28
202 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (200 bp):
AAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCG
GTATATTTATACCGGTTACATTAAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTC
TGGGATCGATACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATTCATTCT
GGACA
Found at i:1769932 original size:401 final size:399
Alignment explanation
Indices: 1768370--1769916 Score: 2149
Period size: 401 Copynumber: 3.9 Consensus size: 399
1768360 TGAGTTATTT
* * *
1768370 AAAAGTATCGACAC-AAATAAAAAAGTGTCGCTACATATTGTAGACCTATTCTCTCATAAAACCG
1 AAAAGTATCGACACAAAATTAAAAAGTATCGATACATATTGTAGACCTATTCTCTCATAAAACCG
* ** * *
1768434 GTATATTTATACCGGTTATATTAAAAAATTATATATTACATTATAATTATGAGTTTCGATGTTTT
66 GTATATTTATACCGGTTACATTAAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTC
1768499 TGGGATCGATACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATTCATTCT
131 TGGGATCGATACTTTTTGAAAATGTATCGACACTTTATG-GTTCACCCTTTTTGGCATTCATTCT
* * * *
1768564 GGACAAAAAGTATCGACACAATATTAAAAAGTATCTATACATGTTATAGACCTATTCTCTCATAA
195 GGACAAAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAA
* *
1768629 AATCAGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTTCGAT
260 AACCGGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTTCGAT
* * * *
1768694 GTTTTTGGGATCGACACTTTTTGAAAATGTATCGACACTCTGTGCGTTCATCATTTTTGGCATCC
325 GTTTCTGGGATCGACACTTTTTGAAAATGTATCGACACTTTGTGCGTTCACCCTTTTTGGCATCC
1768759 ATTCTGGACA
390 ATTCTGGACA
* * * * *
1768769 AAAAGTATCGATACCAAATTAAAAAGTATCGATACATGTTATAAACCTATTCTCTCATAAAACCG
1 AAAAGTATCGACACAAAATTAAAAAGTATCGATACATATTGTAGACCTATTCTCTCATAAAACCG
** * *
1768834 GTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTAT-GGTTTCGATGTTTT
66 GTATATTTATACCGGTTACATTAAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTC
* * * * * * *
1768898 TGGAATCGACACTTTTTGAAAATATATTGACACTTTGTACGTTCACCCTTTTTGGCATCCATTCT
131 TGGGATCGATACTTTTTGAAAATGTATCGACACTTTAT-GGTTCACCCTTTTTGGCATTCATTCT
* * * * * *
1768963 GGACAAAAAGTATTGATACAATATTAAAAAGTGTCAATGCATGTTGTATACCTATTCTCTCATAA
195 GGACAAAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAA
* * * ** *
1769028 AATCGGTATATTTTTTCTAGTTATATTACAAAATTACATATTACATTATAATTATGGGTTTCGAT
260 AACCGGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTTCGAT
* * *
1769093 GTTTTTGGGATCGACACTTTTTGAAAATGTATCGACACTTTGTGTGTTCACCCTTTTTGACATCC
325 GTTTCTGGGATCGACACTTTTTGAAAATGTATCGACACTTTGTGCGTTCACCCTTTTTGGCATCC
1769158 ATTCTGGACA
390 ATTCTGGACA
* * * *
1769168 AAAAGTATCAACACAATATTAAAAAGTATCGATACATATTGTAGACATATTCTCTCATAAAATCG
1 AAAAGTATCGACACAAAATTAAAAAGTATCGATACATATTGTAGACCTATTCTCTCATAAAACCG
* * *
1769233 GTATAATTATACCGGTTACATTAAAAAATTACCTATTACATTATACTTATGGGTTTCAATGTTTC
66 GTATATTTATACCGGTTACATTAAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTC
* * *
1769298 TGGGATCGATACTTTTT-ATAAATGTATCGACACTTTATGGGTACACCCTTTTTGGGATTTGATT
131 TGGGATCGATACTTTTTGA-AAATGTATCGACACTTTAT-GGTTCACCCTTTTTGGCA-TTCATT
* *
1769362 CTGGACAAAAAGTATCGACACAAAATTAAAAAATGTCGATACATGTTGTAGACTTATTCTCTCAT
193 CTGGACAAAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCAT
* * * * *
1769427 AAAACCTGTATATTTATACAGGTTACATTGA-AAATTTACCTATTACATTATACTTATGGGTTTC
258 AAAACCGGTATATTTATACCGGTTATATT-ACAAAATTACCTATTACATTATAATTATGGGTTTC
** * *
1769491 GATGTTTCTGGGATCGATTCTTTTT-ATAAATGTATCGACACTTTATAG-GTGCACCCTTTTTGG
322 GATGTTTCTGGGATCGACACTTTTTGA-AAATGTATCGACACTTTGT-GCGTTCACCCTTTTTGG
* *
1769554 CATTCATTCTGGACC
385 CATCCATTCTGGACA
* * * *
1769569 AAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACTTATTCTCTCATAAAACTG
1 AAAAGTATCGACACAAAATTAAAAAGTATCGATACATATTGTAGACCTATTCTCTCATAAAACCG
* *
1769634 GTATATTTATACCGGTTACATTAAAAAATTACCTATTACATTATACTTATGGGCTTCGATGTTTC
66 GTATATTTATACCGGTTACATTAAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTC
*
1769699 TGGGATCGATACTTTTT-ATAAAT-TGATCGACACTTTATGGTTGCACCCTTTTTTTGCATTCAT
131 TGGGATCGATACTTTTTGA-AAATGT-ATCGACACTTTATGGTT-CACCC-TTTTTGGCATTCAT
1769762 TCTGGACAAAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCA
192 TCTGGACAAAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCA
* * * *
1769827 TAAAACCGGTATACTTATACCGGTTAAATTGA-AAATTTACCTATTACATTATACTTATGGGTTT
257 TAAAACCGGTATATTTATACCGGTTATATT-ACAAAATTACCTATTACATTATAATTATGGGTTT
* *
1769891 CGATATTTCTGGGATCGATACTTTTT
321 CGATGTTTCTGGGATCGACACTTTTT
1769917 ATATATGGAT
Statistics
Matches: 1023, Mismatches: 114, Indels: 20
0.88 0.10 0.02
Matches are distributed among these distances:
399 372 0.36
400 151 0.15
401 491 0.48
402 9 0.01
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (399 bp):
AAAAGTATCGACACAAAATTAAAAAGTATCGATACATATTGTAGACCTATTCTCTCATAAAACCG
GTATATTTATACCGGTTACATTAAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTC
TGGGATCGATACTTTTTGAAAATGTATCGACACTTTATGGTTCACCCTTTTTGGCATTCATTCTG
GACAAAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAA
ACCGGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATG
TTTCTGGGATCGACACTTTTTGAAAATGTATCGACACTTTGTGCGTTCACCCTTTTTGGCATCCA
TTCTGGACA
Found at i:1770306 original size:19 final size:19
Alignment explanation
Indices: 1770282--1770330 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
1770272 TTACATTCAC
1770282 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
1770301 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
1770320 ATACAAAATTA
1 ATACAAAATTA
1770331 ACCCTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:1772155 original size:33 final size:33
Alignment explanation
Indices: 1772118--1772183 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
1772108 CATCTTAAGA
* *
1772118 TCACCCCTTAACACCTCAACTTCTTTCACCACT
1 TCACCCCTCAAAACCTCAACTTCTTTCACCACT
*
1772151 TCACCCCTCAAAACCTCTACTTCTTTCACCACT
1 TCACCCCTCAAAACCTCAACTTCTTTCACCACT
1772184 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.24, C:0.45, G:0.00, T:0.30
Consensus pattern (33 bp):
TCACCCCTCAAAACCTCAACTTCTTTCACCACT
Found at i:1772208 original size:15 final size:16
Alignment explanation
Indices: 1772183--1772212 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1772173 CTTTCACCAC
1772183 TCCATCTATTTTTCCG
1 TCCATCTATTTTTCCG
1772199 TCCA-CTATTTTTCC
1 TCCATCTATTTTTCC
1772213 TTCAACTTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.13, C:0.33, G:0.03, T:0.50
Consensus pattern (16 bp):
TCCATCTATTTTTCCG
Found at i:1772256 original size:21 final size:21
Alignment explanation
Indices: 1772232--1772317 Score: 154
Period size: 21 Copynumber: 4.1 Consensus size: 21
1772222 CCCCTTATGC
*
1772232 CTCTCAAGTGTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
1772253 CTCTCAAATTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
1772274 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
1772295 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
1772316 CT
1 CT
1772318 TGATTGTCTT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 62 1.00
ACGTcount: A:0.15, C:0.34, G:0.09, T:0.42
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:1774891 original size:182 final size:180
Alignment explanation
Indices: 1774501--1774977 Score: 636
Period size: 182 Copynumber: 2.6 Consensus size: 180
1774491 TACACGTACT
*
1774501 TATTAAAGTATCGACACTTTCAATATATCTGGTAGCGATTTATCGGTTTTATCATTTCGATACCG
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGATTTATCGGTTTTATCATTTCGATACCG
* * * * * *
1774566 ATTTTGTCATATTTTTACTTGTTATATCGTTATGGATCGATATTTTTTTTAAAGTATCGACACTT
66 GTTTTGTCATATTTTTAC-TGTTATATCATTATGAATCAATAATTTTTATAAAGTATCGACACTT
* *
1774631 TATAAGTGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
130 TATAAGCGCTAAAACTACTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
1774682 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGATTTATCGGTTTTATCATTTCGATACCG
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGATTTATCGGTTTTATCATTTCGATACCG
* *
1774747 GTTTTGTCATATTTTTATCTGTTATATCATTGTGAATTAATACATTTTTATAAAGTATCGACACT
66 GTTTTGTCATATTTTTA-CTGTTATATCATTATGAATCAATA-ATTTTTATAAAGTATCGACACT
* *
1774812 TTATAGGCGCTAAAATTACTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
129 TTATAAGCGCTAAAACTACTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
* * * * * * * * *
1774864 TATTAAAGTATCGGCACTTTTAATATATTCGGTACCGCTTTACCAGTATTGTC-TTTACG-TGAC
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGATTTATCGGTTTTATCATTT-CGAT-AC
* * *
1774927 AGGTTTTGTCATATTTTTACCTGTTATATTGA-TATGAATCGATAAATTTTT
64 CGGTTTTGTCATATTTTTA-CTGTTATA-TCATTATGAATCAAT-AATTTTT
1774978 TATTTGGATC
Statistics
Matches: 262, Mismatches: 28, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
181 102 0.39
182 157 0.60
183 3 0.01
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.43
Consensus pattern (180 bp):
TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGATTTATCGGTTTTATCATTTCGATACCG
GTTTTGTCATATTTTTACTGTTATATCATTATGAATCAATAATTTTTATAAAGTATCGACACTTT
ATAAGCGCTAAAACTACTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
Found at i:1778355 original size:541 final size:529
Alignment explanation
Indices: 1777194--1779406 Score: 1846
Period size: 541 Copynumber: 4.2 Consensus size: 529
1777184 AGAGTTTTAG
* * * ** * ** *
1777194 TATTGAAGGTAAAATTGGCGTGTGAAACAAATAGCTTTAATTGAGCTAT-AGGATGGTTGGTTCG
1 TATTAAAGGTAGAATTAGCGTGTGAAACACGTGGCTTTAGCTGAGCTATAAGG-TGGTTGGTTTG
* * * * ** * * *** * *
1777258 ATAAAACTGATAGTTTTTTAGGTTAGTTGTA-CGAGAGTCTGTTCAGTCAACAATTCTAATATCA
65 TTAAAACTAATAGTCTGTTAGGTTAACTGTATGGA-AGTCTATTCAGTCAACTGCTCTGATACCA
* * * * * * *
1777322 TAGAAGCGGAGTGTAGAAACAAAAATCAGTCTCTCGA-CTAATAAT-AGAAGCAAAGTATAGAAA
129 TGGAAGCAGAGTATAGAAACAAAAAT-AATCTCTCGATC-AACAATGA-AAGCGAAGTATAGAAG
* * * ** * * *
1777385 TGTTGTTAAAGTTATAGTTGAAGTGA-TAT-GAGTTAGTGCTTTG-T-GT--A-TGTGGGGATAG
191 TGTTGCTGAAGCTGCAGCTGAAGTGACT-TGGA-TTGGTGCTTTGCTCGTAGACT-TGGGGATAA
* * * * * *
1777443 CATAGTATGGAGAACCTGCAATTTGGTGTGACAATACGATTATTGTTGCTTTGAATGCAAATCC-
253 CATAGTGTGGAGAA-TTGTAATTTGGTGCGACAATA-TA-T-TTGTTGCTTTGAGTGCAAATCCG
*
1777507 TACCTACCATGCTCATACTAAGCATGTAGACTTGGATATTCACTTTGTGAGAAAGAAGGTTA-AG
314 TA--TACCATGCTCATACTAAGCATGTAGACTTGGATATTCACTTTGTGAGAAAGAAGGTTACAA
* * * * * *
1777571 C-AAACAACTACAAGTTGTGTTCCTGTCTGTCATCAACTTATAGATGGATTAATCAAACCAGTTG
377 CAAAACAACGACAAGTTATATTCCTGTCTGTCATCAACTTACAGATGGATTAACCAAACCAGTGG
* *
1777635 CCAAGGA-TGCTTTTGAAGTGTTTCGAGATAAGGTATGTGTGCAACCTTGCCAATAAAAAAAGGA
442 CCAA-GACTGCTTTTGAAGTGTTTCGAGACAAGAT-TGTGT-CAACCTTGCCAATAAAAAAAGGA
* * *
1777699 AAGGGAAGATGAAAAAGTAGAAAAAA
504 AAGGGAAGAAGAAAAAGTAGGAGAAA
* * * * * * *
1777725 TA-TAGAAGATAAAATTGGCGTGTGAAACACATGACTTTAGCTGAGCTATAAGGTGATTGGTTTT
1 TATTA-AAGGTAGAATTAGCGTGTGAAACACGTGGCTTTAGCTGAGCTATAAGGTGGTTGGTTTG
* * * * * * *
1777789 TTAAAACTAATAGCCTGCTAGGTTAACTATATGGAAGTTTGTTCAGTTAACTGCTTTGATACCAT
65 TTAAAACTAATAGTCTGTTAGGTTAACTGTATGGAAGTCTATTCAGTCAACTGCTCTGATACCAT
* * *
1777854 GGAAGCAGAGTATAGAAACAAAAATAAATCTCTCGACCAACAATGAAAGTGGAGTATAGAAGTGT
130 GGAAGCAGAGTATAGAAACAAAAAT-AATCTCTCGATCAACAATGAAAGCGAAGTATAGAAGTGT
* * * *
1777919 TGCTGAAG-TCACAGTTGAAGTGACTTAGATTGGTGCTTTGCTCGCAGACTTGGGGATAACATAG
194 TGCTGAAGCT-GCAGCTGAAGTGACTTGGATTGGTGCTTTGCTCGTAGACTTGGGGATAACATAG
* *
1777983 TGCGGAGAATATGTAATTTTGTGCGACAATATGAGTCCTTGTTGCTTTGAGTGCAAATCTCGTAT
258 TGTGGAGAAT-TGTAATTTGGTGCGACAATAT-A-T--TTGTTGCTTTGAGTGCAAATC-CGTAT
* * * * * *
1778048 ACCATGGTCATACTAAGTATGTAGACTTCGATATTCACTTTGTGAGAGACAAGGTTACACCAAAA
317 ACCATGCTCATACTAAGCATGTAGACTTGGATATTCACTTTGTGAGAAAGAAGGTTACAACAAAA
* * ** * * * *
1778113 CAACGACAAATAAACTATATTCCTGTGTGTCATCAGTTTACAGATGGGTTAACTAAACTAGTGGT
382 CAACGACAAGT----TATATTCCTGTCTGTCATCAACTTACAGATGGATTAACCAAACCAGTGGC
* *
1778178 CAAGACTACTTTTGAAGTGTTTCGAGACAAGATTTGTGTGCAACCTTGCCAAT-AAAAAAGAAAA
443 CAAGACTGCTTTTGAAGTGTTTCGAGACAAGA-TTGTGT-CAACCTTGCCAATAAAAAAAGGAAA
1778242 GGGAAGAAGAAAATA-TAGGAGAAA
506 GGGAAGAAGAAAA-AGTAGGAGAAA
* * *
1778266 TATTAAAGGTAGAACTT-GCGTGTGAAACACGTGGTTTTAGCTAAGCTATAAGGTGGTTGGTTTA
1 TATTAAAGGTAGAA-TTAGCGTGTGAAACACGTGGCTTTAGCTGAGCTATAAGGTGGTTGGTTTG
* * * * *
1778330 TTAAAACTGACAGTCAGTTAGGTTAACTGTATGGCAA-TCTATTCAGTCAACTACTCTGATATCA
65 TTAAAACTAATAGTCTGTTAGGTTAACTGTATGG-AAGTCTATTCAGTCAACTGCTCTGATACCA
* * * * *
1778394 TGGAAGTAGAGTATAGAAACAAAAACCAGTCTCTCGATCAATAATGGAAGCGAAGTATAGAAGTG
129 TGGAAGCAGAGTATAGAAACAAAAA-TAATCTCTCGATCAACAATGAAAGCGAAGTATAGAAGTG
* * * * * * *
1778459 TTACTGAAGCTGTAGCTGATGTGACTTGGATTGATCCTTTGCTCGTAGAGTTGAGGATAACATAG
193 TTGCTGAAGCTGCAGCTGAAGTGACTTGGATTGGTGCTTTGCTCGTAGACTTGGGGATAACATAG
* *
1778524 TGTGGAGAACCTGTAATTTGGTGCGACAATACTA------G---T-ATTG----T--GTATACCA
258 TGTGGAGAA-TTGTAATTTGGTGCGACAATA-TATTTGTTGCTTTGAGTGCAAATCCGTATACCA
* *
1778573 TGCTCATACTAAGTATGTAGACTTGGATATTCACTTTGTGAGAAAGAATGTTACAACAAAACAAC
321 TGCTCATACTAAGCATGTAGACTTGGATATTCACTTTGTGAGAAAGAAGGTTACAACAAAACAAC
* * * * ** * *
1778638 GACAAGTAAGCTATGTTTCTGCCTGTCGTCAACTTGTAGCTGGGTTAACCAAACCAGTGGCCAAG
386 GACAAGT----TATATTCCTGTCTGTCATCAACTTACAGATGGATTAACCAAACCAGTGGCCAAG
* * * * * * ***
1778703 GCTGCTTTTAAAGTGTTTTGAGA-AA-A-GGTCTTAACCTTGCTGGTAAAAAAAGGGAAA-GGAA
447 ACTGCTTTTGAAGTGTTTCGAGACAAGATTGTGTCAACCTTGCCAATAAAAAAA-GGAAAGGGAA
*
1778764 TGAAGAAAAAGTA-TAGAAAA
511 -GAAGAAAAAGTAGGAG-AAA
* * ** * * * * * *
1778784 TATTGAAGGTGGAATGGGCATGTGAAACACGTGGCTTTCGTTGAGTTATACA-GTGGTTGATTCG
1 TATTAAAGGTAGAATTAGCGTGTGAAACACGTGGCTTTAGCTGAGCTATA-AGGTGGTTGGTTTG
* * * *
1778848 TTAAAGA-TAATAGTCTGTTAGGTTAACTGCATGGAAGCCCATTCAGTCAACTGCTCTGGTACCA
65 TTAAA-ACTAATAGTCTGTTAGGTTAACTGTATGGAAGTCTATTCAGTCAACTGCTCTGATACCA
* * * * *
1778912 TGGAAGCCGAATATAGAAACAAAAATATTCTCTTGATCAACAAT-AGAAGCGAAGTATAAAAGTG
129 TGGAAGCAGAGTATAGAAACAAAAATAATCTCTCGATCAACAATGA-AAGCGAAGTATAGAAGTG
* * * * *
1778976 TTGCTGAAGCTGCAGGTGAAGTGACTTGGGTTGGTGTTTTGCTCATAGACTT-GAGATAACATAG
193 TTGCTGAAGCTGCAGCTGAAGTGACTTGGATTGGTGCTTTGCTCGTAGACTTGGGGATAACATAG
* * * * ** *
1779040 TATGGAGAACTTGTAATTTGGCGCGACAATACAAATATTGTTTCTTTGAGCACAAATCCAGTCTA
258 TGTGGAGAA-TTGTAATTTGGTGCGACAAT--ATAT-TTGTTGCTTTGAGTGCAAATCC-GTATA
* * * *
1779105 CCATTCTCATACTAAGCATGTAGACTTAGATATTCAGTTTGTGAGAGAGAAGGTTACAACAAAAC
318 CCATGCTCATACTAAGCATGTAGACTTGGATATTCACTTTGTGAGAAAGAAGGTTACAACAAAAC
* * * * * *
1779170 AACGACAAGTTATATTCATGTCTGCCATCAGCTTGCAGATGGATTAACCAAACCAGTGGCTAAGC
383 AACGACAAGTTATATTCCTGTCTGTCATCAACTTACAGATGGATTAACCAAACCAGTGGCCAAGA
* * * * * **
1779235 CTGCTTTTGAAGTATTTCAAGACAAGATCTATGT----CTTGACAGTAAAAAAAGGAAAGATAAG
448 CTGCTTTTGAAGTGTTTCGAGACAAGAT-TGTGTCAACCTTGCCAATAAAAAAAGGAAAGGGAAG
*
1779296 AAGAAAAAGTAAGAGAAA
512 AAGAAAAAGTAGGAGAAA
* * * * *
1779314 TATTAAAGGTAGAATTAACGTGTGAAACACGTGG-TTATAGTTGAGCTATAGGGTAGTTTGTTTG
1 TATTAAAGGTAGAATTAGCGTGTGAAACACGTGGCTT-TAGCTGAGCTATAAGGTGGTTGGTTTG
* *
1779378 TTAAAACTAATATTCTATTAGGTTAACTG
65 TTAAAACTAATAGTCTGTTAGGTTAACTG
1779407 CATATGCATC
Statistics
Matches: 1355, Mismatches: 254, Indels: 147
0.77 0.14 0.08
Matches are distributed among these distances:
516 46 0.03
517 94 0.07
518 138 0.10
519 3 0.00
520 2 0.00
521 136 0.10
524 1 0.00
527 1 0.00
528 4 0.00
529 4 0.00
530 94 0.07
531 250 0.18
532 15 0.01
533 2 0.00
535 115 0.08
536 74 0.05
537 3 0.00
538 14 0.01
541 266 0.20
542 92 0.07
543 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (529 bp):
TATTAAAGGTAGAATTAGCGTGTGAAACACGTGGCTTTAGCTGAGCTATAAGGTGGTTGGTTTGT
TAAAACTAATAGTCTGTTAGGTTAACTGTATGGAAGTCTATTCAGTCAACTGCTCTGATACCATG
GAAGCAGAGTATAGAAACAAAAATAATCTCTCGATCAACAATGAAAGCGAAGTATAGAAGTGTTG
CTGAAGCTGCAGCTGAAGTGACTTGGATTGGTGCTTTGCTCGTAGACTTGGGGATAACATAGTGT
GGAGAATTGTAATTTGGTGCGACAATATATTTGTTGCTTTGAGTGCAAATCCGTATACCATGCTC
ATACTAAGCATGTAGACTTGGATATTCACTTTGTGAGAAAGAAGGTTACAACAAAACAACGACAA
GTTATATTCCTGTCTGTCATCAACTTACAGATGGATTAACCAAACCAGTGGCCAAGACTGCTTTT
GAAGTGTTTCGAGACAAGATTGTGTCAACCTTGCCAATAAAAAAAGGAAAGGGAAGAAGAAAAAG
TAGGAGAAA
Found at i:1786098 original size:20 final size:19
Alignment explanation
Indices: 1786053--1786097 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
1786043 ATATGATTTA
1786053 TTTTTTTAATAAAATTCGT
1 TTTTTTTAATAAAATTCGT
*
1786072 ATTTTTTAATAAAATTCGT
1 TTTTTTTAATAAAATTCGT
1786091 TTTTTTT
1 TTTTTTT
1786098 TTTGAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.62
Consensus pattern (19 bp):
TTTTTTTAATAAAATTCGT
Found at i:1789387 original size:81 final size:82
Alignment explanation
Indices: 1789250--1789412 Score: 301
Period size: 81 Copynumber: 2.0 Consensus size: 82
1789240 AGGTAGGTTT
1789250 GGTTTTGGGTGAGTGATAAAATTCTCAAATTATTCAAATTGAGAAATTTAACTTTTTTTAAA-TT
1 GGTTTTGGGTGAGTGATAAAATTCTCAAATTATTCAAATTGAGAAATTTAACTTTTTTTAAATTT
1789314 TAAATTGACATTTTAAG
66 TAAATTGACATTTTAAG
* *
1789331 GGTTTTGGGTGGGTGATAAAATTCTCAAATTATTCAAATTGAGAAATTTAAGTTTTTTTAAATTT
1 GGTTTTGGGTGAGTGATAAAATTCTCAAATTATTCAAATTGAGAAATTTAACTTTTTTTAAATTT
1789396 TAAATTGACATTTTAAG
66 TAAATTGACATTTTAAG
1789413 TTGTGTAATT
Statistics
Matches: 79, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
81 60 0.76
82 19 0.24
ACGTcount: A:0.35, C:0.06, G:0.16, T:0.44
Consensus pattern (82 bp):
GGTTTTGGGTGAGTGATAAAATTCTCAAATTATTCAAATTGAGAAATTTAACTTTTTTTAAATTT
TAAATTGACATTTTAAG
Found at i:1789649 original size:12 final size:12
Alignment explanation
Indices: 1789632--1789656 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1789622 ATATTTTCAG
1789632 TAAAATATTATT
1 TAAAATATTATT
1789644 TAAAATATTATT
1 TAAAATATTATT
1789656 T
1 T
1789657 TTTCTATCGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TAAAATATTATT
Found at i:1791427 original size:2 final size:2
Alignment explanation
Indices: 1791420--1791447 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1791410 TAAATTTTGA
1791420 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
1791448 TAATAATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1791992 original size:47 final size:48
Alignment explanation
Indices: 1791936--1792027 Score: 116
Period size: 47 Copynumber: 1.9 Consensus size: 48
1791926 CGAAAAAATT
*** * *
1791936 GAATCGAACCAAAA-CTGACTTTAATTTTAGCCAAACCGAAAGTAACCC
1 GAATCGAACCAAAATC-GACCCGAATTTTAACCAAACCAAAAGTAACCC
1791984 GAAT-GAACCAAAATCGACCCGAATTTTAACCAAACCAAAAGTAA
1 GAATCGAACCAAAATCGACCCGAATTTTAACCAAACCAAAAGTAA
1792028 TCCAAACCGA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
47 33 0.87
48 5 0.13
ACGTcount: A:0.46, C:0.24, G:0.12, T:0.18
Consensus pattern (48 bp):
GAATCGAACCAAAATCGACCCGAATTTTAACCAAACCAAAAGTAACCC
Found at i:1792273 original size:60 final size:59
Alignment explanation
Indices: 1792201--1792341 Score: 156
Period size: 60 Copynumber: 2.3 Consensus size: 59
1792191 TGCATCATTG
* * *
1792201 TCCCCAATCTATGACCTTCATTTCAAATTAGTTCTTAAACTTTTAAAAATTTCAATTTCA
1 TCCCCAAACTATGA-CTTCATTTCAAATTAGTCCTCAAACTTTTAAAAATTTCAATTTCA
** * * * * *
1792261 TCCTTAAACTATGACTATTATTTTAAATTAGTCCTCAAACTTTTTAACATTTCATTTTCA
1 TCCCCAAACTATGACT-TCATTTCAAATTAGTCCTCAAACTTTTAAAAATTTCAATTTCA
*
1792321 TCCCCAAGCTATGATCTTCAT
1 TCCCCAAACTATGA-CTTCAT
1792342 CCTAAATGCT
Statistics
Matches: 65, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
59 2 0.03
60 61 0.94
61 2 0.03
ACGTcount: A:0.31, C:0.22, G:0.04, T:0.43
Consensus pattern (59 bp):
TCCCCAAACTATGACTTCATTTCAAATTAGTCCTCAAACTTTTAAAAATTTCAATTTCA
Found at i:1792348 original size:60 final size:58
Alignment explanation
Indices: 1792201--1792383 Score: 147
Period size: 60 Copynumber: 3.1 Consensus size: 58
1792191 TGCATCATTG
* * * * *
1792201 TCCCCAATCTATGACCTTCATTTCAAATTAGTTCTTAAACTTTTAAAAATTTCAATTTCA
1 TCCCCAAACTATGA-CTTCATTT-AAATTAGTCCTCAAACTTTTTAAAATTTCATTTTCA
** * *
1792261 TCCTTAAACTATGACTATTATTTTAAATTAGTCCTCAAACTTTTTAACATTTCATTTTCA
1 TCCCCAAACTATGACT-TCA-TTTAAATTAGTCCTCAAACTTTTTAAAATTTCATTTTCA
* * * *
1792321 TCCCCAAGCTATGATCTTCATCCTAAA-T-GCTCCCCAAACTTTTTGAATATTTCAATTTT-A
1 TCCCCAAACTATGA-CTTCAT-TTAAATTAG-TCCTCAAACTTTTT-AAAATTTC-ATTTTCA
1792381 TCC
1 TCC
1792384 TAAAATATCC
Statistics
Matches: 100, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
58 1 0.01
59 17 0.17
60 72 0.72
61 10 0.10
ACGTcount: A:0.31, C:0.23, G:0.04, T:0.42
Consensus pattern (58 bp):
TCCCCAAACTATGACTTCATTTAAATTAGTCCTCAAACTTTTTAAAATTTCATTTTCA
Found at i:1792779 original size:21 final size:22
Alignment explanation
Indices: 1792735--1792779 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
1792725 TTTTACTTTG
*
1792735 AAACTATTAAAATAACTTTCCA
1 AAACTATTAAAATAACTTTACA
*
1792757 AAACTATTAAATTAA-TTTACA
1 AAACTATTAAAATAACTTTACA
1792778 AA
1 AA
1792780 TTATTATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.33
Consensus pattern (22 bp):
AAACTATTAAAATAACTTTACA
Found at i:1793421 original size:30 final size:32
Alignment explanation
Indices: 1793360--1793428 Score: 88
Period size: 30 Copynumber: 2.2 Consensus size: 32
1793350 AATTGATCAA
*
1793360 ATATTGATTCGATCCGAAATTCAACCAATCTG
1 ATATTGATTCGATCCGAAAATCAACCAATCTG
* **
1793392 AT-TTGATTCGA-CCTAAAATCAACTGATCTG
1 ATATTGATTCGATCCGAAAATCAACCAATCTG
1793422 ATATTGA
1 ATATTGA
1793429 CCCGACCCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
30 17 0.53
31 13 0.41
32 2 0.06
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (32 bp):
ATATTGATTCGATCCGAAAATCAACCAATCTG
Found at i:1793570 original size:15 final size:15
Alignment explanation
Indices: 1793536--1793570 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
1793526 AAACAAAAAC
*
1793536 CTGAAATGACCCGAA
1 CTGAAATGACCAGAA
*
1793551 GTGAAATGACCAGAA
1 CTGAAATGACCAGAA
1793566 CTGAA
1 CTGAA
1793571 TCCGATCCAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.14
Consensus pattern (15 bp):
CTGAAATGACCAGAA
Found at i:1799845 original size:198 final size:196
Alignment explanation
Indices: 1799454--1799849 Score: 726
Period size: 198 Copynumber: 2.0 Consensus size: 196
1799444 TTATTTGGCA
1799454 TACTAGTGTTTTTATTTAAAATTTCCTATTGTTACCTTAATTATTATGGTTTTACGTTTAGCCAT
1 TACTAGTGTTTTTATTTAAAATTTCCTATTGTTACCTTAATTATTATGGTTTTACGTTTAGCCAT
1799519 TCAAATTTGGCCCTAATATTTTTATATTTTATTTCATTAATCTAATGAAAGATGCAGTATATATA
66 TCAAATTTGGCCCTAATATTTTTATATTTTATTTCATTAATCTAATGAAAGATGCAGTATATATA
1799584 TTCGATAATGTGCATGTGATCTTTAAGTCAAGATTTTGCTGTGGAAATAGTTTTATGTTTATGTA
131 TTCGATAATGTGCATGTGATCTTTAAGTCAAGATTTTGCTGTGGAAATAGTTTTATGTTTATGTA
1799649 T
196 T
1799650 TACTAGTGTTATATTATTTAAAATTTCCTATTGTTACCTTAATTATTATTGG-TTTACTGTTTAG
1 TACTAGTGTT-T-TTATTTAAAATTTCCTATTGTTACCTTAATTATTA-TGGTTTTAC-GTTTAG
1799714 CCATTCAAATTTGGCCCTAATATTTTTATA-TTTATTTCATTAATCTAATGAAAGATGCAGTATA
62 CCATTCAAATTTGGCCCTAATATTTTTATATTTTATTTCATTAATCTAATGAAAGATGCAGTATA
1799778 TAT-TTCGATAATGTGCATGTGATCTTTAAGTCAAGATTTTGCTGTGGAAATAGTTTTATGTTTT
127 TATATTCGATAATGTGCATGTGATCTTTAAGTCAAGATTTTGCTGTGGAAATAGTTTTATG-TTT
1799842 ATGTAT
191 ATGTAT
1799848 TA
1 TA
1799850 TTTGTTCAAG
Statistics
Matches: 195, Mismatches: 0, Indels: 8
0.96 0.00 0.04
Matches are distributed among these distances:
196 10 0.05
197 58 0.30
198 88 0.45
199 39 0.20
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.47
Consensus pattern (196 bp):
TACTAGTGTTTTTATTTAAAATTTCCTATTGTTACCTTAATTATTATGGTTTTACGTTTAGCCAT
TCAAATTTGGCCCTAATATTTTTATATTTTATTTCATTAATCTAATGAAAGATGCAGTATATATA
TTCGATAATGTGCATGTGATCTTTAAGTCAAGATTTTGCTGTGGAAATAGTTTTATGTTTATGTA
T
Found at i:1800119 original size:21 final size:21
Alignment explanation
Indices: 1800090--1800142 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
1800080 ATTCTTACTA
1800090 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * *
1800111 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
*
1800132 TCGCAATGCGA
1 TCGCATTGCGA
1800143 ATACGTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:1800157 original size:20 final size:20
Alignment explanation
Indices: 1800132--1800220 Score: 133
Period size: 20 Copynumber: 4.4 Consensus size: 20
1800122 TTTTCCTAAT
*
1800132 TCGCAATGCGAATACGTAAA
1 TCGCAACGCGAATACGTAAA
**
1800152 TCGCAACGCGAATTTGGTAAA
1 TCGCAACGCGAA-TACGTAAA
1800173 TCGCAACGCGAATACGTAAA
1 TCGCAACGCGAATACGTAAA
*
1800193 TCGCAACGCGATTACGTAAA
1 TCGCAACGCGAATACGTAAA
1800213 TCGCAACG
1 TCGCAACG
1800221 AGATTCTGAC
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
20 44 0.71
21 18 0.29
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.19
Consensus pattern (20 bp):
TCGCAACGCGAATACGTAAA
Found at i:1800178 original size:41 final size:40
Alignment explanation
Indices: 1800132--1800220 Score: 142
Period size: 41 Copynumber: 2.2 Consensus size: 40
1800122 TTTTCCTAAT
* **
1800132 TCGCAATGCGAATACGTAAATCGCAACGCGAATTTGGTAAA
1 TCGCAACGCGAATACGTAAATCGCAACGCG-ATTACGTAAA
1800173 TCGCAACGCGAATACGTAAATCGCAACGCGATTACGTAAA
1 TCGCAACGCGAATACGTAAATCGCAACGCGATTACGTAAA
1800213 TCGCAACG
1 TCGCAACG
1800221 AGATTCTGAC
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
40 16 0.36
41 29 0.64
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.19
Consensus pattern (40 bp):
TCGCAACGCGAATACGTAAATCGCAACGCGATTACGTAAA
Found at i:1800251 original size:19 final size:20
Alignment explanation
Indices: 1800212--1800257 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
1800202 GATTACGTAA
1800212 ATCGCAACGAGATTCTGACT
1 ATCGCAACGAGATTCTGACT
1800232 ATCGCAACGAGATT-TGACT
1 ATCGCAACGAGATTCTGACT
1800251 ATCGCAA
1 ATCGCAA
1800258 TACTGAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.24
Consensus pattern (20 bp):
ATCGCAACGAGATTCTGACT
Found at i:1801147 original size:24 final size:24
Alignment explanation
Indices: 1801089--1801135 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
1801079 AGTTAGTATT
*
1801089 CGAAATTTGATCTTGGTCAATACC
1 CGAACTTTGATCTTGGTCAATACC
1801113 CGAACTTTGATCTTGGTCAATAC
1 CGAACTTTGATCTTGGTCAATAC
1801136 TCGGATTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (24 bp):
CGAACTTTGATCTTGGTCAATACC
Found at i:1802314 original size:4 final size:4
Alignment explanation
Indices: 1802299--1802328 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
1802289 ACAAATAGAC
*
1802299 TAAA TCAA TAAA TAAA TAAA TAAA TAAA TA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TA
1802329 GTAAAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (4 bp):
TAAA
Found at i:1802659 original size:16 final size:16
Alignment explanation
Indices: 1802639--1802697 Score: 55
Period size: 16 Copynumber: 3.5 Consensus size: 16
1802629 TTATTTTAAT
1802639 TATTTATTATTTATTA
1 TATTTATTATTTATTA
* * *
1802655 TATTTAATAATTAATA
1 TATTTATTATTTATTA
*
1802671 TTAATTATTATTATTATTA
1 -TATTTATTA-T-TTATTA
1802690 TATTTATT
1 TATTTATT
1802698 TTATTTCTAC
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
16 13 0.41
17 7 0.22
18 7 0.22
19 5 0.16
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TATTTATTATTTATTA
Found at i:1805643 original size:38 final size:38
Alignment explanation
Indices: 1805592--1805670 Score: 158
Period size: 38 Copynumber: 2.1 Consensus size: 38
1805582 CATACCAGTA
1805592 ATTGGCAAAATCAACGAGATAATGCATTCAAAATAAAT
1 ATTGGCAAAATCAACGAGATAATGCATTCAAAATAAAT
1805630 ATTGGCAAAATCAACGAGATAATGCATTCAAAATAAAT
1 ATTGGCAAAATCAACGAGATAATGCATTCAAAATAAAT
1805668 ATT
1 ATT
1805671 TCGTGAGATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.49, C:0.13, G:0.13, T:0.25
Consensus pattern (38 bp):
ATTGGCAAAATCAACGAGATAATGCATTCAAAATAAAT
Found at i:1805824 original size:28 final size:29
Alignment explanation
Indices: 1805771--1805846 Score: 95
Period size: 28 Copynumber: 2.7 Consensus size: 29
1805761 GGTGAGCTGG
* *
1805771 TGTAGGTCGCCATGCACTC-CCAGCGACC
1 TGTAGGTCGCCATGCACGCTCCAGCGACA
1805799 TGTAGGTCGCCATGCACGCTCC-GCGACA
1 TGTAGGTCGCCATGCACGCTCCAGCGACA
*
1805827 TGCTA-GTCGCAATGCACGCT
1 TG-TAGGTCGCCATGCACGCT
1805847 TGGTGACCAA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
28 39 0.91
29 4 0.09
ACGTcount: A:0.18, C:0.36, G:0.26, T:0.20
Consensus pattern (29 bp):
TGTAGGTCGCCATGCACGCTCCAGCGACA
Found at i:1806213 original size:17 final size:18
Alignment explanation
Indices: 1806191--1806224 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1806181 GAGGTAATTT
1806191 TTTATTA-TTTAAATTAG
1 TTTATTATTTTAAATTAG
1806208 TTTATTATTTTAAATTA
1 TTTATTATTTTAAATTA
1806225 TTAGTTTGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (18 bp):
TTTATTATTTTAAATTAG
Found at i:1809003 original size:11 final size:11
Alignment explanation
Indices: 1808989--1809132 Score: 69
Period size: 11 Copynumber: 12.2 Consensus size: 11
1808979 TATATTTAAA
*
1808989 TATTTAATCAT
1 TATTAAATCAT
*
1809000 TATTAAATTAT
1 TATTAAATCAT
1809011 TATTAGTAATCAT
1 TATTA--AATCAT
*
1809024 TAATAAATCAT
1 TATTAAATCAT
1809035 TAGTATCAAATCAT
1 TA-T-T-AAATCAT
*
1809049 TATTATAATTTTAT
1 TATTA-AA--TCAT
*
1809063 TATTACTAATAAT
1 TATTA--AATCAT
*
1809076 TACTAAAT-AT
1 TATTAAATCAT
* *
1809086 TA--AATATTAA
1 TATTAA-ATCAT
*
1809096 TAATAAATCAT
1 TATTAAATCAT
1809107 TATTAGTAATCAT
1 TATTA--AATCAT
1809120 TATTAAATCAT
1 TATTAAATCAT
1809131 TA
1 TA
1809133 AATATAAAAT
Statistics
Matches: 106, Mismatches: 12, Indels: 30
0.72 0.08 0.20
Matches are distributed among these distances:
8 2 0.02
9 2 0.02
10 7 0.07
11 41 0.39
12 5 0.05
13 29 0.27
14 17 0.16
15 3 0.03
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.46
Consensus pattern (11 bp):
TATTAAATCAT
Found at i:1809020 original size:24 final size:24
Alignment explanation
Indices: 1808993--1809132 Score: 103
Period size: 24 Copynumber: 5.8 Consensus size: 24
1808983 TTTAAATATT
*
1808993 TAATCATTATTAAATTATTATTAG
1 TAATCATTATTAAATCATTATTAG
* *
1809017 TAATCATTAATAAATCATTAGTA-
1 TAATCATTATTAAATCATTATTAG
* *
1809040 TCAAATCATTATTATAATTTTATTATTAC
1 T--AATCATTATTA-AA--TCATTATTAG
* * * *
1809069 TAATAATTACTAAAT-ATTAAATAT
1 TAATCATTATTAAATCATT-ATTAG
1809093 TAAT-A--A-TAAATCATTATTAG
1 TAATCATTATTAAATCATTATTAG
1809113 TAATCATTATTAAATCATTA
1 TAATCATTATTAAATCATTA
1809133 AATATAAAAT
Statistics
Matches: 92, Mismatches: 12, Indels: 24
0.72 0.09 0.19
Matches are distributed among these distances:
20 12 0.13
21 5 0.05
23 6 0.07
24 38 0.41
25 10 0.11
26 4 0.04
27 9 0.10
28 7 0.08
29 1 0.01
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.45
Consensus pattern (24 bp):
TAATCATTATTAAATCATTATTAG
Found at i:1809102 original size:13 final size:14
Alignment explanation
Indices: 1809081--1809175 Score: 53
Period size: 15 Copynumber: 7.1 Consensus size: 14
1809071 ATAATTACTA
*
1809081 AATATTAAAT-ATT
1 AATAATAAATCATT
1809094 AATAATAAATCATT
1 AATAATAAATCATT
* *
1809108 ATTAGT-AATCATT
1 AATAATAAATCATT
1809121 -AT--TAAATCATT
1 AATAATAAATCATT
1809132 AA-ATATAAAATCATT
1 AATA-AT-AAATCATT
1809147 AA-ATATAAAATCATT
1 AATA-AT-AAATCATT
* *
1809162 ATTAA-AAATTATT
1 AATAATAAATCATT
1809175 A
1 A
1809176 TCAAATCATA
Statistics
Matches: 68, Mismatches: 6, Indels: 16
0.76 0.07 0.18
Matches are distributed among these distances:
10 1 0.01
11 7 0.10
12 2 0.03
13 24 0.35
14 8 0.12
15 25 0.37
16 1 0.01
ACGTcount: A:0.54, C:0.05, G:0.01, T:0.40
Consensus pattern (14 bp):
AATAATAAATCATT
Found at i:1809134 original size:8 final size:8
Alignment explanation
Indices: 1809121--1809162 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
1809111 AGTAATCATT
1809121 ATTAAATC
1 ATTAAATC
1809129 ATTAAAT-
1 ATTAAATC
*
1809136 ATAAAATC
1 ATTAAATC
1809144 ATTAAAT-
1 ATTAAATC
*
1809151 ATAAAATC
1 ATTAAATC
1809159 ATTA
1 ATTA
1809163 TTAAAAATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
7 12 0.43
8 16 0.57
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (8 bp):
ATTAAATC
Found at i:1809144 original size:15 final size:15
Alignment explanation
Indices: 1809124--1809162 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
1809114 AATCATTATT
1809124 AAATCATTAAATATA
1 AAATCATTAAATATA
1809139 AAATCATTAAATATA
1 AAATCATTAAATATA
1809154 AAATCATTA
1 AAATCATTA
1809163 TTAAAAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (15 bp):
AAATCATTAAATATA
Found at i:1809165 original size:54 final size:52
Alignment explanation
Indices: 1809079--1809184 Score: 133
Period size: 54 Copynumber: 2.0 Consensus size: 52
1809069 TAATAATTAC
* ** *
1809079 TAAATATTAAATATTAATAATAAATCATTATTAGTAATCATTATTAAATCAT
1 TAAATATAAAATATTAATAATAAATCATTATTAAAAATCATTATCAAATCAT
*
1809131 TAAATATAAAATCATTAA-ATATAAAATCATTATTAAAAATTATTATCAAATCAT
1 TAAATATAAAAT-ATTAATA-AT-AAATCATTATTAAAAATCATTATCAAATCAT
1809185 AAGACTAGTA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
52 12 0.26
53 7 0.15
54 27 0.59
ACGTcount: A:0.53, C:0.07, G:0.01, T:0.40
Consensus pattern (52 bp):
TAAATATAAAATATTAATAATAAATCATTATTAAAAATCATTATCAAATCAT
Found at i:1809182 original size:24 final size:24
Alignment explanation
Indices: 1809083--1809184 Score: 64
Period size: 24 Copynumber: 4.0 Consensus size: 24
1809073 AATTACTAAA
* *
1809083 TATTAAATATTAATAATAAATCAT
1 TATTAAAAATTAATTATAAATCAT
** *
1809107 TATTAGTAA-TCATTATTAAATCAT
1 TATTAAAAATTAATTA-TAAATCAT
*
1809131 TAAATATAAAATCATTAAATATAAAATCAT
1 T--AT-TAAAA--ATTAATTAT-AAATCAT
1809161 TATTAAAAATT-ATTATCAAATCAT
1 TATTAAAAATTAATTAT-AAATCAT
1809185 AAGACTAGTA
Statistics
Matches: 59, Mismatches: 11, Indels: 16
0.69 0.13 0.19
Matches are distributed among these distances:
23 4 0.07
24 26 0.44
25 3 0.05
26 2 0.03
27 8 0.14
28 2 0.03
29 2 0.03
30 12 0.20
ACGTcount: A:0.52, C:0.07, G:0.01, T:0.40
Consensus pattern (24 bp):
TATTAAAAATTAATTATAAATCAT
Found at i:1809312 original size:17 final size:15
Alignment explanation
Indices: 1809290--1809329 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 15
1809280 GTTGCATATG
1809290 TTAAATATTATTAAAAA
1 TTAAATATTA-T-AAAA
*
1809307 TTAAATATTATAATA
1 TTAAATATTATAAAA
1809322 TTAAATAT
1 TTAAATAT
1809330 GCATGTATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 11 0.50
16 1 0.05
17 10 0.45
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TTAAATATTATAAAA
Found at i:1809385 original size:20 final size:20
Alignment explanation
Indices: 1809360--1809397 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1809350 CAAAAAGAAT
1809360 AATAAATTAGATTTAAATTG
1 AATAAATTAGATTTAAATTG
**
1809380 AATAAATTCTATTTAAAT
1 AATAAATTAGATTTAAAT
1809398 ATTTAAACAT
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:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (20 bp):
AATAAATTAGATTTAAATTG
Found at i:1809444 original size:14 final size:14
Alignment explanation
Indices: 1809425--1809499 Score: 52
Period size: 14 Copynumber: 5.6 Consensus size: 14
1809415 AATCATTAAT
1809425 AAATCATTAGTATC
1 AAATCATTAGTATC
*
1809439 AAATCATTATTAT-
1 AAATCATTAGTATC
* * *
1809452 AATTTTATTATTA-C
1 AA-ATCATTAGTATC
* *
1809466 TAATCATTA--CT-
1 AAATCATTAGTATC
1809477 AAATCATTAGTATC
1 AAATCATTAGTATC
1809491 AAATCATTA
1 AAATCATTA
1809500 AATATTAATA
Statistics
Matches: 46, Mismatches: 9, Indels: 12
0.69 0.13 0.18
Matches are distributed among these distances:
11 8 0.17
13 8 0.17
14 30 0.65
ACGTcount: A:0.43, C:0.12, G:0.03, T:0.43
Consensus pattern (14 bp):
AAATCATTAGTATC
Found at i:1809915 original size:16 final size:17
Alignment explanation
Indices: 1809893--1809934 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
1809883 TTCGACTATT
*
1809893 TATAAATAATAATAAGA
1 TATAAATAATAATAAAA
1809910 TA-AAATAA-AATAAAA
1 TATAAATAATAATAAAA
1809925 TATAAATAAT
1 TATAAATAAT
1809935 TAAATTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 8 0.36
16 12 0.55
17 2 0.09
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (17 bp):
TATAAATAATAATAAAA
Found at i:1812101 original size:26 final size:25
Alignment explanation
Indices: 1812079--1812129 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 25
1812069 ATTTGATATT
*
1812079 TAATGATTTAGTAATAATATGATTTA
1 TAATGA-TTACTAATAATATGATTTA
1812105 GTAATGATTACTAATAAT-T-ATTTA
1 -TAATGATTACTAATAATATGATTTA
1812129 T
1 T
1812130 TATAAATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 1 0.04
24 5 0.22
25 1 0.04
26 10 0.43
27 6 0.26
ACGTcount: A:0.41, C:0.02, G:0.10, T:0.47
Consensus pattern (25 bp):
TAATGATTACTAATAATATGATTTA
Found at i:1812368 original size:15 final size:16
Alignment explanation
Indices: 1812321--1812377 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 16
1812311 AATATAAATA
1812321 AAACAAAATATTTTTTT
1 AAACAAAATA-TTTTTT
1812338 AAACAACAATAAATATTTTT
1 AAACAA-AAT--AT-TTTTT
1812358 AAACAAAATATTTTTT
1 AAACAAAATATTTTTT
1812374 AAAC
1 AAAC
1812378 GGAAATAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
16 9 0.25
17 8 0.22
18 3 0.08
19 4 0.11
20 12 0.33
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.39
Consensus pattern (16 bp):
AAACAAAATATTTTTT
Found at i:1812428 original size:4 final size:4
Alignment explanation
Indices: 1812419--1812453 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
1812409 ATCTAATATA
* *
1812419 AACT AACT AATT AACT AACT AACT AACT AATT AAC
1 AACT AACT AACT AACT AACT AACT AACT AACT AAC
1812454 ACACACAACA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.51, C:0.20, G:0.00, T:0.29
Consensus pattern (4 bp):
AACT
Found at i:1812838 original size:45 final size:50
Alignment explanation
Indices: 1812779--1812896 Score: 129
Period size: 45 Copynumber: 2.4 Consensus size: 50
1812769 GTTTAAACAC
*
1812779 ACTAACAAATTAATTAAATAAGTTTTT-T-T-ACAT-ATA-ACAACTTAA
1 ACTAACAAACTAATTAAATAAGTTTTTATATAACATAATATACAACTTAA
* * * * *
1812824 ACTAAGAAACTAATTAACTAATTTTTTATATAATATAATATATAACTTAA
1 ACTAACAAACTAATTAAATAAGTTTTTATATAACATAATATACAACTTAA
1812874 ACTAACAAACTAATATAACATAA
1 ACTAACAAACTAAT-TAA-ATAA
1812897 CTTAAACTAA
Statistics
Matches: 58, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
45 23 0.40
46 1 0.02
47 1 0.02
48 3 0.05
49 3 0.05
50 21 0.36
51 3 0.05
52 3 0.05
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.36
Consensus pattern (50 bp):
ACTAACAAACTAATTAAATAAGTTTTTATATAACATAATATACAACTTAA
Found at i:1813350 original size:29 final size:29
Alignment explanation
Indices: 1813293--1813350 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
1813283 CTTGGTCGCT
* *
1813293 GGGCGTGCATGGCGACCTAACATGTCGTG
1 GGGCGTGCATGGCGACCTAACACGACGTG
* * *
1813322 GGGCGTGCATGGTGACCTACCCCGACGTG
1 GGGCGTGCATGGCGACCTAACACGACGTG
1813351 CATAGCGCAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.16, C:0.28, G:0.38, T:0.19
Consensus pattern (29 bp):
GGGCGTGCATGGCGACCTAACACGACGTG
Found at i:1817955 original size:7 final size:7
Alignment explanation
Indices: 1817943--1818003 Score: 95
Period size: 7 Copynumber: 8.4 Consensus size: 7
1817933 TTTAGGTTTA
1817943 TTTTATT
1 TTTTATT
1817950 TTTTATT
1 TTTTATT
1817957 TTTTATT
1 TTTTATT
1817964 TTTTATT
1 TTTTATT
*
1817971 TTTTTTT
1 TTTTATT
1817978 TTTTATT
1 TTTTATT
1817985 TATTTATT
1 T-TTTATT
1817993 GTTTTATT
1 -TTTTATT
1818001 TTT
1 TTT
1818004 CATAGTTTAA
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
7 37 0.74
8 12 0.24
9 1 0.02
ACGTcount: A:0.13, C:0.00, G:0.02, T:0.85
Consensus pattern (7 bp):
TTTTATT
Found at i:1826685 original size:26 final size:26
Alignment explanation
Indices: 1826649--1826699 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
1826639 AGCATCACGG
1826649 GGTCGGTAATCGTCGAACCGGAAATC
1 GGTCGGTAATCGTCGAACCGGAAATC
*
1826675 GGTCGGTAATCGTTGAACCGGAAAT
1 GGTCGGTAATCGTCGAACCGGAAAT
1826700 GGGTTATACT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (26 bp):
GGTCGGTAATCGTCGAACCGGAAATC
Found at i:1835134 original size:54 final size:54
Alignment explanation
Indices: 1835046--1835165 Score: 195
Period size: 54 Copynumber: 2.2 Consensus size: 54
1835036 TGAGCAATAT
* * *
1835046 CATTCGAATACTCAAATAGAGAGTCCTAATAGTAATCTTTATGGTAGTAATGGC
1 CATTCGAATACTCAAATAGAGAGTCCCAACAGTAATATTTATGGTAGTAATGGC
* *
1835100 CATTCGAATACTCAAATGGAGAGTCCCAACAGTAATATTTCTGGTAGTAATGGC
1 CATTCGAATACTCAAATAGAGAGTCCCAACAGTAATATTTATGGTAGTAATGGC
1835154 CATTCGAATACT
1 CATTCGAATACT
1835166 AGTGTTGGCA
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 61 1.00
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.30
Consensus pattern (54 bp):
CATTCGAATACTCAAATAGAGAGTCCCAACAGTAATATTTATGGTAGTAATGGC
Found at i:1837660 original size:21 final size:20
Alignment explanation
Indices: 1837634--1837693 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
1837624 GAAAAGATTA
1837634 TCAAAATAATACTAAAAGTAG
1 TCAAAATAATA-TAAAAGTAG
* *
1837655 TCAAAATAACAATAAATA-TTG
1 TCAAAATAA-TATAAA-AGTAG
*
1837676 TCAAAACAATATAAAAGT
1 TCAAAATAATATAAAAGT
1837694 CATCAAAGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
19 1 0.03
20 6 0.19
21 23 0.72
22 2 0.06
ACGTcount: A:0.58, C:0.10, G:0.07, T:0.25
Consensus pattern (20 bp):
TCAAAATAATATAAAAGTAG
Found at i:1854699 original size:8 final size:9
Alignment explanation
Indices: 1854686--1854773 Score: 53
Period size: 9 Copynumber: 10.1 Consensus size: 9
1854676 TTTTAATTAC
1854686 TATATTTA-
1 TATATTTAT
1854694 TATA-TTAT
1 TATATTTAT
1854702 TATATTT-T
1 TATATTTAT
*
1854710 AATTATTTAT
1 TA-TATTTAT
1854720 TATATTTA-
1 TATATTTAT
*
1854728 -ATAATTAT
1 TATATTTAT
* *
1854736 TATGAATAAT
1 TAT-ATTTAT
* *
1854746 AATAATTAT
1 TATATTTAT
1854755 TATATTTAT
1 TATATTTAT
1854764 T-TATTATAT
1 TATATT-TAT
1854773 T
1 T
1854774 CATTTAATTT
Statistics
Matches: 64, Mismatches: 8, Indels: 15
0.74 0.09 0.17
Matches are distributed among these distances:
7 9 0.14
8 14 0.22
9 32 0.50
10 9 0.14
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (9 bp):
TATATTTAT
Found at i:1854705 original size:16 final size:16
Alignment explanation
Indices: 1854681--1854770 Score: 67
Period size: 16 Copynumber: 5.3 Consensus size: 16
1854671 ATCTATTTTA
*
1854681 ATTACTATATTTATAT
1 ATTATTATATTTATAT
1854697 ATTATTATATTT-TAATT
1 ATTATTATATTTAT-A-T
1854714 ATTTATTATATTTA-AT
1 A-TTATTATATTTATAT
* *
1854730 AATTATTATGAATAATAAT
1 -ATTATTAT-ATTTAT-AT
*
1854749 AATTATTATATTTATTT
1 -ATTATTATATTTATAT
1854766 ATTAT
1 ATTAT
1854771 ATTCATTTAA
Statistics
Matches: 60, Mismatches: 6, Indels: 16
0.73 0.07 0.20
Matches are distributed among these distances:
15 1 0.02
16 25 0.42
17 8 0.13
18 15 0.25
19 11 0.18
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (16 bp):
ATTATTATATTTATAT
Done.