Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008428.1 Hibiscus syriacus cultivar Beakdansim tig00111213_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: 6915314
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 30
Found at i:1640894 original size:19 final size:19
Alignment explanation
Indices: 1640870--1640906 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1640860 TGTGATACTG
*
1640870 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCGATTTA
1640889 GAGATCGCATTGCGATTT
1 GAGATCGCATTGCGATTT
1640907 TGTTGGTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:1641032 original size:22 final size:21
Alignment explanation
Indices: 1641004--1641045 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
1640994 TTTTAATATC
1641004 ATATTATT-TATTTAATATTTAA
1 ATATTATTAT-TTTAAT-TTTAA
1641026 ATATTATTATTTTAATTTTA
1 ATATTATTATTTTAATTTTA
1641046 GAATTCAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.21
22 14 0.74
23 1 0.05
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
ATATTATTATTTTAATTTTAA
Found at i:1641073 original size:14 final size:15
Alignment explanation
Indices: 1641039--1641075 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
1641029 TTATTATTTT
1641039 AATTTTAGAATTCAA
1 AATTTTAGAATTCAA
*
1641054 AA-TTTAGAGTT-AA
1 AATTTTAGAATTCAA
1641067 AATTTTAGA
1 AATTTTAGA
1641076 TTTTAAAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 4 0.20
14 14 0.70
15 2 0.10
ACGTcount: A:0.46, C:0.03, G:0.11, T:0.41
Consensus pattern (15 bp):
AATTTTAGAATTCAA
Found at i:1644071 original size:2 final size:2
Alignment explanation
Indices: 1644064--1644088 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1644054 TTACTTACAT
1644064 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1644089 GCATTACACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1645908 original size:30 final size:30
Alignment explanation
Indices: 1645874--1645933 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
1645864 AACTAGTCCT
1645874 TGTGTGAGTTAAGGACGTTTTCAACAACTA
1 TGTGTGAGTTAAGGACGTTTTCAACAACTA
*
1645904 TGTGTGAGTTAAGGACGTTTTCAAGAACTA
1 TGTGTGAGTTAAGGACGTTTTCAACAACTA
1645934 AGAAACAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (30 bp):
TGTGTGAGTTAAGGACGTTTTCAACAACTA
Found at i:1651332 original size:29 final size:30
Alignment explanation
Indices: 1651289--1651347 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
1651279 TTTTGAATAG
* *
1651289 TTACTAAAATGTAAGTTTTG-AAAGTTTAA
1 TTACTAAAATATAAGCTTTGAAAAGTTTAA
*
1651318 TTACTAAAGTATAAGCTTTGAAAAGTTTAA
1 TTACTAAAATATAAGCTTTGAAAAGTTTAA
1651348 GGACCAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 17 0.65
30 9 0.35
ACGTcount: A:0.42, C:0.05, G:0.14, T:0.39
Consensus pattern (30 bp):
TTACTAAAATATAAGCTTTGAAAAGTTTAA
Found at i:1653092 original size:189 final size:190
Alignment explanation
Indices: 1652772--1653151 Score: 753
Period size: 189 Copynumber: 2.0 Consensus size: 190
1652762 CAGCAACCAA
1652772 ATCCATCAAACAGTGACCAGACAAAAAATCAGTTAGAAAATCTCATCAAATCCAAGAACCTATTA
1 ATCCATCAAACAGTGACCAGACAAAAAATCAGTTAGAAAATCTCATCAAATCCAAGAACCTATTA
1652837 AAATTTTCAAAACCTAAACATAGGGAAATCATTCCCTATGAAGAACCCACTATTATCATCATAAA
66 AAATTTTCAAAACCTAAACATAGGGAAATCATTCCCTATGAAGAACCCACTATTATCATCATAAA
1652902 GCAGCCAT-AAATCCACATGCAAGATATTTTTTCAAGGCAGAGAGAGTTTTCGGTGGGGG
131 GCAGCCATAAAATCCACATGCAAGATATTTTTTCAAGGCAGAGAGAGTTTTCGGTGGGGG
1652961 ATCCATCAAACAGTGACCAGACAAAAAATCAGTTAGAAAATCTCATCAAATCCAAGAACCTATTA
1 ATCCATCAAACAGTGACCAGACAAAAAATCAGTTAGAAAATCTCATCAAATCCAAGAACCTATTA
1653026 AAATTTTCAAAACCTAAACATAGGGAAATCATTCCCTATGAAGAACCCACTATTATCATCATAAA
66 AAATTTTCAAAACCTAAACATAGGGAAATCATTCCCTATGAAGAACCCACTATTATCATCATAAA
1653091 GCAGCCATAAAATCCACATGCAAGATATTTTTTCAAGGCAGAGAGAGTTTTCGGTGGGGG
131 GCAGCCATAAAATCCACATGCAAGATATTTTTTCAAGGCAGAGAGAGTTTTCGGTGGGGG
1653151 A
1 A
1653152 GGAGGAAAAA
Statistics
Matches: 190, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
189 138 0.73
190 52 0.27
ACGTcount: A:0.41, C:0.21, G:0.15, T:0.24
Consensus pattern (190 bp):
ATCCATCAAACAGTGACCAGACAAAAAATCAGTTAGAAAATCTCATCAAATCCAAGAACCTATTA
AAATTTTCAAAACCTAAACATAGGGAAATCATTCCCTATGAAGAACCCACTATTATCATCATAAA
GCAGCCATAAAATCCACATGCAAGATATTTTTTCAAGGCAGAGAGAGTTTTCGGTGGGGG
Found at i:1659063 original size:16 final size:16
Alignment explanation
Indices: 1659039--1659069 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1659029 CTATTTCTAT
*
1659039 TTCTTCGATTCTCTTC
1 TTCTCCGATTCTCTTC
1659055 TTCTCCGATTCTCTT
1 TTCTCCGATTCTCTT
1659070 GGGTCATAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.06, C:0.32, G:0.06, T:0.55
Consensus pattern (16 bp):
TTCTCCGATTCTCTTC
Found at i:1661836 original size:23 final size:23
Alignment explanation
Indices: 1661806--1661851 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
1661796 AGCAGGTTTT
1661806 AGGTCATCCAAGGTAGGAGCTAA
1 AGGTCATCCAAGGTAGGAGCTAA
1661829 AGGTCATCCAAGGTAGGAGCTAA
1 AGGTCATCCAAGGTAGGAGCTAA
1661852 GTAATCTCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.17, G:0.30, T:0.17
Consensus pattern (23 bp):
AGGTCATCCAAGGTAGGAGCTAA
Found at i:1662919 original size:23 final size:23
Alignment explanation
Indices: 1662893--1662942 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
1662883 AATACCCAAG
*
1662893 ATAAA-TATAAATCTACCATTAAA
1 ATAAAGTATAAA-CAACCATTAAA
*
1662916 ATAAAGTTTAAACAACCATTAAA
1 ATAAAGTATAAACAACCATTAAA
1662939 ATAA
1 ATAA
1662943 CCCCACCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 19 0.79
24 5 0.21
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.28
Consensus pattern (23 bp):
ATAAAGTATAAACAACCATTAAA
Found at i:1668446 original size:23 final size:23
Alignment explanation
Indices: 1668420--1668466 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
1668410 AATACCCAAG
*
1668420 ATAAA-TATAAATCTACCATTAAA
1 ATAAAGTATAAA-CAACCATTAAA
*
1668443 ATAAAGTTTAAACAACCATTAAA
1 ATAAAGTATAAACAACCATTAAA
1668466 A
1 A
1668467 CAACCCCACC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.57, C:0.13, G:0.02, T:0.28
Consensus pattern (23 bp):
ATAAAGTATAAACAACCATTAAA
Found at i:1668674 original size:26 final size:25
Alignment explanation
Indices: 1668639--1668687 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
1668629 TACCACGAAC
*
1668639 CGCCTTAGCTTGCTAGCTCCTCTCGGA
1 CGCCTTAGCTCGCTA-CTCC-CTCGGA
1668666 CGCC-TAGCTCGCTACTCCCTCG
1 CGCCTTAGCTCGCTACTCCCTCG
1668688 AGCTTCACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 4 0.19
25 4 0.19
26 9 0.43
27 4 0.19
ACGTcount: A:0.10, C:0.43, G:0.20, T:0.27
Consensus pattern (25 bp):
CGCCTTAGCTCGCTACTCCCTCGGA
Found at i:1670769 original size:23 final size:25
Alignment explanation
Indices: 1670729--1670780 Score: 63
Period size: 23 Copynumber: 2.1 Consensus size: 25
1670719 TTCGTCCTAA
**
1670729 AAAGAAATAATATTAAAATTAAAAAT
1 AAAGAAATAATA-TAAAAAGAAAAAT
1670755 AAAGAAATAA-A-AAAAAGAAAAAT
1 AAAGAAATAATATAAAAAGAAAAAT
1670778 AAA
1 AAA
1670781 CACACAAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 13 0.54
25 1 0.04
26 10 0.42
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (25 bp):
AAAGAAATAATATAAAAAGAAAAAT
Found at i:1676012 original size:15 final size:17
Alignment explanation
Indices: 1675974--1676013 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
1675964 AAACGCAGAC
1675974 AATT-TTTTGTCTTAAA
1 AATTATTTTGTCTTAAA
*
1675990 AATGATTTT-TCTT-AA
1 AATTATTTTGTCTTAAA
1676005 AATTATTTT
1 AATTATTTT
1676014 AAAATACGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 10 0.48
16 7 0.33
17 4 0.19
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (17 bp):
AATTATTTTGTCTTAAA
Found at i:1684339 original size:26 final size:27
Alignment explanation
Indices: 1684310--1684363 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 27
1684300 ATGATCAAAG
1684310 AGAAAATAAGAAAAG-AGAAGAAA-AAA
1 AGAAAA-AAGAAAAGAAGAAGAAAGAAA
*
1684336 AGAAAAAATAAAAGAAGAAGAAAGAAA
1 AGAAAAAAGAAAAGAAGAAGAAAGAAA
1684363 A
1 A
1684364 TGGATCAAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 7 0.28
26 14 0.56
27 4 0.16
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.04
Consensus pattern (27 bp):
AGAAAAAAGAAAAGAAGAAGAAAGAAA
Found at i:1684346 original size:28 final size:27
Alignment explanation
Indices: 1684306--1684363 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
1684296 AATAATGATC
*
1684306 AAAGAGAAAATAAGAAAAGAGAAGAAA-A
1 AAAGAAAAAATAA-AAAA-AGAAGAAAGA
*
1684334 AAAGAAAAAATAAAAGAAGAAGAAAGA
1 AAAGAAAAAATAAAAAAAGAAGAAAGA
1684361 AAA
1 AAA
1684364 TGGATCAAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 8 0.30
27 7 0.26
28 12 0.44
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (27 bp):
AAAGAAAAAATAAAAAAAGAAGAAAGA
Found at i:1686785 original size:44 final size:43
Alignment explanation
Indices: 1686720--1686847 Score: 141
Period size: 44 Copynumber: 3.0 Consensus size: 43
1686710 AGCTCGTAAT
* * *
1686720 TTGCACCGATGTGCCATATAATTATCTCAAATGACCACATAGGG
1 TTGCACCGA-GTGCCACATAATTATCCCAAATGACCACATAAGG
*
1686764 TTGCACCGTAGTGCCACATAATTGTCCCAAATGACCACATAAGG
1 TTGCACCG-AGTGCCACATAATTATCCCAAATGACCACATAAGG
* * * * * *
1686808 TTGTACCAAGTGCCACA-AATTGTCCTAAAGGACCGCATAA
1 TTGCACCGAGTGCCACATAATTATCCCAAATGACCACATAA
1686848 AACCCTTGAC
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
42 20 0.27
43 9 0.12
44 44 0.59
45 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (43 bp):
TTGCACCGAGTGCCACATAATTATCCCAAATGACCACATAAGG
Found at i:1686816 original size:23 final size:22
Alignment explanation
Indices: 1686747--1686824 Score: 61
Period size: 23 Copynumber: 3.5 Consensus size: 22
1686737 ATAATTATCT
* *
1686747 CAAATGACCACATAGGGTTGCAC
1 CAAATG-CCACATAAGGTTGTAC
* * *
1686770 CGTAGTGCCACATAA--TTGTCC
1 C-AAATGCCACATAAGGTTGTAC
1686791 CAAATGACCACATAAGGTTGTAC
1 CAAATG-CCACATAAGGTTGTAC
*
1686814 CAAGTGCCACA
1 CAAATGCCACA
1686825 AATTGTCCTA
Statistics
Matches: 42, Mismatches: 9, Indels: 9
0.70 0.15 0.15
Matches are distributed among these distances:
20 3 0.07
21 13 0.31
22 5 0.12
23 18 0.43
24 3 0.07
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.21
Consensus pattern (22 bp):
CAAATGCCACATAAGGTTGTAC
Found at i:1689147 original size:180 final size:178
Alignment explanation
Indices: 1688826--1689148 Score: 406
Period size: 180 Copynumber: 1.8 Consensus size: 178
1688816 TTGTTTGTAA
* *
1688826 TTATATATTTTAATTATAGTTACAAAATGTATAGTCACAAATGATTATATCCAATTTTTGGTACA
1 TTATATATTTTAATTATAGTGACAAAATATATAGTCACAAATGATTATATCCAATTTTTGGTACA
* ** * *
1688891 AACAAAATCATATAGTGACATGTTTTGTAACTATAAGCTATAATTATTGTTACAAAAAAATTGTC
66 AACAAAATCATATAGTAACAAATTTTGTAACTATAAGCTATAATAATTATTACAAAAAAATTGTC
1688956 ACAACAAATAATGTGATTCAAACTTTTAGTAAAAAACAATGTTTATCG
131 ACAACAAATAATGTGATTCAAACTTTTAGTAAAAAACAATGTTTATCG
* * *
1689004 TTATATGTTTTAATTATAGTGACAAAATATATTGTCACAAA-GATT-TCCCTCCATATTTTTTTG
1 TTATATATTTTAATTATAGTGACAAAATATATAGTCACAAATGATTAT--ATCCA-A--TTTTTG
* * *
1689067 CG-CCAAA-AAAGTCATATAGTAACAAATTTTGTAACTATAAG-TGTTAATAATTATTACAAAAG
61 -GTACAAACAAAATCATATAGTAACAAATTTTGTAACTATAAGCT-ATAATAATTATTACAAAA-
*
1689129 ACATTGTCACAA-AAATAATG
123 AAATTGTCACAACAAATAATG
1689149 ATATTCACGT
Statistics
Matches: 123, Mismatches: 14, Indels: 14
0.81 0.09 0.09
Matches are distributed among these distances:
176 1 0.01
177 4 0.03
178 41 0.33
179 2 0.02
180 53 0.43
181 21 0.17
182 1 0.01
ACGTcount: A:0.41, C:0.11, G:0.10, T:0.37
Consensus pattern (178 bp):
TTATATATTTTAATTATAGTGACAAAATATATAGTCACAAATGATTATATCCAATTTTTGGTACA
AACAAAATCATATAGTAACAAATTTTGTAACTATAAGCTATAATAATTATTACAAAAAAATTGTC
ACAACAAATAATGTGATTCAAACTTTTAGTAAAAAACAATGTTTATCG
Found at i:1689569 original size:137 final size:138
Alignment explanation
Indices: 1689322--1689576 Score: 379
Period size: 137 Copynumber: 1.9 Consensus size: 138
1689312 TCACATCAAA
*
1689322 TAATAAAATTCAAGTTTTTTGTAATAAATTATTTTTGTACTTATATGTTTTAATCATTATGAAAA
1 TAATAAAATTCAAGTTTTTTGTAATAAATTATTTTTGTACTTATATATTTTAATCATTATGAAAA
*
1689387 TTATACTACCAGAACCATTTCTCCCTATTTTTTAGTGTAAAAAATGTTATATAGTAACAAAATAT
66 TTATACTACCAGAAACATTTCTCCCTATTTTTTAGTGTAAAAAATGTTATATAGTAACAAAATAT
1689452 ATTGTAAT
131 ATTGTAAT
* * *
1689460 TAATAAAATTTAAG-TTTTTGTAATTAATTATTTTTGTAGTTATATATTTTAATCATTATGAAAA
1 TAATAAAATTCAAGTTTTTTGTAATAAATTATTTTTGTACTTATATATTTTAATCATTATGAAAA
*** * * * *
1689524 CTTATACTGTTAGAAATATTTCTTCCTATTTTTTGGTG-CAAAAATGTTATATA
66 -TTATACTACCAGAAACATTTCTCCCTATTTTTTAGTGTAAAAAATGTTATATA
1689577 TTGACAAGTT
Statistics
Matches: 104, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
137 61 0.59
138 43 0.41
ACGTcount: A:0.37, C:0.08, G:0.09, T:0.47
Consensus pattern (138 bp):
TAATAAAATTCAAGTTTTTTGTAATAAATTATTTTTGTACTTATATATTTTAATCATTATGAAAA
TTATACTACCAGAAACATTTCTCCCTATTTTTTAGTGTAAAAAATGTTATATAGTAACAAAATAT
ATTGTAAT
Found at i:1699650 original size:21 final size:21
Alignment explanation
Indices: 1699625--1699704 Score: 58
Period size: 21 Copynumber: 3.7 Consensus size: 21
1699615 TAATTTGCAC
1699625 CAAAGTGCCACATAATTATCT
1 CAAAGTGCCACATAATTATCT
* *
1699646 CAAAG-GACCACGTAGGGTTGCA-C-
1 CAAAGTG-CCACATA--ATT--ATCT
1699669 CAAAGTGCCACATAATTATCT
1 CAAAGTGCCACATAATTATCT
* *
1699690 CGAAGTACCACATAA
1 CAAAGTGCCACATAA
1699705 GGTTGCACCG
Statistics
Matches: 45, Mismatches: 6, Indels: 16
0.67 0.09 0.24
Matches are distributed among these distances:
19 1 0.02
20 2 0.04
21 26 0.58
23 13 0.29
24 2 0.04
25 1 0.02
ACGTcount: A:0.38, C:0.25, G:0.16, T:0.21
Consensus pattern (21 bp):
CAAAGTGCCACATAATTATCT
Found at i:1699671 original size:44 final size:44
Alignment explanation
Indices: 1699619--1699748 Score: 179
Period size: 44 Copynumber: 3.0 Consensus size: 44
1699609 AACTCGTAAT
* *
1699619 TTGCACCAAAGTGCCACATAATTATCTCAAAGGACCACGTAGGG
1 TTGCACCAAAGTGCCACATAATTATCTCAAAGGACCACATAAGG
* *
1699663 TTGCACCAAAGTGCCACATAATTATCTCGAAGTACCACATAAGG
1 TTGCACCAAAGTGCCACATAATTATCTCAAAGGACCACATAAGG
* * * * *
1699707 TTGCACCGAAGTGCCACATAATTGTCCCGAATGACCACATAA
1 TTGCACCAAAGTGCCACATAATTATCTCAAAGGACCACATAA
1699749 AACCCTCAAC
Statistics
Matches: 77, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 77 1.00
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.22
Consensus pattern (44 bp):
TTGCACCAAAGTGCCACATAATTATCTCAAAGGACCACATAAGG
Found at i:1699723 original size:23 final size:23
Alignment explanation
Indices: 1699661--1699727 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 23
1699651 GACCACGTAG
*
1699661 GGTTGCACCAAAGTGCCACATAA
1 GGTTGCACCGAAGTGCCACATAA
*
1699684 --TT--ATCTCGAAGTACCACATAA
1 GGTTGCA-C-CGAAGTGCCACATAA
1699705 GGTTGCACCGAAGTGCCACATAA
1 GGTTGCACCGAAGTGCCACATAA
1699728 TTGTCCCGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 12
0.70 0.06 0.24
Matches are distributed among these distances:
19 1 0.03
20 1 0.03
21 15 0.43
23 16 0.46
24 1 0.03
25 1 0.03
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.21
Consensus pattern (23 bp):
GGTTGCACCGAAGTGCCACATAA
Found at i:1699744 original size:21 final size:21
Alignment explanation
Indices: 1699676--1699748 Score: 62
Period size: 21 Copynumber: 3.4 Consensus size: 21
1699666 CACCAAAGTG
* *
1699676 CCACATAATTATCTCGAA-GTA
1 CCACATAATTGTCCCGAATG-A
1699697 CCACATAAGGTTG-CACCGAAGTG-
1 CCACATAA--TTGTC-CCGAA-TGA
1699720 CCACATAATTGTCCCGAATGA
1 CCACATAATTGTCCCGAATGA
1699741 CCACATAA
1 CCACATAA
1699749 AACCCTCAAC
Statistics
Matches: 43, Mismatches: 2, Indels: 14
0.73 0.03 0.24
Matches are distributed among these distances:
20 2 0.05
21 24 0.56
22 2 0.05
23 14 0.33
25 1 0.02
ACGTcount: A:0.36, C:0.27, G:0.15, T:0.22
Consensus pattern (21 bp):
CCACATAATTGTCCCGAATGA
Found at i:1700830 original size:37 final size:37
Alignment explanation
Indices: 1700789--1700913 Score: 169
Period size: 37 Copynumber: 3.4 Consensus size: 37
1700779 GTTGAGATTG
** * * *
1700789 TTTCTCTTGAAACAAAGTTTCATCTCGCTTAAAACAA
1 TTTCTCTTGAAACAAAGTTTTGTCTCTCTTGAGACAA
* *
1700826 TTTCTCTTGAAATAAAGTTTTGTCTCTCTTGAGACAG
1 TTTCTCTTGAAACAAAGTTTTGTCTCTCTTGAGACAA
* *
1700863 TTTTTCTTGAAAAAAAGTTTTGTCTCTCTTGAGACAA
1 TTTCTCTTGAAACAAAGTTTTGTCTCTCTTGAGACAA
1700900 TTTCTCTTGAAACA
1 TTTCTCTTGAAACA
1700914 TAAACAATTG
Statistics
Matches: 76, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 76 1.00
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.41
Consensus pattern (37 bp):
TTTCTCTTGAAACAAAGTTTTGTCTCTCTTGAGACAA
Found at i:1701375 original size:3 final size:3
Alignment explanation
Indices: 1701367--1701400 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
1701357 GATTTTTAAT
1701367 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1701401 TATATTTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:1719230 original size:44 final size:44
Alignment explanation
Indices: 1719176--1719286 Score: 145
Period size: 44 Copynumber: 2.5 Consensus size: 44
1719166 ATATCGTAAT
* * *
1719176 TTGCATCAAAGTGCCATATAATTA-TCCTG-ATTGACCACATAGGG
1 TTGCACCAAAGTGCCACATAATTATTCC-GAATT-ACCACATAAGG
*
1719220 TTGCACCAAAGTGACACATAATTATTCCGAATTACCACATAAGG
1 TTGCACCAAAGTGCCACATAATTATTCCGAATTACCACATAAGG
*
1719264 TTGCACCGAAGTGCCACATAATT
1 TTGCACCAAAGTGCCACATAATT
1719287 GTCTCGAAGG
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
44 53 0.90
45 6 0.10
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (44 bp):
TTGCACCAAAGTGCCACATAATTATTCCGAATTACCACATAAGG
Found at i:1719280 original size:23 final size:23
Alignment explanation
Indices: 1719210--1719284 Score: 64
Period size: 23 Copynumber: 3.3 Consensus size: 23
1719200 TCCTGATTGA
* *
1719210 CCACATAGGGTTGCACCAAAGTG
1 CCACATAAGGTTGCACCGAAGTG
* *** * *
1719233 ACACATAA--TTATTCCGAATTA
1 CCACATAAGGTTGCACCGAAGTG
1719254 CCACATAAGGTTGCACCGAAGTG
1 CCACATAAGGTTGCACCGAAGTG
1719277 CCACATAA
1 CCACATAA
1719285 TTGTCTCGAA
Statistics
Matches: 36, Mismatches: 14, Indels: 4
0.67 0.26 0.07
Matches are distributed among these distances:
21 14 0.39
23 22 0.61
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.21
Consensus pattern (23 bp):
CCACATAAGGTTGCACCGAAGTG
Found at i:1719301 original size:44 final size:44
Alignment explanation
Indices: 1719176--1719301 Score: 121
Period size: 44 Copynumber: 2.9 Consensus size: 44
1719166 ATATCGTAAT
* * * ** *
1719176 TTGCATCAAAGTGCCATATAATTA-TCCTGATTGACCACATAGGG
1 TTGCACCAAAGTGACACATAATTATTCC-GAAGGACCACATAAGG
**
1719220 TTGCACCAAAGTGACACATAATTATTCCGAATTACCACATAAGG
1 TTGCACCAAAGTGACACATAATTATTCCGAAGGACCACATAAGG
* * *
1719264 TTGCACCGAAGTGCCACATAATT-GTCTCGAAGGACCAC
1 TTGCACCAAAGTGACACATAATTATTC-CGAAGGACCAC
1719302 GTAAAATCCT
Statistics
Matches: 69, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
43 2 0.03
44 64 0.93
45 3 0.04
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.25
Consensus pattern (44 bp):
TTGCACCAAAGTGACACATAATTATTCCGAAGGACCACATAAGG
Found at i:1721641 original size:37 final size:37
Alignment explanation
Indices: 1721598--1721725 Score: 134
Period size: 37 Copynumber: 3.5 Consensus size: 37
1721588 TATTTCTTTT
*
1721598 AAAACAAAGTTTTGTCTCGCTAGAGACAATTTTTCTT-
1 AAAACAAA-TTTTGTCTCGCTTGAGACAATTTTTCTTA
* * ** * **
1721635 GAAACAAAATTAATCTCACTTGAGA-TTTTATTTCTTA
1 AAAACAAATTTTGTCTCGCTTGAGACAATT-TTTCTTA
*
1721672 AAAACAAATTTTGTCTCGCTTGAGACAGTTTTTCTTA
1 AAAACAAATTTTGTCTCGCTTGAGACAATTTTTCTTA
*
1721709 AAAACAAATTTCGTCTC
1 AAAACAAATTTTGTCTC
1721726 ACTGGATGCA
Statistics
Matches: 72, Mismatches: 16, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
35 2 0.03
36 18 0.25
37 50 0.69
38 2 0.03
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.38
Consensus pattern (37 bp):
AAAACAAATTTTGTCTCGCTTGAGACAATTTTTCTTA
Found at i:1722019 original size:15 final size:15
Alignment explanation
Indices: 1721999--1722037 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
1721989 TTTCGTCTAG
1721999 CTTGAAACAGTTTCT
1 CTTGAAACAGTTTCT
1722014 CTTGAAACAGTTTCT
1 CTTGAAACAGTTTCT
1722029 CTTGAAACA
1 CTTGAAACA
1722038 AAGTTTTATC
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:0.31, C:0.21, G:0.13, T:0.36
Consensus pattern (15 bp):
CTTGAAACAGTTTCT
Found at i:1722036 original size:52 final size:52
Alignment explanation
Indices: 1721971--1722074 Score: 145
Period size: 52 Copynumber: 2.0 Consensus size: 52
1721961 CGTTGAGATT
* *
1721971 GTTTCTCTCGAAACAAAGTTTCGTCTAGCTTGAAACAGTTTCTCTTGAAACA
1 GTTTCTCTCGAAACAAAGTTTCATCTAGCTTGAAACAGTTTCTCTTAAAACA
* * ** *
1722023 GTTTCTCTTGAAACAAAGTTTTATCTCTCTTGAGACAGTTTCTCTTAAAACA
1 GTTTCTCTCGAAACAAAGTTTCATCTAGCTTGAAACAGTTTCTCTTAAAACA
1722075 TAAATAGTTG
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (52 bp):
GTTTCTCTCGAAACAAAGTTTCATCTAGCTTGAAACAGTTTCTCTTAAAACA
Found at i:1722568 original size:20 final size:20
Alignment explanation
Indices: 1722527--1722569 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
1722517 CTAGTTCTAA
* *
1722527 TTTATTATTATTATTATTAT
1 TTTATTAATATTATTATCAT
1722547 TTTATTAATATTTATTA-CAT
1 TTTATTAATA-TTATTATCAT
1722567 TTT
1 TTT
1722570 TTGTAGGCCC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTATTAATATTATTATCAT
Found at i:1725579 original size:145 final size:145
Alignment explanation
Indices: 1725309--1725582 Score: 359
Period size: 145 Copynumber: 1.9 Consensus size: 145
1725299 CCTTCATCTT
** * * * *
1725309 AGTTAAATTTCACTTTAGTCCTTTGATTTAGGAAATGATTTGATTTGGTTCTAGCATTAACATGC
1 AGTTAAATTTCACTTTAGTAATTTAATTTAGGAAATAATTTGATTTAGCTCTAGCATTAACATGC
* * *
1725374 CCGAGGGACAATTTCGATTATTCAACTCAATAATTAGTTAAAATAAATAAAGATTGATATTAGAG
66 CCGAGGGACAATTTCAATTAGTCAACTCAATAATTAGTTAAAATAAATAAAGATTAATATTAGAG
1725439 CCCGCCCCCACTTTA
131 CCCGCCCCCACTTTA
* * * *
1725454 AGTTTAATTTTACTTTAGTAATTTAATTTAGGGAATAATTTGATTTAGCTCTCGCATTAACATGC
1 AGTTAAATTTCACTTTAGTAATTTAATTTAGGAAATAATTTGATTTAGCTCTAGCATTAACATGC
** * * * * * *
1725519 TTGAGGGACCATTTCAATTAGTCGACTCAATAATTGGTTAAAATAAATTAGGGTTAATATTAGA
66 CCGAGGGACAATTTCAATTAGTCAACTCAATAATTAGTTAAAATAAATAAAGATTAATATTAGA
1725583 TCCTCCATAT
Statistics
Matches: 108, Mismatches: 21, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
145 108 1.00
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.37
Consensus pattern (145 bp):
AGTTAAATTTCACTTTAGTAATTTAATTTAGGAAATAATTTGATTTAGCTCTAGCATTAACATGC
CCGAGGGACAATTTCAATTAGTCAACTCAATAATTAGTTAAAATAAATAAAGATTAATATTAGAG
CCCGCCCCCACTTTA
Found at i:1728035 original size:18 final size:18
Alignment explanation
Indices: 1728014--1728071 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
1728004 TACTTTTTTA
1728014 TTTTCTTTTAATTATTAC
1 TTTTCTTTTAATTATTAC
* **
1728032 TTTTATTTTTGCTTATTTA-
1 TTTT-CTTTTAATTA-TTAC
*
1728051 TTTCCTTTTAATTATTAC
1 TTTTCTTTTAATTATTAC
1728069 TTT
1 TTT
1728072 AATTTTACTA
Statistics
Matches: 30, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
17 3 0.10
18 14 0.47
19 10 0.33
20 3 0.10
ACGTcount: A:0.19, C:0.10, G:0.02, T:0.69
Consensus pattern (18 bp):
TTTTCTTTTAATTATTAC
Found at i:1728041 original size:37 final size:37
Alignment explanation
Indices: 1727994--1728095 Score: 125
Period size: 37 Copynumber: 2.8 Consensus size: 37
1727984 AGTTAATCTA
* *
1727994 TTTAATTTTTTACTTTTTTATTTTCTTTTAATTATTAC
1 TTTAA-TTTTTACTTATTTATTTCCTTTTAATTATTAC
* *
1728032 TTTTATTTTTGCTTATTTATTTCCTTTTAATTATTAC
1 TTTAATTTTTACTTATTTATTTCCTTTTAATTATTAC
* * *
1728069 TTTAA-TTTTACTAACTTAGTTCCTTTT
1 TTTAATTTTTACTTATTTATTTCCTTTT
1728096 TTGCATGGTT
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
36 18 0.33
37 33 0.60
38 4 0.07
ACGTcount: A:0.21, C:0.11, G:0.02, T:0.67
Consensus pattern (37 bp):
TTTAATTTTTACTTATTTATTTCCTTTTAATTATTAC
Found at i:1728077 original size:18 final size:18
Alignment explanation
Indices: 1728019--1728078 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
1728009 TTTTATTTTC
*
1728019 TTTTAATTATTACTTTTAT
1 TTTTAATTATTAC-TTTAA
** **
1728038 TTTTGCTTATTTA-TTTCC
1 TTTTAATTA-TTACTTTAA
1728056 TTTTAATTATTACTTTAA
1 TTTTAATTATTACTTTAA
1728074 TTTTA
1 TTTTA
1728079 CTAACTTAGT
Statistics
Matches: 31, Mismatches: 8, Indels: 5
0.70 0.18 0.11
Matches are distributed among these distances:
17 3 0.10
18 18 0.58
19 7 0.23
20 3 0.10
ACGTcount: A:0.23, C:0.08, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTTAATTATTACTTTAA
Found at i:1730662 original size:39 final size:39
Alignment explanation
Indices: 1730544--1730642 Score: 137
Period size: 39 Copynumber: 2.5 Consensus size: 39
1730534 TTTAATAACA
* * *
1730544 CCTAAGGTGAGGATGCTGAGTGC-ACTAAAGACGATAATG
1 CCTAAGGTGAGGATGATGAGTACAAC-AAAGGCGATAATG
1730583 CCTAAGGTGAGGATGATGAGTACAACAAAGGCGATAATG
1 CCTAAGGTGAGGATGATGAGTACAACAAAGGCGATAATG
* *
1730622 CCTAAGGTTAGGGTGATGAGT
1 CCTAAGGTGAGGATGATGAGT
1730643 TCAATGAGGG
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
39 52 0.96
40 2 0.04
ACGTcount: A:0.33, C:0.13, G:0.32, T:0.21
Consensus pattern (39 bp):
CCTAAGGTGAGGATGATGAGTACAACAAAGGCGATAATG
Found at i:1733320 original size:22 final size:22
Alignment explanation
Indices: 1733273--1733356 Score: 132
Period size: 22 Copynumber: 3.8 Consensus size: 22
1733263 ATTTCCCTAC
1733273 AGGGGGAATCGGTTCCCCTTCAA
1 AGGGGGAATCGGTTCCCCTTC-A
1733296 AGGGGGAATCGGTTCCCCTTCA
1 AGGGGGAATCGGTTCCCCTTCA
*
1733318 AGGGGGTATCGGTTCCCCTTCA
1 AGGGGGAATCGGTTCCCCTTCA
* *
1733340 AGGGGGTATCGATTCCC
1 AGGGGGAATCGGTTCCC
1733357 TCTGCACCAA
Statistics
Matches: 59, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
22 38 0.64
23 21 0.36
ACGTcount: A:0.18, C:0.26, G:0.32, T:0.24
Consensus pattern (22 bp):
AGGGGGAATCGGTTCCCCTTCA
Found at i:1744630 original size:21 final size:21
Alignment explanation
Indices: 1744588--1744631 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
1744578 ACTCCGGGAG
* *
1744588 CTAGTTCCTCACGAGCTGCTC
1 CTAGCTCCTCACGAGCTCCTC
* *
1744609 CTAGCTCCTCTCGTGCTCCTC
1 CTAGCTCCTCACGAGCTCCTC
1744630 CT
1 CT
1744632 CCTCCTCCTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.09, C:0.43, G:0.16, T:0.32
Consensus pattern (21 bp):
CTAGCTCCTCACGAGCTCCTC
Found at i:1749443 original size:93 final size:93
Alignment explanation
Indices: 1749269--1749488 Score: 273
Period size: 93 Copynumber: 2.4 Consensus size: 93
1749259 AACGTTTTTG
* * *
1749269 CATGAAT-AGCATTACCACATTTATGAGGATTTTATGCATGAATTATATTACCACATTCATCCAT
1 CATGAATCA-CATTACCACATTTATAAGGATTTTACGCATGAATTACATTACCACATTCATCCAT
* * *
1749333 ACTTTTTCATCTTTATTGAGA-ACTTTTCG
65 ACTTTTTCACCTCTATTGA-ATACTTTTCA
* * * *
1749362 CATTAATCTCATTACCACATTTATAAGGATTTTACGCATGAATTGCATTACCTCATTCATCCATA
1 CATGAATCACATTACCACATTTATAAGGATTTTACGCATGAATTACATTACCACATTCATCCATA
* *
1749427 CTTTTTTACCTCTATTGAATACTTTTTA
66 CTTTTTCACCTCTATTGAATACTTTTCA
* * *
1749455 CATGAATCACATTACCGCATTCATTAGGATTTTA
1 CATGAATCACATTACCACATTTATAAGGATTTTA
1749489 TTTATGACAT
Statistics
Matches: 108, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
92 1 0.01
93 107 0.99
ACGTcount: A:0.30, C:0.20, G:0.09, T:0.41
Consensus pattern (93 bp):
CATGAATCACATTACCACATTTATAAGGATTTTACGCATGAATTACATTACCACATTCATCCATA
CTTTTTCACCTCTATTGAATACTTTTCA
Found at i:1749520 original size:69 final size:69
Alignment explanation
Indices: 1749429--1749559 Score: 174
Period size: 69 Copynumber: 1.9 Consensus size: 69
1749419 CATCCATACT
* * * * * *
1749429 TTTTTACCTCTATTGAATACTTTTTACATGAATCACATTACCGCATTCATTAGGATTTTATTTAT
1 TTTTCACCTCTATTGAATACTTTTCACATGAATCACATTACCACAATCATGAGGACTTTATTTAT
1749494 GACA
66 GACA
**
1749498 TTTTCACCTCTATTG-ATGACTTTTCACATGAATCATTTTACCACAATCATGAGGACTTTATT
1 TTTTCACCTCTATTGAAT-ACTTTTCACATGAATCACATTACCACAATCATGAGGACTTTATT
1749560 CATAAAGAGC
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
68 2 0.04
69 51 0.96
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.44
Consensus pattern (69 bp):
TTTTCACCTCTATTGAATACTTTTCACATGAATCACATTACCACAATCATGAGGACTTTATTTAT
GACA
Found at i:1749663 original size:36 final size:36
Alignment explanation
Indices: 1749608--1749767 Score: 162
Period size: 36 Copynumber: 4.4 Consensus size: 36
1749598 TCTATTGCGA
*
1749608 ACTTTTCT-CATGAATCGTATTACCGTATTCATGAGG
1 ACTTTT-TGCATGAATCGTATTACCGCATTCATGAGG
1749644 A-TTTTATGCATGAATCGTATTACCGCATTCATGAGG
1 ACTTTT-TGCATGAATCGTATTACCGCATTCATGAGG
* * * * **
1749680 ACTTTTTGCATTAATCGCACTACCGCATTTATGATA
1 ACTTTTTGCATGAATCGTATTACCGCATTCATGAGG
** * * ***
1749716 ACTTTTTGCACAAATCGCACTACCGCATTCATTTTG
1 ACTTTTTGCATGAATCGTATTACCGCATTCATGAGG
1749752 ACTTTTTGCATGAATC
1 ACTTTTTGCATGAATC
1749768 ACATTACTAA
Statistics
Matches: 106, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
35 5 0.05
36 97 0.92
37 4 0.04
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.38
Consensus pattern (36 bp):
ACTTTTTGCATGAATCGTATTACCGCATTCATGAGG
Found at i:1758615 original size:111 final size:111
Alignment explanation
Indices: 1758493--1758701 Score: 373
Period size: 111 Copynumber: 1.9 Consensus size: 111
1758483 GGTGCTACTA
* **
1758493 ATGAAAGTTATCGATCGATTTTGTTAAATGCATAACGGTGCATTATCGGCATAAAAGGTGCCACA
1 ATGAAAGTTATCGATCGATTTTGTTAAATGCATAACGGCGCATTATCGGCATAAAAGGTAACACA
*
1758558 CATGGTATTCATAAAAGGTGAATTACCATTTCAACATACCTTGTGT
66 CATGGTATTCATAAAAGGTGAATGACCATTTCAACATACCTTGTGT
*
1758604 ATGAAAGTTATCGATCGATTTTGTTAAATGCATAACGGCGCATTATCGGCATAAAAGGTAACACT
1 ATGAAAGTTATCGATCGATTTTGTTAAATGCATAACGGCGCATTATCGGCATAAAAGGTAACACA
1758669 CATGGTATTCATAAAAGGTGAATGACCATTTCA
66 CATGGTATTCATAAAAGGTGAATGACCATTTCA
1758702 GCACTTCGGT
Statistics
Matches: 93, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
111 93 1.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (111 bp):
ATGAAAGTTATCGATCGATTTTGTTAAATGCATAACGGCGCATTATCGGCATAAAAGGTAACACA
CATGGTATTCATAAAAGGTGAATGACCATTTCAACATACCTTGTGT
Found at i:1759945 original size:23 final size:21
Alignment explanation
Indices: 1759911--1759969 Score: 55
Period size: 23 Copynumber: 2.6 Consensus size: 21
1759901 CACCACAGCT
*
1759911 CGTATGAATGCATCGAATTGCCA
1 CGTA-GAATGCA-CGAAATGCCA
1759934 CGTAGAATTGCACTGAAATGCCA
1 CGTAGAA-TGCAC-GAAATGCCA
*
1759957 CATAGAAATGCAC
1 CGTAG-AATGCAC
1759970 CGAAGTGTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
22 4 0.13
23 25 0.81
24 2 0.06
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (21 bp):
CGTAGAATGCACGAAATGCCA
Found at i:1760577 original size:33 final size:33
Alignment explanation
Indices: 1760540--1760610 Score: 126
Period size: 33 Copynumber: 2.2 Consensus size: 33
1760530 AGTAAATGCG
*
1760540 TATATTGTCTCACTTTTCCATTTACTCATATAA
1 TATATTGTCTCACTTTTCCATTTACTCACATAA
1760573 TATATTGTCTCACTTTTCCATTTACTCACATAA
1 TATATTGTCTCACTTTTCCATTTACTCACATAA
1760606 T-TATT
1 TATATT
1760611 TATACTCAGT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 4 0.11
33 33 0.89
ACGTcount: A:0.27, C:0.21, G:0.03, T:0.49
Consensus pattern (33 bp):
TATATTGTCTCACTTTTCCATTTACTCACATAA
Found at i:1762866 original size:13 final size:14
Alignment explanation
Indices: 1762850--1762901 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
1762840 TATGAATCAT
1762850 ATATATGT-TAACC
1 ATATATGTGTAACC
*
1762863 ATATGTGTGTAACC
1 ATATATGTGTAACC
* *
1762877 ATATGTGTGTATAGGC
1 ATATATGTGTA-A-CC
1762893 ATATATGTG
1 ATATATGTG
1762902 CATATATTAC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
13 7 0.21
14 16 0.48
15 1 0.03
16 9 0.27
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (14 bp):
ATATATGTGTAACC
Found at i:1762896 original size:16 final size:14
Alignment explanation
Indices: 1762858--1762887 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
1762848 ATATATATGT
1762858 TAACCATATGTGTG
1 TAACCATATGTGTG
1762872 TAACCATATGTGTG
1 TAACCATATGTGTG
1762886 TA
1 TA
1762888 TAGGCATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (14 bp):
TAACCATATGTGTG
Found at i:1768424 original size:106 final size:106
Alignment explanation
Indices: 1768169--1769421 Score: 1982
Period size: 106 Copynumber: 11.9 Consensus size: 106
1768159 AACTGGAAAA
* * * ** * *
1768169 TTGTTTGTTGACAACTAGTC-GTCCCTTAGTTGTGAAGTTGAACTTGTATTGTCTTGAGTCTAAT
1 TTGTTTGTTGACAACCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAAT
*
1768233 ATCCTTCGTTGTGAGGTTGAAATTGACTCTG-AA-TGA-AA-
65 ATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAAG
*
1768271 TTTTGTTGATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAA
1 TTGT-TTG-TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAA
* *
1768336 TATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAG
64 TATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAAG
*
1768379 TTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGTCCAATA
1 TTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATA
*
1768444 TCCTTCATTGTGAAGTTGAAATTGACTCTGAAATTGAGAAG
66 TCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAAG
*
1768485 TTGTTTGTTGACAACCAGCGGTCTCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATA
1 TTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATA
*
1768550 TCCTTCATTGTGAAGTTGAAATTGACTCTGAAATTGAGAAG
66 TCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAAG
1768591 TTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATA
1 TTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATA
1768656 TCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAAG
66 TCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAAG
* *
1768697 TTGTTTGTTAACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATA
1 TTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATA
1768762 TCCTTCGTTGTGAAGTTGAAATTGACTCTG-AA-TGA-AA-
66 TCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAAG
* * * *
1768799 TTTTGTTGATTGACAACCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTAGAGTCCAA
1 TTGT-TTG-TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAA
*
1768864 TATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAG
64 TATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAAG
*
1768907 TTATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATA
1 TTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATA
*
1768972 TCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAG
66 TCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAAG
* * *
1769013 TTGTTTTTTTTACAACCATCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAAT
1 TTG-TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAAT
1769078 ATCCTTCGTTGTGAAGTTGAAATTGACTCTG-AA-TGA-AA-
65 ATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAAG
*
1769116 TTTTGTTGATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAA
1 TTGT-TTG-TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAA
*
1769181 TATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAG
64 TATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAAG
*
1769224 TTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTAAACTTGCGTTGTCTGGAGTCCAATA
1 TTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATA
1769289 TCCTTCGTTGTGAAGTTGAAATTGACTCTG-AA-TGA-AA-
66 TCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAAG
* *
1769326 TTTTGTTGATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAA
1 TTGT-TTG-TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAA
* * *
1769391 TATCCTTCGCTATGAAGTTGAAATTGGCTCT
64 TATCCTTCGTTGTGAAGTTGAAATTGACTCT
1769422 AGCTGGAACC
Statistics
Matches: 1077, Mismatches: 52, Indels: 42
0.92 0.04 0.04
Matches are distributed among these distances:
102 10 0.01
103 18 0.02
104 333 0.31
105 13 0.01
106 591 0.55
107 103 0.10
108 9 0.01
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (106 bp):
TTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATA
TCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAAG
Found at i:1768923 original size:210 final size:210
Alignment explanation
Indices: 1768169--1769421 Score: 1997
Period size: 210 Copynumber: 5.9 Consensus size: 210
1768159 AACTGGAAAA
* * * ** * *
1768169 TTGTTTGTTGACAACTAGTC-GTCCCTTAGTTGTGAAGTTGAACTTGTATTGTCTTGAGTCTAAT
1 TTGTTTGTTGACAACCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAAT
*
1768233 ATCCTTCGTTGTGAGGTTGAAATTGACTCTGAATGAAATTTTGTTGATTGACAACCAGCGGTCCC
65 ATCCTTCGTTGTGAAGTTGAAATTGACTCTGAATGAAATTTTGTTGATTGACAACCAGCGGTCCC
*
1768298 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGG
130 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG
1768363 CTCTGAAATTGAGAAG
195 CTCTGAAATTGAGAAG
*
1768379 TTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGTCCAATA
1 TTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATA
* *
1768444 TCCTTCATTGTGAAGTTGAAATTGACTCTGAAATTGAGAA-GTTGTTTG-TTGACAACCAGCGGT
66 TCCTTCGTTGTGAAGTTGAAATTGACTCTG-AA-TGA-AATTTTG-TTGATTGACAACCAGCGGT
* *
1768507 CTCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCATTGTGAAGTTGAAAT
127 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAAT
*
1768572 TGACTCTGAAATTGAGAAG
192 TGGCTCTGAAATTGAGAAG
1768591 TTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATA
1 TTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATA
* *
1768656 TCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAA-GTTGTTTG-TTAACAACCAGCGGT
66 TCCTTCGTTGTGAAGTTGAAATTGACTCTG-AA-TGA-AATTTTG-TTGATTGACAACCAGCGGT
*
1768719 CCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAAT
127 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAAT
*
1768784 TGACTCTG-AA-TGA-AA-
192 TGGCTCTGAAATTGAGAAG
* * * *
1768799 TTTTGTTGATTGACAACCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTAGAGTCCAA
1 TTGT-TTG-TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAA
* *
1768864 TATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTAT-TTG-TTGACAACCAGCG
64 TATCCTTCGTTGTGAAGTTGAAATTGACTCTG-AA-TGA-AA-TTTTGTTGATTGACAACCAGCG
1768927 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAA
125 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAA
1768992 ATTGGCTCTGAAATTGAGAAG
190 ATTGGCTCTGAAATTGAGAAG
* * *
1769013 TTGTTTTTTTTACAACCATCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAAT
1 TTG-TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAAT
1769078 ATCCTTCGTTGTGAAGTTGAAATTGACTCTGAATGAAATTTTGTTGATTGACAACCAGCGGTCCC
65 ATCCTTCGTTGTGAAGTTGAAATTGACTCTGAATGAAATTTTGTTGATTGACAACCAGCGGTCCC
1769143 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG
130 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG
1769208 CTCTGAAATTGAGAAG
195 CTCTGAAATTGAGAAG
*
1769224 TTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTAAACTTGCGTTGTCTGGAGTCCAATA
1 TTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATA
1769289 TCCTTCGTTGTGAAGTTGAAATTGACTCTGAATGAAATTTTGTTGATTGACAACCAGCGGTCCCT
66 TCCTTCGTTGTGAAGTTGAAATTGACTCTGAATGAAATTTTGTTGATTGACAACCAGCGGTCCCT
* * *
1769354 TCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGCTATGAAGTTGAAATTGGC
131 TCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGC
1769419 TCT
196 TCT
1769422 AGCTGGAACC
Statistics
Matches: 982, Mismatches: 45, Indels: 32
0.93 0.04 0.03
Matches are distributed among these distances:
208 3 0.00
209 9 0.01
210 463 0.47
211 111 0.11
212 302 0.31
213 89 0.09
214 4 0.00
215 1 0.00
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (210 bp):
TTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATA
TCCTTCGTTGTGAAGTTGAAATTGACTCTGAATGAAATTTTGTTGATTGACAACCAGCGGTCCCT
TCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGC
TCTGAAATTGAGAAG
Found at i:1769872 original size:67 final size:66
Alignment explanation
Indices: 1769738--1769905 Score: 248
Period size: 65 Copynumber: 2.5 Consensus size: 66
1769728 AATGTATCTG
* * *
1769738 TTGTTTCATGAGAAACGGTCTCAAGGGAAACAAAATTTTGTTTTAAGGGAAATAAATTCGAAGAT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTTAAGGGAAATAAATTCGAAGA-
1769803 TT
65 TT
* *
1769805 TGTGTTTCAAGAGAAACTGTTTCAAGGGAGACAAAA-TTTGTTTTAGGGGAAATAAATTCGAAGA
1 T-TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTTAAGGGAAATAAATTCGAAGA
1769869 TT
65 TT
* *
1769871 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA
1769906 CTTGGTTCCA
Statistics
Matches: 92, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
65 31 0.34
66 3 0.03
67 28 0.30
68 30 0.33
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.30
Consensus pattern (66 bp):
TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTTAAGGGAAATAAATTCGAAGAT
T
Found at i:1769946 original size:102 final size:101
Alignment explanation
Indices: 1769816--1770060 Score: 328
Period size: 102 Copynumber: 2.4 Consensus size: 101
1769806 GTGTTTCAAG
* * * * *
1769816 AGAAACTGTTTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAAATTCGAAGATTTTGTTTCAAG
1 AGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACAAATTCAAAGATTTTGTTTCAAG
1769881 GGAAACTGTCTCAAGAGAGACAAAACTTGGTTCCAAA
66 GGAAACTGTCTCAAGAGAGACAAAA-TTGGTTCCAAA
* * * * * *
1769918 AGAAATTGTCTCAAGGGAGACGAAATTTGTTTCAAAGAAAACATATTCAAATATTTTGTTTCAAG
1 AGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACAAATTCAAAGATTTTGTTTCAAG
* ** *
1769983 GGAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAG
66 GGAAACTGTCTCAAGAGAGACAAAATTGGTTCCAAA
* *
1770019 GGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAAC
1 AGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAAC
1770061 TATCTCAAGA
Statistics
Matches: 122, Mismatches: 21, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
101 43 0.35
102 79 0.65
ACGTcount: A:0.39, C:0.12, G:0.21, T:0.28
Consensus pattern (101 bp):
AGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACAAATTCAAAGATTTTGTTTCAAG
GGAAACTGTCTCAAGAGAGACAAAATTGGTTCCAAA
Found at i:1770020 original size:36 final size:36
Alignment explanation
Indices: 1769972--1770095 Score: 203
Period size: 36 Copynumber: 3.4 Consensus size: 36
1769962 ATTCAAATAT
1769972 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
*
1770008 TTTGTTTTAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* **
1770044 TTTGTTTCAAGGGAAACTATCTCAAGAGAGATGAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
*
1770080 TTTATTTCAAGGGAAA
1 TTTGTTTCAAGGGAAA
1770096 TGTGTTCGAT
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 82 1.00
ACGTcount: A:0.39, C:0.11, G:0.22, T:0.28
Consensus pattern (36 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
Found at i:1770020 original size:138 final size:138
Alignment explanation
Indices: 1769868--1770182 Score: 364
Period size: 137 Copynumber: 2.3 Consensus size: 138
1769858 AAATTCGAAG
* *
1769868 ATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTGGTTCCAAAAGAAATTGTCTCAAG
1 ATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TTGGTTCCAAAAGAAACTATCTCAAG
* * * *
1769933 GGAGACGAAATTTGTTTCAAAGAAAACATATTCAAATATTT-TGTTTCAAGGGAAACTGTCTCAA
65 AGAGACGAAATTTATTTCAAAGAAAACATATTC-AATATTTATGCTTCAAGAGAAACTGTCTCAA
*
1769997 GAGAGACAAA
129 GAGAGAAAAA
* * * **
1770007 A-TTTGTTTTAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGA
1 ATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTGGTTCCAAAAGAAACTATCTCAAGA
* * * ** * * * * *
1770071 GAGATGAAATTTATTTCAAGGGAAATGTGTTCGATGTTTATGCTTCAAGAGAAACTGTCTCGAGG
66 GAGACGAAATTTATTTCAAAGAAAACATATTCAATATTTATGCTTCAAGAGAAACTGTCTCAAGA
1770136 GAGAAAAA
131 GAGAAAAA
* * * *
1770144 ATTTTGTTTCAAGTGAAACTATCTCAAGTGAGATAAAAT
1 ATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAAT
1770183 CTTCTTTAAA
Statistics
Matches: 147, Mismatches: 27, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
136 5 0.03
137 74 0.50
138 67 0.46
139 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (138 bp):
ATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTGGTTCCAAAAGAAACTATCTCAAGA
GAGACGAAATTTATTTCAAAGAAAACATATTCAATATTTATGCTTCAAGAGAAACTGTCTCAAGA
GAGAAAAA
Found at i:1771123 original size:22 final size:22
Alignment explanation
Indices: 1771098--1771141 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
1771088 GCATTTTGTT
*
1771098 CATTTGATGCTCAATGGTTTGA
1 CATTTGATGCTCAAAGGTTTGA
1771120 CATTTGATGCTCAAAGGTTTGA
1 CATTTGATGCTCAAAGGTTTGA
1771142 TGGGGTAGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.39
Consensus pattern (22 bp):
CATTTGATGCTCAAAGGTTTGA
Found at i:1771779 original size:7 final size:7
Alignment explanation
Indices: 1771763--1771819 Score: 52
Period size: 7 Copynumber: 8.7 Consensus size: 7
1771753 TTCTTTTTTA
1771763 TTCTTG-
1 TTCTTGT
1771769 TTCTTGT
1 TTCTTGT
1771776 TTCTTGT
1 TTCTTGT
*
1771783 TTCTTTT
1 TTCTTGT
1771790 TTC-T-T
1 TTCTTGT
1771795 TTCTT-T
1 TTCTTGT
1771801 TT-TTGTT
1 TTCTTG-T
*
1771808 TTTTTGT
1 TTCTTGT
1771815 TTCTT
1 TTCTT
1771820 TTCTTTTTTG
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
5 6 0.14
6 11 0.25
7 24 0.55
8 3 0.07
ACGTcount: A:0.00, C:0.12, G:0.09, T:0.79
Consensus pattern (7 bp):
TTCTTGT
Found at i:1771807 original size:37 final size:36
Alignment explanation
Indices: 1771752--1771828 Score: 86
Period size: 37 Copynumber: 2.1 Consensus size: 36
1771742 TTTGTCCCTT
1771752 TTTCTTTTTTATTCTTG-TTCTTGTTTCTTGTTTCTTT
1 TTTCTTTTTTATTCTTGTTTCTTGTTTC-T-TTTCTTT
* *
1771789 TTTCTTTTCTT-TTTTTGTTTTTTTGTTTCTTTTCTTT
1 TTTCTTTT-TTATTCTTG-TTTCTTGTTTCTTTTCTTT
1771826 TTT
1 TTT
1771829 GTTCTTGATT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
37 23 0.66
38 3 0.09
39 9 0.26
ACGTcount: A:0.01, C:0.12, G:0.06, T:0.81
Consensus pattern (36 bp):
TTTCTTTTTTATTCTTGTTTCTTGTTTCTTTTCTTT
Found at i:1771828 original size:7 final size:7
Alignment explanation
Indices: 1771750--1771811 Score: 54
Period size: 7 Copynumber: 8.7 Consensus size: 7
1771740 TTTTTGTCCC
1771750 TTTTTCT
1 TTTTTCT
*
1771757 TTTTTAT
1 TTTTTCT
1771764 TCTTGTTCT
1 T-TT-TTCT
*
1771773 TGTTTCT
1 TTTTTCT
*
1771780 TGTTTCT
1 TTTTTCT
1771787 TTTTTCT
1 TTTTTCT
*
1771794 TTTCT-T
1 TTTTTCT
*
1771800 TTTTTGT
1 TTTTTCT
1771807 TTTTT
1 TTTTT
1771812 TGTTTCTTTT
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
6 5 0.11
7 34 0.74
8 3 0.07
9 4 0.09
ACGTcount: A:0.02, C:0.11, G:0.06, T:0.81
Consensus pattern (7 bp):
TTTTTCT
Found at i:1771831 original size:24 final size:24
Alignment explanation
Indices: 1771750--1771828 Score: 88
Period size: 25 Copynumber: 3.2 Consensus size: 24
1771740 TTTTTGTCCC
* *
1771750 TTTTTCTTT-TTTATTCTTGTTCTT
1 TTTTTGTTTCTTTTTTCTT-TTCTT
1771774 GTTTCTTGTTTCTTTTTTCTTTTCTT
1 -TTT-TTGTTTCTTTTTTCTTTTCTT
*
1771800 TTTTTGTTTTTTTGTTTCTTTTCTT
1 TTTTTGTTTCTTT-TTTCTTTTCTT
1771825 TTTT
1 TTTT
1771829 GTTCTTGATT
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
24 9 0.19
25 21 0.44
26 10 0.21
27 8 0.17
ACGTcount: A:0.01, C:0.11, G:0.06, T:0.81
Consensus pattern (24 bp):
TTTTTGTTTCTTTTTTCTTTTCTT
Found at i:1773020 original size:16 final size:16
Alignment explanation
Indices: 1772999--1773035 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
1772989 GTAGATGAAG
*
1772999 ATGCAAAAATGCAAGA
1 ATGCAAAAATACAAGA
*
1773015 ATGCAATAATACAAGA
1 ATGCAAAAATACAAGA
1773031 ATGCA
1 ATGCA
1773036 TGAAATGTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.54, C:0.14, G:0.16, T:0.16
Consensus pattern (16 bp):
ATGCAAAAATACAAGA
Found at i:1774783 original size:11 final size:11
Alignment explanation
Indices: 1774767--1774791 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1774757 GTTAGATAAG
1774767 AAATATTAAAT
1 AAATATTAAAT
1774778 AAATATTAAAT
1 AAATATTAAAT
1774789 AAA
1 AAA
1774792 CCAAAAGGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
AAATATTAAAT
Found at i:1776336 original size:33 final size:33
Alignment explanation
Indices: 1776289--1776389 Score: 184
Period size: 33 Copynumber: 3.0 Consensus size: 33
1776279 AGTACAAAGA
1776289 TTAAGTGAAAACCAATTAACAATGTCATCGAAGT
1 TTAA-TGAAAACCAATTAACAATGTCATCGAAGT
*
1776323 TTAATGAAAACCAATTAACAATGTCATCAAAGT
1 TTAATGAAAACCAATTAACAATGTCATCGAAGT
1776356 TTAATGAAAACCAATTAACAATGTCATCGAAGT
1 TTAATGAAAACCAATTAACAATGTCATCGAAGT
1776389 T
1 T
1776390 GTAAATTATG
Statistics
Matches: 65, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
33 61 0.94
34 4 0.06
ACGTcount: A:0.46, C:0.15, G:0.12, T:0.28
Consensus pattern (33 bp):
TTAATGAAAACCAATTAACAATGTCATCGAAGT
Found at i:1776976 original size:14 final size:15
Alignment explanation
Indices: 1776947--1776979 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
1776937 CTAGCATGTT
*
1776947 AATTATTAATTTGTA
1 AATTATTAAGTTGTA
1776962 AATTATT-AGTTGTA
1 AATTATTAAGTTGTA
1776976 AATT
1 AATT
1776980 TGTGGTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (15 bp):
AATTATTAAGTTGTA
Found at i:1778226 original size:14 final size:14
Alignment explanation
Indices: 1778204--1778239 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
1778194 TATTCTCCAC
*
1778204 TTTTATTTTTTTTA
1 TTTTCTTTTTTTTA
1778218 TTTTCTTTTTTTTA
1 TTTTCTTTTTTTTA
1778232 TTTTCTTT
1 TTTTCTTT
1778240 CTACAATGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.08, C:0.06, G:0.00, T:0.86
Consensus pattern (14 bp):
TTTTCTTTTTTTTA
Found at i:1781905 original size:20 final size:20
Alignment explanation
Indices: 1781868--1781905 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1781858 TACTTTGATA
* *
1781868 TGAAATTGATTGAGAATGGT
1 TGAAATTGAATGAAAATGGT
1781888 TGAAATTGAATGAAAATG
1 TGAAATTGAATGAAAATG
1781906 AATTTTGGGT
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:0.42, C:0.00, G:0.26, T:0.32
Consensus pattern (20 bp):
TGAAATTGAATGAAAATGGT
Found at i:1783073 original size:2 final size:2
Alignment explanation
Indices: 1783066--1783126 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
1783056 TTTGATTCAA
1783066 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1783108 AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC A
1783127 TATATATATA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:1785734 original size:152 final size:152
Alignment explanation
Indices: 1785448--1785737 Score: 499
Period size: 152 Copynumber: 1.9 Consensus size: 152
1785438 TTGCAGTTGA
** *
1785448 TAAAGCTAAAACTGACATTATTCGCTCACATTCATACCCCACGACTATGAGGGAAATTCGTTGGT
1 TAAAGCTAAAACTGACATTATTCGCTCACATTCATACCCCACGACTATGAGGGAAATTCACTCGT
1785513 TTCTTGGTCATGTAGGTTTCTATCGAAGATTTATAAATGACTTTTATAAAATAGCACAGACGCTG
66 TTCTTGGTCATGTAGGTTTCTATCGAAGATTTATAAATGACTTTTATAAAATAGCACAGACGCTG
1785578 TGTAATTTATTAATGAATTTTC
131 TGTAATTTATTAATGAATTTTC
* * *
1785600 TAAAGCTAAAACTGGCATTATTCGCTCACTTTCATACCCCACGACTATGAGGGAGATTCACTCGT
1 TAAAGCTAAAACTGACATTATTCGCTCACATTCATACCCCACGACTATGAGGGAAATTCACTCGT
* * *
1785665 TTCTTGGTCATGTAGGTTTCTATCGAAGATTTATAAATGACTTTTCTAAAATAGCACAGGCGCTT
66 TTCTTGGTCATGTAGGTTTCTATCGAAGATTTATAAATGACTTTTATAAAATAGCACAGACGCTG
1785730 TGTAATTT
131 TGTAATTT
1785738 CCTAAAAGGA
Statistics
Matches: 129, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
152 129 1.00
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (152 bp):
TAAAGCTAAAACTGACATTATTCGCTCACATTCATACCCCACGACTATGAGGGAAATTCACTCGT
TTCTTGGTCATGTAGGTTTCTATCGAAGATTTATAAATGACTTTTATAAAATAGCACAGACGCTG
TGTAATTTATTAATGAATTTTC
Found at i:1788222 original size:21 final size:20
Alignment explanation
Indices: 1788189--1788237 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
1788179 AATTTCGGAA
*
1788189 AAAAATGAAAAAA-GAAGAAG
1 AAAAATAAAAAAATG-AGAAG
1788209 AAACAATAAAAAAATGAGAAG
1 AAA-AATAAAAAAATGAGAAG
1788230 AAAAATAA
1 AAAAATAA
1788238 GTGCTTGAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 8 0.31
21 17 0.65
22 1 0.04
ACGTcount: A:0.76, C:0.02, G:0.14, T:0.08
Consensus pattern (20 bp):
AAAAATAAAAAAATGAGAAG
Found at i:1789069 original size:4 final size:4
Alignment explanation
Indices: 1789053--1789126 Score: 59
Period size: 4 Copynumber: 18.8 Consensus size: 4
1789043 TGAATTCTTC
* *
1789053 TTTA TTTA CTTTA TTTA TTT- TCTCA -TTA TTT- TTTA TTTA -GTA TTTA
1 TTTA TTTA -TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA TTTA
1789099 TTT- TTTA TTTA TTTA CTTTCA TTTA TTT
1 TTTA TTTA TTTA TTTA -TTT-A TTTA TTT
1789127 TAAAATCCCC
Statistics
Matches: 57, Mismatches: 4, Indels: 18
0.72 0.05 0.23
Matches are distributed among these distances:
3 11 0.19
4 35 0.61
5 10 0.18
6 1 0.02
ACGTcount: A:0.20, C:0.07, G:0.01, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:1789075 original size:25 final size:25
Alignment explanation
Indices: 1789047--1789127 Score: 67
Period size: 25 Copynumber: 3.1 Consensus size: 25
1789037 CTCTATTGAA
1789047 TTCTTCTTTATTTACTTTATTTATT
1 TTCTTCTTTATTTACTTTATTTATT
* *
1789072 TTC-TCATTATTTTTTATTTAGTATTTATT
1 TTCTTC--T-TTATTTACTT--TATTTATT
*
1789101 TT-TTATTTATTTACTTTCATTTATT
1 TTCTTCTTTATTTACTTT-ATTTATT
1789126 TT
1 TT
1789128 AAAATCCCCC
Statistics
Matches: 44, Mismatches: 5, Indels: 14
0.70 0.08 0.22
Matches are distributed among these distances:
24 3 0.07
25 12 0.27
26 9 0.20
27 9 0.20
29 11 0.25
ACGTcount: A:0.19, C:0.09, G:0.01, T:0.72
Consensus pattern (25 bp):
TTCTTCTTTATTTACTTTATTTATT
Found at i:1789089 original size:18 final size:18
Alignment explanation
Indices: 1789055--1789109 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 18
1789045 AATTCTTCTT
*
1789055 TATTTACTTTATTTATTTTC
1 TATTTA-TTT-TTTATTTAC
*
1789075 TCA-TTATTTTTTATTTAG
1 T-ATTTATTTTTTATTTAC
1789093 TATTTATTTTTTATTTA
1 TATTTATTTTTTATTTA
1789110 TTTACTTTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
17 1 0.03
18 22 0.71
19 3 0.10
20 4 0.13
21 1 0.03
ACGTcount: A:0.22, C:0.05, G:0.02, T:0.71
Consensus pattern (18 bp):
TATTTATTTTTTATTTAC
Found at i:1790092 original size:37 final size:37
Alignment explanation
Indices: 1790002--1790106 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
1789992 CATTTTCGTC
*
1790002 CTACTAGGATTCAAACTCTTAAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
1790039 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
** * *
1790076 CTACTATTATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
1790107 CCACAAGCAT
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.31
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:1790552 original size:23 final size:24
Alignment explanation
Indices: 1790524--1790571 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
1790514 TATATGTATA
*
1790524 TATTTAATTAT-ATT-TTTTTTATT
1 TATTT-ATTATAATTGTTTTTCATT
1790547 TATTTATTATAATTGTTTTTCATT
1 TATTTATTATAATTGTTTTTCATT
1790571 T
1 T
1790572 TTCTTTGCGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 5 0.23
23 8 0.36
24 9 0.41
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (24 bp):
TATTTATTATAATTGTTTTTCATT
Found at i:1790861 original size:22 final size:20
Alignment explanation
Indices: 1790765--1790865 Score: 76
Period size: 22 Copynumber: 4.7 Consensus size: 20
1790755 TATTTTCATT
*
1790765 TATTTATTATTATTACTATTTA
1 TATTTATTATT-TTA-TATATA
* *
1790787 GTATTTATTATATTATACATA
1 -TATTTATTATTTTATATATA
* *
1790808 CATTTTTATATTTTTATATATA
1 TATTTAT-TA-TTTTATATATA
* *
1790830 TTTTTATTATTTTATTTATA
1 TATTTATTATTTTATATATA
1790850 CTATTTATTTATTTTA
1 -TATTTA-TTATTTTA
1790866 ATTGTATTTT
Statistics
Matches: 62, Mismatches: 12, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
20 15 0.24
21 13 0.21
22 24 0.39
23 10 0.16
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (20 bp):
TATTTATTATTTTATATATA
Found at i:1790992 original size:20 final size:19
Alignment explanation
Indices: 1790965--1791020 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
1790955 TTTTATCTTC
1790965 ATTTATTTTATTTTATTCA
1 ATTTATTTTATTTTATTCA
*
1790984 ATTTCATTTT-TTTTCATCCA
1 ATTT-ATTTTATTTT-ATTCA
1791004 A-TTATTTTATGTTTATT
1 ATTTATTTTAT-TTTATT
1791021 ATTATTGGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
18 5 0.16
19 13 0.42
20 13 0.42
ACGTcount: A:0.23, C:0.09, G:0.02, T:0.66
Consensus pattern (19 bp):
ATTTATTTTATTTTATTCA
Found at i:1795326 original size:29 final size:26
Alignment explanation
Indices: 1795287--1795354 Score: 73
Period size: 29 Copynumber: 2.5 Consensus size: 26
1795277 CAAAAAGGGC
*
1795287 AAAAATAAAAAAAAAAGCAAAAAATAAG
1 AAAAAAAAAAAAAAAAG-AAAAAA-AAG
* *
1795315 AAAATAAAAAAAAGAAAGAACAAAAAG
1 AAAA-AAAAAAAAAAAAGAAAAAAAAG
*
1795342 AAAAAAGAAAAAA
1 AAAAAAAAAAAAA
1795355 TGACAAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
26 7 0.21
27 7 0.21
28 9 0.26
29 11 0.32
ACGTcount: A:0.84, C:0.03, G:0.09, T:0.04
Consensus pattern (26 bp):
AAAAAAAAAAAAAAAAGAAAAAAAAG
Found at i:1795342 original size:27 final size:28
Alignment explanation
Indices: 1795288--1795354 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 28
1795278 AAAAAGGGCA
1795288 AAAAT-AAAAAAAAAAGCAAAAAATAAG
1 AAAATAAAAAAAAAAAGCAAAAAATAAG
*
1795315 AAAATAAAAAAAAGAAAG-AACAAA-AAG
1 AAAATAAAAAAAA-AAAGCAAAAAATAAG
*
1795342 AAAA-AAGAAAAAA
1 AAAATAAAAAAAAA
1795355 TGACAAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
25 1 0.03
26 7 0.19
27 12 0.33
28 12 0.33
29 4 0.11
ACGTcount: A:0.84, C:0.03, G:0.09, T:0.04
Consensus pattern (28 bp):
AAAATAAAAAAAAAAAGCAAAAAATAAG
Found at i:1795352 original size:13 final size:13
Alignment explanation
Indices: 1795287--1795365 Score: 61
Period size: 14 Copynumber: 5.6 Consensus size: 13
1795277 CAAAAAGGGC
1795287 AAAAATAAAAAAA-
1 AAAAA-AAAAAAAG
*
1795300 AAAGCAAAAAATAAG
1 AAA--AAAAAAAAAG
1795315 AAAATAAAAAAAAG
1 AAAA-AAAAAAAAG
* *
1795329 AAAGAACAAAAAG
1 AAAAAAAAAAAAG
1795342 AAAAAAGAAAAAATG
1 AAAAAA-AAAAAA-G
1795357 ACAAAAAAA
1 A-AAAAAAA
1795366 CACATGCAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
13 17 0.32
14 22 0.42
15 9 0.17
16 5 0.09
ACGTcount: A:0.82, C:0.04, G:0.09, T:0.05
Consensus pattern (13 bp):
AAAAAAAAAAAAG
Found at i:1795353 original size:8 final size:8
Alignment explanation
Indices: 1795296--1795364 Score: 50
Period size: 9 Copynumber: 7.9 Consensus size: 8
1795286 CAAAAATAAA
1795296 AAAAAAAG
1 AAAAAAAG
1795304 CAAAAAATAAG
1 --AAAAA-AAG
*
1795315 AAAATAAAA
1 AAAA-AAAG
1795324 AAAAGAAAG
1 AAAA-AAAG
1795333 AACAAAAAG
1 AA-AAAAAG
1795342 -AAAAAAG
1 AAAAAAAG
*
1795349 AAAAAATG
1 AAAAAAAG
1795357 ACAAAAAA
1 A-AAAAAA
1795365 ACACATGCAA
Statistics
Matches: 49, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
7 6 0.12
8 8 0.16
9 24 0.49
10 8 0.16
11 3 0.06
ACGTcount: A:0.81, C:0.04, G:0.10, T:0.04
Consensus pattern (8 bp):
AAAAAAAG
Found at i:1797036 original size:106 final size:106
Alignment explanation
Indices: 1796910--1798180 Score: 2002
Period size: 106 Copynumber: 12.0 Consensus size: 106
1796900 GTGCCACTTG
* * * * *
1796910 AGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGATTGTCAACAAACAACTTCCCAAATT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
* *
1796975 CAAAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* * * * *
1797016 AGATAACACAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAATAAATAACTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
* *
1797081 CAGAGCTAATTTCAACTTCACAGCGAAGGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* * *
1797122 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGCCAATAAACAATTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
* * *
1797187 CAGAGCTAATTTCAACTTCACAGCGAAGGATATTGGACTCA
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* * *
1797228 AGACAACGCAAGTTCAACTTCATGACGAAGGGACCGTTGGTTGTCAATAAACAACTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
* *
1797293 CAAAGCCAAATTCAACTTCACAACGAAGGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
*
1797334 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
*
1797399 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTTC
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* *
1797440 AGACAACACAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
* *
1797505 CAGAGCCAATTTCAACTTCACAATGAAGGATATTGGACTCG
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* * * *
1797546 AGACAACGCAAGTTCAACTTCACGACGAAAGGACCGTTGGTTGTCAACAAACAATTTCACAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
* * * * *
1797611 CGGAGCCAATTTTAACTTCGCAGCGAAAGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
*
1797652 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
* *
1797717 CGGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
*
1797758 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
1797823 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
1797864 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
*
1797929 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCG
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
** *
1797970 AGACAACGCAAGTTCAACTTCACGATAAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
* *
1798035 CAGAGCCAATTTCAACTTCACAACAAAGGATATTGGACTCG
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* * * * * * *
1798076 AGACAACACAAGTTCAACTTCACAACAAAGGGACGGCTGGTTGTCAACAAACAATTTCCCGATTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
* * *
1798141 CAGAGCCAATTTTAACTTCACGACGGAGGATATTGGACTC
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
1798181 AAAACAAAGC
Statistics
Matches: 1087, Mismatches: 78, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
106 1087 1.00
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (106 bp):
AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
Found at i:1799445 original size:8 final size:8
Alignment explanation
Indices: 1799432--1799460 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
1799422 CCCTTATATT
1799432 TATATGTA
1 TATATGTA
1799440 TATATGTA
1 TATATGTA
1799448 TATATGTA
1 TATATGTA
1799456 TATAT
1 TATAT
1799461 TTAATTATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (8 bp):
TATATGTA
Found at i:1799602 original size:13 final size:13
Alignment explanation
Indices: 1799584--1799609 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1799574 TGTTTACTTA
1799584 TTTACTATATTTT
1 TTTACTATATTTT
1799597 TTTACTATATTTT
1 TTTACTATATTTT
1799610 CCTAACGTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTACTATATTTT
Found at i:1799799 original size:44 final size:44
Alignment explanation
Indices: 1799692--1799810 Score: 116
Period size: 44 Copynumber: 2.6 Consensus size: 44
1799682 TATTACTTTT
*
1799692 CATTTATTTATTATTATTACTATTTAGTATTTTATTATATTATACATA
1 CATTTATTTATT-TTATTA-TATTT--TTTTTTATTATATTATACATA
* **
1799740 CATTT-TTATATTTT-TATATATTTTTTTTTATTATTTTATTTATA
1 CATTTATT-TATTTTAT-TATATTTTTTTTTATTATATTATACATA
1799784 CTATTTATTTATTTTAATTATATTTTT
1 C-ATTTATTTATTTT-ATTATATTTTT
1799811 AGTTTCTTTG
Statistics
Matches: 61, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
44 18 0.30
45 10 0.16
46 17 0.28
47 7 0.11
48 9 0.15
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.66
Consensus pattern (44 bp):
CATTTATTTATTTTATTATATTTTTTTTTATTATATTATACATA
Found at i:1799923 original size:20 final size:19
Alignment explanation
Indices: 1799896--1799951 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
1799886 TTTTATCTTC
1799896 ATTTATTTTATTTTATTCA
1 ATTTATTTTATTTTATTCA
*
1799915 ATTTCATTTT-TTTTCATCCA
1 ATTT-ATTTTATTTT-ATTCA
1799935 A-TTATTTTATGTTTATT
1 ATTTATTTTAT-TTTATT
1799952 ATTATTGGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
18 5 0.16
19 13 0.42
20 13 0.42
ACGTcount: A:0.23, C:0.09, G:0.02, T:0.66
Consensus pattern (19 bp):
ATTTATTTTATTTTATTCA
Found at i:1809609 original size:21 final size:21
Alignment explanation
Indices: 1809584--1809637 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
1809574 CCAGAACAAG
1809584 GGGTATCGGTACCCCTTCAAA
1 GGGTATCGGTACCCCTTCAAA
*
1809605 GGGTATCAGTACCCCTTCAAA
1 GGGTATCGGTACCCCTTCAAA
1809626 GGGTATCGGTAC
1 GGGTATCGGTAC
1809638 TATCTTTGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.24, C:0.26, G:0.26, T:0.24
Consensus pattern (21 bp):
GGGTATCGGTACCCCTTCAAA
Found at i:1809806 original size:22 final size:22
Alignment explanation
Indices: 1809781--1809860 Score: 133
Period size: 22 Copynumber: 3.6 Consensus size: 22
1809771 TGTTTGAGCT
1809781 TTCATAGGGGTATTGATACCCA
1 TTCATAGGGGTATTGATACCCA
*
1809803 TTCATAGGGGTATTGATACTCA
1 TTCATAGGGGTATTGATACCCA
*
1809825 TTCATAGGGGGTATCGATACCCA
1 TTCATA-GGGGTATTGATACCCA
1809848 TTCATAGGGGTAT
1 TTCATAGGGGTAT
1809861 CGGTATCTCT
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
22 34 0.63
23 20 0.37
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (22 bp):
TTCATAGGGGTATTGATACCCA
Found at i:1811249 original size:20 final size:19
Alignment explanation
Indices: 1811212--1811258 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
1811202 CTAAATCCTT
*
1811212 TTTCAAAATTTCATTTTGGC
1 TTTCAAAATCTCATTTT-GC
*
1811232 TTTCAAAATCT-ATATTTGT
1 TTTCAAAATCTCAT-TTTGC
1811251 TTTCAAAA
1 TTTCAAAA
1811259 GAAAATCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.32, C:0.13, G:0.06, T:0.49
Consensus pattern (19 bp):
TTTCAAAATCTCATTTTGC
Found at i:1812606 original size:24 final size:20
Alignment explanation
Indices: 1812579--1812633 Score: 56
Period size: 24 Copynumber: 2.5 Consensus size: 20
1812569 CTACCTAAGG
1812579 GGTATCGGTACTACTTTGCACTA
1 GGTATCGGTACT-C-TTGC-CTA
*
1812602 TGGTATCGATACTCTTGCCTA
1 -GGTATCGGTACTCTTGCCTA
*
1812623 GGTATCAGTAC
1 GGTATCGGTAC
1812634 CAAAATTGCA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 9 0.32
21 3 0.11
22 4 0.14
23 1 0.04
24 11 0.39
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.35
Consensus pattern (20 bp):
GGTATCGGTACTCTTGCCTA
Found at i:1812684 original size:22 final size:22
Alignment explanation
Indices: 1812659--1812737 Score: 149
Period size: 22 Copynumber: 3.6 Consensus size: 22
1812649 TGTTTGAGCC
1812659 TTCATAGGGGTATTGATACCCA
1 TTCATAGGGGTATTGATACCCA
*
1812681 TTCATAGGGGTATTGGTACCCA
1 TTCATAGGGGTATTGATACCCA
1812703 TTCATAGGGGTATTGATACCCA
1 TTCATAGGGGTATTGATACCCA
1812725 TTCATAGGGGTAT
1 TTCATAGGGGTAT
1812738 CGGTAACTCT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 55 1.00
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.33
Consensus pattern (22 bp):
TTCATAGGGGTATTGATACCCA
Found at i:1814782 original size:3 final size:3
Alignment explanation
Indices: 1814774--1814801 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
1814764 TTAGTGTAAT
1814774 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1814802 TATTATTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:1825988 original size:83 final size:81
Alignment explanation
Indices: 1825848--1826150 Score: 284
Period size: 83 Copynumber: 3.7 Consensus size: 81
1825838 TGCTGTAGTG
* * * * *
1825848 CCTATTGCGGCATTTGTGTAAAAACGCCGCTAAAGTACTACTATGTTATGGCATTTGTTGAAAAA
1 CCTATTGCGGCATTTGTATAAAAACACCGCTAAAGTACTACTCTGTCATGGCGTTTGTTGAAAAA
1825913 GCGGCACTATAGATGAAT
66 GC--CACTATAGATGAAT
* * * *
1825931 ACTATTGCGGCGTTTCTATAAAAACACCGCTAAAGTACTACTCTGTCATGGCGTTTGTTTAGAAA
1 CCTATTGCGGCATTTGTATAAAAACACCGCTAAAGTACTACTCTGTCATGGCGTTTGTTGA-AAA
* *
1825996 TGCCACTATCGATGAA-
65 AGCCACTATAGATGAAT
** * * * **
1826012 CCTATTGCGGCATTTGTATAAAAATGCCGCTAAACTGCTACTCTATTGTGGCGTTTGTTGAAAAA
1 CCTATTGCGGCATTTGTATAAAAACACCGCTAAAGTACTACTCTGTCATGGCGTTTGTTG-AAAA
* *
1826077 ACACCACTATAGATAAAT
65 A-GCCACTATAGATGAAT
* ** * * * * * **
1826095 CCTATTACGGTGTTTTTATACAAATACAGCTAAAGTATTACTCTGTCGCGGCGTTT
1 CCTATTGCGGCATTTGTATAAAAACACCGCTAAAGTACTACTCTGTCATGGCGTTT
1826151 TGTATAAAAA
Statistics
Matches: 177, Mismatches: 39, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
81 52 0.29
82 25 0.14
83 95 0.54
84 5 0.03
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (81 bp):
CCTATTGCGGCATTTGTATAAAAACACCGCTAAAGTACTACTCTGTCATGGCGTTTGTTGAAAAA
GCCACTATAGATGAAT
Found at i:1826129 original size:164 final size:165
Alignment explanation
Indices: 1825848--1826164 Score: 411
Period size: 164 Copynumber: 1.9 Consensus size: 165
1825838 TGCTGTAGTG
* * *
1825848 CCTATTGCGGCATTTGTGTAAAAACGCCGCTAAAGTACTACTATGTTATGGCATTTGTTGAAAAA
1 CCTATTGCGGCATTTGTATAAAAACGCCGCTAAACTACTACTATATTATGGCATTTGTTGAAAAA
* ** * * *
1825913 GCGGCACTATAGATGAATACTATTGCGGCGTTTCTATAAAAACACCGCTAAAGTACTACTCTGTC
66 ACACCACTATAGATAAATACTATTACGGCGTTTCTATAAAAACACAGCTAAAGTACTACTCTGTC
* * *
1825978 ATGGCG-TTTGTTTAGAAATGCCACTATCGATGAA
131 ACGGCGTTTTGTATAAAAATGCCACTATCGATGAA
* * * * *
1826012 CCTATTGCGGCATTTGTATAAAAATGCCGCTAAACTGCTACTCTATTGTGGCGTTTGTTGAAAAA
1 CCTATTGCGGCATTTGTATAAAAACGCCGCTAAACTACTACTATATTATGGCATTTGTTGAAAAA
* * * * * *
1826077 ACACCACTATAGATAAATCCTATTACGGTGTTTTTATACAAATACAGCTAAAGTATTACTCTGTC
66 ACACCACTATAGATAAATACTATTACGGCGTTTCTATAAAAACACAGCTAAAGTACTACTCTGTC
*
1826142 GCGGCGTTTTGTATAAAAATGCC
131 ACGGCGTTTTGTATAAAAATGCC
1826165 GCTAAATTTA
Statistics
Matches: 128, Mismatches: 24, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
164 114 0.89
165 14 0.11
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.32
Consensus pattern (165 bp):
CCTATTGCGGCATTTGTATAAAAACGCCGCTAAACTACTACTATATTATGGCATTTGTTGAAAAA
ACACCACTATAGATAAATACTATTACGGCGTTTCTATAAAAACACAGCTAAAGTACTACTCTGTC
ACGGCGTTTTGTATAAAAATGCCACTATCGATGAA
Found at i:1828816 original size:40 final size:40
Alignment explanation
Indices: 1828761--1828859 Score: 171
Period size: 40 Copynumber: 2.5 Consensus size: 40
1828751 GCGACACGCT
1828761 GGGTAAAGCGTGGTGCATGGGTCACGCCTTCTGTCACGTA
1 GGGTAAAGCGTGGTGCATGGGTCACGCCTTCTGTCACGTA
*
1828801 GGGTAAAGCGTGGTGCATGGGTCCCGCCTTCTGTCACGTA
1 GGGTAAAGCGTGGTGCATGGGTCACGCCTTCTGTCACGTA
* *
1828841 GGGTAAGGCGCGGTGCATG
1 GGGTAAAGCGTGGTGCATG
1828860 AGCCGCGCCT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 56 1.00
ACGTcount: A:0.16, C:0.22, G:0.38, T:0.23
Consensus pattern (40 bp):
GGGTAAAGCGTGGTGCATGGGTCACGCCTTCTGTCACGTA
Found at i:1828869 original size:40 final size:39
Alignment explanation
Indices: 1828761--1828871 Score: 159
Period size: 40 Copynumber: 2.8 Consensus size: 39
1828751 GCGACACGCT
*
1828761 GGGTAAAGCGTGGTGCATGGGTCACGCCTTCTGTCACGTA
1 GGGTAAAGCGTGGTGCATGGG-CCCGCCTTCTGTCACGTA
1828801 GGGTAAAGCGTGGTGCATGGGTCCCGCCTTCTGTCACGTA
1 GGGTAAAGCGTGGTGCATGGG-CCCGCCTTCTGTCACGTA
* * *
1828841 GGGTAAGGCGCGGTGCATGAGCCGCGCCTTC
1 GGGTAAAGCGTGGTGCATGGGCC-CGCCTTC
1828872 CTGCAATTCT
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
39 2 0.03
40 64 0.97
ACGTcount: A:0.15, C:0.25, G:0.37, T:0.23
Consensus pattern (39 bp):
GGGTAAAGCGTGGTGCATGGGCCCGCCTTCTGTCACGTA
Found at i:1829147 original size:11 final size:11
Alignment explanation
Indices: 1829127--1829167 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
1829117 TGCTGGAAAC
1829127 AAGATAAAAAT
1 AAGATAAAAAT
*
1829138 AAGATTAAAAT
1 AAGATAAAAAT
1829149 AAGATAAAGAA-
1 AAGATAAA-AAT
1829160 AAGATAAA
1 AAGATAAA
1829168 TGAATTGCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
11 25 0.93
12 2 0.07
ACGTcount: A:0.71, C:0.00, G:0.12, T:0.17
Consensus pattern (11 bp):
AAGATAAAAAT
Found at i:1834271 original size:17 final size:18
Alignment explanation
Indices: 1834239--1834272 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
1834229 TAATCAAATA
1834239 AAATACTAACAAAATATT
1 AAATACTAACAAAATATT
*
1834257 AAATA-TAATAAAATAT
1 AAATACTAACAAAATAT
1834273 ACTTTAAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (18 bp):
AAATACTAACAAAATATT
Found at i:1837355 original size:35 final size:30
Alignment explanation
Indices: 1837311--1837420 Score: 143
Period size: 29 Copynumber: 3.6 Consensus size: 30
1837301 ATCTTAACAT
1837311 TAAAAATATATATTTTATTCTTATATTAAC
1 TAAAAATATATATTTTATTCTTATATTAAC
1837341 TAATATATATATATATATTTTATTCTTATATTAAC
1 T-A-A-A-A-ATATATATTTTATTCTTATATTAAC
*
1837376 TAAAAA-ATATATTTTATTCTTATTTTAAC
1 TAAAAATATATATTTTATTCTTATATTAAC
*
1837405 TTAAAA-ATATATTTTA
1 TAAAAATATATATTTTA
1837421 AAATTTTATT
Statistics
Matches: 73, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
29 37 0.51
30 2 0.03
31 2 0.03
32 2 0.03
33 2 0.03
34 2 0.03
35 26 0.36
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (30 bp):
TAAAAATATATATTTTATTCTTATATTAAC
Found at i:1837385 original size:29 final size:29
Alignment explanation
Indices: 1837311--1837451 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
1837301 ATCTTAACAT
1837311 TAAAAATATATATTTTATTCTTATATTAAC
1 TAAAAA-ATATATTTTATTCTTATATTAAC
1837341 TAATATATATATATATATTTTATTCTTATATTAAC
1 T-A-A-A-A-A-ATATATTTTATTCTTATATTAAC
*
1837376 TAAAAAATATATTTTATTCTTATTTTAAC
1 TAAAAAATATATTTTATTCTTATATTAAC
* *** *
1837405 TTAAAAATATATTTTAAAATTTTATTAAC
1 TAAAAAATATATTTTATTCTTATATTAAC
*
1837434 ATAAAAAA-ATAATTTATT
1 -TAAAAAATATATTTTATT
1837452 TTTACCTTAA
Statistics
Matches: 94, Mismatches: 11, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
29 52 0.55
30 8 0.09
31 2 0.02
32 2 0.02
33 2 0.02
34 2 0.02
35 26 0.28
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (29 bp):
TAAAAAATATATTTTATTCTTATATTAAC
Found at i:1837474 original size:20 final size:20
Alignment explanation
Indices: 1837440--1837489 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 20
1837430 TAACATAAAA
1837440 AAATAATTTATTTTTA-CCTT
1 AAAT-ATTTATTTTTATCCTT
*
1837460 AAATATTTATATTTTATTCTT
1 AAATATTTAT-TTTTATCCTT
1837481 ATAATATTT
1 A-AATATTT
1837490 TAAAATTAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 6 0.23
20 9 0.35
21 4 0.15
22 7 0.27
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (20 bp):
AAATATTTATTTTTATCCTT
Found at i:1837524 original size:29 final size:30
Alignment explanation
Indices: 1837484--1837567 Score: 91
Period size: 30 Copynumber: 2.7 Consensus size: 30
1837474 TATTCTTATA
* *
1837484 ATATTTTAAAATTAAGA-TAAAAATAAAAT
1 ATATTTTAAAATTAAAACAAAAAATAAAAT
1837513 ATATCTTT-AAATTAAAACAAAAAATAAAAT
1 ATAT-TTTAAAATTAAAACAAAAAATAAAAT
*
1837543 ATACATTTTAAAATCAAAATCAAAA
1 AT--ATTTTAAAATTAAAA-CAAAA
1837568 TATTCATTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
29 12 0.26
30 16 0.35
31 3 0.07
32 10 0.22
33 5 0.11
ACGTcount: A:0.62, C:0.06, G:0.01, T:0.31
Consensus pattern (30 bp):
ATATTTTAAAATTAAAACAAAAAATAAAAT
Found at i:1837561 original size:26 final size:26
Alignment explanation
Indices: 1837524--1837579 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
1837514 TATCTTTAAA
1837524 TTAAAACAAAAAAT-AAAATATACATT
1 TTAAAAC-AAAAATCAAAATATACATT
*
1837550 TTAAAATC-AAAATCAAAATATTCATT
1 TTAAAA-CAAAAATCAAAATATACATT
1837576 TTAA
1 TTAA
1837580 GTTATAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 5 0.19
26 21 0.78
27 1 0.04
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (26 bp):
TTAAAACAAAAATCAAAATATACATT
Found at i:1837630 original size:14 final size:15
Alignment explanation
Indices: 1837592--1837620 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1837582 TATAAATAAG
1837592 AATAAAATATTTAAA
1 AATAAAATATTTAAA
1837607 AATAAAATATTTAA
1 AATAAAATATTTAA
1837621 GTTAAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
AATAAAATATTTAAA
Found at i:1846310 original size:17 final size:17
Alignment explanation
Indices: 1846288--1846322 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
1846278 CCAGTTTCGG
1846288 TTTAAAAAAACCGATTT
1 TTTAAAAAAACCGATTT
1846305 TTTAAAAAAACCGATTT
1 TTTAAAAAAACCGATTT
1846322 T
1 T
1846323 AAATCCGGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.11, G:0.06, T:0.37
Consensus pattern (17 bp):
TTTAAAAAAACCGATTT
Found at i:1846626 original size:21 final size:21
Alignment explanation
Indices: 1846600--1846640 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
1846590 CAGACTCAAA
1846600 AAAAAAAAAACAAAGAACCGG
1 AAAAAAAAAACAAAGAACCGG
*
1846621 AAAAAAAACACAAAGAACCG
1 AAAAAAAAAACAAAGAACCG
1846641 AATTGTTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.71, C:0.17, G:0.12, T:0.00
Consensus pattern (21 bp):
AAAAAAAAAACAAAGAACCGG
Found at i:1852933 original size:163 final size:163
Alignment explanation
Indices: 1852663--1852963 Score: 584
Period size: 163 Copynumber: 1.8 Consensus size: 163
1852653 ACGTTTTCTA
1852663 CAAAAGTTTTCTGCTTTGCTACAACCTGCCCAACATGCACACCCAGCTCCGCAATGACATTTCGA
1 CAAAAGTTTTCTGCTTTGCTACAACCTGCCCAACATGCACACCCAGCTCCGCAATGACATTTCGA
*
1852728 TTTTTTTCCAAGGCGATGAGGAATCTATGTACGAGTGCTGTGACATATATAAAAGCTTTCTTCGC
66 TTTTTTTCCAAGGCGATGAGGAATCTATGTACGAGTGCTGTGACATATATAAAAGCTTGCTTCGC
1852793 ACGTGCACCAATGGAATCTGGGGATGATTTATG
131 ACGTGCACCAATGGAATCTGGGGATGATTTATG
*
1852826 CAAAAGTTTTCTGCTTTGCTACAACTTGCCCAACATGCACACCCAGCTCCGCAATGACATTTCGA
1 CAAAAGTTTTCTGCTTTGCTACAACCTGCCCAACATGCACACCCAGCTCCGCAATGACATTTCGA
1852891 TTTTTTTCCAAGGCGATGAGGAATCTATGTACGAGTGCTGTGACATATATAAAAGCTTGCTTCGC
66 TTTTTTTCCAAGGCGATGAGGAATCTATGTACGAGTGCTGTGACATATATAAAAGCTTGCTTCGC
1852956 ACGTGCAC
131 ACGTGCAC
1852964 TAACCAAGGA
Statistics
Matches: 136, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
163 136 1.00
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (163 bp):
CAAAAGTTTTCTGCTTTGCTACAACCTGCCCAACATGCACACCCAGCTCCGCAATGACATTTCGA
TTTTTTTCCAAGGCGATGAGGAATCTATGTACGAGTGCTGTGACATATATAAAAGCTTGCTTCGC
ACGTGCACCAATGGAATCTGGGGATGATTTATG
Found at i:1856496 original size:16 final size:16
Alignment explanation
Indices: 1856475--1856508 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
1856465 TGAAAAAGAA
1856475 TTGCTTGCAGTAGTAT
1 TTGCTTGCAGTAGTAT
1856491 TTGCTTGCAGTAGTAT
1 TTGCTTGCAGTAGTAT
1856507 TT
1 TT
1856509 TCTTTTGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.18, C:0.12, G:0.24, T:0.47
Consensus pattern (16 bp):
TTGCTTGCAGTAGTAT
Found at i:1862841 original size:22 final size:22
Alignment explanation
Indices: 1862792--1862842 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
1862782 TTGACTTTTT
1862792 CAGTCAAAGTCAACAATCAGAC
1 CAGTCAAAGTCAACAATCAGAC
** * *
1862814 TGGTCAAAGTCAACAGTCCGAC
1 CAGTCAAAGTCAACAATCAGAC
1862836 CAGTCAA
1 CAGTCAA
1862843 CGGTCAATTC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.39, C:0.27, G:0.18, T:0.16
Consensus pattern (22 bp):
CAGTCAAAGTCAACAATCAGAC
Found at i:1862913 original size:19 final size:19
Alignment explanation
Indices: 1862857--1862903 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
1862847 CAATTCTGGC
1862857 CAAAGTCAACGAGTTGGGT
1 CAAAGTCAACGAGTTGGGT
1862876 CAAAGTCAAC-ATGTTGGGT
1 CAAAGTCAACGA-GTTGGGT
1862895 CAAAGTCAA
1 CAAAGTCAA
1862904 TGGGTCGGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 1 0.04
19 26 0.96
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (19 bp):
CAAAGTCAACGAGTTGGGT
Found at i:1866225 original size:13 final size:13
Alignment explanation
Indices: 1866207--1866233 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1866197 AGAGAACAAT
1866207 TAATGAAAATTAA
1 TAATGAAAATTAA
1866220 TAATGAAAATTAA
1 TAATGAAAATTAA
1866233 T
1 T
1866234 CGTTGAAGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.33
Consensus pattern (13 bp):
TAATGAAAATTAA
Found at i:1867599 original size:3 final size:3
Alignment explanation
Indices: 1867588--1867633 Score: 67
Period size: 3 Copynumber: 15.0 Consensus size: 3
1867578 TTTTTTTGTT
1867588 TTA TCTA TTA TTA TTA TTA TTA -TA TCTA TTA TTA TTA TTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
1867634 AAAAACAAGC
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
2 2 0.05
3 32 0.80
4 6 0.15
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:1867613 original size:21 final size:21
Alignment explanation
Indices: 1867589--1867631 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
1867579 TTTTTTGTTT
1867589 TATCTATTATTATTATTATTA
1 TATCTATTATTATTATTATTA
1867610 TATCTATTATTATTATTATTA
1 TATCTATTATTATTATTATTA
1867631 T
1 T
1867632 TAAAAAACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.63
Consensus pattern (21 bp):
TATCTATTATTATTATTATTA
Found at i:1875072 original size:17 final size:17
Alignment explanation
Indices: 1875036--1875074 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
1875026 ACAATTTGTC
* *
1875036 AAGATGAAGATTCAGCA
1 AAGATGAAGACTCAACA
*
1875053 AAGATGAAGACTCAATA
1 AAGATGAAGACTCAACA
1875070 AAGAT
1 AAGAT
1875075 AAATAAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.51, C:0.10, G:0.21, T:0.18
Consensus pattern (17 bp):
AAGATGAAGACTCAACA
Found at i:1875734 original size:41 final size:41
Alignment explanation
Indices: 1875559--1875737 Score: 135
Period size: 44 Copynumber: 4.2 Consensus size: 41
1875549 TTGTTCGACA
* * *
1875559 TTCGCTCGATTCCATCACATAAGGTGTTGGATTAGCATCACCGC
1 TTCGCTCGATTCCATCACATAAGGAGTTGGATAAACATCA---C
* * * * * *
1875603 TTTGCTAGATTCCATCACATAAAGAGCTGGATAAGCAAAACCAC
1 TTCGCTCGATTCCATCACATAAGGAGTTGGAT-A--AACATCAC
* * * * * * *
1875647 TTAGGTCGATTCGATCACATAATGAGTTGGATCATCATTAC
1 TTCGCTCGATTCCATCACATAAGGAGTTGGATAAACATCAC
*
1875688 TTCGCTCGATTCCATGACATAAGGAGTTGGATAAACATCA-
1 TTCGCTCGATTCCATCACATAAGGAGTTGGATAAACATCAC
1875728 TCTCGCTCGA
1 T-TCGCTCGA
1875738 GTTCAAATCC
Statistics
Matches: 103, Mismatches: 28, Indels: 11
0.73 0.20 0.08
Matches are distributed among these distances:
40 1 0.01
41 44 0.43
44 54 0.52
47 4 0.04
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (41 bp):
TTCGCTCGATTCCATCACATAAGGAGTTGGATAAACATCAC
Found at i:1875887 original size:44 final size:43
Alignment explanation
Indices: 1875818--1875940 Score: 142
Period size: 41 Copynumber: 2.9 Consensus size: 43
1875808 TTCAACTTTT
* * * *
1875818 GCTCGATTCCCATCACACAAGGAGTTGGATCAACATCACCACTTC
1 GCTCGATT-CCATCATATAAAGAGTTGGATCAACATCA-CACTTA
*
1875863 GCTCGATTCCATCATATAATGAGTTGGATCAACAT--CACTTA
1 GCTCGATTCCATCATATAAAGAGTTGGATCAACATCACACTTA
* * *
1875904 GCTCTATTCTATCATATAAAGAGTTGGATTAACATCA
1 GCTCGATTCCATCATATAAAGAGTTGGATCAACATCA
1875941 TCTCACTTGA
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
41 36 0.53
44 24 0.35
45 8 0.12
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (43 bp):
GCTCGATTCCATCATATAAAGAGTTGGATCAACATCACACTTA
Found at i:1875981 original size:213 final size:213
Alignment explanation
Indices: 1875602--1876040 Score: 576
Period size: 213 Copynumber: 2.1 Consensus size: 213
1875592 AGCATCACCG
* * * *
1875602 CTTTGCTAGATT-CCATCACATAAAGAGCTGGATAAGCAAAACCACTTAGGTCGATTCGATCACA
1 CTTTGCTCGATTCCCATCACACAAAGAGCTGGATAAGCAAAACCACTTAGCTCGATTCCATCACA
* * * * *
1875666 TAATGAGTTGGATCATCATTACTTCGCTCGATTCCATGACATAAGGAGTTGGATAAACATCATCT
66 TAATGAGTTGGATCAACATCACTTAGCTCGATTCCATCACATAAAGAGTTGGATAAACATCATCT
* *
1875731 CGCTCGAGTTCAAATCCATCACAGAAGGAGTTGGGTCAACATTTTCAAGAGAATAACTTCAAAAT
131 CACTCGAGTTCAAATCCATCACAGAAGGAGTTGGGTCAACATTTTCAAGAGAAGAACTTCAAAAT
**
1875796 GAGAAGATCTTGTTCAAC
196 GAGAAGAAATTGTTCAAC
* * * ** * *
1875814 TTTTGCTCGATTCCCATCACACAAGGAGTTGGATCAA-CATCACCACTTCGCTCGATTCCATCAT
1 CTTTGCTCGATTCCCATCACACAAAGAGCTGGAT-AAGCAAAACCACTTAGCTCGATTCCATCAC
* * * *
1875878 ATAATGAGTTGGATCAACATCACTTAGCTCTATTCTATCATATAAAGAGTTGGATTAACATCATC
65 ATAATGAGTTGGATCAACATCACTTAGCTCGATTCCATCACATAAAGAGTTGGATAAACATCATC
* * * * * *
1875943 TCACTTGAGTTCAAATCCATCATAGAAGGAGTTGGGTCATCATTTTCAAGAGAAGAAGTTGATAA
130 TCACTCGAGTTCAAATCCATCACAGAAGGAGTTGGGTCAACATTTTCAAGAGAAGAACTTCAAAA
*
1876008 TGATAAGAAATTGTTCAAC
195 TGAGAAGAAATTGTTCAAC
1876027 CTTTGCTCGATTCC
1 CTTTGCTCGATTCC
1876041 ACACAGAAGA
Statistics
Matches: 193, Mismatches: 32, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
212 10 0.05
213 181 0.94
214 2 0.01
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.30
Consensus pattern (213 bp):
CTTTGCTCGATTCCCATCACACAAAGAGCTGGATAAGCAAAACCACTTAGCTCGATTCCATCACA
TAATGAGTTGGATCAACATCACTTAGCTCGATTCCATCACATAAAGAGTTGGATAAACATCATCT
CACTCGAGTTCAAATCCATCACAGAAGGAGTTGGGTCAACATTTTCAAGAGAAGAACTTCAAAAT
GAGAAGAAATTGTTCAAC
Found at i:1876100 original size:78 final size:80
Alignment explanation
Indices: 1875958--1876176 Score: 246
Period size: 79 Copynumber: 2.8 Consensus size: 80
1875948 TGAGTTCAAA
* * * * * * * * *
1875958 TCCATCATAGAAGGAGTTGGGTCATCATTTTCAAGAGAAGAAGTTGATAATGATAAGAAATTGTT
1 TCCATCACAGAAGAAGTTGGATAAACATTTCCAAGAGAAGAAGTTCATAATGAGAAGAACTTGTT
1876023 CAA-CCTTTGCTCGAT
66 CAATCCTTT-CTCGAT
* *
1876038 TCCA-CACAGAAGAAGTTTGATAAACATTTCCAA-AGAAGAAGTTCATAATAAGAAGAACTTGTT
1 TCCATCACAGAAGAAGTTGGATAAACATTTCCAAGAGAAGAAGTTCATAATGAGAAGAACTTGTT
*
1876101 CAATCGTTTCTCGAT
66 CAATCCTTTCTCGAT
* * * * * *
1876116 TCCATCATAGAAGAAGTTGGATCAACATTTCTAAGAAAAAAAATTCATAATGAGAAGAACT
1 TCCATCACAGAAGAAGTTGGATAAACATTTCCAAGAGAAGAAGTTCATAATGAGAAGAACT
1876177 CATCAATAAC
Statistics
Matches: 116, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
78 39 0.34
79 51 0.44
80 26 0.22
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (80 bp):
TCCATCACAGAAGAAGTTGGATAAACATTTCCAAGAGAAGAAGTTCATAATGAGAAGAACTTGTT
CAATCCTTTCTCGAT
Found at i:1879095 original size:55 final size:55
Alignment explanation
Indices: 1879058--1879383 Score: 454
Period size: 55 Copynumber: 5.9 Consensus size: 55
1879048 TCGATACGGT
* * * *
1879058 AATTCACAAACTCATTATGAATTACGCGGGGTTACACACATAGTGCCAATATGGA
1 AATTCATAAACTCATTATGAATTTCGTGAGGTTACACACATAGTGCCAATATGGA
* * **
1879113 AATTCATAAGCTCAATATGAATTTCGTGAGGTTGTACACATAGTGCCAATATGGA
1 AATTCATAAACTCATTATGAATTTCGTGAGGTTACACACATAGTGCCAATATGGA
* * *
1879168 AATTCATAAACTCATTATGAATTTCGTGAGGTTGCACACATAGTGCCAATACGAA
1 AATTCATAAACTCATTATGAATTTCGTGAGGTTACACACATAGTGCCAATATGGA
* * *
1879223 AATTCATAAACTCATTATGAATTTCGTGAGGTTGCACACATAGTGACAATATGAA
1 AATTCATAAACTCATTATGAATTTCGTGAGGTTACACACATAGTGCCAATATGGA
* * * *
1879278 AATTCATAAACTCATTATGAATTTCGTGAGGTTGCATATATAGTGCCAATATGAA
1 AATTCATAAACTCATTATGAATTTCGTGAGGTTACACACATAGTGCCAATATGGA
* * **
1879333 AATTCATAAGCTCATTATGAATTTCGTAAGGTTGTACACATAGTGCCAATA
1 AATTCATAAACTCATTATGAATTTCGTGAGGTTACACACATAGTGCCAATA
1879384 CATAAATTTC
Statistics
Matches: 248, Mismatches: 23, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 248 1.00
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (55 bp):
AATTCATAAACTCATTATGAATTTCGTGAGGTTACACACATAGTGCCAATATGGA
Found at i:1879242 original size:110 final size:110
Alignment explanation
Indices: 1879058--1879383 Score: 517
Period size: 110 Copynumber: 3.0 Consensus size: 110
1879048 TCGATACGGT
* * * * * *
1879058 AATTCACAAACTCATTATGAATTACGCGGGGTTACACACATAGTGCCAATATGGAAATTCATAAG
1 AATTCATAAACTCATTATGAATTTCGTGAGGTTGCACACATAGTGCCAATATGAAAATTCATAAG
* *
1879123 CTCAATATGAATTTCGTGAGGTTGTACACATAGTGCCAATATGGA
66 CTCATTATGAATTTCGTGAGGTTGTACACATAGTGCCAATATGAA
* *
1879168 AATTCATAAACTCATTATGAATTTCGTGAGGTTGCACACATAGTGCCAATACGAAAATTCATAAA
1 AATTCATAAACTCATTATGAATTTCGTGAGGTTGCACACATAGTGCCAATATGAAAATTCATAAG
* *
1879233 CTCATTATGAATTTCGTGAGGTTGCACACATAGTGACAATATGAA
66 CTCATTATGAATTTCGTGAGGTTGTACACATAGTGCCAATATGAA
* *
1879278 AATTCATAAACTCATTATGAATTTCGTGAGGTTGCATATATAGTGCCAATATGAAAATTCATAAG
1 AATTCATAAACTCATTATGAATTTCGTGAGGTTGCACACATAGTGCCAATATGAAAATTCATAAG
*
1879343 CTCATTATGAATTTCGTAAGGTTGTACACATAGTGCCAATA
66 CTCATTATGAATTTCGTGAGGTTGTACACATAGTGCCAATA
1879384 CATAAATTTC
Statistics
Matches: 197, Mismatches: 19, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
110 197 1.00
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (110 bp):
AATTCATAAACTCATTATGAATTTCGTGAGGTTGCACACATAGTGCCAATATGAAAATTCATAAG
CTCATTATGAATTTCGTGAGGTTGTACACATAGTGCCAATATGAA
Found at i:1879283 original size:165 final size:165
Alignment explanation
Indices: 1879058--1879384 Score: 510
Period size: 165 Copynumber: 2.0 Consensus size: 165
1879048 TCGATACGGT
* * * *
1879058 AATTCACAAACTCATTATGAATTACGCGGGGTTACACACATAGTGCCAATATGGAAATTCATAAG
1 AATTCACAAACTCATTATGAATTACGCGAGGTTACACACATAGTGACAATATGAAAATTCATAAA
* *
1879123 CTCAATATGAATTTCGTGAGGTTGTACACATAGTGCCAATATGGAAATTCATAAACTCATTATGA
66 CTCAATATGAATTTCGTGAGGTTGCACACATAGTGCCAATATGAAAATTCATAAACTCATTATGA
*
1879188 ATTTCGTGAGGTTGCACACATAGTGCCAATACGAA
131 ATTTCGTAAGGTTGCACACATAGTGCCAATACGAA
* * * *
1879223 AATTCATAAACTCATTATGAATTTCGTGAGGTTGCACACATAGTGACAATATGAAAATTCATAAA
1 AATTCACAAACTCATTATGAATTACGCGAGGTTACACACATAGTGACAATATGAAAATTCATAAA
* * * *
1879288 CTCATTATGAATTTCGTGAGGTTGCATATATAGTGCCAATATGAAAATTCATAAGCTCATTATGA
66 CTCAATATGAATTTCGTGAGGTTGCACACATAGTGCCAATATGAAAATTCATAAACTCATTATGA
*
1879353 ATTTCGTAAGGTTGTACACATAGTGCCAATAC
131 ATTTCGTAAGGTTGCACACATAGTGCCAATAC
1879385 ATAAATTTCA
Statistics
Matches: 146, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
165 146 1.00
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (165 bp):
AATTCACAAACTCATTATGAATTACGCGAGGTTACACACATAGTGACAATATGAAAATTCATAAA
CTCAATATGAATTTCGTGAGGTTGCACACATAGTGCCAATATGAAAATTCATAAACTCATTATGA
ATTTCGTAAGGTTGCACACATAGTGCCAATACGAA
Found at i:1887854 original size:35 final size:35
Alignment explanation
Indices: 1887804--1887944 Score: 189
Period size: 35 Copynumber: 4.0 Consensus size: 35
1887794 GATTCTTTCC
* *
1887804 ATGCAAATCTAGCCTTCGCAAAAGAGTAGTGAAGCA
1 ATGC-AATCAAGCCTTCACAAAAGAGTAGTGAAGCA
1887840 ATGCAATCAAGCCTTCACAAAAGAGTAGTGAAGCA
1 ATGCAATCAAGCCTTCACAAAAGAGTAGTGAAGCA
* * *
1887875 ATGCAATCAAGCTTTCATAAAAGAGTAGTAAAGCA
1 ATGCAATCAAGCCTTCACAAAAGAGTAGTGAAGCA
1887910 A---AAGTCAAGCCTTCACAAAAAGAGTAGTGAAGCA
1 ATGCAA-TCAAGCCTTCAC-AAAAGAGTAGTGAAGCA
1887944 A
1 A
1887945 GATTAGATCA
Statistics
Matches: 95, Mismatches: 8, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
32 2 0.02
33 10 0.11
34 17 0.18
35 62 0.65
36 4 0.04
ACGTcount: A:0.44, C:0.18, G:0.20, T:0.18
Consensus pattern (35 bp):
ATGCAATCAAGCCTTCACAAAAGAGTAGTGAAGCA
Done.