Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 ID=Chr03-JGI_221_v2.0
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: 45765648
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 655849 characters in sequence are not A, C, G, or T
File 76 of 150
Found at i:22971418 original size:147 final size:147
Alignment explanation
Indices: 22971233--22971625 Score: 395
Period size: 147 Copynumber: 2.7 Consensus size: 147
22971223 CTCAAATCTT
* * * *
22971233 TGGCGTTTTCGAATAAACGCCACAAAT-A-ATATAGCAAAACGGCATCGTATCAATAAATGTTAA
1 TGGCGTTTCCGAAAAAACGCCACTAATAACATATA-CAAAACGGCAACGTATCAATAAATGTTAA
* *
22971296 AACATTTTTGCGGCGTTTTAAGCAAAGCGCCACTAACTATAAG-TCAAAACGCA-GTCGCTTCAT
65 AACATTTTTGCGGCGTTTTAAGAAAAGCGCCACTAACTATAAGTTC-AAACG-ATGTCGCTTCAG
22971359 CAACACTT-ACGTCAAGCCCG
128 CAACACTTAAC-TCAAGCCCG
* * * * * *
22971379 TGGCATTTCCGAAAAAACGCCACTAATAACATTTACAAAACGGCAGCGTTTCTATAAATGTTAGA
1 TGGCGTTTCCGAAAAAACGCCACTAATAACATATACAAAACGGCAACGTATCAATAAATGTTAAA
* * * * * *
22971444 ACAATTTTGTGGCGTTTTAAGTAAAGCGCCACCAACTATAAGTTCAAACGATGTCGTTTCCGCAA
66 ACATTTTTGCGGCGTTTTAAGAAAAGCGCCACTAACTATAAGTTCAAACGATGTCGCTTCAGCAA
* **
22971509 CAGTTAACTCAAGCTTG
131 CACTTAACTCAAGCCCG
* * * * ** * **
22971526 TGGCGTTTCC-AGAAAAACGCTACTAATACCATAAACAAAACGACAAAATCTCAATAAA-CATAA
1 TGGCGTTTCCGA-AAAAACGCCACTAATAACATATACAAAACGGCAACGTATCAATAAATGTTAA
* *
22971589 TTACATTTTTGCGGCGTTTTATGAAAAGCGCCACTAA
65 -AACATTTTTGCGGCGTTTTAAGAAAAGCGCCACTAA
22971626 TAGCAACGTA
Statistics
Matches: 201, Mismatches: 39, Indels: 13
0.79 0.15 0.05
Matches are distributed among these distances:
146 27 0.13
147 166 0.83
148 8 0.04
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (147 bp):
TGGCGTTTCCGAAAAAACGCCACTAATAACATATACAAAACGGCAACGTATCAATAAATGTTAAA
ACATTTTTGCGGCGTTTTAAGAAAAGCGCCACTAACTATAAGTTCAAACGATGTCGCTTCAGCAA
CACTTAACTCAAGCCCG
Found at i:22972900 original size:14 final size:14
Alignment explanation
Indices: 22972889--22972929 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
22972879 TTCTAACCCT
22972889 TAACCCCAAACCAC
1 TAACCCCAAACCAC
*
22972903 TAACCCCAAACTAC
1 TAACCCCAAACCAC
22972917 TAACCCCTAAACC
1 TAACCCC-AAACC
22972930 TTATTTAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 20 0.83
15 4 0.17
ACGTcount: A:0.41, C:0.46, G:0.00, T:0.12
Consensus pattern (14 bp):
TAACCCCAAACCAC
Found at i:22973396 original size:12 final size:12
Alignment explanation
Indices: 22973353--22973399 Score: 58
Period size: 12 Copynumber: 3.7 Consensus size: 12
22973343 GTACCTAAAA
22973353 ATTTTTAAAATT
1 ATTTTTAAAATT
*
22973365 ATTTTAAATAATACT
1 ATTTTTAA-AAT--T
22973380 ATTTTTAAAATT
1 ATTTTTAAAATT
22973392 ATTTTTAA
1 ATTTTTAA
22973400 CAAATATTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
12 16 0.53
13 3 0.10
14 3 0.10
15 8 0.27
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (12 bp):
ATTTTTAAAATT
Found at i:22973812 original size:225 final size:223
Alignment explanation
Indices: 22973548--22974121 Score: 744
Period size: 225 Copynumber: 2.5 Consensus size: 223
22973538 TGGGCTTAGG
* ** *
22973548 TTTTTTTGCGGCGCTTTAACAAAAACGCCGCTAAAGCCCTAAGCATTAGCGGCGCATTCTTAAAA
1 TTTTTTTGTGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGC-TTCTTAAAA
* * * *
22973613 TGCCGCTAAAGCCCACGAATTG-TCAGAAAACGGTGCCGTTGGGCTTA-GT-TTTTGTTGCGACG
65 CGCCGCTAAA-CCC-CGAA-AGCTCAGAAAACGGCGTCGTTGGGCTTAGGTATTTTGTT-CGACG
* ** *
22973675 CTTTCTCAAAAATGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTACTTAAAAACGCCACTAAATC
126 CTTTCCCAAAAACACCGCTAAAGCCCTGAGCATTAGCGGCGCTTACTTAAAAACACCACTAAATC
* * *
22973740 CTCGAAAGCTCAAAAAATGGTGA-CGTTGGGCTT
191 CCCGAAAGCTCAAAAAACGG-CATCGTTGGGCTT
*
22973773 TTTTTTTGTGGCGCTTTCTCAAAAATGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTACTTAATA
1 TTTTTTTGTGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTT-CTTAA-A
* * *
22973838 ACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCATTGGGCTTAGGTATTTT-TTCGGCGCT
64 ACGCCGCTAAA-CCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTATTTTGTTCGACGCT
* *
22973902 TTCCCAAAAACACCGCTAAAGCCTTGAGCATTAGCGGCGTTTACTTAAAAACACCACTAAATCCC
128 TTCCCAAAAACACCGCTAAAGCCCTGAGCATTAGCGGCGCTTACTTAAAAACACCACTAAATCCC
* *
22973967 CGAAAGCTCAGAAAACGGCATTGTTGGGCTT
193 CGAAAGCTCAAAAAACGGCATCGTTGGGCTT
* * *
22973998 TGGTTTTTTGTGGCGCTTTCTCGAAAACGCCGCGAAAGCCCTGAGCATTAGCGGCTCTGTCTTAA
1 T--TTTTTTGTGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCT-TCTT-A
*
22974063 AAACGCCGCTAAATCCTCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTATTTTGT
62 AAACGCCGCTAAA-CCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTATTTTGT
22974122 GGCGCTTTAT
Statistics
Matches: 307, Mismatches: 31, Indels: 19
0.86 0.09 0.05
Matches are distributed among these distances:
224 4 0.01
225 171 0.56
226 17 0.06
227 111 0.36
228 4 0.01
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.26
Consensus pattern (223 bp):
TTTTTTTGTGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCTTAAAAC
GCCGCTAAACCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTATTTTGTTCGACGCTTTC
CCAAAAACACCGCTAAAGCCCTGAGCATTAGCGGCGCTTACTTAAAAACACCACTAAATCCCCGA
AAGCTCAAAAAACGGCATCGTTGGGCTT
Found at i:22974137 original size:113 final size:113
Alignment explanation
Indices: 22973482--22974129 Score: 752
Period size: 114 Copynumber: 5.7 Consensus size: 113
22973472 AAAGGTTTTT
** * * ** * * * *
22973482 GCGGCGCTTTTTTAAAAACGCCGCTAAAGCCCTAAAAGTTTAGAAAACGACGCCGTTGGGCTTAG
1 GCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAG
* ** *
22973547 GTTTTTTTGCGGCGCTTTAACAAAAACGCCGCTAAAGCCCTAAGCATTA
66 G-TTTTTTGTGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* * * * * *
22973596 GCGGCGCATT-CTT-AAAATGCCGCTAAAGCCCACGAATTG-TCAGAAAACGGTGCCGTTGGGCT
1 GCGGCGC-TTACTTAAAAACGCCACTAAATCCC-CGAA-AGCTCAGAAAACGGCGTCGTTGGGCT
* * * *
22973658 TAGTTTTTGTTGCGACGCTTTCTCAAAAATGCCGCTAAAGCCCTGAGCATTA
63 TAGGTTTT-TTGTGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* * * * *
22973710 GCGGCGCTTACTTAAAAACGCCACTAAATCCTCGAAAGCTCAAAAAATGGTGACGTTGGGCTT--
1 GCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAG
* *
22973773 TTTTTTTGTGGCGCTTTCTCAAAAATGCCGCTAAAGCCCTGAGCATTA
66 GTTTTTTGTGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* *
22973821 GCGGCGCTTACTTAATAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCATTGGGCTTAG
1 GCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAG
* * *
22973886 GTATTTTT-TCGGCGCTTTCCCAAAAACACCGCTAAAGCCTTGAGCATTA
66 GT-TTTTTGT-GGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* * * * *
22973935 GCGGCGTTTACTTAAAAACACCACTAAATCCCCGAAAGCTCAGAAAACGGCATTGTTGGGCTTTG
1 GCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAG
* *
22974000 GTTTTTTGTGGCGCTTTCTCGAAAACGCCGCGAAAGCCCTGAGCATTA
66 GTTTTTTGTGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* * *
22974048 GCGGCTCTGT-CTTAAAAACGCCGCTAAATCCTCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTA
1 GCGGCGCT-TACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTA
*
22974112 GGTATTTTGTGGCGCTTT
65 GGTTTTTTGTGGCGCTTT
22974130 ATGGAAAATG
Statistics
Matches: 464, Mismatches: 57, Indels: 27
0.85 0.10 0.05
Matches are distributed among these distances:
111 97 0.21
112 5 0.01
113 136 0.29
114 209 0.45
115 17 0.04
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.26
Consensus pattern (113 bp):
GCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAG
GTTTTTTGTGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
Found at i:22974502 original size:40 final size:40
Alignment explanation
Indices: 22974409--22974516 Score: 146
Period size: 40 Copynumber: 2.7 Consensus size: 40
22974399 TTTGGATAAA
*
22974409 AAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTTTTTGG
1 AAAACGCCGCTAAAGATCGAGCATTAGCGGCACTTTTTGG
* * *
22974449 AAAATGCCACTAAAGATCGAGTATTAGCGGCACTTTTTGG
1 AAAACGCCGCTAAAGATCGAGCATTAGCGGCACTTTTTGG
* * *
22974489 AAAACGCTGCTAAAAAT-AAGCATTAGCG
1 AAAACGCCGCTAAAGATCGAGCATTAGCG
22974517 ACGTTTTCCA
Statistics
Matches: 58, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
39 9 0.16
40 49 0.84
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.23
Consensus pattern (40 bp):
AAAACGCCGCTAAAGATCGAGCATTAGCGGCACTTTTTGG
Found at i:22976736 original size:41 final size:41
Alignment explanation
Indices: 22976654--22976783 Score: 185
Period size: 41 Copynumber: 3.2 Consensus size: 41
22976644 NNNNNNNGCA
22976654 GCTAATGCTCA-GGCTTTAGC-GCG-TTTTGAGAAAGCGCC
1 GCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCC
* * *
22976692 GCTAATGCTAAGGGCTTTAGCGGCGTTTTTTAGAAAGCGTC
1 GCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCC
* *
22976733 GCTAATGCTCAGGGCTTTAGCGGCGTTTTTGATAAAGCACC
1 GCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCC
*
22976774 GCGAATGCTC
1 GCTAATGCTC
22976784 TATTTTTAGC
Statistics
Matches: 80, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
38 10 0.12
39 9 0.11
40 3 0.04
41 58 0.73
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (41 bp):
GCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCC
Found at i:22976797 original size:81 final size:79
Alignment explanation
Indices: 22976654--22976831 Score: 193
Period size: 81 Copynumber: 2.2 Consensus size: 79
22976644 NNNNNNNGCA
* *
22976654 GCTAATGCTCA-GGCTTTAGCGCGTTTTGAGAAAGCGCCGCTAATGCTAAGGGCTTTAGCGGCGT
1 GCTAATGCTCAGGGCTTTAGCGCGTTTTGAGAAAGCACCGCGAATGCTAA-GGCTTTAGCGGCGT
* * *
22976718 TTTTTAGAAAGC-GT
65 TTTCTAAAAAGCACT
* * **
22976732 CGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGATAAAGCACCGCGAATGCTCTA-TTTTTAGCGG
1 -GCTAATGCTCAGGGCTTTAGC-GCG-TTTTGAGAAAGCACCGCGAATGCT-AAGGCTTTAGCGG
22976796 CGTTTTCTAAAAAGCACT
62 CGTTTTCTAAAAAGCACT
*
22976814 GCTAAT-CTCAGGGATTTA
1 GCTAATGCTCAGGGCTTTA
22976832 AAATAATTTA
Statistics
Matches: 84, Mismatches: 10, Indels: 9
0.82 0.10 0.09
Matches are distributed among these distances:
79 11 0.13
80 20 0.24
81 30 0.36
82 22 0.26
83 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (79 bp):
GCTAATGCTCAGGGCTTTAGCGCGTTTTGAGAAAGCACCGCGAATGCTAAGGCTTTAGCGGCGTT
TTCTAAAAAGCACT
Found at i:22976993 original size:14 final size:14
Alignment explanation
Indices: 22976974--22977075 Score: 64
Period size: 14 Copynumber: 7.1 Consensus size: 14
22976964 CGTTCGAGTA
*
22976974 TAGGGTTTTTGGTT
1 TAGGGTTTATGGTT
*
22976988 TAGGGTATATGGTT
1 TAGGGTTTATGGTT
* *
22977002 TAGAGTTTAAGGTT
1 TAGGGTTTATGGTT
*
22977016 TAGGTGTTACCAT--TT
1 TAGG-GTT--TATGGTT
* *
22977031 TAAGGTTTATGGAT
1 TAGGGTTTATGGTT
* *
22977045 TATGGGTTTAGGGGT
1 TA-GGGTTTATGGTT
*
22977060 TATGGTTTATGGTT
1 TAGGGTTTATGGTT
22977074 TA
1 TA
22977076 AATGTTGGGG
Statistics
Matches: 65, Mismatches: 17, Indels: 12
0.69 0.18 0.13
Matches are distributed among these distances:
12 2 0.03
14 43 0.66
15 19 0.29
17 1 0.02
ACGTcount: A:0.20, C:0.02, G:0.31, T:0.47
Consensus pattern (14 bp):
TAGGGTTTATGGTT
Found at i:22977054 original size:22 final size:21
Alignment explanation
Indices: 22977029--22977076 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
22977019 GTGTTACCAT
*
22977029 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGGTTATGGATTAT-GG
* *
22977051 TTTAGGGGTTATGGTTTATGG
1 TTTAAGGGTTATGGATTATGG
22977072 TTTAA
1 TTTAA
22977077 ATGTTGGGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.48
Consensus pattern (21 bp):
TTTAAGGGTTATGGATTATGG
Found at i:22977392 original size:14 final size:15
Alignment explanation
Indices: 22977366--22977403 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
22977356 AGTAATTATA
22977366 TATGGATTTAGGGAT
1 TATGGATTTAGGGAT
22977381 TATGGA-TTAGGGAT
1 TATGGATTTAGGGAT
22977395 TATGG-TTTA
1 TATGGATTTA
22977404 AGGGTTGGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 16 0.73
15 6 0.27
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (15 bp):
TATGGATTTAGGGAT
Found at i:22977615 original size:22 final size:24
Alignment explanation
Indices: 22977589--22977632 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
22977579 GAAAAATATT
22977589 AAATAT-ATA-TTTTTTATTTTTA
1 AAATATAATAGTTTTTTATTTTTA
22977611 AAATATAATAGTTTTTTATTTT
1 AAATATAATAGTTTTTTATTTT
22977633 AAGTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.30
23 3 0.15
24 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AAATATAATAGTTTTTTATTTTTA
Found at i:22977738 original size:68 final size:66
Alignment explanation
Indices: 22977673--22977871 Score: 197
Period size: 68 Copynumber: 3.1 Consensus size: 66
22977663 TGTTACAAAA
*
22977673 TAATAATAAAACATCAAGTTTG-T-TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATA
1 TAATAATAAAA-AT-AA-TTTGATATTTACTAATCAAATGTTAGATTTTATTACAACAATTAATA
22977736 CAAT
63 CAAT
** *
22977740 TAATACA-ATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTGCAACAATTAATA
1 TAATA-ATAAAAATAATTTGAT--ATTTACTAATCAAATGTTAGATTTTATTACAACAATTAATA
22977804 CAAT
63 CAAT
* * *
22977808 TAATAAT----TTGA--T-AAATTTACTAATCAAATGTTAGATTTTATTACAACAATT-A-ACAA
1 TAATAATAAAAATAATTTGATATTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAA
22977864 T
66 T
22977865 TAATAAT
1 TAATAAT
22977872 TTGATAATTT
Statistics
Matches: 118, Mismatches: 8, Indels: 22
0.80 0.05 0.15
Matches are distributed among these distances:
57 12 0.10
58 1 0.01
59 36 0.31
61 1 0.01
62 1 0.01
64 6 0.05
65 3 0.03
66 2 0.02
67 8 0.07
68 48 0.41
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.40
Consensus pattern (66 bp):
TAATAATAAAAATAATTTGATATTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAA
T
Found at i:22977740 original size:9 final size:9
Alignment explanation
Indices: 22977726--22977753 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
22977716 TTTTGTTACA
22977726 ACAATTAAT
1 ACAATTAAT
22977735 ACAATTAAT
1 ACAATTAAT
22977744 ACAATTAAT
1 ACAATTAAT
22977753 A
1 A
22977754 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:22977807 original size:59 final size:59
Alignment explanation
Indices: 22977735--22977887 Score: 274
Period size: 59 Copynumber: 2.6 Consensus size: 59
22977725 AACAATTAAT
*
22977735 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTGCA
1 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACA
22977794 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACA
1 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACA
*
22977853 ACAATT-A-ACAATTAATAATTTGATAATTTTACTAA
1 ACAATTAATACAATTAATAATTTGATAAATTTACTAA
22977888 CAATTAATTT
Statistics
Matches: 92, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
57 27 0.29
58 1 0.01
59 64 0.70
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (59 bp):
ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACA
Found at i:22977897 original size:16 final size:16
Alignment explanation
Indices: 22977876--22977917 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
22977866 AATAATTTGA
*
22977876 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
22977892 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
22977908 TAGTTTTAAT
1 TAATTTTAAT
22977918 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:22977901 original size:22 final size:22
Alignment explanation
Indices: 22977891--22977951 Score: 77
Period size: 22 Copynumber: 2.8 Consensus size: 22
22977881 TTACTAACAA
* * *
22977891 TTAATTTTAATAACAATTAGTT
1 TTAATTTTAATAAAAAATAATT
*
22977913 TTAATTTTATTAAAAAATAATT
1 TTAATTTTAATAAAAAATAATT
*
22977935 TTAATTTTAATTAAAAA
1 TTAATTTTAATAAAAAA
22977952 CGGGCCGGGC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (22 bp):
TTAATTTTAATAAAAAATAATT
Found at i:22977906 original size:50 final size:56
Alignment explanation
Indices: 22977730--22977909 Score: 230
Period size: 59 Copynumber: 3.2 Consensus size: 56
22977720 GTTACAACAA
22977730 TTAAT-ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATT
1 TTAATAACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAA-GTTAGATT
*
22977786 TTATTGCAACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATT
1 TTAAT--AACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAA-GTTAGATT
* *
22977845 TTATTACAACAATT-A-ACAATTAATAATTTGATAATTTTACTAA-C-AA-TTA-ATT
1 TTA--ATAACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAAGTTAGATT
22977897 TTAATAACAATTA
1 TTAATAACAATTA
22977910 GTTTTAATTT
Statistics
Matches: 113, Mismatches: 5, Indels: 17
0.84 0.04 0.13
Matches are distributed among these distances:
50 8 0.07
52 6 0.05
53 3 0.03
55 2 0.02
56 5 0.04
57 27 0.24
58 1 0.01
59 61 0.54
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.41
Consensus pattern (56 bp):
TTAATAACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAAGTTAGATT
Found at i:22981693 original size:43 final size:43
Alignment explanation
Indices: 22981626--22981712 Score: 122
Period size: 43 Copynumber: 2.0 Consensus size: 43
22981616 CAATGATGTA
* *
22981626 CAAGATTTCCTTGATTAAATAAATGTATTATATCTTTTATTAC
1 CAAGATTTACTTGATTAAATAAATGCATTATATCTTTTATTAC
* *
22981669 CAAGATTTACTTGATTAAGA-AAATGCATTGTATGTTTTATTAC
1 CAAGATTTACTTGATTAA-ATAAATGCATTATATCTTTTATTAC
22981712 C
1 C
22981713 TTGCATATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
43 38 0.97
44 1 0.03
ACGTcount: A:0.34, C:0.11, G:0.10, T:0.44
Consensus pattern (43 bp):
CAAGATTTACTTGATTAAATAAATGCATTATATCTTTTATTAC
Found at i:22982037 original size:43 final size:43
Alignment explanation
Indices: 22981989--22982290 Score: 417
Period size: 43 Copynumber: 7.0 Consensus size: 43
22981979 TTTTAACGGT
* * *
22981989 GTTTGTGGGAAAAGCGCCGTTAAAAGTGATGATCTATAGCAGC
1 GTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTATAGCGGC
* *
22982032 GTTTGTGGTAAAAGCGTCGCTAAAAGTCATGATCTATAGCGGC
1 GTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTATAGCGGC
*
22982075 GTTTGTGGGAAAAGCGCCGCAAAAAGTCATGA-CTTATAGCGGC
1 GTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATC-TATAGCGGC
*
22982118 GTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTTTAGCGGC
1 GTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTATAGCGGC
* *
22982161 GTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTTTAGTGGC
1 GTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTATAGCGGC
* * * * *
22982204 GTTTGTGGGAAAAGCGCTGCTAAAGGTCTTGTTCTATAGCGGT
1 GTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTATAGCGGC
* * * * *
22982247 GTTTGTGTGAAAAGCACCGCTAAAGGTCTTGTTCTATAGCGGC
1 GTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTATAGCGGC
22982290 G
1 G
22982291 GTGTCAATAG
Statistics
Matches: 235, Mismatches: 22, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
42 1 0.00
43 233 0.99
44 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (43 bp):
GTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTATAGCGGC
Found at i:22985376 original size:31 final size:31
Alignment explanation
Indices: 22985283--22985378 Score: 165
Period size: 31 Copynumber: 3.1 Consensus size: 31
22985273 GGCAAATTAC
*
22985283 AAGAGTAATTGAATCCTAATAAAACTCTTTC
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
*
22985314 AAGAATAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
22985346 AAGAGTAATTGAATCCTAATAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
22985377 AA
1 AA
22985379 ATTATCTAAG
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
31 32 0.52
32 29 0.48
ACGTcount: A:0.47, C:0.14, G:0.08, T:0.31
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTA
Found at i:22986829 original size:34 final size:34
Alignment explanation
Indices: 22986781--22986847 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
22986771 AAATTCCTGT
22986781 GAAAAAAGTGAGCAAAGAATATGGTTTTAGTAAG
1 GAAAAAAGTGAGCAAAGAATATGGTTTTAGTAAG
22986815 GAAAAAAGCT-AGCAAAGAATATGGTTTTAGTAA
1 GAAAAAAG-TGAGCAAAGAATATGGTTTTAGTAA
22986848 ACGCCCATGA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
34 31 0.97
35 1 0.03
ACGTcount: A:0.48, C:0.04, G:0.24, T:0.24
Consensus pattern (34 bp):
GAAAAAAGTGAGCAAAGAATATGGTTTTAGTAAG
Found at i:22989366 original size:202 final size:202
Alignment explanation
Indices: 22989019--22989391 Score: 620
Period size: 202 Copynumber: 1.8 Consensus size: 202
22989009 ATGTTATCAA
*
22989019 ATTTGTTGCTCAATTTGCTAATGCTAGCTCATCAAATAATACATTGCAATAATAATATGAGTTAC
1 ATTTGTTGCTCAATTTGCTAATGCTAGCTCATCAAACAATACATTGCAATAATAATATGAGTTAC
**
22989084 AAATCAAATATCATCTCTACATCATCCAAACCATTACTCTACAGAGAGGACATTTCATTCCTAAC
66 AAATCAAATATCATCTCTACATCATCCAAACCATTAAACTACAGAGAGGACATTTCATTCCTAAC
* * * *
22989149 CTATGAAGAACGGACACGCCAGAAATCCCCTTGTACTGGTGCCAACACGTTGTCCGACAATGGAG
131 CAATGAAGAACGGACAAGCCAGAAATCCCCTCGTACAGGTGCCAACACGTTGTCCGACAATGGAG
22989214 ATGTCAG
196 ATGTCAG
*
22989221 ATTTGTTGTTCAATTTGCTAATGCTAGCTCATCAAACAATACATTGCAATAATAATATGAGTTAC
1 ATTTGTTGCTCAATTTGCTAATGCTAGCTCATCAAACAATACATTGCAATAATAATATGAGTTAC
* * *
22989286 AAATCAAATATCATCTCTACATCATCCAAACCATTAAACTATAGAGTGGACATTTCATTCCTAGC
66 AAATCAAATATCATCTCTACATCATCCAAACCATTAAACTACAGAGAGGACATTTCATTCCTAAC
* **
22989351 CAATGAAGCACGGACAAGCTGGAAATCCCCTCGTACAGGTG
131 CAATGAAGAACGGACAAGCCAGAAATCCCCTCGTACAGGTG
22989392 TCGACATGGT
Statistics
Matches: 157, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
202 157 1.00
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (202 bp):
ATTTGTTGCTCAATTTGCTAATGCTAGCTCATCAAACAATACATTGCAATAATAATATGAGTTAC
AAATCAAATATCATCTCTACATCATCCAAACCATTAAACTACAGAGAGGACATTTCATTCCTAAC
CAATGAAGAACGGACAAGCCAGAAATCCCCTCGTACAGGTGCCAACACGTTGTCCGACAATGGAG
ATGTCAG
Found at i:22992070 original size:2 final size:2
Alignment explanation
Indices: 22992063--22992097 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
22992053 CATATACATA
*
22992063 TG TG TG TG TG TG TG TG TG TG TG TG TG CG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
22992098 ACATATATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.03, G:0.49, T:0.49
Consensus pattern (2 bp):
TG
Found at i:22992105 original size:2 final size:2
Alignment explanation
Indices: 22992100--22992151 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
22992090 GTGTGTGTAC
*
22992100 AT AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22992142 AT AT AT AT AT
1 AT AT AT AT AT
22992152 TCAGAATGCA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:22992623 original size:22 final size:23
Alignment explanation
Indices: 22992598--22992649 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 23
22992588 GGCAGCGGAT
* *
22992598 AAAACGAAA-ATAAAAACAAAGC
1 AAAACGAAACAAAAAAAAAAAGC
*
22992620 AAAAC-AAACAAAAAAAAAAAGT
1 AAAACGAAACAAAAAAAAAAAGC
22992642 AAAA-GAAA
1 AAAACGAAA
22992650 GGCAACCGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
21 3 0.12
22 22 0.88
ACGTcount: A:0.79, C:0.10, G:0.08, T:0.04
Consensus pattern (23 bp):
AAAACGAAACAAAAAAAAAAAGC
Found at i:22995891 original size:33 final size:34
Alignment explanation
Indices: 22995845--22995978 Score: 121
Period size: 33 Copynumber: 3.7 Consensus size: 34
22995835 TTAACCGTTA
* *
22995845 TCGGTGGATTCAGCACTTAGCAACCACCAGTGAT
1 TCGGTGGAATCAGCACTTAGCAACCACCAATGAT
*
22995879 TCGG-GGAATCAGCACTTAGCAACCCCTTTCACATTCAAAGAT
1 TCGGTGGAATCAGCACTTAGCAA---C---CAC---CAATGAT
*
22995921 AT-GGTGGAATCAGCACTTAGCAACCACCAATGAA
1 -TCGGTGGAATCAGCACTTAGCAACCACCAATGAT
22995955 TCGG-GGAATCAGCACTTAGCAACC
1 TCGGTGGAATCAGCACTTAGCAACC
22995979 CCTTGGGGAA
Statistics
Matches: 83, Mismatches: 5, Indels: 25
0.73 0.04 0.22
Matches are distributed among these distances:
33 38 0.46
34 11 0.13
36 1 0.01
37 3 0.04
39 3 0.04
40 1 0.01
42 7 0.08
43 19 0.23
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (34 bp):
TCGGTGGAATCAGCACTTAGCAACCACCAATGAT
Found at i:22995986 original size:26 final size:26
Alignment explanation
Indices: 22995957--22996006 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
22995947 CCAATGAATC
22995957 GGGGAATCAGCACTTAGCAACCCCTT
1 GGGGAATCAGCACTTAGCAACCCCTT
*
22995983 GGGGAATCATCACTTAGCAACCCC
1 GGGGAATCAGCACTTAGCAACCCC
22996007 CTTCACATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.28, C:0.32, G:0.22, T:0.18
Consensus pattern (26 bp):
GGGGAATCAGCACTTAGCAACCCCTT
Found at i:22996037 original size:102 final size:97
Alignment explanation
Indices: 22995881--22996097 Score: 319
Period size: 102 Copynumber: 2.2 Consensus size: 97
22995871 CCAGTGATTC
* *
22995881 GGGGAATCAGCACTTAGCAACCCCTTTCACATTCAAAGATATGGTGGAATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAAAGATACGGTGGAATCAGCACTTAGCAACC
* *
22995946 ACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTT
66 ACC----AAT-GGGGAATCAGCACTTAGCAACCCATG
* *
22995983 GGGGAATCATCACTTAGCAACCCCCTTCACATTTAAAGATACGGTGGAATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAAAGATACGGTGGAATCAGCACTTAGCAACC
*
22996048 ACCAATGGGGAATCAGCACTTAGCAATCCATG
66 ACCAATGGGGAATCAGCACTTAGCAACCCATG
22996080 GGGGAATCAGCAC-TAGCA
1 GGGGAATCAGCACTTAGCA
22996098 NNNNNNNNNN
Statistics
Matches: 107, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
96 5 0.05
97 35 0.33
98 3 0.03
102 64 0.60
ACGTcount: A:0.33, C:0.27, G:0.21, T:0.20
Consensus pattern (97 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAAAGATACGGTGGAATCAGCACTTAGCAACC
ACCAATGGGGAATCAGCACTTAGCAACCCATG
Found at i:22996090 original size:26 final size:27
Alignment explanation
Indices: 22996028--22996097 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 27
22996018 AAGATACGGT
22996028 GGAATCAGCACTTAGCAACCACCAATGG
1 GGAATCAGCACTTAGCAA-CACCAATGG
*
22996056 GGAATCAGCACTTAGCAA-TCC-ATGGG
1 GGAATCAGCACTTAGCAACACCAAT-GG
22996082 GGAATCAGCAC-TAGCA
1 GGAATCAGCACTTAGCA
22996098 NNNNNNNNNN
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
25 7 0.17
26 15 0.38
28 18 0.45
ACGTcount: A:0.34, C:0.26, G:0.24, T:0.16
Consensus pattern (27 bp):
GGAATCAGCACTTAGCAACACCAATGG
Found at i:22999792 original size:21 final size:21
Alignment explanation
Indices: 22999751--22999793 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
22999741 AATAAAGTAG
*
22999751 ATTATATATTATTTTTATAGT
1 ATTATATATTATATTTATAGT
22999772 ATTATATATTATGATTT-TAGT
1 ATTATATATTAT-ATTTATAGT
22999793 A
1 A
22999794 AATTCATGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (21 bp):
ATTATATATTATATTTATAGT
Found at i:23000014 original size:39 final size:40
Alignment explanation
Indices: 22999971--23000075 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
22999961 TTTCATTATG
22999971 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* *** *
23000010 CTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
23000055 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
23000076 ACACCTCTAT
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 15 0.28
40 5 0.09
44 17 0.31
45 17 0.31
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.34
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:23000069 original size:45 final size:44
Alignment explanation
Indices: 22999969--23000078 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
22999959 TTTTTCATTA
22999969 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
23000008 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
23000053 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
23000079 CCTCTATTCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 25 0.43
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:23000078 original size:16 final size:16
Alignment explanation
Indices: 23000057--23000121 Score: 112
Period size: 16 Copynumber: 4.1 Consensus size: 16
23000047 TTGATTTGCT
23000057 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
23000073 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
23000089 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
* *
23000105 ATTACGCCTCTAATCC
1 ATTACACCTCTATTCC
23000121 A
1 A
23000122 ATCCAGCGAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.26, C:0.37, G:0.02, T:0.35
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:23000375 original size:11 final size:12
Alignment explanation
Indices: 23000347--23000380 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
23000337 GCCCAAACGT
23000347 CGAAATTTTTGAA
1 CGAAATTTTT-AA
23000360 CGAAATTTTT-A
1 CGAAATTTTTAA
23000371 CGAAATTTTT
1 CGAAATTTTT
23000381 CCGTAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.52
13 10 0.48
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.44
Consensus pattern (12 bp):
CGAAATTTTTAA
Found at i:23006413 original size:27 final size:27
Alignment explanation
Indices: 23006376--23006453 Score: 147
Period size: 27 Copynumber: 2.9 Consensus size: 27
23006366 CCAATGAATC
23006376 GGGGAATCAACACTTAGCAACCCCTTG
1 GGGGAATCAACACTTAGCAACCCCTTG
23006403 GGGGAATCAACACTTAGCAACCCCTTG
1 GGGGAATCAACACTTAGCAACCCCTTG
*
23006430 GGGGAATCAGCACTTAGCAACCCC
1 GGGGAATCAACACTTAGCAACCCC
23006454 CTTCACATTT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.29, C:0.31, G:0.23, T:0.17
Consensus pattern (27 bp):
GGGGAATCAACACTTAGCAACCCCTTG
Found at i:23006481 original size:130 final size:130
Alignment explanation
Indices: 23006300--23006556 Score: 451
Period size: 130 Copynumber: 2.0 Consensus size: 130
23006290 CCAGTGATTC
* * *
23006300 GGGGAATTAGCACTTAGCAACCCCTTTCACATTCAAAGATATGGTGGAATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAAAGATACGGTGGAATCAGCACTTAGCAACC
23006365 ACCAATGAATCGGGGAATCAACACTTAGCAACCCCTTGGGGGAATCAACACTTAGCAACCCCTTG
66 ACCAATGAATCGGGGAATCAACACTTAGCAACCCCTTGGGGGAATCAACACTTAGCAACCCCTTG
*
23006430 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAGATACGGTGGAATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAAAGATACGGTGGAATCAGCACTTAGCAACC
* * *
23006495 ATCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGGAATCAGCACTTAGCAACCCC
66 ACCAATGAATCGGGGAATCAACACTTAGCAACCCCTTGGGGGAATCAACACTTAGCAACCCC
23006557 CTTTATATTT
Statistics
Matches: 120, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
130 120 1.00
ACGTcount: A:0.32, C:0.28, G:0.21, T:0.20
Consensus pattern (130 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAAAGATACGGTGGAATCAGCACTTAGCAACC
ACCAATGAATCGGGGAATCAACACTTAGCAACCCCTTGGGGGAATCAACACTTAGCAACCCCTTG
Found at i:23006510 original size:103 final size:103
Alignment explanation
Indices: 23006403--23006634 Score: 401
Period size: 103 Copynumber: 2.3 Consensus size: 103
23006393 CAACCCCTTG
*
23006403 GGGGAATCAACACTTAGCAACCCCTTGGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAG
1 GGGGAATCAGCACTTAGCAACCCCTTGGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAG
*
23006468 ATACGGTGGAATCAGCACTTAGCAACCATCAATGAATC
66 ATACGGTGGAATCAGCACTTAGCAACCACCAATGAATC
* *
23006506 GGGGAATCAGCACTTAGCAACCCCTTGGGGGAATCAGCACTTAGCAACCCCCTTTATATTTAAAG
1 GGGGAATCAGCACTTAGCAACCCCTTGGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAG
* *
23006571 GTACGGTGGAATCAGCACTTAGCAACCACCAATGAGTC
66 ATACGGTGGAATCAGCACTTAGCAACCACCAATGAATC
*
23006609 GAGGAATCAGCACTTAGCAACCCCTT
1 GGGGAATCAGCACTTAGCAACCCCTT
23006635 CATATTCAAT
Statistics
Matches: 122, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 122 1.00
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (103 bp):
GGGGAATCAGCACTTAGCAACCCCTTGGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAG
ATACGGTGGAATCAGCACTTAGCAACCACCAATGAATC
Found at i:23010886 original size:50 final size:50
Alignment explanation
Indices: 23010762--23011003 Score: 215
Period size: 50 Copynumber: 4.7 Consensus size: 50
23010752 GATAATAACA
* * *
23010762 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTT-TCTTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATAT-CGG
* * *
23010811 TACCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
* ** ** *
23010861 TGGCC-ATGCCATGCCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 T-GCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
* *
23010911 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTT-TCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCAT-A--TC---GG
* *
23010967 TGCCAATGCCATGTTCCAAACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
23011004 TCTCATTACC
Statistics
Matches: 158, Mismatches: 23, Indels: 17
0.80 0.12 0.09
Matches are distributed among these distances:
48 4 0.03
49 40 0.25
50 72 0.46
51 4 0.03
53 2 0.01
56 36 0.23
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
Found at i:23013644 original size:39 final size:39
Alignment explanation
Indices: 23013590--23013671 Score: 155
Period size: 39 Copynumber: 2.1 Consensus size: 39
23013580 AAGCAAAACA
*
23013590 GTAATGGAAAGAAATCAAAAGATTGAGAATCAAATCGAT
1 GTAATGGAAAGAAATCAAAAGATTGAGAATCAAATCAAT
23013629 GTAATGGAAAGAAATCAAAAGATTGAGAATCAAATCAAT
1 GTAATGGAAAGAAATCAAAAGATTGAGAATCAAATCAAT
23013668 GTAA
1 GTAA
23013672 ACAAGATTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.52, C:0.07, G:0.20, T:0.21
Consensus pattern (39 bp):
GTAATGGAAAGAAATCAAAAGATTGAGAATCAAATCAAT
Found at i:23013665 original size:20 final size:20
Alignment explanation
Indices: 23013601--23013666 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
23013591 TAATGGAAAG
23013601 AAATCAAAAGATTGAGAATC
1 AAATCAAAAGATTGAGAATC
* * * **
23013621 AAATC-GATGTAATG-GAAAG
1 AAATCAAAAG-ATTGAGAATC
23013640 AAATCAAAAGATTGAGAATC
1 AAATCAAAAGATTGAGAATC
23013660 AAATCAA
1 AAATCAA
23013667 TGTAAACAAG
Statistics
Matches: 33, Mismatches: 10, Indels: 6
0.67 0.20 0.12
Matches are distributed among these distances:
19 13 0.39
20 20 0.61
ACGTcount: A:0.55, C:0.09, G:0.17, T:0.20
Consensus pattern (20 bp):
AAATCAAAAGATTGAGAATC
Found at i:23013866 original size:3 final size:3
Alignment explanation
Indices: 23013847--23013885 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
23013837 CTGTGTTCTT
23013847 TTA TTA TT- TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
23013886 TCTCCTTGGC
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 4 0.12
3 30 0.88
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (3 bp):
TTA
Found at i:23015844 original size:75 final size:75
Alignment explanation
Indices: 23015716--23015863 Score: 278
Period size: 75 Copynumber: 2.0 Consensus size: 75
23015706 GAAAAGTTGG
23015716 TGGCGACTCCCAATTTTCATTTTTTAAAGTCGACAACCTAAAAATTTTATTTTTCAAAAAATGGT
1 TGGCGACTCCCAATTTTCATTTTTTAAAGTCGACAACCTAAAAATTTTATTTTTCAAAAAATGGT
*
23015781 TTCGACAGCT
66 TTCAACAGCT
*
23015791 TGGCGACTCCCAATTTTCATTTTTTAAAGTCGACAACCTAAAAATTTTGTTTTTCAAAAAATGGT
1 TGGCGACTCCCAATTTTCATTTTTTAAAGTCGACAACCTAAAAATTTTATTTTTCAAAAAATGGT
23015856 TTCAACAG
66 TTCAACAG
23015864 NNNNNNNNNN
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 71 1.00
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.37
Consensus pattern (75 bp):
TGGCGACTCCCAATTTTCATTTTTTAAAGTCGACAACCTAAAAATTTTATTTTTCAAAAAATGGT
TTCAACAGCT
Found at i:23017130 original size:24 final size:24
Alignment explanation
Indices: 23017103--23017148 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
23017093 AGAACAGTCC
* *
23017103 CAAAAGGAAATGCAGGAGCAGCTT
1 CAAAAGCAAATGAAGGAGCAGCTT
*
23017127 CAAAAGCAAATGAATGAGCAGC
1 CAAAAGCAAATGAAGGAGCAGC
23017149 AAAAAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (24 bp):
CAAAAGCAAATGAAGGAGCAGCTT
Found at i:23019802 original size:18 final size:17
Alignment explanation
Indices: 23019779--23019812 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
23019769 AAAATAATAG
23019779 CAAAGAAAAAGGAAAAAA
1 CAAAGAAAAA-GAAAAAA
23019797 CAAAGAAAAAGAAAAA
1 CAAAGAAAAAGAAAAA
23019813 GGAGAGGCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.79, C:0.06, G:0.15, T:0.00
Consensus pattern (17 bp):
CAAAGAAAAAGAAAAAA
Found at i:23021388 original size:132 final size:132
Alignment explanation
Indices: 23021151--23022062 Score: 1466
Period size: 132 Copynumber: 6.9 Consensus size: 132
23021141 CCGACAGTGA
* *
23021151 AGCAGATCGAAGATGGTGGATATTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * *
23021216 TATACTTCCCTAGACAATAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGC
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGC
23021281 GG
131 GG
23021283 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* *
23021348 TCTACTTTCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTTCCTAAGCAGTAGC
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGC
23021413 GG
131 GG
* * *
23021415 AGCTGATCGAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * *
23021480 TCTACTTCCCTAGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCTTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGC
23021545 GG
131 GG
* * * * *
23021547 AGCAGATCGAAGATGGCAGATTTTACCTCCCCGTGGTTATAGGGGAGTACATTGAAGCTAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * *
23021612 TCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTGATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGC
23021677 GG
131 GG
* * *
23021679 AGTAGATCAAAGATGGCGGATTTTACCTCCCTATGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* *
23021744 TCTACTTCCTTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGC
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGC
23021809 GG
131 GG
** *
23021811 AGCAGATCGAAGATGGAAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
*
23021876 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAAATTTCAGATCTTATCTCCCTAAGCAGTAGC
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGC
23021941 GG
131 GG
* * * *
23021943 AGCAGATCGAAGATAGCAGATTTTACCTCCCTGTGGTTACAGCGGAGTACATTGAATCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * * *
23022008 TCTACTTCCCTGGGCATCAGTGGAATAGATTGAAGATTGTGA-ATCCTATCTCCCT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATT-TCAGATCTTATCTCCCT
23022063 TGTCAGCAGT
Statistics
Matches: 722, Mismatches: 57, Indels: 2
0.92 0.07 0.00
Matches are distributed among these distances:
132 720 1.00
133 2 0.00
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (132 bp):
AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGC
GG
Found at i:23022062 original size:44 final size:44
Alignment explanation
Indices: 23022014--23022129 Score: 178
Period size: 44 Copynumber: 2.6 Consensus size: 44
23022004 TAATTCTACT
* * * *
23022014 TCCCTGGGCATCAGTGGAATAGATTGAAGATTGTGAATCCTATC
1 TCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGAGAATCCTATC
*
23022058 TCCCTTGTCAGCAGTGGAATAGGTTGAAGATTGAGAATCCTATC
1 TCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGAGAATCCTATC
*
23022102 TCCTTGGTCAGCAGTGGAATAGGTTGAA
1 TCCCTGGTCAGCAGTGGAATAGGTTGAA
23022130 AGTAAACAAA
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 65 1.00
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (44 bp):
TCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGAGAATCCTATC
Found at i:23022744 original size:20 final size:20
Alignment explanation
Indices: 23022719--23022784 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
23022709 TAATGGAAAG
23022719 AAATCAAAAGATTGAGAATC
1 AAATCAAAAGATTGAGAATC
* * **
23022739 AAATC-AATGTAATG-GAAAG
1 AAATCAAAAG-ATTGAGAATC
23022758 AAATCAAAAGATTGAGAATC
1 AAATCAAAAGATTGAGAATC
23022778 AAATCAA
1 AAATCAA
23022785 TGTAAACAAG
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
19 14 0.40
20 21 0.60
ACGTcount: A:0.56, C:0.09, G:0.15, T:0.20
Consensus pattern (20 bp):
AAATCAAAAGATTGAGAATC
Found at i:23022762 original size:39 final size:39
Alignment explanation
Indices: 23022708--23022789 Score: 164
Period size: 39 Copynumber: 2.1 Consensus size: 39
23022698 AAGCAAAACA
23022708 GTAATGGAAAGAAATCAAAAGATTGAGAATCAAATCAAT
1 GTAATGGAAAGAAATCAAAAGATTGAGAATCAAATCAAT
23022747 GTAATGGAAAGAAATCAAAAGATTGAGAATCAAATCAAT
1 GTAATGGAAAGAAATCAAAAGATTGAGAATCAAATCAAT
23022786 GTAA
1 GTAA
23022790 ACAAGATTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.54, C:0.07, G:0.18, T:0.21
Consensus pattern (39 bp):
GTAATGGAAAGAAATCAAAAGATTGAGAATCAAATCAAT
Found at i:23022763 original size:19 final size:19
Alignment explanation
Indices: 23022707--23022765 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
23022697 GAAGCAAAAC
23022707 AGTAATGGAAAGAAATCAAA
1 AGTAATGGAAAGAAATC-AA
* **
23022727 AG-ATTGAGAATCAAATCAA
1 AGTAATG-GAAAGAAATCAA
*
23022746 TGTAATGGAAAGAAATCAA
1 AGTAATGGAAAGAAATCAA
23022765 A
1 A
23022766 AGATTGAGAA
Statistics
Matches: 29, Mismatches: 8, Indels: 5
0.69 0.19 0.12
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.56, C:0.07, G:0.19, T:0.19
Consensus pattern (19 bp):
AGTAATGGAAAGAAATCAA
Found at i:23022984 original size:3 final size:3
Alignment explanation
Indices: 23022976--23023007 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
23022966 TATTTTTTCT
23022976 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
23023008 TCTCCTTGGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:23024963 original size:75 final size:75
Alignment explanation
Indices: 23024835--23024981 Score: 285
Period size: 75 Copynumber: 2.0 Consensus size: 75
23024825 AAAAGATTGG
23024835 TGGCGACTCCCAATTTTCATTTTTTAAAGTCGACAACCTAAAAATTTTCTTTTTCAAAAAATGGT
1 TGGCGACTCCCAATTTTCATTTTTTAAAGTCGACAACCTAAAAATTTTCTTTTTCAAAAAATGGT
23024900 TTCGACAGCT
66 TTCGACAGCT
*
23024910 TGGCGACTCCCAATTTTCATTTTTTAAAGTCGACAACCTAAAAATTTTGTTTTTCAAAAAATGGT
1 TGGCGACTCCCAATTTTCATTTTTTAAAGTCGACAACCTAAAAATTTTCTTTTTCAAAAAATGGT
23024975 TTCGACA
66 TTCGACA
23024982 AACATCATAA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 71 1.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.37
Consensus pattern (75 bp):
TGGCGACTCCCAATTTTCATTTTTTAAAGTCGACAACCTAAAAATTTTCTTTTTCAAAAAATGGT
TTCGACAGCT
Found at i:23041894 original size:3 final size:3
Alignment explanation
Indices: 23041886--23041924 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
23041876 ATATGTAGGT
*
23041886 ATA ATA ATA ATA ATA AT- ATA ATA ATA AAA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
23041925 CAAAATTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:23041907 original size:17 final size:17
Alignment explanation
Indices: 23041885--23041920 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
23041875 TATATGTAGG
*
23041885 TATAATAATAATAATAA
1 TATAATAATAAAAATAA
23041902 TATAATAATAAAAATAA
1 TATAATAATAAAAATAA
23041919 TA
1 TA
23041921 ATAACAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
TATAATAATAAAAATAA
Found at i:23041911 original size:20 final size:20
Alignment explanation
Indices: 23041886--23041923 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
23041876 ATATGTAGGT
*
23041886 ATAATAATAATAATAATATA
1 ATAATAAAAATAATAATATA
23041906 ATAATAAAAATAATAATA
1 ATAATAAAAATAATAATA
23041924 ACAAAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
ATAATAAAAATAATAATATA
Found at i:23041939 original size:23 final size:22
Alignment explanation
Indices: 23041886--23041940 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
23041876 ATATGTAGGT
* *
23041886 ATAATAATAATAATAATATAATA
1 ATAA-AATAATAATAACAAAATA
23041909 ATAAAAATAATAATAACAAAATTA
1 AT-AAAATAATAATAACAAAA-TA
23041933 ATAAAATA
1 ATAAAATA
23041941 GACTAAAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 22 0.79
24 6 0.21
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (22 bp):
ATAAAATAATAATAACAAAATA
Found at i:23042411 original size:21 final size:21
Alignment explanation
Indices: 23042385--23042481 Score: 146
Period size: 21 Copynumber: 4.7 Consensus size: 21
23042375 AATCATATCT
23042385 TCTAAGATTGTATATATCATA
1 TCTAAGATTGTATATATCATA
*
23042406 TCTAAGATTGCATATATCATA
1 TCTAAGATTGTATATATCATA
23042427 TCTAAGATT-TCATATATCATA
1 TCTAAGATTGT-ATATATCATA
*
23042448 TCTAAGATTG--CATATCATA
1 TCTAAGATTGTATATATCATA
23042467 TCTAAGATTGTATAT
1 TCTAAGATTGTATAT
23042482 CCTCGAAAAT
Statistics
Matches: 68, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
19 18 0.26
21 50 0.74
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.41
Consensus pattern (21 bp):
TCTAAGATTGTATATATCATA
Found at i:23048512 original size:25 final size:25
Alignment explanation
Indices: 23048470--23048532 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
23048460 TTAAGTGTTT
* *
23048470 TCAGTATAGT-CTATCTATAGTAGTC
1 TCAGTATA-TACTACCTATAGCAGTC
*
23048495 TCAGTATATACTACCTATAGCAGTT
1 TCAGTATATACTACCTATAGCAGTC
*
23048520 TCAGGATATACTA
1 TCAGTATATACTA
23048533 TCAAAGACAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 1 0.03
25 32 0.97
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (25 bp):
TCAGTATATACTACCTATAGCAGTC
Found at i:23051826 original size:138 final size:138
Alignment explanation
Indices: 23051578--23052195 Score: 974
Period size: 138 Copynumber: 4.5 Consensus size: 138
23051568 TAGAAAAAGG
* * *
23051578 AATTATATTCTTTCCAAAAGAATACTAATTTCCATGTCTTTTATATTTTGACTGAAAATAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
* *
23051643 TATAATTGTTTATATTAATAAATTCGTTAAAATATATACAATTAATATTTTGAATGAATCAAATT
66 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGAATGAATCAAATT
23051708 CATATATT
131 CATATATT
* *
23051716 AATTATATTCTTTCCAAAAGAACATTAACTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
* **
23051781 TATAACTATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTGTGAATCAAATT
66 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGAATGAATCAAATT
23051846 CATATATT
131 CATATATT
* * * *
23051854 AATTATATTCTTTTCAAAAGAATATTAATTTTCATGTATTTTATATTTCGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
* * * *
23051919 TATAATTGTTTATATTTATAAATTCGGTAAAATATATACAATTAATATTTTGCATGAATAAAATT
66 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGAATGAATCAAATT
23051984 CATATATT
131 CATATATT
* * *
23051992 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTGTGA-CTAGAATTACTTA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGA-AATTAATTA
*
23052056 ATATAACTGTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTT-ATATGAATCAAA
65 ATATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGA-ATGAATCAAA
23052120 TTCATATATT
129 TTCATATATT
* *
23052130 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTC--TTATATTTTGACCAAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
23052193 TAT
66 TAT
23052196 GTAACACCCC
Statistics
Matches: 439, Mismatches: 38, Indels: 8
0.91 0.08 0.02
Matches are distributed among these distances:
136 22 0.05
137 4 0.01
138 413 0.94
ACGTcount: A:0.40, C:0.09, G:0.06, T:0.44
Consensus pattern (138 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGAATGAATCAAATT
CATATATT
Found at i:23054112 original size:43 final size:41
Alignment explanation
Indices: 23054046--23054328 Score: 275
Period size: 43 Copynumber: 6.7 Consensus size: 41
23054036 TAAATTTAGT
* * *
23054046 GATACAGGGAATCATCACATAGCAACCCCTTTCACAATCAAA
1 GATACGGGGAATCAGCACTTAGCAACCCCTTT-ACAATCAAA
* ** **
23054088 GATACGATGGAATCAGCACTTAGCAACCACCTTTA-TTTCAGT
1 GATACG-GGGAATCAGCACTTAGCAACC-CCTTTACAATCAAA
*
23054130 GATACGGGGAATCAGCACATAGCAACCCCTTTCACAATCAAA
1 GATACGGGGAATCAGCACTTAGCAACCCCTTT-ACAATCAAA
* * ** **
23054172 GATACGATGGAATCAACACTTAGCAACCACCTTTA-TTTCAGT
1 GATACG-GGGAATCAGCACTTAGCAACC-CCTTTACAATCAAA
*
23054214 GATACGGGGAATCAGCACATAGCAACCCCTTTCACAATCAAA
1 GATACGGGGAATCAGCACTTAGCAACCCCTTT-ACAATCAAA
* *
23054256 TATACGGTGGAATCAGCACTTAGCAACCACCTTTAGAATCAATA
1 GATACGG-GGAATCAGCACTTAGCAACC-CCTTTACAATCAA-A
* *
23054300 -ATTCGGGGAATTAGCACTTAGCAACCCCT
1 GATACGGGGAATCAGCACTTAGCAACCCCT
23054329 CGGGGAATCT
Statistics
Matches: 197, Mismatches: 33, Indels: 23
0.78 0.13 0.09
Matches are distributed among these distances:
40 10 0.05
41 42 0.21
42 60 0.30
43 69 0.35
44 16 0.08
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (41 bp):
GATACGGGGAATCAGCACTTAGCAACCCCTTTACAATCAAA
Found at i:23054161 original size:84 final size:84
Alignment explanation
Indices: 23054011--23054328 Score: 476
Period size: 84 Copynumber: 3.8 Consensus size: 84
23054001 CGTTACTTGG
* * * *
23054011 TGGATTCAACACTTAGCAACCACCTTAAATTT-AGTGATACAGGGAATCATCACATAGCAACCCC
1 TGGAATCAACACTTAGCAACCACCTT-TATTTCAGTGATACGGGGAATCAGCACATAGCAACCCC
23054075 TTTCACAATCAAAGATACGA
65 TTTCACAATCAAAGATACGA
*
23054095 TGGAATCAGCACTTAGCAACCACCTTTATTTCAGTGATACGGGGAATCAGCACATAGCAACCCCT
1 TGGAATCAACACTTAGCAACCACCTTTATTTCAGTGATACGGGGAATCAGCACATAGCAACCCCT
23054160 TTCACAATCAAAGATACGA
66 TTCACAATCAAAGATACGA
23054179 TGGAATCAACACTTAGCAACCACCTTTATTTCAGTGATACGGGGAATCAGCACATAGCAACCCCT
1 TGGAATCAACACTTAGCAACCACCTTTATTTCAGTGATACGGGGAATCAGCACATAGCAACCCCT
* *
23054244 TTCACAATCAAATATACGG
66 TTCACAATCAAAGATACGA
* ** * * * * *
23054263 TGGAATCAGCACTTAGCAACCACCTTTAGAATCAATAATTCGGGGAATTAGCACTTAGCAACCCC
1 TGGAATCAACACTTAGCAACCACCTTTA-TTTCAGTGATACGGGGAATCAGCACATAGCAACCCC
23054328 T
65 T
23054329 CGGGGAATCT
Statistics
Matches: 216, Mismatches: 16, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
83 4 0.02
84 182 0.84
85 30 0.14
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (84 bp):
TGGAATCAACACTTAGCAACCACCTTTATTTCAGTGATACGGGGAATCAGCACATAGCAACCCCT
TTCACAATCAAAGATACGA
Found at i:23054331 original size:26 final size:26
Alignment explanation
Indices: 23054302--23054354 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
23054292 AATCAATAAT
23054302 TCGGGGAAT-TAGCACTTAGCAACCCC
1 TCGGGGAATCT-GCACTTAGCAACCCC
*
23054328 TCGGGGAATCTGCACTTAGCGACCCC
1 TCGGGGAATCTGCACTTAGCAACCCC
23054354 T
1 T
23054355 TTTTATCCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 24 0.96
27 1 0.04
ACGTcount: A:0.23, C:0.32, G:0.25, T:0.21
Consensus pattern (26 bp):
TCGGGGAATCTGCACTTAGCAACCCC
Found at i:23062284 original size:17 final size:18
Alignment explanation
Indices: 23062254--23062287 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
23062244 AGCAACTCAT
23062254 TTATTAATCTAAGATGAG
1 TTATTAATCTAAGATGAG
23062272 TTATTAA-CTAAGATGA
1 TTATTAATCTAAGATGA
23062288 ACTCAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.41, C:0.06, G:0.15, T:0.38
Consensus pattern (18 bp):
TTATTAATCTAAGATGAG
Found at i:23062810 original size:43 final size:42
Alignment explanation
Indices: 23062776--23062906 Score: 113
Period size: 42 Copynumber: 3.0 Consensus size: 42
23062766 CTTACATGTT
* * *
23062776 ATTAAATATCGATGCCACTGTCCCAGACAGGGTCTTACACGAA
1 ATTAAATA-CAATGCCAATATCCCAGACAGGGTCTTACACGAA
* * *
23062819 ATTATATACAATGCCAATATCCCAGACATGGTCTTACAAGTAA
1 ATTAAATACAATGCCAATATCCCAGACAGGGTCTTACACG-AA
* ** *
23062862 ATCTCAAAT-CGATGCCAACGTCCCAGAC-GAGGTCTTGCACGAA
1 AT-T-AAATACAATGCCAATATCCCAGACAG-GGTCTTACACGAA
23062905 AT
1 AT
23062907 CACATATTAG
Statistics
Matches: 71, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
42 27 0.38
43 15 0.21
44 26 0.37
45 3 0.04
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (42 bp):
ATTAAATACAATGCCAATATCCCAGACAGGGTCTTACACGAA
Found at i:23062888 original size:44 final size:40
Alignment explanation
Indices: 23062744--23062906 Score: 112
Period size: 43 Copynumber: 3.8 Consensus size: 40
23062734 ATCTTGTACA
* * * **
23062744 ATGCCTACGTCCCAGATGAGGTCTTACATGTTATTAAATATCG
1 ATGCCAACGTCCCAGA-CAGGTCTTACAAGAAATT-AA-ATCG
* * *
23062787 ATGCC-ACTGTCCCAGACAGGGTCTTACACGAAATTATATACA
1 ATGCCAAC-GTCCCAGACA-GGTCTTACAAGAAATTAAAT-CG
**
23062829 ATGCCAATATCCCAGACATGGTCTTACAAGTAAATCTCAAATCG
1 ATGCCAACGTCCCAGACA-GGTCTTACAAG-AAAT-T-AAATCG
* *
23062873 ATGCCAACGTCCCAGACGAGGTCTTGCACGAAAT
1 ATGCCAACGTCCCAGAC-AGGTCTTACAAGAAAT
23062907 CACATATTAG
Statistics
Matches: 96, Mismatches: 16, Indels: 16
0.75 0.12 0.12
Matches are distributed among these distances:
41 2 0.02
42 29 0.30
43 35 0.36
44 26 0.27
45 4 0.04
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (40 bp):
ATGCCAACGTCCCAGACAGGTCTTACAAGAAATTAAATCG
Found at i:23069023 original size:3 final size:3
Alignment explanation
Indices: 23069015--23069094 Score: 160
Period size: 3 Copynumber: 26.7 Consensus size: 3
23069005 AATTAAAGCT
23069015 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
23069063 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
23069095 GCCTTTGAAT
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 77 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:23077275 original size:285 final size:286
Alignment explanation
Indices: 23076899--23077487 Score: 1072
Period size: 285 Copynumber: 2.1 Consensus size: 286
23076889 GCTTCTTTGT
* ***
23076899 TCTAAGAAGGTAGCAGGACCGAACAAGGTTTTGTGAAAAAATAACTTTGGTTTCTATATAAACCA
1 TCTAAGAAGGTAGCAGGACCGAACAAGGTCTTGTGAAAAAATAACTGCAGTTTCTATATAAACCA
* *
23076964 ACAAAAGTCTCTAAAGGTTAAAGGCAGAAACTTAAAGTATTGACAAAGAGTTGCATTGACAACTG
66 AAAAAAGTCTATAAAGGTTAAAGGCAGAAACTTAAAGTATTGACAAAGAGTTGCATTGACAACTG
23077029 AATGTCTTCATAAAATACTTGAGAAGACAACAAGTATTCTTAGTTATTTAAGATATTTTCAATCT
131 AATGTCTTCATAAAATACTTGAGAAGACAACAAGTATTCTTAGTTATTTAAGATATTTTCAATCT
*
23077094 AACATCTCTTTTCCAACAGCTCTACCTCAACAACATTTTTTACAACTGTTCTAGGGTCAAATTGG
196 AACAGCTCTTTTCCAACAGCTCTACCTCAACAACATTTTTTACAACTGTTCTAGGGTCAAATTGG
23077159 CTCAAGGCACCAATAAGAAAGTGGAG
261 CTCAAGGCACCAATAAGAAAGTGGAG
*
23077185 TCTAAGAAGGTAGCAGGGCCGAACAAGGTCTT-TGAAAAAATAACTGCAGTTTCTATATAAACCA
1 TCTAAGAAGGTAGCAGGACCGAACAAGGTCTTGTGAAAAAATAACTGCAGTTTCTATATAAACCA
23077249 AAAAAAGTCTATAAAGGTTAAAGGCAGAAACTTAAAGTATTGACAAAGAGTTGCATTGACAACTG
66 AAAAAAGTCTATAAAGGTTAAAGGCAGAAACTTAAAGTATTGACAAAGAGTTGCATTGACAACTG
*
23077314 AATGTCTTCATAAAATACTTGAGAAGACAACAAGTATTCTTCGTTATTTAAGATATTTTCAATCT
131 AATGTCTTCATAAAATACTTGAGAAGACAACAAGTATTCTTAGTTATTTAAGATATTTTCAATCT
*
23077379 AACAGCTCTTTTCCAATAGCTCTACCTCAACAACATTTTTTACAACTGTTCTAGGGTCAAATTGG
196 AACAGCTCTTTTCCAACAGCTCTACCTCAACAACATTTTTTACAACTGTTCTAGGGTCAAATTGG
*
23077444 CTCAAGGCACCAATAAGAAAGTGGTG
261 CTCAAGGCACCAATAAGAAAGTGGAG
23077470 TCTAAGAAGGTAGCAGGA
1 TCTAAGAAGGTAGCAGGA
23077488 AAGTCTCTAA
Statistics
Matches: 291, Mismatches: 12, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
285 261 0.90
286 30 0.10
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (286 bp):
TCTAAGAAGGTAGCAGGACCGAACAAGGTCTTGTGAAAAAATAACTGCAGTTTCTATATAAACCA
AAAAAAGTCTATAAAGGTTAAAGGCAGAAACTTAAAGTATTGACAAAGAGTTGCATTGACAACTG
AATGTCTTCATAAAATACTTGAGAAGACAACAAGTATTCTTAGTTATTTAAGATATTTTCAATCT
AACAGCTCTTTTCCAACAGCTCTACCTCAACAACATTTTTTACAACTGTTCTAGGGTCAAATTGG
CTCAAGGCACCAATAAGAAAGTGGAG
Found at i:23077663 original size:235 final size:235
Alignment explanation
Indices: 23077252--23077704 Score: 834
Period size: 235 Copynumber: 1.9 Consensus size: 235
23077242 TAAACCAAAA
23077252 AAAGTCTATAAAGGTTAAAGGCAGAAACTTAAAGTATTGACAAAGAGTTGCATTGACAACTGAAT
1 AAAGTCTATAAAGGTTAAAGGCAGAAACTTAAAGTATTGACAAAGAGTTGCATTGACAACTGAAT
* *
23077317 GTCTTCATAAAATACTTGAGAAGACAACAAGTATTCTTCGTTATTTAAGATATTTTCAATCTAAC
66 GTCTTCATAAAATACTCGAGAAGACAACAAGTATTCTTAGTTATTTAAGATATTTTCAATCTAAC
* * *
23077382 AGCTCTTTTCCAATAGCTCTACCTCAACAACATTTTTTACAACTGTTCTAGGGTCAAATTGGCTC
131 AGCTCTTTTCCAACAACTCTACCTCAACAACATTTTTCACAACTGTTCTAGGGTCAAATTGGCTC
23077447 AAGGCACCAATAAGAAAGTGGTGTCTAAGAAGGTAGCAGG
196 AAGGCACCAATAAGAAAGTGGTGTCTAAGAAGGTAGCAGG
*
23077487 AAAGTCTCTAAAGGTTAAAGGCAGAAACTTAAAGTATTGACAAAGAGTTGCATTGACAACTGAAT
1 AAAGTCTATAAAGGTTAAAGGCAGAAACTTAAAGTATTGACAAAGAGTTGCATTGACAACTGAAT
23077552 GTCTTCATAAAATACTCGAGAAGACAACAAGTATTCTTAGTTATTTAAGATATTTTCAATCTAAC
66 GTCTTCATAAAATACTCGAGAAGACAACAAGTATTCTTAGTTATTTAAGATATTTTCAATCTAAC
* *
23077617 ATCTCTTTTCCAACAACTCTACCTCAACAATATTTTTCACAACTGTTCTAGGGTCAAATTGGCTC
131 AGCTCTTTTCCAACAACTCTACCTCAACAACATTTTTCACAACTGTTCTAGGGTCAAATTGGCTC
23077682 AAGGCACCAATAAGAAAGTGGTG
196 AAGGCACCAATAAGAAAGTGGTG
23077705 AAACTAACAA
Statistics
Matches: 210, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
235 210 1.00
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (235 bp):
AAAGTCTATAAAGGTTAAAGGCAGAAACTTAAAGTATTGACAAAGAGTTGCATTGACAACTGAAT
GTCTTCATAAAATACTCGAGAAGACAACAAGTATTCTTAGTTATTTAAGATATTTTCAATCTAAC
AGCTCTTTTCCAACAACTCTACCTCAACAACATTTTTCACAACTGTTCTAGGGTCAAATTGGCTC
AAGGCACCAATAAGAAAGTGGTGTCTAAGAAGGTAGCAGG
Found at i:23093937 original size:9 final size:9
Alignment explanation
Indices: 23093920--23093975 Score: 60
Period size: 9 Copynumber: 5.9 Consensus size: 9
23093910 ATATGTGAAT
*
23093920 TATAAAAAA
1 TATATAAAA
23093929 TATATAAAA
1 TATATAAAA
23093938 TATATAAAA
1 TATATAAAA
23093947 TATATTTTAAAA
1 TATA---TAAAA
23093959 TATA-AAGAA
1 TATATAA-AA
23093968 TATATAAA
1 TATATAAA
23093976 TATTTATATA
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
8 2 0.05
9 28 0.68
10 2 0.05
12 9 0.22
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (9 bp):
TATATAAAA
Found at i:23093988 original size:30 final size:32
Alignment explanation
Indices: 23093918--23093993 Score: 90
Period size: 30 Copynumber: 2.5 Consensus size: 32
23093908 ATATATGTGA
*
23093918 ATTATAAAAAATATATAAAATATATAAAATAT
1 ATTATATAAAATATATAAAATATATAAAATAT
23093950 ATT-T-TAAAATATA-AAGAATATAT-AAATAT
1 ATTATATAAAATATATAA-AATATATAAAATAT
*
23093979 -TTATATAAAAAATAT
1 ATTATATAAAATATAT
23093994 GTACATATAC
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
28 2 0.05
29 9 0.24
30 23 0.61
31 1 0.03
32 3 0.08
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (32 bp):
ATTATATAAAATATATAAAATATATAAAATAT
Found at i:23094034 original size:16 final size:16
Alignment explanation
Indices: 23094010--23094044 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
23094000 ATACGTAGGT
*
23094010 ATATAAAAATTATGAA
1 ATATAAAAATAATGAA
*
23094026 ATATGAAAATAATGAA
1 ATATAAAAATAATGAA
23094042 ATA
1 ATA
23094045 CATGTAAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.29
Consensus pattern (16 bp):
ATATAAAAATAATGAA
Found at i:23094267 original size:4 final size:4
Alignment explanation
Indices: 23094258--23094305 Score: 51
Period size: 4 Copynumber: 12.0 Consensus size: 4
23094248 AACAAAATTT
* * * * *
23094258 TAAA TAAA TATA TAAA TAAA CAAA CAAA TAAC TAAA TAAA CAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
23094306 GGATTAAGAG
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.71, C:0.08, G:0.00, T:0.21
Consensus pattern (4 bp):
TAAA
Found at i:23096115 original size:87 final size:87
Alignment explanation
Indices: 23095890--23096535 Score: 383
Period size: 87 Copynumber: 7.4 Consensus size: 87
23095880 GGATTACTAG
* * * * *
23095890 CTTCAATCTGCTTCGCTGTAATCTT-AGGGAGATAAGATTTCTGGCTTCAATCTACTCCACTGTA
1 CTTCAATCTGCTCCACTGTAA-CTTCAGGGAGATAAGA-TACTGTCTTCGATCTACTCCACTGTA
* * *
23095954 ACCTCAGGGAAATAAGAT-CTGAAATT-
64 ACTTCAGAGAGATAAGATCCT----TTA
** * * * * * * **
23095980 CTTCGGTCTACTCCACTGTAACCTCAGGGGGATAAGA-CCTG-ATGCGATCTACTTTACTGTAAC
1 CTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATACTGTCTTCGATCTACTCCACTGTAAC
23096043 TTCAGAGAGATAAGATCCTTTA
66 TTCAGAGAGATAAGATCCTTTA
* * * * * * *
23096065 TTTTAATCTGCTCTACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAA-
1 CTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATACTGTCTTCGATCTACTCCACTGTAAC
* **
23096129 TCTCAGGGAGATAAGAT-CTCTGG
66 T-TCAGAGAGATAAGATCCT-TTA
* * * *
23096152 CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGAT-CTGAAATTCTTCGGTCTACTCCATTA
1 CTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATACTG----TCTTCGATCTACTCCACTG
* * *
23096216 TAACCTCAGGGAGATAAGA-CC-TGA
62 TAACTTCAGAGAGATAAGATCCTTTA
* * * * * * * * * * ** **
23096240 -TGCGATCTACTCTATTGTAACTTCAGAGTGATAAGATCCTTTATTTTAATCCGCTCCACTGTAA
1 CTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATACTGT-CTTCGATCTACTCCACTGTAA
* ** *
23096304 CTTCA-AGGAGATAGGATAGTGT-
65 CTTCAGA-GAGATAAGATCCTTTA
* * * * * *
23096326 CTTCGATCTGCTCCGCTGTAA-TCTCAGGGAGATAAGA-CCTG-ATGCGATCTACTCTACTGTAA
1 CTTCAATCTGCTCCACTGTAACT-TCAGGGAGATAAGATACTGTCTTCGATCTACTCCACTGTAA
23096388 CTTCAGAGAGATAAGATCCTTTA
65 CTTCAGAGAGATAAGATCCTTTA
* * * * * * *
23096411 TTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAAT
1 CTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATACTGTCTTCGATCTACTCCACTGTAA-
* * *
23096476 CTT-AGGGGGATAAGAT-CTCTA
65 CTTCAGAGAGATAAGATCCTTTA
*
23096497 GCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGAT
1 -CTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGAT
23096536 CTGAAATATT
Statistics
Matches: 416, Mismatches: 113, Indels: 57
0.71 0.19 0.10
Matches are distributed among these distances:
84 33 0.08
85 83 0.20
86 18 0.04
87 209 0.50
88 12 0.03
89 2 0.00
90 59 0.14
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (87 bp):
CTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATACTGTCTTCGATCTACTCCACTGTAAC
TTCAGAGAGATAAGATCCTTTA
Found at i:23096168 original size:218 final size:218
Alignment explanation
Indices: 23095784--23096405 Score: 896
Period size: 218 Copynumber: 2.9 Consensus size: 218
23095774 CACTGCAACT
* * * * * * *
23095784 TCAGTGAGATAAGGCTTTATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGAT-CTATTACT
1 TCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCT-TTATT
* * *
23095848 TTAATCCGCTCCACTGTAA-TCTCAAGGAGATAGGATTACTAG-CTTCAATCTGCTTCGCTGTAA
65 TTAATCCGCTCCACTGTAACT-TCAAGGAGATAGGA-TAGT-GTCTTCGATCTGCTCCGCTGTAA
* *
23095911 TCTTAGGGAGATAAGATTTCTGGCTTCAATCTACTCCACTGTAACCTCAGGGAAATAAGATCTGA
127 TCTCAGGGAGATAAGATCTCTGGCTTCAATCTACTCCACTGTAACCTCAGGGAAATAAGATCTGA
*
23095976 AATTCTTCGGTCTACTCCACTGTAACC
192 AATTCTTCGGTCTACTCCACTATAACC
* *
23096003 TCAGGGGGATAAGACCTGATGCGATCTACTTTACTGTAACTTCAGAGAGATAAGATCCTTTATTT
1 TCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTT
* * *
23096068 TAATCTGCTCTACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAATCTC
66 TAATCCGCTCCACTGTAACTTCAAGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAATCTC
* *
23096133 AGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATT
131 AGGGAGATAAGATCTCTGGCTTCAATCTACTCCACTGTAACCTCAGGGAAATAAGATCTGAAATT
*
23096198 CTTCGGTCTACTCCATTATAACC
196 CTTCGGTCTACTCCACTATAACC
* *
23096221 TCAGGGAGATAAGACCTGATGCGATCTACTCTATTGTAACTTCAGAGTGATAAGATCCTTTATTT
1 TCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTT
23096286 TAATCCGCTCCACTGTAACTTCAAGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAATCTC
66 TAATCCGCTCCACTGTAACTTCAAGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAATCTC
* * * * * * *
23096351 AGGGAGATAAGA-C-CT-GATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATC
131 AGGGAGATAAGATCTCTGGCTTCAATCTACTCCACTGTAACCTCAGGGAAATAAGATC
23096406 CTTTATTTTA
Statistics
Matches: 365, Mismatches: 35, Indels: 10
0.89 0.09 0.02
Matches are distributed among these distances:
215 33 0.09
216 2 0.01
217 2 0.01
218 243 0.67
219 82 0.22
220 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31
Consensus pattern (218 bp):
TCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTT
TAATCCGCTCCACTGTAACTTCAAGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAATCTC
AGGGAGATAAGATCTCTGGCTTCAATCTACTCCACTGTAACCTCAGGGAAATAAGATCTGAAATT
CTTCGGTCTACTCCACTATAACC
Found at i:23096378 original size:128 final size:128
Alignment explanation
Indices: 23096220--23096536 Score: 499
Period size: 128 Copynumber: 2.5 Consensus size: 128
23096210 CCATTATAAC
* *
23096220 CTCAGGGAGATAAGACCTGATGCGATCTACTCTATTGTAACTTCAGAGTGATAAGATCCTTTATT
1 CTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATT
23096285 TTAATCCGCTCCACTGTAACTTCAAGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAAT
66 TTAATCCGCTCCACTGTAACTTCAAGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAAT
23096348 CTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATT
1 CTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATT
*
23096413 TTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAAT
66 TTAATCCGCTCCACTGTAACTTCAAGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAAT
* * * * * * * * *
23096476 CTTAGGGGGATAAGATCTCTAGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATC
1 CTCAGGGAGATAAGA-C-CT-GATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATC
23096537 TGAAATATTC
Statistics
Matches: 174, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
128 138 0.79
129 1 0.01
130 2 0.01
131 33 0.19
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (128 bp):
CTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATT
TTAATCCGCTCCACTGTAACTTCAAGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAAT
Found at i:23096536 original size:44 final size:44
Alignment explanation
Indices: 23095816--23096537 Score: 359
Period size: 44 Copynumber: 16.6 Consensus size: 44
23095806 GATCCACTCT
* * * * * *
23095816 ACTGCAACTTCAGAGAGATAAGATCTATTA-CTTTAATCCGCTCC
1 ACTGTAACCTCAGGGAGATAAGATCT-CTAGCTTCAATCTGCTCC
* * * *
23095860 ACTGTAATCTCAAGGAGATAGGAT-TACTAGCTTCAATCTGCTTC
1 ACTGTAACCTCAGGGAGATAAGATCT-CTAGCTTCAATCTGCTCC
* * * * * *
23095904 GCTGTAATCTTAGGGAGATAAGATTTCTGGCTTCAATCTACTCC
1 ACTGTAACCTCAGGGAGATAAGATCTCTAGCTTCAATCTGCTCC
* ** * ** *
23095948 ACTGTAACCTCAGGGAAATAAGATCTGAAATTCTTCGGTCTACTCC
1 ACTGTAACCTCAGGGAGATAAGATCT-CTA-GCTTCAATCTGCTCC
* * * * * **
23095994 ACTGTAACCTCAGGGGGATAAGA-C-CT-GATGCGATCTACTTT
1 ACTGTAACCTCAGGGAGATAAGATCTCTAGCTTCAATCTGCTCC
* * * * * *
23096035 ACTGTAACTTCAGAGAGATAAGATCCTTTA-TTTTAATCTGCTCT
1 ACTGTAACCTCAGGGAGATAAGAT-CTCTAGCTTCAATCTGCTCC
* * ** *
23096079 ACTGTAACTTCAGGGAGATAGGAT-AGT-GTCTTCGATCTGCTCC
1 ACTGTAACCTCAGGGAGATAAGATCTCTAG-CTTCAATCTGCTCC
* * *
23096122 GCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCC
1 ACTGTAACCTCAGGGAGATAAGATCTCTAGCTTCAATCTGCTCC
** * ** *
23096166 ACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCC
1 ACTGTAACCTCAGGGAGATAAGATCT-CTA-GCTTCAATCTGCTCC
* * * * * * *
23096212 ATTATAACCTCAGGGAGATAAGA-C-CT-GATGCGATCTACTCT
1 ACTGTAACCTCAGGGAGATAAGATCTCTAGCTTCAATCTGCTCC
* * * * * * * *
23096253 ATTGTAACTTCAGAGTGATAAGATCCTTTA-TTTTAATCCGCTCC
1 ACTGTAACCTCAGGGAGATAAGAT-CTCTAGCTTCAATCTGCTCC
* * * ** *
23096297 ACTGTAACTTCAAGGAGATAGGAT-AGT-GTCTTCGATCTGCTCC
1 ACTGTAACCTCAGGGAGATAAGATCTCTAG-CTTCAATCTGCTCC
* * * * * * *
23096340 GCTGTAATCTCAGGGAGATAAGA-C-CT-GATGCGATCTACTCT
1 ACTGTAACCTCAGGGAGATAAGATCTCTAGCTTCAATCTGCTCC
* * * * * *
23096381 ACTGTAACTTCAGAGAGATAAGATCCTTTA-TTTTAATCCGCTCC
1 ACTGTAACCTCAGGGAGATAAGAT-CTCTAGCTTCAATCTGCTCC
* * ** *
23096425 ACTGTAACTTCAGGGAGATAGGAT-AGT-GTCTTCGATCTGCTCC
1 ACTGTAACCTCAGGGAGATAAGATCTCTAG-CTTCAATCTGCTCC
* * * *
23096468 GCTGTAATCTTAGGGGGATAAGATCTCTAGCTTCAATCTGCTCC
1 ACTGTAACCTCAGGGAGATAAGATCTCTAGCTTCAATCTGCTCC
23096512 ACTGTAACCTCAGGGAGATAAGATCT
1 ACTGTAACCTCAGGGAGATAAGATCT
23096538 GAAATATTCA
Statistics
Matches: 502, Mismatches: 147, Indels: 58
0.71 0.21 0.08
Matches are distributed among these distances:
41 87 0.17
42 5 0.01
43 93 0.19
44 247 0.49
45 5 0.01
46 65 0.13
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (44 bp):
ACTGTAACCTCAGGGAGATAAGATCTCTAGCTTCAATCTGCTCC
Found at i:23097765 original size:7 final size:7
Alignment explanation
Indices: 23097753--23097799 Score: 71
Period size: 7 Copynumber: 7.0 Consensus size: 7
23097743 TTAGCCTCTC
23097753 CATTTTT
1 CATTTTT
23097760 CA-TTTT
1 CATTTTT
23097766 CATTTTT
1 CATTTTT
23097773 CATTTTT
1 CATTTTT
*
23097780 CA-TTCT
1 CATTTTT
23097786 CATTTTT
1 CATTTTT
23097793 CATTTTT
1 CATTTTT
23097800 TTTGACTCAG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
6 11 0.31
7 25 0.69
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (7 bp):
CATTTTT
Found at i:23097771 original size:13 final size:13
Alignment explanation
Indices: 23097756--23097798 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
23097746 GCCTCTCCAT
23097756 TTTTCA-TTTTCA
1 TTTTCATTTTTCA
23097768 TTTTTCATTTTTCA
1 -TTTTCATTTTTCA
*
23097782 TTCTCATTTTTCA
1 TTTTCATTTTTCA
23097795 TTTT
1 TTTT
23097799 TTTTGACTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
13 21 0.78
14 6 0.22
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTCATTTTTCA
Found at i:23097776 original size:20 final size:20
Alignment explanation
Indices: 23097753--23097799 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
23097743 TTAGCCTCTC
*
23097753 CATTTTTCATTTTCATTTTT
1 CATTTTTCATTCTCATTTTT
23097773 CATTTTTCATTCTCATTTTT
1 CATTTTTCATTCTCATTTTT
23097793 CATTTTT
1 CATTTTT
23097800 TTTGACTCAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (20 bp):
CATTTTTCATTCTCATTTTT
Found at i:23098730 original size:17 final size:17
Alignment explanation
Indices: 23098692--23098747 Score: 55
Period size: 16 Copynumber: 3.3 Consensus size: 17
23098682 TAGATTTCTC
*
23098692 TTTTT-TCATTCTTCTTT
1 TTTTTCTCATT-TTCATT
23098709 CTTTTTCTCATTTTCATT
1 -TTTTTCTCATTTTCATT
23098727 TTTTTCT--TCTTTCATT
1 TTTTTCTCAT-TTTCATT
23098743 TTTTT
1 TTTTT
23098748 TGTTTTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
15 1 0.03
16 12 0.34
17 7 0.20
18 10 0.29
19 5 0.14
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTTCTCATTTTCATT
Found at i:23098747 original size:25 final size:23
Alignment explanation
Indices: 23098686--23098756 Score: 61
Period size: 25 Copynumber: 2.9 Consensus size: 23
23098676 TTCATCTAGA
23098686 TTTCTCTTTTTTCATTCTTCTTTCTT
1 TTTCT-TTTTTTCATT-TT-TTTCTT
**
23098712 TTTCTCATTTTCATTTTTTTCTT
1 TTTCTTTTTTTCATTTTTTTCTT
**
23098735 CTTTCATTTTTTTTGTTTTTTT
1 -TTTC-TTTTTTTCATTTTTTT
23098757 TATTTTGATT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
23 6 0.16
24 6 0.16
25 20 0.54
26 5 0.14
ACGTcount: A:0.06, C:0.17, G:0.01, T:0.76
Consensus pattern (23 bp):
TTTCTTTTTTTCATTTTTTTCTT
Found at i:23098748 original size:17 final size:16
Alignment explanation
Indices: 23098700--23098747 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
23098690 TCTTTTTTCA
23098700 TTCTTCTTTC-TTTTT
1 TTCTTCTTTCATTTTT
* *
23098715 CTCAT-TTTCATTTTT
1 TTCTTCTTTCATTTTT
23098730 TTCTTCTTTCATTTTT
1 TTCTTCTTTCATTTTT
23098746 TT
1 TT
23098748 TGTTTTTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.15
15 11 0.41
16 12 0.44
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.75
Consensus pattern (16 bp):
TTCTTCTTTCATTTTT
Found at i:23098768 original size:23 final size:23
Alignment explanation
Indices: 23098744--23098808 Score: 73
Period size: 22 Copynumber: 2.9 Consensus size: 23
23098734 TCTTTCATTT
23098744 TTTTTG-TTTTTTTT-ATTTTGA
1 TTTTTGATTTTTTTTCATTTTGA
*
23098765 TTTTTGATTTTTTTTCATTTT-C
1 TTTTTGATTTTTTTTCATTTTGA
* *
23098787 CTTTTGATTTTCTTTTGATTTT
1 TTTTTGATTTT-TTTTCATTTT
23098809 TCTTTTTCCC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
21 6 0.16
22 18 0.47
23 14 0.37
ACGTcount: A:0.09, C:0.06, G:0.08, T:0.77
Consensus pattern (23 bp):
TTTTTGATTTTTTTTCATTTTGA
Found at i:23098803 original size:11 final size:11
Alignment explanation
Indices: 23098766--23098814 Score: 64
Period size: 12 Copynumber: 4.4 Consensus size: 11
23098756 TTATTTTGAT
23098766 TTTTGATTTT-
1 TTTTGATTTTC
*
23098776 TTTTCATTTTCC
1 TTTTGATTTT-C
23098788 TTTTGATTTTC
1 TTTTGATTTTC
23098799 TTTTGATTTTTC
1 TTTTGA-TTTTC
23098811 TTTT
1 TTTT
23098815 TCCCTTTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
10 9 0.26
11 7 0.21
12 18 0.53
ACGTcount: A:0.08, C:0.10, G:0.06, T:0.76
Consensus pattern (11 bp):
TTTTGATTTTC
Found at i:23100636 original size:20 final size:20
Alignment explanation
Indices: 23100611--23100648 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
23100601 ATTCGCTCTA
23100611 ATTTTTCCAACCTTTGTTCT
1 ATTTTTCCAACCTTTGTTCT
*
23100631 ATTTTTCTAACCTTTGTT
1 ATTTTTCCAACCTTTGTT
23100649 TGGATACCGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.16, C:0.21, G:0.05, T:0.58
Consensus pattern (20 bp):
ATTTTTCCAACCTTTGTTCT
Found at i:23103365 original size:2 final size:2
Alignment explanation
Indices: 23103358--23103387 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
23103348 AAATGTAAAG
23103358 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23103388 GTACATAGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23103533 original size:16 final size:16
Alignment explanation
Indices: 23103509--23103543 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
23103499 ATACGTAGGT
*
23103509 ATATAAAAATTATGAA
1 ATATAAAAATAATGAA
*
23103525 ATATGAAAATAATGAA
1 ATATAAAAATAATGAA
23103541 ATA
1 ATA
23103544 CANNNNNNNN
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.29
Consensus pattern (16 bp):
ATATAAAAATAATGAA
Found at i:23103857 original size:4 final size:4
Alignment explanation
Indices: 23103848--23103895 Score: 51
Period size: 4 Copynumber: 12.0 Consensus size: 4
23103838 AACAAAATTT
* * * * *
23103848 TAAA TAAA TATA TAAA TAAA CAAA CAAA TAAC TAAA TAAA CAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
23103896 GGATTAAGAG
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.71, C:0.08, G:0.00, T:0.21
Consensus pattern (4 bp):
TAAA
Found at i:23111356 original size:19 final size:19
Alignment explanation
Indices: 23111315--23111361 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
23111305 GTTTTTTGAA
* *
23111315 AAAATTAATTTTAATCAAGT
1 AAAATTAA-ATTAATCAAAT
*
23111335 AAAATTAAATTAATGAAAT
1 AAAATTAAATTAATCAAAT
23111354 -AAATTAAA
1 AAAATTAAA
23111362 ATTAGTATGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 8 0.33
19 8 0.33
20 8 0.33
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (19 bp):
AAAATTAAATTAATCAAAT
Found at i:23118235 original size:20 final size:20
Alignment explanation
Indices: 23118190--23118236 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
23118180 CATATATCAT
23118190 TTGCTT-CTTCTTTACTTAC
1 TTGCTTACTTCTTTACTTAC
*
23118209 TCT-CTTACTTGTTTACTTAC
1 T-TGCTTACTTCTTTACTTAC
23118229 TTGCTTAC
1 TTGCTTAC
23118237 ATAAATAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 5 0.21
20 19 0.79
ACGTcount: A:0.13, C:0.26, G:0.06, T:0.55
Consensus pattern (20 bp):
TTGCTTACTTCTTTACTTAC
Found at i:23118506 original size:49 final size:49
Alignment explanation
Indices: 23118447--23118574 Score: 202
Period size: 49 Copynumber: 2.6 Consensus size: 49
23118437 ACATGTCAAA
* * * *
23118447 GCCATGTCCCAGACATGGTCTCACATGGGATGTTTCTTGTACTACCAAT
1 GCCATATCCCAGATATGGTCTTACATGGGATGTTTCCTGTACTACCAAT
*
23118496 GCCATATCCCAGATATGGTCTTACATGGGATGTTTCCTGTACTGCCAAT
1 GCCATATCCCAGATATGGTCTTACATGGGATGTTTCCTGTACTACCAAT
*
23118545 GTCATATCCCAGATATGGTCTTACATGGGA
1 GCCATATCCCAGATATGGTCTTACATGGGA
23118575 GTTCTCATAT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 73 1.00
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.31
Consensus pattern (49 bp):
GCCATATCCCAGATATGGTCTTACATGGGATGTTTCCTGTACTACCAAT
Found at i:23118695 original size:50 final size:52
Alignment explanation
Indices: 23118491--23118695 Score: 156
Period size: 50 Copynumber: 4.0 Consensus size: 52
23118481 TCTTGTACTA
* * * * *
23118491 CCAATGCCATATCCCAGATATGGTCTTACATGGGA-TGT--TTCCTGTACTG
1 CCAATGCCATATCCCAGACATGGTCTTACATGGGACTCTCATACCCGTAATG
* * * * *
23118540 CCAATGTCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGT--T-
1 CCAATGCCATATCCCAGACATGGTCTTACATGGGA-CTCTCATACCCGTAATG
* * * *
23118590 CCCATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATAACCTCAATAATG
1 CCAATGCCATATCCCAGACATGGTCTTACATGGGA-CTCTCAT-ACC-C-GTAATG
* * *
23118646 CCAATGCCATATCTCAGACATGGTCTTACAAGGGA-TCTCAT-CCCCTAATG
1 CCAATGCCATATCCCAGACATGGTCTTACATGGGACTCTCATACCCGTAATG
23118696 TCATGACATT
Statistics
Matches: 125, Mismatches: 21, Indels: 19
0.76 0.13 0.12
Matches are distributed among these distances:
49 34 0.27
50 41 0.33
51 6 0.05
52 2 0.02
53 5 0.04
54 6 0.05
55 1 0.01
56 30 0.24
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (52 bp):
CCAATGCCATATCCCAGACATGGTCTTACATGGGACTCTCATACCCGTAATG
Found at i:23125676 original size:20 final size:20
Alignment explanation
Indices: 23125651--23125689 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
23125641 TTGCTTCTTC
23125651 TTTACTTACTCTCTTACTTG
1 TTTACTTACTCTCTTACTTG
*
23125671 TTTACTTACTTTCTTACTT
1 TTTACTTACTCTCTTACTT
23125690 ATAACTCATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.23, G:0.03, T:0.59
Consensus pattern (20 bp):
TTTACTTACTCTCTTACTTG
Found at i:23126013 original size:50 final size:50
Alignment explanation
Indices: 23125938--23126083 Score: 168
Period size: 50 Copynumber: 2.9 Consensus size: 50
23125928 TTTCCTGCAC
* * * * * * **
23125938 TGCCAATTCCATATCCCATATATGGTTTTACATGGGAGTTCTCATATCGG
1 TGCCAACTCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATATCGG
* * *
23125988 TGCCCA-TGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACT-CCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATATCGG
*
23126038 TGCCAACTCTATGTCCCAGACATGGTCTTACGTGGGACCTCTCATA
1 TGCCAACTCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATA
23126084 ACCTCAATAA
Statistics
Matches: 80, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
49 1 0.01
50 78 0.98
51 1 0.01
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (50 bp):
TGCCAACTCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATATCGG
Found at i:23131907 original size:44 final size:44
Alignment explanation
Indices: 23131859--23131953 Score: 145
Period size: 44 Copynumber: 2.2 Consensus size: 44
23131849 ATATCTCAAG
* *
23131859 GTCCATGTTTATAACATGGAAATTAAGGAAGAATTGATGAAAAA
1 GTCCATGTTTATAACATGGAAATTAAGAAAGAATTGACGAAAAA
* *
23131903 GTCCATGTTTATAACATGGCAATTAAGAAAGAATTGACGGAAAA
1 GTCCATGTTTATAACATGGAAATTAAGAAAGAATTGACGAAAAA
*
23131947 GACCATG
1 GTCCATG
23131954 GTTTGACCAT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.43, C:0.11, G:0.21, T:0.25
Consensus pattern (44 bp):
GTCCATGTTTATAACATGGAAATTAAGAAAGAATTGACGAAAAA
Found at i:23131965 original size:44 final size:44
Alignment explanation
Indices: 23131861--23131967 Score: 126
Period size: 44 Copynumber: 2.4 Consensus size: 44
23131851 ATCTCAAGGT
* * * * *
23131861 CCATGTTTATAACATGGAAATTAAGGAAGAATTGATGAAAAAGT
1 CCATGTTTAGAACATGGCAATTAAGAAAGAATTGACGAAAAAGA
* *
23131905 CCATGTTTATAACATGGCAATTAAGAAAGAATTGACGGAAAAGA
1 CCATGTTTAGAACATGGCAATTAAGAAAGAATTGACGAAAAAGA
*
23131949 CCATGGTTT-GACCATGGCA
1 CCAT-GTTTAGAACATGGCA
23131968 GTAAGTGTGC
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 51 0.93
45 4 0.07
ACGTcount: A:0.41, C:0.12, G:0.21, T:0.25
Consensus pattern (44 bp):
CCATGTTTAGAACATGGCAATTAAGAAAGAATTGACGAAAAAGA
Found at i:23132035 original size:50 final size:49
Alignment explanation
Indices: 23131974--23132204 Score: 177
Period size: 50 Copynumber: 4.7 Consensus size: 49
23131964 GGCAGTAAGT
* * *
23131974 GTGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCATAGACCGAGGA
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGA-AGAGGA
** *
23132024 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCAACA-CGAAAAGAGAAAA
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCG--AAGAG--GA
** * * *
23132076 AAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TCG-GGATGA
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAAGAGGA
* * * * * *
23132123 GTGCTAGTGTAAGATCATGTTTGGGACATGACATCGGCACCGATATG-TGA
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGA-A-GAGGA
* * *
23132173 -TCCCA-TGTAAGACCATATCTGGGATATGGCAT
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCAT
23132205 TGGCGTCCTA
Statistics
Matches: 142, Mismatches: 30, Indels: 20
0.74 0.16 0.10
Matches are distributed among these distances:
47 32 0.23
48 24 0.17
49 6 0.04
50 42 0.30
51 2 0.01
52 36 0.25
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.22
Consensus pattern (49 bp):
GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAAGAGGA
Found at i:23135335 original size:20 final size:20
Alignment explanation
Indices: 23135310--23135347 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
23135300 AGGGTGATTG
23135310 CTTTGCAATGCTCCTTGCTA
1 CTTTGCAATGCTCCTTGCTA
*
23135330 CTTTGCAATGTTCCTTGC
1 CTTTGCAATGCTCCTTGC
23135348 CTTGTGTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.13, C:0.29, G:0.16, T:0.42
Consensus pattern (20 bp):
CTTTGCAATGCTCCTTGCTA
Found at i:23138058 original size:42 final size:42
Alignment explanation
Indices: 23138011--23138091 Score: 126
Period size: 42 Copynumber: 1.9 Consensus size: 42
23138001 TAAATCCAAC
* * *
23138011 AACCCATGTTTATCTTCTCCTCTTTTAAATTCTTTTTTCAAA
1 AACCCAAGATTATCTTCTCCTCTTTTAAATTATTTTTTCAAA
*
23138053 AACCCAAGATTATCTTCTCCTTTTTTAAATTATTTTTTC
1 AACCCAAGATTATCTTCTCCTCTTTTAAATTATTTTTTC
23138092 TAAGATAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.25, C:0.22, G:0.02, T:0.51
Consensus pattern (42 bp):
AACCCAAGATTATCTTCTCCTCTTTTAAATTATTTTTTCAAA
Found at i:23146462 original size:57 final size:57
Alignment explanation
Indices: 23146356--23146466 Score: 177
Period size: 57 Copynumber: 1.9 Consensus size: 57
23146346 ACACGTATAA
23146356 AGGAAACAAACAACTCTTCCATTATATCAATAATCCTGCTAAGGATATAAACTATGG
1 AGGAAACAAACAACTCTTCCATTATATCAATAATCCTGCTAAGGATATAAACTATGG
* * * * *
23146413 AGGAGACAAGCAACTCTTCCATTATATCAATAATCCTGTTGAGGTTATAAACTA
1 AGGAAACAAACAACTCTTCCATTATATCAATAATCCTGCTAAGGATATAAACTA
23146467 CATCGTGAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 49 1.00
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.28
Consensus pattern (57 bp):
AGGAAACAAACAACTCTTCCATTATATCAATAATCCTGCTAAGGATATAAACTATGG
Found at i:23162345 original size:20 final size:20
Alignment explanation
Indices: 23162308--23162371 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
23162298 AGACAAGCTG
* * *
23162308 CCAGTATTGTGGAGAAGCCA
1 CCAGTAATGAGGATAAGCCA
* **
23162328 CCAGTAATGCA-GTTAAGCTG
1 CCAGTAATG-AGGATAAGCCA
23162348 CCAGTAATGAGGATAAGCCA
1 CCAGTAATGAGGATAAGCCA
23162368 CCAG
1 CCAG
23162372 AATTGAAAAC
Statistics
Matches: 33, Mismatches: 9, Indels: 4
0.72 0.20 0.09
Matches are distributed among these distances:
19 1 0.03
20 32 0.97
ACGTcount: A:0.33, C:0.22, G:0.27, T:0.19
Consensus pattern (20 bp):
CCAGTAATGAGGATAAGCCA
Found at i:23162386 original size:40 final size:40
Alignment explanation
Indices: 23162288--23162386 Score: 119
Period size: 40 Copynumber: 2.5 Consensus size: 40
23162278 AGATAAATTG
* *
23162288 CCAGAATTGAAGACAAGCTGCCAGTATTGTGGAGAAGCCA
1 CCAGAATTGAAGACAAGCTGCCAGTAATGAGGAGAAGCCA
* ** *
23162328 CCAGTAA-TGCAGTTAAGCTGCCAGTAATGAGGATAAGCCA
1 CCAG-AATTGAAGACAAGCTGCCAGTAATGAGGAGAAGCCA
*
23162368 CCAGAATTGAAAACAAGCT
1 CCAGAATTGAAGACAAGCT
23162387 ACTAGTACTT
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
39 2 0.04
40 43 0.91
41 2 0.04
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.18
Consensus pattern (40 bp):
CCAGAATTGAAGACAAGCTGCCAGTAATGAGGAGAAGCCA
Found at i:23162536 original size:38 final size:37
Alignment explanation
Indices: 23162461--23162552 Score: 96
Period size: 38 Copynumber: 2.4 Consensus size: 37
23162451 ACAAAATAGT
*
23162461 ATAATAGGCATGATTAAAACATGCAATCTGTAGCAAAAA
1 ATAAT-GGCATGATTAAAACATGCAATCAGTAGC-AAAA
* **
23162500 ATAATGGCATGATTCAAACATGTGATCAGT-GACAAAA
1 ATAATGGCATGATTAAAACATGCAATCAGTAG-CAAAA
*
23162537 ATAGTGGCATGGATTA
1 ATAATGGCAT-GATTA
23162553 TAATGCATTG
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
37 14 0.31
38 26 0.58
39 5 0.11
ACGTcount: A:0.43, C:0.12, G:0.20, T:0.25
Consensus pattern (37 bp):
ATAATGGCATGATTAAAACATGCAATCAGTAGCAAAA
Found at i:23162729 original size:40 final size:40
Alignment explanation
Indices: 23162679--23162789 Score: 150
Period size: 40 Copynumber: 2.8 Consensus size: 40
23162669 TAACGTTACT
* * *
23162679 AGTCACAATTACAGATTAGTGGCTTATTTATAACATAACC
1 AGTCTCAATTACAGATCAGTGGCTTATTTATAACATAAAC
* *
23162719 AGTCTTAATTACAAATCAGTGGCTTATTTATAACATAAAC
1 AGTCTCAATTACAGATCAGTGGCTTATTTATAACATAAAC
* *
23162759 AGTCTCAATGACAGATCAATGGCTTACTTTA
1 AGTCTCAATTACAGATCAGTGGCTTA-TTTA
23162790 ATATCACAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
40 57 0.93
41 4 0.07
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (40 bp):
AGTCTCAATTACAGATCAGTGGCTTATTTATAACATAAAC
Found at i:23166803 original size:20 final size:20
Alignment explanation
Indices: 23166778--23166823 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
23166768 TTATCTGCAT
* *
23166778 TATTGGTGGCTTGTCCATAA
1 TATTGGTAGCTTGTCCACAA
*
23166798 TATTGGTAGCTTGTCTACAA
1 TATTGGTAGCTTGTCCACAA
23166818 TATTGG
1 TATTGG
23166824 CAGTTTATCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.22, C:0.13, G:0.24, T:0.41
Consensus pattern (20 bp):
TATTGGTAGCTTGTCCACAA
Found at i:23166871 original size:60 final size:60
Alignment explanation
Indices: 23166766--23166921 Score: 199
Period size: 60 Copynumber: 2.6 Consensus size: 60
23166756 AGTACTAGTT
* * * * *** * *
23166766 GTTTATCTGCATTATTGGTGGCTTGTCCATAATATTGGTAGCTTGTCTACAATATTGGCA
1 GTTTATCTGAATTACTGGTGGCTTGTCCACAATACTAACAACTTGTCTACAATACTGGCA
23166826 GTTTATCTGAATTACTGGTGGCTTGTCCACAATACTAACAACTTGTCTACAATACTGGCA
1 GTTTATCTGAATTACTGGTGGCTTGTCCACAATACTAACAACTTGTCTACAATACTGGCA
*
23166886 GTTTATCTGCAA-TACTGGTGGATTGTCCACAA-ACTA
1 GTTTATCTG-AATTACTGGTGGCTTGTCCACAATACTA
23166922 GTGTGTTATT
Statistics
Matches: 85, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
59 4 0.05
60 79 0.93
61 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.37
Consensus pattern (60 bp):
GTTTATCTGAATTACTGGTGGCTTGTCCACAATACTAACAACTTGTCTACAATACTGGCA
Found at i:23171657 original size:35 final size:34
Alignment explanation
Indices: 23171617--23171715 Score: 126
Period size: 35 Copynumber: 2.9 Consensus size: 34
23171607 ACGATTTAAC
23171617 ATAGTGGCATGCTTAACATGCGAATCAAACTCAGA
1 ATAGTGGCATGCTTAACATGCGAATCAAA-TCAGA
* *
23171652 CTAGTGGCATGCTTAACATGTGAATCATAATCAGA
1 ATAGTGGCATGCTTAACATGCGAATCA-AATCAGA
* * * *
23171687 ATAATAGCACGCTTAACACGCGAATCAAA
1 ATAGTGGCATGCTTAACATGCGAATCAAA
23171716 ATACCAATAA
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
34 2 0.04
35 51 0.93
36 2 0.04
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.23
Consensus pattern (34 bp):
ATAGTGGCATGCTTAACATGCGAATCAAATCAGA
Found at i:23182257 original size:25 final size:25
Alignment explanation
Indices: 23182197--23182257 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 25
23182187 CTCCTAAATT
*
23182197 TTAATTTAATTATCTAATTTTTCAA
1 TTAATTAAATTATCTAATTTTTCAA
* *
23182222 TTTATTGAATTAT-TAATATTTT-ATA
1 TTAATTAAATTATCTAAT-TTTTCA-A
23182247 TTAATTAAATT
1 TTAATTAAATT
23182258 TTTGAGAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
24 5 0.17
25 25 0.83
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (25 bp):
TTAATTAAATTATCTAATTTTTCAA
Found at i:23188682 original size:21 final size:21
Alignment explanation
Indices: 23188664--23188704 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
23188654 ATTCCCTTCT
23188664 TTCTCTTCTCTTTTTCCTTTA
1 TTCTCTTCTCTTTTTCCTTTA
* * *
23188685 TTTTTTTCTCTTTTTTCTTT
1 TTCTCTTCTCTTTTTCCTTT
23188705 CCGAAAGAAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (21 bp):
TTCTCTTCTCTTTTTCCTTTA
Found at i:23222102 original size:22 final size:22
Alignment explanation
Indices: 23222074--23222118 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
23222064 GTTCACTCTT
23222074 TGCTGAGGTATCTTCTATTTCC
1 TGCTGAGGTATCTTCTATTTCC
23222096 TGCTGAGGTATCTTCTATTTCC
1 TGCTGAGGTATCTTCTATTTCC
23222118 T
1 T
23222119 CTACGTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (22 bp):
TGCTGAGGTATCTTCTATTTCC
Found at i:23227383 original size:14 final size:15
Alignment explanation
Indices: 23227364--23227396 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
23227354 CATTACTTTC
23227364 ATGTTAA-TATTAAT
1 ATGTTAATTATTAAT
*
23227378 ATGTTAATTTTTAAT
1 ATGTTAATTATTAAT
23227393 ATGT
1 ATGT
23227397 AGTGGGACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (15 bp):
ATGTTAATTATTAAT
Found at i:23229765 original size:22 final size:22
Alignment explanation
Indices: 23229740--23229783 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
23229730 AAGCCACCAC
23229740 TTGCAGATAAACTACCACTGAT
1 TTGCAGATAAACTACCACTGAT
*
23229762 TTGCAGATAAGCTACCACTGAT
1 TTGCAGATAAACTACCACTGAT
23229784 AATACTTTAT
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:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (22 bp):
TTGCAGATAAACTACCACTGAT
Found at i:23229828 original size:50 final size:50
Alignment explanation
Indices: 23229753--23229918 Score: 187
Period size: 50 Copynumber: 3.4 Consensus size: 50
23229743 CAGATAAACT
23229753 ACCACTGATTTGCAGATAAGCTACCACTGATAATACTTTATGGACAATCC
1 ACCACTGATTTGCAGATAAGCTACCACTGATAATACTTTATGGACAATCC
* * ***
23229803 ACCACTGATTTGTAGATAAGCTACCACTGATAATAGTTTATGGACAGGAC
1 ACCACTGATTTGCAGATAAGCTACCACTGATAATACTTTATGGACAATCC
* * * * * *
23229853 ACCAC--ATATGCAAATACA-CTTCCACTGA-AACACTTTGTGGACAAGCC
1 ACCACTGATTTGCAGATA-AGCTACCACTGATAATACTTTATGGACAATCC
*
23229900 ACCACTGATTTCCAGATAA
1 ACCACTGATTTGCAGATAA
23229919 ATCTCCACTT
Statistics
Matches: 96, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
47 19 0.20
48 18 0.19
49 9 0.09
50 50 0.52
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (50 bp):
ACCACTGATTTGCAGATAAGCTACCACTGATAATACTTTATGGACAATCC
Found at i:23242361 original size:243 final size:243
Alignment explanation
Indices: 23241933--23242419 Score: 938
Period size: 243 Copynumber: 2.0 Consensus size: 243
23241923 GTACAACTTC
* *
23241933 AAGAACTTCTCGATCGAGGGTTCATCAAGCCTAGTGTGTCCTAGTAGGGAGCACCAGTTCTTTTC
1 AAGAACTTCTCGATCGAGGGTTCATCAAGCCTAGTGTGTCCCAGTAAGGAGCACCAGTTCTTTTC
23241998 GTGACGAAGAAATATGATACTATGAGGATGTGTGTGGATTACCGCCAGTTAAATAAATTAACTGT
66 GTGACGAAGAAATATGATACTATGAGGATGTGTGTGGATTACCGCCAGTTAAATAAATTAACTGT
23242063 AAAGAATAAGTAACCACTTCTGAGGATTGGAGACTTGTTCAATCAGTTTCATGGGGCATCTATAT
131 AAAGAATAAGTAACCACTTCTGAGGATTGGAGACTTGTTCAATCAGTTTCATGGGGCATCTATAT
23242128 TCTCAAAGATTGATATTTGTTTCGGGTATCATCAATTATAGGTTAAAG
196 TCTCAAAGATTGATATTTGTTTCGGGTATCATCAATTATAGGTTAAAG
23242176 AAGAACTTCTCGATCGAGGGTTCATCAAGCCTAGTGTGTCCCAGTAAGGAGCACCAGTTCTTTTC
1 AAGAACTTCTCGATCGAGGGTTCATCAAGCCTAGTGTGTCCCAGTAAGGAGCACCAGTTCTTTTC
*
23242241 GTGACGAAGAAATATGGTACTATGAGGATGTGTGTGGATTACCGCCAGTTAAATAAATTAACTGT
66 GTGACGAAGAAATATGATACTATGAGGATGTGTGTGGATTACCGCCAGTTAAATAAATTAACTGT
23242306 AAAGAATAAGTAACCACTTCTGAGGATTGGAGACTTGTTCAATCAGTTTCATGGGGCATCTATAT
131 AAAGAATAAGTAACCACTTCTGAGGATTGGAGACTTGTTCAATCAGTTTCATGGGGCATCTATAT
*
23242371 TCTCAAAGATTGATATTTGTTTCGGGTATCATCAGTTATAGGTTAAAG
196 TCTCAAAGATTGATATTTGTTTCGGGTATCATCAATTATAGGTTAAAG
23242419 A
1 A
23242420 GGCTGATTTA
Statistics
Matches: 240, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
243 240 1.00
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.31
Consensus pattern (243 bp):
AAGAACTTCTCGATCGAGGGTTCATCAAGCCTAGTGTGTCCCAGTAAGGAGCACCAGTTCTTTTC
GTGACGAAGAAATATGATACTATGAGGATGTGTGTGGATTACCGCCAGTTAAATAAATTAACTGT
AAAGAATAAGTAACCACTTCTGAGGATTGGAGACTTGTTCAATCAGTTTCATGGGGCATCTATAT
TCTCAAAGATTGATATTTGTTTCGGGTATCATCAATTATAGGTTAAAG
Found at i:23244791 original size:23 final size:22
Alignment explanation
Indices: 23244757--23244800 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
23244747 ATATATCAAT
*
23244757 AATTTTAAAATTATATAATAAA
1 AATTTTAAAATTATAAAATAAA
23244779 AATTATTAAAATTATAAAATAA
1 AATT-TTAAAATTATAAAATAA
23244801 TTTAAAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
AATTTTAAAATTATAAAATAAA
Found at i:23245220 original size:15 final size:16
Alignment explanation
Indices: 23245200--23245241 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
23245190 AGTCTTGAAT
*
23245200 ATAAATAT-ATTTTTA
1 ATAAATATAAATTTTA
23245215 ATAAATATAAATTTTA
1 ATAAATATAAATTTTA
*
23245231 A-AAATAAAAAT
1 ATAAATATAAAT
23245242 AAAATAACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 17 0.71
16 7 0.29
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
ATAAATATAAATTTTA
Found at i:23248754 original size:40 final size:40
Alignment explanation
Indices: 23248708--23248786 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
23248698 AAATGTGTTC
23248708 AGGGGTACCAAAGTACAAACAGGGACACGTATGTGCAATT
1 AGGGGTACCAAAGTACAAACAGGGACACGTATGTGCAATT
* * **
23248748 AGGGGTACCGAAGTACGAACAGGGGTACGTATGTGCAAT
1 AGGGGTACCAAAGTACAAACAGGGACACGTATGTGCAAT
23248787 CATTCAATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.34, C:0.16, G:0.32, T:0.18
Consensus pattern (40 bp):
AGGGGTACCAAAGTACAAACAGGGACACGTATGTGCAATT
Found at i:23270987 original size:24 final size:25
Alignment explanation
Indices: 23270960--23271006 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
23270950 ACTAGTCACA
23270960 GAGAGAATTGAGGAG-GAATATTTG
1 GAGAGAATTGAGGAGAGAATATTTG
*
23270984 GAGAGATTTGAGGAGAGAATATT
1 GAGAGAATTGAGGAGAGAATATT
23271007 GGGATTTGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.38, C:0.00, G:0.36, T:0.26
Consensus pattern (25 bp):
GAGAGAATTGAGGAGAGAATATTTG
Found at i:23271667 original size:27 final size:27
Alignment explanation
Indices: 23271637--23271917 Score: 278
Period size: 27 Copynumber: 10.4 Consensus size: 27
23271627 ATACCCTCAA
* * **
23271637 AGGGTAAAATGACTGAAATGCCCCCAT
1 AGGGTAAAATGACCGTAATGCCCCTGT
* *
23271664 AGGGTAAAATGACCGAAATATCCCC-GT
1 AGGGTAAAATGACCGTAAT-GCCCCTGT
* * * *
23271691 AGGGTAGAAT-ACCGAAATACCCCTAT
1 AGGGTAAAATGACCGTAATGCCCCTGT
* *
23271717 AAGGTAAAATGACCGTAATACCCCTGT
1 AGGGTAAAATGACCGTAATGCCCCTGT
* * *
23271744 AGGGTAAAATAAGCATAATGCCCCTGT
1 AGGGTAAAATGACCGTAATGCCCCTGT
*
23271771 AGGGTGAAATGACCGTAATGCCCCTGT
1 AGGGTAAAATGACCGTAATGCCCCTGT
* * *
23271798 AGGGTGAAATGACTGTAATGCCCGTGT
1 AGGGTAAAATGACCGTAATGCCCCTGT
* *
23271825 AGGGTAAAATGACCGTAATACCCCTAT
1 AGGGTAAAATGACCGTAATGCCCCTGT
* *** *
23271852 AGGTTAAAATGTTTGTAATGCCCCTAT
1 AGGGTAAAATGACCGTAATGCCCCTGT
* **
23271879 AAGGTAAAATGGTCGTAATGCCCCTGT
1 AGGGTAAAATGACCGTAATGCCCCTGT
23271906 AGGGTAAAATGA
1 AGGGTAAAATGA
23271918 AGATATACTG
Statistics
Matches: 213, Mismatches: 38, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
25 4 0.02
26 17 0.08
27 188 0.88
28 4 0.02
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.23
Consensus pattern (27 bp):
AGGGTAAAATGACCGTAATGCCCCTGT
Found at i:23272048 original size:26 final size:26
Alignment explanation
Indices: 23271995--23272048 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
23271985 ACTGTTACTA
* *
23271995 GCAGCTTTACTGCGATACTGTTGCTG
1 GCAGCTTTACTGCGATACTATTGATG
* * *
23272021 GCAGCTTTGCTGTGATGCTATTGATG
1 GCAGCTTTACTGCGATACTATTGATG
23272047 GC
1 GC
23272049 TTTGTGCCGA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.15, C:0.20, G:0.30, T:0.35
Consensus pattern (26 bp):
GCAGCTTTACTGCGATACTATTGATG
Done.