Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 ID=Chr07-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: 60982465
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 868082 characters in sequence are not A, C, G, or T
File 72 of 204
Found at i:22708787 original size:20 final size:20
Alignment explanation
Indices: 22708762--22708801 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
22708752 TTTCAATGAG
22708762 AAGGTCCACAAATAAATTAA
1 AAGGTCCACAAATAAATTAA
*
22708782 AAGGTCCAGAAATAAATTAA
1 AAGGTCCACAAATAAATTAA
22708802 CTTAACCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.55, C:0.12, G:0.12, T:0.20
Consensus pattern (20 bp):
AAGGTCCACAAATAAATTAA
Found at i:22712305 original size:46 final size:45
Alignment explanation
Indices: 22712233--22712369 Score: 166
Period size: 46 Copynumber: 3.0 Consensus size: 45
22712223 ACAATGTTAT
* * *
22712233 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTT-ACTGAAATACCATACCTACGTTCCAA
* *
22712279 AACTCAATATGGTTTTCATTATTGAAATACCATACCTACGTTCCAA
1 AACTCAGTATGGTTTTC-TTACTGAAATACCATACCTACGTTCCAA
* * * *
22712325 AAATCAGTATTGATTTCTTTACTGAATTACCATACCTACGTTCCA
1 AACTCAGTATGGTTTTC-TTACTGAAATACCATACCTACGTTCCA
22712370 TACTTTTCCA
Statistics
Matches: 78, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
46 76 0.97
47 2 0.03
ACGTcount: A:0.31, C:0.23, G:0.09, T:0.36
Consensus pattern (45 bp):
AACTCAGTATGGTTTTCTTACTGAAATACCATACCTACGTTCCAA
Found at i:22716916 original size:43 final size:43
Alignment explanation
Indices: 22716868--22716954 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 43
22716858 TTCAAAGTAT
22716868 GTTAAATCACACCATCTAACATTCAACCAATATG-CTTAACATA
1 GTTAAATCACACCATCTAACATTCAACCAATATGTC-TAACATA
22716911 GTTAAATCACACCATCTAACATTCAACCAATATGTCTAACATA
1 GTTAAATCACACCATCTAACATTCAACCAATATGTCTAACATA
22716954 G
1 G
22716955 GCAACTCAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
43 42 0.98
44 1 0.02
ACGTcount: A:0.41, C:0.25, G:0.06, T:0.28
Consensus pattern (43 bp):
GTTAAATCACACCATCTAACATTCAACCAATATGTCTAACATA
Found at i:22717540 original size:37 final size:37
Alignment explanation
Indices: 22717498--22717589 Score: 116
Period size: 37 Copynumber: 2.5 Consensus size: 37
22717488 GAAACATACT
** *
22717498 AGATGCTCATAAGAGCTAATCCACCTGATAACATGCC
1 AGATGCTCATAAGAGCTAATCCACCCAATAACACGCC
22717535 AGATGCTCATAAGAG-TCAATCCACCCAATAACACGCC
1 AGATGCTCATAAGAGCT-AATCCACCCAATAACACGCC
*
22717572 A-ATTGCTCTTAAGAGCTA
1 AGA-TGCTCATAAGAGCTA
22717590 GTCTAACCGA
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
36 2 0.04
37 45 0.94
38 1 0.02
ACGTcount: A:0.36, C:0.27, G:0.15, T:0.22
Consensus pattern (37 bp):
AGATGCTCATAAGAGCTAATCCACCCAATAACACGCC
Found at i:22719931 original size:26 final size:26
Alignment explanation
Indices: 22719896--22719986 Score: 101
Period size: 26 Copynumber: 3.2 Consensus size: 26
22719886 TCAATTAAAC
22719896 AAATAAATTACATAAAATGTAATTAA
1 AAATAAATTACATAAAATGTAATTAA
22719922 AAATAAATTACATAAAATTAGTTGAATTAA
1 AAATAAATTACATAAAA-T-G-T-AATTAA
* *
22719952 AAATTTAAATTAGATAAAATCTAATTACA
1 AAA--TAAATTACATAAAATGTAATTA-A
22719981 AAATAA
1 AAATAA
22719987 TGGCATAAAG
Statistics
Matches: 56, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
26 17 0.30
27 4 0.07
28 6 0.11
29 6 0.11
30 9 0.16
31 1 0.02
32 13 0.23
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.32
Consensus pattern (26 bp):
AAATAAATTACATAAAATGTAATTAA
Found at i:22728221 original size:22 final size:22
Alignment explanation
Indices: 22728196--22728238 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
22728186 AATTTAATTC
*
22728196 ACATTTATTGATTGAATGTAAT
1 ACATTTATTAATTGAATGTAAT
22728218 ACATTTATTAATTGAATGTAA
1 ACATTTATTAATTGAATGTAA
22728239 AGGAGCTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.44
Consensus pattern (22 bp):
ACATTTATTAATTGAATGTAAT
Found at i:22734428 original size:86 final size:86
Alignment explanation
Indices: 22734278--22734524 Score: 275
Period size: 86 Copynumber: 2.8 Consensus size: 86
22734268 ACCACAAAAT
* * * *
22734278 CCGCTAAAGGTCATGGTCTTTAGCGGCGCTTACCACACAAACGCCGCTAAAGGTCATGGTCTTTA
1 CCGCTAAAGGTCATGGACTTTAGCGGCGCTTACCAAACAAACGCCGCTAAA-GACATGATCTTTA
22734343 GTGGCGCTT-ACAAAACAAACG
65 GTGGCGCTTCACAAAACAAACG
* *
22734364 CCGCTAAAGGTCATGGACTTTAGCGGCGCTTACGAAACAAACGCCGCTAAAGACAATGACCTTTA
1 CCGCTAAAGGTCATGGACTTTAGCGGCGCTTACCAAACAAACGCCGCTAAAGAC-ATGATCTTTA
* ***
22734429 GTGGCGCTTCTCTTTACAAACG
65 GTGGCGCTTCACAAAACAAACG
*** * * * *
22734451 CCGCTAAAAACCCT-GATCTTTAGCGGCGCTTCTCCAGA-AAACGCCGCTGAAGACCATGATCTT
1 CCGCTAAAGGTCATGGA-CTTTAGCGGCGCTT-ACCAAACAAACGCCGCTAAAGA-CATGATCTT
22734514 TAGTGGCGCTT
63 TAGTGGCGCTT
22734525 TTCCCACAAA
Statistics
Matches: 137, Mismatches: 19, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
85 2 0.01
86 67 0.49
87 64 0.47
88 4 0.03
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (86 bp):
CCGCTAAAGGTCATGGACTTTAGCGGCGCTTACCAAACAAACGCCGCTAAAGACATGATCTTTAG
TGGCGCTTCACAAAACAAACG
Found at i:22734547 original size:43 final size:43
Alignment explanation
Indices: 22734230--22734559 Score: 247
Period size: 43 Copynumber: 7.7 Consensus size: 43
22734220 TTATTTCTAA
* ** * *
22734230 AAACGCCACTAAAGACCAAAAGCTTTAACGGCGCTTTCACCAC
1 AAACGCCGCTAAAGACCATGATCTTTAGCGGCGCTTTCACCAC
** ** * *
22734273 AAAATCCGCTAAAGGTCATGGTCTTTAGCGGCGCTTAC-CACAC
1 AAACGCCGCTAAAGACCATGATCTTTAGCGGCGCTTTCAC-CAC
** * * * **
22734316 AAACGCCGCTAAAGGTCATGGTCTTTAGTGGCGCTTACAAAAC
1 AAACGCCGCTAAAGACCATGATCTTTAGCGGCGCTTTCACCAC
** * *
22734359 AAACGCCGCTAAAGGTCATGGA-CTTTAGCGGCGCTTACGA-AAC
1 AAACGCCGCTAAAGACCAT-GATCTTTAGCGGCGCTTTC-ACCAC
* * * ***
22734402 AAACGCCGCTAAAGACAATGACCTTTAGTGGCGCTTCTCTTTAC
1 AAACGCCGCTAAAGACCATGATCTTTAGCGGCGCTT-TCACCAC
* * * *
22734446 AAACGCCGCTAAAAACCCTGATCTTTAGCGGCGC-TTCTCCAGA
1 AAACGCCGCTAAAGACCATGATCTTTAGCGGCGCTTTCACCA-C
* *
22734489 AAACGCCGCTGAAGACCATGATCTTTAGTGGCGCTTTTC-CCAC
1 AAACGCCGCTAAAGACCATGATCTTTAGCGGCGC-TTTCACCAC
* *
22734532 AAACGCCGCTAAAGACCATTACCTTTAG
1 AAACGCCGCTAAAGACCATGATCTTTAG
22734560 TGGTGTTTTT
Statistics
Matches: 236, Mismatches: 41, Indels: 20
0.79 0.14 0.07
Matches are distributed among these distances:
42 7 0.03
43 189 0.80
44 37 0.16
45 3 0.01
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGATCTTTAGCGGCGCTTTCACCAC
Found at i:22734984 original size:66 final size:66
Alignment explanation
Indices: 22734903--22735048 Score: 215
Period size: 66 Copynumber: 2.2 Consensus size: 66
22734893 CTCGCTGCAG
*
22734903 CCTCTGCTTCTCTCGCTGCCCCATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTT
1 CCTCAGCTTCTCTCGCTGCCCCATCTGCTTTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-GTT
22734966 GAA
64 GAA
** * *
22734969 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGA
1 CCTCAGCTTCTCTCGCTGCCCCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGA
22735034 A
66 A
22735035 CCTCAGCTTCTCTC
1 CCTCAGCTTCTCTC
22735049 AATGTTGCCT
Statistics
Matches: 73, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
65 1 0.01
66 68 0.93
67 4 0.05
ACGTcount: A:0.13, C:0.30, G:0.17, T:0.40
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGCTGCCCCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGA
A
Found at i:22735065 original size:66 final size:66
Alignment explanation
Indices: 22734924--22735070 Score: 190
Period size: 66 Copynumber: 2.2 Consensus size: 66
22734914 CTCGCTGCCC
* * **
22734924 CATCTGCTTTAAGCTGCTGCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGCTGCT
1 CATCCGCTTTAAGTTGCTGCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCAATGCT
22734989 G
66 G
* *
22734990 CATCTGCTTTAAGTTG-TAGCTGGAGTTCTTCATATCTTT-TTTGAACCTCAGCTTCTCTCAATG
1 CATCCGCTTTAAGTTGCT-GCTGGAGTTCTTCATA-CTTTCGTTGAACCTCAGCTTCTCTCAATG
*
22735053 TTG
64 CTG
*
22735056 CCTCCGCTTTAAGTT
1 CATCCGCTTTAAGTT
22735071 TTGTAATTTG
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
65 1 0.01
66 67 0.93
67 4 0.06
ACGTcount: A:0.16, C:0.26, G:0.18, T:0.41
Consensus pattern (66 bp):
CATCCGCTTTAAGTTGCTGCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCAATGCT
G
Found at i:22740542 original size:9 final size:9
Alignment explanation
Indices: 22740528--22740567 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
22740518 TTATGTCGTA
22740528 TTATGTAAG
1 TTATGTAAG
22740537 TTATGT-A-
1 TTATGTAAG
*
22740544 TTA-ATAAG
1 TTATGTAAG
22740552 TTATGTAAG
1 TTATGTAAG
22740561 TTATGTA
1 TTATGTA
22740568 CCATTTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
6 1 0.04
7 4 0.15
8 4 0.15
9 17 0.65
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:22747630 original size:42 final size:42
Alignment explanation
Indices: 22747506--22747777 Score: 311
Period size: 42 Copynumber: 6.4 Consensus size: 42
22747496 ACGTCGCTAA
* *
22747506 CTTTTGCGGCGCTTACAGAAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTA-TG-AAAAAACGCCGCTAAAGATCATGTT
*
22747550 CTTTAGCGGCGC-TAAGAAAATAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTATG-AAA-AAACGCCGCTAAAGATCATGTT
* *
22747593 CTTTAGCGGCACTTATGAAAAAACGCCGCTAAAGATCACGTT
1 CTTTAGCGGCGCTTATGAAAAAACGCCGCTAAAGATCATGTT
*
22747635 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTATGAAAAAACGCCGCTAAAGATCATGTT
* *
22747677 CTTTAGCGGCGCTT-TGGGAGAAAACGCCGCTAAA-AGTAATGTT
1 CTTTAGCGGCGCTTAT--GAAAAAACGCCGCTAAAGA-TCATGTT
* * **
22747720 CTATAGCGGCGCTTGTTCAAAAACGCCGCTAATAG-T-AGTGTT
1 CTTTAGCGGCGCTTATGAAAAAACGCCGCTAA-AGATCA-TGTT
*
22747762 ATTTAGCGGCGCTTAT
1 CTTTAGCGGCGCTTAT
22747778 TTCATAAACG
Statistics
Matches: 202, Mismatches: 17, Indels: 20
0.85 0.07 0.08
Matches are distributed among these distances:
41 1 0.00
42 112 0.55
43 74 0.37
44 15 0.07
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (42 bp):
CTTTAGCGGCGCTTATGAAAAAACGCCGCTAAAGATCATGTT
Found at i:22747666 original size:127 final size:127
Alignment explanation
Indices: 22747506--22747776 Score: 334
Period size: 127 Copynumber: 2.1 Consensus size: 127
22747496 ACGTCGCTAA
*
22747506 CTTTTGCGGCGCTTACAGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGC-TAAGAAAA
1 CTTTAGCGGCGCTT--AGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAAGAAAA
* *
22747570 TAAACGCCGCT-AAAGATCATGTTCTTTAGCGGCACTTATGAAAAAACGCCGCTAA-AGATCA-C
64 -AAACGCCGCTAAAAG-TAATGTTCTATAGCGGCACTTATGAAAAAACGCCGCTAATAG-T-AGC
22747632 GTT
125 GTT
* ** * *
22747635 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTGGGAGAAA
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAAGAAAAAA
* * ** *
22747700 ACGCCGCTAAAAGTAATGTTCTATAGCGGCGCTTGTTCAAAAACGCCGCTAATAGTAGTGTT
66 ACGCCGCTAAAAGTAATGTTCTATAGCGGCACTTATGAAAAAACGCCGCTAATAGTAGCGTT
*
22747762 ATTTAGCGGCGCTTA
1 CTTTAGCGGCGCTTA
22747777 TTTCATAAAC
Statistics
Matches: 124, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
126 1 0.01
127 100 0.81
128 10 0.08
129 13 0.10
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.25
Consensus pattern (127 bp):
CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAAGAAAAAA
ACGCCGCTAAAAGTAATGTTCTATAGCGGCACTTATGAAAAAACGCCGCTAATAGTAGCGTT
Found at i:22747742 original size:85 final size:83
Alignment explanation
Indices: 22747506--22747777 Score: 309
Period size: 85 Copynumber: 3.2 Consensus size: 83
22747496 ACGTCGCTAA
* * *
22747506 CTTTTGCGGCGCTTACAGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGAAAAT
1 CTTTAGCGGCGCTTA-TG-AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCT-TGAAAA-
22747571 AAACGCCGCTAAAGATCATGTT
62 AAACGCCGCTAAAGATCATGTT
* * *
22747593 CTTTAGCGGCACTTATGAAAAAACGCCGCTAAAGATCACGTTCTTTAGCGGCGCTTAGGAAAAAA
1 CTTTAGCGGCGCTTATGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT-GAAAAAAA
22747658 CGCCGCTAAAGATCATGTT
65 CGCCGCTAAAGATCATGTT
* * * **
22747677 CTTTAGCGGCGCTT-TGGGAGAAAACGCCGCTAAA-AGTAATGTTCTATAGCGGCGCTTGTTCAA
1 CTTTAGCGGCGCTTAT--GAAAAAACGCCGCTAAAGA-TCATGTTCTTTAGCGGCGCTTG-AAAA
22747740 AAACGCCGCTAATAG-T-AGTGTT
62 AAACGCCGCTAA-AGATCA-TGTT
*
22747762 ATTTAGCGGCGCTTAT
1 CTTTAGCGGCGCTTAT
22747778 TTCATAAACG
Statistics
Matches: 163, Mismatches: 14, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
83 1 0.01
84 38 0.23
85 107 0.66
86 4 0.02
87 13 0.08
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (83 bp):
CTTTAGCGGCGCTTATGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTGAAAAAAAC
GCCGCTAAAGATCATGTT
Found at i:22747852 original size:43 final size:43
Alignment explanation
Indices: 22747723--22747852 Score: 115
Period size: 43 Copynumber: 3.0 Consensus size: 43
22747713 TAATGTTCTA
* * ** *
22747723 TAGCGGCGC-TTGTTCAAAAACGCCGCTAATAGTAGTG-TTATT
1 TAGCGGCGCTTTTTTCAAAAACGCCACTAATTTTAG-GATTTTT
* * * *
22747765 TAGCGGCGCTTATTTCATAAACGCCACT-ATTTGATATGA-CTTT
1 TAGCGGCGCTTTTTTCAAAAACGCCACTAATTT--TAGGATTTTT
*
22747808 TAGCGGCGCTTTTTTAAAAAACGCCACTAATTTTAGGATTTTT
1 TAGCGGCGCTTTTTTCAAAAACGCCACTAATTTTAGGATTTTT
22747851 TA
1 TA
22747853 AAAATAAAAT
Statistics
Matches: 68, Mismatches: 14, Indels: 11
0.73 0.15 0.12
Matches are distributed among these distances:
42 15 0.22
43 47 0.69
44 6 0.09
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (43 bp):
TAGCGGCGCTTTTTTCAAAAACGCCACTAATTTTAGGATTTTT
Found at i:22748316 original size:21 final size:21
Alignment explanation
Indices: 22748265--22748316 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 21
22748255 TCTTGCTGTG
* *
22748265 GCCTCTGCTTCTCTCGCTATA
1 GCCTCTGCTTCCCTCGCTACA
* * * *
22748286 GCATCAGCTTCCCTCGCTGCC
1 GCCTCTGCTTCCCTCGCTACA
22748307 GCCTCTGCTT
1 GCCTCTGCTT
22748317 TAAGTTGTTG
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.08, C:0.42, G:0.17, T:0.33
Consensus pattern (21 bp):
GCCTCTGCTTCCCTCGCTACA
Found at i:22753741 original size:7 final size:7
Alignment explanation
Indices: 22753731--22753767 Score: 56
Period size: 7 Copynumber: 5.0 Consensus size: 7
22753721 TGATATATTT
22753731 TTATGTA
1 TTATGTA
22753738 TTATGTAA
1 TTATGT-A
22753746 GTTATGTA
1 -TTATGTA
22753754 TTATGTA
1 TTATGTA
22753761 TTATGTA
1 TTATGTA
22753768 AGTACTGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 20 0.71
8 2 0.07
9 6 0.21
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.54
Consensus pattern (7 bp):
TTATGTA
Found at i:22753752 original size:9 final size:9
Alignment explanation
Indices: 22753738--22753859 Score: 84
Period size: 9 Copynumber: 14.4 Consensus size: 9
22753728 TTTTTATGTA
22753738 TTATGTAAG
1 TTATGTAAG
22753747 TTATGT-A-
1 TTATGTAAG
22753754 TTATGT-A-
1 TTATGTAAG
22753761 TTATGTAAG
1 TTATGTAAG
22753770 -TACTGTAAG
1 TTA-TGTAAG
*
22753779 TAATGTAAG
1 TTATGTAAG
*
22753788 TAATGT-A-
1 TTATGTAAG
*
22753795 TAATGTAAG
1 TTATGTAAG
*
22753804 TTAAG-AAGG
1 TTATGTAA-G
22753813 TTATGT-A-
1 TTATGTAAG
*
22753820 TAATGTAAG
1 TTATGTAAG
*
22753829 TCATGTAAG
1 TTATGTAAG
* *
22753838 TTATTTAAT
1 TTATGTAAG
22753847 TTATGTAAG
1 TTATGTAAG
22753856 TTAT
1 TTAT
22753860 TTATGTAAGT
Statistics
Matches: 92, Mismatches: 11, Indels: 20
0.75 0.09 0.16
Matches are distributed among these distances:
7 24 0.26
8 9 0.10
9 58 0.63
10 1 0.01
ACGTcount: A:0.36, C:0.02, G:0.19, T:0.43
Consensus pattern (9 bp):
TTATGTAAG
Found at i:22753786 original size:18 final size:16
Alignment explanation
Indices: 22753756--22753804 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 16
22753746 GTTATGTATT
*
22753756 ATGTATTATGTAAGTA
1 ATGTATAATGTAAGTA
*
22753772 CTGTAAGTAATGTAAGTA
1 ATGT-A-TAATGTAAGTA
22753790 ATGTATAATGTAAGT
1 ATGTATAATGTAAGT
22753805 TAAGAAGGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
16 13 0.46
17 2 0.07
18 13 0.46
ACGTcount: A:0.39, C:0.02, G:0.20, T:0.39
Consensus pattern (16 bp):
ATGTATAATGTAAGTA
Found at i:22753840 original size:25 final size:25
Alignment explanation
Indices: 22753773--22753841 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 25
22753763 ATGTAAGTAC
*
22753773 TGTAAGTAATGTAAGTAATGTATAA
1 TGTAAGTAATGTAAGTTATGTATAA
22753798 TGTAAGTTAA-G-AAGGTTATGTATAA
1 TGTAAG-TAATGTAA-GTTATGTATAA
*
22753823 TGTAAGTCATGTAAGTTAT
1 TGTAAGTAATGTAAGTTAT
22753842 TTAATTTATG
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
24 4 0.11
25 29 0.76
26 5 0.13
ACGTcount: A:0.39, C:0.01, G:0.22, T:0.38
Consensus pattern (25 bp):
TGTAAGTAATGTAAGTTATGTATAA
Found at i:22753853 original size:59 final size:57
Alignment explanation
Indices: 22753730--22753853 Score: 142
Period size: 59 Copynumber: 2.1 Consensus size: 57
22753720 ATGATATATT
* * * *
22753730 TTTATGTATTATGTAAGTTATGTATTATGTATTATGTAAGTACTGTAAGTAATGTAA
1 TTTATGTATAATGTAAGTTAAGAATTATGTATAATGTAAGTACTGTAAGTAATGTAA
* * * *
22753787 GTAATGTATAATGTAAGTTAAGAAGGTTATGTATAATGTAAGT-CATGTAAGTTATTTAA
1 TTTATGTATAATGTAAGTTAAGAA--TTATGTATAATGTAAGTAC-TGTAAGTAATGTAA
22753846 TTTATGTA
1 TTTATGTA
22753854 AGTTATTTAT
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
57 19 0.35
58 1 0.02
59 34 0.63
ACGTcount: A:0.35, C:0.02, G:0.19, T:0.44
Consensus pattern (57 bp):
TTTATGTATAATGTAAGTTAAGAATTATGTATAATGTAAGTACTGTAAGTAATGTAA
Found at i:22753863 original size:13 final size:13
Alignment explanation
Indices: 22753845--22753870 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22753835 AAGTTATTTA
22753845 ATTTATGTAAGTT
1 ATTTATGTAAGTT
22753858 ATTTATGTAAGTT
1 ATTTATGTAAGTT
22753871 GTCTTGGCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
ATTTATGTAAGTT
Found at i:22753999 original size:20 final size:20
Alignment explanation
Indices: 22753984--22754035 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
22753974 GTAAGTGTTG
22753984 TATTATGTAAGTAAGTTATT
1 TATTATGTAAGTAAGTTATT
22754004 TATTATGTAAGTAAGTTATT
1 TATTATGTAAGTAAGTTATT
22754024 TATTATGTAAGT
1 TATTATGTAAGT
22754036 TTTAAGTCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (20 bp):
TATTATGTAAGTAAGTTATT
Found at i:22754145 original size:16 final size:16
Alignment explanation
Indices: 22754126--22754161 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
22754116 CTGTAAGTGC
*
22754126 TGTATTATATAAGTTA
1 TGTATTATATAAGATA
*
22754142 TGTATTATGTAAGATA
1 TGTATTATATAAGATA
22754158 TGTA
1 TGTA
22754162 AGTAACGAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.17, T:0.47
Consensus pattern (16 bp):
TGTATTATATAAGATA
Found at i:22754301 original size:38 final size:38
Alignment explanation
Indices: 22754181--22754304 Score: 135
Period size: 38 Copynumber: 3.1 Consensus size: 38
22754171 TTATGTAAGC
22754181 TATGTAAGTTATGCAAGATTATAATATAAGTTATGTAT
1 TATGTAAGTTATGCAAGATTATAATATAAGTTATGTAT
* * *
22754219 TATGTAATTTAT-TATG-TTATTATATATAAGTTATGGAAGTTAT
1 TATGTAAGTTATGCAAGATTA-TA-ATATAAGTTAT----G-TAT
*
22754262 TATGTAAGTTATGCAAGATTATAAAATAAGTTATGTAT
1 TATGTAAGTTATGCAAGATTATAATATAAGTTATGTAT
22754300 TATGT
1 TATGT
22754305 TATTATGTAT
Statistics
Matches: 70, Mismatches: 7, Indels: 18
0.74 0.07 0.19
Matches are distributed among these distances:
36 3 0.04
37 4 0.06
38 30 0.43
39 1 0.01
42 1 0.01
43 24 0.34
44 4 0.06
45 3 0.04
ACGTcount: A:0.38, C:0.02, G:0.15, T:0.45
Consensus pattern (38 bp):
TATGTAAGTTATGCAAGATTATAATATAAGTTATGTAT
Found at i:22754310 original size:8 final size:7
Alignment explanation
Indices: 22754292--22754337 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
22754282 ATAAAATAAG
22754292 TTATGTA
1 TTATGTA
22754299 TTATGTTA
1 TTATG-TA
22754307 TTATGTA
1 TTATGTA
22754314 TTATGTA
1 TTATGTA
*
22754321 --ATTTA
1 TTATGTA
22754326 TTATGTTA
1 TTATG-TA
22754334 TTAT
1 TTAT
22754338 ATATAAGTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
5 4 0.12
7 16 0.48
8 13 0.39
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (7 bp):
TTATGTA
Found at i:22754312 original size:15 final size:15
Alignment explanation
Indices: 22754292--22754337 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
22754282 ATAAAATAAG
22754292 TTATGTATTATGTTA
1 TTATGTATTATGTTA
22754307 TTATGTATTATG-TA
1 TTATGTATTATGTTA
*
22754321 --ATTTATTATGTTA
1 TTATGTATTATGTTA
22754334 TTAT
1 TTAT
22754338 ATATAAGTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
12 9 0.33
13 2 0.07
14 2 0.07
15 14 0.52
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (15 bp):
TTATGTATTATGTTA
Found at i:22754385 original size:98 final size:96
Alignment explanation
Indices: 22754211--22754429 Score: 402
Period size: 98 Copynumber: 2.3 Consensus size: 96
22754201 ATAATATAAG
*
22754211 TTATGTATTATGTAATTTATTATGTTATTATATATAAGTTATGGAAGTTATTATGTAAGTTATGC
1 TTATGTATTATGTAATTTATTATGTTATTATATATAAGTTATGGAAGTTATTATATAAGTTATGC
22754276 AAGATTATAAAATAAGTTATGTATTATGTTA
66 AAGATTATAAAATAAGTTATGTATTATGTTA
22754307 TTATGTATTATGTAATTTATTATGTTATTATATATAAGTTATATGGAAGTTATTATATAAGTTAT
1 TTATGTATTATGTAATTTATTATGTTATTATATATAAG-T-TATGGAAGTTATTATATAAGTTAT
*
22754372 GCAAGCTTATAAAATAAGTTATGTATTATGTTA
64 GCAAGATTATAAAATAAGTTATGTATTATGTTA
22754405 TTATGTATTATGTAATTTATTATGT
1 TTATGTATTATGTAATTTATTATGT
22754430 GAGTATAGTA
Statistics
Matches: 119, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
96 38 0.32
97 1 0.01
98 80 0.67
ACGTcount: A:0.36, C:0.01, G:0.14, T:0.49
Consensus pattern (96 bp):
TTATGTATTATGTAATTTATTATGTTATTATATATAAGTTATGGAAGTTATTATATAAGTTATGC
AAGATTATAAAATAAGTTATGTATTATGTTA
Found at i:22754574 original size:20 final size:20
Alignment explanation
Indices: 22754551--22754589 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
22754541 GTTATTTATT
*
22754551 TATTTATTTAATTTAATTTA
1 TATTTATTTAATATAATTTA
* *
22754571 TATTTGTTTTATATAATTT
1 TATTTATTTAATATAATTT
22754590 TTTCACGTAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (20 bp):
TATTTATTTAATATAATTTA
Found at i:22755185 original size:33 final size:33
Alignment explanation
Indices: 22755147--22755250 Score: 104
Period size: 33 Copynumber: 3.2 Consensus size: 33
22755137 CTCGGGTTAA
22755147 TAAATTTAAAGTATATTAAATATAAGTTAATGG
1 TAAATTTAAAGTATATTAAATATAAGTTAATGG
* * ** * ** **
22755180 TAAA-TTCAATTATATT-TTTCTCTGCAACATGG
1 TAAATTTAAAGTATATTAAATATAAGTTA-ATGG
22755212 TAAATTTAAAGTATATTAAATATAAGTTAATGG
1 TAAATTTAAAGTATATTAAATATAAGTTAATGG
22755245 TAAATT
1 TAAATT
22755251 CAGGTCTGAT
Statistics
Matches: 50, Mismatches: 18, Indels: 6
0.68 0.24 0.08
Matches are distributed among these distances:
31 4 0.08
32 18 0.36
33 24 0.48
34 4 0.08
ACGTcount: A:0.43, C:0.05, G:0.11, T:0.41
Consensus pattern (33 bp):
TAAATTTAAAGTATATTAAATATAAGTTAATGG
Found at i:22755195 original size:32 final size:32
Alignment explanation
Indices: 22755155--22755252 Score: 90
Period size: 32 Copynumber: 3.0 Consensus size: 32
22755145 AATAAATTTA
22755155 AAGTATATTAAATATAAGTTAATGGTAAATTC
1 AAGTATATTAAATATAAGTTAATGGTAAATTC
* ** * ** ** *
22755187 AATTATATT-TTTCTCTGCAACATGGTAAATTTA
1 AAGTATATTAAATATAAGTTA-ATGGTAAA-TTC
22755220 AAGTATATTAAATATAAGTTAATGGTAAATTC
1 AAGTATATTAAATATAAGTTAATGGTAAATTC
22755252 A
1 A
22755253 GGTCTGATTT
Statistics
Matches: 45, Mismatches: 18, Indels: 6
0.65 0.26 0.09
Matches are distributed among these distances:
31 4 0.09
32 19 0.42
33 18 0.40
34 4 0.09
ACGTcount: A:0.43, C:0.06, G:0.11, T:0.40
Consensus pattern (32 bp):
AAGTATATTAAATATAAGTTAATGGTAAATTC
Found at i:22757414 original size:22 final size:22
Alignment explanation
Indices: 22757373--22757414 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
22757363 AGCCTAAACC
* *
22757373 CTAAATCGTAAACTCTAAACTT
1 CTAAATCGTAAACCCAAAACTT
22757395 CTAAATCGTAAACCCAAAAC
1 CTAAATCGTAAACCCAAAAC
22757415 ACCAAAACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.45, C:0.26, G:0.05, T:0.24
Consensus pattern (22 bp):
CTAAATCGTAAACCCAAAACTT
Found at i:22757681 original size:17 final size:17
Alignment explanation
Indices: 22757659--22757708 Score: 84
Period size: 17 Copynumber: 3.0 Consensus size: 17
22757649 TATCCTATTT
22757659 CCTACATTATATAATAA
1 CCTACATTATATAATAA
22757676 CCTACATTATATAATAA
1 CCTACATTATATAATAA
*
22757693 ACTACA-TATATAATAA
1 CCTACATTATATAATAA
22757709 TCTAGCAGCG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
16 10 0.31
17 22 0.69
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (17 bp):
CCTACATTATATAATAA
Found at i:22758375 original size:41 final size:41
Alignment explanation
Indices: 22758311--22758390 Score: 126
Period size: 41 Copynumber: 2.0 Consensus size: 41
22758301 ACGCCGCTAA
* *
22758311 CGCCGCTAATGCTCCGGTCTTTAGCGGCG-TTTTCTAAGATG
1 CGCCGCTAATGCTCAGGTATTTAGCGGCGCTTTT-TAAGATG
22758352 CGCCGCTAATGCTCAGGTATTTAGCGGCGCTTTTTAAGA
1 CGCCGCTAATGCTCAGGTATTTAGCGGCGCTTTTTAAGA
22758391 AATGCCGCTA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
41 32 0.89
42 4 0.11
ACGTcount: A:0.17, C:0.25, G:0.26, T:0.31
Consensus pattern (41 bp):
CGCCGCTAATGCTCAGGTATTTAGCGGCGCTTTTTAAGATG
Found at i:22758398 original size:41 final size:41
Alignment explanation
Indices: 22758309--22758401 Score: 125
Period size: 41 Copynumber: 2.3 Consensus size: 41
22758299 AAACGCCGCT
* *
22758309 AACGCCGCTAATGCTCCGGTCTTTAGCGGCGTTTTCTAAGA
1 AACGCCGCTAATGCTCAGGTATTTAGCGGCGTTTTCTAAGA
**
22758350 TGCGCCGCTAATGCTCAGGTATTTAGCGGCGCTTTT-TAAGA
1 AACGCCGCTAATGCTCAGGTATTTAGCGGCG-TTTTCTAAGA
*
22758391 AATGCCGCTAA
1 AACGCCGCTAA
22758402 AGACTGGAGC
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
41 40 0.91
42 4 0.09
ACGTcount: A:0.22, C:0.25, G:0.25, T:0.29
Consensus pattern (41 bp):
AACGCCGCTAATGCTCAGGTATTTAGCGGCGTTTTCTAAGA
Found at i:22758417 original size:41 final size:41
Alignment explanation
Indices: 22758372--22758524 Score: 161
Period size: 41 Copynumber: 3.7 Consensus size: 41
22758362 GCTCAGGTAT
*
22758372 TTAGCGGCGCTTTTTAAGAAATGCCGCTAAAGACTGGAGCA
1 TTAGCGGCGCTTTTTAAGAAACGCCGCTAAAGACTGGAGCA
* * * *
22758413 TTAGCGGCGCTTTCTAATAAACGGCGGTAAAGACCT-GAGCA
1 TTAGCGGCGCTTTTTAAGAAACGCCGCTAAAGA-CTGGAGCA
* * * *
22758454 TTAGCGGCGCATCTT-AGAAAACGCTGCTAAAGACAGGAGCA
1 TTAGCGGCGCTTTTTAAG-AAACGCCGCTAAAGACTGGAGCA
22758495 TTAGCGGCG-TGTTTTAA-AAAGCGCCGCTAA
1 TTAGCGGCGCT-TTTTAAGAAA-CGCCGCTAA
22758525 GGGCCCCAAC
Statistics
Matches: 90, Mismatches: 16, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
40 5 0.06
41 82 0.91
42 3 0.03
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (41 bp):
TTAGCGGCGCTTTTTAAGAAACGCCGCTAAAGACTGGAGCA
Found at i:22758717 original size:41 final size:40
Alignment explanation
Indices: 22758588--22758699 Score: 138
Period size: 40 Copynumber: 2.8 Consensus size: 40
22758578 TTATTTGAAA
* * * *
22758588 ACGCCGCTAATGCTTG-TTTTTAGCGGCGTTTTAC-AAAT
1 ACGCCGCTAATGCTCGATTTTTTGTGGCGTTTTACGTAAT
* *
22758626 AGCGCCGCTAATGCTCGTTTTTTTGTGGTGTTTTACGTAAT
1 A-CGCCGCTAATGCTCGATTTTTTGTGGCGTTTTACGTAAT
*
22758667 TCGCCGCTAATGCTCGATTTTTTGTGGCGTTTT
1 ACGCCGCTAATGCTCGATTTTTTGTGGCGTTTT
22758700 TTGTCCAAAC
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.02
39 14 0.22
40 45 0.71
41 3 0.05
ACGTcount: A:0.15, C:0.20, G:0.23, T:0.42
Consensus pattern (40 bp):
ACGCCGCTAATGCTCGATTTTTTGTGGCGTTTTACGTAAT
Found at i:22758721 original size:12 final size:12
Alignment explanation
Indices: 22758706--22758731 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
22758696 TTTTTTGTCC
22758706 AAACGCCGCTAA
1 AAACGCCGCTAA
22758718 AAACGCCGCTAA
1 AAACGCCGCTAA
22758730 AA
1 AA
22758732 CCCTATTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAACGCCGCTAA
Found at i:22763034 original size:12 final size:12
Alignment explanation
Indices: 22763019--22763063 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
22763009 CGTGTCCGAA
22763019 CCCGTGTGTCCG
1 CCCGTGTGTCCG
22763031 CCCGTGTGTCCG
1 CCCGTGTGTCCG
** *
22763043 CCTATGTGTCTG
1 CCCGTGTGTCCG
22763055 CCCGTGTGT
1 CCCGTGTGT
22763064 ATATTCGAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.02, C:0.36, G:0.31, T:0.31
Consensus pattern (12 bp):
CCCGTGTGTCCG
Found at i:22764154 original size:35 final size:34
Alignment explanation
Indices: 22764080--22764170 Score: 101
Period size: 35 Copynumber: 2.6 Consensus size: 34
22764070 TGCGCCTTGT
* **
22764080 GCTAGTCGGATAACCGACAATAGTTGTACCCTGC
1 GCTAGTCGGATAACCGACAATAATTGTACCCAAC
* * **
22764114 ACTAGTCGAATAATTGACAAATAATTGTACCCAAC
1 GCTAGTCGGATAACCGAC-AATAATTGTACCCAAC
*
22764149 GCTAGTCGGATAACCGAAAATA
1 GCTAGTCGGATAACCGACAATA
22764171 TCAATTTCAC
Statistics
Matches: 44, Mismatches: 12, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
34 18 0.41
35 26 0.59
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (34 bp):
GCTAGTCGGATAACCGACAATAATTGTACCCAAC
Found at i:22773046 original size:179 final size:181
Alignment explanation
Indices: 22772742--22773111 Score: 496
Period size: 179 Copynumber: 2.1 Consensus size: 181
22772732 AGGGTTTTCT
** * *
22772742 ATGATCTGCTCTACTGGAACTTCAGAGGGATAAGATCTATAATTTATAGCCTCAACCTGTTCCAC
1 ATGATCTGCTCTACTACAACTTCAGAGAGATAAGATATATAATTTATAGCCTCAACCTGTTCCAC
* * *
22772807 TACAACTTTAGGGAAATAGGATTCGCCATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAA
66 TACAACTTCAGGGAAATAAGATTCGCCATCTTCAGTATGCTCCACTGCAACTTCAGGGAGATAAA
* *
22772872 ACTAGTAGCTTCAATCTACTCCACTACAACTTCGGGGAGATAAGATTCGCC
131 ACTAGTAACTTCAATCTACTCCACTACAACTTCAGGGAGATAAGATTCGCC
* * * *
22772923 ATGATCTGCTCTACTACAACTTCAGAGAGATAAGATATGTTA-TT-TAGCTTCAA-TTCGTTCCA
1 ATGATCTGCTCTACTACAACTTCAGAGAGATAAGATATATAATTTATAGCCTCAACCT-GTTCCA
* * * *
22772985 CTGCAACTTCAGGGAAATAAGATTCGCTATCTGT-AGTATGCTCCGCTGCAACTTTAGGGAGATA
65 CTACAACTTCAGGGAAATAAGATTCGCCATCT-TCAGTATGCTCCACTGCAACTTCAGGGAGATA
* * * * *
22773049 AGACTTGTAACTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGCC
129 AAACTAGTAACTTCAATCTACTCCACTACAACTTCAGGGAGATAAGATTCGCC
22773102 ATGATCTGCT
1 ATGATCTGCT
22773112 TGTTCATTAA
Statistics
Matches: 165, Mismatches: 22, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
178 1 0.01
179 125 0.76
180 3 0.02
181 36 0.22
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.30
Consensus pattern (181 bp):
ATGATCTGCTCTACTACAACTTCAGAGAGATAAGATATATAATTTATAGCCTCAACCTGTTCCAC
TACAACTTCAGGGAAATAAGATTCGCCATCTTCAGTATGCTCCACTGCAACTTCAGGGAGATAAA
ACTAGTAACTTCAATCTACTCCACTACAACTTCAGGGAGATAAGATTCGCC
Found at i:22773084 original size:89 final size:89
Alignment explanation
Indices: 22772802--22773103 Score: 296
Period size: 89 Copynumber: 3.4 Consensus size: 89
22772792 CTCAACCTGT
* *
22772802 TCCACTACAACTTTAGGGAAATAGGATTCGCCATCT-TCAGTCTGCTCCACTGCAACTTCAGGGA
1 TCCACTACAACTTCAGGGAAATAAGATTCGCCATCTGT-AGTCTGCTCCACTGCAACTTCAGGGA
* * *
22772866 GATAAAACTAGTAGCTTCAATCTAC
65 GATAAGACTTGTAACTTCAATCTAC
* * * * *
22772891 TCCACTACAACTTCGGGGAGATAAGATTCGCCA--TG-A-TCTGCTCTACTACAACTTCAGAGAG
1 TCCACTACAACTTCAGGGAAATAAGATTCGCCATCTGTAGTCTGCTCCACTGCAACTTCAGGGAG
22772952 ATAAGA-TATGTTATTTAGCTTCAAT-T-C
66 ATAAGACT-TG-TA---A-CTTCAATCTAC
* * * * *
22772979 GTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTGTAGTATGCTCCGCTGCAACTTTAGGG
1 --TCCACTACAACTTCAGGGAAATAAGATTCGCCATCTGTAGTCTGCTCCACTGCAACTTCAGGG
*
22773044 AGATAAGACTTGTAACTTTAATCTAC
64 AGATAAGACTTGTAACTTCAATCTAC
* * *
22773070 TCCACTGCAACTTCAGGGAGATAAGATTTGCCAT
1 TCCACTACAACTTCAGGGAAATAAGATTCGCCAT
22773104 GATCTGCTTG
Statistics
Matches: 173, Mismatches: 24, Indels: 32
0.76 0.10 0.14
Matches are distributed among these distances:
84 1 0.01
85 28 0.16
86 3 0.02
87 1 0.01
88 1 0.01
89 67 0.39
90 38 0.22
91 1 0.01
92 2 0.01
93 3 0.02
94 27 0.16
95 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (89 bp):
TCCACTACAACTTCAGGGAAATAAGATTCGCCATCTGTAGTCTGCTCCACTGCAACTTCAGGGAG
ATAAGACTTGTAACTTCAATCTAC
Found at i:22773088 original size:44 final size:43
Alignment explanation
Indices: 22772846--22773097 Score: 154
Period size: 44 Copynumber: 5.7 Consensus size: 43
22772836 CTTCAGTCTG
* * * *
22772846 CTCCACTGCAACTTCAGGGAGATAAAACTAGTAGCTTCAATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGA-TTGTAACTTTAATCTA
* * ** * *
22772890 CTCCACTACAACTTCGGGGAGATAAGATTCG---CCATGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATT-GTAACTTTAATCTA
* * * *
22772931 CTCTACTACAACTTCAGAGAGATAAGATATGTTATTTAGCTTCAAT-T-
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TG-TA---A-CTTTAATCTA
* * * * * *
22772978 CGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTGTAGTATG
1 C--TCCACTGCAACTTCAGGGAGATAAGATT-G-TAACTTTAATCTA
* *
22773025 CTCCGCTGCAACTTTAGGGAGATAAGACTTGTAACTTTAATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGA-TTGTAACTTTAATCTA
22773069 CTCCACTGCAACTTCAGGGAGATAAGATT
1 CTCCACTGCAACTTCAGGGAGATAAGATT
22773098 TGCCATGATC
Statistics
Matches: 157, Mismatches: 35, Indels: 33
0.70 0.16 0.15
Matches are distributed among these distances:
41 31 0.20
42 1 0.01
43 3 0.02
44 58 0.37
45 28 0.18
46 3 0.02
47 2 0.01
48 2 0.01
49 29 0.18
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (43 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTGTAACTTTAATCTA
Found at i:22774839 original size:12 final size:11
Alignment explanation
Indices: 22774795--22774836 Score: 68
Period size: 12 Copynumber: 3.8 Consensus size: 11
22774785 GGCCTCTCAT
22774795 TTTTCTTTTCC
1 TTTTCTTTTCC
22774806 TTTTCTTTTTCC
1 TTTTC-TTTTCC
22774818 TTTTCTTTT-C
1 TTTTCTTTTCC
22774828 TTTTCTTTT
1 TTTTCTTTT
22774837 TTCATCATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.33
11 9 0.30
12 11 0.37
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTCTTTTCC
Found at i:22774856 original size:6 final size:5
Alignment explanation
Indices: 22774795--22774836 Score: 57
Period size: 5 Copynumber: 7.8 Consensus size: 5
22774785 GGCCTCTCAT
22774795 TTTTC TTTTCC TTTTC TTTTTCC TTTTC TTTTC TTTTC TTTT
1 TTTTC TTTT-C TTTTC -TTTT-C TTTTC TTTTC TTTTC TTTT
22774837 TTCATCATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
5 20 0.59
6 13 0.38
7 1 0.03
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTC
Found at i:22778897 original size:17 final size:16
Alignment explanation
Indices: 22778847--22778897 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 16
22778837 ATTAAACTTT
*
22778847 AAAATAATAAAAGAATA
1 AAAATAATAACAG-ATA
22778864 AAAATAAATATACAGATA
1 AAAAT-AATA-ACAGATA
22778882 AACAATAATAACAGAT
1 AA-AATAATAACAGAT
22778898 TAATAGACAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
17 11 0.37
18 13 0.43
19 6 0.20
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.20
Consensus pattern (16 bp):
AAAATAATAACAGATA
Found at i:22780098 original size:17 final size:17
Alignment explanation
Indices: 22780078--22780126 Score: 55
Period size: 19 Copynumber: 2.8 Consensus size: 17
22780068 AAAAAATGAG
22780078 TTTTGTATTTATTATATT
1 TTTTGTATTTATTAT-TT
*
22780096 TTTTGTGTTTTATTATTT
1 TTTTGT-ATTTATTATTT
22780114 GTTTT-TATTTATT
1 -TTTTGTATTTATT
22780127 TTGATTTTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 6 0.22
18 9 0.33
19 12 0.44
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (17 bp):
TTTTGTATTTATTATTT
Found at i:22780494 original size:20 final size:19
Alignment explanation
Indices: 22780471--22780524 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
22780461 CAAGCTTATT
*
22780471 GTACCGATACTTTTCTCTAG
1 GTACCGATACATTTC-CTAG
* *
22780491 GTACCAATACATTTCCTTG
1 GTACCGATACATTTCCTAG
*
22780510 GTATCGATACCATTT
1 GTACCGATA-CATTT
22780525 TCATATTTTG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
19 10 0.36
20 18 0.64
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.39
Consensus pattern (19 bp):
GTACCGATACATTTCCTAG
Found at i:22781615 original size:22 final size:22
Alignment explanation
Indices: 22781589--22781672 Score: 87
Period size: 22 Copynumber: 3.8 Consensus size: 22
22781579 ACCCTACCAA
*
22781589 AGAGCACCGAAGTGCTAAACAG
1 AGAGCACAGAAGTGCTAAACAG
* * *
22781611 AGAGCACAAAAGTACTAATCAG
1 AGAGCACAGAAGTGCTAAACAG
* * * *
22781633 AGAGCACCGAAGTGTTGAACAA
1 AGAGCACAGAAGTGCTAAACAG
*
22781655 AGAGTACAGAAGTGCTAA
1 AGAGCACAGAAGTGCTAA
22781673 TCAATTAATA
Statistics
Matches: 47, Mismatches: 15, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.44, C:0.18, G:0.25, T:0.13
Consensus pattern (22 bp):
AGAGCACAGAAGTGCTAAACAG
Found at i:22781673 original size:44 final size:44
Alignment explanation
Indices: 22781589--22781675 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 44
22781579 ACCCTACCAA
*
22781589 AGAGCACCGAAGTGCTAAACAGAGAGCACAAAAGTACTAATCAG
1 AGAGCACCGAAGTGCTAAACAAAGAGCACAAAAGTACTAATCAG
* * * * *
22781633 AGAGCACCGAAGTGTTGAACAAAGAGTACAGAAGTGCTAATCA
1 AGAGCACCGAAGTGCTAAACAAAGAGCACAAAAGTACTAATCA
22781676 ATTAATAGGG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.14
Consensus pattern (44 bp):
AGAGCACCGAAGTGCTAAACAAAGAGCACAAAAGTACTAATCAG
Found at i:22783057 original size:31 final size:30
Alignment explanation
Indices: 22782989--22783047 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 30
22782979 GCGAGAGTTA
* *
22782989 AATAAAAACTTTCAAATAGTTTAGTGACTT
1 AATAAAAACTTTCAAATAGTTTAATAACTT
22783019 AAATAAAAACTTTCAAATAGTTTAATAAC
1 -AATAAAAACTTTCAAATAGTTTAATAAC
22783048 CATTTTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.49, C:0.10, G:0.07, T:0.34
Consensus pattern (30 bp):
AATAAAAACTTTCAAATAGTTTAATAACTT
Found at i:22788004 original size:2 final size:2
Alignment explanation
Indices: 22787997--22788021 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
22787987 TGGCCGAATG
22787997 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
22788022 TTATCCAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22788256 original size:41 final size:41
Alignment explanation
Indices: 22788197--22788424 Score: 359
Period size: 41 Copynumber: 5.6 Consensus size: 41
22788187 TTTAAACAGA
* * * *
22788197 TTCACTGGCACTTCA-CCTGCTAGCCTTATAGCCTGATCCAG
1 TTCACCGGCACTT-AGCCTGCTAGGCTTATAGCCTGATTCGG
* *
22788238 TTCACCGGCACTTAACCTGCTAGGCTTATAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCGG
22788279 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCGG
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCGG
*
22788320 TTCACCGGCACTTAGCCTACTAGGCTTATAGCCTGATTCGG
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCGG
*
22788361 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCGG
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCGG
*
22788402 ATCACCGGCACTTAGCCTGCTAG
1 TTCACCGGCACTTAGCCTGCTAG
22788425 ACGTAAAGTT
Statistics
Matches: 178, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
40 1 0.01
41 177 0.99
ACGTcount: A:0.20, C:0.31, G:0.21, T:0.28
Consensus pattern (41 bp):
TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCGG
Found at i:22788447 original size:123 final size:123
Alignment explanation
Indices: 22788190--22788452 Score: 332
Period size: 123 Copynumber: 2.1 Consensus size: 123
22788180 CACTTAATTT
* * *
22788190 AAACAGATTCACTGGCACTTCACCTGCTAGCCTTATAGCCTGATCCAGTTCACCGGCACTTAACC
1 AAACAG-TTCACCGGCACTTCACCTACTAGCCTTATAGCCTGATCCAGATCACCGGCACTTAACC
* * * *
22788255 TGCTAGGCTTATAGCCTGATTCAGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
65 TGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGACGTAAAGCCTG
** * * * * *
22788314 ATTCGGTTCACCGGCACTT-AGCCTACTAGGCTTATAGCCTGATTCGGATCACCGGCACTTAGCC
1 AAACAGTTCACCGGCACTTCA-CCTACTAGCCTTATAGCCTGATCCAGATCACCGGCACTTAACC
* *
22788378 TGCTAGGCTTATAGCCTGATTCGGATCACCGGCACTTAGCCTGCTAGACGTAAAG-TTCG
65 TGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGACGTAAAGCCT-G
*
22788437 AAACATTTCACCGGCA
1 AAACAGTTCACCGGCA
22788453 ATTAATCTGA
Statistics
Matches: 117, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
122 2 0.02
123 112 0.96
124 3 0.03
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.27
Consensus pattern (123 bp):
AAACAGTTCACCGGCACTTCACCTACTAGCCTTATAGCCTGATCCAGATCACCGGCACTTAACCT
GCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGACGTAAAGCCTG
Found at i:22790136 original size:28 final size:31
Alignment explanation
Indices: 22790104--22790162 Score: 79
Period size: 28 Copynumber: 2.0 Consensus size: 31
22790094 TGTTTTGTTT
22790104 TTATTATAATAA-CATTAT-AAT-ATATAAA
1 TTATTATAATAACCATTATAAATAATATAAA
* *
22790132 TTATTATTATAACCTTTATAAATAATATAAA
1 TTATTATAATAACCATTATAAATAATATAAA
22790163 AACTATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 11 0.42
29 5 0.19
30 3 0.12
31 7 0.27
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (31 bp):
TTATTATAATAACCATTATAAATAATATAAA
Found at i:22793434 original size:14 final size:15
Alignment explanation
Indices: 22793415--22793448 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
22793405 TCATACAGCA
22793415 TCATAACTCAAATG-
1 TCATAACTCAAATGC
*
22793429 TCATAACTCATATGC
1 TCATAACTCAAATGC
22793444 TCATA
1 TCATA
22793449 TAATTATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.38, C:0.24, G:0.06, T:0.32
Consensus pattern (15 bp):
TCATAACTCAAATGC
Found at i:22794851 original size:40 final size:40
Alignment explanation
Indices: 22794796--22794876 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
22794786 ATACCCAATG
22794796 CATATAATCACTTAATTTAAACAGATTCACTGGCACTTCA
1 CATATAATCACTTAATTTAAACAGATTCACTGGCACTTCA
22794836 CATATAATCACTTAATTTAAACAGATTCACTGGCACTTCA
1 CATATAATCACTTAATTTAAACAGATTCACTGGCACTTCA
22794876 C
1 C
22794877 CTGCTAGGCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.32
Consensus pattern (40 bp):
CATATAATCACTTAATTTAAACAGATTCACTGGCACTTCA
Found at i:22794921 original size:41 final size:41
Alignment explanation
Indices: 22794862--22795088 Score: 375
Period size: 41 Copynumber: 5.5 Consensus size: 41
22794852 TTAAACAGAT
* * *
22794862 TCACTGGCACTTCA-CCTGCTAGGCTTATAGCCTGATTCAGT
1 TCACCGGCACTT-AGCCTGCTAGGCTTATAGCCTGATTCGGA
* *
22794903 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTAATTCGGT
1 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCGGA
*
22794944 TCACCGGCACTTAGCCTACTAGGCTTATAGCCTGATTCGGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCGGA
22794985 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCGGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCGGA
22795026 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCGGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCGGA
*
22795067 TCACTGGCACTTAGCCTGCTAG
1 TCACCGGCACTTAGCCTGCTAG
22795089 ACGTAAAGTT
Statistics
Matches: 177, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
40 1 0.01
41 176 0.99
ACGTcount: A:0.20, C:0.30, G:0.22, T:0.28
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCGGA
Found at i:22795112 original size:123 final size:123
Alignment explanation
Indices: 22794854--22795116 Score: 341
Period size: 123 Copynumber: 2.1 Consensus size: 123
22794844 CACTTAATTT
* *
22794854 AAACAGATTCACTGGCACTTCACCTGCTAGGCTTATAGCCTGATTCAGTTCACCGGCACTTAGCC
1 AAACAG-TTCACCGGCACTTCACCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCC
* * * *
22794919 TGCTAGGCTTATAGCCTAATTCGGTTCACCGGCACTTAGCCTACTAGGCTTATAGCCTG
65 TGCTAGGCTTATAGCCTAATTCGGATCACCGGCACTTAGCCTACTAGACGTAAAGCCTG
** * * *
22794978 ATTCGGATCACCGGCACTT-AGCCTGCTAGGCTTATAGCCTGATTCGGATCACCGGCACTTAGCC
1 AAACAGTTCACCGGCACTTCA-CCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCC
* * * *
22795042 TGCTAGGCTTATAGCCTGATTCGGATCACTGGCACTTAGCCTGCTAGACGTAAAG-TTCG
65 TGCTAGGCTTATAGCCTAATTCGGATCACCGGCACTTAGCCTACTAGACGTAAAGCCT-G
*
22795101 AAACATTTCACCGGCA
1 AAACAGTTCACCGGCA
22795117 ATTAATCTGA
Statistics
Matches: 117, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
122 2 0.02
123 112 0.96
124 3 0.03
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.27
Consensus pattern (123 bp):
AAACAGTTCACCGGCACTTCACCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCT
GCTAGGCTTATAGCCTAATTCGGATCACCGGCACTTAGCCTACTAGACGTAAAGCCTG
Found at i:22800570 original size:17 final size:15
Alignment explanation
Indices: 22800536--22800579 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 15
22800526 ATAACTATGA
*
22800536 TAATAAAAATAATCC
1 TAATAAAAATAATAC
22800551 TAATAAATATATAATAC
1 TAATAAA-A-ATAATAC
22800568 TAATAAACAATA
1 TAATAAA-AATA
22800580 TAGTAGTAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 7 0.28
16 4 0.16
17 14 0.56
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (15 bp):
TAATAAAAATAATAC
Found at i:22800629 original size:16 final size:16
Alignment explanation
Indices: 22800604--22800634 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22800594 AAACAACACA
22800604 ATTAAAAATAAATAAT
1 ATTAAAAATAAATAAT
*
22800620 ATTAATAATAAATAA
1 ATTAAAAATAAATAA
22800635 ATACAAAAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
ATTAAAAATAAATAAT
Found at i:22811694 original size:40 final size:40
Alignment explanation
Indices: 22811628--22811718 Score: 103
Period size: 40 Copynumber: 2.3 Consensus size: 40
22811618 GCTTCATAAA
* *
22811628 ATCAACATGGAAAGGGAAAATTAATTCTAAACTTTGCAAC
1 ATCAACATGGAAAGGGAAAATCAATTCCAAACTTTGCAAC
* * * *
22811668 ATCAACATGGTACA-GGAAGATCAATTCCGAACTTTGCAAT
1 ATCAACATGG-AAAGGGAAAATCAATTCCAAACTTTGCAAC
*
22811708 ATCAATATGGA
1 ATCAACATGGA
22811719 GACAATTTTG
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
39 1 0.02
40 40 0.93
41 2 0.05
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.25
Consensus pattern (40 bp):
ATCAACATGGAAAGGGAAAATCAATTCCAAACTTTGCAAC
Found at i:22815900 original size:20 final size:18
Alignment explanation
Indices: 22815875--22815914 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 18
22815865 ACAAAATGGA
22815875 ATATTTAATATAAATAATAT
1 ATATTT-ATAT-AATAATAT
22815895 ATATTTATATAATAATAT
1 ATATTTATATAATAATAT
22815913 AT
1 AT
22815915 GTAAAAAAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 10 0.50
19 4 0.20
20 6 0.30
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATATTTATATAATAATAT
Found at i:22817806 original size:50 final size:49
Alignment explanation
Indices: 22817739--22818310 Score: 229
Period size: 50 Copynumber: 11.6 Consensus size: 49
22817729 TTTTGGAAAG
*
22817739 TAAGATTCGCC-ATTGTGGCTTTAATCTTTTTAACTGCAATGTCCAGGAA
1 TAAGATTCACCGA-TGTGGCTTTAATCTTTTTAACTGCAATGTCCAGGAA
* ** **
22817788 TCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACCG-CCAGGGAA
1 T-AAGATTCACCGATGTGGCTTTAATCTTTTTAACTGCAATGTCCA-GGAA
* * * * * * *
22817838 GTAGGATTCGCTGTTGTAGCTTTAATCTTTTTAAC-GACAATGTCAAGGAGG
1 -TAAGATTCACCGATGTGGCTTTAATCTTTTTAACTG-CAATGTCCAGGA-A
* * * * * *
22817889 CAAGATTCACCGTTGTGGCTTTAATCTGCTCT-ATTGC-ATCG-CCAGGGAGG
1 TAAGATTCACCGATGTGGCTTTAATCT-TTTTAACTGCAAT-GTCCA-GGA-A
* * **
22817939 TAGGATTCGCC-ACTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAA
1 TAAGATTCACCGA-TGTGGCTTTAATCTTTTTAACTGCAATGTCCAGGAA
** * ** **
22817988 -GCGATTCACCAATGTGGCTTTAATCCATTCCACTGC-ATCG-CCTAGGGAGA
1 TAAGATTCACCGATGTGGCTTTAATCTTTTTAACTGCAAT-GTCC-A-GGA-A
* * * * * **
22818038 TAAGATTCGCTGTTGTAGCTTTAATCATTTTAACTGCAATGTCGGGGAA
1 TAAGATTCACCGATGTGGCTTTAATCTTTTTAACTGCAATGTCCAGGAA
* * * ** **
22818087 GCAAGATTCACGGATGTGGCTTTAATCTGTTCCACTGCACCG-CCAGGGAA
1 -TAAGATTCACCGATGTGGCTTTAATCTTTTTAACTGCAATGTCCA-GGAA
* * * * * ***
22818137 GTATGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTTGGGGAA
1 -TAAGATTCACCGATGTGGCTTTAATCTTTTTAACTGCAATGTCCAGGAA
* * * *** **
22818187 -ACGATTCACCAATGTGGCTTTAATCTGTACCACTGCACCG-CCAGGGAA
1 TAAGATTCACCGATGTGGCTTTAATCTTTTTAACTGCAATGTCCA-GGAA
* * * * **
22818235 GTAAGATTC-GCTATTGTAGCTTTAATCTTTTTAATTGCAATGTCGGGGAA
1 -TAAGATTCACCGA-TGTGGCTTTAATCTTTTTAACTGCAATGTCCAGGAA
** *
22818285 -GCGATTCACCAATGTGGCTTTAATCT
1 TAAGATTCACCGATGTGGCTTTAATCT
22818311 GTTCCAATAC
Statistics
Matches: 372, Mismatches: 119, Indels: 65
0.67 0.21 0.12
Matches are distributed among these distances:
47 3 0.01
48 78 0.21
49 21 0.06
50 230 0.62
51 37 0.10
52 3 0.01
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.32
Consensus pattern (49 bp):
TAAGATTCACCGATGTGGCTTTAATCTTTTTAACTGCAATGTCCAGGAA
Found at i:22817909 original size:100 final size:100
Alignment explanation
Indices: 22817736--22818417 Score: 838
Period size: 98 Copynumber: 7.0 Consensus size: 100
22817726 AACTTTTGGA
** * ** *
22817736 AAGTAAGATTCGCCATTGTGGCTTTAATCTTTTTAACTGCAATGTCCAGGAATCAAGATTCACCG
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
22817801 ATGTGGCTTTAATCTGTTCCACTGCACCGCCAGGG
66 ATGTGGCTTTAATCTGTTCCACTGCACCGCCAGGG
* ** *
22817836 AAGTAGGATTCGCTGTTGTAGCTTTAATCTTTTTAAC-GACAATGTCAAGGAGGCAAGATTCACC
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTG-CAATGTCGGGGAAGCAAGATTCACC
* * * * *
22817900 GTTGTGGCTTTAATCTGCTCTATTGCATCGCCAGGG
65 GATGTGGCTTTAATCTGTTCCACTGCACCGCCAGGG
* * *** * *
22817936 AGGTAGGATTCGCCACTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC--GATTCACCA
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
** *
22817999 ATGTGGCTTTAATCCATTCCACTGCATCGCCTAGGG
66 ATGTGGCTTTAATCTGTTCCACTGCACCGCC-AGGG
* *
22818035 -AGATAAGATTCGCTGTTGTAGCTTTAATCATTTTAACTGCAATGTCGGGGAAGCAAGATTCACG
1 AAG-TAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACC
22818099 GATGTGGCTTTAATCTGTTCCACTGCACCGCCAGGG
65 GATGTGGCTTTAATCTGTTCCACTGCACCGCCAGGG
* * * *
22818135 AAGTATGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTTGGGGAA--ACGATTCACCA
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
*
22818198 ATGTGGCTTTAATCTGTACCACTGCACCGCCAGGG
66 ATGTGGCTTTAATCTGTTCCACTGCACCGCCAGGG
* * *
22818233 AAGTAAGATTCGCTATTGTAGCTTTAATCTTTTTAATTGCAATGTCGGGGAAGC--GATTCACCA
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
* *
22818296 ATGTGGCTTTAATCTGTTCCAATACACCGCCAGGG
66 ATGTGGCTTTAATCTGTTCCACTGCACCGCCAGGG
* * *
22818331 AAGTAAAATTCGTTGTTGTAGCTTTAA------T--CTGCAATGTCGGGGAAGCAAGATTCGCCG
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
* * *
22818388 TTGTGGCTTTAATCTGTTTCACTACACCGC
66 ATGTGGCTTTAATCTGTTCCACTGCACCGC
22818418 TTGGGAGATA
Statistics
Matches: 509, Mismatches: 62, Indels: 30
0.85 0.10 0.05
Matches are distributed among these distances:
90 17 0.03
92 35 0.07
98 189 0.37
99 50 0.10
100 180 0.35
101 38 0.07
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (100 bp):
AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
ATGTGGCTTTAATCTGTTCCACTGCACCGCCAGGG
Found at i:22818093 original size:199 final size:198
Alignment explanation
Indices: 22817736--22818335 Score: 821
Period size: 199 Copynumber: 3.0 Consensus size: 198
22817726 AACTTTTGGA
* ** * *
22817736 AAGTAAGATTCGCCATTGTGGCTTTAATCTTTTTAACTGCAATGTCCAGGAATCAAGATTCACCG
1 AAGTAGGATTCGCCATTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAA--ACGATTCACCA
*
22817801 ATGTGGCTTTAATCTGTTCCACTGCACCGCCAGGGAAGTAGGATTCGCTGTTGTAGCTTTAATCT
64 ATGTGGCTTTAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCT
** * * * * *
22817866 TTTTAAC-GACAATGTCAAGGAGGCAAGATTCACCGTTGTGGCTTTAATCTGCTCTATTGCATCG
129 TTTTAACTG-CAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGCTCCACTGCACCG
22817930 CCAGGG
193 CCAGGG
* * *
22817936 AGGTAGGATTCGCCACTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCGATTCACCAAT
1 AAGTAGGATTCGCCATTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAACGATTCACCAAT
** * *
22818001 GTGGCTTTAATCCATTCCACTGCATCGCCTAGGG-AGATAAGATTCGCTGTTGTAGCTTTAATCA
66 GTGGCTTTAATCTGTTCCACTGCACCGCC-AGGGAAG-TAAGATTCGCTGTTGTAGCTTTAATCT
* *
22818065 TTTTAACTGCAATGTCGGGGAAGCAAGATTCACGGATGTGGCTTTAATCTGTTCCACTGCACCGC
129 TTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGCTCCACTGCACCGC
22818130 CAGGG
194 CAGGG
* ** * *
22818135 AAGTATGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTTGGGGAAACGATTCACCAAT
1 AAGTAGGATTCGCCATTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAACGATTCACCAAT
* *
22818200 GTGGCTTTAATCTGTACCACTGCACCGCCAGGGAAGTAAGATTCGCTATTGTAGCTTTAATCTTT
66 GTGGCTTTAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTT
* * * * *
22818265 TTAATTGCAATGTCGGGGAAGC--GATTCACCAATGTGGCTTTAATCTGTTCCAATACACCGCCA
131 TTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGCTCCACTGCACCGCCA
22818328 GGG
196 GGG
22818331 AAGTA
1 AAGTA
22818336 AAATTCGTTG
Statistics
Matches: 355, Mismatches: 41, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
196 45 0.13
198 90 0.25
199 172 0.48
200 48 0.14
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.32
Consensus pattern (198 bp):
AAGTAGGATTCGCCATTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAACGATTCACCAAT
GTGGCTTTAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTT
TTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGCTCCACTGCACCGCCA
GGG
Found at i:22818647 original size:98 final size:98
Alignment explanation
Indices: 22818478--22818861 Score: 481
Period size: 98 Copynumber: 4.0 Consensus size: 98
22818468 GAGATAAGAC
22818478 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
* *
22818543 TAATCTCAGGGAAATAGGATTACTGGCTTCAAT
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAAT
*
22818576 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCATTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
22818641 TAATCTCAGGGAGATAGGATTACTAGCTTCAAT
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAAT
* * ** * *
22818674 C---T--G--CT-C-C-GCTGTAA-TCTCAGGGAGATAAGAT--TTCTGGCTTCAATCTGCTCCA
1 CTGATGCGATCTACTCTACTGTAACT-TCAGAGAGATAAGATCCTT-T-ATTTTAATCCGCTCCA
* * ** *
22818726 CTGTAATCTTAGGGAGATAAGATTTTTGGCTTCAAT
63 CTGTAATCTCAGGGAGATAGGATTACTAGCTTCAAT
* * * *
22818762 CTGATGCGATCTACTCTACTGTAACTTTAGAAAGATATGATCC-TTATTTTAATCTGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
22818826 TAATCTCAGGGAGATAGGATTACTAGCTTCAAT
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAAT
22818859 CTG
1 CTG
22818862 CTCTGCTGTA
Statistics
Matches: 242, Mismatches: 28, Indels: 33
0.80 0.09 0.11
Matches are distributed among these distances:
86 2 0.01
87 2 0.01
88 63 0.26
89 1 0.00
90 1 0.00
91 3 0.01
93 2 0.01
95 3 0.01
96 1 0.00
97 48 0.20
98 114 0.47
99 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (98 bp):
CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
TAATCTCAGGGAGATAGGATTACTAGCTTCAAT
Found at i:22818680 original size:44 final size:44
Alignment explanation
Indices: 22818627--22818934 Score: 264
Period size: 44 Copynumber: 6.8 Consensus size: 44
22818617 CCTTTATTTT
* * * *
22818627 AATCCGCTCCATTGTAATCTCAGGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTCTAGCTTC
* *
22818671 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTCTAGCTTC
* * *
22818715 AATCTGCTCCACTGTAATCTTAGGGAGATAAGATTTTTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTCTAGCTTC
* ** * * * *
22818759 AATCTGATGCGATCTACTCTACTGTAA-CTTTAGAAAGATATGA-TCCTTA-TTTT
1 AATC---T--G--CT-C-C-ACTGTAATC-TCAGGGAGATAAGATTTC-TAGCTTC
* *
22818812 AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTCTAGCTTC
** * *
22818856 AATCTGCTCTGCTGTAATCTCAGGAAGATAAGATTTCTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTCTAGCTTC
*
22818900 AATCTACTCCACTGTAA-CATCAGGGAGATAAGATT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGATT
22818935 CACCATTTCC
Statistics
Matches: 214, Mismatches: 34, Indels: 32
0.76 0.12 0.11
Matches are distributed among these distances:
43 20 0.09
44 156 0.73
45 1 0.00
46 2 0.01
47 1 0.00
48 1 0.00
49 1 0.00
50 1 0.00
51 2 0.01
52 1 0.00
53 9 0.04
54 19 0.09
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTCTAGCTTC
Found at i:22818887 original size:185 final size:186
Alignment explanation
Indices: 22818529--22818934 Score: 663
Period size: 185 Copynumber: 2.2 Consensus size: 186
22818519 CCTTTATTTT
* * *
22818529 AATCCGCTCCACTGTAATCTCAGGGAAATAGGATTACTGGCTTCAATCTGATGCGATCTACTCTA
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTCAATCTGATGCGATCTACTCTA
* *
22818594 CTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCATTGTAATCTCAGGGAGATAGG
66 CTGTAACTTCAGAAAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGG
*
22818659 ATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTC
131 ATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGAAGATAAGATTTCTGGCTTC
* **
22818715 AATCTGCTCCACTGTAATCTTAGGGAGATAAGATTTTTGGCTTCAATCTGATGCGATCTACTCTA
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTCAATCTGATGCGATCTACTCTA
* * *
22818780 CTGTAACTTTAGAAAGATATGATCC-TTATTTTAATCTGCTCCACTGTAATCTCAGGGAGATAGG
66 CTGTAACTTCAGAAAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGG
*
22818844 ATTACTAGCTTCAATCTGCTCTGCTGTAATCTCAGGAAGATAAGATTTCTGGCTTC
131 ATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGAAGATAAGATTTCTGGCTTC
*
22818900 AATCTACTCCACTGTAA-CATCAGGGAGATAAGATT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGATT
22818935 CACCATTTCC
Statistics
Matches: 204, Mismatches: 15, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
184 1 0.00
185 122 0.60
186 81 0.40
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (186 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTCAATCTGATGCGATCTACTCTA
CTGTAACTTCAGAAAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGG
ATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGAAGATAAGATTTCTGGCTTC
Found at i:22819229 original size:6 final size:6
Alignment explanation
Indices: 22819218--22819251 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
22819208 GAATGCAGAG
22819218 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
22819252 TTTCGAGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:22820358 original size:7 final size:7
Alignment explanation
Indices: 22820338--22820394 Score: 64
Period size: 8 Copynumber: 8.0 Consensus size: 7
22820328 TTAGCCTCTC
22820338 CATTTTT
1 CATTTTT
*
22820345 TACTTTTT
1 CA-TTTTT
22820353 CA-TTTT
1 CATTTTT
22820359 CATTTTT
1 CATTTTT
22820366 CA-TTTT
1 CATTTTT
22820372 CATTTTTT
1 CA-TTTTT
22820380 CATTTTT
1 CATTTTT
22820387 CACTTTTT
1 CA-TTTTT
22820395 TTTTGAGAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
6 12 0.28
7 14 0.33
8 17 0.40
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.70
Consensus pattern (7 bp):
CATTTTT
Found at i:22820364 original size:13 final size:14
Alignment explanation
Indices: 22820348--22820395 Score: 71
Period size: 13 Copynumber: 3.4 Consensus size: 14
22820338 CATTTTTTAC
22820348 TTTTTCATTTTCA-
1 TTTTTCATTTTCAT
22820361 TTTTTCATTTTCAT
1 TTTTTCATTTTCAT
22820375 TTTTTCATTTTTCACT
1 TTTTTCA-TTTTCA-T
22820391 TTTTT
1 TTTTT
22820396 TTTGAGAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
13 13 0.41
14 7 0.22
15 6 0.19
16 6 0.19
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTTTCATTTTCAT
Found at i:22820398 original size:21 final size:21
Alignment explanation
Indices: 22820338--22820398 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
22820328 TTAGCCTCTC
* **
22820338 CATTTTTTACTTTTTCATTTT
1 CATTTTTCACTTTTTTTTTTT
*
22820359 CATTTTTCA-TTTTCATTTTTT
1 CATTTTTCACTTTT-TTTTTTT
22820380 CATTTTTCACTTTTTTTTT
1 CATTTTTCACTTTTTTTTT
22820399 GAGAAATCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
20 4 0.12
21 25 0.76
22 4 0.12
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.72
Consensus pattern (21 bp):
CATTTTTCACTTTTTTTTTTT
Found at i:22828219 original size:20 final size:20
Alignment explanation
Indices: 22828196--22828234 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
22828186 AAATAAAAGC
22828196 ATTAAAATTTAAAAAAATAT
1 ATTAAAATTTAAAAAAATAT
***
22828216 ATTATTTTTTAAAAAAATA
1 ATTAAAATTTAAAAAAATA
22828235 AAAATTATGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
ATTAAAATTTAAAAAAATAT
Found at i:22828263 original size:36 final size:36
Alignment explanation
Indices: 22828223--22828291 Score: 90
Period size: 36 Copynumber: 1.9 Consensus size: 36
22828213 TATATTATTT
22828223 TTTAAAAA-AATAA-AAATTATGAAAAA-ATAAAAACTC
1 TTTAAAAATAA-AATAAATT-T-AAAAATATAAAAACTC
22828259 TTTAAAAATAAAATAAATTTAAAAATATAAAAA
1 TTTAAAAATAAAATAAATTTAAAAATATAAAAA
22828292 ATTTCAAACT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
35 5 0.17
36 18 0.60
37 7 0.23
ACGTcount: A:0.68, C:0.03, G:0.01, T:0.28
Consensus pattern (36 bp):
TTTAAAAATAAAATAAATTTAAAAATATAAAAACTC
Found at i:22828279 original size:17 final size:17
Alignment explanation
Indices: 22828223--22828295 Score: 62
Period size: 18 Copynumber: 4.2 Consensus size: 17
22828213 TATATTATTT
*
22828223 TTTAAAAAAAT-AAAAA
1 TTTAAAAATATAAAAAA
*
22828239 TTATGAAAAA-ATAAAAACTC
1 TT-T-AAAAATATAAAAA--A
22828259 TTTAAAAATA-AAATAAA
1 TTTAAAAATATAAA-AAA
22828276 TTTAAAAATATAAAAAA
1 TTTAAAAATATAAAAAA
22828293 TTT
1 TTT
22828296 CAAACTTCAA
Statistics
Matches: 47, Mismatches: 2, Indels: 15
0.73 0.03 0.23
Matches are distributed among these distances:
16 2 0.04
17 19 0.40
18 20 0.43
19 4 0.09
20 2 0.04
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (17 bp):
TTTAAAAATATAAAAAA
Found at i:22862593 original size:22 final size:21
Alignment explanation
Indices: 22862563--22862611 Score: 53
Period size: 22 Copynumber: 2.3 Consensus size: 21
22862553 ATGAGATTTT
* *
22862563 TTTATTATAATTATATTATTA
1 TTTACTATAATTATAGTATTA
* *
22862584 TTGTACTATATTTATCGTATTA
1 TT-TACTATAATTATAGTATTA
22862606 TTTACT
1 TTTACT
22862612 GTATAATATT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 6 0.26
22 17 0.74
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.59
Consensus pattern (21 bp):
TTTACTATAATTATAGTATTA
Found at i:22863988 original size:30 final size:30
Alignment explanation
Indices: 22863936--22863995 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
22863926 TGATATCTTC
* * *
22863936 AGCCCATTACCACAATAGTACTCTACTCCT
1 AGCCCATTACCACAACAATACTCCACTCCT
*
22863966 AGCCCATTACCACCACAATACTCCACTCCT
1 AGCCCATTACCACAACAATACTCCACTCCT
22863996 CCTGACCCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.42, G:0.05, T:0.23
Consensus pattern (30 bp):
AGCCCATTACCACAACAATACTCCACTCCT
Found at i:22864329 original size:22 final size:23
Alignment explanation
Indices: 22864299--22864342 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
22864289 GTATTTATTT
*
22864299 AATTGAGATTCATTGGAACAAAG
1 AATTGAGATTCATTGCAACAAAG
22864322 AATT-AGATTCATTGCAACAAA
1 AATTGAGATTCATTGCAACAAA
22864343 CTTGGTTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.45, C:0.11, G:0.16, T:0.27
Consensus pattern (23 bp):
AATTGAGATTCATTGCAACAAAG
Found at i:22870263 original size:21 final size:23
Alignment explanation
Indices: 22870219--22870268 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 23
22870209 AAAGTATGGA
*
22870219 GAATAAATTTGTGTACAATAAAAAT
1 GAATAAATTTGTGTA-TA-AAAAAT
22870244 GAATAAATTTGTGT-TAAAAAAT
1 GAATAAATTTGTGTATAAAAAAT
22870266 GAA
1 GAA
22870269 AAAAATAGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 9 0.38
23 1 0.04
25 14 0.58
ACGTcount: A:0.52, C:0.02, G:0.14, T:0.32
Consensus pattern (23 bp):
GAATAAATTTGTGTATAAAAAAT
Found at i:22870280 original size:21 final size:22
Alignment explanation
Indices: 22870238--22870281 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
22870228 TGTGTACAAT
* * *
22870238 AAAAATGAATAAATTTGTGTTA
1 AAAAATGAAAAAAATAGTGTTA
22870260 AAAAATGAAAAAAATAG-GTTA
1 AAAAATGAAAAAAATAGTGTTA
22870281 A
1 A
22870282 CGAGGTGTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.59, C:0.00, G:0.14, T:0.27
Consensus pattern (22 bp):
AAAAATGAAAAAAATAGTGTTA
Found at i:22890800 original size:21 final size:22
Alignment explanation
Indices: 22890763--22890806 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
22890753 TCTTTAGGGT
*
22890763 ATCTTCAGGGGTGTGTCGCGAC
1 ATCTTCAGGGCTGTGTCGCGAC
22890785 ATCTTCA-GGCTGTGTCGCGAC
1 ATCTTCAGGGCTGTGTCGCGAC
22890806 A
1 A
22890807 CTGAAAGCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.16, C:0.25, G:0.32, T:0.27
Consensus pattern (22 bp):
ATCTTCAGGGCTGTGTCGCGAC
Found at i:22900988 original size:5 final size:5
Alignment explanation
Indices: 22900980--22901013 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
22900970 AATATATTAT
* *
22900980 ATATG ATATG ATATG ATATG ATATT ATATA ATAT
1 ATATG ATATG ATATG ATATG ATATG ATATG ATAT
22901014 ATTTAGAGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (5 bp):
ATATG
Found at i:22901499 original size:17 final size:17
Alignment explanation
Indices: 22901464--22901504 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
22901454 TTTCTACCGA
*
22901464 AAAATATATTATATGAT
1 AAAATATAGTATATGAT
22901481 AAAATATAGTAT-T-AT
1 AAAATATAGTATATGAT
*
22901496 ATAATATAG
1 AAAATATAG
22901505 CAGGATGGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 10 0.45
16 1 0.05
17 11 0.50
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (17 bp):
AAAATATAGTATATGAT
Found at i:22907496 original size:18 final size:18
Alignment explanation
Indices: 22907475--22907513 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
22907465 AAATAAAACA
22907475 AAGGAAA-GAAAGAAAAAG
1 AAGGAAATG-AAGAAAAAG
*
22907493 AAGGAAATGAAGAAGAAG
1 AAGGAAATGAAGAAAAAG
22907511 AAG
1 AAG
22907514 AGAACGAACG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 18 0.95
19 1 0.05
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.03
Consensus pattern (18 bp):
AAGGAAATGAAGAAAAAG
Found at i:22908245 original size:25 final size:25
Alignment explanation
Indices: 22908197--22908245 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
22908187 CATAATTGAA
** * *
22908197 ATGAAATGGATTGATTTTGTATATT
1 ATGAAATAAATTGATTATGAATATT
22908222 ATGAAATAAATTGATTATGAATAT
1 ATGAAATAAATTGATTATGAATAT
22908246 ATGTGTATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.16, T:0.43
Consensus pattern (25 bp):
ATGAAATAAATTGATTATGAATATT
Found at i:22909759 original size:48 final size:49
Alignment explanation
Indices: 22909682--22909776 Score: 129
Period size: 48 Copynumber: 2.0 Consensus size: 49
22909672 CTAGAAGGGA
* * * *
22909682 TAAATAGTAATAAGAGTGTAGATAGTGGAAGACTAAGTTTAGCAATGTG
1 TAAATAGTAATAAGAGTGTAGACAGTGGAAGACCAAATTTAGAAATGTG
* *
22909731 TAAATAGTGAT-AGAGTGTAGACATTGGAAGACCAAATTTAGAAATG
1 TAAATAGTAATAAGAGTGTAGACAGTGGAAGACCAAATTTAGAAATG
22909777 CATAGCATAA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
48 30 0.75
49 10 0.25
ACGTcount: A:0.42, C:0.05, G:0.25, T:0.27
Consensus pattern (49 bp):
TAAATAGTAATAAGAGTGTAGACAGTGGAAGACCAAATTTAGAAATGTG
Found at i:22916267 original size:43 final size:43
Alignment explanation
Indices: 22916206--22916291 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 43
22916196 TAAGTGATTG
* *
22916206 ATATTGAAATGGCAAATATGATAAATGAATATGAGATGAGAAA
1 ATATTGAAATGACAAATATGAGAAATGAATATGAGATGAGAAA
* * * *
22916249 ATATTGAATTGACAAATATGGGAAATGATTGTGAGATGAGAAA
1 ATATTGAAATGACAAATATGAGAAATGAATATGAGATGAGAAA
22916292 TGAAATATGA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.48, C:0.02, G:0.23, T:0.27
Consensus pattern (43 bp):
ATATTGAAATGACAAATATGAGAAATGAATATGAGATGAGAAA
Found at i:22917609 original size:49 final size:49
Alignment explanation
Indices: 22917537--22917633 Score: 167
Period size: 49 Copynumber: 2.0 Consensus size: 49
22917527 TCTAGAAGGG
* * *
22917537 ATAAATAGTGATAAGAGTGTAGACAGTGGAAGACTAAGTTTAGCAATGT
1 ATAAATAGTGATAAGAGAGTAGACAGTGGAAGACCAAGTTTAGAAATGT
22917586 ATAAATAGTGATAAGAGAGTAGACAGTGGAAGACCAAGTTTAGAAATG
1 ATAAATAGTGATAAGAGAGTAGACAGTGGAAGACCAAGTTTAGAAATG
22917634 CATAGCATAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.43, C:0.06, G:0.27, T:0.24
Consensus pattern (49 bp):
ATAAATAGTGATAAGAGAGTAGACAGTGGAAGACCAAGTTTAGAAATGT
Found at i:22929838 original size:45 final size:45
Alignment explanation
Indices: 22929787--22929876 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
22929777 GAGTCATTGG
*
22929787 GTATGTTGATTCTGATTTTTCTAGAGACCTTGATAAAAGAAAATC
1 GTATGTTGATTCTGATTTTGCTAGAGACCTTGATAAAAGAAAATC
22929832 GTATGTTGATTCTGATTTTGCTAGAGACCTTGATAAAAGAAAATC
1 GTATGTTGATTCTGATTTTGCTAGAGACCTTGATAAAAGAAAATC
22929877 TTTAACAGGG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (45 bp):
GTATGTTGATTCTGATTTTGCTAGAGACCTTGATAAAAGAAAATC
Found at i:22933441 original size:41 final size:41
Alignment explanation
Indices: 22933357--22933473 Score: 116
Period size: 41 Copynumber: 2.9 Consensus size: 41
22933347 TTGTATAAAA
* * *
22933357 CACCGGCATAAAGCCTGCTA-AGCACAAAGCCCG-A-TACATTT
1 CACCGGCATCAAGCCTGCTAGA-CATAAAGCCTGAATTA-A-TT
*
22933398 CACCGGCA-CAAAGCCTGCTAGACATAAAGTCTGAATTAATT
1 CACCGGCATC-AAGCCTGCTAGACATAAAGCCTGAATTAATT
* *
22933439 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAA
1 CACCGGCATCAAGCCTGCTAGACATAAAGCCTGAA
22933474 AATCTCAGAT
Statistics
Matches: 64, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
41 58 0.91
42 4 0.06
43 2 0.03
ACGTcount: A:0.33, C:0.29, G:0.19, T:0.19
Consensus pattern (41 bp):
CACCGGCATCAAGCCTGCTAGACATAAAGCCTGAATTAATT
Found at i:22933707 original size:64 final size:63
Alignment explanation
Indices: 22933591--22933769 Score: 231
Period size: 64 Copynumber: 2.8 Consensus size: 63
22933581 AAACAAACAT
*
22933591 TCGAACCACATATGTA-T-AATTTACA-ACATTAAAATTCAGCTCAAAGAA-TTTGTAACCTATA
1 TCGAACCACATATGTATTAAAATT-CATACATT-AAATTCAGCTC-AAGAACTTTGTAACCTATA
22933652 C
63 C
*
22933653 TCGAACCACATATGTATGTAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTATAT
1 TCGAACCACATATGTAT-TAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTATAC
* * * *
22933717 TTGAACCACATATGTATATAAAATTCATACCTTAAATGCAACTCAAGAACTTT
1 TCGAACCACATATGTAT-TAAAATTCATACATTAAATTCAGCTCAAGAACTTT
22933770 AAATATATAT
Statistics
Matches: 105, Mismatches: 7, Indels: 8
0.88 0.06 0.07
Matches are distributed among these distances:
62 16 0.15
63 5 0.05
64 75 0.71
65 9 0.09
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (63 bp):
TCGAACCACATATGTATTAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTATAC
Found at i:22934895 original size:28 final size:28
Alignment explanation
Indices: 22934841--22934897 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
22934831 TTTGTTTGTT
*
22934841 TTTATTATAATAACTTTATAATTTATTA
1 TTTATTATAATAACTTTATAATATATTA
*
22934869 TTTATTATTATAACCTTTATAA-ATATTA
1 TTTATTATAATAA-CTTTATAATATATTA
22934897 T
1 T
22934898 AAAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 18 0.69
29 8 0.31
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (28 bp):
TTTATTATAATAACTTTATAATATATTA
Found at i:22939432 original size:14 final size:15
Alignment explanation
Indices: 22939408--22939442 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
22939398 TATACACATT
22939408 ACCATATAAATACTA
1 ACCATATAAATACTA
22939423 ACCATA-AAATACTA
1 ACCATATAAATACTA
22939437 ATCCAT
1 A-CCAT
22939443 GATTAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (15 bp):
ACCATATAAATACTA
Found at i:22940830 original size:28 final size:28
Alignment explanation
Indices: 22940776--22940832 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
22940766 TTTGTTTGTT
*
22940776 TTTATTATAATAACTTTATAATTTATTA
1 TTTATTATAATAACTTTATAATATATTA
*
22940804 TTTATTATTATAACCTTTATAA-ATATTA
1 TTTATTATAATAA-CTTTATAATATATTA
22940832 T
1 T
22940833 AAAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 18 0.69
29 8 0.31
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (28 bp):
TTTATTATAATAACTTTATAATATATTA
Found at i:22942597 original size:83 final size:83
Alignment explanation
Indices: 22942500--22942666 Score: 334
Period size: 83 Copynumber: 2.0 Consensus size: 83
22942490 AAAAAATACT
22942500 TTTTACATATGATTTAGAATATTTTAACAAAATTAATAATAGCTTCTACAACGATAAGCAAAAAC
1 TTTTACATATGATTTAGAATATTTTAACAAAATTAATAATAGCTTCTACAACGATAAGCAAAAAC
22942565 AATACCACAACTTCATCA
66 AATACCACAACTTCATCA
22942583 TTTTACATATGATTTAGAATATTTTAACAAAATTAATAATAGCTTCTACAACGATAAGCAAAAAC
1 TTTTACATATGATTTAGAATATTTTAACAAAATTAATAATAGCTTCTACAACGATAAGCAAAAAC
22942648 AATACCACAACTTCATCA
66 AATACCACAACTTCATCA
22942666 T
1 T
22942667 AGCATACATA
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 84 1.00
ACGTcount: A:0.46, C:0.17, G:0.06, T:0.32
Consensus pattern (83 bp):
TTTTACATATGATTTAGAATATTTTAACAAAATTAATAATAGCTTCTACAACGATAAGCAAAAAC
AATACCACAACTTCATCA
Found at i:22950625 original size:18 final size:18
Alignment explanation
Indices: 22950599--22950636 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
22950589 ATCCCAATGA
* *
22950599 TCGCCACCACCTTCTTCT
1 TCGCAACCACATTCTTCT
22950617 TCGCAACCACATTCTTCT
1 TCGCAACCACATTCTTCT
22950635 TC
1 TC
22950637 ACCACCAACC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.16, C:0.45, G:0.05, T:0.34
Consensus pattern (18 bp):
TCGCAACCACATTCTTCT
Found at i:22950643 original size:18 final size:18
Alignment explanation
Indices: 22950602--22950643 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
22950592 CCAATGATCG
* *
22950602 CCACCACCTTCTTCTTCG
1 CCACCACATTCTTCTTCA
*
22950620 CAACCACATTCTTCTTCA
1 CCACCACATTCTTCTTCA
22950638 CCACCA
1 CCACCA
22950644 ACCATATCAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.48, G:0.02, T:0.29
Consensus pattern (18 bp):
CCACCACATTCTTCTTCA
Found at i:22951285 original size:3 final size:3
Alignment explanation
Indices: 22951277--22951422 Score: 143
Period size: 3 Copynumber: 47.3 Consensus size: 3
22951267 TAACTAACAC
* ** * *
22951277 AAT AAT AAT ATT AAT AAT TTT ATAT ACAA AAT AAT ACT AACT AA- AATT
1 AAT AAT AAT AAT AAT AAT AAT A-AT A-AT AAT AAT AAT AA-T AAT AA-T
* *
22951325 ATT AAT AACT AACT -AT AAA AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AA-T AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
22951371 AAT CAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
22951419 AAT A
1 AAT A
22951423 CTATAAAATT
Statistics
Matches: 118, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
2 3 0.03
3 102 0.86
4 13 0.11
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:22951620 original size:10 final size:10
Alignment explanation
Indices: 22951592--22951628 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
22951582 AAATACCTGA
22951592 TTTTTCTCTT
1 TTTTTCTCTT
*
22951602 CTCTTTCTCTT
1 -TTTTTCTCTT
22951613 TTTTTCTCTT
1 TTTTTCTCTT
22951623 TTTTTC
1 TTTTTC
22951629 CGAACCACCT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 15 0.62
11 9 0.38
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTTTCTCTT
Found at i:22951868 original size:27 final size:26
Alignment explanation
Indices: 22951809--22951868 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 26
22951799 TTTTTGTTTT
22951809 TTTATATATTTTGGTAAATAAAAAAA
1 TTTATATATTTTGGTAAATAAAAAAA
22951835 TTATATATATTTTGGTAAATAAAAAAAA
1 TT-TATATATTTTGGTAAAT-AAAAAAA
22951863 TTTATA
1 TTTATA
22951869 ACATTTGTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
26 2 0.06
27 21 0.66
28 9 0.28
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (26 bp):
TTTATATATTTTGGTAAATAAAAAAA
Found at i:22953268 original size:22 final size:23
Alignment explanation
Indices: 22953233--22953276 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
22953223 ATCAATAATT
22953233 TAAAAAATAAGATATTTTTTGTA
1 TAAAAAATAAGATATTTTTTGTA
*
22953256 TAAAAAAT-TGATATTTTTTGT
1 TAAAAAATAAGATATTTTTTGT
22953277 GGTGACCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (23 bp):
TAAAAAATAAGATATTTTTTGTA
Found at i:22955063 original size:22 final size:20
Alignment explanation
Indices: 22955004--22955065 Score: 54
Period size: 22 Copynumber: 3.0 Consensus size: 20
22954994 GTTATTCGAG
*
22955004 TCAACTCGAATAATT-AATT
1 TCAATTCGAATAATTGAATT
* *
22955023 TGAATTTGAATCAAGTTGAATT
1 TCAATTCGAAT-AA-TTGAATT
22955045 TACAATTCGAATAACTTGAAT
1 T-CAATTCGAATAA-TTGAAT
22955066 AGTTCGAATA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
19 8 0.24
20 2 0.06
21 2 0.06
22 13 0.39
23 8 0.24
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.37
Consensus pattern (20 bp):
TCAATTCGAATAATTGAATT
Found at i:22958431 original size:20 final size:20
Alignment explanation
Indices: 22958397--22958438 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
22958387 AACTATTTAA
** *
22958397 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
22958417 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
22958437 AT
1 AT
22958439 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:22961866 original size:11 final size:12
Alignment explanation
Indices: 22961842--22961873 Score: 57
Period size: 11 Copynumber: 2.8 Consensus size: 12
22961832 TTCTTTAAAT
22961842 ATATATATACAA
1 ATATATATACAA
22961854 ATATATA-ACAA
1 ATATATATACAA
22961865 ATATATATA
1 ATATATATA
22961874 TTTTAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.58
12 8 0.42
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.34
Consensus pattern (12 bp):
ATATATATACAA
Found at i:22962640 original size:15 final size:14
Alignment explanation
Indices: 22962622--22962668 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
22962612 TAGTTTTGTA
22962622 TTATTTTTTTATATT
1 TTATTTTTTTAT-TT
*
22962637 TTATTTGTTTATTT
1 TTATTTTTTTATTT
* *
22962651 TTAATTTTTAATTT
1 TTATTTTTTTATTT
22962665 TTAT
1 TTAT
22962669 ATATATTTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 16 0.59
15 11 0.41
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (14 bp):
TTATTTTTTTATTT
Found at i:22962705 original size:20 final size:21
Alignment explanation
Indices: 22962675--22962715 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
22962665 TTATATATAT
22962675 TTATCTTATTATATCA-TTTTA
1 TTATCTTATTAT-TCACTTTTA
22962696 TTAT-TTATTATTCACTTTTA
1 TTATCTTATTATTCACTTTTA
22962716 GCTTTTATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.16
20 12 0.63
21 4 0.21
ACGTcount: A:0.27, C:0.10, G:0.00, T:0.63
Consensus pattern (21 bp):
TTATCTTATTATTCACTTTTA
Found at i:22964189 original size:9 final size:11
Alignment explanation
Indices: 22964162--22964190 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
22964152 TGATAAAATT
22964162 AAATATATCTC
1 AAATATATCTC
22964173 AAATATATCTC
1 AAATATATCTC
22964184 AAATATA
1 AAATATA
22964191 AATAGTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (11 bp):
AAATATATCTC
Found at i:22964416 original size:3 final size:3
Alignment explanation
Indices: 22964408--22964434 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
22964398 ACTCAAAACA
22964408 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
22964435 TAATTTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:22964888 original size:41 final size:41
Alignment explanation
Indices: 22964831--22965111 Score: 230
Period size: 41 Copynumber: 6.9 Consensus size: 41
22964821 GATTTTTTAA
*
22964831 ATCTTTAGCGGCGTTTTTATCTAAGCGACGCTAATGCTCGG
1 ATCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGG
* * * *
22964872 ATCTTTAGTGGCGTTTTTCTATAAGCGCCGCTATTGCTCGG
1 ATCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGG
* * * * *
22964913 GTATTTAGCGGCGTTGTTGTCCT-AGCGCCGCTAATTCTCTGG
1 ATCTTTAGCGGCGTTTTTAT-CTAAGCGCCGCTAATGCTC-GG
* * * * *
22964955 -CCTTTGGCGGCGTTTTTATGTAAGCGCCGGTAATGGTCGG
1 ATCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGG
* * * * *
22964995 ATCTTTAGCGGCGTTTTTAACTGAGCGCCACTAATTCTCTTG
1 ATCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTC-GG
* * * **
22965037 -TCTTCAGCGGCGTTTGTAGCTAAGCGCCGCTAATGCAT-TT
1 ATCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGC-TCGG
* * *
22965077 ACCTTTAGCGGCGTTTTT-GCAAAAGCGCCGCTAAT
1 ATCTTTAGCGGCGTTTTTATC-TAAGCGCCGCTAAT
22965112 AGTAACAAAA
Statistics
Matches: 189, Mismatches: 43, Indels: 16
0.76 0.17 0.06
Matches are distributed among these distances:
40 6 0.03
41 178 0.94
42 5 0.03
ACGTcount: A:0.17, C:0.23, G:0.26, T:0.35
Consensus pattern (41 bp):
ATCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGG
Found at i:22965063 original size:123 final size:123
Alignment explanation
Indices: 22964833--22965094 Score: 291
Period size: 123 Copynumber: 2.1 Consensus size: 123
22964823 TTTTTTAAAT
* *
22964833 CTTTAGCGGCGTTTTTATCTAAGCGACGCTAATGCTCGGATCTTTAGTGGCGTTTTTCTATAAGC
1 CTTTAGCGGCGTTTTTATCTAAGCGACGCTAATGCTCGGATCTTTAGCGGCGTTTTTCAATAAGC
* *
22964898 GCCGCTATTGCTCGGGTATTTAGCGGCGTTGTTGTCCTAGCGCCGCTAATTCTCTGGC
66 GCCACTATTGCTCGGGTATTCAGCGGCGTTGTTGTCCTAGCGCCGCTAATTCTCTGGC
* * * * * *
22964956 CTTTGGCGGCGTTTTTATGTAAGCGCCGGTAATGGTCGGATCTTTAGCGGCGTTTTT-AACTGAG
1 CTTTAGCGGCGTTTTTATCTAAGCGACGCTAATGCTCGGATCTTTAGCGGCGTTTTTCAA-TAAG
** * * * **
22965020 CGCCACTAATT-CTCTTGTCTTCAGCGGCG-T-TTGTAGCTAAGCGCCGCTAATGCAT-TTAC
65 CGCCACT-ATTGCTCGGGTATTCAGCGGCGTTGTTGT-CCT-AGCGCCGCTAATTC-TCTGGC
22965079 CTTTAGCGGCGTTTTT
1 CTTTAGCGGCGTTTTT
22965095 GCAAAAGCGC
Statistics
Matches: 116, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
121 4 0.03
122 4 0.03
123 104 0.90
124 4 0.03
ACGTcount: A:0.15, C:0.23, G:0.26, T:0.36
Consensus pattern (123 bp):
CTTTAGCGGCGTTTTTATCTAAGCGACGCTAATGCTCGGATCTTTAGCGGCGTTTTTCAATAAGC
GCCACTATTGCTCGGGTATTCAGCGGCGTTGTTGTCCTAGCGCCGCTAATTCTCTGGC
Found at i:22965698 original size:15 final size:15
Alignment explanation
Indices: 22965677--22965714 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
22965667 TTTAAGGTTA
22965677 ATTTAGGGGTTAGAG
1 ATTTAGGGGTTAGAG
* *
22965692 GTTTAGGGGTTTGAG
1 ATTTAGGGGTTAGAG
22965707 ATTTAGGG
1 ATTTAGGG
22965715 TTTCAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.42, T:0.37
Consensus pattern (15 bp):
ATTTAGGGGTTAGAG
Found at i:22965717 original size:14 final size:14
Alignment explanation
Indices: 22965650--22965717 Score: 52
Period size: 15 Copynumber: 4.9 Consensus size: 14
22965640 TACGGGGTAT
*
22965650 AGATTTAAGGTTTG
1 AGATTTAGGGTTTG
* *
22965664 GGATTTAAGG-TT-
1 AGATTTAGGGTTTG
*
22965676 A-ATTTAGGGGTTAG
1 AGATTTA-GGGTTTG
*
22965690 AGGTTTAGGGGTTTG
1 AGATTTA-GGGTTTG
22965705 AGATTTAGGGTTT
1 AGATTTAGGGTTT
22965718 CAATTATCGG
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
11 5 0.12
12 2 0.05
13 3 0.07
14 16 0.37
15 17 0.40
ACGTcount: A:0.24, C:0.00, G:0.35, T:0.41
Consensus pattern (14 bp):
AGATTTAGGGTTTG
Found at i:22966112 original size:17 final size:17
Alignment explanation
Indices: 22966092--22966125 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
22966082 AAAAATTAAA
22966092 ATTTCCCAAAACGGCGC
1 ATTTCCCAAAACGGCGC
22966109 ATTTCCCAAAACGGCGC
1 ATTTCCCAAAACGGCGC
22966126 CGTTTGGGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.35, G:0.18, T:0.18
Consensus pattern (17 bp):
ATTTCCCAAAACGGCGC
Found at i:22966642 original size:7 final size:7
Alignment explanation
Indices: 22966630--22966731 Score: 80
Period size: 7 Copynumber: 13.9 Consensus size: 7
22966620 GATATAAGGT
22966630 TTAGGGG
1 TTAGGGG
22966637 TTAGGGG
1 TTAGGGG
22966644 TTAGGGG
1 TTAGGGG
*
22966651 TTAGGGAT
1 TTAGGG-G
22966659 TTAGGGG
1 TTAGGGG
*
22966666 TTAGGAG
1 TTAGGGG
*
22966673 TTAGGTG
1 TTAGGGG
**
22966680 TTAGGAAT
1 TTAGG-GG
22966688 TTA-GGG
1 TTAGGGG
22966694 TCTAGGAGAG
1 T-TAGG-G-G
22966704 TTAGGGG
1 TTAGGGG
*
22966711 TTAGGGAT
1 TTAGGG-G
*
22966719 TTAGGGT
1 TTAGGGG
22966726 TTAGGG
1 TTAGGG
22966732 TGTCAATTAA
Statistics
Matches: 79, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
6 1 0.01
7 54 0.68
8 17 0.22
9 5 0.06
10 2 0.03
ACGTcount: A:0.21, C:0.01, G:0.46, T:0.32
Consensus pattern (7 bp):
TTAGGGG
Found at i:22966661 original size:29 final size:29
Alignment explanation
Indices: 22966629--22966731 Score: 136
Period size: 29 Copynumber: 3.5 Consensus size: 29
22966619 GGATATAAGG
22966629 TTTAGGGGTTAGGGGTTAGGGGTTAGGGA
1 TTTAGGGGTTAGGGGTTAGGGGTTAGGGA
* * *
22966658 TTTAGGGGTTAGGAGTTAGGTGTTAGGAA
1 TTTAGGGGTTAGGGGTTAGGGGTTAGGGA
22966687 TTTA-GGGTCTAGGAGAGTTAGGGGTTAGGGA
1 TTTAGGGGT-TAGG-G-GTTAGGGGTTAGGGA
*
22966718 TTTAGGGTTTAGGG
1 TTTAGGGGTTAGGG
22966732 TGTCAATTAA
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
28 4 0.06
29 34 0.54
30 1 0.02
31 21 0.33
32 3 0.05
ACGTcount: A:0.20, C:0.01, G:0.46, T:0.33
Consensus pattern (29 bp):
TTTAGGGGTTAGGGGTTAGGGGTTAGGGA
Found at i:22966662 original size:15 final size:15
Alignment explanation
Indices: 22966629--22966731 Score: 113
Period size: 15 Copynumber: 6.9 Consensus size: 15
22966619 GGATATAAGG
22966629 TTTAGGGGTTAGGG-
1 TTTAGGGGTTAGGGA
*
22966643 GTTAGGGGTTAGGGA
1 TTTAGGGGTTAGGGA
22966658 TTTAGGGGTTA-GGA
1 TTTAGGGGTTAGGGA
* * *
22966672 GTTAGGTGTTAGGAA
1 TTTAGGGGTTAGGGA
22966687 TTTA-GGGTCTAGGAGA
1 TTTAGGGGT-TAGG-GA
*
22966703 GTTAGGGGTTAGGGA
1 TTTAGGGGTTAGGGA
*
22966718 TTTAGGGTTTAGGG
1 TTTAGGGGTTAGGG
22966732 TGTCAATTAA
Statistics
Matches: 73, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
14 28 0.38
15 33 0.45
16 8 0.11
17 4 0.05
ACGTcount: A:0.20, C:0.01, G:0.46, T:0.33
Consensus pattern (15 bp):
TTTAGGGGTTAGGGA
Found at i:22966732 original size:7 final size:7
Alignment explanation
Indices: 22966609--22966732 Score: 65
Period size: 7 Copynumber: 17.0 Consensus size: 7
22966599 TATATGATTA
22966609 TTAGGGT
1 TTAGGGT
22966616 TT-GGGAT
1 TTAGGG-T
* *
22966623 ATAAGGT
1 TTAGGGT
*
22966630 TTAGGGG
1 TTAGGGT
*
22966637 TTAGGGG
1 TTAGGGT
*
22966644 TTAGGGG
1 TTAGGGT
22966651 TTAGGGAT
1 TTAGGG-T
*
22966659 TTAGGGG
1 TTAGGGT
22966666 TTAGGAG-
1 TTAGG-GT
22966673 TTA-GGT
1 TTAGGGT
*
22966679 GTTAGGAAT
1 -TTAGG-GT
22966688 TTAGGGT
1 TTAGGGT
* *
22966695 CTAGGAGAG
1 TTAGG-G-T
*
22966704 TTAGGGG
1 TTAGGGT
22966711 TTAGGGAT
1 TTAGGG-T
22966719 TTAGGGT
1 TTAGGGT
22966726 TTAGGGT
1 TTAGGGT
22966733 GTCAATTAAT
Statistics
Matches: 93, Mismatches: 13, Indels: 22
0.73 0.10 0.17
Matches are distributed among these distances:
5 1 0.01
6 4 0.04
7 60 0.65
8 23 0.25
9 5 0.05
ACGTcount: A:0.21, C:0.01, G:0.44, T:0.34
Consensus pattern (7 bp):
TTAGGGT
Found at i:22969701 original size:22 final size:22
Alignment explanation
Indices: 22969655--22969733 Score: 64
Period size: 22 Copynumber: 3.8 Consensus size: 22
22969645 TTACATTACT
*
22969655 TACATTACTTACTAAAATAT-A-G
1 TACATTACTTA--AATATATAACG
22969677 TACATTACTTAAATATATAACG
1 TACATTACTTAAATATATAACG
* *
22969699 TACA--A---AAATTTATAACT
1 TACATTACTTAAATATATAACG
22969716 TACATTACTTAAATATAT
1 TACATTACTTAAATATAT
22969734 TACATTACTT
Statistics
Matches: 46, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
17 14 0.30
19 1 0.02
20 7 0.15
21 1 0.02
22 23 0.50
ACGTcount: A:0.47, C:0.13, G:0.03, T:0.38
Consensus pattern (22 bp):
TACATTACTTAAATATATAACG
Found at i:22969738 original size:18 final size:18
Alignment explanation
Indices: 22969658--22969746 Score: 74
Period size: 18 Copynumber: 4.8 Consensus size: 18
22969648 CATTACTTAC
*
22969658 ATTAC-TTACTAAAATAT
1 ATTACATTACTTAAATAT
*
22969675 AGTACATTACTTAAATAT
1 ATTACATTACTTAAATAT
* * **
22969693 ATAAC-GTACAAAAATTTAT
1 ATTACATTACTTAAA--TAT
22969712 AACTTACATTACTTAAATAT
1 -A-TTACATTACTTAAATAT
22969732 ATTACATTACTTAAA
1 ATTACATTACTTAAA
22969747 CTTTATATAT
Statistics
Matches: 55, Mismatches: 11, Indels: 11
0.71 0.14 0.14
Matches are distributed among these distances:
17 10 0.18
18 28 0.51
19 4 0.07
20 4 0.07
21 3 0.05
22 6 0.11
ACGTcount: A:0.47, C:0.12, G:0.02, T:0.38
Consensus pattern (18 bp):
ATTACATTACTTAAATAT
Done.