Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 85 of 444
Found at i:20158767 original size:48 final size:48
Alignment explanation
Indices: 20158694--20158931 Score: 298
Period size: 48 Copynumber: 5.0 Consensus size: 48
20158684 GACATTGGGG
* *
20158694 TGATATGTGCACTAGTGTAAAACCATGTCTGGGACATGGCATCGGCGT
1 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCGT
* * *
20158742 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGTCATAGCATCGGC-C
1 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCGT
** * * *
20158789 ACATTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGT
1 TGA-TATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCGT
* ** * * *
20158838 TGATAGGTGCGCTAGTGTAAGACCATGTCTAAGACTTAGCATCGACGT
1 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCGT
* *
20158886 TGATATGTGCGCCAGTGTAAGACCATGTCTGGAACATGGCATCGGC
1 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
20158932 CACATTACGA
Statistics
Matches: 156, Mismatches: 32, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
47 1 0.01
48 154 0.99
49 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (48 bp):
TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCGT
Found at i:20158948 original size:48 final size:47
Alignment explanation
Indices: 20158707--20159026 Score: 187
Period size: 48 Copynumber: 6.7 Consensus size: 47
20158697 TATGTGCACT
* * *** * * * *
20158707 AGTGTAAAACCATGTCTGGGACATGGCATCGGCGTTGATATGTGCGCT
1 AGTGTAAGACCATGTCTGGAACATGGCATCGGC-CACATACGAGAGCC
** * *
20158755 AGTGTAAGACCATGTCTGGGTCATAGCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGAACATGGCATCGGCCACA-TACGAGAGCC
* *** * * * *
20158803 AGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATAGGTGCGCT
1 AGTGTAAGACCATGTCTGGAACATGGCATCGGC-CACATACGAGAGCC
* * * * *** * * *
20158851 AGTGTAAGACCATGTCT-AAGACTTAGCATCGACGTTGATATGTGCGCC
1 AGTGTAAGACCATGTCTGGA-ACATGGCATCGGC-CACATACGAGAGCC
20158899 AGTGTAAGACCATGTCTGGAACATGGCATCGGCCACATTACGAGAGCC
1 AGTGTAAGACCATGTCTGGAACATGGCATCGGCCACA-TACGAGAGCC
* * * * * *
20158947 AGTGTAAGACCATGTCTAGAACATGGTATTGG-CATTAAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGAACATGGCATCGGCCA--CATACGAGAGCC
* *
20158995 AGTTTAAGACCATG-CTTGGGACATGGCATCGG
1 AGTGTAAGACCATGTC-TGGAACATGGCATCGG
20159027 TAATTTATCC
Statistics
Matches: 218, Mismatches: 46, Indels: 16
0.78 0.16 0.06
Matches are distributed among these distances:
47 5 0.02
48 210 0.96
49 3 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGAACATGGCATCGGCCACATACGAGAGCC
Found at i:20159024 original size:144 final size:144
Alignment explanation
Indices: 20158705--20159025 Score: 428
Period size: 144 Copynumber: 2.2 Consensus size: 144
20158695 GATATGTGCA
* * *
20158705 CTAGTGTAAAACCATGTCTGGGACATGGCATCGGCGTTGATATGTGCGCTAGTGTAAGACCATGT
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGACGTTGATATGTGCGCCAGTGTAAGACCATGT
** * * *
20158770 CTGGGTCATAGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG
66 CTGGAACATAGCATCGGCCACATTACGAGAGCCAGTGTAAGACCATGTCTAGAACATGGCATCGG
* * * * * *
20158835 CGTTGATAGGTGCG
131 CATTAAGACGAGAG
** * *
20158849 CTAGTGTAAGACCATGTCTAAGACTTAGCATCGACGTTGATATGTGCGCCAGTGTAAGACCATGT
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGACGTTGATATGTGCGCCAGTGTAAGACCATGT
* * *
20158914 CTGGAACATGGCATCGGCCACATTACGAGAGCCAGTGTAAGACCATGTCTAGAACATGGTATTGG
66 CTGGAACATAGCATCGGCCACATTACGAGAGCCAGTGTAAGACCATGTCTAGAACATGGCATCGG
20158979 CATTAAGACGAGAG
131 CATTAAGACGAGAG
*
20158993 CTAGTTTAAGACCATG-CTTGGGACATGGCATCG
1 CTAGTGTAAGACCATGTC-TGGGACATGGCATCG
20159026 GTAATTTATC
Statistics
Matches: 150, Mismatches: 26, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
143 1 0.01
144 149 0.99
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (144 bp):
CTAGTGTAAGACCATGTCTGGGACATGGCATCGACGTTGATATGTGCGCCAGTGTAAGACCATGT
CTGGAACATAGCATCGGCCACATTACGAGAGCCAGTGTAAGACCATGTCTAGAACATGGCATCGG
CATTAAGACGAGAG
Found at i:20160793 original size:77 final size:77
Alignment explanation
Indices: 20160647--20160794 Score: 224
Period size: 77 Copynumber: 1.9 Consensus size: 77
20160637 CTTAATGTTC
* **
20160647 AAGATTTAACTTACCGATAGCATTAAGAACTAAAGAGACCTAATTTTAACCAACAAACTCACTGC
1 AAGATTTAACTTACCGATAACATTAAGAACTAAAGAGACCTAATTTTAACCAACAAACTCACCAC
20160712 AATGAGACGTTT
66 AATGAGACGTTT
* * ** *
20160724 AAGATTTAACTTACCGGTAACATTAAGAACTAGAGAGGTCTAATTTTAACCAACAAACTCACCAT
1 AAGATTTAACTTACCGATAACATTAAGAACTAAAGAGACCTAATTTTAACCAACAAACTCACCAC
20160789 AATGAG
66 AATGAG
20160795 GTTCATTTAA
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
77 63 1.00
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.26
Consensus pattern (77 bp):
AAGATTTAACTTACCGATAACATTAAGAACTAAAGAGACCTAATTTTAACCAACAAACTCACCAC
AATGAGACGTTT
Found at i:20165157 original size:21 final size:21
Alignment explanation
Indices: 20165131--20165171 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
20165121 AGACGAGCGA
* *
20165131 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
20165152 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
20165172 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:20168377 original size:22 final size:23
Alignment explanation
Indices: 20168351--20168398 Score: 80
Period size: 22 Copynumber: 2.1 Consensus size: 23
20168341 CTGGTCAAAG
20168351 AGACTTCTTTCATTC-GGGGGAA
1 AGACTTCTTTCATTCGGGGGGAA
*
20168373 AGACTTCTTTTATTCGGGGGGAA
1 AGACTTCTTTCATTCGGGGGGAA
20168396 AGA
1 AGA
20168399 AATTTTCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 14 0.58
23 10 0.42
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.31
Consensus pattern (23 bp):
AGACTTCTTTCATTCGGGGGGAA
Found at i:20170214 original size:16 final size:17
Alignment explanation
Indices: 20170176--20170227 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
20170166 TACTTTCTGT
* *
20170176 TAAAAAGGAAAAAAAAA
1 TAAAAAGCAGAAAAAAA
20170193 GTTAAAAA-CAGAAAAAAA
1 --TAAAAAGCAGAAAAAAA
*
20170211 TAAAAAGCTGAAAAAAA
1 TAAAAAGCAGAAAAAAA
20170228 GAAATTGCGT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 6 0.21
17 9 0.31
18 8 0.28
19 6 0.21
ACGTcount: A:0.75, C:0.04, G:0.12, T:0.10
Consensus pattern (17 bp):
TAAAAAGCAGAAAAAAA
Found at i:20170464 original size:152 final size:153
Alignment explanation
Indices: 20170267--20170597 Score: 531
Period size: 152 Copynumber: 2.2 Consensus size: 153
20170257 GCCCCATTAT
* * *
20170267 AAAATCTAGATC-CAAAATTTTAAAAATACAAATAAAAGGATAAAATTAGGGTTATTTATTAAAT
1 AAAAT-TAGATCTAAAAATTTTAAAAATACAAACAAAAGGACAAAATTAGGGTTATTTATTAAAT
* *
20170331 TAATATAAAAAAATATTAAAATAATAAATTTGAAACATTATGTACTAAAATAATATAAAAGAA-A
65 TAATATAAAAAAATACTAAAATAATAAATTTGAAACATTATGTACTAAAATAATATAAAAAAATA
*
20170395 AAATAGGAAAATAGTATATTTGAA
130 AAATACGAAAATAGTATATTTGAA
* *
20170419 AAAATTAGATCTGAAAATTTTAAAAATACAAACAAAGGGACAAAATTAGGGTTATTTATTAAATT
1 AAAATTAGATCTAAAAATTTTAAAAATACAAACAAAAGGACAAAATTAGGGTTATTTATTAAATT
*
20170484 AATATAAAAAAATACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATAA
66 AATATAAAAAAATACTAAAATAATAAATTTGAAACATTATGTACTAAAATAATATAAAAAAATAA
*
20170549 AATACGAAAATAGTATATTTTAA
131 AATACGAAAATAGTATATTTGAA
* *
20170572 AAAATAAAATCTAAAAATTTTAAAAA
1 AAAATTAGATCTAAAAATTTTAAAAA
20170598 CTTTAAAAAT
Statistics
Matches: 165, Mismatches: 12, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
151 6 0.04
152 113 0.68
153 46 0.28
ACGTcount: A:0.58, C:0.05, G:0.08, T:0.30
Consensus pattern (153 bp):
AAAATTAGATCTAAAAATTTTAAAAATACAAACAAAAGGACAAAATTAGGGTTATTTATTAAATT
AATATAAAAAAATACTAAAATAATAAATTTGAAACATTATGTACTAAAATAATATAAAAAAATAA
AATACGAAAATAGTATATTTGAA
Found at i:20171195 original size:24 final size:26
Alignment explanation
Indices: 20171162--20171209 Score: 73
Period size: 24 Copynumber: 1.9 Consensus size: 26
20171152 AATCTCTTTT
20171162 TTTTTCAACTTTTTATTT-TTTTCCG
1 TTTTTCAACTTTTTATTTCTTTTCCG
*
20171187 TTTTT-AACTTTTTTTTTCTTTTC
1 TTTTTCAACTTTTTATTTCTTTTC
20171210 AACAGAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.10, C:0.15, G:0.02, T:0.73
Consensus pattern (26 bp):
TTTTTCAACTTTTTATTTCTTTTCCG
Found at i:20176468 original size:18 final size:18
Alignment explanation
Indices: 20176445--20176479 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
20176435 TCCTTATCCT
* *
20176445 CTAAAGGGAAGCAGAAAG
1 CTAAAGGAAAGAAGAAAG
20176463 CTAAAGGAAAGAAGAAA
1 CTAAAGGAAAGAAGAAA
20176480 CCGACTAAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.09, G:0.29, T:0.06
Consensus pattern (18 bp):
CTAAAGGAAAGAAGAAAG
Found at i:20178896 original size:29 final size:29
Alignment explanation
Indices: 20178832--20178889 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
20178822 TTAGTATAAA
*
20178832 TGATTTGGGTGAAACTAGTTATATTCTTG
1 TGATTTGGGTGAAACTAGTTATATTCCTG
*
20178861 TGATTTGGGTGAAGCTAGTTATATTCCTG
1 TGATTTGGGTGAAACTAGTTATATTCCTG
20178890 GAATTTGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.22, C:0.09, G:0.26, T:0.43
Consensus pattern (29 bp):
TGATTTGGGTGAAACTAGTTATATTCCTG
Found at i:20181420 original size:26 final size:27
Alignment explanation
Indices: 20181369--20181420 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
20181359 AGTTGTAAAG
20181369 AGAAAATTCTCTAAAGAAATTATTTTT
1 AGAAAATTCTCTAAAGAAATTATTTTT
* *
20181396 AGAAAATT-TCTAGAGATATT-TTTTT
1 AGAAAATTCTCTAAAGAAATTATTTTT
20181421 GATTTACAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 5 0.22
26 10 0.43
27 8 0.35
ACGTcount: A:0.40, C:0.06, G:0.10, T:0.44
Consensus pattern (27 bp):
AGAAAATTCTCTAAAGAAATTATTTTT
Found at i:20183465 original size:43 final size:42
Alignment explanation
Indices: 20183418--20183614 Score: 180
Period size: 43 Copynumber: 4.6 Consensus size: 42
20183408 TTTATTTAAA
*
20183418 AAACGCCGCTAAAGACTATGACCTTTAGTGGCGCTTTTTTTG
1 AAACGCCGCTAAAGACTATGACCTTTAGCGGCGCTTTTTTTG
* * *
20183460 CAAACGCTGCTAAAGGCCATGACCTTTAGCGGCGCTTTTTTTG
1 -AAACGCCGCTAAAGACTATGACCTTTAGCGGCGCTTTTTTTG
* * * * ***
20183503 TAAACGCCACTAAAGACCAAGACCTTTAGCGACGCTTTTCTAAA
1 -AAACGCCGCTAAAGACTATGACCTTTAGCGGCGCTTTT-TTTG
* * * * * *
20183547 AAATGCCACTAAAAACTATAACCTTTAGCGTCGCTTTTTCAT-
1 AAACGCCGCTAAAGACTATGACCTTTAGCGGCGCTTTTT-TTG
* *
20183589 AAACGCCGCTAAAAACTATAACCTTT
1 AAACGCCGCTAAAGACTATGACCTTT
20183615 TAAAAAAATT
Statistics
Matches: 130, Mismatches: 22, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
42 25 0.19
43 104 0.80
44 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (42 bp):
AAACGCCGCTAAAGACTATGACCTTTAGCGGCGCTTTTTTTG
Found at i:20186698 original size:18 final size:21
Alignment explanation
Indices: 20186675--20186713 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
20186665 CTGACCTGGT
20186675 TCTTCC-C-TTTTCTT-TTTG
1 TCTTCCTCATTTTCTTCTTTG
20186693 TCTTCCTCATTTTCTTCTTTG
1 TCTTCCTCATTTTCTTCTTTG
20186714 CCTTTGGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 1 0.06
20 7 0.39
21 4 0.22
ACGTcount: A:0.03, C:0.28, G:0.05, T:0.64
Consensus pattern (21 bp):
TCTTCCTCATTTTCTTCTTTG
Found at i:20186757 original size:14 final size:15
Alignment explanation
Indices: 20186732--20186760 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
20186722 ATCCAATCTC
20186732 TTCTTCTTTCTTCTT
1 TTCTTCTTTCTTCTT
20186747 TTCTT-TTTCTTCTT
1 TTCTTCTTTCTTCTT
20186761 CGCGCTTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (15 bp):
TTCTTCTTTCTTCTT
Found at i:20190561 original size:22 final size:21
Alignment explanation
Indices: 20190522--20190563 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
20190512 GATCCTAGAC
*
20190522 CCCTAACCCTTAAACCATAAT
1 CCCTAACCCATAAACCATAAT
*
20190543 CCCTAAACCCATAATCCATAA
1 CCCT-AACCCATAAACCATAA
20190564 AACTTAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.40, C:0.38, G:0.00, T:0.21
Consensus pattern (21 bp):
CCCTAACCCATAAACCATAAT
Found at i:20190804 original size:23 final size:22
Alignment explanation
Indices: 20190778--20190825 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
20190768 GGTTTAAGAT
* *
20190778 TTTTAAGGTTTAAAAGTTTAGTG
1 TTTTAAGGATT-AAAGATTAGTG
*
20190801 TTTTAAGGATTATAGATTAGTG
1 TTTTAAGGATTAAAGATTAGTG
20190823 TTT
1 TTT
20190826 ATGATTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (22 bp):
TTTTAAGGATTAAAGATTAGTG
Found at i:20190924 original size:41 final size:40
Alignment explanation
Indices: 20190867--20191062 Score: 211
Period size: 41 Copynumber: 5.0 Consensus size: 40
20190857 GTTATATGAC
* * *
20190867 TTTTAGCGGCGTTTTACCGAAAGCGCTGCGAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCT-GT
20190908 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTG-
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
* *
20190947 ---TAGCGGCGTTTTACCAAAAGCACCGCTATTGCTCTGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
* ** * *
20190984 TTTTAGCGGCGTTTTAACAAAAAAAGCCGCTATTGCGCTGT
1 TTTTAGCGGCGTTTT-ACCAAAAGCGCCGCTAATGCTCTGT
* * ** *
20191025 TTTTTGTGGCGTTTTACCAAAAATGCCGCTATTGCTCT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCT
20191063 ATGTTTTACA
Statistics
Matches: 135, Mismatches: 15, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
36 34 0.25
40 33 0.24
41 68 0.50
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.33
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
Found at i:20190958 original size:36 final size:36
Alignment explanation
Indices: 20190870--20190983 Score: 138
Period size: 36 Copynumber: 3.0 Consensus size: 36
20190860 ATATGACTTT
* * *
20190870 TAGCGGCGTTTTACCGAAAGCGCTGCGAATGCTCTGG
1 TAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCT-G
20190907 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTG
1 ----TAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTG
* *
20190947 TAGCGGCGTTTTACCAAAAGCACCGCTATTGCTCTG
1 TAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTG
20190983 T
1 T
20190984 TTTTAGCGGC
Statistics
Matches: 68, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
36 35 0.51
40 1 0.01
41 32 0.47
ACGTcount: A:0.20, C:0.25, G:0.25, T:0.29
Consensus pattern (36 bp):
TAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTG
Found at i:20191013 original size:77 final size:77
Alignment explanation
Indices: 20190870--20191024 Score: 204
Period size: 77 Copynumber: 2.0 Consensus size: 77
20190860 ATATGACTTT
* * * * **
20190870 TAGCGGCGTTTTACCGAAAGCGCTGCGAATGCTCTGGTTTTTAGCGGCGTTTTACCAAAAGCGCC
1 TAGCGGCGTTTTACCAAAAGCACCGCGAATGCTCTGGTTTTTAGCGGCGTTTTACAAAAAAAGCC
*
20190935 GCTAATGCTCTG
66 GCTAATGCGCTG
* *
20190947 TAGCGGCGTTTTACCAAAAGCACCGCTATTGCTCT-GTTTTTAGCGGCGTTTTAACAAAAAAAGC
1 TAGCGGCGTTTTACCAAAAGCACCGCGAATGCTCTGGTTTTTAGCGGCGTTTT-ACAAAAAAAGC
*
20191011 CGCTATTGCGCTG
65 CGCTAATGCGCTG
20191024 T
1 T
20191025 TTTTTGTGGC
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
76 17 0.25
77 50 0.75
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.30
Consensus pattern (77 bp):
TAGCGGCGTTTTACCAAAAGCACCGCGAATGCTCTGGTTTTTAGCGGCGTTTTACAAAAAAAGCC
GCTAATGCGCTG
Found at i:20191443 original size:15 final size:15
Alignment explanation
Indices: 20191418--20191475 Score: 50
Period size: 15 Copynumber: 3.8 Consensus size: 15
20191408 GGTTTGGGGT
20191418 GTTACATTAATTATAA
1 GTTA-ATTAATTATAA
20191434 GTTAATTAATCT-TAA
1 GTTAATTAAT-TATAA
20191449 -TTAATTTAATTA-AA
1 GTTAA-TTAATTATAA
*
20191463 CTTTAATTAATTA
1 -GTTAATTAATTA
20191476 ATCATTAACC
Statistics
Matches: 37, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
14 7 0.19
15 21 0.57
16 9 0.24
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.48
Consensus pattern (15 bp):
GTTAATTAATTATAA
Found at i:20191450 original size:10 final size:10
Alignment explanation
Indices: 20191435--20191473 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
20191425 TAATTATAAG
20191435 TTAATTAATC
1 TTAATTAATC
20191445 TTAATTAAT-
1 TTAATTAATC
*
20191454 TTAATTAAAC
1 TTAATTAATC
20191464 TTTAATTAAT
1 -TTAATTAAT
20191474 TAATCATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 8 0.32
10 9 0.36
11 8 0.32
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (10 bp):
TTAATTAATC
Found at i:20191459 original size:19 final size:20
Alignment explanation
Indices: 20191435--20191474 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
20191425 TAATTATAAG
*
20191435 TTAATTAATC-TTAATTAAT
1 TTAATTAAACTTTAATTAAT
20191454 TTAATTAAACTTTAATTAAT
1 TTAATTAAACTTTAATTAAT
20191474 T
1 T
20191475 AATCATTAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (20 bp):
TTAATTAAACTTTAATTAAT
Found at i:20192710 original size:17 final size:17
Alignment explanation
Indices: 20192688--20192722 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
20192678 AATCAGGGAA
20192688 AGAGGAGAAGAAAATTC
1 AGAGGAGAAGAAAATTC
20192705 AGAGGAGAAGAAAATTC
1 AGAGGAGAAGAAAATTC
20192722 A
1 A
20192723 CTATGTTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.54, C:0.06, G:0.29, T:0.11
Consensus pattern (17 bp):
AGAGGAGAAGAAAATTC
Found at i:20205822 original size:5 final size:5
Alignment explanation
Indices: 20205814--20205843 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
20205804 TGGAAGACTC
20205814 TATTT TATTT TATTT TATTT TATTT ATATT
1 TATTT TATTT TATTT TATTT TATTT -TATT
20205844 AGGATAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.83
6 4 0.17
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
TATTT
Found at i:20205912 original size:10 final size:10
Alignment explanation
Indices: 20205893--20205924 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
20205883 TTTTAGGATT
20205893 TTAT-TTTAA
1 TTATCTTTAA
20205902 TTATCTTTAA
1 TTATCTTTAA
20205912 TTATCTTTAA
1 TTATCTTTAA
20205922 TTA
1 TTA
20205925 AATGTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:20217895 original size:17 final size:17
Alignment explanation
Indices: 20217873--20217917 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
20217863 AGGGGGAAGG
20217873 AAGGAAAGAAAAAAGAA
1 AAGGAAAGAAAAAAGAA
* *
20217890 AAGGAAGGAAGAAAGAA
1 AAGGAAAGAAAAAAGAA
20217907 AAGGAAAGAAA
1 AAGGAAAGAAA
20217918 GGAAAAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (17 bp):
AAGGAAAGAAAAAAGAA
Found at i:20218484 original size:12 final size:13
Alignment explanation
Indices: 20218447--20218488 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
20218437 TGATACCTGA
20218447 ATAAATGTTATAAT
1 ATAAATGTTA-AAT
*
20218461 ATAAAGGTTTAAAT
1 ATAAATG-TTAAAT
20218475 A-AAATGTTAAAT
1 ATAAATGTTAAAT
20218487 AT
1 AT
20218489 TAGTAAATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
12 7 0.29
13 4 0.17
14 10 0.42
15 3 0.12
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (13 bp):
ATAAATGTTAAAT
Found at i:20219057 original size:14 final size:16
Alignment explanation
Indices: 20219025--20219058 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
20219015 TCCTATATAT
20219025 TTATCTAGAGTTACCA
1 TTATCTAGAGTTACCA
20219041 TTATC-AGAGTT-CCA
1 TTATCTAGAGTTACCA
20219055 TTAT
1 TTAT
20219059 AAGCCGGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
15 6 0.33
16 5 0.28
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (16 bp):
TTATCTAGAGTTACCA
Found at i:20222112 original size:2 final size:2
Alignment explanation
Indices: 20222105--20222131 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
20222095 GTTTTAGATT
20222105 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
20222132 GAGGTTGGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:20223326 original size:27 final size:26
Alignment explanation
Indices: 20223281--20223333 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 26
20223271 GGTTTCCCTC
20223281 TTTTTCTCCTCTTTCTC-TTTATTTT
1 TTTTTCTCCTCTTTCTCTTTTATTTT
*
20223306 TTTTTCTCTTCTCTTCTTCTTTTATTTT
1 TTTTTCTCCTCT-TTC-TCTTTTATTTT
20223334 GGCTCCCCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 11 0.46
26 3 0.12
27 2 0.08
28 8 0.33
ACGTcount: A:0.04, C:0.23, G:0.00, T:0.74
Consensus pattern (26 bp):
TTTTTCTCCTCTTTCTCTTTTATTTT
Found at i:20237089 original size:2 final size:2
Alignment explanation
Indices: 20237082--20237111 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
20237072 TGGCTAAACC
20237082 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
20237112 CCAATTTTGG
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:20243542 original size:28 final size:28
Alignment explanation
Indices: 20243502--20243557 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
20243492 TTTGACATTG
20243502 ATTAAAATAATATTTTTCAAACTTTAAA
1 ATTAAAATAATATTTTTCAAACTTTAAA
20243530 ATTAAAATAATATTTTTCAAACTTTAAA
1 ATTAAAATAATATTTTTCAAACTTTAAA
20243558 TAGATGTAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (28 bp):
ATTAAAATAATATTTTTCAAACTTTAAA
Found at i:20248707 original size:19 final size:19
Alignment explanation
Indices: 20248683--20248729 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
20248673 ATTAAAGTGC
*
20248683 TTACATGGTGGAAAATAAA
1 TTACATGGCGGAAAATAAA
20248702 TTACATGGCGGAAAATAAA
1 TTACATGGCGGAAAATAAA
20248721 TTACATGGC
1 TTACATGGC
20248730 AATAGAGACT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.43, C:0.11, G:0.21, T:0.26
Consensus pattern (19 bp):
TTACATGGCGGAAAATAAA
Found at i:20250430 original size:12 final size:12
Alignment explanation
Indices: 20250413--20250440 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
20250403 TTTTCATCTT
20250413 ATTATTAAACTA
1 ATTATTAAACTA
20250425 ATTATTAAACTA
1 ATTATTAAACTA
20250437 ATTA
1 ATTA
20250441 ATTTCATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (12 bp):
ATTATTAAACTA
Found at i:20250526 original size:3 final size:3
Alignment explanation
Indices: 20250518--20250551 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
20250508 TTAATTTAAC
20250518 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
20250552 ATAGTAGTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:20250719 original size:12 final size:12
Alignment explanation
Indices: 20250702--20250726 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
20250692 TGCATCATGT
20250702 TTTTTAATACCA
1 TTTTTAATACCA
20250714 TTTTTAATACCA
1 TTTTTAATACCA
20250726 T
1 T
20250727 GCACGTTGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTTTAATACCA
Found at i:20253445 original size:26 final size:24
Alignment explanation
Indices: 20253402--20253454 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 24
20253392 TAAATAAATA
*
20253402 TAATTATATGTTAATATTTATATTTT
1 TAATTAAATGTTAATA-TTAT-TTTT
20253428 TAATTAAAT-TTAATTATTATTTTT
1 TAATTAAATGTTAA-TATTATTTTT
20253452 TAA
1 TAA
20253455 AAAAAATCTC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 7 0.28
25 8 0.32
26 10 0.40
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (24 bp):
TAATTAAATGTTAATATTATTTTT
Found at i:20259433 original size:11 final size:11
Alignment explanation
Indices: 20259413--20259482 Score: 50
Period size: 13 Copynumber: 5.6 Consensus size: 11
20259403 TGAGAAGAAG
20259413 AGAAAAAAAAA
1 AGAAAAAAAAA
20259424 AGAAATAAAATAA
1 AGAAA-AAAA-AA
*
20259437 AAAAACAAAAAA
1 AGAAA-AAAAAA
20259449 AGACAGAAAAAAAA
1 AG--A-AAAAAAAA
20259463 AGAAAGAAAATAA
1 AGAAA-AAAA-AA
*
20259476 ATAAAAA
1 AGAAAAA
20259483 GGAAAGTTAT
Statistics
Matches: 48, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
11 7 0.15
12 14 0.29
13 16 0.33
14 9 0.19
15 2 0.04
ACGTcount: A:0.83, C:0.03, G:0.09, T:0.06
Consensus pattern (11 bp):
AGAAAAAAAAA
Found at i:20260817 original size:31 final size:31
Alignment explanation
Indices: 20260779--20260840 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
20260769 TGACTTACAG
20260779 GTCAAGGTAAAATAAGCCCCTTTTCTTGTAA
1 GTCAAGGTAAAATAAGCCCCTTTTCTTGTAA
20260810 GTCAAGGTAAAATAAGCCCCTTTTCTTGTAA
1 GTCAAGGTAAAATAAGCCCCTTTTCTTGTAA
20260841 AATGATTTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.32
Consensus pattern (31 bp):
GTCAAGGTAAAATAAGCCCCTTTTCTTGTAA
Found at i:20261076 original size:22 final size:22
Alignment explanation
Indices: 20261051--20261094 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
20261041 TAGTCATATA
20261051 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
20261073 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
20261095 TATTTAAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:20261133 original size:13 final size:14
Alignment explanation
Indices: 20261115--20261156 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
20261105 TTTCAATTTT
20261115 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
20261128 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
20261143 ATTTTAAATAATAT
1 ATTTT-AATAATAT
20261157 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:20261141 original size:16 final size:16
Alignment explanation
Indices: 20261119--20261155 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
20261109 AATTTTATTT
20261119 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
20261136 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
20261151 TAATA
1 TAATA
20261156 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:20265706 original size:22 final size:24
Alignment explanation
Indices: 20265673--20265749 Score: 67
Period size: 23 Copynumber: 3.4 Consensus size: 24
20265663 GTGTAAGGTG
* *
20265673 ATAAAT-TAATACATGTGT-ATTA
1 ATAAATATAATACATGTATAAATA
20265695 ATAAATAT-ATACATGTATAAATA
1 ATAAATATAATACATGTATAAATA
* *
20265718 ATAAATATTATA-ATAGT-TTAATA
1 ATAAATATAATACAT-GTATAAATA
20265741 ATAAA-ATAA
1 ATAAATATAA
20265750 AGAAATAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
22 18 0.38
23 24 0.51
24 5 0.11
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.38
Consensus pattern (24 bp):
ATAAATATAATACATGTATAAATA
Found at i:20265825 original size:4 final size:4
Alignment explanation
Indices: 20265816--20265851 Score: 54
Period size: 4 Copynumber: 8.5 Consensus size: 4
20265806 AGAACAGGGG
20265816 AGAA AGAA AGGAA AGAA AGGAA AGAA AGAA AGAA AG
1 AGAA AGAA A-GAA AGAA A-GAA AGAA AGAA AGAA AG
20265852 GGAGAAAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 22 0.73
5 8 0.27
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:20265831 original size:9 final size:9
Alignment explanation
Indices: 20265817--20265852 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
20265807 GAACAGGGGA
20265817 GAAAGAAAG
1 GAAAGAAAG
20265826 GAAAGAAAG
1 GAAAGAAAG
20265835 GAAAGAAA-
1 GAAAGAAAG
20265843 GAAAGAAAG
1 GAAAGAAAG
20265852 G
1 G
20265853 GAGAAAAGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 8 0.31
9 18 0.69
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (9 bp):
GAAAGAAAG
Found at i:20265832 original size:13 final size:13
Alignment explanation
Indices: 20265816--20265852 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
20265806 AGAACAGGGG
20265816 AGAAAGAAAGGAA
1 AGAAAGAAAGGAA
20265829 AGAAAGGAAA-GAA
1 AGAAA-GAAAGGAA
20265842 AGAAAGAAAGG
1 AGAAAGAAAGG
20265853 GAGAAAAGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 4 0.18
13 14 0.64
14 4 0.18
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (13 bp):
AGAAAGAAAGGAA
Found at i:20265860 original size:13 final size:12
Alignment explanation
Indices: 20265816--20265858 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
20265806 AGAACAGGGG
20265816 AGAAAGAAAGGAA
1 AGAAAGAAAGG-A
*
20265829 AGAAAGGAAAGAA
1 AGAAA-GAAAGGA
*
20265842 AGAAAGAAAGGG
1 AGAAAGAAAGGA
20265854 AGAAA
1 AGAAA
20265859 AGGGAAAATC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
12 10 0.38
13 11 0.42
14 5 0.19
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (12 bp):
AGAAAGAAAGGA
Found at i:20267055 original size:5 final size:5
Alignment explanation
Indices: 20267040--20267081 Score: 57
Period size: 5 Copynumber: 8.2 Consensus size: 5
20267030 AATTGAAGGG
* *
20267040 TGAATT TGAAT TGAAT TGAAT TGAAT TGAAT GGAAT GGAAT T
1 TGAA-T TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT T
20267082 ATGATTAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
5 30 0.88
6 4 0.12
ACGTcount: A:0.38, C:0.00, G:0.24, T:0.38
Consensus pattern (5 bp):
TGAAT
Found at i:20267549 original size:45 final size:45
Alignment explanation
Indices: 20267484--20267684 Score: 285
Period size: 45 Copynumber: 4.5 Consensus size: 45
20267474 TAGTTACTGT
* * *
20267484 TATTGCTACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
1 TATTGTTACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAA
* * *
20267529 TATTGTTACTGTTACCGTTACCGATTTGGCACTGTGTATGTCGAA
1 TATTGTTACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAA
* *
20267574 TATTGTTACTATTACCGCTACCGATTCGGCACTTTGTGTGTCGAA
1 TATTGTTACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAA
* *
20267619 TATTGTTACTGTTACCGTTACCGATTCAGCACTTTGTGTGTTGAA
1 TATTGTTACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAA
* * *
20267664 TACTGTTACTTTTACTGTTAC
1 TATTGTTACTGTTACCGTTAC
20267685 TATTCCGGAT
Statistics
Matches: 138, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 138 1.00
ACGTcount: A:0.19, C:0.20, G:0.20, T:0.41
Consensus pattern (45 bp):
TATTGTTACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAA
Found at i:20267891 original size:18 final size:18
Alignment explanation
Indices: 20267870--20268060 Score: 167
Period size: 18 Copynumber: 10.6 Consensus size: 18
20267860 TAACTGATTA
20267870 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
*
20267888 TTACTGGATAATTGACTG
1 TTACTGAATAATTGACTG
* *
20267906 TTACTGGAT-ATTAGATTG
1 TTACTGAATAATT-GACTG
* * *
20267924 TTACTGAATAACTGAATA
1 TTACTGAATAATTGACTG
* *
20267942 TTACTGAATAATTGATTA
1 TTACTGAATAATTGACTG
* *
20267960 TTACTGAATAACTGATTG
1 TTACTGAATAATTGACTG
*
20267978 TCACTGAATGAA-TGACTG
1 TTACTGAAT-AATTGACTG
* *
20267996 CTACTGAATAACTT-AATAG
1 TTACTGAATAA-TTGACT-G
*
20268015 TTACTGAAT-ATCTGA-TT
1 TTACTGAATAAT-TGACTG
20268032 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
*
20268050 TTACTGGATAA
1 TTACTGAATAA
20268061 CCGATTAATT
Statistics
Matches: 144, Mismatches: 19, Indels: 20
0.79 0.10 0.11
Matches are distributed among these distances:
17 18 0.12
18 111 0.77
19 15 0.10
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (18 bp):
TTACTGAATAATTGACTG
Found at i:20268061 original size:54 final size:55
Alignment explanation
Indices: 20267858--20268140 Score: 222
Period size: 54 Copynumber: 5.1 Consensus size: 55
20267848 AAAGGTATAA
* * *
20267858 AATAACTGATTATTACTGAATAATTGACTGTTACTGGATAATTGACT-GTTACTG
1 AATAACTGATTGTTACTGAATAATTGACTGTTACTGAATAATTGAATAGTTACTG
* * * * * *
20267912 GAT-ATTAGATTGTTACTGAATAACTGAATATTACTGAATAATTGATTA-TTACTG
1 AATAACT-GATTGTTACTGAATAATTGACTGTTACTGAATAATTGAATAGTTACTG
* *
20267966 AATAACTGATTGTCACTGAATGAA-TGACTGCTACTGAATAACTT-AATAGTTACTG
1 AATAACTGATTGTTACTGAAT-AATTGACTGTTACTGAATAA-TTGAATAGTTACTG
* * * *
20268021 AATATCTGATT-TTACTGAATAATTGACTGTTACTGGATAACCGATTAATTG-ATCGATATTG
1 AATAACTGATTGTTACTGAATAATTGACTGTTACT-G---A---A-TAATTGAATAGTTACTG
* * * * * *
20268082 AATAACTGGTTATTATTGAATAATTGATTGTTACTGAATAACTGACT-GTTACTG
1 AATAACTGATTGTTACTGAATAATTGACTGTTACTGAATAATTGAATAGTTACTG
20268136 AATAA
1 AATAA
20268141 ATAATTATTC
Statistics
Matches: 182, Mismatches: 29, Indels: 36
0.74 0.12 0.15
Matches are distributed among these distances:
53 4 0.02
54 107 0.59
55 25 0.14
58 2 0.01
61 20 0.11
62 24 0.13
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (55 bp):
AATAACTGATTGTTACTGAATAATTGACTGTTACTGAATAATTGAATAGTTACTG
Found at i:20268100 original size:18 final size:18
Alignment explanation
Indices: 20268077--20268140 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 18
20268067 AATTGATCGA
*
20268077 TATTGAATAACTGGTTAT
1 TATTGAATAACTGATTAT
* *
20268095 TATTGAATAATTGATTGT
1 TATTGAATAACTGATTAT
* * *
20268113 TACTGAATAACTGACTGT
1 TATTGAATAACTGATTAT
*
20268131 TACTGAATAA
1 TATTGAATAA
20268141 ATAATTATTC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.41
Consensus pattern (18 bp):
TATTGAATAACTGATTAT
Found at i:20268138 original size:36 final size:36
Alignment explanation
Indices: 20267858--20268140 Score: 223
Period size: 36 Copynumber: 7.6 Consensus size: 36
20267848 AAAGGTATAA
* * *
20267858 AATAACTGATTATTACTGAATAATTGACTGTTACTG
1 AATAACTGACTGTTACTGAATAATTGATTGTTACTG
* * *
20267894 GATAATTGACTGTTACTGGAT-ATTAGATTGTTACTG
1 AATAACTGACTGTTACTGAATAATT-GATTGTTACTG
* * *
20267930 AATAACTGAATATTACTGAATAATTGATTATTACTG
1 AATAACTGACTGTTACTGAATAATTGATTGTTACTG
* * * *
20267966 AATAACTGATTGTCACTGAATGAA-TGACTGCTACTG
1 AATAACTGACTGTTACTGAAT-AATTGATTGTTACTG
* *
20268002 AATAACTTAATAGTTACTGAAT-ATCTGATT-TTACTG
1 AATAACTGACT-GTTACTGAATAAT-TGATTGTTACTG
* * * *
20268038 AATAATTGACTGTTACTGGATAACCGATTAATTGATCGATATTG
1 AATAACTGACTGTTACT-G---A---A-TAATTGATTGTTACTG
** * *
20268082 AATAACTGGTTATTATTGAATAATTGATTGTTACTG
1 AATAACTGACTGTTACTGAATAATTGATTGTTACTG
20268118 AATAACTGACTGTTACTGAATAA
1 AATAACTGACTGTTACTGAATAA
20268141 ATAATTATTC
Statistics
Matches: 190, Mismatches: 41, Indels: 32
0.72 0.16 0.12
Matches are distributed among these distances:
35 10 0.05
36 134 0.71
37 19 0.10
39 1 0.01
40 1 0.01
42 1 0.01
43 6 0.03
44 18 0.09
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (36 bp):
AATAACTGACTGTTACTGAATAATTGATTGTTACTG
Found at i:20271059 original size:21 final size:21
Alignment explanation
Indices: 20271033--20271092 Score: 84
Period size: 21 Copynumber: 2.9 Consensus size: 21
20271023 GAAGCAGTAT
*
20271033 ACGACACATAAAGTGCCTAGA
1 ACGACACATAAAGTGCCTAAA
* *
20271054 ACGACACACAAGGTGCCTAAA
1 ACGACACATAAAGTGCCTAAA
*
20271075 ACAACACATAAAGTGCCT
1 ACGACACATAAAGTGCCT
20271093 GATCGGCAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.43, C:0.27, G:0.17, T:0.13
Consensus pattern (21 bp):
ACGACACATAAAGTGCCTAAA
Found at i:20272504 original size:32 final size:30
Alignment explanation
Indices: 20272467--20272548 Score: 94
Period size: 32 Copynumber: 2.6 Consensus size: 30
20272457 ATTATTTAAT
*
20272467 TAATAAATATCT-TTTAACTTAATAATAATAAG
1 TAATAAATATCTATTT-ACTT-A-AATAAAAAG
20272499 TAATAAATATCTATTTACTTAAATAAAAAG
1 TAATAAATATCTATTTACTTAAATAAAAAG
*
20272529 TAATTAAATATTTATGTTAC
1 TAA-TAAATATCTAT-TTAC
20272549 AATTGTATAC
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
30 11 0.24
31 11 0.24
32 20 0.44
33 3 0.07
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.41
Consensus pattern (30 bp):
TAATAAATATCTATTTACTTAAATAAAAAG
Found at i:20273697 original size:19 final size:19
Alignment explanation
Indices: 20273669--20273748 Score: 101
Period size: 19 Copynumber: 4.3 Consensus size: 19
20273659 AATCTTTAAG
* * *
20273669 GATATACAATATTAGATTT
1 GATATGCAATCTTAGATAT
*
20273688 GATATGCAATCTTAGATGT
1 GATATGCAATCTTAGATAT
*
20273707 GATATGCAATTTTAGATAT
1 GATATGCAATCTTAGATAT
20273726 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
20273743 GATATG
1 GATATG
20273749 ATAGGATATG
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
17 16 0.30
19 37 0.70
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.39
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:20280083 original size:7 final size:7
Alignment explanation
Indices: 20280073--20280097 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
20280063 AAAGAAAAGA
20280073 AAAATGG
1 AAAATGG
20280080 AAAATGG
1 AAAATGG
20280087 AAAATGG
1 AAAATGG
20280094 AAAA
1 AAAA
20280098 AGAGAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.24, T:0.12
Consensus pattern (7 bp):
AAAATGG
Found at i:20281179 original size:82 final size:82
Alignment explanation
Indices: 20281075--20281827 Score: 1272
Period size: 82 Copynumber: 9.2 Consensus size: 82
20281065 TAGATGGGGA
* * *
20281075 GCAGATCCAAGATAACAGATCTTATCTCTCTGAATTCGGCAAGGAGCAGATCGAAGACATAGCAG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGACATAGCAG
20281140 ATCTGACCTTCATCGGG
66 ATCTGACCTTCATCGGG
20281157 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGACATAGCAG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGACATAGCAG
20281222 ATCTGACCTTCATCGGG
66 ATCTGACCTTCATCGGG
* *
20281239 GCAGATCCAAGATGATAGATCTTATCTCTCTGTATTCGGTAGGGAGCAGATCGAAGACATAGCAG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGACATAGCAG
*
20281304 ATCTGACCTTCATCAGG
66 ATCTGACCTTCATCGGG
* *
20281321 GCAGATCCAAGATGACAGATCTTATCTCTCTATATTCGGCAGGGAGCAGATTGAAGACATAGCAG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGACATAGCAG
* **
20281386 ATTTGACCTTCATTAGG
66 ATCTGACCTTCATCGGG
* * *
20281403 GCAGATCCAAGATGACAGATTTTATCTCTCTGTATTCGGAAGGGAGCAGATCGAAGACATAGTAG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGACATAGCAG
20281468 ATCTGACCTTCATCGGG
66 ATCTGACCTTCATCGGG
*
20281485 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCAAAGACATAGCAG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGACATAGCAG
20281550 ATCTGACCTTCATCGGG
66 ATCTGACCTTCATCGGG
*
20281567 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATTGAAGACATAGCAG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGACATAGCAG
20281632 ATCTGACCTTCATCGGG
66 ATCTGACCTTCATCGGG
*
20281649 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAAGGAGCAGATCGAAGACATAGCAG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGACATAGCAG
20281714 ATCTGACCTTCATCGGG
66 ATCTGACCTTCATCGGG
* * * **
20281731 GCAAATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGCAGATTAAAGACATAGCAG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGACATAGCAG
* * *
20281796 ATTTGACCTTCATTGAG
66 ATCTGACCTTCATCGGG
*
20281813 ACAGATCCAAGATGA
1 GCAGATCCAAGATGA
20281828 TTTGGCATCT
Statistics
Matches: 632, Mismatches: 39, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
82 632 1.00
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (82 bp):
GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGACATAGCAG
ATCTGACCTTCATCGGG
Found at i:20282172 original size:19 final size:19
Alignment explanation
Indices: 20282148--20282224 Score: 113
Period size: 19 Copynumber: 4.2 Consensus size: 19
20282138 AATCCTTAAG
*
20282148 GATATGCAATCTTAGATTT
1 GATATGCAATCTTAGATAT
*
20282167 GATATGCAATCTTAGATGT
1 GATATGCAATCTTAGATAT
*
20282186 GATATGCAATCGTAGATAT
1 GATATGCAATCTTAGATAT
20282205 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
20282222 GAT
1 GAT
20282225 GTGATATGAT
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
17 15 0.28
19 39 0.72
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:20288200 original size:28 final size:32
Alignment explanation
Indices: 20288172--20288230 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
20288162 CTTCCATAAT
20288172 AAAATT-T-AATAT-AACAAAAAGTATAAATA
1 AAAATTATAAATATAAACAAAAAGTATAAATA
* *
20288201 AAAATTATAAATATAAATAAAAATTATAAA
1 AAAATTATAAATATAAACAAAAAGTATAAA
20288231 AAGTGTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 6 0.24
30 1 0.04
31 5 0.20
32 13 0.52
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (32 bp):
AAAATTATAAATATAAACAAAAAGTATAAATA
Found at i:20288217 original size:19 final size:19
Alignment explanation
Indices: 20288193--20288230 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
20288183 TAACAAAAAG
20288193 TATAAATAAAAATTATAAA
1 TATAAATAAAAATTATAAA
20288212 TATAAATAAAAATTATAAA
1 TATAAATAAAAATTATAAA
20288231 AAGTGTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
TATAAATAAAAATTATAAA
Found at i:20289374 original size:23 final size:23
Alignment explanation
Indices: 20289348--20289394 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
20289338 TATATGTGAG
*
20289348 TTTTACTTAATTATATTTTAATT
1 TTTTACTTAATTATAATTTAATT
** *
20289371 TTTTGTTTATTTATAATTTAATT
1 TTTTACTTAATTATAATTTAATT
20289394 T
1 T
20289395 GATTCTATAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (23 bp):
TTTTACTTAATTATAATTTAATT
Found at i:20290512 original size:16 final size:16
Alignment explanation
Indices: 20290489--20290532 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
20290479 ATAATTTTGA
20290489 TTTTTTATTATA-AAT
1 TTTTTTATTATATAAT
*
20290504 TTATTTTATTTTATAAT
1 TT-TTTTATTATATAAT
20290521 TTTTGTTATTAT
1 TTTT-TTATTAT
20290533 GTCTATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 2 0.08
16 11 0.46
17 11 0.46
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.70
Consensus pattern (16 bp):
TTTTTTATTATATAAT
Found at i:20294673 original size:9 final size:9
Alignment explanation
Indices: 20294655--20294691 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
20294645 TATAGTTTGA
*
20294655 TATTCTAAT
1 TATTCGAAT
20294664 TATTCGAAT
1 TATTCGAAT
*
20294673 TATTCGAGT
1 TATTCGAAT
20294682 TATTCGAAT
1 TATTCGAAT
20294691 T
1 T
20294692 CGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:20295273 original size:19 final size:19
Alignment explanation
Indices: 20295248--20295287 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
20295238 TCTTTAGACC
*
20295248 AGAAAAAAAGAAGGAAAAGA
1 AGAAAAAAA-AAGAAAAAGA
20295268 AGAAAAAAAAAGAAAAAGA
1 AGAAAAAAAAAGAAAAAGA
20295287 A
1 A
20295288 AAAGACCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (19 bp):
AGAAAAAAAAAGAAAAAGA
Found at i:20295292 original size:22 final size:22
Alignment explanation
Indices: 20295250--20295292 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
20295240 TTTAGACCAG
* *
20295250 AAAAAAAGAAGGAAAAGAAGAA
1 AAAAAAAGAAGAAAAAAAAGAA
20295272 AAAAAAAGAA-AAAGAAAAAGA
1 AAAAAAAGAAGAAA-AAAAAGA
20295293 CCAAAGTCCC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (22 bp):
AAAAAAAGAAGAAAAAAAAGAA
Found at i:20300724 original size:20 final size:20
Alignment explanation
Indices: 20300699--20300741 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 20
20300689 ATATTATGAT
20300699 ATAATA-TGAATTTAATAAAA
1 ATAATATTGAATTTAA-AAAA
20300719 ATAATATTGAATTTAAAAAA
1 ATAATATTGAATTTAAAAAA
20300739 ATA
1 ATA
20300742 CAAAATCAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (20 bp):
ATAATATTGAATTTAAAAAA
Found at i:20303296 original size:6 final size:6
Alignment explanation
Indices: 20303285--20303309 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
20303275 TCTTTTCCCT
20303285 TTTATA TTTATA TTTATA TTTATA T
1 TTTATA TTTATA TTTATA TTTATA T
20303310 GTTGATAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTATA
Found at i:20308550 original size:38 final size:38
Alignment explanation
Indices: 20308440--20308550 Score: 87
Period size: 38 Copynumber: 3.1 Consensus size: 38
20308430 GCGAATTTTA
20308440 GGCCAGGCTATGTGGGCTACA-TGGGTAAGGCCAATCTG
1 GGCCAGGCTATGTGGGCTACACT-GGTAAGGCCAATCTG
* * * * *
20308478 GG-C--G---TGTGGGCCACACAGGCATGTG--AATTTTG
1 GGCCAGGCTATGTGGGCTACACTGGTAAG-GCCAA-TCTG
20308510 GGCCAGGCTATGTGGGCTACACTGGTAAGGCCAATCTG
1 GGCCAGGCTATGTGGGCTACACTGGTAAGGCCAATCTG
20308548 GGC
1 GGC
20308551 GTGTGGGCCA
Statistics
Matches: 52, Mismatches: 10, Indels: 22
0.62 0.12 0.26
Matches are distributed among these distances:
31 2 0.04
32 19 0.37
33 2 0.04
35 2 0.04
37 2 0.04
38 23 0.44
39 2 0.04
ACGTcount: A:0.20, C:0.22, G:0.37, T:0.22
Consensus pattern (38 bp):
GGCCAGGCTATGTGGGCTACACTGGTAAGGCCAATCTG
Found at i:20308571 original size:70 final size:70
Alignment explanation
Indices: 20308419--20308572 Score: 265
Period size: 70 Copynumber: 2.2 Consensus size: 70
20308409 ACAGGCATGT
*
20308419 CACACAGGCATGCGAATTTTAGGCCAGGCTATGTGGGCTACATGGGTAAGGCCAATCTGGGCGTG
1 CACACAGGCATGTGAATTTTAGGCCAGGCTATGTGGGCTACATGGGTAAGGCCAATCTGGGCGTG
20308484 TGGGC
66 TGGGC
*
20308489 CACACAGGCATGTGAATTTTGGGCCAGGCTATGTGGGCTACACT-GGTAAGGCCAATCTGGGCGT
1 CACACAGGCATGTGAATTTTAGGCCAGGCTATGTGGGCTACA-TGGGTAAGGCCAATCTGGGCGT
20308553 GTGGGC
65 GTGGGC
*
20308559 CACACGGGCATGTG
1 CACACAGGCATGTG
20308573 GGCCCATAAT
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
70 79 0.99
71 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.36, T:0.21
Consensus pattern (70 bp):
CACACAGGCATGTGAATTTTAGGCCAGGCTATGTGGGCTACATGGGTAAGGCCAATCTGGGCGTG
TGGGC
Found at i:20309041 original size:19 final size:20
Alignment explanation
Indices: 20309012--20309049 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
20309002 GGGTAGGATT
*
20309012 CTGTATATCTGAATTTGAAG
1 CTGTATATCTGAATCTGAAG
20309032 CTGT-TATCTGAATCTGAA
1 CTGTATATCTGAATCTGAA
20309050 TCTGAAACTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.39
Consensus pattern (20 bp):
CTGTATATCTGAATCTGAAG
Found at i:20310912 original size:25 final size:27
Alignment explanation
Indices: 20310875--20310928 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
20310865 TCAAACATGC
20310875 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
* **
20310901 ATTTCGGT-AATTTTGCACCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
20310927 AT
1 AT
20310929 AACAGTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACACCTAGGGGT
Found at i:20310936 original size:26 final size:27
Alignment explanation
Indices: 20310892--20310967 Score: 82
Period size: 26 Copynumber: 2.8 Consensus size: 27
20310882 TCAATTTAAC
* * *
20310892 CCTAGGGGTATTTCGGTAATTTTGC-A
1 CCTAGGGGTATTACAGTAATTTTCCAA
*
20310918 CCTAGGGGTATAACAGTAATTTTCCATA
1 CCTAGGGGTATTACAGTAATTTTCCA-A
* *
20310946 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATTACAGTAATTT
20310968 AGCTGCTTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 21 0.51
28 20 0.49
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (27 bp):
CCTAGGGGTATTACAGTAATTTTCCAA
Found at i:20312444 original size:26 final size:26
Alignment explanation
Indices: 20312414--20312547 Score: 232
Period size: 26 Copynumber: 5.2 Consensus size: 26
20312404 TGAAATGCCC
20312414 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
20312440 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
20312466 ATCATGGAACATTTACCTAACCTATT
1 ATCATGGAACATTTACCTAACCCATT
*
20312492 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
20312518 ATCATGGAACATTTACCTAACCTATT
1 ATCATGGAACATTTACCTAACCCATT
20312544 ATCA
1 ATCA
20312548 ATTTGTATCA
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 101 1.00
ACGTcount: A:0.37, C:0.25, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:20312486 original size:52 final size:52
Alignment explanation
Indices: 20312414--20312547 Score: 259
Period size: 52 Copynumber: 2.6 Consensus size: 52
20312404 TGAAATGCCC
*
20312414 ATCATGGAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCATT
20312466 ATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCATT
20312518 ATCATGGAACATTTACCTAACCTATTATCA
1 ATCATGGAACATTTACCTAACCTATTATCA
20312548 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 81 1.00
ACGTcount: A:0.37, C:0.25, G:0.06, T:0.32
Consensus pattern (52 bp):
ATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCATT
Found at i:20316722 original size:11 final size:11
Alignment explanation
Indices: 20316665--20316730 Score: 53
Period size: 11 Copynumber: 5.8 Consensus size: 11
20316655 AAGAACAAAA
20316665 AATAAAATAAGTT
1 AATAAAATAA--T
20316678 AATAAAAATAAT
1 AAT-AAAATAAT
* *
20316690 GATAACAT-AT
1 AATAAAATAAT
* *
20316700 AATGAAAGAAT
1 AATAAAATAAT
20316711 AATAAAATAAT
1 AATAAAATAAT
*
20316722 AATCAAATA
1 AATAAAATA
20316731 TGAAATATTA
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
10 6 0.14
11 23 0.55
12 3 0.07
13 3 0.07
14 7 0.17
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.26
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:20318677 original size:13 final size:13
Alignment explanation
Indices: 20318644--20318694 Score: 50
Period size: 13 Copynumber: 3.7 Consensus size: 13
20318634 TTGTCTACTT
*
20318644 TTTTTTTTTGGTTT
1 TTTTTTTTT-GTTA
20318658 TTGTTTTTCTTG-TA
1 TT-TTTTT-TTGTTA
20318672 TTTTTTTTTGTTA
1 TTTTTTTTTGTTA
20318685 TTTTATTTTT
1 TTTT-TTTTT
20318695 AATTTTTAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
12 3 0.09
13 11 0.34
14 10 0.31
15 6 0.19
16 2 0.06
ACGTcount: A:0.06, C:0.02, G:0.10, T:0.82
Consensus pattern (13 bp):
TTTTTTTTTGTTA
Found at i:20320866 original size:2 final size:2
Alignment explanation
Indices: 20320859--20320894 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
20320849 CATTGAAAGA
20320859 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20320895 GTAAGTGGAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20322345 original size:17 final size:15
Alignment explanation
Indices: 20322324--20322362 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
20322314 CCCAATTTTA
*
20322324 TTTTAAATTAGTTTTT
1 TTTTAAATTA-TTATT
20322340 TCTTTAAATTATTATT
1 T-TTTAAATTATTATT
20322356 TTTTAAA
1 TTTTAAA
20322363 AATATTGCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 6 0.29
16 6 0.29
17 9 0.43
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (15 bp):
TTTTAAATTATTATT
Found at i:20326440 original size:26 final size:26
Alignment explanation
Indices: 20326410--20326465 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
20326400 TGAAATGCCC
20326410 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
20326436 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
20326462 ATCA
1 ATCA
20326466 ATTTTATCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:20334396 original size:26 final size:26
Alignment explanation
Indices: 20334366--20334421 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
20334356 TGAAATGCCC
20334366 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
20334392 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
20334418 ATCA
1 ATCA
20334422 ATTTTTATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:20334428 original size:22 final size:23
Alignment explanation
Indices: 20334376--20334428 Score: 63
Period size: 26 Copynumber: 2.2 Consensus size: 23
20334366 ATCATGGAAC
20334376 ATTTACCTAACCCATTATCATGGAAT
1 ATTTACCTAACCCATTATC---GAAT
20334402 ATTTACCTAACCCATTATC-AAT
1 ATTTACCTAACCCATTATCGAAT
*
20334424 TTTTA
1 ATTTA
20334429 TCAATTTGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 7 0.27
26 19 0.73
ACGTcount: A:0.34, C:0.23, G:0.04, T:0.40
Consensus pattern (23 bp):
ATTTACCTAACCCATTATCGAAT
Found at i:20335613 original size:20 final size:20
Alignment explanation
Indices: 20335569--20335613 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
20335559 TCCTTAACAC
*
20335569 AATTTTAATTTTAAAATTTT
1 AATTTTAATTTTAAAATTTA
*
20335589 TATTTTAA-TTTATAAATTTA
1 AATTTTAATTTTA-AAATTTA
20335609 AATTT
1 AATTT
20335614 ATTAGTTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
AATTTTAATTTTAAAATTTA
Found at i:20335775 original size:11 final size:11
Alignment explanation
Indices: 20335761--20335788 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
20335751 ATAAATAAAA
20335761 TAAAATTTAAT
1 TAAAATTTAAT
20335772 TAAAATTTAAT
1 TAAAATTTAAT
20335783 TAAAAT
1 TAAAAT
20335789 AAATTTAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
TAAAATTTAAT
Found at i:20340649 original size:30 final size:31
Alignment explanation
Indices: 20340610--20340671 Score: 99
Period size: 30 Copynumber: 2.0 Consensus size: 31
20340600 GGTATTTATG
*
20340610 ATTTCTAAAATTAAAAA-TATTTTAAACTTT
1 ATTTCTAAAATTAAAAATTATTTTAAAATTT
*
20340640 ATTTTTAAAATTAAAAATTATTTTAAAATTT
1 ATTTCTAAAATTAAAAATTATTTTAAAATTT
20340671 A
1 A
20340672 GGGATAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 16 0.55
31 13 0.45
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (31 bp):
ATTTCTAAAATTAAAAATTATTTTAAAATTT
Found at i:20343697 original size:14 final size:14
Alignment explanation
Indices: 20343659--20343701 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
20343649 CAAAATGTAC
20343659 AATATAATTAAA-T
1 AATATAATTAAATT
20343672 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
20343687 AA-ATAATTTAATT
1 AATATAATTAAATT
20343700 AA
1 AA
20343702 CTGTTTACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:20346875 original size:30 final size:31
Alignment explanation
Indices: 20346815--20346875 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 31
20346805 TCCATATGTG
* * *
20346815 TATGTAAAAATTTAATTTCATAAATTATTAA
1 TATGAAAAAATTTAATATCATAAATAATTAA
20346846 TATGAAAAAATTT-ATATCAATAAA-AATTAA
1 TATGAAAAAATTTAATATC-ATAAATAATTAA
20346876 AAAATAGAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
30 9 0.35
31 17 0.65
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.39
Consensus pattern (31 bp):
TATGAAAAAATTTAATATCATAAATAATTAA
Found at i:20347624 original size:19 final size:19
Alignment explanation
Indices: 20347600--20347649 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 19
20347590 TTTGTGATCT
20347600 AAACTCTATCACCCTCTCA
1 AAACTCTATCACCCTCTCA
* *
20347619 AAACTCATATTATCCTCTCA
1 AAACTC-TATCACCCTCTCA
*
20347639 AAGCTCTATCA
1 AAACTCTATCA
20347650 AGTTCTTGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.34, C:0.34, G:0.02, T:0.30
Consensus pattern (19 bp):
AAACTCTATCACCCTCTCA
Found at i:20361501 original size:27 final size:27
Alignment explanation
Indices: 20361471--20361608 Score: 176
Period size: 27 Copynumber: 5.1 Consensus size: 27
20361461 ATGACGAAGT
20361471 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATATTGTGGCAGAGC
20361498 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
*
20361525 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
*
20361552 CACCAGA-AGAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
* *
20361579 CACCAGAT-TAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
20361606 CAC
1 CAC
20361609 TAGGACGCTT
Statistics
Matches: 99, Mismatches: 5, Indels: 14
0.84 0.04 0.12
Matches are distributed among these distances:
26 10 0.10
27 85 0.86
28 4 0.04
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.19
Consensus pattern (27 bp):
CACCAGATACAGATATTGTGGCAGAGC
Found at i:20361543 original size:54 final size:54
Alignment explanation
Indices: 20361471--20361608 Score: 233
Period size: 54 Copynumber: 2.6 Consensus size: 54
20361461 ATGACGAAGT
*
20361471 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
20361525 CACCAGATCAGATAATTGTGGCATAGCCACCAGAAGAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
20361579 CACCAGATTAGATAATTGTGGCATAGCCAC
1 CACCAGATCAGATAATTGTGGCATAGCCAC
20361609 TAGGACGCTT
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
53 5 0.06
54 75 0.94
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.19
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:20363258 original size:26 final size:26
Alignment explanation
Indices: 20363228--20363334 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
20363218 TGAAATTCCC
20363228 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
20363254 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
20363280 ATCATGAAACATTTACCT-ACCCATT
1 ATCATGGAACATTTACCTAACCCATT
20363305 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
20363331 ATCA
1 ATCA
20363335 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
25 24 0.31
26 54 0.69
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:20363315 original size:51 final size:52
Alignment explanation
Indices: 20363228--20363334 Score: 198
Period size: 51 Copynumber: 2.1 Consensus size: 52
20363218 TGAAATTCCC
*
20363228 ATCATGGAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCCATT
20363280 ATCATGAAACATTTACCT-ACCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCCATT
20363331 ATCA
1 ATCA
20363335 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
51 37 0.69
52 17 0.31
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.31
Consensus pattern (52 bp):
ATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCCATT
Found at i:20368609 original size:27 final size:27
Alignment explanation
Indices: 20368561--20368716 Score: 196
Period size: 27 Copynumber: 5.8 Consensus size: 27
20368551 GCGAGGCTGC
* *
20368561 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
20368588 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
20368614 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
20368641 CAGATAATTGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
20368668 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
20368695 CAGATAATTGTGGCATAGCCAC
1 CAGAT-ATTGTGGCAGAGCCAC
20368717 TAGGACGCTT
Statistics
Matches: 116, Mismatches: 5, Indels: 16
0.85 0.04 0.12
Matches are distributed among these distances:
26 10 0.09
27 101 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:20368651 original size:54 final size:54
Alignment explanation
Indices: 20368579--20368716 Score: 251
Period size: 54 Copynumber: 2.6 Consensus size: 54
20368569 GTGACGAAGT
*
20368579 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
20368633 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
20368687 CACCAGATCAGATAATTGTGGCATAGCCAC
1 CACCAGATCAGATAATTGTGGCATAGCCAC
20368717 TAGGACGCTT
Statistics
Matches: 82, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
53 5 0.06
54 77 0.94
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:20370372 original size:26 final size:26
Alignment explanation
Indices: 20370336--20370416 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
20370326 TGAAATTCCC
20370336 ATCAT-GAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
20370361 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
20370387 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
20370413 ATCA
1 ATCA
20370417 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
25 5 0.09
26 50 0.91
ACGTcount: A:0.36, C:0.27, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:20373069 original size:18 final size:17
Alignment explanation
Indices: 20373043--20373095 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 17
20373033 CTGAGTTTTT
20373043 TTTTTAAATTTATTAA-A
1 TTTTTAAATTT-TTAATA
20373060 TTTATTAAATTTTTAATA
1 TTT-TTAAATTTTTAATA
*
20373078 TTTTTAATAATTTTAATA
1 TTTTTAA-ATTTTTAATA
20373096 AGACTAATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
17 11 0.34
18 21 0.66
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTTTAAATTTTTAATA
Found at i:20373086 original size:9 final size:8
Alignment explanation
Indices: 20373043--20373084 Score: 57
Period size: 9 Copynumber: 4.9 Consensus size: 8
20373033 CTGAGTTTTT
20373043 TTTTTAAA
1 TTTTTAAA
20373051 TTTATTAAA
1 TTT-TTAAA
20373060 TTTATTAAA
1 TTT-TTAAA
20373069 TTTTTAATA
1 TTTTTAA-A
20373078 TTTTTAA
1 TTTTTAA
20373085 TAATTTTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
8 7 0.22
9 25 0.78
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TTTTTAAA
Found at i:20379092 original size:26 final size:26
Alignment explanation
Indices: 20379036--20379168 Score: 223
Period size: 26 Copynumber: 5.2 Consensus size: 26
20379026 TGAAATGCCC
20379036 ATCATGGAACATTTACCTAA-CCATT
1 ATCATGGAACATTTACCTAACCCATT
20379061 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
20379087 ATCATGGAACATTTACCTAACCTATT
1 ATCATGGAACATTTACCTAACCCATT
20379113 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
20379139 GTCATGAAACATTTACCAAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
20379165 ATCA
1 ATCA
20379169 ATTTTCATCA
Statistics
Matches: 101, Mismatches: 6, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
25 20 0.20
26 81 0.80
ACGTcount: A:0.36, C:0.26, G:0.08, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:20387770 original size:2 final size:2
Alignment explanation
Indices: 20387763--20387806 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
20387753 CACTCTACTT
20387763 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
20387805 TA
1 TA
20387807 ACGGATTTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:20391495 original size:28 final size:29
Alignment explanation
Indices: 20391446--20391505 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 29
20391436 TCAATTAAAA
*
20391446 AACCCTAAACCTTAAAAAATTAAAACTCT
1 AACCCTAAACCTTAAAAAATTAAAACCCT
* *
20391475 AACCCT-ACCCTTAAAATATTAAAACCCT
1 AACCCTAAACCTTAAAAAATTAAAACCCT
20391503 AAC
1 AAC
20391506 ATTAAAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 22 0.79
29 6 0.21
ACGTcount: A:0.48, C:0.28, G:0.00, T:0.23
Consensus pattern (29 bp):
AACCCTAAACCTTAAAAAATTAAAACCCT
Found at i:20391520 original size:22 final size:22
Alignment explanation
Indices: 20391475--20391519 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
20391465 TTAAAACTCT
* *
20391475 AACCCTACCCTTAAAATATTAA
1 AACCCTAACATTAAAATATTAA
20391497 AACCCTAACATTAAAA-ATTAA
1 AACCCTAACATTAAAATATTAA
20391518 AA
1 AA
20391520 AAACTAATCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.53, C:0.22, G:0.00, T:0.24
Consensus pattern (22 bp):
AACCCTAACATTAAAATATTAA
Found at i:20393391 original size:65 final size:65
Alignment explanation
Indices: 20393287--20393413 Score: 236
Period size: 65 Copynumber: 2.0 Consensus size: 65
20393277 GTTAGGTGTA
*
20393287 TTGAAGATAATTCATTGTTATAATCAAAGAAATTAATCATTGTTTTTGTTATTTGTAAAACTGTG
1 TTGAAGATAATTCATTGTTATAATCAAAGAAATTAATCATTGTTTTTGTTAATTGTAAAACTGTG
*
20393352 TTGAAGATAATTCATTGTTATAATCAAAGAAATTGATCATTGTTTTTGTTAATTGTAAAACT
1 TTGAAGATAATTCATTGTTATAATCAAAGAAATTAATCATTGTTTTTGTTAATTGTAAAACT
20393414 ATGCAGAGTA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 60 1.00
ACGTcount: A:0.36, C:0.06, G:0.13, T:0.44
Consensus pattern (65 bp):
TTGAAGATAATTCATTGTTATAATCAAAGAAATTAATCATTGTTTTTGTTAATTGTAAAACTGTG
Found at i:20398181 original size:16 final size:16
Alignment explanation
Indices: 20398160--20398196 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
20398150 TGAGTCAAAT
20398160 TTTTCGACATAGTGAA
1 TTTTCGACATAGTGAA
20398176 TTTTCGACATAGTGAA
1 TTTTCGACATAGTGAA
20398192 TTTTC
1 TTTTC
20398197 TTCTCCTCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.43
Consensus pattern (16 bp):
TTTTCGACATAGTGAA
Found at i:20399835 original size:30 final size:30
Alignment explanation
Indices: 20399792--20399911 Score: 129
Period size: 30 Copynumber: 3.9 Consensus size: 30
20399782 AGAATTAATC
* *
20399792 ACATTAATGTTAAATTAAATAATATTATCA
1 ACATAAATATTAAATTAAATAATATTATCA
* *
20399822 AGATAAATATTAAATTAAATTTAATA-TCTC-
1 ACATAAATATTAAATTAAA--TAATATTATCA
20399852 ACATAAATATTAAATT-AATAATATATTATCA
1 ACATAAATATTAAATTAAAT-A-ATATTATCA
*
20399883 ATATAAATATTAAATTAAAATAATATTAT
1 ACATAAATATTAAATT-AAATAATATTAT
20399912 TTTTGGAAAA
Statistics
Matches: 75, Mismatches: 7, Indels: 15
0.77 0.07 0.15
Matches are distributed among these distances:
27 1 0.01
28 1 0.01
29 5 0.07
30 34 0.45
31 25 0.33
32 6 0.08
33 3 0.04
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (30 bp):
ACATAAATATTAAATTAAATAATATTATCA
Found at i:20403886 original size:10 final size:11
Alignment explanation
Indices: 20403867--20403899 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
20403857 TTGATATGTT
20403867 AATGAAGAGAA
1 AATGAAGAGAA
20403878 AAT-AAGAGAA
1 AATGAAGAGAA
*
20403888 AGTGAAGAGAA
1 AATGAAGAGAA
20403899 A
1 A
20403900 TAGTGTAGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.64, C:0.00, G:0.27, T:0.09
Consensus pattern (11 bp):
AATGAAGAGAA
Found at i:20405680 original size:46 final size:45
Alignment explanation
Indices: 20405627--20405862 Score: 319
Period size: 46 Copynumber: 5.2 Consensus size: 45
20405617 ATAAAATGTG
* * *
20405627 TAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAACGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAATGAA
20405673 TAAGACCATGGTTGAAAGATACCATGGCAACATGACGAGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGAC-AGAAATGAA
* *
20405719 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAATGAA
*
20405765 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAG-AAATGAA
* * * * * * *
20405811 TAAGACCATAGTTGAAAGACACTATGGCATCATGTCAAAAATAAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAATGAA
20405856 TAAGACC
1 TAAGACC
20405863 GTGGATGGGA
Statistics
Matches: 171, Mismatches: 16, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
45 14 0.08
46 156 0.91
47 1 0.01
ACGTcount: A:0.44, C:0.16, G:0.22, T:0.19
Consensus pattern (45 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAATGAA
Found at i:20405777 original size:92 final size:92
Alignment explanation
Indices: 20405627--20405839 Score: 356
Period size: 92 Copynumber: 2.3 Consensus size: 92
20405617 ATAAAATGTG
* *
20405627 TAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAACGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGA
20405692 TACCATGGCAACATGAC-GAGAAATGAA
66 TACCATGGCAACATGACAGA-AAATGAA
20405719 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGA
*
20405784 TACCATGGCAACATGACAGAAAATGAG
66 TACCATGGCAACATGACAGAAAATGAA
* * *
20405811 TAAGACCATAGTTGAAAGACACTATGGCA
1 TAAGACCATGGTTGAAAGATACCATGGCA
20405840 TCATGTCAAA
Statistics
Matches: 114, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
92 112 0.98
93 2 0.02
ACGTcount: A:0.43, C:0.15, G:0.23, T:0.18
Consensus pattern (92 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGA
TACCATGGCAACATGACAGAAAATGAA
Found at i:20408324 original size:32 final size:34
Alignment explanation
Indices: 20408258--20408325 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 34
20408248 AAGTAAGGAT
**
20408258 AAATATTGTATAATAATAATAAAAAAGTTTTAAA
1 AAATATTGTATAATAATAATAAAAAAGTAATAAA
20408292 AAATATATGTATAAT-ATAA-AAAAAA-TAATAAA
1 AAATAT-TGTATAATAATAATAAAAAAGTAATAAA
20408324 AA
1 AA
20408326 TGTGATATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
32 7 0.23
33 6 0.19
34 10 0.32
35 8 0.26
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (34 bp):
AAATATTGTATAATAATAATAAAAAAGTAATAAA
Found at i:20408609 original size:24 final size:25
Alignment explanation
Indices: 20408577--20408626 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
20408567 TAATAATAGA
*
20408577 ATATAAATAAAAATAATTAT-TAAT
1 ATATAAATAAAAATAAATATATAAT
*
20408601 ATATAAATAAAGATAAATATATAAT
1 ATATAAATAAAAATAAATATATAAT
20408626 A
1 A
20408627 CAAGTTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 18 0.78
25 5 0.22
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (25 bp):
ATATAAATAAAAATAAATATATAAT
Found at i:20408655 original size:3 final size:3
Alignment explanation
Indices: 20408642--20408867 Score: 65
Period size: 3 Copynumber: 71.3 Consensus size: 3
20408632 TTAAAACTTT
* * * * *
20408642 TAA TGA TAA TAA TATA TACA TAA AAA TGTA TAA TAA T-A TAA AAA TGACT
1 TAA TAA TAA TAA TA-A TA-A TAA TAA T-AA TAA TAA TAA TAA TAA T-A-A
* **
20408691 TAA TAA TATA TAAA TAA TTA TAA TATA TAA T-A TAA -AA GCA T-A TATA
1 TAA TAA TA-A T-AA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TA-A
*
20408737 TAA AAA TAA TATA TAA TATA TAA TAA -ACA T-A TAA T-A TAA TAA TAA
1 TAA TAA TAA TA-A TAA TA-A TAA TAA TA-A TAA TAA TAA TAA TAA TAA
* ** ** *
20408782 TATA TAAA TAA TGA TGT TAAA TAA TAA TAA GTTG TGAA AAA TAA TATA
1 TA-A T-AA TAA TAA TAA T-AA TAA TAA TAA -TAA T-AA TAA TAA TA-A
20408830 TAA TAAA TAA TAA T-A TAAA TAA TATA TAA TAA -AA TAA T
1 TAA T-AA TAA TAA TAA T-AA TAA TA-A TAA TAA TAA TAA T
20408868 TTTATAATAT
Statistics
Matches: 167, Mismatches: 27, Indels: 58
0.66 0.11 0.23
Matches are distributed among these distances:
2 17 0.10
3 104 0.62
4 43 0.26
5 3 0.02
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:20408694 original size:19 final size:18
Alignment explanation
Indices: 20408672--20408756 Score: 59
Period size: 19 Copynumber: 4.6 Consensus size: 18
20408662 TAAAAATGTA
*
20408672 TAATAATATAAAAATGACT
1 TAATAATATAAAAAT-AAT
*
20408691 TAATAATATATAAATAAT
1 TAATAATATAAAAATAAT
*
20408709 T-ATAATATATAATATAA-
1 TAATAATATA-AAAATAAT
*
20408726 AAGCATATATATAAAAATAA-
1 TA--ATA-ATATAAAAATAAT
20408746 TATATAATATA
1 TA-ATAATATA
20408757 TAATAAACAT
Statistics
Matches: 53, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
17 8 0.15
18 13 0.25
19 17 0.32
20 10 0.19
21 5 0.09
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (18 bp):
TAATAATATAAAAATAAT
Found at i:20408696 original size:22 final size:20
Alignment explanation
Indices: 20408643--20408727 Score: 77
Period size: 21 Copynumber: 4.0 Consensus size: 20
20408633 TAAAACTTTT
20408643 AATGATAATAATATATACATAAA
1 AATGATAATAATA-AT--ATAAA
20408666 AATG-T-ATAATAATATAAA
1 AATGATAATAATAATATAAA
20408684 AATGACTTAATAAT-ATATAAA
1 AATGA--TAATAATAATATAAA
*
20408705 TAATTATAATATATAATATAAA
1 -AATGATAATA-ATAATATAAA
20408727 A
1 A
20408728 GCATATATAT
Statistics
Matches: 54, Mismatches: 1, Indels: 16
0.76 0.01 0.23
Matches are distributed among these distances:
18 9 0.17
20 7 0.13
21 17 0.31
22 17 0.31
23 4 0.07
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (20 bp):
AATGATAATAATAATATAAA
Found at i:20408721 original size:43 final size:40
Alignment explanation
Indices: 20408647--20408761 Score: 110
Period size: 43 Copynumber: 2.8 Consensus size: 40
20408637 ACTTTTAATG
* ** *
20408647 ATAATAATATATACATAAAAAT-GTATAATAATATAAAAATGAC
1 ATAATAATATATAAATAATTATAATAT-ATAATAT-AAAA-G-C
*
20408690 TTAATAATATATAAATAATTATAATATATAATATAAAAGC
1 ATAATAATATATAAATAATTATAATATATAATATAAAAGC
*
20408730 AT-AT-ATATAAAAATAATATATAATATATAATA
1 ATAATAATATATAAATAAT-TATAATATATAATA
20408762 AACATATAAT
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
38 12 0.19
39 16 0.25
40 2 0.03
41 1 0.02
42 4 0.06
43 25 0.40
44 3 0.05
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (40 bp):
ATAATAATATATAAATAATTATAATATATAATATAAAAGC
Found at i:20408749 original size:25 final size:25
Alignment explanation
Indices: 20408715--20408775 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
20408705 TAATTATAAT
20408715 ATATAATATAAAAGCATATATATAAA-
1 ATATAATATAAAA-CATATA-ATAAAC
* *
20408741 A-ATAATATATAATATATAATAAAC
1 ATATAATATAAAACATATAATAAAC
20408765 ATATAATATAA
1 ATATAATATAA
20408776 TAATAATATA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 5 0.17
24 6 0.20
25 18 0.60
26 1 0.03
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (25 bp):
ATATAATATAAAACATATAATAAAC
Found at i:20408774 original size:36 final size:33
Alignment explanation
Indices: 20408710--20408791 Score: 112
Period size: 36 Copynumber: 2.4 Consensus size: 33
20408700 ATAAATAATT
*
20408710 ATAATATAT-AATATAAAAGCATATATATAAAA
1 ATAATATATAAATATAAAAACATATATATAAAA
*
20408742 ATAATATATAATATATAATAAACATATAATATAATA
1 ATAATATATAA-ATATAA-AAACATAT-ATATAAAA
20408778 ATAATATATAAATA
1 ATAATATATAAATA
20408792 ATGATGTTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
32 9 0.20
33 1 0.02
34 6 0.14
35 10 0.23
36 18 0.41
ACGTcount: A:0.62, C:0.02, G:0.01, T:0.34
Consensus pattern (33 bp):
ATAATATATAAATATAAAAACATATATATAAAA
Found at i:20408782 original size:85 final size:81
Alignment explanation
Indices: 20408691--20408888 Score: 210
Period size: 80 Copynumber: 2.5 Consensus size: 81
20408681 AAAAATGACT
* *
20408691 TAATAATATATAAATAATTATAATATATAATATAAAAGCATATATATAAAAATAATATATAATAT
1 TAATAATATATAAATAATTATAATATATAATATAAAAG--T-TAT-GAAAAATAATATATAATAA
*
20408756 ATAATAA-ACATATAATATAA
62 ATAATAATACAAATAATAT-A
* ** * * *
20408776 TAATAATATATAAATAATGATGTTAAATAATA-ATAAGTTGTGAAAAATAATATATAATAAATAA
1 TAATAATATATAAATAATTATAATATATAATATAAAAGTTATGAAAAATAATATATAATAAATAA
*
20408840 TAATATAAATAATATA
66 TAATACAAATAATATA
*
20408856 TAATAA-A-AT-AAT-TTTATAATATATAATATAAAA
1 TAATAATATATAAATAATTATAATATATAATATAAAA
20408889 ATAAGGTTAA
Statistics
Matches: 95, Mismatches: 16, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
76 11 0.12
77 6 0.06
78 2 0.02
79 1 0.01
80 31 0.33
81 11 0.12
82 1 0.01
84 4 0.04
85 28 0.29
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (81 bp):
TAATAATATATAAATAATTATAATATATAATATAAAAGTTATGAAAAATAATATATAATAAATAA
TAATACAAATAATATA
Found at i:20408903 original size:99 final size:94
Alignment explanation
Indices: 20408730--20408904 Score: 232
Period size: 99 Copynumber: 1.8 Consensus size: 94
20408720 ATATAAAAGC
*
20408730 ATATATATAAAAATAATATATAATATATAATAAACATATAATATAATAATAATATATAAATAATG
1 ATATATATAAAAATAATATATAATATATAATAAACATATAATATAATAATAATATAAAAATAATG
20408795 ATGTTAAATAATAATAAGTTGTGAAAAATA
66 A-GTTAAATAATAATAAGTTGTGAAAAATA
**
20408825 ATATATAATAAATAATAATATAAATAATATATAATAAA-ATAATTTTATAATATATAATATAAAA
1 ATATAT-ATAAA-AATAATAT--ATAATATATAATAAACAT-ATAATATAATA-ATAATATAAAA
20408889 ATAA-G-GTTAAA-AATAA
60 ATAATGAGTTAAATAATAA
20408905 AACAAATAAC
Statistics
Matches: 71, Mismatches: 3, Indels: 11
0.84 0.04 0.13
Matches are distributed among these distances:
95 6 0.08
96 10 0.14
97 14 0.20
98 2 0.03
99 25 0.35
100 14 0.20
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.35
Consensus pattern (94 bp):
ATATATATAAAAATAATATATAATATATAATAAACATATAATATAATAATAATATAAAAATAATG
AGTTAAATAATAATAAGTTGTGAAAAATA
Found at i:20410854 original size:210 final size:208
Alignment explanation
Indices: 20410425--20411192 Score: 1001
Period size: 210 Copynumber: 3.7 Consensus size: 208
20410415 AAATCTGCTT
* * * * *
20410425 CTTCGATTTGTTCTCTGATAACACAAAGATGCCAAATTATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAAAGATGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
* * * ** ** * * **
20410490 GTGAAAGACAAATCAGCTATGTCTTCGATTTTTTCCTTG--TAAGCACA-AG-GAT--G-TCAAA
66 GTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCCGCCGAA-TACAGAGAGATAAGATC-TG
* * * * * *
20410548 TCATCTTAGATCTTGCTTCAGTCTAATCGTCTGAAGGTTAGATCTGCTGTGTATCTGCTCTCCAT
129 TCATCTTGGATC-TGCTTCAG-CTAAACATCTGAAGGTAAGATCTGCTATGTGTCTG-TCTCCAT
20410613 TGAAGTGGAGATGCCAGA
191 TGAAGTGGAGATGCCAGA
20410631 CTTCGATTTGTTCTCTGACAATACAAAGATGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAAAGATGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
* * *
20410696 GTGAAAGCCAAATGAGCTATGTCTTCGATCTGCTCCCTGCCGAATACAGAGAGATAAGATCTGTC
66 GTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCCGCCGAATACAGAGAGATAAGATCTGTC
* *
20410761 CTCTTGGATCTGCTTCAGCATAAACATCTGAAGGTGAGATCTGCTATGTGTCTGTTCTCCATTGA
131 ATCTTGGATCTGCTTCAGC-TAAACATCTGAAGGTAAGATCTGCTATGTGTCTG-TCTCCATTGA
20410826 AGTGGAGATGCCAGA
194 AGTGGAGATGCCAGA
* * *
20410841 CTTCGATTTGTTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTTCTTTATCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAAAGATGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
*
20410906 GTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCCGCCAAATACAGAGAGATAAGATCTGTC
66 GTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCCGCCGAATACAGAGAGATAAGATCTGTC
* * * * **
20410971 ATCTTGGATCTACTTCAGCGTAAACATCTAAAAGTAAGATCTGCTATGTGTCTGCCTTCCATCAA
131 ATCTTGGATCTGCTTCAGC-TAAACATCTGAAGGTAAGATCTGCTATGTGTCTGTC-TCCATTGA
*
20411036 AGTGGAAATGCCAGA
194 AGTGGAGATGCCAGA
* * * **
20411051 CTTCGATTTGTTTTCTAACAATACAGAGACAACAAATCATCTTAGATTTGCTTCATCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAAAGATGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
* *
20411116 GTGAAATCCAAATCAGCTATATCTTTGATCTGCTCCCCGCCGAATACAGAGAGATAAGATCTGTC
66 GTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCCGCCGAATACAGAGAGATAAGATCTGTC
20411181 ATCTTGGATCTG
131 ATCTTGGATCTG
20411193 TCCTGATGAA
Statistics
Matches: 503, Mismatches: 50, Indels: 14
0.89 0.09 0.02
Matches are distributed among these distances:
206 93 0.18
207 3 0.01
208 4 0.01
209 5 0.01
210 385 0.77
211 11 0.02
212 2 0.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.31
Consensus pattern (208 bp):
CTTCGATTTGTTCTCTGACAATACAAAGATGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
GTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCCGCCGAATACAGAGAGATAAGATCTGTC
ATCTTGGATCTGCTTCAGCTAAACATCTGAAGGTAAGATCTGCTATGTGTCTGTCTCCATTGAAG
TGGAGATGCCAGA
Found at i:20419257 original size:15 final size:15
Alignment explanation
Indices: 20419215--20419264 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
20419205 ATAACTTTGA
*
20419215 ATGCAAATG-ATGTG
1 ATGCAAATGCATGAG
20419229 ATG-AAATGCTATGAG
1 ATGCAAATGC-ATGAG
20419244 ATGCAAATGCATGA-
1 ATGCAAATGCATGAG
20419258 ATGCAAA
1 ATGCAAA
20419265 GAAAGAATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.31
15 11 0.34
16 6 0.19
ACGTcount: A:0.42, C:0.10, G:0.24, T:0.24
Consensus pattern (15 bp):
ATGCAAATGCATGAG
Done.