Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 82 of 205
Found at i:24358707 original size:35 final size:35
Alignment explanation
Indices: 24358657--24358725 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
24358647 TTGTAAGCTC
*
24358657 GCATCATTCGTTTCTGATACATTTGGCCATGACGT
1 GCATCATTCGCTTCTGATACATTTGGCCATGACGT
24358692 GCATCATTCGCTTCTGATACATTTGGCCATGACG
1 GCATCATTCGCTTCTGATACATTTGGCCATGACG
24358726 AATGGCTTTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (35 bp):
GCATCATTCGCTTCTGATACATTTGGCCATGACGT
Found at i:24361720 original size:22 final size:22
Alignment explanation
Indices: 24361695--24361737 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
24361685 ATTTCAGTTC
24361695 CAATTTTCACCTCA-TTCCCTTT
1 CAATTTTCACCT-ATTTCCCTTT
24361717 CAATTTTCACCTATTTCCCTT
1 CAATTTTCACCTATTTCCCTT
24361738 CTTCCAGGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 1 0.05
22 19 0.95
ACGTcount: A:0.19, C:0.35, G:0.00, T:0.47
Consensus pattern (22 bp):
CAATTTTCACCTATTTCCCTTT
Found at i:24362115 original size:140 final size:141
Alignment explanation
Indices: 24361863--24362144 Score: 548
Period size: 140 Copynumber: 2.0 Consensus size: 141
24361853 ATGCGATCCC
24361863 TCTAAACACACGTTTCGTTCAAAAGGGCATTCTAAGCTCGTAACAGTGTCATTCACGTCATTGAT
1 TCTAAACACACGTTTCGTTCAAAAGGGCATTCTAAGCTCGTAACAGTGTCATTCACGTCATTGAT
24361928 ACACAGAGACCTATTATGGTTACAAAAGAATGTATGAATTTATGTACAATTTA-TTATGTAATGA
66 ACACAGAGACCTATTATGGTTACAAAAGAATGTATGAATTTATGTACAATTTATTTATGTAATGA
24361992 AAGAATATATT
131 AAGAATATATT
*
24362003 TCTAAACACACGTTTCGTTCAAAAGGGCATTCTAAGCTCGTAACAGTGTCGTTCACGTCATTGAT
1 TCTAAACACACGTTTCGTTCAAAAGGGCATTCTAAGCTCGTAACAGTGTCATTCACGTCATTGAT
24362068 ACACAGAGACCTATTATGGTTACAAAAGAATGTATGAATTTATGTACAATTTATTTATGTAATGA
66 ACACAGAGACCTATTATGGTTACAAAAGAATGTATGAATTTATGTACAATTTATTTATGTAATGA
24362133 AAGAATATATT
131 AAGAATATATT
24362144 T
1 T
24362145 TAGGCGTATG
Statistics
Matches: 140, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
140 117 0.84
141 23 0.16
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (141 bp):
TCTAAACACACGTTTCGTTCAAAAGGGCATTCTAAGCTCGTAACAGTGTCATTCACGTCATTGAT
ACACAGAGACCTATTATGGTTACAAAAGAATGTATGAATTTATGTACAATTTATTTATGTAATGA
AAGAATATATT
Found at i:24367574 original size:41 final size:41
Alignment explanation
Indices: 24367508--24367588 Score: 144
Period size: 41 Copynumber: 2.0 Consensus size: 41
24367498 TCAGCCAAAC
*
24367508 TATCACCCTTTTCTTACTGCGTTGTCTCAGACCAAGTTTGT
1 TATCACCCTTTTCTTACTGCATTGTCTCAGACCAAGTTTGT
*
24367549 TATCACCCTTTTCTTGCTGCATTGTCTCAGACCAAGTTTG
1 TATCACCCTTTTCTTACTGCATTGTCTCAGACCAAGTTTG
24367589 AACAGCCGCA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.17, C:0.27, G:0.15, T:0.41
Consensus pattern (41 bp):
TATCACCCTTTTCTTACTGCATTGTCTCAGACCAAGTTTGT
Found at i:24368754 original size:98 final size:98
Alignment explanation
Indices: 24368633--24368825 Score: 332
Period size: 98 Copynumber: 2.0 Consensus size: 98
24368623 ATATAAAAAT
*
24368633 TTTAAAAGAACATCCACTCATCCAAGATTTAAGAAACCACACCCAATACGTTAGGGCACGATCCC
1 TTTAAAAGAACATCCACTCATCCAAGATTTAAGAAACCACACCCAATACGTTAGGGCACAATCCC
*
24368698 TTTAGAATCCCAAACTCGGAATATTTCCTTTAC
66 TTTAGAATCCCAAACTCGAAATATTTCCTTTAC
* * *
24368731 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
1 TTTAAAAGAACATCCACTCATCCAAGATTTAAGAAACCACACCCAATACGTTAGGGCACAATCCC
*
24368796 TTTAGAATCTCAAACTCGAAATATTTCCTT
66 TTTAGAATCCCAAACTCGAAATATTTCCTT
24368826 CATGATTTTT
Statistics
Matches: 89, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 89 1.00
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.27
Consensus pattern (98 bp):
TTTAAAAGAACATCCACTCATCCAAGATTTAAGAAACCACACCCAATACGTTAGGGCACAATCCC
TTTAGAATCCCAAACTCGAAATATTTCCTTTAC
Found at i:24369104 original size:12 final size:12
Alignment explanation
Indices: 24369087--24369111 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24369077 AACGAGCAAC
24369087 ATAATATAAATG
1 ATAATATAAATG
24369099 ATAATATAAATG
1 ATAATATAAATG
24369111 A
1 A
24369112 AAGCACAAAT
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:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (12 bp):
ATAATATAAATG
Found at i:24370622 original size:14 final size:14
Alignment explanation
Indices: 24370603--24370635 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
24370593 GCCATGTTTG
24370603 TTTGGGCCACTGAA
1 TTTGGGCCACTGAA
24370617 TTTGGGCCACTGAA
1 TTTGGGCCACTGAA
24370631 TTTGG
1 TTTGG
24370636 TTTTGGGCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.18, C:0.18, G:0.30, T:0.33
Consensus pattern (14 bp):
TTTGGGCCACTGAA
Found at i:24376926 original size:150 final size:150
Alignment explanation
Indices: 24376655--24376955 Score: 566
Period size: 150 Copynumber: 2.0 Consensus size: 150
24376645 TATTCCAAAT
*
24376655 ATTCGAACTAAGTTTTTATACAACAAAACCAATTTACACATGTCTCATATTTACAAAATTTAAAC
1 ATTCGAACTAAGTTGTTATACAACAAAACCAATTTACACATGTCTCATATTTACAAAATTTAAAC
24376720 CATACAGCTATCAAATATATGACATTCGATCTCTTAAATTAAAACTAGGTATGTATCATTTCATA
66 CATACAGCTATCAAATATATGACATTCGATCTCTTAAATTAAAACTAGGTATGTATCATTTCATA
24376785 TACCAAACGCATATACCACC
131 TACCAAACGCATATACCACC
*
24376805 ATTCGAACTAAGTTGTTATACAACAAAACCAATTTACACATGTCTCATATTTACAAGATTTAAAC
1 ATTCGAACTAAGTTGTTATACAACAAAACCAATTTACACATGTCTCATATTTACAAAATTTAAAC
* *
24376870 CATATAGCTATCAAATATATGACATTCGATCTCTTAAATTACAACTAGGTATGTATCATTTCATA
66 CATACAGCTATCAAATATATGACATTCGATCTCTTAAATTAAAACTAGGTATGTATCATTTCATA
24376935 TACCAAACGCATATACCACC
131 TACCAAACGCATATACCACC
24376955 A
1 A
24376956 CAATAAGTTG
Statistics
Matches: 147, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
150 147 1.00
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.32
Consensus pattern (150 bp):
ATTCGAACTAAGTTGTTATACAACAAAACCAATTTACACATGTCTCATATTTACAAAATTTAAAC
CATACAGCTATCAAATATATGACATTCGATCTCTTAAATTAAAACTAGGTATGTATCATTTCATA
TACCAAACGCATATACCACC
Found at i:24378846 original size:42 final size:44
Alignment explanation
Indices: 24378789--24378899 Score: 122
Period size: 42 Copynumber: 2.6 Consensus size: 44
24378779 AAATATCAAT
* *
24378789 GCCACTGTCCCAGACAGGGTCTTACACG-AAATCGT-ATA-CGAC
1 GCCAATGTCCCAGACAGGGTCTTACACGTAAATC-TCAAATCGAC
* * *
24378831 GCCGATGTCCCAGACATGGTCTTATACGTAAATCTCAAATCGAC
1 GCCAATGTCCCAGACAGGGTCTTACACGTAAATCTCAAATCGAC
*
24378875 GCCAACGTCCCAGAC-GTGGTCTTAC
1 GCCAATGTCCCAGACAG-GGTCTTAC
24378900 GGGATAACTC
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
42 25 0.45
43 7 0.12
44 24 0.43
ACGTcount: A:0.27, C:0.31, G:0.21, T:0.22
Consensus pattern (44 bp):
GCCAATGTCCCAGACAGGGTCTTACACGTAAATCTCAAATCGAC
Found at i:24378888 original size:44 final size:42
Alignment explanation
Indices: 24378795--24378899 Score: 122
Period size: 44 Copynumber: 2.5 Consensus size: 42
24378785 CAATGCCACT
* * * *
24378795 GTCCCAGACAGGGTCTTACACGAAATCGTATACGACGCCGAT
1 GTCCCAGACATGGTCTTACACGAAATCGTAAACGACGCCAAC
*
24378837 GTCCCAGACATGGTCTTATACGTAAATC-TCAAATCGACGCCAAC
1 GTCCCAGACATGGTCTTACACG-AAATCGT-AAA-CGACGCCAAC
*
24378881 GTCCCAGACGTGGTCTTAC
1 GTCCCAGACATGGTCTTAC
24378900 GGGATAACTC
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
42 21 0.40
43 7 0.13
44 25 0.47
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.22
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACACGAAATCGTAAACGACGCCAAC
Found at i:24380506 original size:17 final size:18
Alignment explanation
Indices: 24380477--24380513 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
24380467 GCCCACATGT
24380477 CCGTGTGGGCCCAAACGC
1 CCGTGTGGGCCCAAACGC
*
24380495 CCGTGT-GGCCCATACGC
1 CCGTGTGGGCCCAAACGC
24380512 CC
1 CC
24380514 AAATTGGCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.14, C:0.43, G:0.30, T:0.14
Consensus pattern (18 bp):
CCGTGTGGGCCCAAACGC
Found at i:24384422 original size:24 final size:24
Alignment explanation
Indices: 24384395--24384443 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
24384385 TCACAGAGTC
24384395 AGCTCCTCAATTGATAGAATAGCT
1 AGCTCCTCAATTGATAGAATAGCT
24384419 AGCTCCTCAATTGATAGAATAGCT
1 AGCTCCTCAATTGATAGAATAGCT
24384443 A
1 A
24384444 CATACCCGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (24 bp):
AGCTCCTCAATTGATAGAATAGCT
Found at i:24386264 original size:17 final size:18
Alignment explanation
Indices: 24386213--24386264 Score: 52
Period size: 20 Copynumber: 2.8 Consensus size: 18
24386203 TATTAAAAAA
24386213 TAATTAAATAATAAATAAG
1 TAATTAAA-AATAAATAAG
* *
24386232 TAATTTTAATACTAAATAAG
1 TAA--TTAAAAATAAATAAG
24386252 T-ATTAAAAATAAA
1 TAATTAAAAATAAA
24386265 AAATATTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
17 9 0.33
19 4 0.15
20 10 0.37
21 4 0.15
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (18 bp):
TAATTAAAAATAAATAAG
Found at i:24389127 original size:17 final size:20
Alignment explanation
Indices: 24389099--24389146 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 20
24389089 TTCAATTGAA
*
24389099 TAAATTATTAAAATAT-TA-
1 TAAAATATTAAAATATATAT
24389117 TAAAA-ATTAAAATATATAT
1 TAAAATATTAAAATATATAT
24389136 TAAAATATTAA
1 TAAAATATTAA
24389147 TTCAACTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 10 0.38
18 6 0.23
19 5 0.19
20 5 0.19
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
TAAAATATTAAAATATATAT
Found at i:24389654 original size:15 final size:15
Alignment explanation
Indices: 24389634--24389666 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
24389624 TAGAGGGACT
24389634 AAATTCTTGAAAATA
1 AAATTCTTGAAAATA
24389649 AAATTCTTGAAAATA
1 AAATTCTTGAAAATA
24389664 AAA
1 AAA
24389667 GTACAGAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.30
Consensus pattern (15 bp):
AAATTCTTGAAAATA
Found at i:24389921 original size:16 final size:16
Alignment explanation
Indices: 24389878--24389924 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
24389868 ATTTAAATAT
24389878 TTAATAATTTATTA-A
1 TTAATAATTTATTATA
* **
24389893 -AAATAATAAATTATA
1 TTAATAATTTATTATA
24389908 TTAATAATTTATTATA
1 TTAATAATTTATTATA
24389924 T
1 T
24389925 GTTTAAATAT
Statistics
Matches: 24, Mismatches: 6, Indels: 3
0.73 0.18 0.09
Matches are distributed among these distances:
14 10 0.42
15 1 0.04
16 13 0.54
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TTAATAATTTATTATA
Found at i:24390759 original size:21 final size:21
Alignment explanation
Indices: 24390730--24390769 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
24390720 AGAAAAATGA
24390730 TTTTTGAAAAATG-TATTTAT
1 TTTTTGAAAAATGATATTTAT
*
24390750 TTTTTAGAAAATTGATATTT
1 TTTTT-GAAAAATGATATTT
24390770 TTCGCTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 7 0.41
22 5 0.29
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (21 bp):
TTTTTGAAAAATGATATTTAT
Found at i:24394147 original size:30 final size:29
Alignment explanation
Indices: 24394082--24394147 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 29
24394072 AAAAATTAGT
*
24394082 AATTTAGTCCTTATACTTCTATTTTCAGG
1 AATTTAGTCCTTATACTTCTATTTTCAGA
*
24394111 AATTTAGT-CTCTATACTTTTCATATTTCA-A
1 AATTTAGTCCT-TATACTTCT-AT-TTTCAGA
24394141 AATTTAG
1 AATTTAG
24394148 GTTGAATTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 2 0.06
29 16 0.50
30 9 0.28
31 5 0.16
ACGTcount: A:0.29, C:0.15, G:0.08, T:0.48
Consensus pattern (29 bp):
AATTTAGTCCTTATACTTCTATTTTCAGA
Found at i:24398618 original size:6 final size:6
Alignment explanation
Indices: 24398607--24398696 Score: 135
Period size: 6 Copynumber: 15.0 Consensus size: 6
24398597 TACGTTTGAA
*
24398607 ATATGT ATATGT ATATGT GTATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
* * * *
24398655 GTATGT ATATGT ATATGT GTATGT GTATGT TTATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
24398697 CAATGGTACT
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 77 1.00
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.51
Consensus pattern (6 bp):
ATATGT
Found at i:24399138 original size:34 final size:35
Alignment explanation
Indices: 24399094--24399160 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
24399084 CAGTAAAATA
*
24399094 TTTTCCGTAAAATGACTT-CGGGAAAATGTTTTAC
1 TTTTCCGTAAAATGACTTACGGGAAAATATTTTAC
* * *
24399128 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGACTTACGGGAAAATATTTT
24399161 CTGGTGTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.43
Consensus pattern (35 bp):
TTTTCCGTAAAATGACTTACGGGAAAATATTTTAC
Found at i:24399847 original size:26 final size:25
Alignment explanation
Indices: 24399800--24399849 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 25
24399790 TAATTATGCC
24399800 TTAATTAATTAACTAACTAACTAAGG
1 TTAATTAATTAACTAAC-AACTAAGG
24399826 TTAATTAAATTAAACTAA-AACTAA
1 TTAATT-AATT-AACTAACAACTAA
24399850 TCTAAGTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 12 0.55
27 4 0.18
28 6 0.27
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.34
Consensus pattern (25 bp):
TTAATTAATTAACTAACAACTAAGG
Found at i:24401066 original size:24 final size:24
Alignment explanation
Indices: 24401039--24401084 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
24401029 ATTTGACATA
*
24401039 AAAAATTTGTGTTAATTTTATTTT
1 AAAAATTTGTGGTAATTTTATTTT
24401063 AAAAATTTGTGGTAATTTTATT
1 AAAAATTTGTGGTAATTTTATT
24401085 GATGTAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (24 bp):
AAAAATTTGTGGTAATTTTATTTT
Found at i:24403862 original size:125 final size:123
Alignment explanation
Indices: 24403615--24404181 Score: 762
Period size: 125 Copynumber: 4.5 Consensus size: 123
24403605 GATAAAATCA
* * * * * * *
24403615 AAGCAGAATGCTTTATCAGAAGAATTTCTGAAGTAACT-CCCACGTGTACGAGCTTTTGTTACAG
1 AAGCAGGATGCTTTATCAGAAGAATTTGTGAA--ATCTGCCCTCGTGGACGCGCTTTTGCTACAG
*
24403679 TAGGTCCTGCAAAAATAATTTCGAGTTGACGTTTCTGAGAAAATAGTATAAAACACGCTTC
64 TAGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGAAAATAGTATAAAA-ACGCTTC
* *
24403740 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCTTGCCCTCGTGGACGCACTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTGTGAAATC-TGCCCTCGTGGACGCGCTTTTGCTACAGT
* *
24403805 ATGTCCTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAACGCTTC
65 AGGTCCT-GAAAAAATAATTTCGAGTTGACGTTTCTGAGAAAATAGTATAAAAACGCTTC
* * *
24403865 AAGCAGGATGCTTTATCAGAAGAATTTGTGAAAT-TGCGCCCACGTGTACGCGCTTTTGCTATAG
1 AAGCAGGATGCTTTATCAGAAGAATTTGTGAAATCT--GCCCTCGTGGACGCGCTTTTGCTACAG
* * *
24403929 TAGGTCATGCAAAAATAATTTCGAGTTGACGTTTCTGAGAAAATAGTATAAAAAATGCTTC
64 TAGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGAAAATAGTAT-AAAAACGCTTC
* *
24403990 AAGCAAGATGCTTTATGAGAAGAATTTGTGAAATCGTGCCCTCGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTGTGAAATC-TGCCCTCGTGGACGCGCTTTTGCTACAGT
* * * *
24404055 AGGTCCTGGAAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATATTATAAAAATGCTTC
65 AGGTCCT-GAAAAAATAATTTCGAGTTGACGTTTCTGAGAAAATAGTATAAAAACGCTTC
** *
24404115 AAGCAGGATGCTTTATCAGAAGAATTCATGATATC-GCGCCTACGTGGACGCGCTTTTGCTACAG
1 AAGCAGGATGCTTTATCAGAAGAATTTGTGAAATCTGC-CCT-CGTGGACGCGCTTTTGCTACAG
24404179 TAG
64 TAG
24404182 CATGTTAGGG
Statistics
Matches: 394, Mismatches: 37, Indels: 22
0.87 0.08 0.05
Matches are distributed among these distances:
123 5 0.01
124 43 0.11
125 265 0.67
126 80 0.20
127 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.30
Consensus pattern (123 bp):
AAGCAGGATGCTTTATCAGAAGAATTTGTGAAATCTGCCCTCGTGGACGCGCTTTTGCTACAGTA
GGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGAAAATAGTATAAAAACGCTTC
Found at i:24404063 original size:250 final size:250
Alignment explanation
Indices: 24403615--24404181 Score: 909
Period size: 250 Copynumber: 2.3 Consensus size: 250
24403605 GATAAAATCA
* * * * * * *
24403615 AAGCAGAATGCTTTATCAGAAGAATTTCTGAAGTAACTCCCACGTGTACGAGCTTTTGTTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTATGAAATAGCGCCCACGTGTACGCGCTTTTGCTACAGT
* *
24403680 AGGTCCTGCAAAAATAATTTCGAGTTGACGTTTCTGAGAAAATAGTATAAAACACGCTTCAAGCA
66 AGGTCATGCAAAAATAATTTCGAGTTGACGTTTCTGAGAAAATAGTATAAAAAACGCTTCAAGCA
* * *
24403745 GGATGCTTTATGAGAAGAATTTGTGAAATCTTGCCCTCGTGGACGCACTTTTGCTACAGTATGTC
131 AGATGCTTTATGAGAAGAATTTGTGAAATCGTGCCCTCGTGGACGCACTTTTGCTACAGTAGGTC
24403810 CTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAACGCTTC
196 CTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAACGCTTC
* * *
24403865 AAGCAGGATGCTTTATCAGAAGAATTTGTGAAATTGCGCCCACGTGTACGCGCTTTTGCTATAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTATGAAATAGCGCCCACGTGTACGCGCTTTTGCTACAGT
*
24403930 AGGTCATGCAAAAATAATTTCGAGTTGACGTTTCTGAGAAAATAGTATAAAAAATGCTTCAAGCA
66 AGGTCATGCAAAAATAATTTCGAGTTGACGTTTCTGAGAAAATAGTATAAAAAACGCTTCAAGCA
*
24403995 AGATGCTTTATGAGAAGAATTTGTGAAATCGTGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTC
131 AGATGCTTTATGAGAAGAATTTGTGAAATCGTGCCCTCGTGGACGCACTTTTGCTACAGTAGGTC
* * *
24404060 CTGGAAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATATTATAAAAATGCTTC
196 CTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAACGCTTC
* * * * *
24404115 AAGCAGGATGCTTTATCAGAAGAATTCATGATATCGCGCCTACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTATGAAATAGCGCCCACGTGTACGCGCTTTTGCTACAGT
24404180 AG
66 AG
24404182 CATGTTAGGG
Statistics
Matches: 291, Mismatches: 26, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
250 291 1.00
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.30
Consensus pattern (250 bp):
AAGCAGGATGCTTTATCAGAAGAATTTATGAAATAGCGCCCACGTGTACGCGCTTTTGCTACAGT
AGGTCATGCAAAAATAATTTCGAGTTGACGTTTCTGAGAAAATAGTATAAAAAACGCTTCAAGCA
AGATGCTTTATGAGAAGAATTTGTGAAATCGTGCCCTCGTGGACGCACTTTTGCTACAGTAGGTC
CTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAACGCTTC
Found at i:24405285 original size:15 final size:15
Alignment explanation
Indices: 24405260--24405313 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
24405250 GAGATTTAGG
24405260 GTTAGAGGGTTTTTAA
1 GTTA-AGGGTTTTTAA
*
24405276 GTTAAGGG---TTAGG
1 GTTAAGGGTTTTTA-A
24405289 GTT-AGGGTTTTTAA
1 GTTAAGGGTTTTTAA
24405303 GTTAAGGGTTT
1 GTTAAGGGTTT
24405314 AGGGTTTGTC
Statistics
Matches: 31, Mismatches: 2, Indels: 11
0.70 0.05 0.25
Matches are distributed among these distances:
12 7 0.23
13 3 0.10
14 3 0.10
15 14 0.45
16 4 0.13
ACGTcount: A:0.22, C:0.00, G:0.35, T:0.43
Consensus pattern (15 bp):
GTTAAGGGTTTTTAA
Found at i:24405301 original size:27 final size:27
Alignment explanation
Indices: 24405196--24405319 Score: 140
Period size: 27 Copynumber: 4.2 Consensus size: 27
24405186 GTACCAGTCA
24405196 AGGGTTAGGGTTTTTAAGTTAAGGGTT
1 AGGGTTAGGGTTTTTAAGTTAAGGGTT
**
24405223 AGGGTTTAGGGTTTAAGGTTAAGGTTAGAGATTT
1 AGGG-TTAGGGTTT----TTAA-GTTA-AGGGTT
24405257 AGGGTTAGAGGGTTTTTAAGTTAAGGGTT
1 AGGGTT--AGGGTTTTTAAGTTAAGGGTT
24405286 AGGGTTAGGGTTTTTAAGTTAAGGGTTT
1 AGGGTTAGGGTTTTTAAGTTAAGGG-TT
24405314 AGGGTT
1 AGGGTT
24405320 TGTCAATTAA
Statistics
Matches: 83, Mismatches: 4, Indels: 19
0.78 0.04 0.18
Matches are distributed among these distances:
27 23 0.28
28 17 0.20
29 10 0.12
30 4 0.05
31 4 0.05
32 4 0.05
33 6 0.07
34 8 0.10
35 7 0.08
ACGTcount: A:0.23, C:0.00, G:0.37, T:0.40
Consensus pattern (27 bp):
AGGGTTAGGGTTTTTAAGTTAAGGGTT
Found at i:24405312 original size:21 final size:23
Alignment explanation
Indices: 24405195--24405291 Score: 70
Period size: 21 Copynumber: 4.6 Consensus size: 23
24405185 AGTACCAGTC
24405195 AAGGGTTAGGGTTTTTA-AG-TT
1 AAGGGTTAGGGTTTTTAGAGATT
* *
24405216 AAGGGTTAGGG--TTTAGGGTTT
1 AAGGGTTAGGGTTTTTAGAGATT
*
24405237 AA-GGTTAAGG---TTAGAGATT
1 AAGGGTTAGGGTTTTTAGAGATT
*
24405256 TAGGGTTAGAGGGTTTTTA-AG-TT
1 AAGGGTT--AGGGTTTTTAGAGATT
24405279 AAGGGTTAGGGTT
1 AAGGGTTAGGGTT
24405292 AGGGTTTTTA
Statistics
Matches: 61, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
19 12 0.20
20 12 0.20
21 21 0.34
22 3 0.05
23 8 0.13
24 2 0.03
25 3 0.05
ACGTcount: A:0.25, C:0.00, G:0.37, T:0.38
Consensus pattern (23 bp):
AAGGGTTAGGGTTTTTAGAGATT
Found at i:24405329 original size:22 final size:21
Alignment explanation
Indices: 24405286--24405329 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
24405276 GTTAAGGGTT
*
24405286 AGGGTTAGGGTTTTTAAGTTA
1 AGGGTTAGGGTTTTCAAGTTA
24405307 AGGGTTTAGGGTTTGTCAA-TTA
1 AGGG-TTAGGGTTT-TCAAGTTA
24405329 A
1 A
24405330 ATTATGCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 4 0.20
22 13 0.65
23 3 0.15
ACGTcount: A:0.25, C:0.02, G:0.32, T:0.41
Consensus pattern (21 bp):
AGGGTTAGGGTTTTCAAGTTA
Found at i:24406775 original size:20 final size:20
Alignment explanation
Indices: 24406738--24406775 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
24406728 ATTATTTTTA
*
24406738 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
24406758 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
24406776 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:24407757 original size:51 final size:50
Alignment explanation
Indices: 24407696--24407795 Score: 130
Period size: 51 Copynumber: 2.0 Consensus size: 50
24407686 AATTATTTAA
24407696 AAATAGGGATTTAAGAGAAATTT-AAGAGAAAATTGAGAGCAAATTGAGATT
1 AAATAGGGATTTAAGAGAAATTTGAAG-G-AAATTGAGAGCAAATTGAGATT
* * * *
24407747 AAATATGGATTTGAGAGAAATTTGGAAGGAATTTGAGAGGAAATTGAGA
1 AAATAGGGATTTAAGAGAAATTT-GAAGGAAATTGAGAGCAAATTGAGA
24407796 AAATAATTGA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
51 39 0.91
52 1 0.02
53 3 0.07
ACGTcount: A:0.46, C:0.01, G:0.27, T:0.26
Consensus pattern (50 bp):
AAATAGGGATTTAAGAGAAATTTGAAGGAAATTGAGAGCAAATTGAGATT
Found at i:24408877 original size:17 final size:17
Alignment explanation
Indices: 24408855--24408888 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
24408845 GTTGATTTTG
*
24408855 ATATAATTTTTTTATAA
1 ATATAATTTTTATATAA
24408872 ATATAATTTTTATATAA
1 ATATAATTTTTATATAA
24408889 TTTTTTTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATATAATTTTTATATAA
Found at i:24412361 original size:16 final size:16
Alignment explanation
Indices: 24412340--24412372 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
24412330 TAACCTTTAT
24412340 GGGTCTTGGATTATAG
1 GGGTCTTGGATTATAG
24412356 GGGTCTTGGATTATAG
1 GGGTCTTGGATTATAG
24412372 G
1 G
24412373 CAAACCTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.06, G:0.39, T:0.36
Consensus pattern (16 bp):
GGGTCTTGGATTATAG
Found at i:24412481 original size:18 final size:18
Alignment explanation
Indices: 24412458--24412493 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
24412448 TTCGTTAATA
24412458 TTATTATTTAATATTTAC
1 TTATTATTTAATATTTAC
24412476 TTATTATTTAATATTTAC
1 TTATTATTTAATATTTAC
24412494 AAGTTAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (18 bp):
TTATTATTTAATATTTAC
Found at i:24412833 original size:8 final size:8
Alignment explanation
Indices: 24412820--24412856 Score: 65
Period size: 8 Copynumber: 4.6 Consensus size: 8
24412810 TGATTAAAAT
24412820 TAAAATTA
1 TAAAATTA
24412828 TAAAATTA
1 TAAAATTA
24412836 TAAAATTA
1 TAAAATTA
*
24412844 TAAAAGTA
1 TAAAATTA
24412852 TAAAA
1 TAAAA
24412857 AGATATTACT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (8 bp):
TAAAATTA
Found at i:24437892 original size:15 final size:15
Alignment explanation
Indices: 24437874--24437905 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
24437864 CACTTTTTCA
24437874 TCATCCCTCATCCTC
1 TCATCCCTCATCCTC
*
24437889 TCATCTCTCATCCTC
1 TCATCCCTCATCCTC
24437904 TC
1 TC
24437906 TCTCAACTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.12, C:0.50, G:0.00, T:0.38
Consensus pattern (15 bp):
TCATCCCTCATCCTC
Found at i:24437893 original size:8 final size:8
Alignment explanation
Indices: 24437874--24437905 Score: 50
Period size: 7 Copynumber: 4.2 Consensus size: 8
24437864 CACTTTTTCA
24437874 TCATCC-C
1 TCATCCTC
24437881 TCATCCTC
1 TCATCCTC
24437889 TCAT-CTC
1 TCATCCTC
24437896 TCATCCTC
1 TCATCCTC
24437904 TC
1 TC
24437906 TCTCAACTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
7 13 0.57
8 10 0.43
ACGTcount: A:0.12, C:0.50, G:0.00, T:0.38
Consensus pattern (8 bp):
TCATCCTC
Found at i:24447610 original size:26 final size:26
Alignment explanation
Indices: 24447581--24447822 Score: 192
Period size: 26 Copynumber: 9.2 Consensus size: 26
24447571 ACGGTCATTC
*
24447581 TACCCTTCGAGGGTATTTCAGTAATA
1 TACCCTTCGAGGGTATTTCAGTAATT
*
24447607 TACCC-TCTAGGGTA-TTCAGGTAAATTT
1 TACCCTTCGAGGGTATTTCA-GT-AA-TT
** *
24447634 TACCCTTTAAGGGTATTTTAGTAATT
1 TACCCTTCGAGGGTATTTCAGTAATT
* * *
24447660 TTCCCATT-GAGGGTATTTTAGAAATT
1 TACCC-TTCGAGGGTATTTCAGTAATT
* * *
24447686 TACCCATCAAGAGTATTTCAGTAATT
1 TACCCTTCGAGGGTATTTCAGTAATT
*
24447712 TACCC-TCTAGGGGTATTTCAGTAATTTT
1 TACCCTTCGA-GGGTATTTCAGTAA--TT
* *
24447740 TACCCTTTGAGGGTATTTCAATAATT
1 TACCCTTCGAGGGTATTTCAGTAATT
*
24447766 TACCC-TCTGGGGGTATTTCAGTAATT
1 TACCCTTC-GAGGGTATTTCAGTAATT
* *
24447792 T-TCCTATCGAGGGTTTTTC-GATAATT
1 TACCCT-TCGAGGGTATTTCAG-TAATT
24447818 TACCC
1 TACCC
24447823 AATACGGCCT
Statistics
Matches: 174, Mismatches: 26, Indels: 31
0.75 0.11 0.13
Matches are distributed among these distances:
24 4 0.02
25 18 0.10
26 104 0.60
27 14 0.08
28 29 0.17
29 5 0.03
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.40
Consensus pattern (26 bp):
TACCCTTCGAGGGTATTTCAGTAATT
Found at i:24447769 original size:80 final size:78
Alignment explanation
Indices: 24447581--24447792 Score: 232
Period size: 80 Copynumber: 2.7 Consensus size: 78
24447571 ACGGTCATTC
* * * * *
24447581 TACCCTTCGAGGGTATTTCAGTAATATACCCTCTAGGGTA-TTCAGGTAAATTTTACCCTTTAAG
1 TACCCTTTGAGGGTATTTCAATAATTTACCCTCAAGGGTATTTCA-GT-AA-TTTACCCTCTAAG
*
24447645 GGTATTTTAGTAATTT
63 GGTATTTCAGTAATTT
* * * *
24447661 T-CCCATTGAGGGTATTTTAGA-AATTTACCCATCAAGAGTATTTCAGTAATTTACCCTCTAGGG
1 TACCCTTTGAGGGTATTTCA-ATAATTTACCC-TCAAGGGTATTTCAGTAATTTACCCTCTAAGG
24447724 GTATTTCAGTAATTTT
64 GTATTTCAGTAA-TTT
**
24447740 TACCCTTTGAGGGTATTTCAATAATTTACCCTCTGGGGGTATTTCAGTAATTT
1 TACCCTTTGAGGGTATTTCAATAATTTACCCTC-AAGGGTATTTCAGTAATTT
24447793 TCCTATCGAG
Statistics
Matches: 110, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
78 23 0.21
79 32 0.29
80 51 0.46
81 4 0.04
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (78 bp):
TACCCTTTGAGGGTATTTCAATAATTTACCCTCAAGGGTATTTCAGTAATTTACCCTCTAAGGGT
ATTTCAGTAATTT
Found at i:24447817 original size:80 final size:78
Alignment explanation
Indices: 24447581--24447818 Score: 200
Period size: 80 Copynumber: 3.0 Consensus size: 78
24447571 ACGGTCATTC
* * * *
24447581 TACCCTTCGAGGGTATTTCAGTAATATACCCTCTAGGGTA-TTCAGGTAAATTTTACCCTTTAAG
1 TACCCTTTGAGGGTATTTCAATAATTTACCCTCTAGGGTATTTCA-GT-AATTTT--CCTTCAAG
*
24447645 GGTATTTTAG-TAA-TTT
62 GGT-TTTTCGATAATTTT
* * * * * * *
24447661 T-CCCATTGAGGGTATTTTAGA-AATTTACCCATCAAGAGTATTTCAGTAATTTACCCTCTAGGG
1 TACCCTTTGAGGGTATTTCA-ATAATTTACCC-TCTAGGGTATTTCAGTAATTTTCCTTC-AAGG
*
24447724 GTATTTC-AGTAATTTT
63 GTTTTTCGA-TAATTTT
* *
24447740 TACCCTTTGAGGGTATTTCAATAATTTACCCTCTGGGGGTATTTCAGTAATTTTCCTATCGAGGG
1 TACCCTTTGAGGGTATTTCAATAATTTACCCTCT-AGGGTATTTCAGTAATTTTCCT-TCAAGGG
24447805 TTTTTCGATAATTT
64 TTTTTCGATAATTT
24447819 ACCCAATACG
Statistics
Matches: 123, Mismatches: 23, Indels: 24
0.72 0.14 0.14
Matches are distributed among these distances:
77 6 0.05
78 8 0.07
79 35 0.28
80 67 0.54
81 7 0.06
ACGTcount: A:0.25, C:0.16, G:0.18, T:0.41
Consensus pattern (78 bp):
TACCCTTTGAGGGTATTTCAATAATTTACCCTCTAGGGTATTTCAGTAATTTTCCTTCAAGGGTT
TTTCGATAATTTT
Found at i:24447817 original size:106 final size:105
Alignment explanation
Indices: 24447581--24447822 Score: 292
Period size: 106 Copynumber: 2.3 Consensus size: 105
24447571 ACGGTCATTC
* *
24447581 TACCCTTCGAGGGTATTTCAGTAATATACCCTCTAGGGTATTCAGGTAAATTTTACCCTTTAAGG
1 TACCCATCGAGGGTATTTCAGTAATTTACCCTCTAGGGTATTCAGGTAAATTTTACCCTTTAAGG
* * * *
24447646 GTATTTTAGTAATTTTCCCATTGAGGGTATTTTAGAAATT
66 GTATTTCAATAATTTACCCATTGAGGGTATTTCAGAAATT
* * * *
24447686 TACCCATCAAGAGTATTTCAGTAATTTACCCTCTAGGGGTATTTCA-GTAATTTTTACCCTTTGA
1 TACCCATCGAGGGTATTTCAGTAATTTACCCTCTA-GGGTA-TTCAGGTAAATTTTACCCTTTAA
* *
24447750 GGGTATTTCAATAATTTACCC-TCTGGGGGTATTTCAGTAATT
64 GGGTATTTCAATAATTTACCCAT-TGAGGGTATTTCAGAAATT
* * *
24447792 TTCCTATCGAGGGTTTTTC-GATAATTTACCC
1 TACCCATCGAGGGTATTTCAG-TAATTTACCC
24447823 AATACGGCCT
Statistics
Matches: 116, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
105 33 0.28
106 79 0.68
107 4 0.03
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.40
Consensus pattern (105 bp):
TACCCATCGAGGGTATTTCAGTAATTTACCCTCTAGGGTATTCAGGTAAATTTTACCCTTTAAGG
GTATTTCAATAATTTACCCATTGAGGGTATTTCAGAAATT
Found at i:24448346 original size:23 final size:23
Alignment explanation
Indices: 24448316--24448363 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
24448306 ATTCAGCCAA
*
24448316 AGAGATATTCAAAGAAAG-AAGGC
1 AGAGATATGCAAAG-AAGCAAGGC
*
24448339 AGAGATATGCAGAGAAGCAAGGC
1 AGAGATATGCAAAGAAGCAAGGC
24448362 AG
1 AG
24448364 TCGACGCTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 3 0.14
23 19 0.86
ACGTcount: A:0.48, C:0.10, G:0.31, T:0.10
Consensus pattern (23 bp):
AGAGATATGCAAAGAAGCAAGGC
Found at i:24455755 original size:29 final size:26
Alignment explanation
Indices: 24455703--24455756 Score: 63
Period size: 29 Copynumber: 2.0 Consensus size: 26
24455693 GCAGAGCTGC
*
24455703 CAGTACAGTATGTGTGGCAAAGCCAT
1 CAGTACAGTATGTGCGGCAAAGCCAT
*
24455729 CAGTATCAGTATGAGTGCGGCAGAGCCA
1 CAGTA-CAGTAT--GTGCGGCAAAGCCA
24455757 CTACAAACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 5 0.22
27 6 0.26
29 12 0.52
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (26 bp):
CAGTACAGTATGTGCGGCAAAGCCAT
Found at i:24455950 original size:26 final size:26
Alignment explanation
Indices: 24455921--24456148 Score: 187
Period size: 26 Copynumber: 8.7 Consensus size: 26
24455911 ACGATCATTC
24455921 TACCCTTCGAGGGTATTTCAATAATT
1 TACCCTTCGAGGGTATTTCAATAATT
* *
24455947 TACCCTCCG-GGGTA-TTCAGGTAAATTT
1 TACCCTTCGAGGGTATTTCA-AT-AA-TT
* *
24455974 TACCCTTTGAGGGTATTTCAGTAATT
1 TACCCTTCGAGGGTATTTCAATAATT
* * ***
24456000 TTCCCATCGAGGGTATTTTTGTAATT
1 TACCCTTCGAGGGTATTTCAATAATT
* *
24456026 TACCCATCGAAGGTATTTCAATAATT
1 TACCCTTCGAGGGTATTTCAATAATT
* * *
24456052 TACCC-TCTAGGGGTATTTGGTAAT-TTT
1 TACCCTTCGA-GGGTATTT--CAATAATT
*
24456079 TACCCTTTTG-GGGTATTTCAATAATT
1 TACCC-TTCGAGGGTATTTCAATAATT
* *
24456105 TACCCTTTGAGGGTATTTCAGTAATT
1 TACCCTTCGAGGGTATTTCAATAATT
* *
24456131 TTCCCATCGAGGGTATTT
1 TACCCTTCGAGGGTATTT
24456149 TGTAAATTTA
Statistics
Matches: 164, Mismatches: 26, Indels: 24
0.77 0.12 0.11
Matches are distributed among these distances:
24 4 0.02
25 16 0.10
26 103 0.63
27 26 0.16
28 10 0.06
29 5 0.03
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (26 bp):
TACCCTTCGAGGGTATTTCAATAATT
Found at i:24456026 original size:53 final size:52
Alignment explanation
Indices: 24455921--24456148 Score: 232
Period size: 53 Copynumber: 4.3 Consensus size: 52
24455911 ACGATCATTC
**
24455921 TACCCTTCGAGGGTATTTCAATAATTTACCCTCCG-GGGTATTCAGGTAAATTT
1 TACCCTTCGAGGGTATTTCAATAATTTACCCT-CGAGGGTATTTTGGT-AATTT
* * * *
24455974 TACCCTTTGAGGGTATTTCAGTAATTTTCCCATCGAGGGTATTTTTGTAA-TT
1 TACCCTTCGAGGGTATTTCAATAATTTACCC-TCGAGGGTATTTTGGTAATTT
* * *
24456026 TACCCATCGAAGGTATTTCAATAATTTACCCTCTAGGGGTA-TTTGGTAATTTT
1 TACCCTTCGAGGGTATTTCAATAATTTACCCTCGA-GGGTATTTTGGTAA-TTT
* * **
24456079 TACCCTTTTG-GGGTATTTCAATAATTTACCCTTTGAGGGTATTTCAGTAATTT
1 TACCC-TTCGAGGGTATTTCAATAATTTACCC-TCGAGGGTATTTTGGTAATTT
*
24456132 T-CCCATCGAGGGTATTT
1 TACCCTTCGAGGGTATTT
24456149 TGTAAATTTA
Statistics
Matches: 144, Mismatches: 22, Indels: 19
0.78 0.12 0.10
Matches are distributed among these distances:
51 12 0.08
52 44 0.31
53 68 0.47
54 20 0.14
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (52 bp):
TACCCTTCGAGGGTATTTCAATAATTTACCCTCGAGGGTATTTTGGTAATTT
Found at i:24456104 original size:105 final size:105
Alignment explanation
Indices: 24455921--24456148 Score: 316
Period size: 105 Copynumber: 2.2 Consensus size: 105
24455911 ACGATCATTC
* *
24455921 TACCCTTCGAGGGTATTTCAATAATTTACCCTCCGGGGTATTCAGGTAAATTTTACCCTTTGAGG
1 TACCCATCGAGGGTATTTCAATAATTTACCCTCAGGGGTATTCAGGTAAATTTTACCCTTTGAGG
* * **
24455986 GTATTTCAGTAATTTTCCCATCGAGGGTATTTTTGTAATT
66 GTATTTCAATAATTTACCCATCGAGGGTATTTCAGTAATT
* * *
24456026 TACCCATCGAAGGTATTTCAATAATTTACCCTCTAGGGGTATT-TGGTAATTTTTACCCTTTTG-
1 TACCCATCGAGGGTATTTCAATAATTTACCCTC-AGGGGTATTCAGGTAAATTTTACCC-TTTGA
* *
24456089 GGGTATTTCAATAATTTACCCTTTGAGGGTATTTCAGTAATT
64 GGGTATTTCAATAATTTACCCATCGAGGGTATTTCAGTAATT
*
24456131 TTCCCATCGAGGGTATTT
1 TACCCATCGAGGGTATTT
24456149 TGTAAATTTA
Statistics
Matches: 108, Mismatches: 13, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
105 96 0.89
106 12 0.11
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (105 bp):
TACCCATCGAGGGTATTTCAATAATTTACCCTCAGGGGTATTCAGGTAAATTTTACCCTTTGAGG
GTATTTCAATAATTTACCCATCGAGGGTATTTCAGTAATT
Found at i:24460748 original size:42 final size:41
Alignment explanation
Indices: 24460675--24460884 Score: 183
Period size: 42 Copynumber: 5.0 Consensus size: 41
24460665 GGATTCCGGT
* * * *
24460675 GGAATCAACACTTAGCAACGACCTTATAATCAATGATACGG
1 GGAATCAGCACATAACAACCACCTTATAATCAATGATACGG
* * *
24460716 GGAATCATCACATAGA-AACC-CCTTTCATAATCAAGGATACGAT
1 GGAATCAGCACATA-ACAACCACC-TT-ATAATCAATGATACG-G
* * * *
24460759 CGAATCAACACTTAGCAACCACCTTATAATCAATGATACGG
1 GGAATCAGCACATAACAACCACCTTATAATCAATGATACGG
* * * *
24460800 GGAATCAGCACATAACAAGCC-CTTTCACAATCAAGGAAACGG
1 GGAATCAGCACATAACAA-CCACCTT-ATAATCAATGATACGG
* *
24460842 TGGAATCAGCACTTAACAACCACCTTATAATCAATAATACGG
1 -GGAATCAGCACATAACAACCACCTTATAATCAATGATACGG
24460884 G
1 G
24460885 TTCACATAGT
Statistics
Matches: 133, Mismatches: 26, Indels: 20
0.74 0.15 0.11
Matches are distributed among these distances:
40 2 0.02
41 35 0.26
42 57 0.43
43 37 0.28
44 2 0.02
ACGTcount: A:0.40, C:0.24, G:0.15, T:0.21
Consensus pattern (41 bp):
GGAATCAGCACATAACAACCACCTTATAATCAATGATACGG
Found at i:24460777 original size:84 final size:84
Alignment explanation
Indices: 24460676--24460884 Score: 312
Period size: 84 Copynumber: 2.5 Consensus size: 84
24460666 GATTCCGGTG
* *
24460676 GAATCAACACTTAGCAACGACCTTATAATCAATGATACGGGGAATCATCACATAGA-AACCCCTT
1 GAATCAACACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATA-ACAACCCCTT
* *
24460740 TCATAATCAAGGATACGATC
65 TCACAATCAAGGAAACGATC
*
24460760 GAATCAACACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAACAAGCCCTTT
1 GAATCAACACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAACAACCCCTTT
* *
24460825 CACAATCAAGGAAACGGTG
66 CACAATCAAGGAAACGATC
* * *
24460844 GAATCAGCACTTAACAACCACCTTATAATCAATAATACGGG
1 GAATCAACACTTAGCAACCACCTTATAATCAATGATACGGG
24460885 TTCACATAGT
Statistics
Matches: 114, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
83 1 0.01
84 113 0.99
ACGTcount: A:0.40, C:0.24, G:0.15, T:0.21
Consensus pattern (84 bp):
GAATCAACACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAACAACCCCTTT
CACAATCAAGGAAACGATC
Found at i:24460967 original size:51 final size:51
Alignment explanation
Indices: 24460891--24461077 Score: 209
Period size: 51 Copynumber: 3.7 Consensus size: 51
24460881 CGGGTTCACA
* *
24460891 TAGTAGCCTACACATAGTACTACACATGTGACCATCA-CTATCCGATACACG
1 TAGTAGCCTACACATAGTACTACACACGTGACCAT-AGCTATCCGGTACACG
* * * *
24460942 TAGTAGCCTGCACATAGTACTACACACGTGATCGA-AGCTATCCGGTACGCA
1 TAGTAGCCTACACATAGTACTACACACGTGA-CCATAGCTATCCGGTACACG
* * * * * * *
24460993 TAGTAGCCTGCACATAGTACTACACATGCGATC-TATCTTTCTGGTACACG
1 TAGTAGCCTACACATAGTACTACACACGTGACCATAGCTATCCGGTACACG
*
24461043 TAGTAGCCTACACATAGTACTACATACGTGACCAT
1 TAGTAGCCTACACATAGTACTACACACGTGACCAT
24461078 CACTTTCACT
Statistics
Matches: 112, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
50 40 0.36
51 70 0.62
52 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.25
Consensus pattern (51 bp):
TAGTAGCCTACACATAGTACTACACACGTGACCATAGCTATCCGGTACACG
Found at i:24461066 original size:101 final size:101
Alignment explanation
Indices: 24460889--24461073 Score: 273
Period size: 101 Copynumber: 1.8 Consensus size: 101
24460879 TACGGGTTCA
* *
24460889 CATAGTAGCCTACACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCAT-ACTATCCGATACACGTAGTAGCCTACA
24460954 CATAGTACTACACACGTGATCGAAGCTATCCGGTACG
65 CATAGTACTACACACGTGATCGAAGCTATCCGGTACG
* * * * *
24460991 CATAGTAGCCTGCACATAGTACTACACATGCGATC-TATCTTTCTGGTACACGTAGTAGCCTACA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCATA-CTATCCGATACACGTAGTAGCCTACA
*
24461055 CATAGTACTACATACGTGA
65 CATAGTACTACACACGTGA
24461074 CCATCACTTT
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
100 1 0.01
101 41 0.55
102 32 0.43
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (101 bp):
CATAGTAGCCTACACATAGTACTACACATGCGACCATACTATCCGATACACGTAGTAGCCTACAC
ATAGTACTACACACGTGATCGAAGCTATCCGGTACG
Found at i:24475018 original size:26 final size:26
Alignment explanation
Indices: 24474982--24475043 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 26
24474972 CCTGTAAGTG
24474982 TTCTGAAACTGATACATGCTATGATA
1 TTCTGAAACTGATACATGCTATGATA
* *
24475008 TTCTGAAACTGATATATGTTATGATA
1 TTCTGAAACTGATACATGCTATGATA
*
24475034 TTTTGAAACT
1 TTCTGAAACT
24475044 ACTGTAGGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.40
Consensus pattern (26 bp):
TTCTGAAACTGATACATGCTATGATA
Found at i:24483142 original size:47 final size:47
Alignment explanation
Indices: 24483044--24483154 Score: 131
Period size: 47 Copynumber: 2.4 Consensus size: 47
24483034 ACAGTAATGT
* * *
24483044 AGATAAATCT-CCAATAATCAAAATTGTGGACAAGCCACCAATATCGT
1 AGATAAA-CTGCCAATAATCAAAATCGTGGACAAACCACCAATATCGC
24483091 AGATATAA-TGCCAATAATCAAAATCGTGGACAAACCACAACAAT-T-GC
1 AGATA-AACTGCCAATAATCAAAATCGTGGACAAACCAC--CAATATCGC
24483138 AGATAAACTGCCAATAA
1 AGATAAACTGCCAATAA
24483155 CTTCCACATT
Statistics
Matches: 56, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
46 3 0.05
47 46 0.82
48 3 0.05
49 4 0.07
ACGTcount: A:0.46, C:0.21, G:0.13, T:0.21
Consensus pattern (47 bp):
AGATAAACTGCCAATAATCAAAATCGTGGACAAACCACCAATATCGC
Found at i:24485927 original size:15 final size:15
Alignment explanation
Indices: 24485907--24485942 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
24485897 TAGGGAAGGG
* *
24485907 AATGATCCTGGTCTC
1 AATGATCATGGTATC
24485922 AATGATCATGGTATC
1 AATGATCATGGTATC
24485937 AATGAT
1 AATGAT
24485943 AATCCAAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (15 bp):
AATGATCATGGTATC
Found at i:24486566 original size:33 final size:33
Alignment explanation
Indices: 24486519--24486626 Score: 146
Period size: 33 Copynumber: 3.2 Consensus size: 33
24486509 ACCAATCAAA
* * *
24486519 CACACCAGATGCTCACT-CGAGCCAATCCATCCAT
1 CACACCA-ATGCTCA-TAAGAGCTAATCCAACCAT
*
24486553 CACACCAATGCTCATAAGAGCTAAACCAACCAT
1 CACACCAATGCTCATAAGAGCTAATCCAACCAT
*
24486586 CACACCAATGCTCATAAGAGCTAATCCAACCAA
1 CACACCAATGCTCATAAGAGCTAATCCAACCAT
24486619 CACACCAA
1 CACACCAA
24486627 AAATAGTATA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
32 1 0.01
33 59 0.88
34 7 0.10
ACGTcount: A:0.39, C:0.37, G:0.09, T:0.15
Consensus pattern (33 bp):
CACACCAATGCTCATAAGAGCTAATCCAACCAT
Found at i:24489018 original size:5 final size:5
Alignment explanation
Indices: 24488999--24489049 Score: 50
Period size: 5 Copynumber: 10.2 Consensus size: 5
24488989 AAGGGTTTTT
* * * *
24488999 ATAATA ATAAA ATAAC ATAAA ATAAC ATAAA ATAAC ATAAA A-GAA ATAAA
1 ATAA-A ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA
24489049 A
1 A
24489050 GTTCAAAAGA
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
4 3 0.08
5 29 0.81
6 4 0.11
ACGTcount: A:0.73, C:0.06, G:0.02, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:24489018 original size:10 final size:10
Alignment explanation
Indices: 24489005--24489049 Score: 74
Period size: 10 Copynumber: 4.6 Consensus size: 10
24488995 TTTTATAATA
24489005 ATAAAATAAC
1 ATAAAATAAC
24489015 ATAAAATAAC
1 ATAAAATAAC
24489025 ATAAAATAAC
1 ATAAAATAAC
*
24489035 ATAAAAGAA-
1 ATAAAATAAC
24489044 ATAAAA
1 ATAAAA
24489050 GTTCAAAAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
9 6 0.18
10 28 0.82
ACGTcount: A:0.73, C:0.07, G:0.02, T:0.18
Consensus pattern (10 bp):
ATAAAATAAC
Found at i:24495845 original size:17 final size:17
Alignment explanation
Indices: 24495823--24495865 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
24495813 AGCTTCGACC
24495823 AGCTTCCAACCTTAACG
1 AGCTTCCAACCTTAACG
*
24495840 AGCTTCCAACCTTAATG
1 AGCTTCCAACCTTAACG
24495857 AGCTTCCAA
1 AGCTTCCAA
24495866 GTTACTATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.30, C:0.33, G:0.12, T:0.26
Consensus pattern (17 bp):
AGCTTCCAACCTTAACG
Found at i:24496453 original size:25 final size:24
Alignment explanation
Indices: 24496370--24496481 Score: 77
Period size: 25 Copynumber: 4.5 Consensus size: 24
24496360 GCCATATAAC
* * *
24496370 CGGGAAGCTCTTGCGAGCCAATTAT
1 CGGGAAGCTCAT-AGAGCCAAATAT
**
24496395 CGAAAAGCTCATACGAGCCATAA-A-
1 CGGGAAGCTCATA-GAGCCA-AATAT
24496419 CGGGAAGCTCAATAGAGCCAAATAT
1 CGGGAAGCTC-ATAGAGCCAAATAT
* *
24496444 CGGGAAGCTCTAGAGAGCC-ATTAAT
1 CGGGAAGCTC-ATAGAGCCAAAT-AT
*
24496469 CGGGAAGCACATA
1 CGGGAAGCTCATA
24496482 AAAGCCATAA
Statistics
Matches: 69, Mismatches: 12, Indels: 13
0.73 0.13 0.14
Matches are distributed among these distances:
23 2 0.03
24 19 0.28
25 47 0.68
26 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.17
Consensus pattern (24 bp):
CGGGAAGCTCATAGAGCCAAATAT
Found at i:24496487 original size:25 final size:24
Alignment explanation
Indices: 24496410--24496493 Score: 62
Period size: 25 Copynumber: 3.4 Consensus size: 24
24496400 AGCTCATACG
* * * * *
24496410 AGCCATAAACGGGAAGCTCAATAG
1 AGCCATAATCGGGAAGCACTAGAA
* * *
24496434 AGCCAAATATCGGGAAGCTCTAGAG
1 AGCCATA-ATCGGGAAGCACTAGAA
24496459 AGCCATTAATCGGGAAGCACATA-AA
1 AGCCA-TAATCGGGAAGCAC-TAGAA
24496484 AGCCATAATC
1 AGCCATAATC
24496494 TGGATACTTA
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
24 11 0.22
25 36 0.72
26 3 0.06
ACGTcount: A:0.40, C:0.21, G:0.23, T:0.15
Consensus pattern (24 bp):
AGCCATAATCGGGAAGCACTAGAA
Found at i:24503348 original size:28 final size:28
Alignment explanation
Indices: 24503308--24503370 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
24503298 CGACATGCAA
* *
24503308 TAACAGCCTGGG-CTTGAGCCTTAAGCAG
1 TAACAGTCTGGGCCTT-AGCCCTAAGCAG
*
24503336 TAACAGTCTGGGCCTTATCCCTAAGCAG
1 TAACAGTCTGGGCCTTAGCCCTAAGCAG
24503364 TAACAGT
1 TAACAGT
24503371 GTAATGTGGG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
28 28 0.90
29 3 0.10
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (28 bp):
TAACAGTCTGGGCCTTAGCCCTAAGCAG
Found at i:24503429 original size:28 final size:28
Alignment explanation
Indices: 24503373--24503429 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
24503363 GTAACAGTGT
* * **
24503373 AATGTGGGCCTTAGCCCATTTCAGTAAC
1 AATGTGGGCCTTAGCCCAATACAAAAAC
*
24503401 AATGTGGGCTTTAGCCCAATACAAAAAC
1 AATGTGGGCCTTAGCCCAATACAAAAAC
24503429 A
1 A
24503430 GTACAGTGCA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (28 bp):
AATGTGGGCCTTAGCCCAATACAAAAAC
Found at i:24503884 original size:27 final size:27
Alignment explanation
Indices: 24503760--24503886 Score: 125
Period size: 27 Copynumber: 4.7 Consensus size: 27
24503750 AGGGGTATAA
* *
24503760 CAGTCATTTTACACTATAG-GGGTATTT
1 CAGTCATTTTACCCT-TCGAGGGTATTT
* *
24503787 C-GATCATTTCACCCTTCGGGGGTATTT
1 CAG-TCATTTTACCCTTCGAGGGTATTT
* * *
24503814 CAATCATTTTATCCTTTGAGGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
** *
24503841 -TTTTATTTTACCCTTCGAGGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
24503867 CAGTCATTTTACCCTTCGAG
1 CAGTCATTTTACCCTTCGAG
24503887 ATTATTTCTA
Statistics
Matches: 80, Mismatches: 16, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
26 24 0.30
27 56 0.70
ACGTcount: A:0.20, C:0.20, G:0.17, T:0.43
Consensus pattern (27 bp):
CAGTCATTTTACCCTTCGAGGGTATTT
Found at i:24503892 original size:27 final size:27
Alignment explanation
Indices: 24503781--24503902 Score: 113
Period size: 27 Copynumber: 4.6 Consensus size: 27
24503771 CACTATAGGG
* * * *
24503781 GTATTTCGATCATTTCACCCTTCGGGG
1 GTATTTCTATCATTTTACCCTTCGAGA
* * * *
24503808 GTATTTCAATCATTTTATCCTTTGAGG
1 GTATTTCTATCATTTTACCCTTCGAGA
* * *
24503835 GTATTT-TTTTATTTTACCCTTCGAGG
1 GTATTTCTATCATTTTACCCTTCGAGA
24503861 GTATTTC-AGTCATTTTACCCTTCGAGA
1 GTATTTCTA-TCATTTTACCCTTCGAGA
*
24503888 TTATTTCTATCATTT
1 GTATTTCTATCATTT
24503903 GCCCATGAAT
Statistics
Matches: 78, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
26 21 0.27
27 56 0.72
28 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.48
Consensus pattern (27 bp):
GTATTTCTATCATTTTACCCTTCGAGA
Found at i:24503893 original size:53 final size:53
Alignment explanation
Indices: 24503792--24503893 Score: 141
Period size: 53 Copynumber: 1.9 Consensus size: 53
24503782 TATTTCGATC
* * * *
24503792 ATTTCACCCTTCGGGGGTATTTCAATCATTTTATCCTTTGAGGGTATTTTTTT
1 ATTTCACCCTTCGAGGGTATTTCAATCATTTTACCCTTCGAGAGTATTTTTTT
* * *
24503845 ATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTTCGAGATTATTT
1 ATTTCACCCTTCGAGGGTATTTCAATCATTTTACCCTTCGAGAGTATTT
24503894 CTATCATTTG
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
53 42 1.00
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.47
Consensus pattern (53 bp):
ATTTCACCCTTCGAGGGTATTTCAATCATTTTACCCTTCGAGAGTATTTTTTT
Found at i:24506567 original size:25 final size:24
Alignment explanation
Indices: 24506539--24506613 Score: 80
Period size: 24 Copynumber: 3.0 Consensus size: 24
24506529 CTCATGTGTT
* *
24506539 CCATATAAGGGGAAGCTCAAGCGAG
1 CCATA-AACGGGAAGCTCAAGAGAG
24506564 CCATAAACGGGAAGCTCAAGAGAG
1 CCATAAACGGGAAGCTCAAGAGAG
* *
24506588 CCA-AATATCGAGAAGCTCTAGAGAG
1 CCATAA-A-CGGGAAGCTCAAGAGAG
24506613 C
1 C
24506614 GATTAATCGG
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
23 2 0.05
24 21 0.48
25 21 0.48
ACGTcount: A:0.39, C:0.21, G:0.28, T:0.12
Consensus pattern (24 bp):
CCATAAACGGGAAGCTCAAGAGAG
Found at i:24506580 original size:24 final size:25
Alignment explanation
Indices: 24506539--24506613 Score: 89
Period size: 25 Copynumber: 3.0 Consensus size: 25
24506529 CTCATGTGTT
* *
24506539 CCATATAAGGGGAAGCTCAAGCGAG
1 CCATATAACGGGAAGCTCAAGAGAG
24506564 CCATA-AACGGGAAGCTCAAGAGAG
1 CCATATAACGGGAAGCTCAAGAGAG
* * * *
24506588 CCAAATATCGAGAAGCTCTAGAGAG
1 CCATATAACGGGAAGCTCAAGAGAG
24506613 C
1 C
24506614 GATTAATCGG
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
24 21 0.49
25 22 0.51
ACGTcount: A:0.39, C:0.21, G:0.28, T:0.12
Consensus pattern (25 bp):
CCATATAACGGGAAGCTCAAGAGAG
Found at i:24506622 original size:25 final size:24
Alignment explanation
Indices: 24506594--24506656 Score: 60
Period size: 24 Copynumber: 2.6 Consensus size: 24
24506584 AGAGCCAAAT
24506594 ATCGAGAAGCTC-TAGAGAG-CGATTA
1 ATCGAGAAGCTCATA-AGAGCCG--TA
*
24506619 ATCGGGCAA-CTCATAAGAGCCGTA
1 ATCGAG-AAGCTCATAAGAGCCGTA
24506643 ATCGAGAAGCTCAT
1 ATCGAGAAGCTCAT
24506657 GCAAGTTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
23 2 0.06
24 12 0.38
25 12 0.38
26 6 0.19
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (24 bp):
ATCGAGAAGCTCATAAGAGCCGTA
Found at i:24506655 original size:24 final size:25
Alignment explanation
Indices: 24506550--24506656 Score: 73
Period size: 25 Copynumber: 4.4 Consensus size: 25
24506540 CATATAAGGG
* * * *
24506550 GAAGCTCA-AGCGAGCCATAAACGG
1 GAAGCTCATAGAGAGCGATAATCGA
* *
24506574 GAAGCTCA-AGAGAGCCAAATATCGA
1 GAAGCTCATAGAGAGCGATA-ATCGA
*
24506599 GAAGCTC-TAGAGAGCGATTAATCGG
1 GAAGCTCATAGAGAGCGA-TAATCGA
24506624 GCAA-CTCATA-AGAGCCG-TAATCGA
1 G-AAGCTCATAGAGAG-CGATAATCGA
24506648 GAAGCTCAT
1 GAAGCTCAT
24506657 GCAAGTTAAT
Statistics
Matches: 68, Mismatches: 8, Indels: 14
0.76 0.09 0.16
Matches are distributed among these distances:
23 2 0.03
24 29 0.43
25 30 0.44
26 7 0.10
ACGTcount: A:0.37, C:0.21, G:0.26, T:0.15
Consensus pattern (25 bp):
GAAGCTCATAGAGAGCGATAATCGA
Found at i:24513725 original size:20 final size:19
Alignment explanation
Indices: 24513697--24513738 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
24513687 CATTAATATA
24513697 TTTTTATAA-TTTTGAAGAT
1 TTTTTATAATTTTTGAA-AT
24513716 TTTTTCATAATTTTTGAAAT
1 TTTTT-ATAATTTTTGAAAT
24513736 TTT
1 TTT
24513739 GAATTTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.24
20 9 0.43
21 7 0.33
ACGTcount: A:0.29, C:0.02, G:0.07, T:0.62
Consensus pattern (19 bp):
TTTTTATAATTTTTGAAAT
Found at i:24513738 original size:29 final size:26
Alignment explanation
Indices: 24513696--24513765 Score: 70
Period size: 27 Copynumber: 2.5 Consensus size: 26
24513686 ACATTAATAT
24513696 ATTTTTATAATTTTGAAGATTTTTTCATA
1 ATTTTTATAATTTTG-A-ATTTTTT-ATA
*
24513725 ATTTTTGA-AATTTTGAATTTTTTATT
1 ATTTTT-ATAATTTTGAATTTTTTATA
*
24513751 ATTTTTTTGAATTTT
1 ATTTTTAT-AATTTT
24513766 TTTAAAAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
26 8 0.22
27 13 0.36
28 1 0.03
29 13 0.36
30 1 0.03
ACGTcount: A:0.27, C:0.01, G:0.07, T:0.64
Consensus pattern (26 bp):
ATTTTTATAATTTTGAATTTTTTATA
Found at i:24520404 original size:18 final size:17
Alignment explanation
Indices: 24520383--24520417 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
24520373 TTATTATTAA
*
24520383 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
24520401 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
24520418 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:24520556 original size:157 final size:157
Alignment explanation
Indices: 24520270--24520586 Score: 571
Period size: 157 Copynumber: 2.0 Consensus size: 157
24520260 TAGAATACCC
*
24520270 TTAGCATAAATTTGTTTTAGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAAATTATTA
1 TTAGCAGAAATTTGTTTTAGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAAATTATTA
* *
24520335 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
24520400 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
* * * *
24520427 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTTTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTAGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAAATTATTA
24520492 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
24520557 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
24520584 TTA
1 TTA
24520587 ATATTCTTAT
Statistics
Matches: 153, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
157 153 1.00
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTAGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAAATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:24520557 original size:16 final size:16
Alignment explanation
Indices: 24520520--24520561 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
24520510 TTAATCATAT
*
24520520 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
24520536 TT-AAATATATTATAA
1 TTAAAATATATTATAA
24520551 TTAAAATATAT
1 TTAAAATATAT
24520562 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:24520568 original size:14 final size:15
Alignment explanation
Indices: 24520529--24520570 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
24520519 TTTAAACATA
*
24520529 ATTATTATTAAATAT
1 ATTATAATTAAATAT
24520544 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
24520558 A-TATAATTTAATA
1 ATTATAATTAAATA
24520571 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:24520620 original size:61 final size:61
Alignment explanation
Indices: 24520555--24520742 Score: 201
Period size: 61 Copynumber: 3.1 Consensus size: 61
24520545 TTATAATTAA
24520555 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * *
24520616 AATATATGATACT-ATAAAA-T-AT-A-AATTAACATAATTATTAT-TAAATATA-TTATAATTA
1 AATATATAAT-TTAATAAAATTCTTAATAATT-A-AT-ATTCTTATATGAATTTACTCA-AATCA
*
24520674 A
61 T
24520675 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
24520736 AATATAT
1 AATATAT
24520743 GATACTATAA
Statistics
Matches: 97, Mismatches: 18, Indels: 24
0.70 0.13 0.17
Matches are distributed among these distances:
57 4 0.04
58 5 0.05
59 28 0.29
60 16 0.16
61 35 0.36
62 5 0.05
63 4 0.04
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
Found at i:24520658 original size:120 final size:121
Alignment explanation
Indices: 24520523--24520815 Score: 527
Period size: 120 Copynumber: 2.4 Consensus size: 121
24520513 ATCATATTTA
24520523 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
24520588 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT-
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
24520643 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
24520708 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTG
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
* * *
24520764 AA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
24520816 TAAAATAATT
Statistics
Matches: 167, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
120 165 0.99
121 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (121 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
Found at i:24520688 original size:14 final size:15
Alignment explanation
Indices: 24520639--24520690 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
24520629 ATAAAATATA
24520639 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
24520654 TATTAAATATATTAT
1 AATTAAATATATTAT
24520669 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
24520682 AATTTAATA
1 AATTAAATA
24520691 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:24520926 original size:91 final size:91
Alignment explanation
Indices: 24520831--24521038 Score: 276
Period size: 91 Copynumber: 2.3 Consensus size: 91
24520821 TAATTATAAC
* * * *
24520831 TAATAAATTATATTTTATGAATTTGTATAATTTAAAA-AAATAATTATTACATATAATTTAATAA
1 TAATAAATTATATTATATGAATTTATACAATTTAAAATAAATAA-TATTAAATATAATTTAATAA
*
24520895 TAATATATAATTTCATAAAATTCTTGA
65 TAATATATAATTTCATAAAATTCTTAA
* * * *
24520922 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAGT
1 TAATAAATTATATTATATGAATTTATACAATTTAAAATAAATAATATTAAATATAATTTAATAAT
*
24520987 GATATATAATTTCATAAAATTCTTAA
66 AATATATAATTTCATAAAATTCTTAA
*
24521013 TAATAAAATGT-TCTTATATGAATTTA
1 TAAT-AAAT-TATATTATATGAATTTA
24521039 CTAAGGATTC
Statistics
Matches: 104, Mismatches: 10, Indels: 5
0.87 0.08 0.04
Matches are distributed among these distances:
91 79 0.76
92 24 0.23
93 1 0.01
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (91 bp):
TAATAAATTATATTATATGAATTTATACAATTTAAAATAAATAATATTAAATATAATTTAATAAT
AATATATAATTTCATAAAATTCTTAA
Found at i:24523369 original size:13 final size:13
Alignment explanation
Indices: 24523351--24523376 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24523341 CAGCTAAACT
24523351 GAAACAGAAGGAA
1 GAAACAGAAGGAA
24523364 GAAACAGAAGGAA
1 GAAACAGAAGGAA
24523377 CGGCTAAGTT
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:0.62, C:0.08, G:0.31, T:0.00
Consensus pattern (13 bp):
GAAACAGAAGGAA
Found at i:24526996 original size:11 final size:12
Alignment explanation
Indices: 24526964--24526995 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
24526954 TCTCACCTTT
24526964 GCTGAAAAAGAG
1 GCTGAAAAAGAG
24526976 GCTGAAAAAGAG
1 GCTGAAAAAGAG
*
24526988 GTTGAAAA
1 GCTGAAAA
24526996 GTTACATAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.50, C:0.06, G:0.31, T:0.12
Consensus pattern (12 bp):
GCTGAAAAAGAG
Found at i:24527856 original size:64 final size:63
Alignment explanation
Indices: 24527782--24527979 Score: 177
Period size: 64 Copynumber: 3.0 Consensus size: 63
24527772 ACTGTTCGGA
*
24527782 GTTGCGATCTTAAATCAACTAACTCAAGTGAAATTGTTCATGAGCTTAAATCAAATGAAATTAG
1 GTTGCGATCTTAAATCAACTAACTCAA-TGAAATTGTTCATGATCTTAAATCAAATGAAATTAG
* * * * * * **
24527846 GTTGCGATCTTAAATTAGCTAACCTTAATGACATCAG-TCATGATCTTAAATCAGCGA-GCTATC
1 GTTGCGATCTTAAATCAACTAA-CTCAATGAAAT-TGTTCATGATCTTAAATCA--AATGAAAT-
**
24527909 CGG
61 TAG
* *
24527912 AGTTGCGATCTTAAATCAACTAACTCAAATAAAATTGTTCATGATCTTAAA-CTAAATGAACTTA
1 -GTTGCGATCTTAAATCAACTAACTC-AATGAAATTGTTCATGATCTTAAATC-AAATGAAATTA
24527976 G
63 G
24527977 GTT
1 GTT
24527980 ATGATATTAA
Statistics
Matches: 101, Mismatches: 23, Indels: 20
0.70 0.16 0.14
Matches are distributed among these distances:
64 43 0.43
65 10 0.10
66 8 0.08
67 40 0.40
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (63 bp):
GTTGCGATCTTAAATCAACTAACTCAATGAAATTGTTCATGATCTTAAATCAAATGAAATTAG
Found at i:24527954 original size:67 final size:65
Alignment explanation
Indices: 24527756--24527962 Score: 188
Period size: 67 Copynumber: 3.1 Consensus size: 65
24527746 CTTAGGTTAC
* * *
24527756 GATCTTAAATCAACGAACTGTTCGGAGTTGCGATCTTAAATCAACTAACTCAAGTGAAATTGTTC
1 GATCTTAAATC-ACGAGCT-ATCGGAGTTGCGATCTTAAATCAACTAACTCAAATGAAATTGTTC
24527821 AT
64 AT
* * ** ** * * * * *
24527823 GAGCTTAAATCA-AATGAAATTAG-GTTGCGATCTTAAATTAGCTAAC-CTTAATGACATCAG-T
1 GATCTTAAATCACGA-GCTATCGGAGTTGCGATCTTAAATCAACTAACTC-AAATGAAAT-TGTT
24527884 CAT
63 CAT
*
24527887 GATCTTAAATCAGCGAGCTATCCGGAGTTGCGATCTTAAATCAACTAACTCAAATAAAATTGTTC
1 GATCTTAAATCA-CGAGCTAT-CGGAGTTGCGATCTTAAATCAACTAACTCAAATGAAATTGTTC
24527952 AT
64 AT
24527954 GATCTTAAA
1 GATCTTAAA
24527963 CTAAATGAAC
Statistics
Matches: 105, Mismatches: 26, Indels: 18
0.70 0.17 0.12
Matches are distributed among these distances:
63 1 0.01
64 42 0.40
65 7 0.07
66 4 0.04
67 50 0.48
68 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.31
Consensus pattern (65 bp):
GATCTTAAATCACGAGCTATCGGAGTTGCGATCTTAAATCAACTAACTCAAATGAAATTGTTCAT
Found at i:24527990 original size:95 final size:95
Alignment explanation
Indices: 24527885--24528088 Score: 275
Period size: 95 Copynumber: 2.1 Consensus size: 95
24527875 GACATCAGTC
* * * * *
24527885 ATGATCTTAAATCAGCGAGCTATCCGGAGTTGCGATCTTAAATCAACTAACTCAAATAAAATTGT
1 ATGATATTAAATCAGCGAGCTATCCAGAGCTACGATATTAAATCAACTAACTCAAATAAAATTGT
* *
24527950 TCATGATCTTAAA-CTAAATGAACTTAGGTT
66 TCATGATCTTAAATC-AAACGAACTTAGATT
* * *
24527980 ATGATATTAAACCAGCGAGCTATTCAGAGCTATGATATTAAATCAACTAACTCAAATAAAATTGT
1 ATGATATTAAATCAGCGAGCTATCCAGAGCTACGATATTAAATCAACTAACTCAAATAAAATTGT
*
24528045 TCATGATCTTGAATCAAACGAACTTAGATT
66 TCATGATCTTAAATCAAACGAACTTAGATT
**
24528075 GCGATATTAAATCA
1 ATGATATTAAATCA
24528089 ACTAACCTTA
Statistics
Matches: 94, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
95 93 0.99
96 1 0.01
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (95 bp):
ATGATATTAAATCAGCGAGCTATCCAGAGCTACGATATTAAATCAACTAACTCAAATAAAATTGT
TCATGATCTTAAATCAAACGAACTTAGATT
Found at i:24528086 original size:64 final size:63
Alignment explanation
Indices: 24528013--24528224 Score: 178
Period size: 64 Copynumber: 3.3 Consensus size: 63
24528003 TCAGAGCTAT
*
24528013 GATATTAAATCAACTAACTCAAATAAAATTGTTCATGATCTTGAATCAAACGAACTTAGATTGC
1 GATATTAAATCAACTAACTCAAATAAAATTGTTCATGATCTTAAATCAAA-GAACTTAGATTGC
* * * * * * *** *
24528077 GATATTAAATCAACTAAC-CTTAATGATATCAGTTGC--GATCTTAAATTAGTGAGTTGTTTGGA
1 GATATTAAATCAACTAACTC-AAATAAAAT-TGTT-CATGATCTTAAATCA--AAG-AACTTAGA
24528139 GTTGC
60 -TTGC
* * * *
24528144 GATATTAAATCAGCTAACTCAAATAAAATTTTTCATGATCTTAAATCAAATGAACTTAGGTTAC
1 GATATTAAATCAACTAACTCAAATAAAATTGTTCATGATCTTAAATCAAA-GAACTTAGATTGC
*
24528208 GATATTAAATCAGCTAA
1 GATATTAAATCAACTAA
24528225 TCTTAATGAT
Statistics
Matches: 112, Mismatches: 25, Indels: 22
0.70 0.16 0.14
Matches are distributed among these distances:
63 1 0.01
64 54 0.48
65 9 0.08
66 9 0.08
67 38 0.34
68 1 0.01
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.34
Consensus pattern (63 bp):
GATATTAAATCAACTAACTCAAATAAAATTGTTCATGATCTTAAATCAAAGAACTTAGATTGC
Found at i:24528096 original size:226 final size:226
Alignment explanation
Indices: 24527691--24528221 Score: 704
Period size: 226 Copynumber: 2.3 Consensus size: 226
24527681 ATATTAGCTA
* * *
24527691 CGATCTTAAATCAGCTAGCTTAAATAAAATTATTCATGGTCTTAAATCAAATGAACTTAGGTTAC
1 CGATCTTAAATCAGCTAACTCAAATAAAATTATTCATGATCTTAAATCAAATGAACTTAGGTTAC
* * * * * * * * *
24527756 GATCTTAAATCAACGAACTGTTCGGAGTTGCGATCTTAAATCAACTAACTCAAGTGAAATTGTTC
66 GATATTAAATCAGCGAACTATTCAGAGCTACGATATTAAATCAACTAACTCAAATAAAATTGTTC
* * * * *
24527821 ATGAGCTTAAATCAAATGAAATTAGGTTGCGATCTTAAATTAGCTAACCTTAATGACATCAGTCA
131 ATGAGCTTAAATCAAACGAAATTAGATTGCGATATTAAATCAACTAACCTTAATGACATCAGTCA
*
24527886 TGATCTTAAATCAGCGAGCTATCCGGAGTTG
196 CGATCTTAAATCAGCGAGCTATCCGGAGTTG
* *
24527917 CGATCTTAAATCAACTAACTCAAATAAAATTGTTCATGATCTTAAA-CTAAATGAACTTAGGTTA
1 CGATCTTAAATCAGCTAACTCAAATAAAATTATTCATGATCTTAAATC-AAATGAACTTAGGTTA
* * * *
24527981 TGATATTAAACCAGCGAGCTATTCAGAGCTATGATATTAAATCAACTAACTCAAATAAAATTGTT
65 CGATATTAAATCAGCGAACTATTCAGAGCTACGATATTAAATCAACTAACTCAAATAAAATTGTT
* * * * *
24528046 CATGATCTTGAATCAAACGAACTTAGATTGCGATATTAAATCAACTAACCTTAATGATATCAGTT
130 CATGAGCTTAAATCAAACGAAATTAGATTGCGATATTAAATCAACTAACCTTAATGACATCAGTC
* * * * * **
24528111 GCGATCTTAAATTAGTGAGTTGTTTGGAGTTG
195 ACGATCTTAAATCAGCGAGCTATCCGGAGTTG
* *
24528143 CGATATTAAATCAGCTAACTCAAATAAAATTTTTCATGATCTTAAATCAAATGAACTTAGGTTAC
1 CGATCTTAAATCAGCTAACTCAAATAAAATTATTCATGATCTTAAATCAAATGAACTTAGGTTAC
24528208 GATATTAAATCAGC
66 GATATTAAATCAGC
24528222 TAATCTTAAT
Statistics
Matches: 262, Mismatches: 41, Indels: 4
0.85 0.13 0.01
Matches are distributed among these distances:
225 1 0.00
226 260 0.99
227 1 0.00
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (226 bp):
CGATCTTAAATCAGCTAACTCAAATAAAATTATTCATGATCTTAAATCAAATGAACTTAGGTTAC
GATATTAAATCAGCGAACTATTCAGAGCTACGATATTAAATCAACTAACTCAAATAAAATTGTTC
ATGAGCTTAAATCAAACGAAATTAGATTGCGATATTAAATCAACTAACCTTAATGACATCAGTCA
CGATCTTAAATCAGCGAGCTATCCGGAGTTG
Found at i:24528170 original size:131 final size:131
Alignment explanation
Indices: 24528013--24528313 Score: 449
Period size: 131 Copynumber: 2.3 Consensus size: 131
24528003 TCAGAGCTAT
* * *
24528013 GATATTAAATCAACTAACTCAAATAAAATTGTTCATGATCTTGAATCAAACGAACTTAGATTGCG
1 GATATTAAATCAGCTAACTCAAATAAAATTGTTCATGATCTTAAATCAAACGAACTTAGATTACG
* * * * * * *
24528078 ATATTAAATCAACTAACCTTAATGATATCAGTTGCGATCTTAAATTAGTGAGTTGTTTGGAGTTG
66 ATATTAAATCAACTAACCTTAATGATATCAGCTGCAATATTAAATCAGCGAGTTGTTCGGAGATG
24528143 C
131 C
* * *
24528144 GATATTAAATCAGCTAACTCAAATAAAATTTTTCATGATCTTAAATCAAATGAACTTAGGTTACG
1 GATATTAAATCAGCTAACTCAAATAAAATTGTTCATGATCTTAAATCAAACGAACTTAGATTACG
* *
24528209 ATATTAAATCAGCTAATCTTAATGATATCAGCTGCAATATTAAATCAGCGAGTTGTTCGGAGATG
66 ATATTAAATCAACTAACCTTAATGATATCAGCTGCAATATTAAATCAGCGAGTTGTTCGGAGATG
24528274 C
131 C
* *
24528275 GATCTTAAATCAGTTAACTCAAATAAAATTGTTCATGAT
1 GATATTAAATCAGCTAACTCAAATAAAATTGTTCATGAT
24528314 AGATAAAATA
Statistics
Matches: 152, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
131 152 1.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (131 bp):
GATATTAAATCAGCTAACTCAAATAAAATTGTTCATGATCTTAAATCAAACGAACTTAGATTACG
ATATTAAATCAACTAACCTTAATGATATCAGCTGCAATATTAAATCAGCGAGTTGTTCGGAGATG
C
Found at i:24529427 original size:14 final size:15
Alignment explanation
Indices: 24529408--24529436 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
24529398 AAGCACACCC
24529408 TCTAAC-ATGATATA
1 TCTAACTATGATATA
24529422 TCTAACTATGATATA
1 TCTAACTATGATATA
24529437 ATAAAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.38
Consensus pattern (15 bp):
TCTAACTATGATATA
Found at i:24534439 original size:16 final size:17
Alignment explanation
Indices: 24534411--24534455 Score: 60
Period size: 15 Copynumber: 2.8 Consensus size: 17
24534401 TTGGTAAGAA
24534411 TATTATATATTTTTAATG
1 TATTAT-TATTTTTAATG
24534429 T-TTATTA-TTTTAATG
1 TATTATTATTTTTAATG
24534444 TATT-TTATTTTT
1 TATTATTATTTTT
24534456 TCTGATTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 12 0.48
16 8 0.32
17 4 0.16
18 1 0.04
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (17 bp):
TATTATTATTTTTAATG
Found at i:24534577 original size:12 final size:12
Alignment explanation
Indices: 24534555--24534581 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
24534545 ATATTTTTGT
24534555 AATATTTTTTAA
1 AATATTTTTTAA
24534567 AATATTTTTTAA
1 AATATTTTTTAA
24534579 AAT
1 AAT
24534582 TTGAATTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
AATATTTTTTAA
Found at i:24537136 original size:3 final size:3
Alignment explanation
Indices: 24537128--24537155 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
24537118 GAGATCTATA
24537128 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
24537156 TAAATTTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:24539264 original size:17 final size:17
Alignment explanation
Indices: 24539242--24539276 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
24539232 ACACTTTAAG
24539242 GCAACGGGTTGTATGTA
1 GCAACGGGTTGTATGTA
24539259 GCAACGGGTTGTATGTA
1 GCAACGGGTTGTATGTA
24539276 G
1 G
24539277 GCACACAGTC
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:0.23, C:0.11, G:0.37, T:0.29
Consensus pattern (17 bp):
GCAACGGGTTGTATGTA
Found at i:24545487 original size:41 final size:41
Alignment explanation
Indices: 24545431--24545548 Score: 155
Period size: 41 Copynumber: 2.9 Consensus size: 41
24545421 TATTGTTGAC
* *
24545431 TTGCACATACATGCCCCTATTTGTACTTCGGTACCCCTGAA
1 TTGCAAATACATGCCCCTATTTGTACTTCGGTACCCCTAAA
* * * *
24545472 TTGCATATACTTGCCCCTATTTGTATTTCGGTATCCCTAAA
1 TTGCAAATACATGCCCCTATTTGTACTTCGGTACCCCTAAA
* * *
24545513 TTGCAAATACATGCTCCTGTTTGTACTTTGGTACCC
1 TTGCAAATACATGCCCCTATTTGTACTTCGGTACCC
24545549 ATGTATGTAC
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 65 1.00
ACGTcount: A:0.21, C:0.27, G:0.14, T:0.37
Consensus pattern (41 bp):
TTGCAAATACATGCCCCTATTTGTACTTCGGTACCCCTAAA
Found at i:24546018 original size:66 final size:66
Alignment explanation
Indices: 24545912--24546041 Score: 179
Period size: 66 Copynumber: 2.0 Consensus size: 66
24545902 TTATTGCATT
* * * *
24545912 AATGTCGCTATATGAGTTAATTCTAGATTGCGTTCAGAATTGTCGCCGCACCTGACAGATGTCCA
1 AATGTCGCTACATGAGTTAATTCCAAATTGCGTCCAGAATTGTCGCCGCACCTGACAGATGTCCA
24545977 C
66 C
* * * * *
24545978 AATGTCGCTGCATGGGTTAATTCCAAATTGTGTCCAGAATTGTCGCCGCACCTGATAGCTGTCC
1 AATGTCGCTACATGAGTTAATTCCAAATTGCGTCCAGAATTGTCGCCGCACCTGACAGATGTCC
24546042 GGATAAGAAC
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
66 55 1.00
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (66 bp):
AATGTCGCTACATGAGTTAATTCCAAATTGCGTCCAGAATTGTCGCCGCACCTGACAGATGTCCA
C
Found at i:24553844 original size:41 final size:40
Alignment explanation
Indices: 24553798--24553960 Score: 173
Period size: 41 Copynumber: 4.0 Consensus size: 40
24553788 AATATTTTTG
* * * *
24553798 AATTGCACATACGTGCTCCTGTTTGTACTTTGGCACCCATA
1 AATTGCACATACGTGCCCCTGTTTGCACTTCGGTACCC-TA
* *
24553839 AATTGCACATACTTGCCCCTATTTGCACTTCGGTACCCCTA
1 AATTGCACATACGTGCCCCTGTTTGCACTTCGGTA-CCCTA
*** * * *
24553880 AATTATGCATACTTGCCCCTGTTTGCACTTCAGTACCTCTG
1 AATTGCACATACGTGCCCCTGTTTGCACTTCGGTACC-CTA
*
24553921 AATTGCACATACGTGCCCCTGTTTGTACTTCGGTATCCCT
1 AATTGCACATACGTGCCCCTGTTTGCACTTCGGTA-CCCT
24553961 GGATGTACTT
Statistics
Matches: 101, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
40 2 0.02
41 94 0.93
42 5 0.05
ACGTcount: A:0.20, C:0.30, G:0.15, T:0.34
Consensus pattern (40 bp):
AATTGCACATACGTGCCCCTGTTTGCACTTCGGTACCCTA
Found at i:24556238 original size:10 final size:11
Alignment explanation
Indices: 24556213--24556238 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
24556203 AATTATTTGT
24556213 TTTTTATTTAA
1 TTTTTATTTAA
24556224 TTTTTATTTAA
1 TTTTTATTTAA
24556235 TTTT
1 TTTT
24556239 GTTGGTATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTTATTTAA
Found at i:24558743 original size:19 final size:19
Alignment explanation
Indices: 24558706--24558743 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
24558696 CTTTTTTTCA
24558706 AATTTAATAAATTTCATTAC
1 AATTTAATAAA-TTCATTAC
24558726 AATTTAATGAAA-TCATTA
1 AATTTAAT-AAATTCATTA
24558744 AAAATTACAC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.35
20 8 0.47
21 3 0.18
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.42
Consensus pattern (19 bp):
AATTTAATAAATTCATTAC
Found at i:24558749 original size:20 final size:19
Alignment explanation
Indices: 24558705--24558746 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
24558695 TCTTTTTTTC
24558705 AAATTTAATAAATTTCATTA
1 AAATTTAATAAA-TTCATTA
*
24558725 CAATTTAATGAAA-TCATTA
1 AAATTTAAT-AAATTCATTA
24558744 AAA
1 AAA
24558747 ATTACACCGT
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
19 8 0.42
20 8 0.42
21 3 0.16
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.38
Consensus pattern (19 bp):
AAATTTAATAAATTCATTA
Found at i:24560824 original size:2 final size:2
Alignment explanation
Indices: 24560817--24560850 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
24560807 ATAAAATCTA
*
24560817 AT AT AT AT AT AT AT AT AT AT CT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24560851 TTTTATAGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24561265 original size:7 final size:7
Alignment explanation
Indices: 24561255--24561292 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
24561245 CTTGAAACCT
24561255 AACCTTG
1 AACCTTG
24561262 AACCTTG
1 AACCTTG
*
24561269 AACCTCG
1 AACCTTG
24561276 AACCTTG
1 AACCTTG
*
24561283 AATCTTG
1 AACCTTG
24561290 AAC
1 AAC
24561293 TCTAAACGGG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (7 bp):
AACCTTG
Found at i:24561279 original size:21 final size:21
Alignment explanation
Indices: 24561221--24561292 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 21
24561211 CTTGACCTCA
* *
24561221 AACCTTAAACCCCG-ACCTCTG
1 AACCTTGAACCTCGAACCT-TG
*
24561242 AAGCTTGAAACCT--AACCTTG
1 AACCTTG-AACCTCGAACCTTG
24561262 AACCTTGAACCTCGAACCTTG
1 AACCTTGAACCTCGAACCTTG
*
24561283 AATCTTGAAC
1 AACCTTGAAC
24561293 TCTAAACGGG
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
19 5 0.12
20 8 0.19
21 25 0.60
22 4 0.10
ACGTcount: A:0.32, C:0.32, G:0.12, T:0.24
Consensus pattern (21 bp):
AACCTTGAACCTCGAACCTTG
Found at i:24566081 original size:27 final size:27
Alignment explanation
Indices: 24566043--24566108 Score: 114
Period size: 27 Copynumber: 2.4 Consensus size: 27
24566033 AACAAGAAAA
24566043 AGGGAAAAACAAATAAGAGAATGGAAG
1 AGGGAAAAACAAATAAGAGAATGGAAG
*
24566070 AGGGAAAAACAAATAAGAGAATGGAGG
1 AGGGAAAAACAAATAAGAGAATGGAAG
*
24566097 AGAGAAAAACAA
1 AGGGAAAAACAA
24566109 GCGAAAGAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.61, C:0.05, G:0.29, T:0.06
Consensus pattern (27 bp):
AGGGAAAAACAAATAAGAGAATGGAAG
Found at i:24567812 original size:33 final size:32
Alignment explanation
Indices: 24567748--24567823 Score: 98
Period size: 33 Copynumber: 2.3 Consensus size: 32
24567738 TTAAAATTTG
* *
24567748 GGCCCACACGGCCCAAAATGGCTTGCCCATGT
1 GGCCCACATGGCCCAAAATGGCTAGCCCATGT
* *
24567780 GGCCCACATGGCCTAAATTGGCCTAGCCCATGT
1 GGCCCACATGGCCCAAAATGG-CTAGCCCATGT
*
24567813 GGTCCACATGG
1 GGCCCACATGG
24567824 GCGTGTGAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
32 18 0.47
33 20 0.53
ACGTcount: A:0.21, C:0.34, G:0.26, T:0.18
Consensus pattern (32 bp):
GGCCCACATGGCCCAAAATGGCTAGCCCATGT
Found at i:24568472 original size:5 final size:5
Alignment explanation
Indices: 24568458--24568494 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
24568448 AAATTTGGGA
24568458 AAAAT AAAA- ATAAA- AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT A-AAAT AAAAT AAAAT AAAAT AAAAT AAA
24568495 CTAACACAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 4 0.13
5 26 0.87
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:24569391 original size:20 final size:20
Alignment explanation
Indices: 24569366--24569406 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
24569356 AATTGCTCGG
24569366 AGTTTACGGTTTGTATTTCT
1 AGTTTACGGTTTGTATTTCT
24569386 AGTTTACGGTTTGTATTTCT
1 AGTTTACGGTTTGTATTTCT
24569406 A
1 A
24569407 TAATGCAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.17, C:0.10, G:0.20, T:0.54
Consensus pattern (20 bp):
AGTTTACGGTTTGTATTTCT
Found at i:24594646 original size:16 final size:16
Alignment explanation
Indices: 24594625--24594656 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
24594615 AAAATCAAGA
*
24594625 ATTACAAAGTCAGCAG
1 ATTACAAAATCAGCAG
24594641 ATTACAAAATCAGCAG
1 ATTACAAAATCAGCAG
24594657 GAAAGATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.19, G:0.16, T:0.19
Consensus pattern (16 bp):
ATTACAAAATCAGCAG
Found at i:24599418 original size:41 final size:41
Alignment explanation
Indices: 24599362--24599633 Score: 330
Period size: 41 Copynumber: 6.6 Consensus size: 41
24599352 AATTATTCTA
* *
24599362 TGAATTGCGCATACGTGCCCCTGTTTGTACTTCGGTACCCA
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
*
24599403 TGAATTGCACATACGTGACCCTGTTTGTACTTCGGTACCCC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* *** * *
24599444 TGAATTGCATATGTATGCCCCTATTTGTACATT-GATACCCC
1 TGAATTGCACATACGTGCCCCTGTTTGTAC-TTCGGTACCCC
* * **
24599485 TAAATTGCACATGCGTGCCCCTGCCTGTACTTCGGTACCCC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * *
24599526 TGAATTACACTTATGTGCCCCTGTTTGTACTTCGGTACCCC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * * *
24599567 AGAATTGCACTTGCGTACCCCTGTTTGTACTTCGATACCCC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
*
24599608 TGAATTGCACTTACGTGCCCCTGTTT
1 TGAATTGCACATACGTGCCCCTGTTT
24599634 ACACTCTGGT
Statistics
Matches: 195, Mismatches: 34, Indels: 4
0.84 0.15 0.02
Matches are distributed among these distances:
40 2 0.01
41 191 0.98
42 2 0.01
ACGTcount: A:0.19, C:0.30, G:0.18, T:0.33
Consensus pattern (41 bp):
TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
Found at i:24599578 original size:21 final size:21
Alignment explanation
Indices: 24599513--24599619 Score: 94
Period size: 21 Copynumber: 5.2 Consensus size: 21
24599503 CCCTGCCTGT
*
24599513 ACTTCGGTACCCCTGAATTAC
1 ACTTCGGTACCCCTGAATTGC
** * * *
24599534 ACTTATGTGCCCCTG-TTTGT
1 ACTTCGGTACCCCTGAATTGC
*
24599554 ACTTCGGTACCCCAGAATTGC
1 ACTTCGGTACCCCTGAATTGC
* *
24599575 ACTT-GCGTACCCCTG-TTTGT
1 ACTTCG-GTACCCCTGAATTGC
*
24599595 ACTTCGATACCCCTGAATTGC
1 ACTTCGGTACCCCTGAATTGC
24599616 ACTT
1 ACTT
24599620 ACGTGCCCCT
Statistics
Matches: 64, Mismatches: 18, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
20 29 0.45
21 35 0.55
ACGTcount: A:0.19, C:0.31, G:0.17, T:0.34
Consensus pattern (21 bp):
ACTTCGGTACCCCTGAATTGC
Found at i:24600693 original size:22 final size:22
Alignment explanation
Indices: 24600665--24600710 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
24600655 ATTATATTTA
*
24600665 TTAATTTATAATATAA-TTAATT
1 TTAATTTAT-ATACAATTTAATT
24600687 TTAATTTATATACAATTTAATT
1 TTAATTTATATACAATTTAATT
24600709 TT
1 TT
24600711 GGTTAATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
TTAATTTATATACAATTTAATT
Found at i:24603709 original size:25 final size:25
Alignment explanation
Indices: 24603675--24603724 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
24603665 TATCAAGTTT
24603675 GAAAATAAGCAAATTGGTTTCTTTC
1 GAAAATAAGCAAATTGGTTTCTTTC
24603700 GAAAATAAGCAAATTGGTTTCTTTC
1 GAAAATAAGCAAATTGGTTTCTTTC
24603725 TCAACAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (25 bp):
GAAAATAAGCAAATTGGTTTCTTTC
Found at i:24605207 original size:10 final size:9
Alignment explanation
Indices: 24605179--24605223 Score: 54
Period size: 10 Copynumber: 4.6 Consensus size: 9
24605169 TTTTTTATAC
24605179 TTTAATTAACA
1 TTTAATT-A-A
24605190 TTTAATTAA
1 TTTAATTAA
24605199 TTATAATTAA
1 TT-TAATTAA
24605209 TTTAATTTAA
1 TTTAA-TTAA
24605219 TTTAA
1 TTTAA
24605224 GTAGTTAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
9 6 0.19
10 19 0.59
11 7 0.22
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (9 bp):
TTTAATTAA
Found at i:24607803 original size:17 final size:18
Alignment explanation
Indices: 24607771--24607806 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
24607761 CAAAATAATT
*
24607771 TAAAATGATTTTTAAAAA
1 TAAAATGATTTATAAAAA
24607789 TAAAAT-ATTTATAAAAA
1 TAAAATGATTTATAAAAA
24607806 T
1 T
24607807 TCTAAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (18 bp):
TAAAATGATTTATAAAAA
Found at i:24608696 original size:3 final size:3
Alignment explanation
Indices: 24608688--24608714 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
24608678 TGCATGATGT
24608688 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
24608715 ATGACATAAA
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:24617110 original size:16 final size:15
Alignment explanation
Indices: 24617083--24617116 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
24617073 ATAACTAGTA
*
24617083 TATAATTATATTTAT
1 TATAATTATATTAAT
24617098 TATAATATATATTAAT
1 TATAAT-TATATTAAT
24617114 TAT
1 TAT
24617117 TATCAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:24617863 original size:17 final size:18
Alignment explanation
Indices: 24617834--24617868 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
24617824 TTCTCCTAAA
*
24617834 TTTCAATTTTATTTAATT
1 TTTCAATTTTATTGAATT
24617852 TTTCAA-TTTATTGAATT
1 TTTCAATTTTATTGAATT
24617869 GTTAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.63
Consensus pattern (18 bp):
TTTCAATTTTATTGAATT
Found at i:24619595 original size:27 final size:26
Alignment explanation
Indices: 24619572--24619813 Score: 211
Period size: 27 Copynumber: 9.0 Consensus size: 26
24619562 AAAGGTATAA
24619572 CAGTCATTTTACCCTATGAGGGTATTT
1 CAGTCATTTTACCCTAT-AGGGTATTT
* *
24619599 CGGTCATTTTAACCTATAGGGGTATTT
1 CAGTCATTTTACCCTATA-GGGTATTT
*
24619626 CAGTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTAT-AGGGTATTT
** *
24619653 TGGTCATTTTACCCTGTAGGGTATTT
1 CAGTCATTTTACCCTATAGGGTATTT
24619679 C-GATCATTTTACCCTATAGGGGTATTT
1 CAG-TCATTTTACCCTATA-GGGTATTT
* * ** **
24619706 CGGTCATTCTATTCTATGAGAATATTT
1 CAGTCATTTTACCCTAT-AGGGTATTT
*
24619733 CAATCATTTTACCCTATAGGGGTATTT
1 CAGTCATTTTACCCTATA-GGGTATTT
* *
24619760 -TGATAATTTTACCCTATGAGGGTATTT
1 CAG-TCATTTTACCCTAT-AGGGTATTT
* *
24619787 C-GATCATTTTATCCTATGGGGGTATTT
1 CAG-TCATTTTACCCTAT-AGGGTATTT
24619814 AGGTTATGAT
Statistics
Matches: 176, Mismatches: 29, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
25 1 0.01
26 24 0.14
27 148 0.84
28 3 0.02
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.43
Consensus pattern (26 bp):
CAGTCATTTTACCCTATAGGGTATTT
Found at i:24619623 original size:54 final size:53
Alignment explanation
Indices: 24619572--24619813 Score: 249
Period size: 54 Copynumber: 4.5 Consensus size: 53
24619562 AAAGGTATAA
24619572 CAGTCATTTTACCCTATGAGGGTATTTCGGTCATTTTAACCTATAGGGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTTCGGTCATTTTAACCTATA-GGGTATTT
* * * *
24619626 CAGTCATTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTGTAGGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTTCGGTCATTTTAACCTATAGGGTATTT
* ** **
24619679 C-GATCATTTTACCCTAT-AGGGGTATTTCGGTCATTCTATTCTATGAGAATATTT
1 CAG-TCATTTTACCCTATGA-GGGTATTTCGGTCATTTTAACCTAT-AGGGTATTT
* * * * *
24619733 CAATCATTTTACCCTAT-AGGGGTATTTTGATAATTTTACCCTATGAGGGTATTT
1 CAGTCATTTTACCCTATGA-GGGTATTTCGGTCATTTTAACCTAT-AGGGTATTT
* *
24619787 C-GATCATTTTATCCTATGGGGGTATTT
1 CAG-TCATTTTACCCTATGAGGGTATTT
24619814 AGGTTATGAT
Statistics
Matches: 158, Mismatches: 24, Indels: 12
0.81 0.12 0.06
Matches are distributed among these distances:
52 1 0.01
53 43 0.27
54 114 0.72
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.43
Consensus pattern (53 bp):
CAGTCATTTTACCCTATGAGGGTATTTCGGTCATTTTAACCTATAGGGTATTT
Found at i:24619704 original size:107 final size:107
Alignment explanation
Indices: 24619575--24619813 Score: 329
Period size: 107 Copynumber: 2.2 Consensus size: 107
24619565 GGTATAACAG
* ** *
24619575 TCATTTTACCCTATGAGGGTATTTCGGTCATTTTAACCTAT-AGGGGTATTTCAGTCATTTTACC
1 TCATTTTACCCTATG-GGGTATTTCGGTCATTCTAACCTATGA-GAATATTTCAATCATTTTACC
* * * *
24619639 CTATGGGGGTATTTTGGTCATTTTACCCTGT-AGGGTATTTCGA
64 CTATAGGGGTATTTTGATAATTTTACCCTATGAGGGTATTTCGA
**
24619682 TCATTTTACCCTATAGGGGTATTTCGGTCATTCTATTCTATGAGAATATTTCAATCATTTTACCC
1 TCATTTTACCCTAT-GGGGTATTTCGGTCATTCTAACCTATGAGAATATTTCAATCATTTTACCC
24619747 TATAGGGGTATTTTGATAATTTTACCCTATGAGGGTATTTCGA
65 TATAGGGGTATTTTGATAATTTTACCCTATGAGGGTATTTCGA
*
24619790 TCATTTTATCCTATGGGGGTATTT
1 TCATTTTACCCTAT-GGGGTATTT
24619814 AGGTTATGAT
Statistics
Matches: 117, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
107 81 0.69
108 36 0.31
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.43
Consensus pattern (107 bp):
TCATTTTACCCTATGGGGTATTTCGGTCATTCTAACCTATGAGAATATTTCAATCATTTTACCCT
ATAGGGGTATTTTGATAATTTTACCCTATGAGGGTATTTCGA
Found at i:24619794 original size:81 final size:80
Alignment explanation
Indices: 24619575--24619804 Score: 257
Period size: 80 Copynumber: 2.9 Consensus size: 80
24619565 GGTATAACAG
* * * * *
24619575 TCATTTTACCCTATGAGGGTATTTCGGTCATTTTAACCTATAGGGGTATTTC-AGTCATTTTACC
1 TCATTTTACCCTAT-AGGGTATTTCGATAATTTTACCCTATAGGGGTATTTCGA-TCATTCTATC
* ** ***
24619639 CTATGGGGGTATTTTGG
64 CTATGAGAATATTTCAA
* * * *
24619656 TCATTTTACCCTGTAGGGTATTTCGATCATTTTACCCTATAGGGGTATTTCGGTCATTCTATTCT
1 TCATTTTACCCTATAGGGTATTTCGATAATTTTACCCTATAGGGGTATTTCGATCATTCTATCCT
24619721 ATGAGAATATTTCAA
66 ATGAGAATATTTCAA
* *
24619736 TCATTTTACCCTATAGGGGTATTTTGATAATTTTACCCTAT-GAGGGTATTTCGATCATTTTATC
1 TCATTTTACCCTATA-GGGTATTTCGATAATTTTACCCTATAG-GGGTATTTCGATCATTCTATC
24619800 CTATG
64 CTATG
24619805 GGGGTATTTA
Statistics
Matches: 127, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
80 68 0.54
81 59 0.46
ACGTcount: A:0.22, C:0.17, G:0.18, T:0.43
Consensus pattern (80 bp):
TCATTTTACCCTATAGGGTATTTCGATAATTTTACCCTATAGGGGTATTTCGATCATTCTATCCT
ATGAGAATATTTCAA
Found at i:24628716 original size:25 final size:25
Alignment explanation
Indices: 24628660--24628749 Score: 94
Period size: 25 Copynumber: 3.6 Consensus size: 25
24628650 AAGGTTACCA
* * *
24628660 ATTCTAGCTCTTATGAGCTTACTGAT
1 ATTC-AGCTCGTATGAGCTTACCGTT
*
24628686 ACTCAGCTCGTATGAGCTTACCGTT
1 ATTCAGCTCGTATGAGCTTACCGTT
* *
24628711 ATTCAGCTCGAAGGAGCTTACCGTT
1 ATTCAGCTCGTATGAGCTTACCGTT
24628736 -TAT-AGCTCGTATGA
1 AT-TCAGCTCGTATGA
24628750 ACATACATGT
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
24 10 0.19
25 41 0.76
26 3 0.06
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.34
Consensus pattern (25 bp):
ATTCAGCTCGTATGAGCTTACCGTT
Found at i:24632840 original size:13 final size:13
Alignment explanation
Indices: 24632824--24632848 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24632814 TCTGCTGGAA
24632824 AAATGATAGTTGC
1 AAATGATAGTTGC
24632837 AAATGATAGTTG
1 AAATGATAGTTG
24632849 TAGGTTTTGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.04, G:0.24, T:0.32
Consensus pattern (13 bp):
AAATGATAGTTGC
Found at i:24639166 original size:13 final size:13
Alignment explanation
Indices: 24639148--24639172 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24639138 AATATTGGAA
24639148 ATTTTAATATTTG
1 ATTTTAATATTTG
24639161 ATTTTAATATTT
1 ATTTTAATATTT
24639173 TCAAATTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
ATTTTAATATTTG
Done.