Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 40 of 322
Found at i:11961689 original size:21 final size:19
Alignment explanation
Indices: 11961649--11961696 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
11961639 TATATGTTAT
11961649 AAAATAAAGAGAGATGGAG
1 AAAATAAAGAGAGATGGAG
*
11961668 AAAATAAAGAGAGATTGAG
1 AAAATAAAGAGAGATGGAG
*
11961687 AGAATAAAGA
1 AAAATAAAGA
11961697 ACAAAGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.60, C:0.00, G:0.27, T:0.12
Consensus pattern (19 bp):
AAAATAAAGAGAGATGGAG
Found at i:11962806 original size:17 final size:19
Alignment explanation
Indices: 11962764--11962807 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
11962754 ATGAAATTTT
*
11962764 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
11962783 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
11962801 AA-TATTA
1 AATTATTA
11962808 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:11965177 original size:79 final size:79
Alignment explanation
Indices: 11965046--11965204 Score: 273
Period size: 79 Copynumber: 2.0 Consensus size: 79
11965036 AAATGGGCCC
*
11965046 AACTGTGTTAATATGGGCAAGGCCCAATATATCCCGACTTGCAATAGGGCTACAGCCCAGATTAA
1 AACTGTGTTAATATGGGCAAGGCCCAATATATCCCGACTTGCAACAGGGCTACAGCCCAGATTAA
*
11965111 TACTGATATGGGCT
66 TACTAATATGGGCT
* * *
11965125 AACTGTGTTAATATGGGCAAGGCCCAATATATCTCGACTTGTAACAGGGCTACGGCCCAGATTAA
1 AACTGTGTTAATATGGGCAAGGCCCAATATATCCCGACTTGCAACAGGGCTACAGCCCAGATTAA
11965190 TACTAATATGGGCT
66 TACTAATATGGGCT
11965204 A
1 A
11965205 GGCCCAGTAT
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
79 75 1.00
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.26
Consensus pattern (79 bp):
AACTGTGTTAATATGGGCAAGGCCCAATATATCCCGACTTGCAACAGGGCTACAGCCCAGATTAA
TACTAATATGGGCT
Found at i:11965208 original size:60 final size:59
Alignment explanation
Indices: 11965133--11965283 Score: 155
Period size: 60 Copynumber: 2.5 Consensus size: 59
11965123 CTAACTGTGT
*
11965133 TAATATGGGCAAGGCCCAATATA-TCTCGACT-TGTAACAGGGCTACGGCCCAGATTAATAC
1 TAATATGGGCTAGGCCCAATATACTCT-GA-TATGTAA-AGGGCTACGGCCCAGATTAATAC
* * * * *
11965193 TAATATGGGCTAGGCCCAGTATACTCTGATACTGTAAGGGGCTATGGCCTAGATTAATAT
1 TAATATGGGCTAGGCCCAATATACTCTGATA-TGTAAAGGGCTACGGCCCAGATTAATAC
**
11965253 TGTTATGGGCTAAGGCCCAA-ATAACTCTGAT
1 TAATATGGGCT-AGGCCCAATAT-ACTCTGAT
11965284 TTTTAAATAG
Statistics
Matches: 77, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
59 1 0.01
60 53 0.69
61 23 0.30
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (59 bp):
TAATATGGGCTAGGCCCAATATACTCTGATATGTAAAGGGCTACGGCCCAGATTAATAC
Found at i:11970082 original size:9 final size:8
Alignment explanation
Indices: 11970064--11970111 Score: 51
Period size: 8 Copynumber: 5.8 Consensus size: 8
11970054 ATAATTAGAG
11970064 TTAAAATT
1 TTAAAATT
11970072 TTAATAATT
1 TTAA-AATT
*
11970081 TTAAAAGT
1 TTAAAATT
**
11970089 AGAAAATT
1 TTAAAATT
11970097 TTAATAATT
1 TTAA-AATT
11970106 TTAAAA
1 TTAAAA
11970112 GTAGAAGTAT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
8 16 0.50
9 16 0.50
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (8 bp):
TTAAAATT
Found at i:11970094 original size:25 final size:25
Alignment explanation
Indices: 11970066--11970117 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
11970056 AATTAGAGTT
11970066 AAAATTTTAATAATTTTAAAAGTAG
1 AAAATTTTAATAATTTTAAAAGTAG
11970091 AAAATTTTAATAATTTTAAAAGTAG
1 AAAATTTTAATAATTTTAAAAGTAG
11970116 AA
1 AA
11970118 GTATAATTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (25 bp):
AAAATTTTAATAATTTTAAAAGTAG
Found at i:11971642 original size:44 final size:40
Alignment explanation
Indices: 11971532--11971642 Score: 125
Period size: 40 Copynumber: 2.7 Consensus size: 40
11971522 TAACGACTTA
* **
11971532 TCGGCTAAAA-TGACACTTAGTGTGCGGTTTGAAATAGCT
1 TCGGCTAAAAGTGGCACTTAGTGTGCAATTTGAAATAGCT
* *
11971571 TCGGCTAAAAGTGGCACTTGGTGTGCAATTTGAGATAGCT
1 TCGGCTAAAAGTGGCACTTAGTGTGCAATTTGAAATAGCT
*
11971611 TTGGCTATATATATGTGGCACTTAGTGTGCAA
1 TCGGCTA-A-A-A-GTGGCACTTAGTGTGCAA
11971643 AGTATCGAGG
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
39 10 0.17
40 30 0.50
41 1 0.02
42 1 0.02
43 1 0.02
44 17 0.28
ACGTcount: A:0.26, C:0.14, G:0.27, T:0.32
Consensus pattern (40 bp):
TCGGCTAAAAGTGGCACTTAGTGTGCAATTTGAAATAGCT
Found at i:11971675 original size:28 final size:28
Alignment explanation
Indices: 11971626--11971699 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
11971616 TATATATATG
* *
11971626 TGGCACTTAGTGTGCAAAGTATCGAGGA
1 TGGCACTTAGTGTGCGAGGTATCGAGGA
* *
11971654 TGGCACTTAGTGTGCGAGGTATTGAGTA
1 TGGCACTTAGTGTGCGAGGTATCGAGGA
* * *
11971682 TGGTACATAGTATGCGAG
1 TGGCACTTAGTGTGCGAG
11971700 ACATCGAAGA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.26, C:0.12, G:0.34, T:0.28
Consensus pattern (28 bp):
TGGCACTTAGTGTGCGAGGTATCGAGGA
Found at i:11973723 original size:25 final size:24
Alignment explanation
Indices: 11973683--11973756 Score: 61
Period size: 23 Copynumber: 3.2 Consensus size: 24
11973673 AGATGATTAT
*
11973683 ATATAAAATT-TT-AATAAATAAAA
1 ATATATAATTATTAAAT-AATAAAA
*
11973706 ATATATAATTATTAAATATTAAAA
1 ATATATAATTATTAAATAATAAAA
*
11973730 AT-TA-AATTA--AAATTAATATAA
1 ATATATAATTATTAAA-TAATAAAA
11973751 ATATAT
1 ATATAT
11973757 TTAATTTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
20 3 0.07
21 8 0.19
22 7 0.17
23 11 0.26
24 10 0.24
25 3 0.07
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (24 bp):
ATATATAATTATTAAATAATAAAA
Found at i:11977199 original size:101 final size:101
Alignment explanation
Indices: 11977024--11977224 Score: 271
Period size: 101 Copynumber: 2.0 Consensus size: 101
11977014 ATTGCTGAGG
*
11977024 AGGTTAAGCACTCTTAATGCAAAAACAGAGACCGTGAGAGGGGTAAGAGTAAAAAGGATTTGAAG
1 AGGTTAAGCACTCTTAATGCAAAAACAGAGACCATGAGAGGGGTAAGAGTAAAAAGGATTTGAAG
* * * * *
11977089 CCCTCTAGTTTTGTTTAGAGGCTTAAGAAATGAGCC
66 CCCTCTAGTTCTATTCAGAAGCCTAAGAAATGAGCC
* * * * *
11977125 AGGTTAAGCCCTCTTAATGCGAAAATAGGGACCATGAGAGGGGTAAGAG-AAAGAGGGATTT-AG
1 AGGTTAAGCACTCTTAATGCAAAAACAGAGACCATGAGAGGGGTAAGAGTAAA-AAGGATTTGA-
11977188 AGCCCTCTAGTTCTATTCAGAAGCCTAAGAAATGAGC
64 AGCCCTCTAGTTCTATTCAGAAGCCTAAGAAATGAGC
11977225 TAAGTTTGAT
Statistics
Matches: 87, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
100 4 0.05
101 83 0.95
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.22
Consensus pattern (101 bp):
AGGTTAAGCACTCTTAATGCAAAAACAGAGACCATGAGAGGGGTAAGAGTAAAAAGGATTTGAAG
CCCTCTAGTTCTATTCAGAAGCCTAAGAAATGAGCC
Found at i:11979749 original size:12 final size:12
Alignment explanation
Indices: 11979726--11979759 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
11979716 TATATTTTTT
11979726 AAAATT-ATATA
1 AAAATTAATATA
11979737 AAAATTAATATA
1 AAAATTAATATA
11979749 AAAATTAATAT
1 AAAATTAATAT
11979760 GAACGGGCCG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 6 0.27
12 16 0.73
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:11980376 original size:39 final size:39
Alignment explanation
Indices: 11980317--11980789 Score: 156
Period size: 36 Copynumber: 13.0 Consensus size: 39
11980307 CAGAAAATCT
* * * *
11980317 TATTCAATAAAATTAGTGGATAATGCTCGTTTGAGCAAGC
1 TATTCAATAGAATCAATGGATATTGCTCGTTTGAGCAA-C
* * *
11980357 -ATTCAGTATAATCAATGGATATTGCTCATTTGAGCAAC
1 TATTCAATAGAATCAATGGATATTGCTCGTTTGAGCAAC
* *
11980395 TATTCAATAGAATCAGTAGATATTGCTCGTTTGAGC-AC
1 TATTCAATAGAATCAATGGATATTGCTCGTTTGAGCAAC
* * * * * *
11980433 --TGCAGTAGAATCAGTAGACATTGCTTGTTTGAGC-AC
1 TATTCAATAGAATCAATGGATATTGCTCGTTTGAGCAAC
* ** * * *
11980469 -ATT-AAGTAGGATCGGTAGATATTGTTCG-TTGAAC-AC
1 TATTCAA-TAGAATCAATGGATATTGCTCGTTTGAGCAAC
* * *
11980505 T-TTCAGTAGAATCAGTAGATATTGCTCGTTTGAGC-A-
1 TATTCAATAGAATCAATGGATATTGCTCGTTTGAGCAAC
* * * * *
11980541 T-TTCTATAGAATTAGTAGACATTGCTCGTTTGAGC-AC
1 TATTCAATAGAATCAATGGATATTGCTCGTTTGAGCAAC
* *
11980578 -ATTC------A-C--TAGATATTGCTCG-TTAAGC-AC
1 TATTCAATAGAATCAATGGATATTGCTCGTTTGAGCAAC
* * * * *
11980605 T-TTCAGTAGAATTAGTAGATATTGCTCGTTTTAGC-AC
1 TATTCAATAGAATCAATGGATATTGCTCGTTTGAGCAAC
* * * * * * * *
11980642 T-TTCAGTAGAATTAGTAGACATTACTCATTTGAG-TAC
1 TATTCAATAGAATCAATGGATATTGCTCGTTTGAGCAAC
* * * *
11980679 -ATTCAGTAGGATCACTAGATATTGCTCG-TTGAGC-AC
1 TATTCAATAGAATCAATGGATATTGCTCGTTTGAGCAAC
* * * * *
11980715 T-TTCAGTAGTATCAGTAGATATTGCTCATTTGAGC-AC
1 TATTCAATAGAATCAATGGATATTGCTCGTTTGAGCAAC
* * * *
11980752 T-TTCAGTAAAATCAGTAGATATTGCTCGTTTGAG-AAC
1 TATTCAATAGAATCAATGGATATTGCTCGTTTGAGCAAC
11980789 T
1 T
11980790 TCGAGTAGAA
Statistics
Matches: 355, Mismatches: 53, Indels: 53
0.77 0.11 0.11
Matches are distributed among these distances:
27 10 0.03
28 12 0.03
31 1 0.00
33 1 0.00
36 137 0.39
37 130 0.37
38 3 0.01
39 61 0.17
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (39 bp):
TATTCAATAGAATCAATGGATATTGCTCGTTTGAGCAAC
Found at i:11980514 original size:73 final size:74
Alignment explanation
Indices: 11980335--11980944 Score: 587
Period size: 73 Copynumber: 8.4 Consensus size: 74
11980325 AAAATTAGTG
* * * * * *
11980335 GATAATGCTCGTTTGAGCAAGCATTCAGTATAATCAATGGATATTGCTCATTTGAGCAACTATTC
1 GATATTGCTCGTTTGAGC-A-CTTTCAGTAGAATCAGTAGATATTGCTCGTTTGAGC-ACT-TTC
*
11980400 AATAGAATCAGTA
62 AGTAGAATCAGTA
* * * * *
11980413 GATATTGCTCGTTTGAGCAC-TGCAGTAGAATCAGTAGACATTGCTTGTTTGAGCACATTAAGTA
1 GATATTGCTCGTTTGAGCACTTTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTTCAGTA
* *
11980477 GGATCGGTA
66 GAATCAGTA
* *
11980486 GATATTGTTCG-TTGAACACTTTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCA-TTTCTA-T
1 GATATTGCTCGTTTGAGCACTTTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTTC-AGT
*
11980548 AGAATTAGTA
65 AGAATCAGTA
* * *
11980558 GACATTGCTCGTTTGAGCA----CA-T----TCACTAGATATTGCTCG-TTAAGCACTTTCAGTA
1 GATATTGCTCGTTTGAGCACTTTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTTCAGTA
*
11980613 GAATTAGTA
66 GAATCAGTA
* * * * * * *
11980622 GATATTGCTCGTTTTAGCACTTTCAGTAGAATTAGTAGACATTACTCATTTGAGTACATTCAGTA
1 GATATTGCTCGTTTGAGCACTTTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTTCAGTA
* *
11980687 GGATCACTA
66 GAATCAGTA
* *
11980696 GATATTGCTCG-TTGAGCACTTTCAGTAGTATCAGTAGATATTGCTCATTTGAGCACTTTCAGTA
1 GATATTGCTCGTTTGAGCACTTTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTTCAGTA
*
11980760 AAATCAGTA
66 GAATCAGTA
* * *
11980769 GATATTGCTCGTTTGAGAAC-TTCGAGTAGAAT-AGTAGACAATGCTCGTTTGAGCACATTT-AG
1 GATATTGCTCGTTTGAGCACTTTC-AGTAGAATCAGTAGATATTGCTCGTTTGAGCAC-TTTCAG
*
11980831 TATG-ATTAGTA
64 TA-GAATCAGTA
* * ** * * *
11980842 GATATTGATTGTTTGAAAATTTTCAGAAGAATCAGTAGATATTGCTCATTTGAGCACTTTCAGTA
1 GATATTGCTCGTTTGAGCACTTTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTTCAGTA
* *
11980907 GAACCAATA
66 GAATCAGTA
11980916 GATATTGCTCG-TTGAGCACTTT-AGTAGAA
1 GATATTGCTCGTTTGAGCACTTTCAGTAGAA
11980945 CCAATATTCC
Statistics
Matches: 434, Mismatches: 75, Indels: 52
0.77 0.13 0.09
Matches are distributed among these distances:
63 7 0.02
64 48 0.11
68 3 0.01
69 3 0.01
72 32 0.07
73 205 0.47
74 90 0.21
75 27 0.06
76 1 0.00
77 1 0.00
78 17 0.04
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (74 bp):
GATATTGCTCGTTTGAGCACTTTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTTCAGTA
GAATCAGTA
Found at i:11980614 original size:27 final size:28
Alignment explanation
Indices: 11980554--11980614 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 28
11980544 CTATAGAATT
*
11980554 AGTAGACATTGCTCGTTTGAGCACATTC
1 AGTAGACATTGCTCGTTTAAGCACATTC
* * *
11980582 ACTAGATATTGCTCG-TTAAGCACTTTC
1 AGTAGACATTGCTCGTTTAAGCACATTC
11980609 AGTAGA
1 AGTAGA
11980615 ATTAGTAGAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 15 0.54
28 13 0.46
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.33
Consensus pattern (28 bp):
AGTAGACATTGCTCGTTTAAGCACATTC
Found at i:11980621 original size:64 final size:64
Alignment explanation
Indices: 11980520--11980651 Score: 187
Period size: 64 Copynumber: 2.1 Consensus size: 64
11980510 GTAGAATCAG
*
11980520 TAGATATTGCTCGTTTGAGCATTTCTATAGAATTAGTAGACATTGCTCGTTTGAGCACATTCAC
1 TAGATATTGCTCGTTTAAGCATTTCTATAGAATTAGTAGACATTGCTCGTTTGAGCACATTCAC
* * *
11980584 TAGATATTGCTCG-TTAAGCACTTTC-AGTAGAATTAGTAGATATTGCTCGTTTTAGCACTTTCA
1 TAGATATTGCTCGTTTAAGCA-TTTCTA-TAGAATTAGTAGACATTGCTCGTTTGAGCACATTCA
*
11980647 G
64 C
11980648 TAGA
1 TAGA
11980652 ATTAGTAGAC
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
63 7 0.11
64 54 0.89
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (64 bp):
TAGATATTGCTCGTTTAAGCATTTCTATAGAATTAGTAGACATTGCTCGTTTGAGCACATTCAC
Found at i:11980650 original size:37 final size:37
Alignment explanation
Indices: 11980584--11980944 Score: 396
Period size: 37 Copynumber: 9.9 Consensus size: 37
11980574 GCACATTCAC
* *
11980584 TAGATATTGCTCG-TTAAGCACTTTCAGTAGAATTAG
1 TAGATATTGCTCGTTTGAGCACTTTCAGTAGAATCAG
* *
11980620 TAGATATTGCTCGTTTTAGCACTTTCAGTAGAATTAG
1 TAGATATTGCTCGTTTGAGCACTTTCAGTAGAATCAG
* * * * * * *
11980657 TAGACATTACTCATTTGAGTACATTCAGTAGGATCAC
1 TAGATATTGCTCGTTTGAGCACTTTCAGTAGAATCAG
*
11980694 TAGATATTGCTCG-TTGAGCACTTTCAGTAGTATCAG
1 TAGATATTGCTCGTTTGAGCACTTTCAGTAGAATCAG
* *
11980730 TAGATATTGCTCATTTGAGCACTTTCAGTAAAATCAG
1 TAGATATTGCTCGTTTGAGCACTTTCAGTAGAATCAG
*
11980767 TAGATATTGCTCGTTTGAGAAC-TTCGAGTAGAAT-AG
1 TAGATATTGCTCGTTTGAGCACTTTC-AGTAGAATCAG
* * *
11980803 TAGACAATGCTCGTTTGAGCACATTT-AGTATG-ATTAG
1 TAGATATTGCTCGTTTGAGCAC-TTTCAGTA-GAATCAG
* * ** * *
11980840 TAGATATTGATTGTTTGAAAATTTTCAGAAGAATCAG
1 TAGATATTGCTCGTTTGAGCACTTTCAGTAGAATCAG
* * *
11980877 TAGATATTGCTCATTTGAGCACTTTCAGTAGAACCAA
1 TAGATATTGCTCGTTTGAGCACTTTCAGTAGAATCAG
11980914 TAGATATTGCTCG-TTGAGCACTTT-AGTAGAA
1 TAGATATTGCTCGTTTGAGCACTTTCAGTAGAA
11980945 CCAATATTCC
Statistics
Matches: 271, Mismatches: 45, Indels: 19
0.81 0.13 0.06
Matches are distributed among these distances:
35 7 0.03
36 89 0.33
37 173 0.64
38 2 0.01
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.35
Consensus pattern (37 bp):
TAGATATTGCTCGTTTGAGCACTTTCAGTAGAATCAG
Found at i:11980784 original size:110 final size:108
Alignment explanation
Indices: 11980580--11980942 Score: 417
Period size: 110 Copynumber: 3.3 Consensus size: 108
11980570 TTGAGCACAT
* * *
11980580 TCACTAGATATTGCTCGTTAAGCACTTTCAGTAGAATTAGTAGATATTGCTCGTTTTAGCACTTT
1 TCACTAGATATTGCTCGTTGAGCACTTT-AGTAGTATTAGTAGATATTGCTCGTTTGAGCACTTT
* * * * * *
11980645 CAGTAGAATTAGTAGACATTACTCATTTGAGTACATTCAGTAGGA
65 CAGTAAAATCAGTAGATATTGCTCATTTGAGAAC-TTCAGTAGAA
* *
11980690 TCACTAGATATTGCTCGTTGAGCACTTTCAGTAGTATCAGTAGATATTGCTCATTTGAGCACTTT
1 TCACTAGATATTGCTCGTTGAGCACTTT-AGTAGTATTAGTAGATATTGCTCGTTTGAGCACTTT
*
11980755 CAGTAAAATCAGTAGATATTGCTCGTTTGAGAACTTCGAGTAGAA
65 CAGTAAAATCAGTAGATATTGCTCATTTGAGAACTTC-AGTAGAA
* * * * * ** *
11980800 T-AGTAGACAATGCTCGTTTGAGCACATTTAGTA-TGATTAGTAGATATTGATTGTTTGAAAATT
1 TCACTAGATATTGCTCG-TTGAGCAC-TTTAGTAGT-ATTAGTAGATATTGCTCGTTTGAGCACT
*
11980863 TTCAG-AAGAATCAGTAGATATTGCTCATTTGAGCACTTTCAGTAGAA
63 TTCAGTAA-AATCAGTAGATATTGCTCATTTGAGAAC-TTCAGTAGAA
* *
11980910 CCAATAGATATTGCTCGTTGAGCACTTTAGTAG
1 TCACTAGATATTGCTCGTTGAGCACTTTAGTAG
11980943 AACCAATATT
Statistics
Matches: 217, Mismatches: 28, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
109 25 0.12
110 174 0.80
111 18 0.08
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.36
Consensus pattern (108 bp):
TCACTAGATATTGCTCGTTGAGCACTTTAGTAGTATTAGTAGATATTGCTCGTTTGAGCACTTTC
AGTAAAATCAGTAGATATTGCTCATTTGAGAACTTCAGTAGAA
Found at i:11981287 original size:29 final size:30
Alignment explanation
Indices: 11981242--11981309 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
11981232 TGGCCCAAGA
* * *
11981242 GTAAATACTTAAAATTTGAGGGATTAA-AAT
1 GTAAATA-TGAAAATTTGAAGGACTAATAAT
*
11981272 GTAAATATGAAAATTTGAAGGACTAATAGT
1 GTAAATATGAAAATTTGAAGGACTAATAAT
11981302 GTAAATAT
1 GTAAATAT
11981310 TTTAAGGGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.47, C:0.03, G:0.18, T:0.32
Consensus pattern (30 bp):
GTAAATATGAAAATTTGAAGGACTAATAAT
Found at i:11984333 original size:33 final size:33
Alignment explanation
Indices: 11984295--11984437 Score: 112
Period size: 33 Copynumber: 4.3 Consensus size: 33
11984285 AATTGACAGA
* *
11984295 TAAGACCATGGCTGGGCCATGGCAATATATGTG
1 TAAGACCATAGCTAGGCCATGGCAATATATGTG
* * *
11984328 TAAGACCATAGCTAGGCTATGGC-ATCCTGATG-A
1 TAAGACCATAGCTAGGCCATGGCAAT-AT-ATGTG
* ** ** *
11984361 TAAGACCATATCTAGGATATGGCACCACGA-GTG
1 TAAGACCATAGCTAGGCCATGGCAATA-TATGTG
* * *
11984394 TAAGACCATGGCTAGGCCATGGCAATACACGTG
1 TAAGACCATAGCTAGGCCATGGCAATATATGTG
11984427 TAAGACCATAG
1 TAAGACCATAG
11984438 TTGGACTATG
Statistics
Matches: 84, Mismatches: 20, Indels: 12
0.72 0.17 0.10
Matches are distributed among these distances:
32 4 0.05
33 77 0.92
34 3 0.04
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.22
Consensus pattern (33 bp):
TAAGACCATAGCTAGGCCATGGCAATATATGTG
Found at i:11984563 original size:91 final size:92
Alignment explanation
Indices: 11984460--11984648 Score: 247
Period size: 92 Copynumber: 2.1 Consensus size: 92
11984450 ATCATACCAT
* * * *
11984460 AAATGAGTAAGACCATAGCTGAAAGACGCT-ATGGCATCGCGAT-TCAAATGTGTAAGACCATGG
1 AAATGAGTAAGACCATAGCTGAAAGA-GATCATGGCAACACGATATAAAATGTGTAAGACCATGG
11984523 TTGAAAGATACCATGGCAACATGATATA
65 TTGAAAGATACCATGGCAACATGATATA
* * * * *
11984551 AAATGTGTAAGACCATGGTTGAAAGATATCATGGCAACATGATATAAAATGTGTAAGACCATGGT
1 AAATGAGTAAGACCATAGCTGAAAGAGATCATGGCAACACGATATAAAATGTGTAAGACCATGGT
* * *
11984616 TGAAAGATACCATGGCAACGTGACATG
66 TGAAAGATACCATGGCAACATGATATA
11984643 AAATGA
1 AAATGA
11984649 AAGACTATGG
Statistics
Matches: 83, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
90 1 0.01
91 33 0.40
92 49 0.59
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.23
Consensus pattern (92 bp):
AAATGAGTAAGACCATAGCTGAAAGAGATCATGGCAACACGATATAAAATGTGTAAGACCATGGT
TGAAAGATACCATGGCAACATGATATA
Found at i:11984647 original size:46 final size:46
Alignment explanation
Indices: 11984505--11984634 Score: 251
Period size: 46 Copynumber: 2.8 Consensus size: 46
11984495 ATCGCGATTC
11984505 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATA
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATA
*
11984551 AAATGTGTAAGACCATGGTTGAAAGATATCATGGCAACATGATATA
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATA
11984597 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
11984635 GTGACATGAA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 82 1.00
ACGTcount: A:0.41, C:0.13, G:0.22, T:0.24
Consensus pattern (46 bp):
AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATA
Found at i:11989541 original size:46 final size:46
Alignment explanation
Indices: 11989473--11989609 Score: 193
Period size: 46 Copynumber: 3.0 Consensus size: 46
11989463 TGTATATACA
* * * *
11989473 CATCTCATACATGTCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
11989519 CATCTCATACGCGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCACATATC
* * *
11989565 TATCTCATACACATTTCGCATTAGCCATTCGGCCTTACCACATAT
1 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCACATAT
11989610 ATACATGTTC
Statistics
Matches: 80, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.24, C:0.31, G:0.10, T:0.34
Consensus pattern (46 bp):
CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:11989681 original size:46 final size:46
Alignment explanation
Indices: 11989583--11989743 Score: 259
Period size: 47 Copynumber: 3.5 Consensus size: 46
11989573 ACACATTTCG
* * * *
11989583 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCTCATATAT-GATGTTCACATTCATCA
*
11989630 CATTGGCCATTCGGCCTTATCTCATATATGTTGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCTCATATATGATGTTCACATTCATCA
11989676 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCTCATATATG-ATGTTCACATTCATCA
11989723 CATTGGCCATTCGGCCTTATC
1 CATTGGCCATTCGGCCTTATC
11989744 ACACATANNN
Statistics
Matches: 107, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
46 45 0.42
47 62 0.58
ACGTcount: A:0.24, C:0.29, G:0.12, T:0.35
Consensus pattern (46 bp):
CATTGGCCATTCGGCCTTATCTCATATATGATGTTCACATTCATCA
Found at i:11995939 original size:38 final size:38
Alignment explanation
Indices: 11995896--11995973 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
11995886 AGATATTAAG
11995896 GTTCTGAGGAGGAAGTCCATTATGTTAGTTAAGGTTCT
1 GTTCTGAGGAGGAAGTCCATTATGTTAGTTAAGGTTCT
11995934 GTTCTGAGGAGGAAGTCCATTATGTTAGTTAAGGTTCT
1 GTTCTGAGGAGGAAGTCCATTATGTTAGTTAAGGTTCT
11995972 GT
1 GT
11995974 GGTGGAATTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.23, C:0.10, G:0.29, T:0.37
Consensus pattern (38 bp):
GTTCTGAGGAGGAAGTCCATTATGTTAGTTAAGGTTCT
Found at i:12005431 original size:25 final size:23
Alignment explanation
Indices: 12005395--12005440 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 23
12005385 TCCATTTCTG
12005395 TTCTCTTTCTTT-TTCTTTCCTGT
1 TTCTCTTTCTTTATT-TTTCCTGT
12005418 TTCTCTTTTCCTTTATTTTTCCT
1 TTCTC-TTT-CTTTATTTTTCCT
12005441 TTTGATTGCG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 5 0.25
24 3 0.15
25 10 0.50
26 2 0.10
ACGTcount: A:0.02, C:0.26, G:0.02, T:0.70
Consensus pattern (23 bp):
TTCTCTTTCTTTATTTTTCCTGT
Found at i:12005768 original size:62 final size:62
Alignment explanation
Indices: 12005671--12005795 Score: 250
Period size: 62 Copynumber: 2.0 Consensus size: 62
12005661 GAGGGAAGTA
12005671 ATCCTCCTCGCATTGTTTCGAGATAGTTCTGTCGAGTTGTCTGTAAGCATTAGTCTTGTTGG
1 ATCCTCCTCGCATTGTTTCGAGATAGTTCTGTCGAGTTGTCTGTAAGCATTAGTCTTGTTGG
12005733 ATCCTCCTCGCATTGTTTCGAGATAGTTCTGTCGAGTTGTCTGTAAGCATTAGTCTTGTTGG
1 ATCCTCCTCGCATTGTTTCGAGATAGTTCTGTCGAGTTGTCTGTAAGCATTAGTCTTGTTGG
12005795 A
1 A
12005796 AGTTCACATC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.17, C:0.19, G:0.24, T:0.40
Consensus pattern (62 bp):
ATCCTCCTCGCATTGTTTCGAGATAGTTCTGTCGAGTTGTCTGTAAGCATTAGTCTTGTTGG
Found at i:12015465 original size:34 final size:35
Alignment explanation
Indices: 12015421--12015487 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
12015411 CAGTAAAATA
* *
12015421 TTTTCCGTAAAATGA-TTTCTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGACTTACTGGAAAATATTTTAC
*
12015455 TTTTCTGTAAAATGACTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGACTTACTGGAAAATATTTT
12015488 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 14 0.48
35 15 0.52
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGACTTACTGGAAAATATTTTAC
Found at i:12015474 original size:20 final size:20
Alignment explanation
Indices: 12015436--12015475 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
12015426 CGTAAAATGA
**
12015436 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGACTTACT
*
12015456 TTTCTGTAAAATGACTTACT
1 TTTCTGGAAAATGACTTACT
12015476 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAATGACTTACT
Found at i:12019079 original size:10 final size:9
Alignment explanation
Indices: 12019057--12019101 Score: 54
Period size: 10 Copynumber: 4.7 Consensus size: 9
12019047 AATTTTAAAA
*
12019057 TTTTAACTT
1 TTTTAATTT
12019066 TTTTATATTT
1 TTTTA-ATTT
12019076 TTTTGAATTT
1 TTTT-AATTT
12019086 TTTTAAATTT
1 TTTT-AATTT
12019096 TTTTAA
1 TTTTAA
12019102 AAAATTAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 7 0.22
10 24 0.75
11 1 0.03
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (9 bp):
TTTTAATTT
Found at i:12019102 original size:10 final size:10
Alignment explanation
Indices: 12019064--12019102 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
12019054 AAATTTTAAC
*
12019064 TTTTTTATAT
1 TTTTTTAAAT
*
12019074 TTTTTTGAAT
1 TTTTTTAAAT
12019084 TTTTTTAAAT
1 TTTTTTAAAT
12019094 TTTTTTAAA
1 TTTTTTAAA
12019103 AAATTAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (10 bp):
TTTTTTAAAT
Found at i:12019141 original size:20 final size:19
Alignment explanation
Indices: 12019118--12019187 Score: 61
Period size: 20 Copynumber: 3.6 Consensus size: 19
12019108 AAAAATATGA
12019118 ATTTTGAATTTTTTATAAAT
1 ATTTTGAATTTTTTA-AAAT
* *
12019138 ATTTTTAA-TTTTAAAAATT
1 ATTTTGAATTTTTTAAAA-T
* * *
12019157 ATTTTGAATCTTGTAAATTT
1 ATTTTGAATTTTTTAAA-AT
12019177 ATTTTGAATTT
1 ATTTTGAATTT
12019188 ATTTTGTAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
18 3 0.08
19 13 0.33
20 23 0.59
ACGTcount: A:0.34, C:0.01, G:0.06, T:0.59
Consensus pattern (19 bp):
ATTTTGAATTTTTTAAAAT
Found at i:12019188 original size:11 final size:12
Alignment explanation
Indices: 12019167--12019199 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
12019157 ATTTTGAATC
12019167 TTGTAAATTTATT
1 TTGT-AATTTATT
12019180 TTG-AATTTATT
1 TTGTAATTTATT
12019191 TTGTAATTT
1 TTGTAATTT
12019200 TTGTTGCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 11 0.58
12 5 0.26
13 3 0.16
ACGTcount: A:0.27, C:0.00, G:0.09, T:0.64
Consensus pattern (12 bp):
TTGTAATTTATT
Found at i:12019285 original size:9 final size:9
Alignment explanation
Indices: 12019271--12019308 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
12019261 CACCAATCTG
12019271 TTATTCGAA
1 TTATTCGAA
12019280 TTATTCGAA
1 TTATTCGAA
* *
12019289 TTATCCAAA
1 TTATTCGAA
12019298 TTATTCGAA
1 TTATTCGAA
12019307 TT
1 TT
12019309 GTAAAATTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (9 bp):
TTATTCGAA
Found at i:12020825 original size:6 final size:6
Alignment explanation
Indices: 12020806--12020839 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
12020796 ACTTTTTAGT
* *
12020806 AAACTT AAATTA AAACTA AAACTA AAACTA AAAC
1 AAACTA AAACTA AAACTA AAACTA AAACTA AAAC
12020840 CATCACAGCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.65, C:0.15, G:0.00, T:0.21
Consensus pattern (6 bp):
AAACTA
Found at i:12021564 original size:18 final size:17
Alignment explanation
Indices: 12021515--12021566 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
12021505 TAAAGTTTTA
*
12021515 AAAAACTATGAAAAACTTT
1 AAAAA-TAT-AAAAAATTT
* *
12021534 TAAAATATTAAAAATTT
1 AAAAATATAAAAAATTT
12021551 AAAAATTATAAAAAAT
1 AAAAA-TATAAAAAAT
12021567 AAAAAATTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
17 11 0.41
18 12 0.44
19 4 0.15
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (17 bp):
AAAAATATAAAAAATTT
Found at i:12022923 original size:18 final size:18
Alignment explanation
Indices: 12022896--12022941 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
12022886 TTACTATTTT
12022896 TTAT-TTTTTTGAAA-TTC
1 TTATATTTTTT-AAACTTC
12022913 TTATATTTTTTAAACTTC
1 TTATATTTTTTAAACTTC
12022931 TTA-ATTTTTTA
1 TTATATTTTTTA
12022942 TAATTTCGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 15 0.56
18 12 0.44
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.65
Consensus pattern (18 bp):
TTATATTTTTTAAACTTC
Found at i:12022975 original size:22 final size:21
Alignment explanation
Indices: 12022933--12022975 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
12022923 TAAACTTCTT
* *
12022933 AATTTTTTATAATTTCGAATA
1 AATTTTTTAAAATTTAGAATA
*
12022954 AATTTTTTGAAAATTTATAATA
1 AATTTTTT-AAAATTTAGAATA
12022976 TTTTAGTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (21 bp):
AATTTTTTAAAATTTAGAATA
Found at i:12025158 original size:80 final size:79
Alignment explanation
Indices: 12025021--12025176 Score: 249
Period size: 80 Copynumber: 2.0 Consensus size: 79
12025011 TATAGCTCTT
* * *
12025021 TCCCAACCCATAATTAGAAGGATAATGTGCTTCAATGCACTCGAATCCACATTCTCCTGTATTGA
1 TCCCAACCCATAATTAGAAGGATAATGTGCTTCAACGCACTCGAATCCACATTCTCCTATATTAA
12025086 CAACAATGTTCTCC
66 CAACAATGTTCTCC
* *
12025100 TCCCTAACCCATAATTAGAAGGATAATGTGCTTCAACGCACTCGAATTCACGTTCTCCTATATTA
1 TCCC-AACCCATAATTAGAAGGATAATGTGCTTCAACGCACTCGAATCCACATTCTCCTATATTA
*
12025165 ATAACAATGTTC
65 ACAACAATGTTC
12025177 ATGCCAATCA
Statistics
Matches: 70, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
79 4 0.06
80 66 0.94
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.30
Consensus pattern (79 bp):
TCCCAACCCATAATTAGAAGGATAATGTGCTTCAACGCACTCGAATCCACATTCTCCTATATTAA
CAACAATGTTCTCC
Found at i:12046810 original size:18 final size:19
Alignment explanation
Indices: 12046789--12046828 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
12046779 TTTTATTCTC
*
12046789 TTAATT-ATTTTTTTATAA
1 TTAATTAATTTTATTATAA
12046807 TTAATTAGATTTTATTATAA
1 TTAATTA-ATTTTATTATAA
12046827 TT
1 TT
12046829 TACACTAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
20 13 0.68
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (19 bp):
TTAATTAATTTTATTATAA
Found at i:12047567 original size:15 final size:15
Alignment explanation
Indices: 12047549--12047583 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
12047539 TAAAGAATAT
12047549 TTTAATTTT-TTTCTA
1 TTTAATTTTATTTC-A
12047564 TTTAATTTTATTTCA
1 TTTAATTTTATTTCA
12047579 TTTAA
1 TTTAA
12047584 AATTATATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTAATTTTATTTCA
Found at i:12047592 original size:17 final size:18
Alignment explanation
Indices: 12047567--12047600 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
12047557 TTTTCTATTT
*
12047567 AATTTTATT-TCATTTAA
1 AATTATATTATCATTTAA
12047584 AATTATATTATCATTTA
1 AATTATATTATCATTTA
12047601 TCAAATCATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (18 bp):
AATTATATTATCATTTAA
Found at i:12052374 original size:22 final size:22
Alignment explanation
Indices: 12052346--12052388 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
12052336 TTAACACATG
12052346 CAAAAGAGAAA-CAATCATGCAA
1 CAAAAGA-AAACCAATCATGCAA
12052368 CAAAAGAAAACCAATCATGCA
1 CAAAAGAAAACCAATCATGCA
12052389 CACTTACTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.58, C:0.21, G:0.12, T:0.09
Consensus pattern (22 bp):
CAAAAGAAAACCAATCATGCAA
Found at i:12058864 original size:2 final size:2
Alignment explanation
Indices: 12058857--12058886 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
12058847 TGCAGATTTG
12058857 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
12058887 AATATTTTTT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:12063658 original size:22 final size:21
Alignment explanation
Indices: 12063632--12063686 Score: 64
Period size: 17 Copynumber: 2.7 Consensus size: 21
12063622 ATATAATAAT
12063632 AATTATATTAATAATGTTATTA
1 AATTATATTAATAAT-TTATTA
12063654 AATTATATT--T--TTTATTA
1 AATTATATTAATAATTTATTA
12063671 AATTATATTTAATAAT
1 AATTATA-TTAATAAT
12063687 AATTATGTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
17 13 0.46
18 3 0.11
20 2 0.07
22 10 0.36
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (21 bp):
AATTATATTAATAATTTATTA
Found at i:12063668 original size:17 final size:17
Alignment explanation
Indices: 12063648--12063680 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
12063638 ATTAATAATG
12063648 TTATTAAATTATATTTT
1 TTATTAAATTATATTTT
12063665 TTATTAAATTATATTT
1 TTATTAAATTATATTT
12063681 AATAATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTATTAAATTATATTTT
Found at i:12063689 original size:58 final size:59
Alignment explanation
Indices: 12063623--12063758 Score: 153
Period size: 58 Copynumber: 2.4 Consensus size: 59
12063613 TTTTAATTCA
*
12063623 TATAATAATAATTATATTAATAATGTTA-TTAAA-T-TATA-T-TTTTTATTAAATTATAT
1 TATAATAATAATTATATTAA-AAT-ATAGTTAAACTATATATTATTTTTATTAAATTATAT
* *
12063679 T-TAATAATAATTATGTTAAAATATAGTTAAACTATTTATTATTTTTATTAAATTAT-T
1 TATAATAATAATTATATTAAAATATAGTTAAACTATATATTATTTTTATTAAATTATAT
*
12063736 TTTAATAATAATCT-TATTAAAAT
1 TATAATAATAAT-TATATTAAAAT
12063759 TTAATAACAA
Statistics
Matches: 69, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
53 2 0.03
54 8 0.12
55 18 0.26
56 4 0.06
57 3 0.04
58 33 0.48
59 1 0.01
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.52
Consensus pattern (59 bp):
TATAATAATAATTATATTAAAATATAGTTAAACTATATATTATTTTTATTAAATTATAT
Found at i:12063944 original size:46 final size:44
Alignment explanation
Indices: 12063852--12063945 Score: 127
Period size: 44 Copynumber: 2.1 Consensus size: 44
12063842 ATTACAACAT
*
12063852 CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACAAGAATACTATTACAGCTCTATTC
* *
12063896 CATTCTATTCAACCAAACA-ATTGAATTACTTATTACAGCTCTATTC
1 CATTCCATTCAACCAAACACA-AGAA-TAC-TATTACAGCTCTATTC
12063942 CATT
1 CATT
12063946 ACAGCTCTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
43 1 0.02
44 21 0.48
45 3 0.07
46 19 0.43
ACGTcount: A:0.36, C:0.26, G:0.04, T:0.34
Consensus pattern (44 bp):
CATTCCATTCAACCAAACACAAGAATACTATTACAGCTCTATTC
Found at i:12063948 original size:16 final size:16
Alignment explanation
Indices: 12063927--12063982 Score: 87
Period size: 16 Copynumber: 3.5 Consensus size: 16
12063917 TGAATTACTT
12063927 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
12063943 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
12063959 ATTACAG-TCCTATTCC
1 ATTACAGCT-CTATTCC
12063975 ATTACAGC
1 ATTACAGC
12063983 CAACCAAACG
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
15 1 0.03
16 35 0.97
ACGTcount: A:0.29, C:0.29, G:0.07, T:0.36
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:12064316 original size:16 final size:16
Alignment explanation
Indices: 12064295--12064328 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
12064285 TATGGTATTT
12064295 TTGTTTAATCCTATCC
1 TTGTTTAATCCTATCC
12064311 TTGTTTAATCCTATCC
1 TTGTTTAATCCTATCC
12064327 TT
1 TT
12064329 TTCAGACCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.18, C:0.24, G:0.06, T:0.53
Consensus pattern (16 bp):
TTGTTTAATCCTATCC
Found at i:12074958 original size:581 final size:581
Alignment explanation
Indices: 12073852--12075594 Score: 3362
Period size: 581 Copynumber: 3.0 Consensus size: 581
12073842 CCCTACCTTA
12073852 TCTGATTTCTTAAATGTGCTAGCAATCCCCAATTCTTCCTCTTCTAAATTCACACTTTCATTAAC
1 TCTGATTTCTTAAATGTGCTAGCAATCCCCAATTCTTCCTCTTCTAAATTCACACTTTCATTAAC
12073917 TCCATTTAATCTGCCAGAATTCGTTCTAATTTTCTCCCCGTGATTTTTATTAAGCACTTCGAATC
66 TCCATTTAATCTGCCAGAATTCGTTCTAATTTTCTCCCCGTGATTTTTATTAAGCACTTCGAATC
*
12073982 TAGAATCGCTGCCACATCTTTGTTTGTGACACTACTGGGTTTCATAACTAATCGAGTTTTCCTTC
131 TAGAATCGCTGCCACATCTTTGTTTGTGGCACTACTGGGTTTCATAACTAATCGAGTTTTCCTTC
12074047 TATTCTTATGCTCAACAAGCATCCATGATCTAAATTGTTCTTCCTCCACTTTCCACTACACATCT
196 TATTCTTATGCTCAACAAGCATCCATGATCTAAATTGTTCTTCCTCCACTTTCCACTACACATCT
12074112 GTCTCTCTCGAGAGTATTTGTTCCCCTCCAATCACTAGTGAACTCCCTTTGCCAAACTTGAACAA
261 GTCTCTCTCGAGAGTATTTGTTCCCCTCCAATCACTAGTGAACTCCCTTTGCCAAACTTGAACAA
12074177 GCAGTTGTCGCGGTTGTGCCCAAAATAACCACATTTGAAACAGCCCACCTGTAACAGTCCGGTTT
326 GCAGTTGTCGCGGTTGTGCCCAAAATAACCACATTTGAAACAGCCCACCTGTAACAGTCCGGTTT
*
12074242 AGACCCTAGCCAGAATAGTGGTTTCAAGACCACGTAATCGATTCTAAAAAATATTTTAATATTAT
391 AGACCCTAGCCAGAATAGTGGTTTCAAGACCACGTAACCGATTCTAAAAAATATTTTAATATTAT
* *
12074307 TTTATGTTTTTGTGATATGTGAATTTTTATCTGTGATGTTTCTGTGATTTAATTTGTCTGTTTAT
456 TTTATGTTTCTGTGATATGTGAATTTTTATCTGTGATGTTTCTGTGATTTAATTTGTCTGTTTCT
*
12074372 GTGCTCAATTTTACAAAAAAGACTTAATCACGTAAAATGCAGAAGTTGTATGCTAATTGTT
521 GTGCTCAATTTTACAAAAAGGACTTAATCACGTAAAATGCAGAAGTTGTATGCTAATTGTT
12074433 TCTGATTTCTTAAATGTGCTAGCAATCCCCAATTCTTCCTCTTCTAAATTCACACTTTCATTAAC
1 TCTGATTTCTTAAATGTGCTAGCAATCCCCAATTCTTCCTCTTCTAAATTCACACTTTCATTAAC
*
12074498 TCCATTTAATCTGCCAGAATTTGTTCTAATTTTCTCCCCGTGATTTTTATTAAGCACTTCGAATC
66 TCCATTTAATCTGCCAGAATTCGTTCTAATTTTCTCCCCGTGATTTTTATTAAGCACTTCGAATC
*
12074563 TAGAATCACTGCCACATCTTTGTTTGTGGCACTACTGGGTTTCATAACTAATCGAGTTTTCCTTC
131 TAGAATCGCTGCCACATCTTTGTTTGTGGCACTACTGGGTTTCATAACTAATCGAGTTTTCCTTC
12074628 TATTCTTATGCTCAACAAGCATCCATGATCTAAATTGTTCTTCCTCCACTTTCCACTACACATCT
196 TATTCTTATGCTCAACAAGCATCCATGATCTAAATTGTTCTTCCTCCACTTTCCACTACACATCT
12074693 GTCTCTCTCGAGAGTATTTGTTCCCCTCCAATCACTAGTGAACTCCCTTTGCCAAACTTGAACAA
261 GTCTCTCTCGAGAGTATTTGTTCCCCTCCAATCACTAGTGAACTCCCTTTGCCAAACTTGAACAA
12074758 GCAGTTGTCGCGGTTGTGCCCAAAATAACCACATTTGAAACAGCCCACCTGTAACAGTCCGGTTT
326 GCAGTTGTCGCGGTTGTGCCCAAAATAACCACATTTGAAACAGCCCACCTGTAACAGTCCGGTTT
12074823 AGACCCTAGCCAGAATAGTGGTTTCAAGACCACGTAACCGATTCTAAAAAATATTTTAATATTAT
391 AGACCCTAGCCAGAATAGTGGTTTCAAGACCACGTAACCGATTCTAAAAAATATTTTAATATTAT
*
12074888 TTTATGTTTCTGTGATATGTGAATTTTTATCTGTGATGTTTCTGTGATTTAATTTTTCTGTTTCT
456 TTTATGTTTCTGTGATATGTGAATTTTTATCTGTGATGTTTCTGTGATTTAATTTGTCTGTTTCT
12074953 GTGCTCAATTTTACAAAAAGGACTTAAT-AGCGTAAAATGCAGAAGTTGTATGCTAATTGTT
521 GTGCTCAATTTTACAAAAAGGACTTAATCA-CGTAAAATGCAGAAGTTGTATGCTAATTGTT
*
12075014 TCTGATTTCTTAAATGTGCTAGCAATCCCCAATTCTTCCTATTCTAAATTCACACTTTCATTAAC
1 TCTGATTTCTTAAATGTGCTAGCAATCCCCAATTCTTCCTCTTCTAAATTCACACTTTCATTAAC
12075079 TCCATTTAATCTGCCAGAATTCGTTCTAATTTTCTCCCCGTGATTTTTATTAAGCACTTCGAATC
66 TCCATTTAATCTGCCAGAATTCGTTCTAATTTTCTCCCCGTGATTTTTATTAAGCACTTCGAATC
12075144 TAGAATCGCTGCCACATCTTTGTTTGTGGCACTACTGGGTTTCATAACTAATCGAGTTTTCCTTC
131 TAGAATCGCTGCCACATCTTTGTTTGTGGCACTACTGGGTTTCATAACTAATCGAGTTTTCCTTC
12075209 TATTCTTATGCTCAACAAGCATCCATGATCTAAATTGTTCTTCCTCCACTTTCCACTACACATCT
196 TATTCTTATGCTCAACAAGCATCCATGATCTAAATTGTTCTTCCTCCACTTTCCACTACACATCT
12075274 GTCTCTCTCGAGAGTATTTGTTCCCCTCCAATCACTAGTGAACTCCCTTTGCCAAACTTGAACAA
261 GTCTCTCTCGAGAGTATTTGTTCCCCTCCAATCACTAGTGAACTCCCTTTGCCAAACTTGAACAA
12075339 GCAGTTGTCGCGGTTGTGCCCAAAATAACCACATTTGAAACAGCCCACCTGTAACAGTCCGGTTT
326 GCAGTTGTCGCGGTTGTGCCCAAAATAACCACATTTGAAACAGCCCACCTGTAACAGTCCGGTTT
*
12075404 AGACCCTAGCCAGAATAGTGGTTTCAAGACCACGTAACTGATTCTAAAAAATATTTTAATATTAT
391 AGACCCTAGCCAGAATAGTGGTTTCAAGACCACGTAACCGATTCTAAAAAATATTTTAATATTAT
12075469 TTTATGTTTCTGTGATATGTGAATTTTTATCTGTGATGTTTCTGTGATTTAATTTGTCTGTTTCT
456 TTTATGTTTCTGTGATATGTGAATTTTTATCTGTGATGTTTCTGTGATTTAATTTGTCTGTTTCT
* *
12075534 ATGCTCAATTTTACAAAAAGGACTTAATCGCGTAAAATGCAGAAGTTGTATGCTAATTGTT
521 GTGCTCAATTTTACAAAAAGGACTTAATCACGTAAAATGCAGAAGTTGTATGCTAATTGTT
12075595 AATGGGGTTA
Statistics
Matches: 1145, Mismatches: 15, Indels: 4
0.98 0.01 0.00
Matches are distributed among these distances:
580 1 0.00
581 1144 1.00
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.37
Consensus pattern (581 bp):
TCTGATTTCTTAAATGTGCTAGCAATCCCCAATTCTTCCTCTTCTAAATTCACACTTTCATTAAC
TCCATTTAATCTGCCAGAATTCGTTCTAATTTTCTCCCCGTGATTTTTATTAAGCACTTCGAATC
TAGAATCGCTGCCACATCTTTGTTTGTGGCACTACTGGGTTTCATAACTAATCGAGTTTTCCTTC
TATTCTTATGCTCAACAAGCATCCATGATCTAAATTGTTCTTCCTCCACTTTCCACTACACATCT
GTCTCTCTCGAGAGTATTTGTTCCCCTCCAATCACTAGTGAACTCCCTTTGCCAAACTTGAACAA
GCAGTTGTCGCGGTTGTGCCCAAAATAACCACATTTGAAACAGCCCACCTGTAACAGTCCGGTTT
AGACCCTAGCCAGAATAGTGGTTTCAAGACCACGTAACCGATTCTAAAAAATATTTTAATATTAT
TTTATGTTTCTGTGATATGTGAATTTTTATCTGTGATGTTTCTGTGATTTAATTTGTCTGTTTCT
GTGCTCAATTTTACAAAAAGGACTTAATCACGTAAAATGCAGAAGTTGTATGCTAATTGTT
Found at i:12074964 original size:21 final size:22
Alignment explanation
Indices: 12074924--12074964 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
12074914 TTATCTGTGA
* *
12074924 TGTTTCTGTGATTTAATTTTTC
1 TGTTTCTGTGACTCAATTTTTC
12074946 TGTTTCTGTG-CTCAATTTT
1 TGTTTCTGTGACTCAATTTT
12074965 ACAAAAAGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.12, C:0.12, G:0.15, T:0.61
Consensus pattern (22 bp):
TGTTTCTGTGACTCAATTTTTC
Found at i:12076658 original size:44 final size:43
Alignment explanation
Indices: 12076598--12076748 Score: 126
Period size: 42 Copynumber: 3.5 Consensus size: 43
12076588 TCTGAGATAT
** * *
12076598 CGTGTAAAACTGTGTCTGGGACATAGGCCTCGATTTGAGAATTA
1 CGTGTAAAACCATGTCTGGGACATAGGCATCGATAT-AGAATTA
* * ** *
12076642 CGTGTAAAACCATGTCTGAGACATCGGCATC-ATATCTAATTT
1 CGTGTAAAACCATGTCTGGGACATAGGCATCGATATAGAATTA
* * *
12076684 CGTGTAAGACCCTGTCTGGGACAGAGGCATCGATACT-GAATTA
1 CGTGTAAAACCATGTCTGGGACATAGGCATCGATA-TAGAATTA
* * * *
12076727 CATATAAGACCACGTCTGGGAC
1 CGTGTAAAACCATGTCTGGGAC
12076749 GTCGGCATTG
Statistics
Matches: 85, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
42 30 0.35
43 28 0.33
44 27 0.32
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (43 bp):
CGTGTAAAACCATGTCTGGGACATAGGCATCGATATAGAATTA
Found at i:12082074 original size:14 final size:14
Alignment explanation
Indices: 12082057--12082107 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 14
12082047 TATAATTGTC
12082057 AATAAAAAAGTGTT
1 AATAAAAAAGTGTT
* *
12082071 AATAATATAAAATTGTC
1 AAT-A-A-AAAAGTGTT
12082088 AATAAAAAAGTGTT
1 AATAAAAAAGTGTT
12082102 AATAAA
1 AATAAA
12082108 CTAAGTAGCT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
14 16 0.53
15 2 0.07
16 2 0.07
17 10 0.33
ACGTcount: A:0.59, C:0.02, G:0.10, T:0.29
Consensus pattern (14 bp):
AATAAAAAAGTGTT
Found at i:12082085 original size:31 final size:31
Alignment explanation
Indices: 12082042--12082106 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
12082032 ATTCTTTATT
*
12082042 TAATATATAATTGTCAATAAAAAAGTGTTAA
1 TAATATAAAATTGTCAATAAAAAAGTGTTAA
12082073 TAATATAAAATTGTCAATAAAAAAGTGTTAA
1 TAATATAAAATTGTCAATAAAAAAGTGTTAA
12082104 TAA
1 TAA
12082107 ACTAAGTAGC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.54, C:0.03, G:0.09, T:0.34
Consensus pattern (31 bp):
TAATATAAAATTGTCAATAAAAAAGTGTTAA
Found at i:12083884 original size:14 final size:15
Alignment explanation
Indices: 12083857--12083886 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
12083847 AATAAAAGTG
12083857 AATAAAACATGGCAA
1 AATAAAACATGGCAA
12083872 AATAAAA-ATGGCAA
1 AATAAAACATGGCAA
12083886 A
1 A
12083887 TGATAACGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.63, C:0.10, G:0.13, T:0.13
Consensus pattern (15 bp):
AATAAAACATGGCAA
Found at i:12083989 original size:20 final size:19
Alignment explanation
Indices: 12083957--12083998 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
12083947 ATATGTATGG
*
12083957 TATTAAAATATATACGTAA
1 TATTAAAATATATACATAA
12083976 TATTAAAGATATATACATAA
1 TATTAAA-ATATATACATAA
12083996 TAT
1 TAT
12083999 ATACATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (19 bp):
TATTAAAATATATACATAA
Found at i:12084046 original size:13 final size:13
Alignment explanation
Indices: 12084028--12084065 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
12084018 TTAAATATAT
12084028 TTATATATATAAA
1 TTATATATATAAA
12084041 TTATATATATGAAA
1 TTATATATAT-AAA
*
12084055 -TATATACATAA
1 TTATATATATAA
12084066 TGTAGTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 2 0.09
13 18 0.78
14 3 0.13
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (13 bp):
TTATATATATAAA
Found at i:12084401 original size:23 final size:23
Alignment explanation
Indices: 12084366--12084428 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 23
12084356 TAAATAATAA
* *
12084366 TACTATAT-CTAAATATATACA-
1 TACTATATAATAAAAATATACAC
*
12084387 TACGTATGTAATAAAAATATACAC
1 TAC-TATATAATAAAAATATACAC
*
12084411 TACTATATAATAATAATA
1 TACTATATAATAAAAATA
12084429 ATAATAATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
21 3 0.09
22 4 0.12
23 24 0.71
24 3 0.09
ACGTcount: A:0.51, C:0.11, G:0.03, T:0.35
Consensus pattern (23 bp):
TACTATATAATAAAAATATACAC
Found at i:12084423 original size:3 final size:3
Alignment explanation
Indices: 12084417--12084448 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
12084407 ACACTACTAT
12084417 ATA ATA ATA ATA ATA ATA ATA ATA ATA TATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA A
12084449 ATGCAAAAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:12084562 original size:9 final size:9
Alignment explanation
Indices: 12084548--12084597 Score: 63
Period size: 9 Copynumber: 5.9 Consensus size: 9
12084538 TAACATATAA
12084548 TAATAATAG
1 TAATAATAG
12084557 TAATAATAG
1 TAATAATAG
12084566 T-A-AATA-
1 TAATAATAG
12084572 TAATAATAG
1 TAATAATAG
12084581 TAATAAT-G
1 TAATAATAG
12084589 ATAATAATA
1 -TAATAATA
12084598 CGAAAATAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
6 1 0.03
7 5 0.14
8 6 0.17
9 24 0.67
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (9 bp):
TAATAATAG
Found at i:12084608 original size:3 final size:3
Alignment explanation
Indices: 12084544--12084597 Score: 56
Period size: 3 Copynumber: 18.0 Consensus size: 3
12084534 ACACTAACAT
* * * *
12084544 ATA ATA ATA ATA GTA ATA ATA GTA A-A TATA ATA ATA GTA ATA ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
12084589 ATA ATA ATA
1 ATA ATA ATA
12084598 CGAAAATAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
2 1 0.02
3 39 0.95
4 1 0.02
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:12084676 original size:20 final size:20
Alignment explanation
Indices: 12084653--12084742 Score: 71
Period size: 20 Copynumber: 4.5 Consensus size: 20
12084643 TTTTACTGGC
*
12084653 AATAATAATAATAGTACAAT
1 AATAATAATAATAGTAAAAT
* * *
12084673 AATAACAA-AGTAGTAGAAAA
1 AATAATAATAATAGTA-AAAT
12084693 AATAACT-ATAATAGTAAAAT
1 AATAA-TAATAATAGTAAAAT
* *
12084713 -ATAATAAATAGTAGTAAAAG
1 AATAAT-AATAATAGTAAAAT
12084733 AA-AATAATAA
1 AATAATAATAA
12084743 AATTATCTAA
Statistics
Matches: 54, Mismatches: 10, Indels: 13
0.70 0.13 0.17
Matches are distributed among these distances:
18 1 0.02
19 14 0.26
20 32 0.59
21 7 0.13
ACGTcount: A:0.63, C:0.03, G:0.09, T:0.24
Consensus pattern (20 bp):
AATAATAATAATAGTAAAAT
Found at i:12084697 original size:40 final size:40
Alignment explanation
Indices: 12084653--12084742 Score: 107
Period size: 40 Copynumber: 2.3 Consensus size: 40
12084643 TTTTACTGGC
*
12084653 AATAATAATAATAGTACAATAATAACAAAGTAGTAG-AAAA-
1 AATAATAATAATAGTAAAAT-ATAACAAA-TAGTAGTAAAAG
*
12084693 AATAACT-ATAATAGTAAAATATAATAAATAGTAGTAAAAG
1 AATAA-TAATAATAGTAAAATATAACAAATAGTAGTAAAAG
12084733 AA-AATAATAA
1 AATAATAATAA
12084743 AATTATCTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
38 7 0.16
39 17 0.39
40 19 0.43
41 1 0.02
ACGTcount: A:0.63, C:0.03, G:0.09, T:0.24
Consensus pattern (40 bp):
AATAATAATAATAGTAAAATATAACAAATAGTAGTAAAAG
Found at i:12084722 original size:17 final size:17
Alignment explanation
Indices: 12084657--12084725 Score: 50
Period size: 19 Copynumber: 3.8 Consensus size: 17
12084647 ACTGGCAATA
*
12084657 ATAAT-AATAGTACAAT
1 ATAATAAATAGTAAAAT
* *
12084673 AATAACAAAGTAGTAGAAAAA
1 -ATAATAAA-TAGT--AAAAT
12084694 ATAACTATAATAGTAAAAT
1 ATAA-TA-AATAGTAAAAT
12084713 ATAATAAATAGTA
1 ATAATAAATAGTA
12084726 GTAAAAGAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 12
0.71 0.09 0.21
Matches are distributed among these distances:
17 11 0.27
18 4 0.10
19 12 0.29
20 4 0.10
21 8 0.20
22 2 0.05
ACGTcount: A:0.61, C:0.04, G:0.09, T:0.26
Consensus pattern (17 bp):
ATAATAAATAGTAAAAT
Found at i:12086443 original size:43 final size:43
Alignment explanation
Indices: 12086388--12086487 Score: 121
Period size: 43 Copynumber: 2.3 Consensus size: 43
12086378 GATCTGTTTT
*
12086388 CCTACTGCTTAGGCGATTT-AGATCTGTACATTCAACCTGTTAC
1 CCTACTGCTTAGG-GATTTAAGATCTGTAAATTCAACCTGTTAC
* * *** *
12086431 CCTACTGGTTAGGGATTTAAGGTCTGTAAATTTGGCTTGTTAC
1 CCTACTGCTTAGGGATTTAAGATCTGTAAATTCAACCTGTTAC
12086474 CCTACTGCTTAGGG
1 CCTACTGCTTAGGG
12086488 GGTTAAAGCT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 5 0.10
43 43 0.90
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (43 bp):
CCTACTGCTTAGGGATTTAAGATCTGTAAATTCAACCTGTTAC
Found at i:12086735 original size:84 final size:86
Alignment explanation
Indices: 12086597--12086757 Score: 220
Period size: 84 Copynumber: 1.9 Consensus size: 86
12086587 GTTGGATTCG
* * *
12086597 ATCTGTTCCACTACAACTTCAGGGAGACAAGATCTGTAATTTTCAGCCTATTACCTTACTGCTTA
1 ATCTGTTCCACTACAACTTCAGGGAGACAAGATCTATAATATTCAGCCTATTACCCTACTGCTTA
12086662 GGAGGTTAAGGCTCGTCTTTA
66 GGAGGTTAAGGCTCGTCTTTA
* * * *
12086683 ATCTGTTTCC-CTACTACTT-AGGGCGATAAGATCTATAA-ATTCAGCCTGTTACCCTACTGCTT
1 ATCTG-TTCCACTACAACTTCAGGGAGACAAGATCTATAATATTCAGCCTATTACCCTACTGCTT
*
12086745 AGGGGGTTAAGGC
65 AGGAGGTTAAGGC
12086758 CCTCCGTTTT
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
84 33 0.50
85 16 0.24
86 13 0.20
87 4 0.06
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (86 bp):
ATCTGTTCCACTACAACTTCAGGGAGACAAGATCTATAATATTCAGCCTATTACCCTACTGCTTA
GGAGGTTAAGGCTCGTCTTTA
Found at i:12094052 original size:39 final size:38
Alignment explanation
Indices: 12093998--12094077 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 38
12093988 CTCTCATTAT
12093998 GCTTTTTCTCAATATTCTGTAAAGTGATTCTATCTGTAG
1 GCTTTTTCTCAATATTCTGTAAAGTGATTCTATCTGT-G
12094037 GCTTTTTCTCAATATTCTGTAAAGTGATTCTATCTGTG
1 GCTTTTTCTCAATATTCTGTAAAGTGATTCTATCTGTG
12094075 GCT
1 GCT
12094078 ATGTCTGCCA
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
38 4 0.10
39 37 0.90
ACGTcount: A:0.21, C:0.16, G:0.16, T:0.46
Consensus pattern (38 bp):
GCTTTTTCTCAATATTCTGTAAAGTGATTCTATCTGTG
Found at i:12094067 original size:22 final size:22
Alignment explanation
Indices: 12094003--12094067 Score: 52
Period size: 22 Copynumber: 3.2 Consensus size: 22
12093993 ATTATGCTTT
12094003 TTCTCAATATTCTGTAAAGTGA
1 TTCTCAATATTCTGTAAAGTGA
* **
12094025 -T-TC--TA-TCTGT-AGGCTTT
1 TTCTCAATATTCTGTAAAG-TGA
12094042 TTCTCAATATTCTGTAAAGTGA
1 TTCTCAATATTCTGTAAAGTGA
12094064 TTCT
1 TTCT
12094068 ATCTGTGGCT
Statistics
Matches: 30, Mismatches: 6, Indels: 14
0.60 0.12 0.28
Matches are distributed among these distances:
16 2 0.07
17 6 0.20
18 3 0.10
19 2 0.07
20 2 0.07
21 3 0.10
22 10 0.33
23 2 0.07
ACGTcount: A:0.25, C:0.15, G:0.14, T:0.46
Consensus pattern (22 bp):
TTCTCAATATTCTGTAAAGTGA
Found at i:12098757 original size:14 final size:15
Alignment explanation
Indices: 12098730--12098759 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
12098720 AATAAAAGTG
12098730 AATAAAACATGGCAA
1 AATAAAACATGGCAA
12098745 AATAAAA-ATGGCAA
1 AATAAAACATGGCAA
12098759 A
1 A
12098760 TGATAACGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.63, C:0.10, G:0.13, T:0.13
Consensus pattern (15 bp):
AATAAAACATGGCAA
Found at i:12098866 original size:23 final size:22
Alignment explanation
Indices: 12098830--12098956 Score: 77
Period size: 23 Copynumber: 5.6 Consensus size: 22
12098820 ATATGTATGG
*
12098830 TATTAAAATATATACGTAATAA
1 TATTAAAATATATACATAATAA
12098852 TATTAAAGATATATACATAATATA
1 TATTAAA-ATATATACATAATA-A
* *
12098876 TACATAAAA-ATATA-ATATTAA
1 TA-TTAAAATATATACATAATAA
*
12098897 -A--AAAATATATATA-AATTATA
1 TATTAAAATATATACATAA-TA-A
* *
12098917 TATATGAAATATATACATAATGTAGT
1 TAT-TAAAATATATACATAA--TA-A
12098943 TATTAAAATATATA
1 TATTAAAATATATA
12098957 TATATATATA
Statistics
Matches: 82, Mismatches: 10, Indels: 23
0.71 0.09 0.20
Matches are distributed among these distances:
17 4 0.05
18 6 0.07
19 3 0.04
20 2 0.02
21 2 0.02
22 12 0.15
23 18 0.22
24 14 0.17
25 16 0.20
26 5 0.06
ACGTcount: A:0.56, C:0.03, G:0.04, T:0.37
Consensus pattern (22 bp):
TATTAAAATATATACATAATAA
Found at i:12098917 original size:13 final size:12
Alignment explanation
Indices: 12098860--12098966 Score: 58
Period size: 13 Copynumber: 8.6 Consensus size: 12
12098850 AATATTAAAG
*
12098860 ATATATACATAA
1 ATATATATATAA
* *
12098872 TATATACATAAAA
1 -ATATATATATAA
*
12098885 ATATAATATTAAAA
1 ATAT-ATA-TATAA
*
12098899 AAATATATATAA
1 ATATATATATAA
12098911 ATTATATATATGAA
1 A-TATATATAT-AA
*
12098925 ATATATACAT-A
1 ATATATATATAA
*
12098936 ATGTAGT-TATTAA
1 ATATA-TATA-TAA
*
12098949 A-ATATATATAT
1 ATATATATATAA
12098960 ATATATA
1 ATATATA
12098967 CAATATAGTA
Statistics
Matches: 73, Mismatches: 12, Indels: 19
0.70 0.12 0.18
Matches are distributed among these distances:
11 10 0.14
12 20 0.27
13 32 0.44
14 11 0.15
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (12 bp):
ATATATATATAA
Found at i:12098986 original size:33 final size:35
Alignment explanation
Indices: 12098914--12098987 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 35
12098904 TATATAAATT
*
12098914 ATATATATGAAATATATACATAATGTAGTTATTAAA
1 ATATATATGAAATATATACA-AATATAGTTATTAAA
*
12098950 ATATATAT-ATATATATAC-AATATAG-TATTAAGA
1 ATATATATGAAATATATACAAATATAGTTATTAA-A
12098983 ATATA
1 ATATA
12098988 CACAACATGT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
32 6 0.17
33 12 0.34
35 9 0.26
36 8 0.23
ACGTcount: A:0.51, C:0.03, G:0.07, T:0.39
Consensus pattern (35 bp):
ATATATATGAAATATATACAAATATAGTTATTAAA
Found at i:12099142 original size:16 final size:16
Alignment explanation
Indices: 12099094--12099161 Score: 65
Period size: 16 Copynumber: 4.4 Consensus size: 16
12099084 ATAGATGTAG
12099094 TATAATA-ATGA-AAA
1 TATAATAGATGAGAAA
*
12099108 TATAAATAGATAAGAAA
1 TAT-AATAGATGAGAAA
*
12099125 TATAATAGATGAGTAA
1 TATAATAGATGAGAAA
12099141 TA-AGA-AGATGA-AAA
1 TATA-ATAGATGAGAAA
12099155 TATAATA
1 TATAATA
12099162 ATAGTCATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 11
0.75 0.07 0.19
Matches are distributed among these distances:
14 8 0.18
15 13 0.30
16 17 0.39
17 6 0.14
ACGTcount: A:0.60, C:0.00, G:0.13, T:0.26
Consensus pattern (16 bp):
TATAATAGATGAGAAA
Found at i:12099273 original size:23 final size:23
Alignment explanation
Indices: 12099237--12099301 Score: 71
Period size: 23 Copynumber: 2.9 Consensus size: 23
12099227 AGTAAATAAT
* *
12099237 ACTACTATAT-ATAAATATATAC
1 ACTACTATATAATAAAAATACAC
*
12099259 A-TACGTATGTAATAAAAATACAC
1 ACTAC-TATATAATAAAAATACAC
*
12099282 ACTACTATATAATAATAATA
1 ACTACTATATAATAAAAATA
12099302 ATAATAATAA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
21 3 0.09
22 5 0.14
23 24 0.69
24 3 0.09
ACGTcount: A:0.52, C:0.12, G:0.03, T:0.32
Consensus pattern (23 bp):
ACTACTATATAATAAAAATACAC
Found at i:12099296 original size:3 final size:3
Alignment explanation
Indices: 12099290--12099325 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
12099280 ACACTACTAT
12099290 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
12099326 TAGAAATGCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:12099446 original size:9 final size:9
Alignment explanation
Indices: 12099422--12099481 Score: 65
Period size: 9 Copynumber: 6.9 Consensus size: 9
12099412 AGATATACAC
*
12099422 TAATATATAA
1 TAATA-ATAG
12099432 TAATAATAG
1 TAATAATAG
12099441 TAATAATAG
1 TAATAATAG
12099450 T-A-AATA-
1 TAATAATAG
12099456 TAATAATAG
1 TAATAATAG
12099465 TAATAAT-G
1 TAATAATAG
12099473 ATAATAATA
1 -TAATAATA
12099482 CGAAAATAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
6 1 0.02
7 5 0.11
8 6 0.14
9 27 0.61
10 5 0.11
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (9 bp):
TAATAATAG
Found at i:12099492 original size:3 final size:3
Alignment explanation
Indices: 12099422--12099481 Score: 59
Period size: 3 Copynumber: 19.7 Consensus size: 3
12099412 AGATATACAC
* * *
12099422 TAA TATA TAA TAA TAA TAG TAA TAA TAG TAA -ATA TAA TAA TAG TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA
*
12099468 TAA TGA TAA TAA TA
1 TAA TAA TAA TAA TA
12099482 CGAAAATAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
2 1 0.02
3 41 0.89
4 4 0.09
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:12099560 original size:20 final size:20
Alignment explanation
Indices: 12099537--12099625 Score: 69
Period size: 20 Copynumber: 4.5 Consensus size: 20
12099527 TTTTAATGGC
*
12099537 AATAATAATAATAGTACAAT
1 AATAATAATAATAGTAAAAT
* * *
12099557 AATAACAA-AGTAGTAGAAAA
1 AATAATAATAATAGTA-AAAT
12099577 AATAACT-ATAATAGTAAAAT
1 AATAA-TAATAATAGTAAAAT
* *
12099597 -ATAATAAATAGTAGTAAAAG
1 AATAAT-AATAATAGTAAAAT
12099617 AA-AATAATA
1 AATAATAATA
12099626 TAATTATCTA
Statistics
Matches: 54, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
18 1 0.02
19 14 0.26
20 32 0.59
21 7 0.13
ACGTcount: A:0.63, C:0.03, G:0.09, T:0.25
Consensus pattern (20 bp):
AATAATAATAATAGTAAAAT
Found at i:12099581 original size:40 final size:40
Alignment explanation
Indices: 12099537--12099625 Score: 105
Period size: 40 Copynumber: 2.2 Consensus size: 40
12099527 TTTTAATGGC
*
12099537 AATAATAATAATAGTACAATAATAACAAAGTAGTAG-AAAA-
1 AATAATAATAATAGTAAAAT-ATAACAAA-TAGTAGTAAAAG
*
12099577 AATAACT-ATAATAGTAAAATATAATAAATAGTAGTAAAAG
1 AATAA-TAATAATAGTAAAATATAACAAATAGTAGTAAAAG
12099617 AA-AATAATA
1 AATAATAATA
12099626 TAATTATCTA
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
38 7 0.16
39 16 0.37
40 19 0.44
41 1 0.02
ACGTcount: A:0.63, C:0.03, G:0.09, T:0.25
Consensus pattern (40 bp):
AATAATAATAATAGTAAAATATAACAAATAGTAGTAAAAG
Found at i:12099606 original size:17 final size:17
Alignment explanation
Indices: 12099541--12099609 Score: 50
Period size: 19 Copynumber: 3.8 Consensus size: 17
12099531 AATGGCAATA
*
12099541 ATAAT-AATAGTACAAT
1 ATAATAAATAGTAAAAT
* *
12099557 AATAACAAAGTAGTAGAAAAA
1 -ATAATAAA-TAGT--AAAAT
12099578 ATAACTATAATAGTAAAAT
1 ATAA-TA-AATAGTAAAAT
12099597 ATAATAAATAGTA
1 ATAATAAATAGTA
12099610 GTAAAAGAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 12
0.71 0.09 0.21
Matches are distributed among these distances:
17 11 0.27
18 4 0.10
19 12 0.29
20 4 0.10
21 8 0.20
22 2 0.05
ACGTcount: A:0.61, C:0.04, G:0.09, T:0.26
Consensus pattern (17 bp):
ATAATAAATAGTAAAAT
Found at i:12104848 original size:21 final size:18
Alignment explanation
Indices: 12104815--12104855 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 18
12104805 ACCCGTAATA
12104815 TTATATATTAATTTTGATT
1 TTATATATTAATTTT-ATT
12104834 TTATATATTAAAATTTTATT
1 TTATATATT--AATTTTATT
12104854 TT
1 TT
12104856 TATTTTTACA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 9 0.45
20 5 0.25
21 6 0.30
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (18 bp):
TTATATATTAATTTTATT
Found at i:12105147 original size:29 final size:29
Alignment explanation
Indices: 12105105--12105164 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
12105095 TATCTCTTAG
12105105 TGATTGAAGTGCTATTTTTTAAAAATCTA
1 TGATTGAAGTGCTATTTTTTAAAAATCTA
12105134 TGATTGAAGTGCTATTTTTTAAAAATCTA
1 TGATTGAAGTGCTATTTTTTAAAAATCTA
12105163 TG
1 TG
12105165 TTAGATTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.33, C:0.07, G:0.15, T:0.45
Consensus pattern (29 bp):
TGATTGAAGTGCTATTTTTTAAAAATCTA
Found at i:12105324 original size:99 final size:99
Alignment explanation
Indices: 12105155--12105357 Score: 381
Period size: 99 Copynumber: 2.1 Consensus size: 99
12105145 CTATTTTTTA
*
12105155 AAAAT-CTATGTTAGATTTATTTAAGGGGTATTTCAAGTTGTTGGGGAACGTGTTTATGAAGGCT
1 AAAATCCTATGTTAGATTTATTTAAGGGGTATTTCAAGTTGTTGGGGAACGTGTGTATGAAGGCT
12105219 ATTATGAGATAAATACTGAAGATAATTAATGGAT
66 ATTATGAGATAAATACTGAAGATAATTAATGGAT
*
12105253 AAAATCCTATGTTAGATTTATTTAAGGGGTATTTCAAGTTGTTGGGGAACTTGTGTATGAAGGCT
1 AAAATCCTATGTTAGATTTATTTAAGGGGTATTTCAAGTTGTTGGGGAACGTGTGTATGAAGGCT
12105318 ATTATGAGATAAATACTGAAGATAATTAATGGAT
66 ATTATGAGATAAATACTGAAGATAATTAATGGAT
12105352 AAAATC
1 AAAATC
12105358 AACCTTTAAA
Statistics
Matches: 102, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
98 5 0.05
99 97 0.95
ACGTcount: A:0.35, C:0.06, G:0.23, T:0.36
Consensus pattern (99 bp):
AAAATCCTATGTTAGATTTATTTAAGGGGTATTTCAAGTTGTTGGGGAACGTGTGTATGAAGGCT
ATTATGAGATAAATACTGAAGATAATTAATGGAT
Found at i:12108845 original size:25 final size:25
Alignment explanation
Indices: 12108817--12108868 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
12108807 TTTGGCTTGA
**
12108817 CATTTACTAAGCAATATCGGATATT
1 CATTTACTAAGCAATATCAAATATT
* *
12108842 CATTTATTAGGCAATATCAAATATT
1 CATTTACTAAGCAATATCAAATATT
12108867 CA
1 CA
12108869 AATTAATCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (25 bp):
CATTTACTAAGCAATATCAAATATT
Found at i:12112719 original size:15 final size:16
Alignment explanation
Indices: 12112699--12112737 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
12112689 AAACCCTATT
12112699 TTTCCTTTCTT-TTTC
1 TTTCCTTTCTTCTTTC
*
12112714 TTTCCTTTTTTCTTTC
1 TTTCCTTTCTTCTTTC
12112730 TTT-CTTTC
1 TTTCCTTTC
12112738 CCTGTTCTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTCCTTTCTTCTTTC
Found at i:12112830 original size:14 final size:15
Alignment explanation
Indices: 12112794--12112830 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
12112784 TTTCTTTTAT
*
12112794 TTATTATAACTATTA
1 TTATTATATCTATTA
12112809 -TATTATATC-ATTA
1 TTATTATATCTATTA
12112822 TTATTATAT
1 TTATTATAT
12112831 TTTAATTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (15 bp):
TTATTATATCTATTA
Found at i:12120290 original size:817 final size:817
Alignment explanation
Indices: 12118717--12120353 Score: 3238
Period size: 817 Copynumber: 2.0 Consensus size: 817
12118707 CAAAAGAAAA
*
12118717 GTATTCACCACTTTGAGTTTGGGATTGGCTTGGATGCTAAGTCCTTAGCTTTCTTTCGTACCTAG
1 GTATTCACCACTTTGAGTCTGGGATTGGCTTGGATGCTAAGTCCTTAGCTTTCTTTCGTACCTAG
*
12118782 TCCTGCGCAAGGAAACATATCGTACGTTGAGTATACACTCAGTGGTATTTCTATAAACTAATACT
66 TCCTGCGCAAGGAAACATACCGTACGTTGAGTATACACTCAGTGGTATTTCTATAAACTAATACT
12118847 TAAAACAATAATAAACCATGTATTTATATTGTAACCTAAAGCCTTATACATTCATTTCATAACTC
131 TAAAACAATAATAAACCATGTATTTATATTGTAACCTAAAGCCTTATACATTCATTTCATAACTC
12118912 TTTCATGTAGTTAAGCAATTCATATATATATTTATATATTTCTTATTACTCGATATCTTTCAACC
196 TTTCATGTAGTTAAGCAATTCATATATATATTTATATATTTCTTATTACTCGATATCTTTCAACC
12118977 TTGTTTACCAGTCACAGTCACATAATCAATAGTAAACAGTCTTCAGTACTTTCATCTACCCCCAT
261 TTGTTTACCAGTCACAGTCACATAATCAATAGTAAACAGTCTTCAGTACTTTCATCTACCCCCAT
12119042 TAACATAACTGGGACCTAAACGAATACAGGATCCAAACTACACACCAGGGATAATATACAGTGTT
326 TAACATAACTGGGACCTAAACGAATACAGGATCCAAACTACACACCAGGGATAATATACAGTGTT
12119107 TCATTGGCCGAAACTGGAATACACCGTAGGGTAACAATAACAGTAACAGTAACAGTCATAGTCAG
391 TCATTGGCCGAAACTGGAATACACCGTAGGGTAACAATAACAGTAACAGTAACAGTCATAGTCAG
12119172 GTACGAAGTACCTTTTCGAAACGAATTTGGAACAGTCACAGTAGTTGACACATATAGTATCTCAT
456 GTACGAAGTACCTTTTCGAAACGAATTTGGAACAGTCACAGTAGTTGACACATATAGTATCTCAT
12119237 CGACACACAGTCGGAATATCCCTGAACACTTCCAATCCTATGGCATACCAATTGTATCCGACTAG
521 CGACACACAGTCGGAATATCCCTGAACACTTCCAATCCTATGGCATACCAATTGTATCCGACTAG
12119302 CCCGACACTGTTAATAAGGTATTCAAATTGTTTCATTTCAATACAGAAGTAGTAATAGTTTCCAT
586 CCCGACACTGTTAATAAGGTATTCAAATTGTTTCATTTCAATACAGAAGTAGTAATAGTTTCCAT
12119367 CATATCATTCATTATACATTCTAACTATAAAAATAACAATTACATTGTATTAAATCATTAAGCAT
651 CATATCATTCATTATACATTCTAACTATAAAAATAACAATTACATTGTATTAAATCATTAAGCAT
12119432 AGTTTATAAAAATACAAACCGAAATTCTCGAGTTTACTCGATATCCTCGTTCACTTTCTCCTTTC
716 AGTTTATAAAAATACAAACCGAAATTCTCGAGTTTACTCGATATCCTCGTTCACTTTCTCCTTTC
12119497 CCTTTTTCGATGACGTTTCAAGTGCTACGTTGACTAC
781 CCTTTTTCGATGACGTTTCAAGTGCTACGTTGACTAC
*
12119534 GTATTCACCACTTTGAGTCTGGGATTGGCTTGGATGCTGAGTCCTTAGCTTTCTTTCGTACCTAG
1 GTATTCACCACTTTGAGTCTGGGATTGGCTTGGATGCTAAGTCCTTAGCTTTCTTTCGTACCTAG
12119599 TCCTGCGCAAGGAAACATACCGTACGTTGAGTATACACTCAGTGGTATTTCTATAAACTAATACT
66 TCCTGCGCAAGGAAACATACCGTACGTTGAGTATACACTCAGTGGTATTTCTATAAACTAATACT
12119664 TAAAACAATAATAAACCATGTATTTATATTGTAACCTAAAGCCTTATACATTCATTTCATAACTC
131 TAAAACAATAATAAACCATGTATTTATATTGTAACCTAAAGCCTTATACATTCATTTCATAACTC
12119729 TTTCATGTAGTTAAGCAATTCATATATATATTTATATATTTCTTATTACTCGATATCTTTCAACC
196 TTTCATGTAGTTAAGCAATTCATATATATATTTATATATTTCTTATTACTCGATATCTTTCAACC
12119794 TTGTTTACCAGTCACAGTCACATAATCAATAGTAAACAGTCTTCAGTACTTTCATCTACCCCCAT
261 TTGTTTACCAGTCACAGTCACATAATCAATAGTAAACAGTCTTCAGTACTTTCATCTACCCCCAT
12119859 TAACATAACTGGGACCTAAACGAATACAGGATCCAAACTACACACCAGGGATAATATACAGTGTT
326 TAACATAACTGGGACCTAAACGAATACAGGATCCAAACTACACACCAGGGATAATATACAGTGTT
12119924 TCATTGGCCGAAACTGGAATACACCGTAGGGTAACAATAACAGTAACAGTAACAGTCATAGTCAG
391 TCATTGGCCGAAACTGGAATACACCGTAGGGTAACAATAACAGTAACAGTAACAGTCATAGTCAG
12119989 GTACGAAGTACCTTTTCGAAACGAATTTGGAACAGTCACAGTAGTTGACACATATAGTATCTCAT
456 GTACGAAGTACCTTTTCGAAACGAATTTGGAACAGTCACAGTAGTTGACACATATAGTATCTCAT
12120054 CGACACACAGTCGGAATATCCCTGAACACTTCCAATCCTATGGCATACCAATTGTATCCGACTAG
521 CGACACACAGTCGGAATATCCCTGAACACTTCCAATCCTATGGCATACCAATTGTATCCGACTAG
12120119 CCCGACACTGTTAATAAGGTATTCAAATTGTTTCATTTCAATACAGAAGTAGTAATAGTTTCCAT
586 CCCGACACTGTTAATAAGGTATTCAAATTGTTTCATTTCAATACAGAAGTAGTAATAGTTTCCAT
*
12120184 CATATCATTCATTATACATTCTAACTATTAAAATAACAATTACATTGTATTAAATCATTAAGCAT
651 CATATCATTCATTATACATTCTAACTATAAAAATAACAATTACATTGTATTAAATCATTAAGCAT
12120249 AGTTTATAAAAATACAAACCGAAATTCTCGAGTTTACTCGATATCCTCGTTCACTTTCTCCTTTC
716 AGTTTATAAAAATACAAACCGAAATTCTCGAGTTTACTCGATATCCTCGTTCACTTTCTCCTTTC
12120314 CCTTTTTCGATGACGTTTCAAGTGCTACGTTGACTAC
781 CCTTTTTCGATGACGTTTCAAGTGCTACGTTGACTAC
12120351 GTA
1 GTA
12120354 AAATTTAACA
Statistics
Matches: 816, Mismatches: 4, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
817 816 1.00
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.32
Consensus pattern (817 bp):
GTATTCACCACTTTGAGTCTGGGATTGGCTTGGATGCTAAGTCCTTAGCTTTCTTTCGTACCTAG
TCCTGCGCAAGGAAACATACCGTACGTTGAGTATACACTCAGTGGTATTTCTATAAACTAATACT
TAAAACAATAATAAACCATGTATTTATATTGTAACCTAAAGCCTTATACATTCATTTCATAACTC
TTTCATGTAGTTAAGCAATTCATATATATATTTATATATTTCTTATTACTCGATATCTTTCAACC
TTGTTTACCAGTCACAGTCACATAATCAATAGTAAACAGTCTTCAGTACTTTCATCTACCCCCAT
TAACATAACTGGGACCTAAACGAATACAGGATCCAAACTACACACCAGGGATAATATACAGTGTT
TCATTGGCCGAAACTGGAATACACCGTAGGGTAACAATAACAGTAACAGTAACAGTCATAGTCAG
GTACGAAGTACCTTTTCGAAACGAATTTGGAACAGTCACAGTAGTTGACACATATAGTATCTCAT
CGACACACAGTCGGAATATCCCTGAACACTTCCAATCCTATGGCATACCAATTGTATCCGACTAG
CCCGACACTGTTAATAAGGTATTCAAATTGTTTCATTTCAATACAGAAGTAGTAATAGTTTCCAT
CATATCATTCATTATACATTCTAACTATAAAAATAACAATTACATTGTATTAAATCATTAAGCAT
AGTTTATAAAAATACAAACCGAAATTCTCGAGTTTACTCGATATCCTCGTTCACTTTCTCCTTTC
CCTTTTTCGATGACGTTTCAAGTGCTACGTTGACTAC
Found at i:12120949 original size:14 final size:15
Alignment explanation
Indices: 12120913--12120949 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
12120903 TTTCTTTTAT
*
12120913 TTATTATAACTATTA
1 TTATTATATCTATTA
12120928 -TATTATATC-ATTA
1 TTATTATATCTATTA
12120941 TTATTATAT
1 TTATTATAT
12120950 TTTAATTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (15 bp):
TTATTATATCTATTA
Found at i:12122143 original size:40 final size:40
Alignment explanation
Indices: 12122099--12122189 Score: 130
Period size: 40 Copynumber: 2.3 Consensus size: 40
12122089 TTTAGGGTAA
*
12122099 CAACCTTTTCGA-TAGATATCCATTTCGGATATATCCTTTT
1 CAACCTTTTC-ATTAGATATCCATTTCAGATATATCCTTTT
***
12122139 CAACCTTTTCATTAGATATTTGTTTCAGATATATCCTTTT
1 CAACCTTTTCATTAGATATCCATTTCAGATATATCCTTTT
12122179 CAACCTTTTCA
1 CAACCTTTTCA
12122190 AGAATTCGAA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
39 1 0.02
40 45 0.98
ACGTcount: A:0.25, C:0.22, G:0.08, T:0.45
Consensus pattern (40 bp):
CAACCTTTTCATTAGATATCCATTTCAGATATATCCTTTT
Found at i:12127288 original size:62 final size:62
Alignment explanation
Indices: 12127215--12127394 Score: 165
Period size: 61 Copynumber: 2.9 Consensus size: 62
12127205 TTGGTGTAGT
*
12127215 AATAAAATTAGCCCTCTAATATTTACATATTCTATTAATTTTA-TCCTAAATATAAAAAATTC
1 AATAAAATTAGCCCTCTAATATTTACAAATT-TATTAATTTTAGTCCTAAATATAAAAAATTC
* * * * * * *
12127277 AATAAATTTAGCCCTC-ATTGTTTACAAAATTT-TTCATTTTAGTTCTAATTCTAAAAAATTC
1 AATAAAATTAGCCCTCTAATATTTAC-AAATTTATTAATTTTAGTCCTAAATATAAAAAATTC
* * * * *
12127338 AATAAACTT-GCCC-CTTAACATTTACAAAATATATCAA-TTTAGTCCTAAATGTAAAAA
1 AATAAAATTAGCCCTC-TAATATTTAC-AAATTTATTAATTTTAGTCCTAAATATAAAAA
12127395 TACTATATAT
Statistics
Matches: 95, Mismatches: 18, Indels: 11
0.77 0.15 0.09
Matches are distributed among these distances:
59 1 0.01
60 12 0.13
61 61 0.64
62 21 0.22
ACGTcount: A:0.42, C:0.16, G:0.04, T:0.39
Consensus pattern (62 bp):
AATAAAATTAGCCCTCTAATATTTACAAATTTATTAATTTTAGTCCTAAATATAAAAAATTC
Found at i:12132616 original size:24 final size:24
Alignment explanation
Indices: 12132584--12132631 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
12132574 TCATTAATAA
*
12132584 ATAAATGAGTCAATAAAAGAGCTT
1 ATAAATGAGCCAATAAAAGAGCTT
* *
12132608 ATAAATGAGCCAATGAATGAGCTT
1 ATAAATGAGCCAATAAAAGAGCTT
12132632 GTTCGAGAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.46, C:0.10, G:0.19, T:0.25
Consensus pattern (24 bp):
ATAAATGAGCCAATAAAAGAGCTT
Found at i:12143333 original size:26 final size:26
Alignment explanation
Indices: 12143301--12143359 Score: 118
Period size: 26 Copynumber: 2.3 Consensus size: 26
12143291 TGGGTGAATC
12143301 ATGAATAACTATCGTTTGATTGATCA
1 ATGAATAACTATCGTTTGATTGATCA
12143327 ATGAATAACTATCGTTTGATTGATCA
1 ATGAATAACTATCGTTTGATTGATCA
12143353 ATGAATA
1 ATGAATA
12143360 TTTTGCAGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.37
Consensus pattern (26 bp):
ATGAATAACTATCGTTTGATTGATCA
Found at i:12146811 original size:21 final size:21
Alignment explanation
Indices: 12146781--12146821 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
12146771 AAAGAAATTG
*
12146781 TTGTTCTTTTTTACTGTTTTC
1 TTGTTATTTTTTACTGTTTTC
*
12146802 TTGTTATTTTTTATTGTTTT
1 TTGTTATTTTTTACTGTTTT
12146822 ATTGCTTTTT
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:0.07, C:0.07, G:0.10, T:0.76
Consensus pattern (21 bp):
TTGTTATTTTTTACTGTTTTC
Found at i:12146831 original size:20 final size:21
Alignment explanation
Indices: 12146787--12146841 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
12146777 ATTGTTGTTC
* * *
12146787 TTTTTTACTGTTTTCTTGTTA
1 TTTTTTATTGTTTTATTGCTA
12146808 TTTTTTATTGTTTTATTGCT-
1 TTTTTTATTGTTTTATTGCTA
*
12146828 TTTTTTGTTGTTTT
1 TTTTTTATTGTTTT
12146842 TTCATTACTT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 13 0.43
21 17 0.57
ACGTcount: A:0.07, C:0.05, G:0.11, T:0.76
Consensus pattern (21 bp):
TTTTTTATTGTTTTATTGCTA
Found at i:12147874 original size:22 final size:22
Alignment explanation
Indices: 12147849--12147900 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
12147839 TGTTTTCTCC
*
12147849 TTATTTTGCTACCATTTTACTA
1 TTATTTTACTACCATTTTACTA
* * **
12147871 TTATATTACTACTATTTTGTTA
1 TTATTTTACTACCATTTTACTA
12147893 TTATTTTA
1 TTATTTTA
12147901 AAGACATTTG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.25, C:0.12, G:0.04, T:0.60
Consensus pattern (22 bp):
TTATTTTACTACCATTTTACTA
Found at i:12147924 original size:30 final size:30
Alignment explanation
Indices: 12147884--12147940 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
12147874 TATTACTACT
*
12147884 ATTTTGTTATTATTTTAAAGACATTTGTTA
1 ATTTTATTATTATTTTAAAGACATTTGTTA
* *
12147914 ATTTTATTATTATTTTAGAGATATTTG
1 ATTTTATTATTATTTTAAAGACATTTG
12147941 ATTGTTAAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.58
Consensus pattern (30 bp):
ATTTTATTATTATTTTAAAGACATTTGTTA
Found at i:12149707 original size:80 final size:79
Alignment explanation
Indices: 12149609--12149762 Score: 195
Period size: 80 Copynumber: 1.9 Consensus size: 79
12149599 ACACTTGTTT
* * *
12149609 ACTTGTGGAGTATAAAACCT-TTACTAACAGTACACCAAATATTTTCTCATAAT-TTTAATATCA
1 ACTTGTGGAGTATAAAACCTCCT-CCAACAGTACACCAAATATTTTCTCAT-ATGCTT-ATATCA
12149672 TTAAACATACATGATTA
63 TTAAACATACATGATTA
* * * * *
12149689 ACTTGTGGAGTCTAAAACCTCCTCCAATAGTGCATCAAATATTTTCTCATATGCTTATATTATTA
1 ACTTGTGGAGTATAAAACCTCCTCCAACAGTACACCAAATATTTTCTCATATGCTTATATCATTA
12149754 AACATACAT
66 AACATACAT
12149763 ATTTACATTT
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
79 19 0.30
80 44 0.69
81 1 0.02
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.36
Consensus pattern (79 bp):
ACTTGTGGAGTATAAAACCTCCTCCAACAGTACACCAAATATTTTCTCATATGCTTATATCATTA
AACATACATGATTA
Found at i:12149889 original size:19 final size:20
Alignment explanation
Indices: 12149844--12149907 Score: 64
Period size: 18 Copynumber: 3.4 Consensus size: 20
12149834 ATTACAATTC
*
12149844 CATTTTCATAATAAATTTTAA
1 CATTTTAATAAT-AATTTTAA
12149865 CA--TTAATAATAATTTTAA
1 CATTTTAATAATAATTTTAA
*
12149883 -ATTTTAA-AATATTTTTAA
1 CATTTTAATAATAATTTTAA
*
12149901 TATTTTA
1 CATTTTA
12149908 TTTAATAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
17 1 0.03
18 18 0.47
19 17 0.45
21 2 0.05
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.52
Consensus pattern (20 bp):
CATTTTAATAATAATTTTAA
Found at i:12150443 original size:35 final size:36
Alignment explanation
Indices: 12150404--12150487 Score: 118
Period size: 35 Copynumber: 2.4 Consensus size: 36
12150394 CTATGGTTTT
*
12150404 TTAGGGTTTTAG-ATTTAGGGTTTTGATAAAATAAG
1 TTAGGGTTTTAGTATTTAGGGTTTTGATAAAACAAG
* * *
12150439 TTAGGG-TTTAGTATTTATGTTTTTGTTAAAACAAG
1 TTAGGGTTTTAGTATTTAGGGTTTTGATAAAACAAG
12150474 TTAGGGTTTTAGTA
1 TTAGGGTTTTAGTA
12150488 GTTTTTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
34 5 0.12
35 31 0.72
36 7 0.16
ACGTcount: A:0.29, C:0.01, G:0.24, T:0.46
Consensus pattern (36 bp):
TTAGGGTTTTAGTATTTAGGGTTTTGATAAAACAAG
Found at i:12150669 original size:33 final size:34
Alignment explanation
Indices: 12150606--12150688 Score: 132
Period size: 33 Copynumber: 2.5 Consensus size: 34
12150596 AGGTTTTGAA
* *
12150606 TTTAAATAGATTAAGTAAATTATGGTTCTAGGAT
1 TTTAAATAAATTAAGTAAATTATGGCTCTAGGAT
12150640 TTTAAATAAATTAAGT-AATTATGGCTCTAGGAT
1 TTTAAATAAATTAAGTAAATTATGGCTCTAGGAT
*
12150673 TTTAAAAAAATTAAGT
1 TTTAAATAAATTAAGT
12150689 TAGCGTTTAT
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
33 31 0.67
34 15 0.33
ACGTcount: A:0.42, C:0.04, G:0.14, T:0.40
Consensus pattern (34 bp):
TTTAAATAAATTAAGTAAATTATGGCTCTAGGAT
Found at i:12150766 original size:34 final size:34
Alignment explanation
Indices: 12150728--12150796 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
12150718 TAGGGTTTAT
** *
12150728 TAAATTAGGG-TTTATGTTTTTTAAATAGATTAAG
1 TAAATTAGGGTTTTA-GGGTTTTAAATAAATTAAG
*
12150762 TAAATTGGGGTTTTAGGGTTTTAAATAAATTAAG
1 TAAATTAGGGTTTTAGGGTTTTAAATAAATTAAG
12150796 T
1 T
12150797 TAGGGTTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 26 0.87
35 4 0.13
ACGTcount: A:0.35, C:0.00, G:0.20, T:0.45
Consensus pattern (34 bp):
TAAATTAGGGTTTTAGGGTTTTAAATAAATTAAG
Found at i:12150802 original size:22 final size:22
Alignment explanation
Indices: 12150774--12150849 Score: 89
Period size: 22 Copynumber: 3.5 Consensus size: 22
12150764 AATTGGGGTT
* *
12150774 TTAGGGTTTTAAATAAATTAAG
1 TTAGGGTTTAAAATAAATTAAA
12150796 TTAGGGTTTAAAATAAATTAAA
1 TTAGGGTTTAAAATAAATTAAA
* * * **
12150818 TTAGTGTTTCAGATTTATTAAA
1 TTAGGGTTTAAAATAAATTAAA
12150840 TTAGGGTTTA
1 TTAGGGTTTA
12150850 TATTTGTTGG
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.38, C:0.01, G:0.17, T:0.43
Consensus pattern (22 bp):
TTAGGGTTTAAAATAAATTAAA
Found at i:12150935 original size:21 final size:21
Alignment explanation
Indices: 12150887--12150935 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
12150877 TAGGGTTTCA
*
12150887 AGGTTTTAAATAAATTAAGTT
1 AGGTTTAAAATAAATTAAGTT
* *
12150908 ACAGTTTAAAATAAATTAATTT
1 A-GGTTTAAAATAAATTAAGTT
12150930 AGGTTT
1 AGGTTT
12150936 TTGGGTTTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.43, C:0.02, G:0.12, T:0.43
Consensus pattern (21 bp):
AGGTTTAAAATAAATTAAGTT
Found at i:12151025 original size:109 final size:109
Alignment explanation
Indices: 12150647--12151133 Score: 570
Period size: 109 Copynumber: 4.5 Consensus size: 109
12150637 GATTTTAAAT
* * * * * * *
12150647 AAATTAAGT-AATTATGGCTCTAGGATTTTAAAAAAATTAAGTTAGCGTTTATAATAAATTAAAT
1 AAATTAAGTAAATTAGGGTTTTAAGATTTTAAATAAATTAAGTTAGGGTTTAAAATAAATTAAAT
* **
12150711 TAGGG-TTTAGGGTTTATTAAATTAGGGTTTATGTTTTTTAAAT-
66 TAGGGTTTTA-GGTTTATTAAATTAGGGTTTATATTTTTTAGTTA
* * * *
12150754 AGATTAAGTAAATTGGGGTTTTAGGGTTTTAAATAAATTAAGTTAGGGTTTAAAATAAATTAAAT
1 AAATTAAGTAAATTAGGGTTTTAAGATTTTAAATAAATTAAGTTAGGGTTTAAAATAAATTAAAT
* * * * *
12150819 TAGTGTTTCAGATTTATTAAATTAGGGTTTATATTTGTTGGTTAA
66 TAGGGTTTTAGGTTTATTAAATTAGGGTTTATATTTTTTAGTT-A
* * * ** *
12150864 AAATTAATTAAATTAGGGTTTCAAGGTTTTAAATAAATTAAGTTACAGTTTAAAATAAATTAATT
1 AAATTAAGTAAATTAGGGTTTTAAGATTTTAAATAAATTAAGTTAGGGTTTAAAATAAATTAAAT
* *
12150929 TAGGTTTTTGGGTTTATTAAATTAGGGTTTATATTTTTTAGTTA
66 TAGGGTTTTAGGTTTATTAAATTAGGGTTTATATTTTTTAGTTA
*
12150973 AAATTAATTAAATTAGGGTTTTAAGATTTTAAATAAATTAAGTTAGGGTTTAAAATAAATTAAAT
1 AAATTAAGTAAATTAGGGTTTTAAGATTTTAAATAAATTAAGTTAGGGTTTAAAATAAATTAAAT
* * * *
12151038 TAGGGTTTTAGGTTTATCAAATTAGGGCTTATGTTTTTT--TAA
66 TAGGGTTTTAGGTTTATTAAATTAGGGTTTATATTTTTTAGTTA
** * * *
12151080 ATAGATTAAGTAAATTAGAATGTTAGGATTTTAAATAAATTAAATTAGGGTTTA
1 A-A-ATTAAGTAAATTAGGGTTTTAAGATTTTAAATAAATTAAGTTAGGGTTTA
12151134 GTTTTTTTTT
Statistics
Matches: 325, Mismatches: 49, Indels: 10
0.85 0.13 0.03
Matches are distributed among these distances:
107 11 0.03
108 79 0.24
109 142 0.44
110 93 0.29
ACGTcount: A:0.38, C:0.02, G:0.17, T:0.44
Consensus pattern (109 bp):
AAATTAAGTAAATTAGGGTTTTAAGATTTTAAATAAATTAAGTTAGGGTTTAAAATAAATTAAAT
TAGGGTTTTAGGTTTATTAAATTAGGGTTTATATTTTTTAGTTA
Found at i:12151031 original size:22 final size:22
Alignment explanation
Indices: 12151003--12151045 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
12150993 TTAAGATTTT
*
12151003 AAATAAATTAAGTTAGGGTTTA
1 AAATAAATTAAATTAGGGTTTA
12151025 AAATAAATTAAATTAGGGTTT
1 AAATAAATTAAATTAGGGTTT
12151046 TAGGTTTATC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.16, T:0.37
Consensus pattern (22 bp):
AAATAAATTAAATTAGGGTTTA
Found at i:12151609 original size:127 final size:125
Alignment explanation
Indices: 12151191--12151692 Score: 649
Period size: 125 Copynumber: 4.0 Consensus size: 125
12151181 CTATTTTTAC
* * *
12151191 CCTGAAAAAATAATTTTGAGAAAACGTTTTTGAACAAATAATGTCAAAAACGCTTCAAGCAGGAT
1 CCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGAT
* * *
12151256 GCACTGTCAGCAAAAATACAGAAAAAAGCTTCCACGTGGACGCTCTTTTGCTACAGTAGTT
66 GCAATGTCAGCAAAAATACAAAAAAAAGC-TCCACATGGACGCTCTTTTGCTACAGTAGTT
* * *
12151317 CCT-AAAAAATAGTTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAATGCTTCAAGCAAGAT
1 CCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGAT
* * * ** * ** *
12151381 GAAATGTCAGCAAAATTTCTGAAAAAAGTTCC-CA-GG--TTTCTTTTTCTACAGTAGTT
66 GCAATGTCAGCAAAAATACAAAAAAAAGCTCCACATGGACGCTCTTTTGCTACAGTAGTT
*
12151437 CCTGAAAAAATAATTTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGTAGGA
1 CCTGAAAAAATAA-TTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGA
* *
12151502 TGCAATGTCAGCAAAAATACAAAAAAAAAGCTCCTACATGGACGCTCTTTTGCTATAGTTGTT
65 TGCAATGTCAGCAAAAATAC-AAAAAAAAGCTCC-ACATGGACGCTCTTTTGCTACAGTAGTT
*
12151565 CCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGTAGGAT
1 CCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGAT
* * * *
12151630 GCAATGTCAGCAAAATTTCTAAAAAAAAAGCTCTA-ATGTGTACGCTCTTTTTCTACA-TAGTT
66 GCAATGTCAGCAAAAATAC--AAAAAAAAGCTCCACATG-G-ACGCTCTTTTGCTACAGTAGTT
12151692 C
1 C
12151693 ATGCTTGGCC
Statistics
Matches: 328, Mismatches: 37, Indels: 21
0.85 0.10 0.05
Matches are distributed among these distances:
120 20 0.06
121 8 0.02
122 67 0.20
123 11 0.03
124 3 0.01
125 80 0.24
126 8 0.02
127 76 0.23
128 55 0.17
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (125 bp):
CCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGAT
GCAATGTCAGCAAAAATACAAAAAAAAGCTCCACATGGACGCTCTTTTGCTACAGTAGTT
Found at i:12151640 original size:249 final size:246
Alignment explanation
Indices: 12151191--12151656 Score: 754
Period size: 249 Copynumber: 1.9 Consensus size: 246
12151181 CTATTTTTAC
*
12151191 CCTGAAAAAATAATTTTGAGAAAACGTTTTTGAACAAATAATGTCAAAAACGCTTCAAGCAGGAT
1 CCTGAAAAAATAATTTTGAGAAAACGTTTCTGAACAAATAATGTCAAAAACGCTTCAAGCAGGAT
* * *
12151256 GCACTGTCAGCAAAAATACAGAAAAAAGCTTCCACGTGGACGCTCTTTTGCTACAGTAGTTCCTA
66 GCAATGTCAGCAAAAATACAAAAAAAAGCTTCCACATGGACGCTCTTTTGCTACAGTAGTTCCTA
* *
12151321 AAAAATAGTTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAATGCTTCAAGCAAGATGAAAT
131 AAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAAGATGAAAT
*
12151386 GTCAGCAAAATTTCTGAAAAAAGTTCCCAGGTTTCTTTTTCTACAGTAGTT
196 GTCAGCAAAATTTCTAAAAAAAGTTCCCAGGTTTCTTTTTCTACAGTAGTT
* * *
12151437 CCTGAAAAAATAATTTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGTAGGA
1 CCTGAAAAAATAA-TTTTGAGAAAACGTTTCTGAACAAATAATGTCAAAAACGCTTCAAGCAGGA
* *
12151502 TGCAATGTCAGCAAAAATACAAAAAAAAAGC-TCCTACATGGACGCTCTTTTGCTATAGTTGTTC
65 TGCAATGTCAGCAAAAATAC-AAAAAAAAGCTTCC-ACATGGACGCTCTTTTGCTACAGTAGTTC
* *
12151566 CTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGTAGGATG
128 CT-AAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAAGATG
*
12151631 CAATGTCAGCAAAATTTCTAAAAAAA
192 AAATGTCAGCAAAATTTCTAAAAAAA
12151657 AAGCTCTAAT
Statistics
Matches: 201, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
246 13 0.06
247 69 0.34
248 37 0.18
249 82 0.41
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.27
Consensus pattern (246 bp):
CCTGAAAAAATAATTTTGAGAAAACGTTTCTGAACAAATAATGTCAAAAACGCTTCAAGCAGGAT
GCAATGTCAGCAAAAATACAAAAAAAAGCTTCCACATGGACGCTCTTTTGCTACAGTAGTTCCTA
AAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAAGATGAAAT
GTCAGCAAAATTTCTAAAAAAAGTTCCCAGGTTTCTTTTTCTACAGTAGTT
Found at i:12155820 original size:7 final size:7
Alignment explanation
Indices: 12155810--12155834 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
12155800 TTATATACAT
12155810 AATACTA
1 AATACTA
12155817 AATACTA
1 AATACTA
12155824 AATACTA
1 AATACTA
12155831 AATA
1 AATA
12155835 TGAAACGACT
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:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:12156821 original size:42 final size:43
Alignment explanation
Indices: 12156775--12156859 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 43
12156765 AATAAAAATT
12156775 AATTAAAATTACA-T-AAATGAAAAAA-ATTAAATAATATTCAAA
1 AATTAAAATTA-ATTAAAATGAAAAAATATTAAA-AATATTCAAA
* *
12156817 AATTAAAATTAATTAAAATGAAAAAATGTTAAAAATGTTCAAA
1 AATTAAAATTAATTAAAATGAAAAAATATTAAAAATATTCAAA
12156860 GTTTAAAACA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
41 1 0.03
42 12 0.32
43 20 0.53
44 5 0.13
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.29
Consensus pattern (43 bp):
AATTAAAATTAATTAAAATGAAAAAATATTAAAAATATTCAAA
Found at i:12173130 original size:43 final size:40
Alignment explanation
Indices: 12173054--12173249 Score: 126
Period size: 43 Copynumber: 4.7 Consensus size: 40
12173044 GAGATATAAT
* * * *
12173054 TTCGTGTAAGACCACATCTGGGACGTTGGCATCGACTTGAGA
1 TTCGTGTAAGACCATATCTGGGAC-ATGACATCGA-TTAAGA
* *
12173096 TATCGTGTAAGACCGTGTCTGGGACACTGACATCGATTAAAGA
1 T-TCGTGTAAGACCATATCTGGGACA-TGACATCGATT-AAGA
* * * * *
12173139 TTACATATAAGACCATGTCTGGGACATCAACATCGTATTTAA-T
1 TT-CGTGTAAGACCATATCTGGGACAT-GACATCG-A-TTAAGA
* *
12173182 TTCGTGTAAGACCATATCTGGGACAGTGGCATCGA-TATTGA
1 TTCGTGTAAGACCATATCTGGGACA-TGACATCGATTA-AGA
* **
12173223 TTACATGTAAGACCACGTCTGGGACAT
1 TT-CGTGTAAGACCATATCTGGGACAT
12173250 TGGCATTGTA
Statistics
Matches: 122, Mismatches: 21, Indels: 23
0.73 0.13 0.14
Matches are distributed among these distances:
39 2 0.02
41 4 0.03
42 50 0.41
43 61 0.50
44 3 0.02
45 2 0.02
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.28
Consensus pattern (40 bp):
TTCGTGTAAGACCATATCTGGGACATGACATCGATTAAGA
Found at i:12173215 original size:42 final size:41
Alignment explanation
Indices: 12173050--12173255 Score: 155
Period size: 42 Copynumber: 4.9 Consensus size: 41
12173040 TTCTGAGATA
**
12173050 TAATTTCGTGTAAGACCACATCTGGGAC-GTTGGCATCGACTT
1 TAATTTCGTGTAAGACCATGTCTGGGACAG-TGGCATCGA-TT
* * * * *
12173092 GAGATATCGTGTAAGACCGTGTCTGGGACACTGACATCGATT
1 TA-ATTTCGTGTAAGACCATGTCTGGGACAGTGGCATCGATT
* * * * **
12173134 AAAGATTACATATAAGACCATGTCTGGGACA-TCAACATCGTATT
1 -TA-ATTTCGTGTAAGACCATGTCTGGGACAGT-GGCATCG-ATT
*
12173178 TAATTTCGTGTAAGACCATATCTGGGACAGTGGCATCGATAT
1 TAATTTCGTGTAAGACCATGTCTGGGACAGTGGCATCGAT-T
* * * * *
12173220 TGATTACATGTAAGACCACGTCTGGGACATTGGCAT
1 TAATTTCGTGTAAGACCATGTCTGGGACAGTGGCAT
12173256 TGTACGAGCT
Statistics
Matches: 130, Mismatches: 27, Indels: 14
0.76 0.16 0.08
Matches are distributed among these distances:
41 2 0.02
42 63 0.48
43 62 0.48
44 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (41 bp):
TAATTTCGTGTAAGACCATGTCTGGGACAGTGGCATCGATT
Found at i:12175242 original size:24 final size:24
Alignment explanation
Indices: 12175214--12175265 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
12175204 TTTCTAAAAG
* *
12175214 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
*
12175238 ATTTAGCATTTATTAGCATAATTT
1 ATTTAGCATTTATTAGCATAATAT
12175262 ATTT
1 ATTT
12175266 GACCTATGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.54
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:12178096 original size:11 final size:11
Alignment explanation
Indices: 12178080--12178110 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
12178070 TTAAACATTG
12178080 CCATGGTCTAA
1 CCATGGTCTAA
*
12178091 CCATGGTCCAA
1 CCATGGTCTAA
12178102 CCATGGTCT
1 CCATGGTCT
12178111 TATCCGTCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.26
Consensus pattern (11 bp):
CCATGGTCTAA
Found at i:12183825 original size:53 final size:52
Alignment explanation
Indices: 12183768--12183900 Score: 162
Period size: 53 Copynumber: 2.5 Consensus size: 52
12183758 ATTCTCCGAT
12183768 GCCATAGCCCAGCTATGGTCTTATACGG-ATCACTTGTATCACATT-AATCTAAA
1 GCCATAGCCCAGCTATGGTCTTATACGGAATCAC-T-TATC-CATTCAATCTAAA
* ** * *
12183821 GCCATAGCCCAGCTATGGTCTTATACGGAAATCACTTATCCTTTGCTTTCTGAT
1 GCCATAGCCCAGCTATGGTCTTATACGG-AATCACTTATCCATT-CAATCTAAA
12183875 GCCATAGCCCAGCTATGGTCTTATAC
1 GCCATAGCCCAGCTATGGTCTTATAC
12183901 AAATATCGCT
Statistics
Matches: 71, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
52 3 0.04
53 32 0.45
54 31 0.44
55 5 0.07
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.32
Consensus pattern (52 bp):
GCCATAGCCCAGCTATGGTCTTATACGGAATCACTTATCCATTCAATCTAAA
Found at i:12193138 original size:24 final size:24
Alignment explanation
Indices: 12193110--12193161 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
12193100 TTTCTAGAAG
* *
12193110 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
* *
12193134 ATTTAGCATTTGTTAGCATAATTT
1 ATTTAGCATTTATTAGCATAATAT
12193158 ATTT
1 ATTT
12193162 GACCAACAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.04, G:0.10, T:0.54
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:12217581 original size:51 final size:51
Alignment explanation
Indices: 12217520--12217652 Score: 167
Period size: 51 Copynumber: 2.6 Consensus size: 51
12217510 ATCAAATCTC
* * * *
12217520 TAAGAATATAAAATCATATCTTCTAAGATTACATATCTTATCTAAGATATG
1 TAAGATTATAAAATCATATCTTATAAGATCACATATCATATCTAAGATATG
** * * * *
12217571 TAATCTTATAAAATAATATCCTATAAGATCACATATCATATCTAAGATCTT
1 TAAGATTATAAAATCATATCTTATAAGATCACATATCATATCTAAGATATG
*
12217622 TAAGATTATAAAATCATATCTTTTAAGATCA
1 TAAGATTATAAAATCATATCTTATAAGATCA
12217653 TGTTTCCATA
Statistics
Matches: 67, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 67 1.00
ACGTcount: A:0.44, C:0.13, G:0.06, T:0.38
Consensus pattern (51 bp):
TAAGATTATAAAATCATATCTTATAAGATCACATATCATATCTAAGATATG
Found at i:12231230 original size:40 final size:38
Alignment explanation
Indices: 12231175--12231272 Score: 117
Period size: 40 Copynumber: 2.5 Consensus size: 38
12231165 TGCAGTACCT
* *
12231175 TATGGTGTGTAGGGATGGATGGATCAATTTTGTCCCCATA
1 TATGGTGTGCAGGGATGGATGGATCAATTTTATCCCC--A
*
12231215 TATGGTGTGCAGGGATGTG-TGGGTCAATTTTATCCCCA
1 TATGGTGTGCAGGGATG-GATGGATCAATTTTATCCCCA
* *
12231253 TATGGTGTGCCGGGTTGGAT
1 TATGGTGTGCAGGGATGGAT
12231273 CGAGTTGGTG
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
37 1 0.02
38 17 0.33
40 32 0.63
41 1 0.02
ACGTcount: A:0.18, C:0.13, G:0.34, T:0.35
Consensus pattern (38 bp):
TATGGTGTGCAGGGATGGATGGATCAATTTTATCCCCA
Found at i:12250234 original size:14 final size:14
Alignment explanation
Indices: 12250215--12250245 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
12250205 ATACGGGCCT
12250215 AAGAATGAATTAAC
1 AAGAATGAATTAAC
12250229 AAGAATGAATTAAC
1 AAGAATGAATTAAC
12250243 AAG
1 AAG
12250246 TTAATCGAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.58, C:0.06, G:0.16, T:0.19
Consensus pattern (14 bp):
AAGAATGAATTAAC
Found at i:12256305 original size:21 final size:21
Alignment explanation
Indices: 12256246--12256306 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
12256236 TAGACATGAC
** *
12256246 CGTGTGGCTAATTCACACGCT
1 CGTGTGGCTAAGACACACGAT
*
12256267 CGTGTGGCTAAGAAACACGAT
1 CGTGTGGCTAAGACACACGAT
* *
12256288 CGTGTGTCTAAGGCACACG
1 CGTGTGGCTAAGACACACG
12256307 TCTTTGTGAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.23
Consensus pattern (21 bp):
CGTGTGGCTAAGACACACGAT
Found at i:12259249 original size:6 final size:6
Alignment explanation
Indices: 12259231--12259350 Score: 86
Period size: 6 Copynumber: 19.3 Consensus size: 6
12259221 AAGAAACATT
* *
12259231 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * *
12259280 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA ATCAGT ATCAGGTA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
*
12259331 A-CAGA ATCAAAA ATCAGA AT
1 ATCAGA ATC-AGA ATCAGA AT
12259351 GTGAATGCAA
Statistics
Matches: 90, Mismatches: 12, Indels: 24
0.71 0.10 0.19
Matches are distributed among these distances:
5 6 0.07
6 67 0.74
7 14 0.16
8 3 0.03
ACGTcount: A:0.48, C:0.15, G:0.17, T:0.19
Consensus pattern (6 bp):
ATCAGA
Done.