Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 146 of 214
Found at i:43718651 original size:78 final size:78
Alignment explanation
Indices: 43718567--43718717 Score: 232
Period size: 78 Copynumber: 1.9 Consensus size: 78
43718557 AATTTATCCC
* * * *
43718567 AATTTAAATCATTAATTAATTTTTTCAAATATAGATTGA-AAATAATTAATAATTATATGCTAAG
1 AATTTAAATCATTAATT-ATTTTTTCAAAAATAGATCGACAAAAAATAAATAATTATATGCTAAG
*
43718631 TGAATTTTAATTAT
65 TGAAGTTTAATTAT
*
43718645 AATTTAAATCATTAATTATTTTTTCAAAAATAGATCGACAAAAAATAAATTATTATATGCTAAGT
1 AATTTAAATCATTAATTATTTTTTCAAAAATAGATCGACAAAAAATAAATAATTATATGCTAAGT
43718710 GAAGTTTA
66 GAAGTTTA
43718718 CGTGAGTTTT
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
77 19 0.29
78 47 0.71
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.42
Consensus pattern (78 bp):
AATTTAAATCATTAATTATTTTTTCAAAAATAGATCGACAAAAAATAAATAATTATATGCTAAGT
GAAGTTTAATTAT
Found at i:43724151 original size:29 final size:29
Alignment explanation
Indices: 43724101--43724157 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
43724091 TAATCCATTT
* * *
43724101 TTTTCTAATTAGACTAGGATTTTGCTTCC
1 TTTTCAAATTAGACTAGAATTTTACTTCC
* *
43724130 TTTTCAAATTATATTAGAATTTTACTTC
1 TTTTCAAATTAGACTAGAATTTTACTTC
43724158 TATCTTATCT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.26, C:0.14, G:0.09, T:0.51
Consensus pattern (29 bp):
TTTTCAAATTAGACTAGAATTTTACTTCC
Found at i:43729317 original size:19 final size:19
Alignment explanation
Indices: 43729293--43729330 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
43729283 TTAGGACCTT
43729293 TGGAAGATAGTATTTATAC
1 TGGAAGATAGTATTTATAC
43729312 TGGAAGATAGTATTTATAC
1 TGGAAGATAGTATTTATAC
43729331 CCTTTAATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.05, G:0.21, T:0.37
Consensus pattern (19 bp):
TGGAAGATAGTATTTATAC
Found at i:43730337 original size:49 final size:47
Alignment explanation
Indices: 43730221--43730339 Score: 123
Period size: 47 Copynumber: 2.5 Consensus size: 47
43730211 ATTTAAAAAC
* * *
43730221 AAAATTGAATACTATTTAAAAATATTATTAAAAATAAAAAATTATAT
1 AAAATTTAAAACTGTTTAAAAATATTATTAAAAATAAAAAATTATAT
* * * * * *
43730268 GAAATTTAAAATTGTCTAAAAATATTTTTAAAAATTAAATACTT-TAT
1 AAAATTTAAAACTGTTTAAAAATATTATTAAAAA-TAAAAAATTATAT
43730315 AAAATATTTAAAACTGTTTAAAAAT
1 -AAA-ATTTAAAACTGTTTAAAAAT
43730340 CCTAAACCCT
Statistics
Matches: 57, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
47 30 0.53
48 9 0.16
49 18 0.32
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (47 bp):
AAAATTTAAAACTGTTTAAAAATATTATTAAAAATAAAAAATTATAT
Found at i:43733228 original size:12 final size:12
Alignment explanation
Indices: 43733211--43733235 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
43733201 CAATTAACTT
43733211 TGTGAATTTTTA
1 TGTGAATTTTTA
43733223 TGTGAATTTTTA
1 TGTGAATTTTTA
43733235 T
1 T
43733236 TTCCGATTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.16, T:0.60
Consensus pattern (12 bp):
TGTGAATTTTTA
Found at i:43734420 original size:59 final size:61
Alignment explanation
Indices: 43734357--43734483 Score: 154
Period size: 59 Copynumber: 2.1 Consensus size: 61
43734347 ATCTTCACAC
* * * *
43734357 TTTCTTCAACTTTTTCTTTGAGCCAAAGCTTCA-TA-CACAATTA-CTTTT-CTTTTTCACTT
1 TTTCTTCAACATTGTCTTTGAGCCAAAGCTTCATTAGCAC--TGACCTTTTCCCTTTTCACTT
* *
43734416 TTTCTTTAACATTGTCTTTGAGGCAAAGCTTCATTAGCACTGACCTTTTCCCTTTTCACTT
1 TTTCTTCAACATTGTCTTTGAGCCAAAGCTTCATTAGCACTGACCTTTTCCCTTTTCACTT
43734477 TTTCTTC
1 TTTCTTC
43734484 TAAATATAGA
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
59 31 0.54
60 7 0.12
61 19 0.33
ACGTcount: A:0.20, C:0.24, G:0.08, T:0.48
Consensus pattern (61 bp):
TTTCTTCAACATTGTCTTTGAGCCAAAGCTTCATTAGCACTGACCTTTTCCCTTTTCACTT
Found at i:43736995 original size:44 final size:44
Alignment explanation
Indices: 43736932--43737019 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
43736922 ACTTGTTGGT
43736932 GGCATAATTTTACAACATCCTGACAAGACCTCTAACCTATTTCC
1 GGCATAATTTTACAACATCCTGACAAGACCTCTAACCTATTTCC
*
43736976 GGCATAATTTTACAACATCCTGACAAGATCTCTAACCTATTTCC
1 GGCATAATTTTACAACATCCTGACAAGACCTCTAACCTATTTCC
43737020 ACTGAAAAAG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.32, C:0.28, G:0.09, T:0.31
Consensus pattern (44 bp):
GGCATAATTTTACAACATCCTGACAAGACCTCTAACCTATTTCC
Found at i:43744441 original size:22 final size:21
Alignment explanation
Indices: 43744408--43744450 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
43744398 TATTTTTAAT
43744408 TTTTAAATATTTATATTATATTA
1 TTTTAAATATTT-TATT-TATTA
43744431 TTTT-AATATTTTATTTATTA
1 TTTTAAATATTTTATTTATTA
43744451 AACTTTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 5 0.25
21 4 0.20
22 7 0.35
23 4 0.20
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTTAAATATTTTATTTATTA
Found at i:43744452 original size:38 final size:38
Alignment explanation
Indices: 43744401--43744475 Score: 100
Period size: 38 Copynumber: 2.0 Consensus size: 38
43744391 CTCATATTAT
*
43744401 TTTTAATTTTTAAA-TATTTATATTATATTATTTTAATA
1 TTTTAATTTTTAAACT-TTTATATAATATTATTTTAATA
*
43744439 TTTT-ATTTATTAAACTTTTTTATAATATTATTTTAAT
1 TTTTAATTT-TTAAACTTTTATATAATATTATTTTAAT
43744476 GTTTACATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
37 4 0.12
38 28 0.85
39 1 0.03
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (38 bp):
TTTTAATTTTTAAACTTTTATATAATATTATTTTAATA
Found at i:43752337 original size:29 final size:29
Alignment explanation
Indices: 43752289--43752348 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
43752279 TCAAGTTTTA
* *
43752289 AATTGATATTAATTAATTTAAATTTCATT
1 AATTGATACTAAGTAATTTAAATTTCATT
*
43752318 AATTGATACTAAGTAGTTTAAATTTCATT
1 AATTGATACTAAGTAATTTAAATTTCATT
43752347 AA
1 AA
43752349 GTCAAAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.47
Consensus pattern (29 bp):
AATTGATACTAAGTAATTTAAATTTCATT
Found at i:43765709 original size:31 final size:31
Alignment explanation
Indices: 43765674--43765733 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
43765664 GATTTAGTTA
43765674 AAAACTTTCAAATAATTTAATAACTTAAATG
1 AAAACTTTCAAATAATTTAATAACTTAAATG
* *
43765705 AAAACTTTCTAATAATTTAATTACTTAAA
1 AAAACTTTCAAATAATTTAATAACTTAAA
43765734 CGTGAACTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.50, C:0.10, G:0.02, T:0.38
Consensus pattern (31 bp):
AAAACTTTCAAATAATTTAATAACTTAAATG
Found at i:43766385 original size:38 final size:38
Alignment explanation
Indices: 43766342--43766418 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
43766332 TGCTAAATTT
43766342 TATAAGTGTTAAATTTATATTACAAATTATTCGGTAAA
1 TATAAGTGTTAAATTTATATTACAAATTATTCGGTAAA
43766380 TATAAGTGTTAAATTTATATTACAAATTATTCGGTAAA
1 TATAAGTGTTAAATTTATATTACAAATTATTCGGTAAA
43766418 T
1 T
43766419 TAGTAAATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.43
Consensus pattern (38 bp):
TATAAGTGTTAAATTTATATTACAAATTATTCGGTAAA
Found at i:43772162 original size:3 final size:3
Alignment explanation
Indices: 43772154--43772195 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
43772144 GAAAAATCAT
* *
43772154 TAA TAA TAA CAA TAA TAA TAA TAA TAA TAA TAA TAA CAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
43772196 AAATTTTCAC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:43776523 original size:23 final size:24
Alignment explanation
Indices: 43776482--43776529 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
43776472 AAATTTTGTA
*
43776482 TTTTTAATTTTAAGAATTTAGTTT
1 TTTTTAATTTTAAGAATTTAATTT
*
43776506 TTTTTAATTTTCAG-ATTTAATTT
1 TTTTTAATTTTAAGAATTTAATTT
43776529 T
1 T
43776530 AATTATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 9 0.41
24 13 0.59
ACGTcount: A:0.27, C:0.02, G:0.06, T:0.65
Consensus pattern (24 bp):
TTTTTAATTTTAAGAATTTAATTT
Found at i:43776544 original size:9 final size:9
Alignment explanation
Indices: 43776530--43776556 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
43776520 ATTTAATTTT
43776530 AATTATTAA
1 AATTATTAA
43776539 AATTATTAA
1 AATTATTAA
43776548 AATTATTAA
1 AATTATTAA
43776557 TATGATATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
AATTATTAA
Found at i:43776966 original size:26 final size:25
Alignment explanation
Indices: 43776937--43776986 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
43776927 AATATTATTA
43776937 AAAAATAAAAAATAAATAAAAAATTT
1 AAAAAT-AAAAATAAATAAAAAATTT
* *
43776963 AAAAATAAAAATACATGAAAAATT
1 AAAAATAAAAATAAATAAAAAATT
43776987 CTCAATTTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (25 bp):
AAAAATAAAAATAAATAAAAAATTT
Found at i:43777063 original size:2 final size:2
Alignment explanation
Indices: 43777056--43777086 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
43777046 ATCCCTTCTA
43777056 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
43777087 ATTTCATCGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:43785050 original size:13 final size:13
Alignment explanation
Indices: 43785032--43785059 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
43785022 TCTCAATGGC
43785032 CAGGTAAAAGTAT
1 CAGGTAAAAGTAT
43785045 CAGGTAAAAGTAT
1 CAGGTAAAAGTAT
43785058 CA
1 CA
43785060 TCGATATCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.11, G:0.21, T:0.21
Consensus pattern (13 bp):
CAGGTAAAAGTAT
Found at i:43801215 original size:57 final size:59
Alignment explanation
Indices: 43801109--43801223 Score: 144
Period size: 57 Copynumber: 1.9 Consensus size: 59
43801099 AGTGGTTATC
* * * *
43801109 TTAATATTAAATTTAATTTAATGTTTATCTTGCAGATAAACATTTTATTATTTTAATAAGAT
1 TTAATATTAAATTTAATCTAA-GTATATCTT--AGATAAACATTATATTAATTTAATAAGAT
*
43801171 TTAATATTAAATTTAATCTAA-TATATCTT-GATAAATATTATATTAATTTAATA
1 TTAATATTAAATTTAATCTAAGTATATCTTAGATAAACATTATATTAATTTAATA
43801224 TTAAAACGAT
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
57 21 0.44
60 7 0.15
62 20 0.42
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (59 bp):
TTAATATTAAATTTAATCTAAGTATATCTTAGATAAACATTATATTAATTTAATAAGAT
Found at i:43806157 original size:13 final size:14
Alignment explanation
Indices: 43806137--43806174 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
43806127 ATATGGGTAG
43806137 GATTCTGTATATCT
1 GATTCTGTATATCT
*
43806151 G-TTCTGTTTATCT
1 GATTCTGTATATCT
43806164 GATTCTG-ATAT
1 GATTCTGTATAT
43806175 TTGTATCTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
13 15 0.71
14 6 0.29
ACGTcount: A:0.18, C:0.13, G:0.16, T:0.53
Consensus pattern (14 bp):
GATTCTGTATATCT
Found at i:43814719 original size:46 final size:45
Alignment explanation
Indices: 43814652--43814931 Score: 330
Period size: 46 Copynumber: 6.6 Consensus size: 45
43814642 TTTGAGTACT
* *
43814652 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
43814698 TCTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
43814734 TCTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
43814770 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
* *
43814816 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
*
43814862 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
43814907 TCTGATCAAG-G-ACAAGTGATAAGTG
1 TCTGATCAAGTGAAAAAGTGATAAGTG
43814932 ATCATACGTA
Statistics
Matches: 215, Mismatches: 8, Indels: 25
0.87 0.03 0.10
Matches are distributed among these distances:
36 64 0.30
38 1 0.00
39 2 0.01
40 4 0.02
42 4 0.02
43 15 0.07
44 2 0.01
45 22 0.10
46 100 0.47
47 1 0.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (45 bp):
TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:43814734 original size:36 final size:36
Alignment explanation
Indices: 43814688--43814796 Score: 200
Period size: 36 Copynumber: 3.0 Consensus size: 36
43814678 GGTAGCTTTA
*
43814688 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
43814724 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
*
43814760 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
43814796 G
1 G
43814797 GTAGCTTTAG
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 71 1.00
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (36 bp):
GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:43814744 original size:21 final size:20
Alignment explanation
Indices: 43814716--43814781 Score: 52
Period size: 21 Copynumber: 3.5 Consensus size: 20
43814706 AGTGAAAAAG
43814716 TGATAAGTGCTATACTTATC
1 TGATAAGTGCTATACTTATC
* **
43814736 TGATCAAGTG--A-A--AAAG
1 TGAT-AAGTGCTATACTTATC
43814752 TGATAAGTGCTATACTTATC
1 TGATAAGTGCTATACTTATC
43814772 TGATCAAGTG
1 TGAT-AAGTG
43814782 ACAAAGTGAT
Statistics
Matches: 33, Mismatches: 6, Indels: 13
0.63 0.12 0.25
Matches are distributed among these distances:
15 5 0.15
16 5 0.15
17 1 0.03
18 2 0.06
19 1 0.03
20 9 0.27
21 10 0.30
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (20 bp):
TGATAAGTGCTATACTTATC
Found at i:43816716 original size:26 final size:26
Alignment explanation
Indices: 43816686--43816738 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
43816676 AAAATGAAAC
43816686 ACATCAATAAAAATATCAACGACATT
1 ACATCAATAAAAATATCAACGACATT
*
43816712 ACATCAATAAAAATATCAATGACATT
1 ACATCAATAAAAATATCAACGACATT
43816738 A
1 A
43816739 TTTAATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.55, C:0.17, G:0.04, T:0.25
Consensus pattern (26 bp):
ACATCAATAAAAATATCAACGACATT
Found at i:43823261 original size:15 final size:15
Alignment explanation
Indices: 43823243--43823294 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
43823233 TAAAATTTTA
43823243 ATAAATAAAAAATAT
1 ATAAATAAAAAATAT
* **
43823258 ATAATTATTAAATAT
1 ATAAATAAAAAATAT
*
43823273 -TAAATTAAAAATAAT
1 ATAAATAAAAAAT-AT
43823288 ATAAATA
1 ATAAATA
43823295 TGTATTTTAT
Statistics
Matches: 27, Mismatches: 8, Indels: 3
0.71 0.21 0.08
Matches are distributed among these distances:
14 8 0.30
15 14 0.52
16 5 0.19
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
ATAAATAAAAAATAT
Found at i:43826462 original size:25 final size:25
Alignment explanation
Indices: 43826426--43826509 Score: 114
Period size: 25 Copynumber: 3.4 Consensus size: 25
43826416 CGGACACACC
*
43826426 ACAGCTCGTATGAGCTTTCCAATTT
1 ACAGCTCGTATGAGCTTCCCAATTT
* *
43826451 ATAGCTTGTATGAGCTTCCCAATTT
1 ACAGCTCGTATGAGCTTCCCAATTT
* * *
43826476 GCAGCTCGTATGAGCTTCCCGATTC
1 ACAGCTCGTATGAGCTTCCCAATTT
43826501 ACAGCTCGT
1 ACAGCTCGT
43826510 GAGAGCATAC
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.33
Consensus pattern (25 bp):
ACAGCTCGTATGAGCTTCCCAATTT
Found at i:43826515 original size:25 final size:25
Alignment explanation
Indices: 43826425--43826540 Score: 108
Period size: 25 Copynumber: 4.6 Consensus size: 25
43826415 GCGGACACAC
* *
43826425 CACAGCTCGTATGAGCTTTCCAATT
1 CACAGCTCGTATGAGCTTCCCGATT
* * * *
43826450 TATAGCTTGTATGAGCTTCCCAATT
1 CACAGCTCGTATGAGCTTCCCGATT
**
43826475 TGCAGCTCGTATGAGCTTCCCGATT
1 CACAGCTCGTATGAGCTTCCCGATT
* * *
43826500 CACAGCTCGTGA-GAGCATACTGATT
1 CACAGCTCGT-ATGAGCTTCCCGATT
*
43826525 CATAGCTCGTATGAGC
1 CACAGCTCGTATGAGC
43826541 ATACATGAAT
Statistics
Matches: 75, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
24 1 0.01
25 73 0.97
26 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.31
Consensus pattern (25 bp):
CACAGCTCGTATGAGCTTCCCGATT
Found at i:43828271 original size:62 final size:59
Alignment explanation
Indices: 43828158--43828274 Score: 155
Period size: 62 Copynumber: 1.9 Consensus size: 59
43828148 ATCACTTTAA
* * *
43828158 TATTAAATTAATATAACATTTATCAAGATAAATATTAGATTAAATTTAATATTAAATTT
1 TATTAAAATAATATAACATTTATCAAGATAAACATTAAATTAAATTTAATATTAAATTT
*
43828217 TATTAAAATAATA-AACTATTTATCTACAAGATAAACATTAAATTTAATTTAATATTAA
1 TATTAAAATAATATAAC-ATTTA--T-CAAGATAAACATTAAATTAAATTTAATATTAA
43828275 GATAATCACT
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
58 3 0.06
59 17 0.34
61 1 0.02
62 29 0.58
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (59 bp):
TATTAAAATAATATAACATTTATCAAGATAAACATTAAATTAAATTTAATATTAAATTT
Found at i:43828313 original size:25 final size:25
Alignment explanation
Indices: 43828259--43828313 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
43828249 AAACATTAAA
*
43828259 TTTAATTTAATATTAAGATAATCAC
1 TTTAATTTAATATTAAGAAAATCAC
*
43828284 TTTAATATTAA-ATTAATAAAAT-AC
1 TTTAAT-TTAATATTAAGAAAATCAC
43828308 TATTAA
1 T-TTAA
43828314 GATATGTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 3 0.12
25 19 0.73
26 4 0.15
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (25 bp):
TTTAATTTAATATTAAGAAAATCAC
Found at i:43828656 original size:20 final size:19
Alignment explanation
Indices: 43828615--43828656 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
43828605 TTCGACCAAT
*
43828615 TTTTGGGTCTTGGTCTAGA
1 TTTTGGGTCTTGGCCTAGA
43828634 TTTTGGGCTCTTAGGCCTA-A
1 TTTTGGG-TCTT-GGCCTAGA
43828654 TTT
1 TTT
43828657 ACGATATCGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 7 0.35
20 8 0.40
21 5 0.25
ACGTcount: A:0.12, C:0.14, G:0.26, T:0.48
Consensus pattern (19 bp):
TTTTGGGTCTTGGCCTAGA
Found at i:43828790 original size:14 final size:14
Alignment explanation
Indices: 43828771--43828797 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
43828761 TACTTGATCA
43828771 AAATTAATTTTTCC
1 AAATTAATTTTTCC
43828785 AAATTAATTTTTC
1 AAATTAATTTTTC
43828798 AAGAAAAATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.52
Consensus pattern (14 bp):
AAATTAATTTTTCC
Found at i:43829931 original size:15 final size:15
Alignment explanation
Indices: 43829907--43829938 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
43829897 TATGCATGCA
*
43829907 AAATATAAAAGACAT
1 AAATACAAAAGACAT
43829922 AAATACAAAAGACAT
1 AAATACAAAAGACAT
43829937 AA
1 AA
43829939 TAATGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:43833162 original size:31 final size:31
Alignment explanation
Indices: 43833126--43833199 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 31
43833116 TAAACTTAGT
* * * *
43833126 AATTCAGTGACTTAAATAAAAAATTTTAAAC
1 AATTCAATAACTTAAATAAAAAATTTCAAAA
* *
43833157 AATTCAATAATTTAAATAAAAACTTTCAAAA
1 AATTCAATAACTTAAATAAAAAATTTCAAAA
43833188 AATTCAATAACT
1 AATTCAATAACT
43833200 ATTTTGCAAC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.54, C:0.11, G:0.03, T:0.32
Consensus pattern (31 bp):
AATTCAATAACTTAAATAAAAAATTTCAAAA
Found at i:43835057 original size:14 final size:15
Alignment explanation
Indices: 43835038--43835070 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
43835028 ATTTGTTTCT
*
43835038 ATATAAAAATAA-TA
1 ATATAAAAAAAATTA
43835052 ATATAAAAAAAATTA
1 ATATAAAAAAAATTA
43835067 ATAT
1 ATAT
43835071 GTCTGGGCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
ATATAAAAAAAATTA
Found at i:43836201 original size:294 final size:294
Alignment explanation
Indices: 43835672--43836257 Score: 1100
Period size: 294 Copynumber: 2.0 Consensus size: 294
43835662 TTATTTGCAA
43835672 CATAAGTACCACCAATCCTCATCACCGTCCAACACCCACCATAAAAACCATCAACTCTCGTCACC
1 CATAAGTACCACCAATCCTCATCACCGTCCAACACCCACCATAAAAACCATCAACTCTCGTCACC
*
43835737 GCCTAACACCCCCTTGCTCTCCCATCTCTATCACTACTCATTCCATTGCCCCTACACAATAAAAT
66 GCCTAACACCCCCTTGCTCTCCCATCTCTATCACTACTCACTCCATTGCCCCTACACAATAAAAT
43835802 TTTATTAATGATTTAGCCCCTGAACGATATCACTTTTACCACTTTAGTACTTCACATTTTTTGGC
131 TTTATTAATGATTTAGCCCCTGAACGATATCACTTTTACCACTTTAGTACTTCACATTTTTTGGC
*
43835867 TGGTCACTTTGGTACTTAAAGTTTACTTCTATTAATTGGTTAGCCCTTCGAATTTAACGACATTA
196 TGGTCACTTTGGTACTTAAAGTTTACTTCTATTAATTGGTTAGCCCTTCGAATTTAACAACATTA
*
43835932 ATTTTCACATCGGATTCTGATGTGGTCCAATCCT
261 ATTTTCACATCGGATGCTGATGTGGTCCAATCCT
*
43835966 CATAAGTACCACCAATCCTCATCACCGTCCAGCACCCACCATAAAAACCATCAACTCTCGTCACC
1 CATAAGTACCACCAATCCTCATCACCGTCCAACACCCACCATAAAAACCATCAACTCTCGTCACC
*
43836031 GCCTAACACCCCCTTGCTCTCCCATCTCTATCACTACTCACTCCATTGCCCCTGCACAATAAAAT
66 GCCTAACACCCCCTTGCTCTCCCATCTCTATCACTACTCACTCCATTGCCCCTACACAATAAAAT
* * *
43836096 TTTATTAATGATTTAGCCCCTGAACGATATCATTTTTCCCACTTTAGTACTTCGCATTTTTTGGC
131 TTTATTAATGATTTAGCCCCTGAACGATATCACTTTTACCACTTTAGTACTTCACATTTTTTGGC
43836161 TGGTCACTTTGGTACTTAAAGTTTACTTCTATTAATTGGTTAGCCCTTCGAATTTAACAACATTA
196 TGGTCACTTTGGTACTTAAAGTTTACTTCTATTAATTGGTTAGCCCTTCGAATTTAACAACATTA
43836226 ATTTTCACATCGGATGCTGATGTGGTCCAATC
261 ATTTTCACATCGGATGCTGATGTGGTCCAATC
43836258 AAAATGCACC
Statistics
Matches: 284, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
294 284 1.00
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.33
Consensus pattern (294 bp):
CATAAGTACCACCAATCCTCATCACCGTCCAACACCCACCATAAAAACCATCAACTCTCGTCACC
GCCTAACACCCCCTTGCTCTCCCATCTCTATCACTACTCACTCCATTGCCCCTACACAATAAAAT
TTTATTAATGATTTAGCCCCTGAACGATATCACTTTTACCACTTTAGTACTTCACATTTTTTGGC
TGGTCACTTTGGTACTTAAAGTTTACTTCTATTAATTGGTTAGCCCTTCGAATTTAACAACATTA
ATTTTCACATCGGATGCTGATGTGGTCCAATCCT
Found at i:43838339 original size:22 final size:21
Alignment explanation
Indices: 43838294--43838341 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
43838284 AGTGGTTTAT
*
43838294 CAACAATGAGTAGTTCGTCCA
1 CAACAATGAGTAGTTCATCCA
* *
43838315 CAACAATGAGTGGTTTTATCCA
1 CAACAATGAGTAG-TTCATCCA
43838337 CAACA
1 CAACA
43838342 TGGTGTAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (21 bp):
CAACAATGAGTAGTTCATCCA
Found at i:43841214 original size:24 final size:24
Alignment explanation
Indices: 43841180--43841243 Score: 94
Period size: 24 Copynumber: 2.7 Consensus size: 24
43841170 TCCGAGTTGT
43841180 ATAA-CAAGAAGCTCATAAGAGCC
1 ATAATCAAGAAGCTCATAAGAGCC
*
43841203 ATAATCAAGAAGCTCATAAGAGTC
1 ATAATCAAGAAGCTCATAAGAGCC
* *
43841227 ATATTCAGGAAGCTCAT
1 ATAATCAAGAAGCTCAT
43841244 GCGAGCCAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
23 4 0.11
24 33 0.89
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.20
Consensus pattern (24 bp):
ATAATCAAGAAGCTCATAAGAGCC
Found at i:43841311 original size:25 final size:23
Alignment explanation
Indices: 43841283--43841349 Score: 64
Period size: 25 Copynumber: 2.8 Consensus size: 23
43841273 CCATTAATCG
43841283 GGAAGCTCCAGATAGCCATATGTCA
1 GGAAGCTCCAGATAGCCATAT-T-A
* * *
43841308 GGAAGTTCAAG-TGAGTCATATTA
1 GGAAGCTCCAGAT-AGCCATATTA
*
43841331 GGAAGCTCCAGAGAGCCAT
1 GGAAGCTCCAGATAGCCAT
43841350 TAATCAAGAA
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
23 15 0.45
24 2 0.06
25 16 0.48
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (23 bp):
GGAAGCTCCAGATAGCCATATTA
Found at i:43841380 original size:26 final size:25
Alignment explanation
Indices: 43841336--43841400 Score: 69
Period size: 26 Copynumber: 2.6 Consensus size: 25
43841326 TATTAGGAAG
*
43841336 CTCCAGAGAGCCATTAATCAAGAAC
1 CTCCAAAGAGCCATTAATCAAGAAC
** *
43841361 CTCACAAAGAGCC-TTGAATCGGGAAG
1 CTC-CAAAGAGCCATT-AATCAAGAAC
43841387 CTCCAAAGAGCCAT
1 CTCCAAAGAGCCAT
43841401 ATATCGGGAC
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
25 14 0.42
26 19 0.58
ACGTcount: A:0.37, C:0.28, G:0.20, T:0.15
Consensus pattern (25 bp):
CTCCAAAGAGCCATTAATCAAGAAC
Found at i:43841409 original size:25 final size:25
Alignment explanation
Indices: 43841187--43841405 Score: 93
Period size: 24 Copynumber: 8.9 Consensus size: 25
43841177 TGTATAACAA
*
43841187 GAAGCT-CATAAGAGCCATA-ATCAA
1 GAAGCTCCA-AAGAGCCATATATCAG
*
43841211 GAAGCT-CATAAGAGTCATAT-TCAG
1 GAAGCTCCA-AAGAGCCATATATCAG
** * *
43841235 GAAGCT-CATGCGAGCCA-ATAACGG
1 GAAGCTCCA-AAGAGCCATATATCAG
* ** *
43841259 GTAGCTCTGAAGAGCCAT-TAATCGG
1 GAAGCTCCAAAGAGCCATAT-ATCAG
* * *
43841284 GAAGCTCCAGATAGCCATATGTCAG
1 GAAGCTCCAAAGAGCCATATATCAG
* * *
43841309 GAAG-TTCAAGTGAGTCATAT-T-AG
1 GAAGCTCCAA-AGAGCCATATATCAG
* *
43841332 GAAGCTCCAGAGAGCCAT-TAATCAA
1 GAAGCTCCAAAGAGCCATAT-ATCAG
* * *
43841357 GAACCTCACAAAGAGCCTTGA-ATCGG
1 GAAGCTC-CAAAGAGCCAT-ATATCAG
43841383 GAAGCTCCAAAGAGCCATATATC
1 GAAGCTCCAAAGAGCCATATATC
43841406 GGGACGTTCA
Statistics
Matches: 143, Mismatches: 37, Indels: 29
0.68 0.18 0.14
Matches are distributed among these distances:
22 1 0.01
23 14 0.10
24 58 0.41
25 51 0.36
26 19 0.13
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (25 bp):
GAAGCTCCAAAGAGCCATATATCAG
Found at i:43841945 original size:16 final size:16
Alignment explanation
Indices: 43841912--43841952 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
43841902 TCTTTTTTTC
43841912 TTTCTTTTTCCTTCTG
1 TTTCTTTTTCCTTCTG
*
43841928 TTTCGTTTTTGCTT-TG
1 TTTC-TTTTTCCTTCTG
43841944 TTTCTTTTT
1 TTTCTTTTT
43841953 AATTCTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 5 0.22
16 10 0.43
17 8 0.35
ACGTcount: A:0.00, C:0.17, G:0.10, T:0.73
Consensus pattern (16 bp):
TTTCTTTTTCCTTCTG
Found at i:43844653 original size:36 final size:39
Alignment explanation
Indices: 43844590--43844679 Score: 91
Period size: 36 Copynumber: 2.4 Consensus size: 39
43844580 GTCTCCAATT
* **
43844590 TCACATTTCAATTC-AGTTTCACTTTTT-CACTTTCAA-
1 TCACAATTCAATTCAAAATTCACTTTTTCCACTTTCAAG
*
43844626 TCACAATTCAATTCAAAATTCAC-TTTTCCATTTTCAAG
1 TCACAATTCAATTCAAAATTCACTTTTTCCACTTTCAAG
*
43844664 TCA-ATATTCATTTCAA
1 TCACA-ATTCAATTCAA
43844680 TTCCACACAT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
36 17 0.38
37 15 0.33
38 13 0.29
ACGTcount: A:0.31, C:0.23, G:0.02, T:0.43
Consensus pattern (39 bp):
TCACAATTCAATTCAAAATTCACTTTTTCCACTTTCAAG
Found at i:43845945 original size:3 final size:3
Alignment explanation
Indices: 43845898--43845935 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
43845888 TTACTTTATT
*
43845898 TAA TAA TAA TAA TAA TAA TAA T-A TAA -AA TCA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
43845936 GGTTAATAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 4 0.13
3 27 0.87
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:43850763 original size:30 final size:30
Alignment explanation
Indices: 43850736--43850794 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
43850726 AAAGAGAGCT
43850736 TTGAGAAATTTAAGGAGAAATTTGAGAGTG
1 TTGAGAAATTTAAGGAGAAATTTGAGAGTG
*
43850766 TTGAGAAATTTAGGGAGAAATTTGAGAGT
1 TTGAGAAATTTAAGGAGAAATTTGAGAGT
43850795 TTTTTGCTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.39, C:0.00, G:0.31, T:0.31
Consensus pattern (30 bp):
TTGAGAAATTTAAGGAGAAATTTGAGAGTG
Found at i:43853502 original size:28 final size:29
Alignment explanation
Indices: 43853445--43853507 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 29
43853435 GTTCAAATAA
*
43853445 CAAATTGGGCACCAAAAAAGTTTAAGTAC
1 CAAATTGGGCACAAAAAAAGTTTAAGTAC
43853474 CAAATTGGGC-CAAAAAAAGTTT-AGATAC
1 CAAATTGGGCACAAAAAAAGTTTAAG-TAC
43853502 CAAATT
1 CAAATT
43853508 ATAAAAAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
27 2 0.06
28 20 0.62
29 10 0.31
ACGTcount: A:0.46, C:0.16, G:0.16, T:0.22
Consensus pattern (29 bp):
CAAATTGGGCACAAAAAAAGTTTAAGTAC
Found at i:43853793 original size:93 final size:93
Alignment explanation
Indices: 43853641--43853830 Score: 219
Period size: 93 Copynumber: 2.0 Consensus size: 93
43853631 CTTAAATCTC
* * * * *
43853641 AAATAATCCAAGCTTAAAAGTGGTCAAAATCTAAAATGATTTGAACACGTAATGGCTTGA-CTTG
1 AAATAATCCAAACTTAAAAGTGATCAAAATCTAAAATAATTTGAACACGTAATGACTTGATC-AG
* *
43853705 AAAATCCTGAATCCT-AAACAATAAACCCA
65 AAAAACCTAAAT-CTAAAACAATAAACCCA
*
43853734 AAATAATCCAAACTTTGAAAA-TGATCAAAATCTAAAATAATTT-AA-ATTGTAATGACTTGATC
1 AAATAATCCAAAC-TT-AAAAGTGATCAAAATCTAAAATAATTTGAACA-CGTAATGACTTGATC
*
43853796 AGAAAAACCTAAATTTAAAACAATAAACCCA
63 AGAAAAACCTAAATCTAAAACAATAAACCCA
43853827 AAAT
1 AAAT
43853831 CACCTAAAAT
Statistics
Matches: 83, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
92 2 0.02
93 54 0.65
94 23 0.28
95 4 0.05
ACGTcount: A:0.49, C:0.16, G:0.09, T:0.26
Consensus pattern (93 bp):
AAATAATCCAAACTTAAAAGTGATCAAAATCTAAAATAATTTGAACACGTAATGACTTGATCAGA
AAAACCTAAATCTAAAACAATAAACCCA
Found at i:43855812 original size:22 final size:21
Alignment explanation
Indices: 43855782--43855839 Score: 80
Period size: 22 Copynumber: 2.7 Consensus size: 21
43855772 GAATGGTATC
43855782 TACAAATCAAATCTCTAAGAT
1 TACAAATCAAATCTCTAAGAT
*
43855803 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCAAATC-TCTAAGAT
*
43855826 TACATATCAAATCT
1 TACAAATCAAATCT
43855840 ACGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 4 0.12
22 17 0.53
23 11 0.34
ACGTcount: A:0.45, C:0.19, G:0.03, T:0.33
Consensus pattern (21 bp):
TACAAATCAAATCTCTAAGAT
Found at i:43858597 original size:24 final size:24
Alignment explanation
Indices: 43858565--43858611 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
43858555 GTGCTTCCCG
43858565 TTAATTGCTCTTCGAAGCCACCCA
1 TTAATTGCTCTTCGAAGCCACCCA
*
43858589 TTAATTGCTCTTCGAAGCTACCC
1 TTAATTGCTCTTCGAAGCCACCC
43858612 GTTATAGGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.23, C:0.32, G:0.13, T:0.32
Consensus pattern (24 bp):
TTAATTGCTCTTCGAAGCCACCCA
Found at i:43858622 original size:24 final size:24
Alignment explanation
Indices: 43858565--43858624 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
43858555 GTGCTTCCCG
*
43858565 TTAATTGCTCTTCGAAGCCACCCA
1 TTAATGGCTCTTCGAAGCCACCCA
* * *
43858589 TTAATTGCTCTTCGAAGCTACCCG
1 TTAATGGCTCTTCGAAGCCACCCA
43858613 TT-ATAGGCTCTT
1 TTAAT-GGCTCTT
43858625 TATGAGCTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
23 2 0.06
24 30 0.94
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.35
Consensus pattern (24 bp):
TTAATGGCTCTTCGAAGCCACCCA
Found at i:43862688 original size:13 final size:13
Alignment explanation
Indices: 43862670--43862694 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43862660 CTGGTTCAGC
43862670 GTCAATTTAGATG
1 GTCAATTTAGATG
43862683 GTCAATTTAGAT
1 GTCAATTTAGAT
43862695 TAGAAAGATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (13 bp):
GTCAATTTAGATG
Found at i:43866605 original size:22 final size:21
Alignment explanation
Indices: 43866565--43866606 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
43866555 AAAATTTTAT
* *
43866565 AAAAATATTAAAGTTTATGAA
1 AAAAATATTAAAATGTATGAA
43866586 AAAAATATTAAACATGTATGA
1 AAAAATATTAAA-ATGTATGA
43866607 TAAATATGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.57, C:0.02, G:0.10, T:0.31
Consensus pattern (21 bp):
AAAAATATTAAAATGTATGAA
Found at i:43871374 original size:10 final size:9
Alignment explanation
Indices: 43871359--43871383 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
43871349 GTAAACAAAG
43871359 AAAAAAACC
1 AAAAAAACC
43871368 AAAAAAACC
1 AAAAAAACC
43871377 AAAAAAA
1 AAAAAAA
43871384 GAAAGGGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAAACC
Found at i:43871950 original size:58 final size:59
Alignment explanation
Indices: 43871868--43872008 Score: 169
Period size: 58 Copynumber: 2.4 Consensus size: 59
43871858 AACATTTGCC
* * * * * *
43871868 AAGTTCAGGCCCCAATATGAGAACAAGTACCAAGTTCAGGGACTAACTTG-GAAAAAAA
1 AAGTTCAAGCCTCAATGTGAGAACAAGTACCAAGTTAAGGAACTAACTTGACAAAAAAA
* * *
43871926 AAGTTCAAGCCTCAATGTGGGAACAATTATCAAGTTAAGGAACTAACTTGACCAAAAAAA
1 AAGTTCAAGCCTCAATGTGAGAACAAGTACCAAGTTAAGGAACTAACTTGA-CAAAAAAA
43871986 AAGTTC-AGACCTCAATGTGAGAA
1 AAGTTCAAG-CCTCAATGTGAGAA
43872009 TTATTGCTAA
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
58 42 0.60
59 2 0.03
60 26 0.37
ACGTcount: A:0.43, C:0.18, G:0.19, T:0.20
Consensus pattern (59 bp):
AAGTTCAAGCCTCAATGTGAGAACAAGTACCAAGTTAAGGAACTAACTTGACAAAAAAA
Found at i:43871961 original size:31 final size:31
Alignment explanation
Indices: 43871837--43871961 Score: 82
Period size: 31 Copynumber: 4.2 Consensus size: 31
43871827 TTGAACTCTA
* *
43871837 AAGTTCAAGCCTCAATGTGGGAACATTTGCC
1 AAGTTCAAGCCTCAATGTGGGAACAATTACC
* * * * *
43871868 AAGTTCAGGCCCCAATATGAGAACAAGTACC
1 AAGTTCAAGCCTCAATGTGGGAACAATTACC
* * **
43871899 AAGTTCAGGGACT-AACT-T-GGAA-AA--AAA
1 AAGTTCA-AGCCTCAA-TGTGGGAACAATTACC
*
43871926 AAGTTCAAGCCTCAATGTGGGAACAATTATC
1 AAGTTCAAGCCTCAATGTGGGAACAATTACC
43871957 AAGTT
1 AAGTT
43871962 AAGGAACTAA
Statistics
Matches: 70, Mismatches: 16, Indels: 16
0.69 0.16 0.16
Matches are distributed among these distances:
26 4 0.06
27 11 0.16
28 4 0.06
29 4 0.06
30 3 0.04
31 40 0.57
32 4 0.06
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.22
Consensus pattern (31 bp):
AAGTTCAAGCCTCAATGTGGGAACAATTACC
Found at i:43873256 original size:27 final size:27
Alignment explanation
Indices: 43873226--43873278 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
43873216 TCTAGTAATT
43873226 TATCTATATTGTAATAAAATACTAGTA
1 TATCTATATTGTAATAAAATACTAGTA
43873253 TATCTATATTGTAATAAAATACTAGT
1 TATCTATATTGTAATAAAATACTAGT
43873279 TTGATCAGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.42
Consensus pattern (27 bp):
TATCTATATTGTAATAAAATACTAGTA
Found at i:43877220 original size:18 final size:18
Alignment explanation
Indices: 43877197--43877231 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
43877187 ACACCAATAC
*
43877197 CTGCTATCAACTAACTAA
1 CTGCTAACAACTAACTAA
43877215 CTGCTAACAACTAACTA
1 CTGCTAACAACTAACTA
43877232 TAACAGTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.29, G:0.06, T:0.26
Consensus pattern (18 bp):
CTGCTAACAACTAACTAA
Found at i:43881951 original size:18 final size:18
Alignment explanation
Indices: 43881911--43881951 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
43881901 AATATGGAAA
*
43881911 GTAATTTTAAAAGATATT
1 GTAATATTAAAAGATATT
* *
43881929 ATAATATTAAAAGATTTT
1 GTAATATTAAAAGATATT
43881947 GTAAT
1 GTAAT
43881952 CGCAGGGGAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (18 bp):
GTAATATTAAAAGATATT
Found at i:43884979 original size:45 final size:44
Alignment explanation
Indices: 43884911--43885018 Score: 153
Period size: 45 Copynumber: 2.4 Consensus size: 44
43884901 AGATAAGACT
*
43884911 TGTATCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATC
1 TGTATCTTCGATCTACTTCACCACCAGTATGGAAAGACAAGATC
* * *
43884955 TGCTTTCTTCGATCTACTTCACCACCAGTATGGAAATATAAGATC
1 TG-TATCTTCGATCTACTTCACCACCAGTATGGAAAGACAAGATC
* *
43885000 TGTATATTCGATCCACTTC
1 TGTATCTTCGATCTACTTC
43885019 GCTACCGATA
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 16 0.29
45 40 0.71
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (44 bp):
TGTATCTTCGATCTACTTCACCACCAGTATGGAAAGACAAGATC
Found at i:43885285 original size:132 final size:131
Alignment explanation
Indices: 43885116--43885555 Score: 668
Period size: 132 Copynumber: 3.3 Consensus size: 131
43885106 CCACTGTCGA
* *
43885116 CCAGGG-AGATAGAATTACTGGCTTCAATATACTCCACTGCAACCTCAGGGAGGTAAAATCTACC
1 CCAGGGAAG-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCT-CC
* * *
43885180 ATCTTTGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCGCTGC
64 ATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGC
43885245 TGC
129 TGC
* *
43885248 CCAGGGAAGTAAAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCTCCA
1 CCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAAT-CTCCA
43885313 TCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCT
65 TCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCT
**
43885378 AT
130 GC
* * * *
43885380 CCAAGGAAGTAGAATTACCGGCTTCAATGTACTCCACTGTAA-CTACAGGAAGGTAAAATCCGCC
1 CCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCT-CAGGGAGGTAAAAT-CTCC
* * *
43885444 ATCTTTGATCTGCTCCACTATTGCTTAAGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGC
64 ATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGC
43885509 TGC
129 TGC
*
43885512 CCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACC
1 CCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC
43885556 ACAGCGCGGG
Statistics
Matches: 281, Mismatches: 23, Indels: 7
0.90 0.07 0.02
Matches are distributed among these distances:
131 1 0.00
132 275 0.98
133 5 0.02
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (131 bp):
CCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTCCAT
CTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTG
C
Found at i:43886043 original size:21 final size:21
Alignment explanation
Indices: 43886019--43886058 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
43886009 AAAACAAAGA
43886019 AAAATA-AACAAAAAATCCCGC
1 AAAATACAA-AAAAAATCCCGC
*
43886040 AAAATACAAAAAACATCCC
1 AAAATACAAAAAAAATCCC
43886059 TATTCTCTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.62, C:0.25, G:0.03, T:0.10
Consensus pattern (21 bp):
AAAATACAAAAAAAATCCCGC
Found at i:43889264 original size:6 final size:6
Alignment explanation
Indices: 43889253--43889333 Score: 162
Period size: 6 Copynumber: 13.5 Consensus size: 6
43889243 GTTGTGGGTC
43889253 GAGCCT GAGCCT GAGCCT GAGCCT GAGCCT GAGCCT GAGCCT GAGCCT
1 GAGCCT GAGCCT GAGCCT GAGCCT GAGCCT GAGCCT GAGCCT GAGCCT
43889301 GAGCCT GAGCCT GAGCCT GAGCCT GAGCCT GAG
1 GAGCCT GAGCCT GAGCCT GAGCCT GAGCCT GAG
43889334 TCGAGCTTGC
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 75 1.00
ACGTcount: A:0.17, C:0.32, G:0.35, T:0.16
Consensus pattern (6 bp):
GAGCCT
Found at i:43892125 original size:70 final size:67
Alignment explanation
Indices: 43892051--43892183 Score: 176
Period size: 70 Copynumber: 1.9 Consensus size: 67
43892041 TCCGAATAAG
* * * *
43892051 AAAATGTAAAATTAAGTTATTTTGATAAATGTTTACCTTTTTTAAAATTAAAAGTCAAAACTATT
1 AAAATGTAAAACTAAGTCATTTTGATAAATGTTTA-C-TTATT-AAATTAAAAGGCAAAACTATT
43892116 AAGTT
63 AAGTT
* * *
43892121 AAAATGTAAAACTACGTCGTTTTGATAAATGTTTACTTATTAAGTTAAAAGGCAAAACTATTA
1 AAAATGTAAAACTAAGTCATTTTGATAAATGTTTACTTATTAAATTAAAAGGCAAAACTATTA
43892184 TGTTGTTTAT
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
67 20 0.36
68 4 0.07
69 1 0.02
70 31 0.55
ACGTcount: A:0.44, C:0.08, G:0.11, T:0.38
Consensus pattern (67 bp):
AAAATGTAAAACTAAGTCATTTTGATAAATGTTTACTTATTAAATTAAAAGGCAAAACTATTAAG
TT
Found at i:43895829 original size:50 final size:50
Alignment explanation
Indices: 43895733--43895864 Score: 131
Period size: 50 Copynumber: 2.6 Consensus size: 50
43895723 GGTAAAGAGA
* * * * **
43895733 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGACATCGAGATGAGAGG
1 TCCCACGTAAGACCATGTTTGGGACATGGCATGGACATCGAGATGAGAAC
* * * *
43895783 TCCCCCGTAAGACTATGTTTGGGACATGGCATGGGCA-CTGATATGAGAAC
1 TCCCACGTAAGACCATGTTTGGGACATGGCATGGACATC-GAGATGAGAAC
* * *
43895833 TCCCATGTAAGACCATATTTGGGATATGGCAT
1 TCCCACGTAAGACCATGTTTGGGACATGGCAT
43895865 TAGCACTACA
Statistics
Matches: 66, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
49 1 0.02
50 65 0.98
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (50 bp):
TCCCACGTAAGACCATGTTTGGGACATGGCATGGACATCGAGATGAGAAC
Found at i:43902158 original size:50 final size:50
Alignment explanation
Indices: 43902093--43902221 Score: 150
Period size: 50 Copynumber: 2.6 Consensus size: 50
43902083 TAAAGTCATA
* ** * *
43902093 TCCCAAATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATG
1 TCCCAAACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATG
* ** * *
43902143 TCCCAAACATAGTCTTACGGGGGACCTCTCATCTTGGTGCCAACGCCATG
1 TCCCAAACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATG
* *
43902193 TCCCAGACATGGTCTTACATGGGATCTCT
1 TCCCAAACATGGTCTTACATGGGACCTCT
43902222 TTACCCAAAT
Statistics
Matches: 64, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 64 1.00
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.28
Consensus pattern (50 bp):
TCCCAAACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATG
Found at i:43910713 original size:27 final size:29
Alignment explanation
Indices: 43910683--43910744 Score: 67
Period size: 31 Copynumber: 2.1 Consensus size: 29
43910673 TATTATGTTA
43910683 TAAAATAAT-ATTATA-TTA-ATTATATAT
1 TAAAATAATAATTATAGTTATATT-TATAT
*
43910710 TAAATAATTATAATTATAGTTATATTTATAT
1 T-AA-AATAATAATTATAGTTATATTTATAT
43910741 TAAA
1 TAAA
43910745 TTGCGAATTC
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
27 1 0.03
28 2 0.07
29 6 0.21
30 8 0.28
31 9 0.31
32 3 0.10
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (29 bp):
TAAAATAATAATTATAGTTATATTTATAT
Found at i:43916985 original size:37 final size:34
Alignment explanation
Indices: 43916946--43917055 Score: 115
Period size: 33 Copynumber: 3.4 Consensus size: 34
43916936 ATAATAAAAT
* *
43916946 ATTAAATTAGATTAAT-T-AATATTTTATATATC
1 ATTATATTAAATTAATCTAAATATTTTATATATC
*
43916978 ATTATATTAAATT-ATCTAAATCTTTTATATATC
1 ATTATATTAAATTAATCTAAATATTTTATATATC
* * * *
43917011 ATTATTTTAAATT-ATTTAAATA--TAATTTATC
1 ATTATATTAAATTAATCTAAATATTTTATATATC
43917042 ATTATATTAAATTA
1 ATTATATTAAATTA
43917056 TTTAAATCTT
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
31 21 0.32
32 12 0.18
33 33 0.50
ACGTcount: A:0.43, C:0.05, G:0.01, T:0.52
Consensus pattern (34 bp):
ATTATATTAAATTAATCTAAATATTTTATATATC
Found at i:43917009 original size:33 final size:33
Alignment explanation
Indices: 43916967--43917106 Score: 143
Period size: 31 Copynumber: 4.4 Consensus size: 33
43916957 TTAATTAATA
*
43916967 TTTTATATATCATTATATTAAATTATCTAAATC
1 TTTTATATATCATTATATTAAATTATTTAAATC
*
43917000 TTTTATATATCATTATTTTAAATTATTTAAA--
1 TTTTATATATCATTATATTAAATTATTTAAATC
* * *
43917031 TATAATTTATCATTATATTAAATTATTTAAATC
1 TTTTATATATCATTATATTAAATTATTTAAATC
*
43917064 --TTAT-T-T-ATTATATTTAAATT-TTTAAAAATA
1 TTTTATATATCATTATA-TTAAATTATTT--AAATC
43917094 TTTTATATATCAT
1 TTTTATATATCAT
43917107 CAATTTTAAA
Statistics
Matches: 89, Mismatches: 8, Indels: 18
0.77 0.07 0.16
Matches are distributed among these distances:
28 9 0.10
29 8 0.09
30 5 0.06
31 30 0.34
32 4 0.04
33 30 0.34
34 1 0.01
35 2 0.02
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (33 bp):
TTTTATATATCATTATATTAAATTATTTAAATC
Found at i:43917024 original size:10 final size:9
Alignment explanation
Indices: 43917011--43917089 Score: 54
Period size: 9 Copynumber: 8.1 Consensus size: 9
43917001 TTTATATATC
43917011 ATTATTTTAA
1 ATTA-TTTAA
43917021 ATTATTTAA
1 ATTATTTAA
*
43917030 ATATAATTTATC
1 AT-T-ATTTA-A
43917042 ATTATATTAA
1 ATTAT-TTAA
43917052 ATTATTTAA
1 ATTATTTAA
43917061 ATCTTATTT-A
1 A--TTATTTAA
*
43917071 TTATATTTAA
1 AT-TATTTAA
43917081 ATT-TTTAA
1 ATTATTTAA
43917089 A
1 A
43917090 AATATTTTAT
Statistics
Matches: 57, Mismatches: 4, Indels: 18
0.72 0.05 0.23
Matches are distributed among these distances:
8 7 0.12
9 18 0.32
10 15 0.26
11 15 0.26
12 2 0.04
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (9 bp):
ATTATTTAA
Found at i:43917039 original size:20 final size:19
Alignment explanation
Indices: 43917016--43917096 Score: 69
Period size: 20 Copynumber: 4.2 Consensus size: 19
43917006 ATATCATTAT
43917016 TTTAAATTATTTAAATATAA
1 TTTAAATTATTTAAATAT-A
*
43917036 TTTATCATTATATTAAAT-TA
1 TTTA-AATTAT-TTAAATATA
*
43917056 TTTAAATCTTATTT-ATTATA
1 TTTAAA--TTATTTAAATATA
*
43917076 TTTAAATT-TTTAAAAATA
1 TTTAAATTATTTAAATATA
43917094 TTT
1 TTT
43917097 TATATATCAT
Statistics
Matches: 50, Mismatches: 5, Indels: 14
0.72 0.07 0.20
Matches are distributed among these distances:
17 3 0.06
18 9 0.18
19 3 0.06
20 19 0.38
21 10 0.20
22 6 0.12
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTAAATTATTTAAATATA
Found at i:43917098 original size:28 final size:29
Alignment explanation
Indices: 43917011--43917126 Score: 93
Period size: 27 Copynumber: 4.1 Consensus size: 29
43917001 TTTATATATC
*
43917011 ATTAT-TTTAAATTATTTAAATATAATTTAT
1 ATTATATTTAAATTATTTAAAAAT-ATTT-T
**
43917041 CATTATA-TTAAATTATTTAAATCT-TATTT
1 -ATTATATTTAAATTATTTAAAAATAT-TTT
43917070 ATTATATTTAAATT-TTTAAAAATATTTT
1 ATTATATTTAAATTATTTAAAAATATTTT
* *
43917098 A-TATATCATCAA-T-TTTAAAAATATTTT
1 ATTATAT-TTAAATTATTTAAAAATATTTT
43917125 AT
1 AT
43917127 ATTAATTGCT
Statistics
Matches: 74, Mismatches: 5, Indels: 15
0.79 0.05 0.16
Matches are distributed among these distances:
27 21 0.28
28 20 0.27
29 10 0.14
30 2 0.03
31 21 0.28
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.54
Consensus pattern (29 bp):
ATTATATTTAAATTATTTAAAAATATTTT
Found at i:43917103 original size:27 final size:29
Alignment explanation
Indices: 43917017--43917128 Score: 92
Period size: 31 Copynumber: 3.9 Consensus size: 29
43917007 TATCATTATT
* *
43917017 TTAAATTATTTAAATATAATTTATCATTATA
1 TTAAATTATTTAAAAATATTTTAT-A-TATA
**
43917048 TTAAATTATTTAAATCT-TATTTAT-TATA
1 TTAAATTATTTAAAAATAT-TTTATATATA
43917076 TTTAAATT-TTTAAAAATATTTTATATATCA
1 -TTAAATTATTTAAAAATATTTTATATAT-A
*
43917106 -TCAA-T-TTTAAAAATATTTTATAT
1 TTAAATTATTTAAAAATATTTTATAT
43917129 TAATTGCTCA
Statistics
Matches: 71, Mismatches: 5, Indels: 14
0.79 0.06 0.16
Matches are distributed among these distances:
27 19 0.27
28 19 0.27
29 11 0.15
30 1 0.01
31 21 0.30
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.54
Consensus pattern (29 bp):
TTAAATTATTTAAAAATATTTTATATATA
Found at i:43917116 original size:64 final size:66
Alignment explanation
Indices: 43916963--43917106 Score: 162
Period size: 59 Copynumber: 2.3 Consensus size: 66
43916953 TAGATTAATT
43916963 AATATTTTATATATCATTATATTAAATTATCTAAATCTTTTATATATCATTATTTTAAATTATTT
1 AATATTTTATATATCA-TAT-TTAAATTATCTAAATCTTTTATATATCATTATTTTAAATTATTT
43917028 AAA
64 AAA
* * *
43917031 TATAATTTATCAT-T-ATA-TTAAATTATTTAAATC--TTAT-T-T-ATTATATTTAAATT-TTT
1 AATATTTTAT-ATATCATATTTAAATTATCTAAATCTTTTATATATCATTAT-TTTAAATTATTT
43917087 AAA
64 AAA
43917090 AATATTTTATATATCAT
1 AATATTTTATATATCAT
43917107 CAATTTTAAA
Statistics
Matches: 67, Mismatches: 5, Indels: 16
0.76 0.06 0.18
Matches are distributed among these distances:
58 2 0.03
59 20 0.30
60 11 0.16
61 1 0.01
62 4 0.06
64 15 0.22
66 2 0.03
67 1 0.01
68 9 0.13
69 2 0.03
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (66 bp):
AATATTTTATATATCATATTTAAATTATCTAAATCTTTTATATATCATTATTTTAAATTATTTAA
A
Found at i:43917894 original size:15 final size:15
Alignment explanation
Indices: 43917866--43917896 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
43917856 GTTTCTCTAG
43917866 TAAAATATTAAAAAA
1 TAAAATATTAAAAAA
43917881 TAAATATATTAAAAAA
1 TAAA-ATATTAAAAAA
43917897 AGAAGAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
TAAAATATTAAAAAA
Found at i:43919457 original size:24 final size:23
Alignment explanation
Indices: 43919404--43919458 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
43919394 AAAATATTCT
** *
43919404 TAATTAAATTTATTTTTTAAAAC
1 TAATTAAATTTAAATTTTAAAAA
*
43919427 TAGTTAAATTTAAATTTTAAAATA
1 TAATTAAATTTAAATTTTAAAA-A
43919451 TAATTAAA
1 TAATTAAA
43919459 GTGTGTATAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 19 0.73
24 7 0.27
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (23 bp):
TAATTAAATTTAAATTTTAAAAA
Found at i:43922763 original size:13 final size:13
Alignment explanation
Indices: 43922745--43922785 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
43922735 TTCAAAACAT
43922745 AAATAAAATTTAA
1 AAATAAAATTTAA
43922758 AAAT--AATTTATA
1 AAATAAAATTTA-A
*
43922770 AAATAAAATATAA
1 AAATAAAATTTAA
43922783 AAA
1 AAA
43922786 ACTATTAGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
11 6 0.25
12 5 0.21
13 8 0.33
14 5 0.21
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
AAATAAAATTTAA
Found at i:43925546 original size:41 final size:41
Alignment explanation
Indices: 43925436--43925552 Score: 135
Period size: 41 Copynumber: 2.9 Consensus size: 41
43925426 ATAATCGGGT
* * * * * *
43925436 TTTATGCCTAGCAAGCTTTATGCCGGTGAATTATATCAGGC
1 TTTACGCCTAGCAGGCTTAATGCCGGTGTATCATAACAGGC
* * *
43925477 TTTACGCCTAGTAGGCTTAATGTCGGTGTACCATAACAGGC
1 TTTACGCCTAGCAGGCTTAATGCCGGTGTATCATAACAGGC
**
43925518 TTTACGCCTAGCAGGCTTCGTGCCGGTGTATCATA
1 TTTACGCCTAGCAGGCTTAATGCCGGTGTATCATA
43925553 TTAAGATTTT
Statistics
Matches: 62, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 62 1.00
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (41 bp):
TTTACGCCTAGCAGGCTTAATGCCGGTGTATCATAACAGGC
Found at i:43929030 original size:41 final size:41
Alignment explanation
Indices: 43928955--43929032 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
43928945 GTTTCCATTC
* * *
43928955 AACCCTAATGGGTTTCCGTTCAGCTTTGCTGAGCTTCAGTT
1 AACCCTAATAGGTTTCCGTTCAACTTTACTGAGCTTCAGTT
*
43928996 AACCCTATTAGGTTTCCGTTCAACTCTTAC-GAGCTTC
1 AACCCTAATAGGTTTCCGTTCAACT-TTACTGAGCTTC
43929033 TGCTCAACCC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
41 29 0.91
42 3 0.09
ACGTcount: A:0.19, C:0.27, G:0.18, T:0.36
Consensus pattern (41 bp):
AACCCTAATAGGTTTCCGTTCAACTTTACTGAGCTTCAGTT
Found at i:43932981 original size:16 final size:16
Alignment explanation
Indices: 43932960--43932991 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
43932950 ACACTCCAAA
*
43932960 CCCTTTATTCGTCGCT
1 CCCTTTATCCGTCGCT
43932976 CCCTTTATCCGTCGCT
1 CCCTTTATCCGTCGCT
43932992 AAAATAGGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.41, G:0.12, T:0.41
Consensus pattern (16 bp):
CCCTTTATCCGTCGCT
Found at i:43934606 original size:21 final size:20
Alignment explanation
Indices: 43934530--43934636 Score: 56
Period size: 21 Copynumber: 5.2 Consensus size: 20
43934520 CAGACGCCTG
* * *
43934530 AAGGCTGAACAGAAGCACAT
1 AAGGCTTAACGGAAGCTCAT
* * *
43934550 AAGTGCTAAACAGAAACTCAT
1 AAG-GCTTAACGGAAGCTCAT
* *
43934571 AAGGGTTGAATGGAAGCTCAT
1 AAGGCTT-AACGGAAGCTCAT
*
43934592 AAGAGCTTAACGGAAAC-CTAT
1 AAG-GCTTAACGGAAGCTC-AT
* *
43934613 AAGGGTTAAACAGAAGCTCA-
1 AAGGCTT-AACGGAAGCTCAT
43934633 AAGG
1 AAGG
43934637 AGCTGAACGA
Statistics
Matches: 67, Mismatches: 14, Indels: 12
0.72 0.15 0.13
Matches are distributed among these distances:
20 13 0.19
21 50 0.75
22 4 0.06
ACGTcount: A:0.43, C:0.16, G:0.24, T:0.17
Consensus pattern (20 bp):
AAGGCTTAACGGAAGCTCAT
Found at i:43934608 original size:42 final size:42
Alignment explanation
Indices: 43934537--43934691 Score: 143
Period size: 42 Copynumber: 3.7 Consensus size: 42
43934527 CTGAAGGCTG
* * * *
43934537 AACAGAAGCACATAAGTGCTAAACAGAAACTCATAAGGGTTG
1 AACAGAAGCTCATAAGAGCTAAACGGAAACTCATAAGGGTTA
** *
43934579 AATGGAAGCTCATAAGAGCTTAACGGAAAC-CTATAAGGGTTA
1 AACAGAAGCTCATAAGAGCTAAACGGAAACTC-ATAAGGGTTA
* * * *
43934621 AACAGAAGCTCA-AAGGAGCTGAACGAAAACTCATATGAGTTA
1 AACAGAAGCTCATAA-GAGCTAAACGGAAACTCATAAGGGTTA
* * * *
43934663 AACAAAAACTCGTAAGAGTTAAACGGAAA
1 AACAGAAGCTCATAAGAGCTAAACGGAAA
43934692 GTAAACACGA
Statistics
Matches: 90, Mismatches: 19, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
41 3 0.03
42 84 0.93
43 3 0.03
ACGTcount: A:0.46, C:0.15, G:0.21, T:0.17
Consensus pattern (42 bp):
AACAGAAGCTCATAAGAGCTAAACGGAAACTCATAAGGGTTA
Found at i:43934670 original size:21 final size:21
Alignment explanation
Indices: 43934611--43934686 Score: 64
Period size: 21 Copynumber: 3.6 Consensus size: 21
43934601 ACGGAAACCT
* * *
43934611 ATAAGGGTTAAACAGAAGCTC
1 ATAAGAGTTAAACAAAAACTC
* * *
43934632 A-AAGGAGCTGAACGAAAACTC
1 ATAA-GAGTTAAACAAAAACTC
*
43934653 ATATGAGTTAAACAAAAACTC
1 ATAAGAGTTAAACAAAAACTC
*
43934674 GTAAGAGTTAAAC
1 ATAAGAGTTAAAC
43934687 GGAAAGTAAA
Statistics
Matches: 41, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
20 2 0.05
21 38 0.93
22 1 0.02
ACGTcount: A:0.47, C:0.14, G:0.20, T:0.18
Consensus pattern (21 bp):
ATAAGAGTTAAACAAAAACTC
Found at i:43936523 original size:9 final size:9
Alignment explanation
Indices: 43936509--43936548 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
43936499 GATCAAGTAA
43936509 AATTAAATT
1 AATTAAATT
43936518 AATTAAATT
1 AATTAAATT
* *
43936527 AATCAGATT
1 AATTAAATT
43936536 AATTAAAATT
1 AATT-AAATT
43936546 AAT
1 AAT
43936549 ATGATAATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
9 19 0.73
10 7 0.27
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.40
Consensus pattern (9 bp):
AATTAAATT
Found at i:43951884 original size:14 final size:13
Alignment explanation
Indices: 43951846--43951885 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 13
43951836 AAATAAATTA
43951846 TATATTTGTTAGTTT
1 TATATTT-TTA-TTT
43951861 TATATTTTTATTT
1 TATATTTTTATTT
43951874 TATAGTTTTTAT
1 TATA-TTTTTAT
43951886 AGTTTTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.29
14 10 0.42
15 7 0.29
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (13 bp):
TATATTTTTATTT
Found at i:43962269 original size:21 final size:22
Alignment explanation
Indices: 43962239--43962296 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
43962229 CTTTTATATA
* **
43962239 TATATATTATAGTTTTTAGTTT
1 TATATATTATATTTTACAGTTT
43962261 TATAT-TTATATTTTACAGTTT
1 TATATATTATATTTTACAGTTT
*
43962282 TATA-ATTTTATTTTA
1 TATATATTATATTTTA
43962297 TTTAATAAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 26 0.84
22 5 0.16
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.64
Consensus pattern (22 bp):
TATATATTATATTTTACAGTTT
Found at i:43962296 original size:28 final size:28
Alignment explanation
Indices: 43962230--43962297 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
43962220 TTTACTTTTC
* * *
43962230 TTTTATATATATATATTATAGTTTTTAG
1 TTTTATATTTATATATTACAGTTTTTAA
*
43962258 TTTTATATTTATATTTTACAGTTTTATAA
1 TTTTATATTTATATATTACAGTTTT-TAA
43962287 TTTTAT-TTTAT
1 TTTTATATTTAT
43962298 TTAATAAAGC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 27 0.77
29 8 0.23
ACGTcount: A:0.29, C:0.01, G:0.04, T:0.65
Consensus pattern (28 bp):
TTTTATATTTATATATTACAGTTTTTAA
Found at i:43963443 original size:19 final size:19
Alignment explanation
Indices: 43963403--43963445 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
43963393 CCCTTTATTA
* *
43963403 AATTTATTTACTTTATTTT
1 AATTTATATAATTTATTTT
43963422 AATTTATATAATTT-TTTAT
1 AATTTATATAATTTATTT-T
43963441 AATTT
1 AATTT
43963446 TATTAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (19 bp):
AATTTATATAATTTATTTT
Found at i:43966450 original size:41 final size:41
Alignment explanation
Indices: 43966400--43966502 Score: 161
Period size: 41 Copynumber: 2.5 Consensus size: 41
43966390 AGATTCAACA
* *
43966400 GCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCG
1 GCACGTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCG
* *
43966441 GTACGTAGCCTGCTAGGTTTATAACCTGATTCAGATCACCG
1 GCACGTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCG
*
43966482 GCACGTAGCCTGCTAGACTTA
1 GCACGTAGCCTGCTAGGCTTA
43966503 AAGTCTGAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 55 1.00
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.27
Consensus pattern (41 bp):
GCACGTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCG
Found at i:43968482 original size:22 final size:23
Alignment explanation
Indices: 43968449--43968507 Score: 77
Period size: 24 Copynumber: 2.6 Consensus size: 23
43968439 AGAATGATAC
*
43968449 ATGA-AAACTTAAAATAAT-TAT
1 ATGATAAATTTAAAATAATATAT
43968470 ATGATAAATTTAAAATAATAATAT
1 ATGATAAATTTAAAATAAT-ATAT
*
43968494 GTGATAAATTTAAA
1 ATGATAAATTTAAA
43968508 CAACATTCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 4 0.12
22 13 0.39
24 16 0.48
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.36
Consensus pattern (23 bp):
ATGATAAATTTAAAATAATATAT
Found at i:43969580 original size:15 final size:15
Alignment explanation
Indices: 43969560--43969594 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
43969550 GGCCATATGA
*
43969560 TAGTTGGGCTAGGTG
1 TAGTTGGGCTAGGCG
43969575 TAGTTGGGCTAGGCG
1 TAGTTGGGCTAGGCG
43969590 TAGTT
1 TAGTT
43969595 TGGGTTTGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.14, C:0.09, G:0.43, T:0.34
Consensus pattern (15 bp):
TAGTTGGGCTAGGCG
Found at i:43970281 original size:132 final size:131
Alignment explanation
Indices: 43970138--43970569 Score: 596
Period size: 132 Copynumber: 3.3 Consensus size: 131
43970128 TGCTATTTTT
* * * * * *
43970138 AACCTACTCCACTGCTGCTC-AGGGAGATAGGATTGGTGGCTTAAATCTGCTTCCCTCCTACATT
1 AACCTATTCCACTGCTG-TCAAGGGAGATAGGACTGGCGACTTAAATCTGCTTCCCTACTACCTT
* *
43970202 GGGAAGATAATATTCGTCGTCTTTGATATGTTCCACTAATGTTTAGGGAGACATGATCTACAATC
65 GGGAAGATAAGATTC-ACGTCTTTGATATGTTCCACTAATGTTTAGGGAGACATGATCTACAATC
43970267 TTC
129 TTC
* * *
43970270 AACCTATTCCACTTCTGTCTAGGGAGATAGGACTGGCGACTTAAATCTGCTTCCCTACTACCGTG
1 AACCTATTCCACTGCTGTCAAGGGAGATAGGACTGGCGACTTAAATCTGCTTCCCTACTACCTTG
* * * * * *
43970335 AGAAGATAAGATTCACCGTTTTTGATTTGTTCTACTACTGTTCAGGGAGACATGATCTACAATCT
66 GGAAGATAAGATTCA-CGTCTTTGATATGTTCCACTAATGTTTAGGGAGACATGATCTACAATCT
43970400 TC
130 TC
* * * * *
43970402 AACCTATTCCACTGTTGTCCAGGAAGATAGGACTGACGACTTAAATTTGCTTCCCTACTACCTTG
1 AACCTATTCCACTGCTGTCAAGGGAGATAGGACTGGCGACTTAAATCTGCTTCCCTACTACCTTG
* * *
43970467 GGAAGATAAGATTCACTGTCTTTGATCTGTTCCGCTATTGTTTAGGGAGACATGATCTACAATCT
66 GGAAGATAAGATTCAC-GTCTTTGATATGTTCCACTAATGTTTAGGGAGACATGATCTACAATCT
43970532 TC
130 TC
43970534 AACCTATTCCACTGCTGTCAAGGGAGATAGGACTGG
1 AACCTATTCCACTGCTGTCAAGGGAGATAGGACTGG
43970570 TATCTTCGAT
Statistics
Matches: 263, Mismatches: 34, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
131 3 0.01
132 260 0.99
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (131 bp):
AACCTATTCCACTGCTGTCAAGGGAGATAGGACTGGCGACTTAAATCTGCTTCCCTACTACCTTG
GGAAGATAAGATTCACGTCTTTGATATGTTCCACTAATGTTTAGGGAGACATGATCTACAATCTT
C
Found at i:43970633 original size:88 final size:87
Alignment explanation
Indices: 43970531--43971229 Score: 952
Period size: 88 Copynumber: 7.9 Consensus size: 87
43970521 ATCTACAATC
* * * *
43970531 TTCAACCTATTCCACTGCTG-TCAAGGGAGA-TAGGACTGGTATCTTCGATCTACTTCGCTGCGA
1 TTCAACCTACTCCACTGCTGCTC-AGGGAGACAAGG-CTGG-GTCTTCGATCTACTTCGCTGCCA
43970594 ATACAGGAAGACAAGATCTGCTATT
63 ATACAGGAAGACAAGATCTGCTATT
* * *
43970619 TTCAACCTACTCCACTGCTGCTCAAGGAGACAAGGCTGGTATCTTCGATCTACTTTGCTGCCAAT
1 TTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGG-GTCTTCGATCTACTTCGCTGCCAAT
* *
43970684 ATATGAAGACAAGATCTGCTATT
65 ACAGGAAGACAAGATCTGCTATT
* * * *
43970707 TTCAACCTACTTCACTGTTGCTCAGGGAGACAAGCCTGGGGTCTTCGATCTACTTCGCTGTCAAT
1 TTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCT-GGGTCTTCGATCTACTTCGCTGCCAAT
*
43970772 ACAGGAAGACAAGATCTACTATT
65 ACAGGAAGACAAGATCTGCTATT
* * * * *
43970795 TTTAACCTAATCCACTGCTGCTCAAGGAGACAAAGCTAGGGTCTTCGATCTACTTCACTGCCAAT
1 TTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCT-GGGTCTTCGATCTACTTCGCTGCCAAT
* *
43970860 ACAGAAAGACAAGATCTGTTATT
65 ACAGGAAGACAAGATCTGCTATT
* * * * *
43970883 TTTAACCTACTCCACTGGTGCTCAGAGAGACAAGGCTGGGGTCTTCGATCTACTTCACTACCAAT
1 TTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCT-GGGTCTTCGATCTACTTCGCTGCCAAT
*
43970948 ACAGGAAGACAAGATTTGCTATT
65 ACAGGAAGACAAGATCTGCTATT
* * * *
43970971 TTTAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGTATCTTTGATCTACTTCGCTACCAAT
1 TTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGG-GTCTTCGATCTACTTCGCTGCCAAT
* *
43971036 ATAGGAAGACAAGATCTACTATT
65 ACAGGAAGACAAGATCTGCTATT
43971059 TTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTAGGGTCTTCGATCTACTTCGCTGCCAAT
1 TTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCT-GGGTCTTCGATCTACTTCGCTGCCAAT
*
43971124 ACAGGAAGACAAAATCTGCTATT
65 ACAGGAAGACAAGATCTGCTATT
* **
43971147 TTTAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTAGGGTCTTCGATCTACTTCGCTGGTAAT
1 TTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCT-GGGTCTTCGATCTACTTCGCTGCCAAT
*
43971212 ACAGGAAGACAATATCTG
65 ACAGGAAGACAAGATCTG
43971230 TTTAGGATTA
Statistics
Matches: 547, Mismatches: 59, Indels: 10
0.89 0.10 0.02
Matches are distributed among these distances:
87 2 0.00
88 536 0.98
89 9 0.02
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (87 bp):
TTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGGTCTTCGATCTACTTCGCTGCCAATA
CAGGAAGACAAGATCTGCTATT
Found at i:43971222 original size:44 final size:44
Alignment explanation
Indices: 43971081--43971223 Score: 110
Period size: 44 Copynumber: 3.2 Consensus size: 44
43971071 CACTGCTGCT
* *
43971081 CAGGGAGACAAGGCTAGGGTCTTCGATCTACTTCGCTGCCAATA
1 CAGGAAGACAAGGCTAGGGTCTTCGATCTACTTCGCTGCTAATA
** ** * ** * * * **
43971125 CAGGAAGACAAAATCT-GCTATTTTTAACCTACTCCACTGCTGCT-
1 CAGGAAGAC-AAGGCTAG-GGTCTTCGATCTACTTCGCTGCTAATA
* *
43971169 CAGGGAGACAAGGCTAGGGTCTTCGATCTACTTCGCTGGTAATA
1 CAGGAAGACAAGGCTAGGGTCTTCGATCTACTTCGCTGCTAATA
43971213 CAGGAAGACAA
1 CAGGAAGACAA
43971224 TATCTGTTTA
Statistics
Matches: 66, Mismatches: 29, Indels: 8
0.64 0.28 0.08
Matches are distributed among these distances:
43 19 0.29
44 28 0.42
45 19 0.29
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.24
Consensus pattern (44 bp):
CAGGAAGACAAGGCTAGGGTCTTCGATCTACTTCGCTGCTAATA
Found at i:43971263 original size:25 final size:26
Alignment explanation
Indices: 43971235--43971283 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
43971225 ATCTGTTTAG
*
43971235 GATTATGTTATAAATT-TTGTGTTAA
1 GATTAAGTTATAAATTGTTGTGTTAA
43971260 GATTAAGTTATAAATTGTTGTGTT
1 GATTAAGTTATAAATTGTTGTGTT
43971284 TAGTTTAGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (26 bp):
GATTAAGTTATAAATTGTTGTGTTAA
Found at i:43972072 original size:15 final size:16
Alignment explanation
Indices: 43972032--43972070 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
43972022 TTAACTCATT
43972032 TAATTTTTATATAATG
1 TAATTTTTATATAATG
43972048 TAATTTTTATATAATG
1 TAATTTTTATATAATG
43972064 TAATTTT
1 TAATTTT
43972071 ATTTGATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (16 bp):
TAATTTTTATATAATG
Found at i:43973899 original size:14 final size:14
Alignment explanation
Indices: 43973880--43973907 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
43973870 CCATTGACAT
43973880 GATGCACGTACAAA
1 GATGCACGTACAAA
43973894 GATGCACGTACAAA
1 GATGCACGTACAAA
43973908 TAGTTTTGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.21, G:0.21, T:0.14
Consensus pattern (14 bp):
GATGCACGTACAAA
Found at i:43975300 original size:27 final size:27
Alignment explanation
Indices: 43975249--43975326 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
43975239 TGTGGGCCCC
* *
43975249 ACCATTGGCGCCTCTCA-ACATGGCTCA
1 ACCAGTGGCGCCTCTCAGATA-GGCTCA
* *
43975276 ACTAGTGGCGCCTCTCAGATAGGCTCC
1 ACCAGTGGCGCCTCTCAGATAGGCTCA
* *
43975303 ACCATTGGCGCCTCTGAGATAGGC
1 ACCAGTGGCGCCTCTCAGATAGGC
43975327 ACCACTACTC
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
27 41 0.95
28 2 0.05
ACGTcount: A:0.21, C:0.33, G:0.24, T:0.22
Consensus pattern (27 bp):
ACCAGTGGCGCCTCTCAGATAGGCTCA
Found at i:43977004 original size:31 final size:31
Alignment explanation
Indices: 43976968--43977026 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
43976958 CAATGATTAC
43976968 TGAACTACTCGAAAGTTTTCATTTAAGTCAT
1 TGAACTACTCGAAAGTTTTCATTTAAGTCAT
** *
43976999 TGAACTTTTCGAAAGTTTTTATTTAAGT
1 TGAACTACTCGAAAGTTTTCATTTAAGT
43977027 GGGCTATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.44
Consensus pattern (31 bp):
TGAACTACTCGAAAGTTTTCATTTAAGTCAT
Found at i:43978229 original size:14 final size:14
Alignment explanation
Indices: 43978208--43978241 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
43978198 TGGTATGGGT
43978208 TTAT-GGGTTTTGG
1 TTATAGGGTTTTGG
43978221 TTATAGGGTTTTGG
1 TTATAGGGTTTTGG
43978235 TTATAGG
1 TTATAGG
43978242 CAAATGATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.15, C:0.00, G:0.35, T:0.50
Consensus pattern (14 bp):
TTATAGGGTTTTGG
Found at i:43978392 original size:22 final size:23
Alignment explanation
Indices: 43978367--43978413 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
43978357 AAGGAAAGTT
43978367 TAAAGAACATAAAAT-AAAAAAA
1 TAAAGAACATAAAATGAAAAAAA
** *
43978389 TAAATTACTTAAAATGAAAAAAA
1 TAAAGAACATAAAATGAAAAAAA
43978412 TA
1 TA
43978414 TGGGGATCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.21
Consensus pattern (23 bp):
TAAAGAACATAAAATGAAAAAAA
Found at i:43981475 original size:14 final size:14
Alignment explanation
Indices: 43981451--43981488 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
43981441 CTTAAACCCC
43981451 GAACT-TAAATCAT
1 GAACTCTAAATCAT
*
43981464 GAACTCTAAATCCT
1 GAACTCTAAATCAT
*
43981478 GAACTCCAAAT
1 GAACTCTAAAT
43981489 TTAAATCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 5 0.23
14 17 0.77
ACGTcount: A:0.42, C:0.24, G:0.08, T:0.26
Consensus pattern (14 bp):
GAACTCTAAATCAT
Found at i:43987959 original size:3 final size:3
Alignment explanation
Indices: 43987953--43987995 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
43987943 CATAATAAAA
43987953 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
43987996 AGAGATGAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.35, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:43988561 original size:22 final size:23
Alignment explanation
Indices: 43988536--43988580 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
43988526 GAGAATAAAG
*
43988536 AAAAATTTAAATATC-AATTTAA
1 AAAAATTCAAATATCAAATTTAA
*
43988558 AAAAATTCAGATATCAAATTTAA
1 AAAAATTCAAATATCAAATTTAA
43988581 CATTTAATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.33
Consensus pattern (23 bp):
AAAAATTCAAATATCAAATTTAA
Found at i:43995291 original size:3 final size:3
Alignment explanation
Indices: 43995283--43995323 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
43995273 ATCTATCCTT
43995283 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
43995324 TAACTAATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:44000256 original size:29 final size:30
Alignment explanation
Indices: 44000224--44000291 Score: 84
Period size: 31 Copynumber: 2.3 Consensus size: 30
44000214 TCAAAATTTT
44000224 ATGTATAAAATTACACA-AAATCAAAGTTC
1 ATGTATAAAATTACACATAAATCAAAGTTC
* * * *
44000253 ATGTATGACATTGCACATTAGATCAAAGTTC
1 ATGTATAAAATTACACA-TAAATCAAAGTTC
44000284 ATGTATAA
1 ATGTATAA
44000292 TTTTGATATT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 14 0.44
31 18 0.56
ACGTcount: A:0.44, C:0.13, G:0.12, T:0.31
Consensus pattern (30 bp):
ATGTATAAAATTACACATAAATCAAAGTTC
Found at i:44002217 original size:30 final size:29
Alignment explanation
Indices: 44002159--44002219 Score: 77
Period size: 30 Copynumber: 2.1 Consensus size: 29
44002149 AACCTCAAAA
**
44002159 TTATACATAAATTTTAATTTTGTATAATT
1 TTATACATAAATTTTAATTTAATATAATT
* *
44002188 TTATATATGAAATTTTAATTTAATCTAATT
1 TTATACAT-AAATTTTAATTTAATATAATT
44002218 TT
1 TT
44002220 CGTATATTGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 7 0.26
30 20 0.74
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (29 bp):
TTATACATAAATTTTAATTTAATATAATT
Found at i:44004713 original size:20 final size:20
Alignment explanation
Indices: 44004689--44004732 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 20
44004679 TTAGATTTAT
44004689 TAAAAATTAG-AAAAAAA-TA
1 TAAAAATT-GTAAAAAAATTA
44004708 TAAAAATTGTAAAAAAATTA
1 TAAAAATTGTAAAAAAATTA
44004728 TAAAA
1 TAAAA
44004733 TACATCAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 1 0.04
19 15 0.65
20 7 0.30
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (20 bp):
TAAAAATTGTAAAAAAATTA
Found at i:44007681 original size:89 final size:87
Alignment explanation
Indices: 44007558--44007759 Score: 225
Period size: 89 Copynumber: 2.3 Consensus size: 87
44007548 AACTTTTAAA
* *
44007558 AAAAAAGAGCAATTAAGTCCCCT-T-TTTTTTCACTCAATT-GAGCACTTAAACTTTTAAAATGC
1 AAAAAA-AGCAATTAAG-CCCCTCTCTTTTTTCACTCAATTGGA-CACCTAAACTTTCAAAATGC
* * * *
44007620 ATC-AAAAAGGCCTTCACACTTCTTC
63 ATCTAAAAA-ACCCTCAAAATTCTTC
* *
44007645 AAAAAAAGCAATTAAGCCCCTGCTCTTTTTTCCACTCAATTGGATACCTGAACTTTCAAAATGCA
1 AAAAAAAGCAATTAAGCCCCT-CTCTTTTTT-CACTCAATTGGACACCTAAACTTTCAAAATGCA
*
44007710 TCTAAAAAACCCTCAAAATTTTTC
64 TCTAAAAAACCCTCAAAATTCTTC
44007734 -AAAAAAGCAATTAAGCCCCTACTCTT
1 AAAAAAAGCAATTAAGCCCCT-CTCTT
44007760 ATTAAAAATT
Statistics
Matches: 99, Mismatches: 10, Indels: 11
0.82 0.08 0.09
Matches are distributed among these distances:
85 5 0.05
86 10 0.10
87 7 0.07
88 31 0.31
89 39 0.39
90 7 0.07
ACGTcount: A:0.37, C:0.24, G:0.08, T:0.30
Consensus pattern (87 bp):
AAAAAAAGCAATTAAGCCCCTCTCTTTTTTCACTCAATTGGACACCTAAACTTTCAAAATGCATC
TAAAAAACCCTCAAAATTCTTC
Found at i:44007810 original size:20 final size:20
Alignment explanation
Indices: 44007762--44007802 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
44007752 CTACTCTTAT
*
44007762 TAAAAATTAGAAAAATAAATTA
1 TAAAAAATA-AAAAA-AAATTA
44007784 TAAAAAATAAAAAAAAATT
1 TAAAAAATAAAAAAAAATT
44007803 TTAGAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 5 0.28
22 8 0.44
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (20 bp):
TAAAAAATAAAAAAAAATTA
Found at i:44008011 original size:20 final size:20
Alignment explanation
Indices: 44007986--44008141 Score: 81
Period size: 20 Copynumber: 7.8 Consensus size: 20
44007976 GTACAATAAT
*
44007986 TTTTATAATTTTTTTACAAA
1 TTTTATAATTTTTTTACGAA
* *
44008006 TTTTAT-ATTTCTTTAC-AT
1 TTTTATAATTTTTTTACGAA
* *
44008024 TTTGTATAATTTTCTTACGAC
1 TTT-TATAATTTTTTTACGAA
* *
44008045 TTTATAAAATTTTATAATTA-TATA
1 TTT-TATAATTTT-T--TTACGA-A
**
44008069 TTTTATAATTTTTTTACGTT
1 TTTTATAATTTTTTTACGAA
**
44008089 TTTTATAA-AATTTTAC-AA
1 TTTTATAATTTTTTTACGAA
* * *
44008107 TTTTTTTATATTTTTTACGAT
1 TTTTATAAT-TTTTTTACGAA
44008128 TTTTAT-ATTTTTTT
1 TTTTATAATTTTTTT
44008142 CTAATTTTTA
Statistics
Matches: 101, Mismatches: 24, Indels: 23
0.68 0.16 0.16
Matches are distributed among these distances:
18 10 0.10
19 24 0.24
20 33 0.33
21 18 0.18
22 1 0.01
23 9 0.09
24 6 0.06
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.63
Consensus pattern (20 bp):
TTTTATAATTTTTTTACGAA
Found at i:44008148 original size:19 final size:18
Alignment explanation
Indices: 44008099--44008152 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 18
44008089 TTTTATAAAA
44008099 TTTTACAATTTTTTTATATT
1 TTTTACAA--TTTTTATATT
*
44008119 TTTTACGATTTTTATATT
1 TTTTACAATTTTTATATT
*
44008137 TTTTTCTAATTTTTAT
1 TTTTAC-AATTTTTAT
44008153 TAAATTTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
18 15 0.50
19 8 0.27
20 7 0.23
ACGTcount: A:0.22, C:0.06, G:0.02, T:0.70
Consensus pattern (18 bp):
TTTTACAATTTTTATATT
Found at i:44008150 original size:39 final size:39
Alignment explanation
Indices: 44008023--44008134 Score: 109
Period size: 45 Copynumber: 2.7 Consensus size: 39
44008013 TTTCTTTACA
* * *
44008023 TTTTGTATAATTTTCTTACGA-CTTTATAAAATTTTATAATT
1 TTTTTTAT-ATTTT-TTACGATTTTTATAAAATTTTACAA-T
*
44008064 ATATATTTTATAATTTTTTTACGTTTTTTATAAAATTTTACAAT
1 -T-T-TTTTAT-A-TTTTTTACGATTTTTATAAAATTTTACAAT
44008108 TTTTTTATATTTTTTACGATTTTTATA
1 TTTTTTATATTTTTTACGATTTTTATA
44008135 TTTTTTTCTA
Statistics
Matches: 61, Mismatches: 5, Indels: 11
0.79 0.06 0.14
Matches are distributed among these distances:
39 17 0.28
40 1 0.02
41 6 0.10
42 2 0.03
43 2 0.03
44 13 0.21
45 20 0.33
ACGTcount: A:0.30, C:0.05, G:0.04, T:0.61
Consensus pattern (39 bp):
TTTTTTATATTTTTTACGATTTTTATAAAATTTTACAAT
Found at i:44008160 original size:20 final size:20
Alignment explanation
Indices: 44008088--44008161 Score: 57
Period size: 20 Copynumber: 3.8 Consensus size: 20
44008078 TTTTTTACGT
* *
44008088 TTTTTATAAAATTTTAC-AA
1 TTTTTATTAAATTTTTCTAA
*
44008107 TTTTT-TTATATTTTT-TACGA
1 TTTTTATTAAATTTTTCTA--A
**
44008127 TTTTTA-TATTTTTTTCTAA
1 TTTTTATTAAATTTTTCTAA
44008146 TTTTTATTAAATTTTT
1 TTTTTATTAAATTTTT
44008162 AATATTTTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
18 8 0.19
19 12 0.28
20 21 0.49
21 2 0.05
ACGTcount: A:0.27, C:0.04, G:0.01, T:0.68
Consensus pattern (20 bp):
TTTTTATTAAATTTTTCTAA
Found at i:44008161 original size:39 final size:38
Alignment explanation
Indices: 44008069--44008185 Score: 94
Period size: 39 Copynumber: 3.0 Consensus size: 38
44008059 TAATTATATA
* **
44008069 TTTTATAATTTTTTTACGTTTTTTATAAAATTTTACAATTT
1 TTTTATAA--TTTTTACGATTTTTAT-ATTTTTTACAATTT
* *
44008110 TTTTATATTTTTTACGATTTTTATATTTTTTTCTAATTT
1 TTTTATAATTTTTACGATTTTTATATTTTTTAC-AATTT
** * *
44008149 TTATTA-AATTTTTAATATTTTAATATTTATTA-AATTT
1 TT-TTATAATTTTTACGATTTTTATATTTTTTACAATTT
44008186 AATAATATTT
Statistics
Matches: 63, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
37 5 0.08
38 6 0.10
39 42 0.67
40 3 0.05
41 7 0.11
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (38 bp):
TTTTATAATTTTTACGATTTTTATATTTTTTACAATTT
Found at i:44008179 original size:26 final size:27
Alignment explanation
Indices: 44008143--44008195 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
44008133 TATTTTTTTC
* *
44008143 TAATTTTTATTAAATTT-TTAATATTT
1 TAATATTTATTAAATTTAATAATATTT
44008169 TAATATTTATTAAATTTAATAATATTT
1 TAATATTTATTAAATTTAATAATATTT
44008196 ATAGCTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (27 bp):
TAATATTTATTAAATTTAATAATATTT
Found at i:44008377 original size:85 final size:87
Alignment explanation
Indices: 44008243--44008457 Score: 310
Period size: 85 Copynumber: 2.4 Consensus size: 87
44008233 TAAAAGCGAG
44008243 GGCTTAATTGATTTTTTTTGAAAAAGTTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTAC
1 GGCTTAATTGATTTTTTTT---AAAGTTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTAC
*
44008308 CCAATTGAGTGTAA-AAAAAGTAGA
63 CCAATTGAGTGCAAGAAAAAGTAGA
* *
44008332 GGCTTAATTG-TTTTTTTTAAAGTTTGAGGGTCTTTTTGATGCATTTTGAAAGTTTAAGTACCTA
1 GGCTTAATTGATTTTTTTTAAAGTTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTACCCA
*
44008396 ATTGAGTGCAAGAAAAAGTAGG
66 ATTGAGTGCAAGAAAAAGTAGA
* *
44008418 GGCTTAATTGCTTTTTTTCAAAAAGTTTGAGGGT-TTTTTG
1 GGCTTAATTGATTTTTTT--TAAAGTTTGAGGGTCTTTTTG
44008458 CACCCTTAAG
Statistics
Matches: 117, Mismatches: 5, Indels: 9
0.89 0.04 0.07
Matches are distributed among these distances:
85 54 0.46
86 19 0.16
87 7 0.06
88 14 0.12
89 23 0.20
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.41
Consensus pattern (87 bp):
GGCTTAATTGATTTTTTTTAAAGTTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTACCCA
ATTGAGTGCAAGAAAAAGTAGA
Found at i:44008620 original size:24 final size:24
Alignment explanation
Indices: 44008588--44008637 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
44008578 ACAATTGACA
*
44008588 AGGAAAAGACGCATTGGTGAAAAT
1 AGGAAAAGACGCATCGGTGAAAAT
*
44008612 AGGAAAAGACGTATCGGTGAAAAT
1 AGGAAAAGACGCATCGGTGAAAAT
44008636 AG
1 AG
44008638 TACAAAACCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.46, C:0.08, G:0.30, T:0.16
Consensus pattern (24 bp):
AGGAAAAGACGCATCGGTGAAAAT
Found at i:44015523 original size:47 final size:47
Alignment explanation
Indices: 44015472--44015636 Score: 170
Period size: 47 Copynumber: 3.5 Consensus size: 47
44015462 GCTTGACCGA
* * * * * *
44015472 TGGTTTATCCACAACTTATTTTACTCGGCATTCACCTGTTCGACCGG
1 TGGTTTATCCACAACATATTTTAGTCGACAATCACCTGCTCGACCAG
* * * * *
44015519 TGGTTTGTCCACAACATATCTTAGTCGACAATCATCTGCTCAACTAG
1 TGGTTTATCCACAACATATTTTAGTCGACAATCACCTGCTCGACCAG
* * *
44015566 TGGTTTATCCACAACATATTTTAGTC-ATCAGTCACCTGCTCTACTAG
1 TGGTTTATCCACAACATATTTTAGTCGA-CAATCACCTGCTCGACCAG
* *
44015613 TGGTATATCCACAACGTATTTTAG
1 TGGTTTATCCACAACATATTTTAG
44015637 CAGCTTTTAT
Statistics
Matches: 99, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
46 1 0.01
47 98 0.99
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (47 bp):
TGGTTTATCCACAACATATTTTAGTCGACAATCACCTGCTCGACCAG
Found at i:44016681 original size:2 final size:2
Alignment explanation
Indices: 44016674--44016698 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
44016664 TTTCTAGTAG
44016674 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
44016699 GTGAATCTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:44017309 original size:44 final size:44
Alignment explanation
Indices: 44017246--44017332 Score: 138
Period size: 44 Copynumber: 2.0 Consensus size: 44
44017236 GTTGAAATAA
*
44017246 AATAGAAGTTGCAAAAATTATACATTAAAAAATAATTATAATTT
1 AATAGAAGTTGCAAAAATTATACATTAAAAAATAATTAAAATTT
** *
44017290 AATAGAAGTTGTGATAATTATACATTAAAAAATAATTAAAATT
1 AATAGAAGTTGCAAAAATTATACATTAAAAAATAATTAAAATT
44017333 AAAATTATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.54, C:0.03, G:0.08, T:0.34
Consensus pattern (44 bp):
AATAGAAGTTGCAAAAATTATACATTAAAAAATAATTAAAATTT
Found at i:44017326 original size:18 final size:17
Alignment explanation
Indices: 44017303--44017336 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
44017293 AGAAGTTGTG
*
44017303 ATAATTATACATTAAAAA
1 ATAATTA-AAATTAAAAA
44017321 ATAATTAAAATTAAAA
1 ATAATTAAAATTAAAA
44017337 TTATTAATTA
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:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (17 bp):
ATAATTAAAATTAAAAA
Done.