Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 135 of 144
Found at i:41923344 original size:17 final size:17
Alignment explanation
Indices: 41923299--41923371 Score: 76
Period size: 17 Copynumber: 4.3 Consensus size: 17
41923289 CATTTGTGCA
41923299 AACCCTCCATATGTGTG
1 AACCCTCCATATGTGTG
* * *
41923316 AACTCGT-TATATATGTG
1 AAC-CCTCCATATGTGTG
* *
41923333 AACCCTCCATATGCGCG
1 AACCCTCCATATGTGTG
*
41923350 AACCTTCCATATGTGTG
1 AACCCTCCATATGTGTG
41923367 AACCC
1 AACCC
41923372 CTACTATATA
Statistics
Matches: 42, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
16 2 0.05
17 38 0.90
18 2 0.05
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (17 bp):
AACCCTCCATATGTGTG
Found at i:41929747 original size:13 final size:13
Alignment explanation
Indices: 41929729--41929754 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
41929719 AAACCAAAAA
41929729 AAAATAAATAAAT
1 AAAATAAATAAAT
41929742 AAAATAAATAAAT
1 AAAATAAATAAAT
41929755 GGTGCTTGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
AAAATAAATAAAT
Found at i:41932677 original size:19 final size:19
Alignment explanation
Indices: 41932653--41932691 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
41932643 ACAAGAAGAT
41932653 TCCTTTGGTCAAGGTACTA
1 TCCTTTGGTCAAGGTACTA
41932672 TCCTTTGGTCAAGGTACTA
1 TCCTTTGGTCAAGGTACTA
41932691 T
1 T
41932692 GGTGAAACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (19 bp):
TCCTTTGGTCAAGGTACTA
Found at i:41933018 original size:27 final size:27
Alignment explanation
Indices: 41932988--41933045 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
41932978 ATGAGCTAGT
*
41932988 GTTCATTATCAAGTTTGGCAAGCTGGG
1 GTTCATTAGCAAGTTTGGCAAGCTGGG
* *
41933015 GTTCATTAGCAGGTTTGGCAAGCTGTG
1 GTTCATTAGCAAGTTTGGCAAGCTGGG
41933042 GTTC
1 GTTC
41933046 GCTGGTAAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.19, C:0.16, G:0.31, T:0.34
Consensus pattern (27 bp):
GTTCATTAGCAAGTTTGGCAAGCTGGG
Found at i:41933624 original size:13 final size:13
Alignment explanation
Indices: 41933606--41933630 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41933596 TGAACAATAA
41933606 TATGCGAGCTCTC
1 TATGCGAGCTCTC
41933619 TATGCGAGCTCT
1 TATGCGAGCTCT
41933631 ATGTGAACAG
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:0.16, C:0.28, G:0.24, T:0.32
Consensus pattern (13 bp):
TATGCGAGCTCTC
Found at i:41937921 original size:25 final size:25
Alignment explanation
Indices: 41937893--41937957 Score: 112
Period size: 25 Copynumber: 2.6 Consensus size: 25
41937883 CTATTTTTAT
* *
41937893 AGCTTGTGTGAGCATTCTGATTCAC
1 AGCTCGTGTGAGCATTCTGATTCAA
41937918 AGCTCGTGTGAGCATTCTGATTCAA
1 AGCTCGTGTGAGCATTCTGATTCAA
41937943 AGCTCGTGTGAGCAT
1 AGCTCGTGTGAGCAT
41937958 ACATGTATAG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (25 bp):
AGCTCGTGTGAGCATTCTGATTCAA
Found at i:41938653 original size:32 final size:32
Alignment explanation
Indices: 41938612--41938675 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
41938602 AAAGTGGTTG
41938612 ACATCTTGGTTCTTGATGCTTGAAAAATTAAA
1 ACATCTTGGTTCTTGATGCTTGAAAAATTAAA
41938644 ACATCTTGGTTCTTGATGCTTGAAAAATTAAA
1 ACATCTTGGTTCTTGATGCTTGAAAAATTAAA
41938676 GATGGATGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (32 bp):
ACATCTTGGTTCTTGATGCTTGAAAAATTAAA
Found at i:41944059 original size:3 final size:3
Alignment explanation
Indices: 41944051--41944113 Score: 117
Period size: 3 Copynumber: 21.0 Consensus size: 3
41944041 ATAATTTCCC
*
41944051 TTA TTA TTA TTA TTA GTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
41944099 TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA
41944114 GGGTGAACTA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:41945659 original size:9 final size:9
Alignment explanation
Indices: 41945645--41945675 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
41945635 GTTAAACGAA
41945645 TCGAGTTAT
1 TCGAGTTAT
*
41945654 TCGAGTTAA
1 TCGAGTTAT
41945663 TCGAGTTAT
1 TCGAGTTAT
41945672 TCGA
1 TCGA
41945676 ATCAAATCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:41945988 original size:30 final size:31
Alignment explanation
Indices: 41945954--41946011 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
41945944 AAACCTTTTA
*
41945954 TTTTCTCCC-AAAATTTTTACT-CCTTCCTAC
1 TTTTC-CCCTAAAACTTTTACTCCCTTCCTAC
*
41945984 TTTTCCCCTAAAACTTTTATTCCCTTCC
1 TTTTCCCCTAAAACTTTTACTCCCTTCC
41946012 CGACTCACCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 3 0.12
30 15 0.62
31 6 0.25
ACGTcount: A:0.19, C:0.34, G:0.00, T:0.47
Consensus pattern (31 bp):
TTTTCCCCTAAAACTTTTACTCCCTTCCTAC
Found at i:41947344 original size:21 final size:21
Alignment explanation
Indices: 41947303--41947345 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
41947293 ACCCCAAACT
* *
41947303 CTCAAATCTTTTTACTTTTCC
1 CTCAAAACTTTTTACTCTTCC
41947324 CTCAAAAC-TTTTACTCCTTCC
1 CTCAAAACTTTTTACT-CTTCC
41947345 C
1 C
41947346 ACTTTTACTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.21, C:0.35, G:0.00, T:0.44
Consensus pattern (21 bp):
CTCAAAACTTTTTACTCTTCC
Found at i:41952061 original size:30 final size:30
Alignment explanation
Indices: 41952015--41952072 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
41952005 TCTGAACTTT
41952015 GGGGCAAAAGTGTAATTATGTAAAAGTTTA
1 GGGGCAAAAGTGTAATTATGTAAAAGTTTA
* * * *
41952045 GGGGGAAAATTGTAATTTTGTCAAAGTT
1 GGGGCAAAAGTGTAATTATGTAAAAGTT
41952073 AGACTCAATG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.36, C:0.03, G:0.28, T:0.33
Consensus pattern (30 bp):
GGGGCAAAAGTGTAATTATGTAAAAGTTTA
Found at i:41953704 original size:15 final size:16
Alignment explanation
Indices: 41953672--41953705 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
41953662 ATTTTGTGTG
41953672 TTTATTATGTGAGAAT
1 TTTATTATGTGAGAAT
*
41953688 TTTATTGTGTG-GAAT
1 TTTATTATGTGAGAAT
41953703 TTT
1 TTT
41953706 CGTGTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.24, C:0.00, G:0.21, T:0.56
Consensus pattern (16 bp):
TTTATTATGTGAGAAT
Found at i:41954912 original size:43 final size:43
Alignment explanation
Indices: 41954839--41954967 Score: 140
Period size: 43 Copynumber: 3.0 Consensus size: 43
41954829 ATAGGATTTC
* * *
41954839 CGATATGTG-TTATCGTGTAAGACAACGTCTGGGACGTTGGCAT
1 CGATATGTGATTA-CATGTAAAACCACGTCTGGGACGTTGGCAT
* *
41954882 CGACT-TGTGTTTACGTGTAAAACC-CTGTCTGGGACAG-TGGCAT
1 CGA-TATGTGATTACATGTAAAACCAC-GTCTGGGAC-GTTGGCAT
*
41954925 CGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATGTGATTACATGTAAAACCACGTCTGGGACGTTGGCAT
41954968 TGTACGAGTT
Statistics
Matches: 74, Mismatches: 5, Indels: 14
0.80 0.05 0.15
Matches are distributed among these distances:
42 3 0.04
43 65 0.88
44 6 0.08
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (43 bp):
CGATATGTGATTACATGTAAAACCACGTCTGGGACGTTGGCAT
Found at i:41955634 original size:14 final size:15
Alignment explanation
Indices: 41955610--41955644 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
41955600 TACTTTAATC
41955610 ATGGATTAGTATTT-T
1 ATGG-TTAGTATTTAT
41955625 ATGGTTAGTATTTAT
1 ATGGTTAGTATTTAT
41955640 ATGGT
1 ATGGT
41955645 AATGTATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (15 bp):
ATGGTTAGTATTTAT
Found at i:41956128 original size:14 final size:15
Alignment explanation
Indices: 41956104--41956138 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
41956094 TACTTTAATC
41956104 ATGGATTAGTATTT-T
1 ATGG-TTAGTATTTAT
41956119 ATGGTTAGTATTTAT
1 ATGGTTAGTATTTAT
41956134 ATGGT
1 ATGGT
41956139 AATGTATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (15 bp):
ATGGTTAGTATTTAT
Found at i:41956239 original size:494 final size:494
Alignment explanation
Indices: 41955312--41956297 Score: 1954
Period size: 494 Copynumber: 2.0 Consensus size: 494
41955302 ATATGTAATT
41955312 GTCGATAATTATATTTTTGCTTATGACTTACTAAGCTTAAATAGCTTACTGTGTGTATGTTGTTC
1 GTCGATAATTATATTTTTGCTTATGACTTACTAAGCTTAAATAGCTTACTGTGTGTATGTTGTTC
41955377 TTCATTTTATAGATTTTGGAAGTTCGTTACGAGCTCGGGGATCATCAGAGAAGATTATCACACTA
66 TTCATTTTATAGATTTTGGAAGTTCGTTACGAGCTCGGGGATCATCAGAGAAGATTATCACACTA
41955442 TCGACTCCTCTCAGTATTTTGTAAATTTTGAATTCGATCTTACGGCATGTATAGCATAGCTGAAA
131 TCGACTCCTCTCAGTATTTTGTAAATTTTGAATTCGATCTTACGGCATGTATAGCATAGCTGAAA
*
41955507 TGCTTGAATTTAGATTATGTAATATTAAGCCATGCGAAAATGGCTTAATTTTCTTGTTTGTGTTC
196 TACTTGAATTTAGATTATGTAATATTAAGCCATGCGAAAATGGCTTAATTTTCTTGTTTGTGTTC
41955572 GGTTTTGGGCTGAATTATGGTTTAAGCATACTTTAATCATGGATTAGTATTTTATGGTTAGTATT
261 GGTTTTGGGCTGAATTATGGTTTAAGCATACTTTAATCATGGATTAGTATTTTATGGTTAGTATT
41955637 TATATGGTAATGTATATATATATGTGCATGGTGATTTCATTCAAGTGTTTCAGTAATTTTGTGGT
326 TATATGGTAATGTATATATATATGTGCATGGTGATTTCATTCAAGTGTTTCAGTAATTTTGTGGT
41955702 TGAAGTAAGTAAGTTTGTTATACTCATTAAGATAAGTAATGTTAAGTTAAGTGTCTAGGTTATGT
391 TGAAGTAAGTAAGTTTGTTATACTCATTAAGATAAGTAATGTTAAGTTAAGTGTCTAGGTTATGT
*
41955767 ATTATATATGAAATATTTATGATTTGGTTGGATTTAGCG
456 ATTATATATGAAATATATATGATTTGGTTGGATTTAGCG
41955806 GTCGATAATTATATTTTTGCTTATGACTTACTAAGCTTAAATAGCTTACTGTGTGTATGTTGTTC
1 GTCGATAATTATATTTTTGCTTATGACTTACTAAGCTTAAATAGCTTACTGTGTGTATGTTGTTC
41955871 TTCATTTTATAGATTTTGGAAGTTCGTTACGAGCTCGGGGATCATCAGAGAAGATTATCACACTA
66 TTCATTTTATAGATTTTGGAAGTTCGTTACGAGCTCGGGGATCATCAGAGAAGATTATCACACTA
41955936 TCGACTCCTCTCAGTATTTTGTAAATTTTGAATTCGATCTTACGGCATGTATAGCATAGCTGAAA
131 TCGACTCCTCTCAGTATTTTGTAAATTTTGAATTCGATCTTACGGCATGTATAGCATAGCTGAAA
41956001 TACTTGAATTTAGATTATGTAATATTAAGCCATGCGAAAATGGCTTAATTTTCTTGTTTGTGTTC
196 TACTTGAATTTAGATTATGTAATATTAAGCCATGCGAAAATGGCTTAATTTTCTTGTTTGTGTTC
41956066 GGTTTTGGGCTGAATTATGGTTTAAGCATACTTTAATCATGGATTAGTATTTTATGGTTAGTATT
261 GGTTTTGGGCTGAATTATGGTTTAAGCATACTTTAATCATGGATTAGTATTTTATGGTTAGTATT
41956131 TATATGGTAATGTATATATATATGTGCATGGTGATTTCATTCAAGTGTTTCAGTAATTTTGTGGT
326 TATATGGTAATGTATATATATATGTGCATGGTGATTTCATTCAAGTGTTTCAGTAATTTTGTGGT
41956196 TGAAGTAAGTAAGTTTGTTATACTCATTAAGATAAGTAATGTTAAGTTAAGTGTCTAGGTTATGT
391 TGAAGTAAGTAAGTTTGTTATACTCATTAAGATAAGTAATGTTAAGTTAAGTGTCTAGGTTATGT
41956261 ATTATATATGAAATATATATGATTTGGTTGGATTTAG
456 ATTATATATGAAATATATATGATTTGGTTGGATTTAG
41956298 TAGTTAAGTG
Statistics
Matches: 490, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
494 490 1.00
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.42
Consensus pattern (494 bp):
GTCGATAATTATATTTTTGCTTATGACTTACTAAGCTTAAATAGCTTACTGTGTGTATGTTGTTC
TTCATTTTATAGATTTTGGAAGTTCGTTACGAGCTCGGGGATCATCAGAGAAGATTATCACACTA
TCGACTCCTCTCAGTATTTTGTAAATTTTGAATTCGATCTTACGGCATGTATAGCATAGCTGAAA
TACTTGAATTTAGATTATGTAATATTAAGCCATGCGAAAATGGCTTAATTTTCTTGTTTGTGTTC
GGTTTTGGGCTGAATTATGGTTTAAGCATACTTTAATCATGGATTAGTATTTTATGGTTAGTATT
TATATGGTAATGTATATATATATGTGCATGGTGATTTCATTCAAGTGTTTCAGTAATTTTGTGGT
TGAAGTAAGTAAGTTTGTTATACTCATTAAGATAAGTAATGTTAAGTTAAGTGTCTAGGTTATGT
ATTATATATGAAATATATATGATTTGGTTGGATTTAGCG
Found at i:41956558 original size:21 final size:21
Alignment explanation
Indices: 41956489--41956558 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
41956479 TGTGTTGTTC
* * *
41956489 AATTTTGTACATATGCTATCA
1 AATTTTATATATATGCTGTCA
* *
41956510 AATTTTGATGTATAAATGCAGTTC-
1 AATTTT-A--TATATATGCTG-TCA
41956534 AATTTTATATATATGCTGTCA
1 AATTTTATATATATGCTGTCA
41956555 AATT
1 AATT
41956559 CTGATGTATA
Statistics
Matches: 37, Mismatches: 7, Indels: 10
0.69 0.13 0.19
Matches are distributed among these distances:
20 2 0.05
21 19 0.51
23 1 0.03
24 13 0.35
25 2 0.05
ACGTcount: A:0.34, C:0.10, G:0.11, T:0.44
Consensus pattern (21 bp):
AATTTTATATATATGCTGTCA
Found at i:41956592 original size:25 final size:25
Alignment explanation
Indices: 41956562--41956640 Score: 78
Period size: 25 Copynumber: 3.3 Consensus size: 25
41956552 TCAAATTCTG
41956562 ATGTATAAATGCAGTCCAACTATAT
1 ATGTATAAATGCAGTCCAACTATAT
* * *
41956587 ATGTAT--ATGCTGT-CAAAT-TTT
1 ATGTATAAATGCAGTCCAACTATAT
41956608 GATGTATAAATGCAGTCC-ACTTATAT
1 -ATGTATAAATGCAGTCCAAC-TATAT
41956634 ATGTATA
1 ATGTATA
41956641 TGCTATCAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
21 2 0.05
22 10 0.24
23 6 0.14
24 7 0.17
25 15 0.36
26 2 0.05
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.38
Consensus pattern (25 bp):
ATGTATAAATGCAGTCCAACTATAT
Found at i:41956612 original size:47 final size:47
Alignment explanation
Indices: 41956499--41956674 Score: 268
Period size: 47 Copynumber: 3.8 Consensus size: 47
41956489 AATTTTGTAC
* * *
41956499 ATATGCTATCAAATTTTGATGTATAAATGCAGTTCAA-T-TTTATAT
1 ATATGCTATCAAATTTTGATGTATAAATGCAGTCCAACTATATATGT
* *
41956544 ATATGCTGTCAAATTCTGATGTATAAATGCAGTCCAACTATATATGT
1 ATATGCTATCAAATTTTGATGTATAAATGCAGTCCAACTATATATGT
*
41956591 ATATGCTGTCAAATTTTGATGTATAAATGCAGTCC-ACTTATATATGT
1 ATATGCTATCAAATTTTGATGTATAAATGCAGTCCAAC-TATATATGT
41956638 ATATGCTATCAAATTTTGATGTATAAATGCAGTCCAA
1 ATATGCTATCAAATTTTGATGTATAAATGCAGTCCAA
41956675 TTTTGTAGAA
Statistics
Matches: 120, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
45 34 0.28
46 3 0.03
47 82 0.68
48 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (47 bp):
ATATGCTATCAAATTTTGATGTATAAATGCAGTCCAACTATATATGT
Found at i:41956890 original size:14 final size:15
Alignment explanation
Indices: 41956866--41956900 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
41956856 TACTTTAATC
41956866 ATGGATTAGTATTT-T
1 ATGG-TTAGTATTTAT
41956881 ATGGTTAGTATTTAT
1 ATGGTTAGTATTTAT
41956896 ATGGT
1 ATGGT
41956901 AATGTATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (15 bp):
ATGGTTAGTATTTAT
Found at i:41957374 original size:47 final size:45
Alignment explanation
Indices: 41957261--41957553 Score: 415
Period size: 47 Copynumber: 6.4 Consensus size: 45
41957251 AATTTTGTAC
* * *
41957261 ATATGCTATCAAATTTTGATGTATAAATGCAGTTCAATTTTATAT
1 ATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATAT
* *
41957306 ATATGCTGTCAAATTCTGATGTATAAATGCAGTCCAACTATATATGT
1 ATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAA-T-TATATAT
*
41957353 ATATGCTGTCAAATTTTGATGTATAAATGCAGTCCACTTATATATGT
1 ATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATA--T
* * *
41957400 ATATGCTATCAAATTTTGATGTATAAATGCAGTCCAATTTTGTAT
1 ATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATAT
41957445 ATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATGT
1 ATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATA--T
* * *
41957492 ATATGCTGTCAAATTTTGATGTATAAATGCAGCCCAATTTTGTAT
1 ATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATAT
*
41957537 ATATGCTGTCCAATTTT
1 ATATGCTGTCAAATTTT
41957554 CGTGAAAAAA
Statistics
Matches: 223, Mismatches: 19, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
45 98 0.44
46 2 0.01
47 123 0.55
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (45 bp):
ATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATAT
Found at i:41957382 original size:762 final size:762
Alignment explanation
Indices: 41955919--41957443 Score: 3005
Period size: 762 Copynumber: 2.0 Consensus size: 762
41955909 GGATCATCAG
41955919 AGAAGATTATCACACTATCGACTCCTCTCAGTATTTTGTAAATTTTGAATTCGATCTTACGGCAT
1 AGAAGATTATCACACTATCGACTCCTCTCAGTATTTTGTAAATTTTGAATTCGATCTTACGGCAT
41955984 GTATAGCATAGCTGAAATACTTGAATTTAGATTATGTAATATTAAGCCATGCGAAAATGGCTTAA
66 GTATAGCATAGCTGAAATACTTGAATTTAGATTATGTAATATTAAGCCATGCGAAAATGGCTTAA
41956049 TTTTCTTGTTTGTGTTCGGTTTTGGGCTGAATTATGGTTTAAGCATACTTTAATCATGGATTAGT
131 TTTTCTTGTTTGTGTTCGGTTTTGGGCTGAATTATGGTTTAAGCATACTTTAATCATGGATTAGT
41956114 ATTTTATGGTTAGTATTTATATGGTAATGTATATATATATGTGCATGGTGATTTCATTCAAGTGT
196 ATTTTATGGTTAGTATTTATATGGTAATGTATATATATATGTGCATGGTGATTTCATTCAAGTGT
41956179 TTCAGTAATTTTGTGGTTGAAGTAAGTAAGTTTGTTATACTCATTAAGATAAGTAATGTTAAGTT
261 TTCAGTAATTTTGTGGTTGAAGTAAGTAAGTTTGTTATACTCATTAAGATAAGTAATGTTAAGTT
*
41956244 AAGTGTCTAGGTTATGTATTATATATGAAATATATATGATTTGGTTGGATTTAGTAGTTAAGTGA
326 AAGTGTCTAGGTTATGTATTATATATGAAATATATATGATTTGGTTGGATTTAGCAGTTAAGTGA
*
41956309 ATATAGGAGATGATTTATAAATTGAAGTATGCTTGTAAATGTTGGTGATTAATTACGTTTGGCGT
391 ATATAGGAGATGATTTATAAATTGAAGTATGCTTGTAAATGTTGATGATTAATTACGTTTGGCGT
*
41956374 ATTGATAGAGTAAACGAATGTATATATATTCAAATGTGTATTGATTAGGATTTATGGCTTAGTAT
456 ATTGATAGAGTAAACAAATGTATATATATTCAAATGTGTATTGATTAGGATTTATGGCTTAGTAT
41956439 ATATATAATGGATTAATTTATTTATATAAAAAATTGAATATGTGTTGTTCAATTTTGTACATATG
521 ATATATAATGGATTAATTTATTTATATAAAAAATTGAATATGTGTTGTTCAATTTTGTACATATG
41956504 CTATCAAATTTTGATGTATAAATGCAGTTCAATTTTATATATATGCTGTCAAATTCTGATGTATA
586 CTATCAAATTTTGATGTATAAATGCAGTTCAATTTTATATATATGCTGTCAAATTCTGATGTATA
41956569 AATGCAGTCCAACTATATATGTATATGCTGTCAAATTTTGATGTATAAATGCAGTCCACTTATAT
651 AATGCAGTCCAACTATATATGTATATGCTGTCAAATTTTGATGTATAAATGCAGTCCACTTATAT
41956634 ATGTATATGCTATCAAATTTTGATGTATAAATGCAGTCCAATTTTGT
716 ATGTATATGCTATCAAATTTTGATGTATAAATGCAGTCCAATTTTGT
41956681 AGAAGATTATCACACTATCGACTCCTCTCAGTATTTTGTAAATTTTGAATTCGATCTTACGGCAT
1 AGAAGATTATCACACTATCGACTCCTCTCAGTATTTTGTAAATTTTGAATTCGATCTTACGGCAT
41956746 GTATAGCATAGCTGAAATACTTGAATTTAGATTATGTAATATTAAGCCATGCGAAAATGGCTTAA
66 GTATAGCATAGCTGAAATACTTGAATTTAGATTATGTAATATTAAGCCATGCGAAAATGGCTTAA
41956811 TTTTCTTGTTTGTGTTCGGTTTTGGGCTGAATTATGGTTTAAGCATACTTTAATCATGGATTAGT
131 TTTTCTTGTTTGTGTTCGGTTTTGGGCTGAATTATGGTTTAAGCATACTTTAATCATGGATTAGT
41956876 ATTTTATGGTTAGTATTTATATGGTAATGTATATATATATGTGCATGGTGATTTCATTCAAGTGT
196 ATTTTATGGTTAGTATTTATATGGTAATGTATATATATATGTGCATGGTGATTTCATTCAAGTGT
41956941 TTCAGTAATTTTGTGGTTGAAGTAAGTAAGTTTGTTATACTCATTAAGATAAGTAATGTTAAGTT
261 TTCAGTAATTTTGTGGTTGAAGTAAGTAAGTTTGTTATACTCATTAAGATAAGTAATGTTAAGTT
*
41957006 AAGTGTCTAGGTTATGTATTATATATGAAATATTTATGATTTGGTTGGATTTAGCAGTTAAGTGA
326 AAGTGTCTAGGTTATGTATTATATATGAAATATATATGATTTGGTTGGATTTAGCAGTTAAGTGA
*
41957071 ATATAGGAGATGATTTATAAATTGAAGTATGCTTGTAAATGTTGATGATTAATTACGTTTGGCTT
391 ATATAGGAGATGATTTATAAATTGAAGTATGCTTGTAAATGTTGATGATTAATTACGTTTGGCGT
41957136 ATTGATAGAGTAAACAAATGTATATATATTCAAATGTGTATTGATTAGGATTTATGGCTTAGTAT
456 ATTGATAGAGTAAACAAATGTATATATATTCAAATGTGTATTGATTAGGATTTATGGCTTAGTAT
41957201 ATATATAATGGATTAATTTATTTATATAAAAAATTGAATATGTGTTGTTCAATTTTGTACATATG
521 ATATATAATGGATTAATTTATTTATATAAAAAATTGAATATGTGTTGTTCAATTTTGTACATATG
41957266 CTATCAAATTTTGATGTATAAATGCAGTTCAATTTTATATATATGCTGTCAAATTCTGATGTATA
586 CTATCAAATTTTGATGTATAAATGCAGTTCAATTTTATATATATGCTGTCAAATTCTGATGTATA
41957331 AATGCAGTCCAACTATATATGTATATGCTGTCAAATTTTGATGTATAAATGCAGTCCACTTATAT
651 AATGCAGTCCAACTATATATGTATATGCTGTCAAATTTTGATGTATAAATGCAGTCCACTTATAT
41957396 ATGTATATGCTATCAAATTTTGATGTATAAATGCAGTCCAATTTTGT
716 ATGTATATGCTATCAAATTTTGATGTATAAATGCAGTCCAATTTTGT
41957443 A
1 A
41957444 TATATGCTGT
Statistics
Matches: 758, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
762 758 1.00
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (762 bp):
AGAAGATTATCACACTATCGACTCCTCTCAGTATTTTGTAAATTTTGAATTCGATCTTACGGCAT
GTATAGCATAGCTGAAATACTTGAATTTAGATTATGTAATATTAAGCCATGCGAAAATGGCTTAA
TTTTCTTGTTTGTGTTCGGTTTTGGGCTGAATTATGGTTTAAGCATACTTTAATCATGGATTAGT
ATTTTATGGTTAGTATTTATATGGTAATGTATATATATATGTGCATGGTGATTTCATTCAAGTGT
TTCAGTAATTTTGTGGTTGAAGTAAGTAAGTTTGTTATACTCATTAAGATAAGTAATGTTAAGTT
AAGTGTCTAGGTTATGTATTATATATGAAATATATATGATTTGGTTGGATTTAGCAGTTAAGTGA
ATATAGGAGATGATTTATAAATTGAAGTATGCTTGTAAATGTTGATGATTAATTACGTTTGGCGT
ATTGATAGAGTAAACAAATGTATATATATTCAAATGTGTATTGATTAGGATTTATGGCTTAGTAT
ATATATAATGGATTAATTTATTTATATAAAAAATTGAATATGTGTTGTTCAATTTTGTACATATG
CTATCAAATTTTGATGTATAAATGCAGTTCAATTTTATATATATGCTGTCAAATTCTGATGTATA
AATGCAGTCCAACTATATATGTATATGCTGTCAAATTTTGATGTATAAATGCAGTCCACTTATAT
ATGTATATGCTATCAAATTTTGATGTATAAATGCAGTCCAATTTTGT
Found at i:41957404 original size:139 final size:139
Alignment explanation
Indices: 41957261--41957523 Score: 490
Period size: 139 Copynumber: 1.9 Consensus size: 139
41957251 AATTTTGTAC
*
41957261 ATATGCTATCAAATTTTGATGTATAAATGCAGTTCAATTTTATATATATGCTGTCAAATTCTGAT
1 ATATGCTATCAAATTTTGATGTATAAATGCAGTCCAATTTTATATATATGCTGTCAAATTCTGAT
41957326 GTATAAATGCAGTCCAACTATATATGTATATGCTGTCAAATTTTGATGTATAAATGCAGTCCACT
66 GTATAAATGCAGTCCAACTATATATGTATATGCTGTCAAATTTTGATGTATAAATGCAGTCCACT
41957391 TATATATGT
131 TATATATGT
* *
41957400 ATATGCTATCAAATTTTGATGTATAAATGCAGTCCAATTTTGTATATATGCTGTCAAATTTTGAT
1 ATATGCTATCAAATTTTGATGTATAAATGCAGTCCAATTTTATATATATGCTGTCAAATTCTGAT
*
41957465 GTATAAATGCAGTCCAATTATATATGTATATGCTGTCAAATTTTGATGTATAAATGCAG
66 GTATAAATGCAGTCCAACTATATATGTATATGCTGTCAAATTTTGATGTATAAATGCAG
41957524 CCCAATTTTG
Statistics
Matches: 120, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
139 120 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40
Consensus pattern (139 bp):
ATATGCTATCAAATTTTGATGTATAAATGCAGTCCAATTTTATATATATGCTGTCAAATTCTGAT
GTATAAATGCAGTCCAACTATATATGTATATGCTGTCAAATTTTGATGTATAAATGCAGTCCACT
TATATATGT
Found at i:41957448 original size:92 final size:92
Alignment explanation
Indices: 41957250--41957553 Score: 459
Period size: 92 Copynumber: 3.3 Consensus size: 92
41957240 ATGTGTTGTT
* * * *
41957250 CAATTTTGTACATATGCTATCAAATTTTGATGTATAAATGCAGTTCAATT-T-TATATATATGCT
1 CAATTTTGTATATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCT
* *
41957313 GTCAAATTCTGATGTATAAATGCAGTC
66 ATCAAATTTTGATGTATAAATGCAGTC
* * * *
41957340 CAACTATATATGTATATGCTGTCAAATTTTGATGTATAAATGCAGTCCACTTATATATGTATATG
1 CAA-T-TTTGTATATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATG
41957405 CTATCAAATTTTGATGTATAAATGCAGTC
64 CTATCAAATTTTGATGTATAAATGCAGTC
41957434 CAATTTTGTATATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCT
1 CAATTTTGTATATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCT
* *
41957499 GTCAAATTTTGATGTATAAATGCAGCC
66 ATCAAATTTTGATGTATAAATGCAGTC
*
41957526 CAATTTTGTATATATGCTGTCCAATTTT
1 CAATTTTGTATATATGCTGTCAAATTTT
41957554 CGTGAAAAAA
Statistics
Matches: 193, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
90 3 0.02
91 1 0.01
92 148 0.77
93 2 0.01
94 39 0.20
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (92 bp):
CAATTTTGTATATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCT
ATCAAATTTTGATGTATAAATGCAGTC
Found at i:41957942 original size:47 final size:45
Alignment explanation
Indices: 41957829--41958121 Score: 415
Period size: 47 Copynumber: 6.4 Consensus size: 45
41957819 AATTTTGTAC
* * *
41957829 ATATGCTATCAAATTTTGATGTATAAATGCAGTTCAATTTTATAT
1 ATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATAT
* *
41957874 ATATGCTGTCAAATTCTGATGTATAAATGCAGTCCAACTATATATGT
1 ATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAA-T-TATATAT
*
41957921 ATATGCTGTCAAATTTTGATGTATAAATGCAGTCCACTTATATATGT
1 ATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATA--T
* * *
41957968 ATATGCTATCAAATTTTGATGTATAAATGCAGTCCAATTTTGTAT
1 ATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATAT
41958013 ATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATGT
1 ATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATA--T
* * *
41958060 ATATGCTGTCAAATTTTGATGTATAAATGCAGCCCAATTTTGTAT
1 ATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATAT
*
41958105 ATATGCTGTCCAATTTT
1 ATATGCTGTCAAATTTT
41958122 CGTGAAAAAA
Statistics
Matches: 223, Mismatches: 19, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
45 98 0.44
46 2 0.01
47 123 0.55
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (45 bp):
ATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATAT
Found at i:41957972 original size:139 final size:139
Alignment explanation
Indices: 41957829--41958091 Score: 490
Period size: 139 Copynumber: 1.9 Consensus size: 139
41957819 AATTTTGTAC
*
41957829 ATATGCTATCAAATTTTGATGTATAAATGCAGTTCAATTTTATATATATGCTGTCAAATTCTGAT
1 ATATGCTATCAAATTTTGATGTATAAATGCAGTCCAATTTTATATATATGCTGTCAAATTCTGAT
41957894 GTATAAATGCAGTCCAACTATATATGTATATGCTGTCAAATTTTGATGTATAAATGCAGTCCACT
66 GTATAAATGCAGTCCAACTATATATGTATATGCTGTCAAATTTTGATGTATAAATGCAGTCCACT
41957959 TATATATGT
131 TATATATGT
* *
41957968 ATATGCTATCAAATTTTGATGTATAAATGCAGTCCAATTTTGTATATATGCTGTCAAATTTTGAT
1 ATATGCTATCAAATTTTGATGTATAAATGCAGTCCAATTTTATATATATGCTGTCAAATTCTGAT
*
41958033 GTATAAATGCAGTCCAATTATATATGTATATGCTGTCAAATTTTGATGTATAAATGCAG
66 GTATAAATGCAGTCCAACTATATATGTATATGCTGTCAAATTTTGATGTATAAATGCAG
41958092 CCCAATTTTG
Statistics
Matches: 120, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
139 120 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40
Consensus pattern (139 bp):
ATATGCTATCAAATTTTGATGTATAAATGCAGTCCAATTTTATATATATGCTGTCAAATTCTGAT
GTATAAATGCAGTCCAACTATATATGTATATGCTGTCAAATTTTGATGTATAAATGCAGTCCACT
TATATATGT
Found at i:41958016 original size:92 final size:92
Alignment explanation
Indices: 41957818--41958121 Score: 468
Period size: 92 Copynumber: 3.3 Consensus size: 92
41957808 ATGTGTTGTT
* * * *
41957818 CAATTTTGTACATATGCTATCAAATTTTGATGTATAAATGCAGTTCAATT-T-TATATATATGCT
1 CAATTTTGTATATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCT
*
41957881 GTCAAATTCTGATGTATAAATGCAGTC
66 GTCAAATTTTGATGTATAAATGCAGTC
* * * *
41957908 CAACTATATATGTATATGCTGTCAAATTTTGATGTATAAATGCAGTCCACTTATATATGTATATG
1 CAA-T-TTTGTATATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATG
*
41957973 CTATCAAATTTTGATGTATAAATGCAGTC
64 CTGTCAAATTTTGATGTATAAATGCAGTC
41958002 CAATTTTGTATATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCT
1 CAATTTTGTATATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCT
*
41958067 GTCAAATTTTGATGTATAAATGCAGCC
66 GTCAAATTTTGATGTATAAATGCAGTC
*
41958094 CAATTTTGTATATATGCTGTCCAATTTT
1 CAATTTTGTATATATGCTGTCAAATTTT
41958122 CGTGAAAAAA
Statistics
Matches: 193, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
90 3 0.02
91 1 0.01
92 148 0.77
93 2 0.01
94 39 0.20
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (92 bp):
CAATTTTGTATATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCT
GTCAAATTTTGATGTATAAATGCAGTC
Found at i:41958136 original size:139 final size:139
Alignment explanation
Indices: 41957261--41957592 Score: 454
Period size: 139 Copynumber: 2.4 Consensus size: 139
41957251 AATTTTGTAC
* * * *
41957261 ATATGCTATCAAATTTTGATGTATAAATGCAGTTCAATTTTATATATATGCTGTCAAATTCTGAT
1 ATATGCTATCAAATTTTGATGAAAAAATGCAGTCCAATTTTGTATATATGCTGTCAAATTCTGAT
* *
41957326 GTATAAATGCAGTCCAACTATATATGTATATGCTGTCAAATTTTGATGTATAAATGCAGTCCACT
66 GTATAAATGCAGTCCAACTATATATGTATATGCTGTCAAATTTTGATGTATAAATGCAGCCCAAT
*
41957391 TATATATGT
131 TATATATAT
* * *
41957400 ATATGCTATCAAATTTTGATGTATAAATGCAGTCCAATTTTGTATATATGCTGTCAAATTTTGAT
1 ATATGCTATCAAATTTTGATGAAAAAATGCAGTCCAATTTTGTATATATGCTGTCAAATTCTGAT
*
41957465 GTATAAATGCAGTCCAATTATATATGTATATGCTGTCAAATTTTGATGTATAAATGCAGCCCAAT
66 GTATAAATGCAGTCCAACTATATATGTATATGCTGTCAAATTTTGATGTATAAATGCAGCCCAAT
*
41957530 T-T-TGTAT
131 TATATATAT
* * * *
41957537 ATATGCTGTCCAATTTTCG-TGAAAAAAAATGCTGCTCAAATTGTTGTATATATGCT
1 ATATGCTATCAAATTTT-GATG--AAAAAATGCAG-TCCAATT-TTGTATATATGCT
41957593 ACCCAAATTA
Statistics
Matches: 174, Mismatches: 14, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
137 20 0.11
138 2 0.01
139 133 0.76
140 6 0.03
141 13 0.07
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.40
Consensus pattern (139 bp):
ATATGCTATCAAATTTTGATGAAAAAATGCAGTCCAATTTTGTATATATGCTGTCAAATTCTGAT
GTATAAATGCAGTCCAACTATATATGTATATGCTGTCAAATTTTGATGTATAAATGCAGCCCAAT
TATATATAT
Found at i:41958162 original size:568 final size:568
Alignment explanation
Indices: 41957096--41958231 Score: 2272
Period size: 568 Copynumber: 2.0 Consensus size: 568
41957086 TATAAATTGA
41957096 AGTATGCTTGTAAATGTTGATGATTAATTACGTTTGGCTTATTGATAGAGTAAACAAATGTATAT
1 AGTATGCTTGTAAATGTTGATGATTAATTACGTTTGGCTTATTGATAGAGTAAACAAATGTATAT
41957161 ATATTCAAATGTGTATTGATTAGGATTTATGGCTTAGTATATATATAATGGATTAATTTATTTAT
66 ATATTCAAATGTGTATTGATTAGGATTTATGGCTTAGTATATATATAATGGATTAATTTATTTAT
41957226 ATAAAAAATTGAATATGTGTTGTTCAATTTTGTACATATGCTATCAAATTTTGATGTATAAATGC
131 ATAAAAAATTGAATATGTGTTGTTCAATTTTGTACATATGCTATCAAATTTTGATGTATAAATGC
41957291 AGTTCAATTTTATATATATGCTGTCAAATTCTGATGTATAAATGCAGTCCAACTATATATGTATA
196 AGTTCAATTTTATATATATGCTGTCAAATTCTGATGTATAAATGCAGTCCAACTATATATGTATA
41957356 TGCTGTCAAATTTTGATGTATAAATGCAGTCCACTTATATATGTATATGCTATCAAATTTTGATG
261 TGCTGTCAAATTTTGATGTATAAATGCAGTCCACTTATATATGTATATGCTATCAAATTTTGATG
41957421 TATAAATGCAGTCCAATTTTGTATATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTAT
326 TATAAATGCAGTCCAATTTTGTATATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTAT
41957486 ATATGTATATGCTGTCAAATTTTGATGTATAAATGCAGCCCAATTTTGTATATATGCTGTCCAAT
391 ATATGTATATGCTGTCAAATTTTGATGTATAAATGCAGCCCAATTTTGTATATATGCTGTCCAAT
41957551 TTTCGTGAAAAAAAATGCTGCTCAAATTGTTGTATATATGCTACCCAAATTACTATATATATGCT
456 TTTCGTGAAAAAAAATGCTGCTCAAATTGTTGTATATATGCTACCCAAATTACTATATATATGCT
41957616 ATCCAAATTTTAGTGTGAAAATGCTGTCTAGTTTGGTATATAAATGTT
521 ATCCAAATTTTAGTGTGAAAATGCTGTCTAGTTTGGTATATAAATGTT
41957664 AGTATGCTTGTAAATGTTGATGATTAATTACGTTTGGCTTATTGATAGAGTAAACAAATGTATAT
1 AGTATGCTTGTAAATGTTGATGATTAATTACGTTTGGCTTATTGATAGAGTAAACAAATGTATAT
41957729 ATATTCAAATGTGTATTGATTAGGATTTATGGCTTAGTATATATATAATGGATTAATTTATTTAT
66 ATATTCAAATGTGTATTGATTAGGATTTATGGCTTAGTATATATATAATGGATTAATTTATTTAT
41957794 ATAAAAAATTGAATATGTGTTGTTCAATTTTGTACATATGCTATCAAATTTTGATGTATAAATGC
131 ATAAAAAATTGAATATGTGTTGTTCAATTTTGTACATATGCTATCAAATTTTGATGTATAAATGC
41957859 AGTTCAATTTTATATATATGCTGTCAAATTCTGATGTATAAATGCAGTCCAACTATATATGTATA
196 AGTTCAATTTTATATATATGCTGTCAAATTCTGATGTATAAATGCAGTCCAACTATATATGTATA
41957924 TGCTGTCAAATTTTGATGTATAAATGCAGTCCACTTATATATGTATATGCTATCAAATTTTGATG
261 TGCTGTCAAATTTTGATGTATAAATGCAGTCCACTTATATATGTATATGCTATCAAATTTTGATG
41957989 TATAAATGCAGTCCAATTTTGTATATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTAT
326 TATAAATGCAGTCCAATTTTGTATATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTAT
41958054 ATATGTATATGCTGTCAAATTTTGATGTATAAATGCAGCCCAATTTTGTATATATGCTGTCCAAT
391 ATATGTATATGCTGTCAAATTTTGATGTATAAATGCAGCCCAATTTTGTATATATGCTGTCCAAT
41958119 TTTCGTGAAAAAAAATGCTGCTCAAATTGTTGTATATATGCTACCCAAATTACTATATATATGCT
456 TTTCGTGAAAAAAAATGCTGCTCAAATTGTTGTATATATGCTACCCAAATTACTATATATATGCT
41958184 ATCCAAATTTTAGTGTGAAAATGCTGTCTAGTTTGGTATATAAATGTT
521 ATCCAAATTTTAGTGTGAAAATGCTGTCTAGTTTGGTATATAAATGTT
41958232 GTCCAAATTG
Statistics
Matches: 568, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
568 568 1.00
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.41
Consensus pattern (568 bp):
AGTATGCTTGTAAATGTTGATGATTAATTACGTTTGGCTTATTGATAGAGTAAACAAATGTATAT
ATATTCAAATGTGTATTGATTAGGATTTATGGCTTAGTATATATATAATGGATTAATTTATTTAT
ATAAAAAATTGAATATGTGTTGTTCAATTTTGTACATATGCTATCAAATTTTGATGTATAAATGC
AGTTCAATTTTATATATATGCTGTCAAATTCTGATGTATAAATGCAGTCCAACTATATATGTATA
TGCTGTCAAATTTTGATGTATAAATGCAGTCCACTTATATATGTATATGCTATCAAATTTTGATG
TATAAATGCAGTCCAATTTTGTATATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTAT
ATATGTATATGCTGTCAAATTTTGATGTATAAATGCAGCCCAATTTTGTATATATGCTGTCCAAT
TTTCGTGAAAAAAAATGCTGCTCAAATTGTTGTATATATGCTACCCAAATTACTATATATATGCT
ATCCAAATTTTAGTGTGAAAATGCTGTCTAGTTTGGTATATAAATGTT
Found at i:41960273 original size:20 final size:20
Alignment explanation
Indices: 41960236--41960273 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
41960226 TATTGAGAAA
*
41960236 TTTATTTTCTAAGTATAAAT
1 TTTATTTTCTAAGAATAAAT
*
41960256 TTTATTTTCTAGGAATAA
1 TTTATTTTCTAAGAATAA
41960274 CACTACTATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.05, G:0.08, T:0.53
Consensus pattern (20 bp):
TTTATTTTCTAAGAATAAAT
Found at i:41977367 original size:155 final size:152
Alignment explanation
Indices: 41977012--41977657 Score: 903
Period size: 155 Copynumber: 4.3 Consensus size: 152
41977002 AACATGTTCG
* *
41977012 TATTTCAGCCCTTTGATCG--TTTTTTT--CGGATTTTATTACTTT-AAAAA-ATATTATTTTCT
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCGGATTTTATTACTTTAAAAAATATATTATTTTCT
*
41977071 AATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTT
66 AATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTT
**
41977136 AAATAAATTTAAAAAAAAAACT
131 AAATAAATTTAAAAAAAACCCT
*
41977158 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCAGATTTTATTACTTTCAATAAAAATATATTATTT
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCGGATTTTATTACTTT--A-AAAAATATATTATTT
* *
41977223 TCGT-ATTTTATTATTTTACATTATTTTAGTACATTATTTTTGAAATGTATTAATTTACTGTGTT
63 TC-TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTT
*
41977287 TTTTAAATAAATTTAAATAAAAACTCT
127 TTTTAAATAAATTTAAA-AAAAACCCT
* * * * *
41977314 TATTTTGACCCTTTGTTCCTATTGTTTTCCCTGGATTTTGTTACTTTTAAAAAATATATTATTTT
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCC-GGATTTTATTAC-TTTAAAAAATATATTATTTT
* *
41977379 C------TA--ATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTATTGTATTTT
64 CTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTT
41977436 TTAAATAAATTTAAAAAAAACCCT
129 TTAAATAAATTTAAAAAAAACCCT
*
41977460 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCAGGATTTTATTACTTTAAAAAATATACTATTTTC
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCC-GGATTTTATTACTTTAAAAAATATATTATTTTC
* *
41977525 TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTTATTCATTTAGTGTGTTTTT
65 TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTT
41977590 TAAATAAATTTTAAAAAAAACCCT
130 TAAATAAA-TTTAAAAAAAACCCT
* *
41977614 TATTTCGGCCATTTGTTCGT-TTTTTTT-CCGAATTTTATTACTTT
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCGGATTTTATTACTTT
41977658 CAGTAAAAAA
Statistics
Matches: 447, Mismatches: 31, Indels: 39
0.86 0.06 0.08
Matches are distributed among these distances:
145 20 0.04
146 63 0.14
147 66 0.15
148 7 0.02
149 2 0.00
150 15 0.03
151 16 0.04
152 2 0.00
153 66 0.15
154 39 0.09
155 102 0.23
156 36 0.08
157 10 0.02
158 3 0.01
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.52
Consensus pattern (152 bp):
TATTTCGGCCCTTTGTTCGTATTTTTTTCCCGGATTTTATTACTTTAAAAAATATATTATTTTCT
AATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTT
AAATAAATTTAAAAAAAACCCT
Found at i:41977631 original size:300 final size:301
Alignment explanation
Indices: 41977080--41977631 Score: 914
Period size: 300 Copynumber: 1.8 Consensus size: 301
41977070 TAATTTTATT
* *
41977080 ATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAAATT
1 ATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTATTTTTTAAATAAATT
41977145 TAAAAAAAAAACTTATTTCGGCCCTTTGTTCGTATTTTTTTCCCAGATTTTATTACTTTCAATAA
66 TAAAAAAAAAACTTATTTCGGCCCTTTGTTCGTATTTTTTTCCCAGATTTTATTACTTT-AATAA
* *
41977210 AAATATATTATTTTCGTATTTTATTATTTTACATTATTTTAGTACATTATTTTTGAAATGTATTA
130 AAATATACTATTTTCGTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTA
* * *
41977275 ATTTACTGTGTTTTTTAAATAAATTTAAATAAAAACTCTTATTTTGACCCTTTGTTCCTATTGTT
195 ATTTACTGTGTTTTTTAAATAAATTTAAATAAAAACCCTTATTTCGACCATTTGTTCCTATTGTT
41977340 TTCCCTGGATTTTGTTACTTTTAAAAAATATATTATTTTCTA
260 TTCCCTGGATTTTGTTACTTTTAAAAAATATATTATTTTCTA
*
41977382 ATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTATTGTATTTTTTAAATAAATT
1 ATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTATTTTTTAAATAAATT
**
41977447 TAAAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTCCCAGGATTTTATTACTTT-A-AA
66 TAAAAAAAAAACTTATTTCGGCCCTTTGTTCGTATTTTTTTCCCA-GATTTTATTACTTTAATAA
*
41977510 AAATATACTATTTTC-TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTTATT
130 AAATATACTATTTTCGT-ATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATT
* * *
41977574 CATTTAGTGTGTTTTTTAAATAAATTTTAAA-AAAAACCCTTATTTCGGCCATTTGTTC
194 AATTTACTGTGTTTTTTAAATAAA-TTTAAATAAAAACCCTTATTTCGACCATTTGTTC
41977632 GTTTTTTTTC
Statistics
Matches: 233, Mismatches: 14, Indels: 8
0.91 0.05 0.03
Matches are distributed among these distances:
299 1 0.00
300 106 0.45
301 7 0.03
302 105 0.45
303 14 0.06
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.51
Consensus pattern (301 bp):
ATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTATTTTTTAAATAAATT
TAAAAAAAAAACTTATTTCGGCCCTTTGTTCGTATTTTTTTCCCAGATTTTATTACTTTAATAAA
AATATACTATTTTCGTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAA
TTTACTGTGTTTTTTAAATAAATTTAAATAAAAACCCTTATTTCGACCATTTGTTCCTATTGTTT
TCCCTGGATTTTGTTACTTTTAAAAAATATATTATTTTCTA
Found at i:41979961 original size:11 final size:11
Alignment explanation
Indices: 41979945--41979982 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
41979935 AATTTCCTCT
41979945 TTTCTTCTTCA
1 TTTCTTCTTCA
*
41979956 TTTCTTCCTCA
1 TTTCTTCTTCA
*
41979967 TTT-TTATTCA
1 TTTCTTCTTCA
41979977 TTTCTT
1 TTTCTT
41979983 GCTGACTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
10 8 0.35
11 15 0.65
ACGTcount: A:0.11, C:0.24, G:0.00, T:0.66
Consensus pattern (11 bp):
TTTCTTCTTCA
Found at i:41979978 original size:21 final size:22
Alignment explanation
Indices: 41979938--41979982 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
41979928 TCATTGAAAT
* *
41979938 TTCCTCTTTTCTTCTTCATTTC
1 TTCCTCATTTCTTATTCATTTC
41979960 TTCCTCATTT-TTATTCATTTC
1 TTCCTCATTTCTTATTCATTTC
41979981 TT
1 TT
41979983 GCTGACTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.09, C:0.27, G:0.00, T:0.64
Consensus pattern (22 bp):
TTCCTCATTTCTTATTCATTTC
Found at i:41986675 original size:21 final size:21
Alignment explanation
Indices: 41986651--41986705 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
41986641 TTTGAGTTTG
41986651 AGGTTTAAGAGTCAAGATTCA
1 AGGTTTAAGAGTCAAGATTCA
* *
41986672 AGGTTTAAG-GTTCAGGGTTCA
1 AGGTTTAAGAG-TCAAGATTCA
*
41986693 AAGTTTAA-AGTCA
1 AGGTTTAAGAGTCA
41986706 GGGTTCGACG
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 4 0.14
21 25 0.86
ACGTcount: A:0.35, C:0.09, G:0.25, T:0.31
Consensus pattern (21 bp):
AGGTTTAAGAGTCAAGATTCA
Found at i:41989481 original size:20 final size:20
Alignment explanation
Indices: 41989444--41989481 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
41989434 TTACCTACAA
*
41989444 ATATTTAAAATTTATATTTC
1 ATATTTAAAATGTATATTTC
41989464 ATATATTAAAATGT-TATT
1 ATAT-TTAAAATGTATATT
41989482 AATGAGTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (20 bp):
ATATTTAAAATGTATATTTC
Found at i:41996952 original size:5 final size:5
Alignment explanation
Indices: 41996932--41996970 Score: 51
Period size: 5 Copynumber: 7.4 Consensus size: 5
41996922 GAAAAGATAA
*
41996932 AAATT AAAAAT AAATT AAATT AAATT AAATT AAAATT AA
1 AAATT -AAATT AAATT AAATT AAATT AAATT -AAATT AA
41996971 CAAAAATCCT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
5 21 0.70
6 9 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (5 bp):
AAATT
Found at i:42006307 original size:21 final size:20
Alignment explanation
Indices: 42006282--42006331 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 20
42006272 ACTAATCGTC
42006282 ATTTAATTAGCACAAATATA-T
1 ATTTAATTA-CA-AAATATATT
42006303 ATTTAAAATTACAAAATATATT
1 ATTT--AATTACAAAATATATT
42006325 ATTTAAT
1 ATTTAAT
42006332 AAATTAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
20 3 0.12
21 11 0.42
22 7 0.27
23 5 0.19
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (20 bp):
ATTTAATTACAAAATATATT
Found at i:42006323 original size:23 final size:24
Alignment explanation
Indices: 42006297--42006347 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
42006287 ATTAGCACAA
42006297 ATATATATTT-A-AAATTACAAAAT
1 ATATATATTTAATAAATTA-AAAAT
42006320 ATAT-TATTTAATAAATTAAAAAT
1 ATATATATTTAATAAATTAAAAAT
*
42006343 GTATA
1 ATATA
42006348 AAATCACGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
22 5 0.21
23 13 0.54
24 6 0.25
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (24 bp):
ATATATATTTAATAAATTAAAAAT
Found at i:42006330 original size:22 final size:23
Alignment explanation
Indices: 42006286--42006330 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
42006276 ATCGTCATTT
42006286 AATTAGCACAAATATATATTTAA
1 AATTAGCACAAATATATATTTAA
42006309 AATTA-CA-AAATATATTATTTAA
1 AATTAGCACAAATATA-TATTTAA
42006331 TAAATTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 7 0.33
22 9 0.43
23 5 0.24
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.38
Consensus pattern (23 bp):
AATTAGCACAAATATATATTTAA
Found at i:42012277 original size:124 final size:124
Alignment explanation
Indices: 42012054--42012295 Score: 333
Period size: 124 Copynumber: 2.0 Consensus size: 124
42012044 CTTTCTGCAG
* * * *
42012054 AACCAACTTTCTTGAGGTACGATTTATAGTGTGTATGCTCTTTTCTTGCGGATAAATTTCAATCT
1 AACCAACTGTCTTGAGGTACGATTTACAGTGTGTATGCTCTTTTCTTGCAGAGAAATTTCAATCT
* *
42012119 GGAAAATCAATAGCATTGTAAACACCGACCATTCTTTGGACCCCTAATATTTCAAGCAA
66 GGAAAATCAATAGCATTCTAAACACCGACCATTCTTTAGACCCCTAATATTTCAAGCAA
* ** *
42012178 AACCAACTGTCTTGAGGTATGATTTACAGTGTGTATGCTCTTTTCTTGCAGAGAAATTTTGATTT
1 AACCAACTGTCTTGAGGTACGATTTACAGTGTGTATGCTCTTTTCTTGCAGAGAAATTTCAATCT
* * * * *
42012243 GGAAAATCGGA-AGTATTCTAAACATCGACTATTCTTTAGACCCCTACTATTTC
66 GGAAAATC-AATAGCATTCTAAACACCGACCATTCTTTAGACCCCTAATATTTC
42012296 TGGTATTAGA
Statistics
Matches: 102, Mismatches: 15, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
124 101 0.99
125 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (124 bp):
AACCAACTGTCTTGAGGTACGATTTACAGTGTGTATGCTCTTTTCTTGCAGAGAAATTTCAATCT
GGAAAATCAATAGCATTCTAAACACCGACCATTCTTTAGACCCCTAATATTTCAAGCAA
Found at i:42017693 original size:52 final size:48
Alignment explanation
Indices: 42017674--42017876 Score: 265
Period size: 46 Copynumber: 4.3 Consensus size: 48
42017664 TGACAAGTGG
* *
42017674 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
42017720 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
42017772 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
42017818 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
42017864 AAAGTGATAAGTG
1 AAAGTGATAAGTG
42017877 GCTACACTTA
Statistics
Matches: 144, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 100 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:42017728 original size:98 final size:98
Alignment explanation
Indices: 42017608--42017876 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
42017598 TTTGAGTACT
*
42017608 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
42017673 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
42017706 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
42017771 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
42017804 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
42017869 GATAAGTG
65 GAAAAGTG
42017877 GCTACACTTA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 149 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:42017884 original size:37 final size:37
Alignment explanation
Indices: 42017840--42017985 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
42017830 GATAGCTTTA
*
42017840 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
42017877 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
42017914 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
42017951 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
42017986 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:42018985 original size:125 final size:125
Alignment explanation
Indices: 42018743--42019059 Score: 440
Period size: 125 Copynumber: 2.5 Consensus size: 125
42018733 CCCAGACATG
* *
42018743 CTATAGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTGATAAAGCATCCTGC
1 CTATTGTAGCAAAAGCGCGTCCACGTGGGCACGATTTCACAAATTCTTCTGATAAAGCATCCTGC
* * *
42018808 TTGAAGCGTTTTTATACTATTTCCTCAGAAAGGTCAACTCAAAATTATTTTTTCCAAGAC
66 TTGAAGCGTTTTTATACTATTTACTCAGAAACGTCAACTCAAAATTAATTTTTCCAAGAC
* * *
42018868 CTATTGTAGCAAAAGCGCGTCCACGAGGGCACGATTTCACAAATTCTTCTCATAAAGCATTCTGC
1 CTATTGTAGCAAAAGCGCGTCCACGTGGGCACGATTTCACAAATTCTTCTGATAAAGCATCCTGC
* * *
42018933 TT-AGAGCGTTTTTTATACTATTTACTCAGAAACGTCAACTCGAAA-TAATTTTTGCAGGAC
66 TTGA-AGCG-TTTTTATACTATTTACTCAGAAACGTCAACTCAAAATTAATTTTTCCAAGAC
* * * * * * *
42018993 CTACTGTAGCAAAAGCGCGTACATGTGGGCATGACTTCAGAAATTCTTCTGATAAAGCATCTTGC
1 CTATTGTAGCAAAAGCGCGTCCACGTGGGCACGATTTCACAAATTCTTCTGATAAAGCATCCTGC
42019058 TT
66 TT
42019060 TGATTTTATC
Statistics
Matches: 169, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
124 1 0.01
125 135 0.80
126 33 0.20
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.31
Consensus pattern (125 bp):
CTATTGTAGCAAAAGCGCGTCCACGTGGGCACGATTTCACAAATTCTTCTGATAAAGCATCCTGC
TTGAAGCGTTTTTATACTATTTACTCAGAAACGTCAACTCAAAATTAATTTTTCCAAGAC
Found at i:42020710 original size:40 final size:39
Alignment explanation
Indices: 42020638--42020755 Score: 114
Period size: 40 Copynumber: 2.9 Consensus size: 39
42020628 ACTGTTCATG
* *
42020638 CCACGTCAGCAAATCGCGTCTTA-GAGGGCGCGATTTCCTT
1 CCACGTCAGCAAATCGCG-CTTACGTGGACGCGATTTCC-T
*
42020678 CCACGTCAGCAAATCGCGCTTACGTGGACGCGATGTCCT
1 CCACGTCAGCAAATCGCGCTTACGTGGACGCGATTTCCT
* * * *
42020717 GCACGT-ACCCTGACATCGCGCTGACGTGGACGCGATTTC
1 CCACGTCA-GC--AAATCGCGCTTACGTGGACGCGATTTC
42020756 GCGGAAAATG
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
38 1 0.02
39 11 0.17
40 30 0.45
41 24 0.36
ACGTcount: A:0.19, C:0.32, G:0.26, T:0.22
Consensus pattern (39 bp):
CCACGTCAGCAAATCGCGCTTACGTGGACGCGATTTCCT
Found at i:42026662 original size:124 final size:124
Alignment explanation
Indices: 42026439--42026664 Score: 301
Period size: 124 Copynumber: 1.8 Consensus size: 124
42026429 TATCAGGTAG
* * * *
42026439 AACCAACTTTCTTGAGGTACGATTTATAGTGTGTATGCTCTTTTCTTGCGGATAAATTTCGACCT
1 AACCAACTGTCTTGAGGTACGATTTACAGTGTGTATGCTCTTTTCTTGCAGAGAAATTTCGACCT
* ***
42026504 GGAAAATCAAAAGCATTGTAAACACCGGCCATTCTTTGGACCCCCAATATTTCAAGCAA
66 GGAAAATCAAAAGCATTCTAAACACAAACCATTCTTTGGACCCCCAATATTTCAAGCAA
* * * *
42026563 AACCAACTGTCTTGAGGTATGATTTACAGTGTGTATGCTCTTTTCTTGTAGAGAAATTTTGATCT
1 AACCAACTGTCTTGAGGTACGATTTACAGTGTGTATGCTCTTTTCTTGCAGAGAAATTTCGACCT
* * *
42026628 GGAAAATTC-AAAGTATTCTAAACATAAACTATTCTTT
66 GGAAAA-TCAAAAGCATTCTAAACACAAACCATTCTTT
42026665 AGAACCCAAT
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
124 84 0.98
125 2 0.02
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (124 bp):
AACCAACTGTCTTGAGGTACGATTTACAGTGTGTATGCTCTTTTCTTGCAGAGAAATTTCGACCT
GGAAAATCAAAAGCATTCTAAACACAAACCATTCTTTGGACCCCCAATATTTCAAGCAA
Found at i:42035641 original size:26 final size:25
Alignment explanation
Indices: 42035610--42035659 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
42035600 ATTGAGTTTC
42035610 AAAATAAGGATACATGATAAATTTAA
1 AAAATAA-GATACATGATAAATTTAA
**
42035636 AAAATAAGATATGTGATAAATTTA
1 AAAATAAGATACATGATAAATTTA
42035660 TACTATTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.56, C:0.02, G:0.12, T:0.30
Consensus pattern (25 bp):
AAAATAAGATACATGATAAATTTAA
Found at i:42039513 original size:21 final size:21
Alignment explanation
Indices: 42039487--42039532 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
42039477 GCATGTAAAA
42039487 AAACCAGACCAATACTAAGCT
1 AAACCAGACCAATACTAAGCT
*
42039508 AAACCAGATCAATACTAAGCT
1 AAACCAGACCAATACTAAGCT
42039529 AAAC
1 AAAC
42039533 ATATATATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.50, C:0.26, G:0.09, T:0.15
Consensus pattern (21 bp):
AAACCAGACCAATACTAAGCT
Found at i:42044673 original size:15 final size:15
Alignment explanation
Indices: 42044644--42044689 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
42044634 ACTAGTTAAT
*
42044644 CTAAAT-CTTAAACC
1 CTAAATCCTAAAACC
42044658 CTAAATCCTAAAACC
1 CTAAATCCTAAAACC
* *
42044673 CTAAAACCCAAAACC
1 CTAAATCCTAAAACC
42044688 CT
1 CT
42044690 TAACACATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
14 6 0.21
15 22 0.79
ACGTcount: A:0.46, C:0.35, G:0.00, T:0.20
Consensus pattern (15 bp):
CTAAATCCTAAAACC
Found at i:42044677 original size:8 final size:8
Alignment explanation
Indices: 42044653--42044689 Score: 51
Period size: 7 Copynumber: 4.9 Consensus size: 8
42044643 TCTAAATCTT
42044653 AAACCCT-
1 AAACCCTA
*
42044660 AAATCCTA
1 AAACCCTA
42044668 AAACCCTA
1 AAACCCTA
42044676 AAACCC-A
1 AAACCCTA
42044683 AAACCCT
1 AAACCCT
42044690 TAACACATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
7 13 0.50
8 13 0.50
ACGTcount: A:0.49, C:0.38, G:0.00, T:0.14
Consensus pattern (8 bp):
AAACCCTA
Found at i:42044778 original size:22 final size:21
Alignment explanation
Indices: 42044725--42044824 Score: 67
Period size: 22 Copynumber: 4.7 Consensus size: 21
42044715 CCCTAGCCTT
*
42044725 TAAACCGTAAACCATAAATCA
1 TAAACCCTAAACCATAAATCA
* *
42044746 TAACCCCTAAACCCATAATTCA
1 TAAACCCTAAA-CCATAAATCA
* ** * *
42044768 TAAACCTTAAAATAGTAACTCC
1 TAAACCCTAAACCA-TAAATCA
* *
42044790 TAAACCTTAAACTC-TAAACCA
1 TAAACCCTAAAC-CATAAATCA
*
42044811 TATACCCTAAACCA
1 TAAACCCTAAACCA
42044825 AAAACCTTAA
Statistics
Matches: 59, Mismatches: 16, Indels: 8
0.71 0.19 0.10
Matches are distributed among these distances:
20 1 0.02
21 24 0.41
22 34 0.58
ACGTcount: A:0.46, C:0.29, G:0.02, T:0.23
Consensus pattern (21 bp):
TAAACCCTAAACCATAAATCA
Found at i:42045219 original size:41 final size:41
Alignment explanation
Indices: 42045129--42045441 Score: 253
Period size: 41 Copynumber: 7.7 Consensus size: 41
42045119 TGAATTTTTT
* *
42045129 GCGGCGCTTTTTCAAAAACGCCGCTAAA---ATAGAGCATTA
1 GCGGCCCTTTTTCAAAAACGCCGCTAAAGCCCTA-AGCATTA
* * *
42045168 GCGGCACTTCTTCAAAAACGCCGCTAAAGCCTTAAGCATTA
1 GCGGCCCTTTTTCAAAAACGCCGCTAAAGCCCTAAGCATTA
* * **
42045209 GCGGCCCTTCTTT-AAAAACTCCGCGAAAGCCCCGAGCATTA
1 GCGGCCCTT-TTTCAAAAACGCCGCTAAAGCCCTAAGCATTA
* * * *
42045250 GCGGCGCATTTTCAGAAACGCCGCTAAAGCCCTGAGCATTA
1 GCGGCCCTTTTTCAAAAACGCCGCTAAAGCCCTAAGCATTA
* * * * **
42045291 GTGACACTTTTTTAAAAACGCCGCTAAA--AATAGAGCATTA
1 GCGGCCCTTTTTCAAAAACGCCGCTAAAGCCCTA-AGCATTA
* *
42045331 GCGGCGCTTCTTT-AAAAACGCCGCTAAAGCCCCAAGCATTA
1 GCGGCCCTT-TTTCAAAAACGCCGCTAAAGCCCTAAGCATTA
* * * * * *
42045372 GCGGCGCTTTTTTAAAAAACCGCTGCTAAATCCCCATGCATTA
1 GCGGC-CCTTTTTCAAAAA-CGCCGCTAAAGCCCTAAGCATTA
* * *
42045415 GCGGCGCTTTTTAAAAAACGCCACTAA
1 GCGGCCCTTTTTCAAAAACGCCGCTAA
42045442 TGTCCCGAAA
Statistics
Matches: 222, Mismatches: 40, Indels: 22
0.78 0.14 0.08
Matches are distributed among these distances:
39 27 0.12
40 31 0.14
41 116 0.52
42 23 0.10
43 25 0.11
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (41 bp):
GCGGCCCTTTTTCAAAAACGCCGCTAAAGCCCTAAGCATTA
Found at i:42045252 original size:82 final size:80
Alignment explanation
Indices: 42045129--42045441 Score: 299
Period size: 82 Copynumber: 3.8 Consensus size: 80
42045119 TGAATTTTTT
* * *** *
42045129 GCGGCGCTTTTTCAAAAACGCCGCTAAA-ATAGAGCATTAGCGGCACTTCTTCAAAAACGCCGCT
1 GCGGCACTTTTTTAAAAAC-CCGCTAAACCCCGAGCATTAGCGGCGCTTCTTCAAAAACGCCGCT
*
42045193 AAAGCCTTAAGCATTA
65 AAAGCCCTAAGCATTA
* * * *
42045209 GCGGCCCTTCTTTAAAAACTCCGCGAAAGCCCCGAGCATTAGCGGCGCATT-TTCAGAAACGCCG
1 GCGGCACTTTTTTAAAAAC-CCGCTAAA-CCCCGAGCATTAGCGGCGC-TTCTTCAAAAACGCCG
*
42045273 CTAAAGCCCTGAGCATTA
63 CTAAAGCCCTAAGCATTA
* * **** *
42045291 GTGACACTTTTTTAAAAACGCCGCTAAAAATAGAGCATTAGCGGCGCTTCTTTAAAAACGCCGCT
1 GCGGCACTTTTTTAAAAAC-CCGCTAAACCCCGAGCATTAGCGGCGCTTCTTCAAAAACGCCGCT
*
42045356 AAAGCCCCAAGCATTA
65 AAAGCCCTAAGCATTA
* * *
42045372 GCGGCGCTTTTTTAAAAAACCGCTGCTAAATCCCC-ATGCATTAGCGGCGCTTTTTAAAAAACGC
1 GCGGCACTTTTTT-AAAAACC-C-GCTAAA-CCCCGA-GCATTAGCGGCGCTTCTTCAAAAACGC
*
42045436 CACTAA
61 CGCTAA
42045442 TGTCCCGAAA
Statistics
Matches: 188, Mismatches: 36, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
80 25 0.13
81 53 0.28
82 71 0.38
83 9 0.05
84 30 0.16
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (80 bp):
GCGGCACTTTTTTAAAAACCCGCTAAACCCCGAGCATTAGCGGCGCTTCTTCAAAAACGCCGCTA
AAGCCCTAAGCATTA
Found at i:42045537 original size:39 final size:39
Alignment explanation
Indices: 42045494--42045617 Score: 124
Period size: 40 Copynumber: 3.1 Consensus size: 39
42045484 TTTGCAAAGC
42045494 TTTTTGGAAAACGCCGCTAATGCTCATTTTTAGCGGCGT
1 TTTTTGGAAAACGCCGCTAATGCTCATTTTTAGCGGCGT
* * * * *
42045533 TTTTTGGAAAGCGTCACTAATACTCGATCTTTAGCGGCGT
1 TTTTTGGAAAACGCCGCTAATGCTC-ATTTTTAGCGGCGT
* * * * *
42045573 TTTTT-TAAAAGCACCGCTAATGATTGATTTTTAGTGGCGT
1 TTTTTGGAAAA-CGCCGCTAATG-CTCATTTTTAGCGGCGT
42045613 TTTTT
1 TTTTT
42045618 ATCCAAACGC
Statistics
Matches: 67, Mismatches: 15, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
39 24 0.36
40 42 0.63
41 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.21, T:0.40
Consensus pattern (39 bp):
TTTTTGGAAAACGCCGCTAATGCTCATTTTTAGCGGCGT
Found at i:42045577 original size:40 final size:39
Alignment explanation
Indices: 42045494--42045577 Score: 114
Period size: 39 Copynumber: 2.1 Consensus size: 39
42045484 TTTGCAAAGC
* * *
42045494 TTTTTGGAAAACGCCGCTAATGCTCATTTTTAGCGGCGT
1 TTTTTGGAAAACGCCACTAATACTCATCTTTAGCGGCGT
* *
42045533 TTTTTGGAAAGCGTCACTAATACTCGATCTTTAGCGGCGT
1 TTTTTGGAAAACGCCACTAATACTC-ATCTTTAGCGGCGT
42045573 TTTTT
1 TTTTT
42045578 TAAAAGCACC
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 21 0.54
40 18 0.46
ACGTcount: A:0.20, C:0.19, G:0.21, T:0.39
Consensus pattern (39 bp):
TTTTTGGAAAACGCCACTAATACTCATCTTTAGCGGCGT
Found at i:42054795 original size:22 final size:22
Alignment explanation
Indices: 42054769--42054819 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
42054759 CTCTCTAATC
*
42054769 CTCTCAATTGCTTTCCAAAATT
1 CTCTCAATTGCCTTCCAAAATT
*
42054791 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTGCCTTCCAAAATT
42054813 CTCTCAA
1 CTCTCAA
42054820 ACCCATATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.27, C:0.31, G:0.02, T:0.39
Consensus pattern (22 bp):
CTCTCAATTGCCTTCCAAAATT
Found at i:42054890 original size:51 final size:51
Alignment explanation
Indices: 42054791--42054891 Score: 141
Period size: 51 Copynumber: 2.0 Consensus size: 51
42054781 TTCCAAAATT
* **
42054791 CTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTTAATTTC
1 CTCTCAATTTCCTTCCAAAATCCTCTCAAACCCATATTTAATAATAATTTC
* *
42054842 CTCTCAATTTCCTTCCAAAATCCTCTCAAACCTATTTCTTAA-AATAATTT
1 CTCTCAATTTCCTTCCAAAATCCTCTCAAACCCATAT-TTAATAATAATTT
42054892 TAAATTTTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
51 40 0.91
52 4 0.09
ACGTcount: A:0.31, C:0.28, G:0.00, T:0.42
Consensus pattern (51 bp):
CTCTCAATTTCCTTCCAAAATCCTCTCAAACCCATATTTAATAATAATTTC
Found at i:42055022 original size:15 final size:16
Alignment explanation
Indices: 42055002--42055032 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
42054992 CTTGTAAGTA
42055002 TTATTTAAG-ATTTTT
1 TTATTTAAGTATTTTT
42055017 TTATTTAAGTATTTTT
1 TTATTTAAGTATTTTT
42055033 AGATAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (16 bp):
TTATTTAAGTATTTTT
Found at i:42056033 original size:249 final size:249
Alignment explanation
Indices: 42055595--42056049 Score: 892
Period size: 249 Copynumber: 1.8 Consensus size: 249
42055585 TTTAGAGGAG
42055595 CCGGTGAATTTAGTTGGGGGTCTGTCGTCTTGGCAACATTATATCGGGAGATGTTTGGGGCGACG
1 CCGGTGAATTTAGTTGGGGGTCTGTCGTCTTGGCAACATTATATCGGGAGATGTTTGGGGCGACG
*
42055660 CGACCGAGGAGAGCAAAAATCGGAGGTTGCCTGTCACTACTGCAATCATGGGCACGGTTTCGCTT
66 CGACCGAGGAGAGCAAAAATCGGAGGATGCCTGTCACTACTGCAATCATGGGCACGGTTTCGCTT
42055725 TCCATTTCTACGTCCTCAAGTGAACCACCCATATACATTCCCACTCGTAACGAGGTAAATTTTAT
131 TCCATTTCTACGTCCTCAAGTGAACCACCCATATACATTCCCACTCGTAACGAGGTAAATTTTAT
42055790 ATTACATTTTGGAATTGTTATGTAGATTTTGTAAGAATAAAAATATGCTAAAGA
196 ATTACATTTTGGAATTGTTATGTAGATTTTGTAAGAATAAAAATATGCTAAAGA
42055844 CCGGTGAATTTAGTTGGGGGTCTGTCGTCTTGGCAACATTATATCGGGAGATGTTTGGGGCGACG
1 CCGGTGAATTTAGTTGGGGGTCTGTCGTCTTGGCAACATTATATCGGGAGATGTTTGGGGCGACG
42055909 CGACCGAGGAGAGCAAAAATCGGAGGATGCCTGTCACTACTGCAATCATGGGCACGGTTTCGCTT
66 CGACCGAGGAGAGCAAAAATCGGAGGATGCCTGTCACTACTGCAATCATGGGCACGGTTTCGCTT
*
42055974 TCCATTTCTACGTCCTCGAGTGAACCACCCATATACATTCCCACTCGTAACGAGGTAAATTTTAT
131 TCCATTTCTACGTCCTCAAGTGAACCACCCATATACATTCCCACTCGTAACGAGGTAAATTTTAT
42056039 ATTACATTTTG
196 ATTACATTTTG
42056050 TCAATGGACA
Statistics
Matches: 204, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
249 204 1.00
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.29
Consensus pattern (249 bp):
CCGGTGAATTTAGTTGGGGGTCTGTCGTCTTGGCAACATTATATCGGGAGATGTTTGGGGCGACG
CGACCGAGGAGAGCAAAAATCGGAGGATGCCTGTCACTACTGCAATCATGGGCACGGTTTCGCTT
TCCATTTCTACGTCCTCAAGTGAACCACCCATATACATTCCCACTCGTAACGAGGTAAATTTTAT
ATTACATTTTGGAATTGTTATGTAGATTTTGTAAGAATAAAAATATGCTAAAGA
Found at i:42056684 original size:18 final size:18
Alignment explanation
Indices: 42056663--42056697 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
42056653 AGGTATGTTT
* *
42056663 CCTAGCCCTTATATGTAC
1 CCTAACCCTTACATGTAC
42056681 CCTAACCCTTACATGTA
1 CCTAACCCTTACATGTA
42056698 TCATTTTCCG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.34, G:0.09, T:0.31
Consensus pattern (18 bp):
CCTAACCCTTACATGTAC
Found at i:42056938 original size:132 final size:132
Alignment explanation
Indices: 42056701--42056940 Score: 417
Period size: 132 Copynumber: 1.8 Consensus size: 132
42056691 ACATGTATCA
* * *
42056701 TTTTCCGAATACTATGGCAGGTTGGAGCCAAATGCCCGGTTTAGCTCCATTTCCTGTTATGTCGA
1 TTTTCCGAATACTATGCCAGGTTGGAGCCAAATGCCCGGTTCAGCTCCATTTCCTGTTATGCCGA
* *
42056766 GCGGGCCGTCGATATCTAGGCCAGCGGCGCAGGAGGGATCGCAATGGGGGCCGTCGGAGAGCTCT
66 GCAGACCGTCGATATCTAGGCCAGCGGCGCAGGAGGGATCGCAATGGGGGCCGTCGGAGAGCTCT
42056831 TC
131 TC
* *
42056833 TTTTCCGAATACTATGCCAGGTTTGAGCCAAATGTCCGGTTCAGCTCCATTTCCTGTTATGCCGA
1 TTTTCCGAATACTATGCCAGGTTGGAGCCAAATGCCCGGTTCAGCTCCATTTCCTGTTATGCCGA
42056898 GCAGACCGTCGATATCTAGGCCAGCGGCGCAGGAGGGATCGCA
66 GCAGACCGTCGATATCTAGGCCAGCGGCGCAGGAGGGATCGCA
42056941 CATGCCTTCG
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 101 1.00
ACGTcount: A:0.20, C:0.26, G:0.30, T:0.25
Consensus pattern (132 bp):
TTTTCCGAATACTATGCCAGGTTGGAGCCAAATGCCCGGTTCAGCTCCATTTCCTGTTATGCCGA
GCAGACCGTCGATATCTAGGCCAGCGGCGCAGGAGGGATCGCAATGGGGGCCGTCGGAGAGCTCT
TC
Found at i:42057387 original size:29 final size:29
Alignment explanation
Indices: 42057349--42057853 Score: 575
Period size: 29 Copynumber: 16.6 Consensus size: 29
42057339 AAAACCCTAA
42057349 CCTAA-CCTAACCTAACTTAATTAAAAAC
1 CCTAACCCTAACCTAACTTAATTAAAAAC
* * *
42057377 CATAACCCTAACCTAACCTAACTAAAAAC
1 CCTAACCCTAACCTAACTTAATTAAAAAC
*
42057406 CCTAACCCTAACCTAAATTAATTAAAAAC
1 CCTAACCCTAACCTAACTTAATTAAAAAC
* * *
42057435 CTTAACCCTAACCTAAATTAACTAAAAAC
1 CCTAACCCTAACCTAACTTAATTAAAAAC
42057464 CCTAACCCTAACCTAACTTAATTAAAAACTCCAAC
1 CCTAACCCTAACCTAACTTAATT--AAA----AAC
42057499 CCTAACCCTAACCTAACTTAATTAAAAAC
1 CCTAACCCTAACCTAACTTAATTAAAAAC
*
42057528 CCTAACCCTAACCTAAATTAA-TACAAAAC
1 CCTAACCCTAACCTAACTTAATTA-AAAAC
* *
42057557 CCTAACCTTAACCCTAACCTAAATTAATACAAAAC
1 CCTAACCCTAA-CCTAA-CTTAA-T--TA-AAAAC
*
42057592 CCTAACCCTAACCTAAATTAA-TACAAAAC
1 CCTAACCCTAACCTAACTTAATTA-AAAAC
* *
42057621 CCTAAACCTAACCTAACTTAACTAAAAAC
1 CCTAACCCTAACCTAACTTAATTAAAAAC
*
42057650 CCTAACCCTAACCTAAATTAATTAAAAAC
1 CCTAACCCTAACCTAACTTAATTAAAAAC
* *
42057679 CCTAACCCTAACCTAAATTAACTAAAAAC
1 CCTAACCCTAACCTAACTTAATTAAAAAC
42057708 CCTAACCCTAACCCTAACTTAAATTAACTAAAAAC
1 CCTAACCCTAA-CCTAACTT-AA-T---TAAAAAC
42057743 CCTAACCCTAACCTAACTTAATTAAAAACCTCAAC
1 CCTAACCCTAACCTAACTTAATT--AAA----AAC
42057778 CCTAACCCTAACCTAACTTAATTAAAAAC
1 CCTAACCCTAACCTAACTTAATTAAAAAC
* *
42057807 CCTAACCCTAACCTAAATTAACTAAAAAC
1 CCTAACCCTAACCTAACTTAATTAAAAAC
*
42057836 TCTAACCCTAACCGTAAC
1 CCTAACCCTAACC-TAAC
42057854 CATTAACACA
Statistics
Matches: 418, Mismatches: 31, Indels: 54
0.83 0.06 0.11
Matches are distributed among these distances:
28 6 0.01
29 271 0.65
30 17 0.04
31 11 0.03
32 1 0.00
33 11 0.03
34 13 0.03
35 88 0.21
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.22
Consensus pattern (29 bp):
CCTAACCCTAACCTAACTTAATTAAAAAC
Found at i:42057476 original size:64 final size:64
Alignment explanation
Indices: 42057339--42057854 Score: 539
Period size: 64 Copynumber: 8.4 Consensus size: 64
42057329 AATTTAATTG
* * **
42057339 AAAACCCTAA-CCTAA-CCTAACCTAACTTAATTAAAAACCATAACCCTAACCTAACCTAACT-
1 AAAACCCTAACCCTAACCCTAACCTAAATTAATTAAAAACCCTAACCCTAACCTAAATTAACTA
*
42057400 -AAA----AACCCTAACCCTAACCTAAATTAATTAAAAACCTTAACCCTAACCTAAATTAACTA
1 AAAACCCTAACCCTAACCCTAACCTAAATTAATTAAAAACCCTAACCCTAACCTAAATTAACTA
* *
42057459 AAAACCCTAACCCTAA-CCTAA-CTTAATTAA--AAACTCCAACCCTAACCCTAACCTAACTTAA
1 AAAACCCTAACCCTAACCCTAACCTAAATTAATTAAA----AACCCTAACCCTAACCTAAATTAA
42057520 -T-
62 CTA
* * ** *
42057521 TAAA----AACCCTAACCCTAACCTAAATTAA-TACAAAACCCTAACCTTAACCCTAACCTAAAT
1 AAAACCCTAACCCTAACCCTAACCTAAATTAATTA-AAAACCCTAACCCTAA-CCTAAATTAACT
*
42057581 T
64 A
* ** * *
42057582 AATA-CAAAACCCTAACCCTAACCTAAATTAA-TACAAAACCCTAAACCTAACCTAACTTAACT-
1 AAAACCCTAACCCTAACCCTAACCTAAATTAATTA-AAAACCCTAACCCTAACCTAAATTAACTA
42057644 -AAA----AACCCTAACCCTAACCTAAATTAATTAAAAACCCTAACCCTAACCTAAATTAACTA
1 AAAACCCTAACCCTAACCCTAACCTAAATTAATTAAAAACCCTAACCCTAACCTAAATTAACTA
* * * *
42057703 AAAACCCTAACCCTAACCCTAACTTAAATTAACTAAAAACCCTAACCCTAACCTAACTTAATTA
1 AAAACCCTAACCCTAACCCTAACCTAAATTAATTAAAAACCCTAACCCTAACCTAAATTAACTA
*
42057767 AAAA-CCTCAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCTAAATTAACTA
1 AAAACCCT-AACCCTAACCCTAACCTAAATTAATTAAAAACCCTAACCCTAACCTAAATTAACTA
* *
42057831 AAAACTCTAACCCTAACCGTAACC
1 AAAACCCTAACCCTAACCCTAACC
42057855 ATTAACACAA
Statistics
Matches: 393, Mismatches: 31, Indels: 59
0.81 0.06 0.12
Matches are distributed among these distances:
56 2 0.01
57 5 0.01
58 113 0.29
59 16 0.04
60 21 0.05
61 5 0.01
62 13 0.03
63 19 0.05
64 197 0.50
65 2 0.01
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.22
Consensus pattern (64 bp):
AAAACCCTAACCCTAACCCTAACCTAAATTAATTAAAAACCCTAACCCTAACCTAAATTAACTA
Found at i:42057538 original size:93 final size:92
Alignment explanation
Indices: 42057349--42057853 Score: 631
Period size: 93 Copynumber: 5.5 Consensus size: 92
42057339 AAAACCCTAA
* * * * *
42057349 CCTAA-CCTAACCTAACTTAATTAAAAACCATAACCCTAACCTAACCTAACT--AAA---AACCC
1 CCTAACCCTAACCTAAATTAACTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCAACCC
*
42057408 TAACCCTAACCTAAATTAATTAAAAAC
66 TAACCCTAACCTAACTTAATTAAAAAC
*
42057435 CTTAACCCTAACCTAAATTAACTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACTCCAACC
1 CCTAACCCTAACCTAAATTAACTAAAAACCCTAACCCTAACCTAACTTAATTAAAAAC-CCAACC
42057500 CTAACCCTAACCTAACTTAATTAAAAAC
65 CTAACCCTAACCTAACTTAATTAAAAAC
* * * **
42057528 CCTAACCCTAACCTAAATTAA-TACAAAACCCTAACCTTAACCCTAACCTAAATT-AATACAAAA
1 CCTAACCCTAACCTAAATTAACTA-AAAACCCTAACCCTAA-CCTAA-CTTAATTAAAAACCCAA
*
42057591 CCCTAACCCTAACCTAAATTAA-TACAAAAC
63 CCCTAACCCTAACCTAACTTAATTA-AAAAC
* * *
42057621 CCTAAACCTAACCTAACTTAACTAAAAACCCTAACCCTAACCTAAATTAATTAAAAACCCTAACC
1 CCTAACCCTAACCTAAATTAACTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCC-AACC
**
42057686 CTAA-CCTAAATTAAC-TAA--AAACCCTAAC
65 CTAACCCTAACCTAACTTAATTAAA----AAC
*
42057714 CCTAACCCTAACTTAAATTAACTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCTCAACC
1 CCTAACCCTAACCTAAATTAACTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACC-CAACC
42057779 CTAACCCTAACCTAACTTAATTAAAAAC
65 CTAACCCTAACCTAACTTAATTAAAAAC
*
42057807 CCTAACCCTAACCTAAATTAACTAAAAACTCTAACCCTAACCGTAAC
1 CCTAACCCTAACCTAAATTAACTAAAAACCCTAACCCTAACC-TAAC
42057854 CATTAACACA
Statistics
Matches: 362, Mismatches: 33, Indels: 40
0.83 0.08 0.09
Matches are distributed among these distances:
86 4 0.01
87 41 0.11
89 5 0.01
90 1 0.00
91 8 0.02
92 21 0.06
93 245 0.68
94 25 0.07
95 9 0.02
97 3 0.01
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.22
Consensus pattern (92 bp):
CCTAACCCTAACCTAAATTAACTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCAACCC
TAACCCTAACCTAACTTAATTAAAAAC
Found at i:42057970 original size:110 final size:112
Alignment explanation
Indices: 42057850--42058061 Score: 356
Period size: 110 Copynumber: 1.9 Consensus size: 112
42057840 ACCCTAACCG
*
42057850 TAACCATTAACACAATTTTTGGACTTAATAATTTTAGTTTATTTCATAAATTTTACTAACCATTA
1 TAACCATTAACACAATTTCTGGACTTAATAATTTTAGTTTATTTCATAAATTTTACTAACCATTA
* *
42057915 ATACAA-TTTTTGGCTTAATAATTTTAGAT-ATTTTGATAATTTTAC
66 ACACAATTTTTTGGCTTAATAATTTTACATGATTTTGATAATTTTAC
* *
42057960 TAACCATTAACACAATTTCTGGACTTAATAATTTTAGTTTATTTGATAAATTTTACTAACCGTTA
1 TAACCATTAACACAATTTCTGGACTTAATAATTTTAGTTTATTTCATAAATTTTACTAACCATTA
42058025 ACACAATTTTTTTGGCTTAATAATTTTACATGATTTT
66 ACACAA-TTTTTTGGCTTAATAATTTTACATGATTTT
42058062 ACATAATGTT
Statistics
Matches: 94, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
110 67 0.71
112 22 0.23
113 5 0.05
ACGTcount: A:0.34, C:0.12, G:0.07, T:0.47
Consensus pattern (112 bp):
TAACCATTAACACAATTTCTGGACTTAATAATTTTAGTTTATTTCATAAATTTTACTAACCATTA
ACACAATTTTTTGGCTTAATAATTTTACATGATTTTGATAATTTTAC
Found at i:42058026 original size:56 final size:55
Alignment explanation
Indices: 42057850--42058052 Score: 302
Period size: 56 Copynumber: 3.6 Consensus size: 55
42057840 ACCCTAACCG
*
42057850 TAACCATTAACACAATTTTTGGACTTAATAATTTTAGTTTATTTCATAAATTTTAC
1 TAACCATTAACACAATTTTTGG-CTTAATAATTTTAGTTTATTTGATAAATTTTAC
* *
42057906 TAACCATTAATACAATTTTTGGCTTAATAATTTTAG-ATATTTTGAT-AATTTTAC
1 TAACCATTAACACAATTTTTGGCTTAATAATTTTAGTTTA-TTTGATAAATTTTAC
*
42057960 TAACCATTAACACAATTTCTGGACTTAATAATTTTAGTTTATTTGATAAATTTTAC
1 TAACCATTAACACAATTTTTGG-CTTAATAATTTTAGTTTATTTGATAAATTTTAC
*
42058016 TAACCGTTAACACAATTTTTTTGGCTTAATAATTTTA
1 TAACCATTAACACAA--TTTTTGGCTTAATAATTTTA
42058053 CATGATTTTA
Statistics
Matches: 133, Mismatches: 8, Indels: 11
0.88 0.05 0.07
Matches are distributed among these distances:
54 30 0.23
55 39 0.29
56 45 0.34
57 13 0.10
58 6 0.05
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.46
Consensus pattern (55 bp):
TAACCATTAACACAATTTTTGGCTTAATAATTTTAGTTTATTTGATAAATTTTAC
Found at i:42062526 original size:89 final size:90
Alignment explanation
Indices: 42062421--42062596 Score: 228
Period size: 97 Copynumber: 1.9 Consensus size: 90
42062411 AAATTTATAA
* **
42062421 AAACTTTAT-GGTTACCATTTCTCAATAAAAACACAATTTACATGGCTCTTTTCTAGTGGATAAA
1 AAACTTTATAGATTACCATTTCTCAATAAAAACACAATTTACATGGCAATTTTCTAGTGGATAAA
*
42062485 ATGGACGGTGGCTGCAAATTGACAG
66 ACGGACGGTGGCTGCAAATTGACAG
*
42062510 AAACTTTATAGTTACCAACTTACCATTTCTCAATAAAAGCACAATTTACATGGCAATTTTCTAGT
1 AAACTTTATAG------A-TTACCATTTCTCAATAAAAACACAATTTACATGGCAATTTTCTAGT
*
42062575 GGTTAAAACGGACGGTGGCTGC
59 GGATAAAACGGACGGTGGCTGC
42062597 CCCTAATTAA
Statistics
Matches: 73, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
89 9 0.12
90 1 0.01
97 63 0.86
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (90 bp):
AAACTTTATAGATTACCATTTCTCAATAAAAACACAATTTACATGGCAATTTTCTAGTGGATAAA
ACGGACGGTGGCTGCAAATTGACAG
Found at i:42067370 original size:17 final size:17
Alignment explanation
Indices: 42067348--42067411 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 17
42067338 CATCAAGGGC
42067348 TACAATTAAAAGCTGTA
1 TACAATTAAAAGCTGTA
* *
42067365 TACAATTAGAA-CTCTAAGA
1 TACAATTAAAAGCTGT---A
* *
42067384 CACAATTAGAAGCTGTA
1 TACAATTAAAAGCTGTA
42067401 TACAATTAAAA
1 TACAATTAAAA
42067412 CTATAAGATT
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
16 3 0.08
17 20 0.54
19 11 0.30
20 3 0.08
ACGTcount: A:0.48, C:0.14, G:0.11, T:0.27
Consensus pattern (17 bp):
TACAATTAAAAGCTGTA
Found at i:42067397 original size:36 final size:36
Alignment explanation
Indices: 42067349--42067419 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
42067339 ATCAAGGGCT
* *
42067349 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
1 ACAATTAAAAGCTGTATACAATTAAAACTATAAGAC
*
42067385 ACAATTAGAAGCTGTATACAATTAAAACTATAAGA
1 ACAATTAAAAGCTGTATACAATTAAAACTATAAGA
42067420 TTACATAATC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.25
Consensus pattern (36 bp):
ACAATTAAAAGCTGTATACAATTAAAACTATAAGAC
Found at i:42068712 original size:11 final size:10
Alignment explanation
Indices: 42068681--42068710 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
42068671 GTCCTTGCTC
*
42068681 TTATTAAAAA
1 TTATAAAAAA
42068691 TTATAAAAAA
1 TTATAAAAAA
42068701 TTATAAAAAA
1 TTATAAAAAA
42068711 ATACATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
TTATAAAAAA
Found at i:42069107 original size:18 final size:18
Alignment explanation
Indices: 42069086--42069160 Score: 55
Period size: 18 Copynumber: 4.2 Consensus size: 18
42069076 TTGTACGATA
*
42069086 TTTATAATTTTTATATTT
1 TTTATAATTTTTATATAT
** *
42069104 TTTACGATTTATATATAT
1 TTTATAATTTTTATATAT
* * *
42069122 ATTCTAATTTTTAATAAAT
1 TTTATAATTTTT-ATATAT
42069141 TTT-TAATATTTTATAT-T
1 TTTATAAT-TTTTATATAT
42069158 TTT
1 TTT
42069161 TTATTAAAAT
Statistics
Matches: 43, Mismatches: 12, Indels: 5
0.72 0.20 0.08
Matches are distributed among these distances:
17 4 0.09
18 28 0.65
19 11 0.26
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (18 bp):
TTTATAATTTTTATATAT
Found at i:42071231 original size:35 final size:35
Alignment explanation
Indices: 42071185--42071257 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
42071175 GCACATGTGA
42071185 TAATATGTTTGACACATTTTAAAAATAACAAAACT
1 TAATATGTTTGACACATTTTAAAAATAACAAAACT
42071220 TAATATGTTTGACACATTTTAAAAATAACAAAACT
1 TAATATGTTTGACACATTTTAAAAATAACAAAACT
42071255 TAA
1 TAA
42071258 CTTAATAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.49, C:0.11, G:0.05, T:0.34
Consensus pattern (35 bp):
TAATATGTTTGACACATTTTAAAAATAACAAAACT
Found at i:42076197 original size:37 final size:37
Alignment explanation
Indices: 42076143--42076233 Score: 114
Period size: 37 Copynumber: 2.5 Consensus size: 37
42076133 TTATTACTGA
42076143 GGCGTGTTATCAGTTGGATTAGCTCTCATGAGCGCTT
1 GGCGTGTTATCAGTTGGATTAGCTCTCATGAGCGCTT
* * *
42076180 GGCGTGTTAT-TGTTTGGATTAGCTCTTATGAGCGTTT
1 GGCGTGTTATCAG-TTGGATTAGCTCTCATGAGCGCTT
* *
42076217 GGTGTGTT-TCGGTTGGA
1 GGCGTGTTATCAGTTGGA
42076234 CTACTTGTGT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
36 7 0.15
37 40 0.85
ACGTcount: A:0.13, C:0.13, G:0.33, T:0.41
Consensus pattern (37 bp):
GGCGTGTTATCAGTTGGATTAGCTCTCATGAGCGCTT
Found at i:42080974 original size:16 final size:16
Alignment explanation
Indices: 42080953--42081020 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
42080943 TTTGGTTCGC
42080953 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
42080969 TGTATTGGATTAGAGC
1 TGTATTGGATTAGAGG
42080985 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
42081001 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
42081017 TGTA
1 TGTA
42081021 ATAGCAAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.25, C:0.01, G:0.35, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:42081283 original size:18 final size:17
Alignment explanation
Indices: 42081256--42081290 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
42081246 TTATTTTTAA
*
42081256 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
42081274 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
42081291 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:42081356 original size:157 final size:157
Alignment explanation
Indices: 42081143--42081459 Score: 562
Period size: 157 Copynumber: 2.0 Consensus size: 157
42081133 TAGAATACCC
*
42081143 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTATTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTATTATTTAAATTTTAATAAGATTATTA
* * *
42081208 TTATCAATAATAAATAATTTAATCATATTTAAAAATAATTATTTTTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAAAATAATTATTATTAAATATATTATAATTAAAA
42081273 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
* *
42081300 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTATTATTTAAATTTTAATAAGATTATTA
* *
42081365 ATATCAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAAAATAATTATTATTAAATATATTATAATTAAAA
42081430 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
42081457 TTA
1 TTA
42081460 ATATTCTTAT
Statistics
Matches: 152, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
157 152 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTATTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAAAATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:42081430 original size:16 final size:16
Alignment explanation
Indices: 42081393--42081434 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
42081383 TTAATCATAT
*
42081393 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
42081409 TT-AAATATATTATAA
1 TTAAAATATATTATAA
42081424 TTAAAATATAT
1 TTAAAATATAT
42081435 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:42081441 original size:14 final size:15
Alignment explanation
Indices: 42081402--42081443 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
42081392 TTTAAACATA
*
42081402 ATTATTATTAAATAT
1 ATTATAATTAAATAT
42081417 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
42081431 A-TATAATTTAATA
1 ATTATAATTAAATA
42081444 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:42084661 original size:11 final size:11
Alignment explanation
Indices: 42084645--42084672 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
42084635 AATCGGGAGG
42084645 CGAAGGTAGAA
1 CGAAGGTAGAA
42084656 CGAAGGTAGAA
1 CGAAGGTAGAA
42084667 CGAAGG
1 CGAAGG
42084673 AAGAGGCGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.43, C:0.11, G:0.39, T:0.07
Consensus pattern (11 bp):
CGAAGGTAGAA
Found at i:42085460 original size:23 final size:23
Alignment explanation
Indices: 42085434--42085488 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
42085424 AATCAATATT
*
42085434 TTTAAAAGCTGAAT-CCATTAAAA
1 TTTAAAA-CTCAATACCATTAAAA
*
42085457 TTTAAAACTCAATACCCATTAATA
1 TTTAAAACTCAATA-CCATTAAAA
42085481 TTTAAAAC
1 TTTAAAAC
42085489 CAAAATTGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 5 0.18
23 7 0.25
24 16 0.57
ACGTcount: A:0.47, C:0.16, G:0.04, T:0.33
Consensus pattern (23 bp):
TTTAAAACTCAATACCATTAAAA
Found at i:42087792 original size:17 final size:17
Alignment explanation
Indices: 42087772--42087805 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
42087762 ATGAAAAAAA
42087772 ATAAGTGAAA-TAAAATT
1 ATAAGT-AAATTAAAATT
42087789 ATAAGTAAATTAAAATT
1 ATAAGTAAATTAAAATT
42087806 TCTTTTTCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.32
Consensus pattern (17 bp):
ATAAGTAAATTAAAATT
Found at i:42087842 original size:15 final size:15
Alignment explanation
Indices: 42087822--42087855 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
42087812 TCCAACTCAA
42087822 AAAAATCTAAAATCC
1 AAAAATCTAAAATCC
*
42087837 AAAAATCTAAAATCG
1 AAAAATCTAAAATCC
42087852 AAAA
1 AAAA
42087856 TTTTCGATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.65, C:0.15, G:0.03, T:0.18
Consensus pattern (15 bp):
AAAAATCTAAAATCC
Found at i:42088176 original size:9 final size:9
Alignment explanation
Indices: 42088162--42088193 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
42088152 TTATTCATTT
42088162 AATTAATTA
1 AATTAATTA
42088171 AATTAATTA
1 AATTAATTA
*
42088180 AACTAATTA
1 AATTAATTA
42088189 AATTA
1 AATTA
42088194 TACCCTAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (9 bp):
AATTAATTA
Found at i:42097869 original size:16 final size:16
Alignment explanation
Indices: 42097846--42097881 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
42097836 ATATATTTAT
42097846 AAAAAAAATTATAAATA
1 AAAAAAAATT-TAAATA
*
42097863 AATAAAAATTTAAATA
1 AAAAAAAATTTAAATA
42097879 AAA
1 AAA
42097882 TGGTAAAGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (16 bp):
AAAAAAAATTTAAATA
Found at i:42097882 original size:17 final size:17
Alignment explanation
Indices: 42097844--42097880 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
42097834 AAATATATTT
42097844 ATAAA-AAAAATTATAA
1 ATAAATAAAAATTATAA
42097860 ATAAATAAAAATT-TAA
1 ATAAATAAAAATTATAA
42097876 ATAAA
1 ATAAA
42097881 ATGGTAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
ATAAATAAAAATTATAA
Found at i:42104214 original size:284 final size:285
Alignment explanation
Indices: 42103698--42104266 Score: 926
Period size: 284 Copynumber: 2.0 Consensus size: 285
42103688 CCAAAGAGGA
*
42103698 GTTTGCCTGTAAAAATGCTCACCCAACTAAATGTTTTCATTTCTTTCTCAGGTAGGCCGCTACCT
1 GTTTGCCTGTAAAAATGCTCACCCAACTAAATGCTTTCATTTCTTTCTCAGGTAGGCCGCTACCT
* * * *
42103763 AATCCCATCAAATTTCACTTAAAAAATTTTCGTGTCGCATCCTATAAATCTCCCATTACTTTGTG
66 AATCCCATCAAAGTTCACATAAAAAATTTTCGTGTCGCATCCCATAAATCTCCCATTACTTTATG
* *
42103828 GTTGACTCTACAAAGCATACTCAAATAACATCTTATCACATATCTATATGAATTCATGAGAAGGG
131 GTTGACTCTACAAAGCATACTCAAATAACATCTTATCACATATCTATATGAATCCATGAAAAGGG
*
42103893 ATTGTATGAAACCATGATTCTACATTATCCCTACCCTTT-TCAATAGGAGAATGACAAATAAG-C
196 ATTGTATGAAACCATGATTCTACATCATCCCTACCCTTTCT-AATAGGAGAATGACAAATAAGAC
*
42103956 TTTTTTCTCCTAATTTTTAGCATTTT
260 TTTTTTCTCCTAATTTTTAACATTTT
*
42103982 GTTTGCCTGTAAAAATGTTCACCCAACTAAATGCTTTCATTTCTTTCTCAGGTAGGCCGCTACCT
1 GTTTGCCTGTAAAAATGCTCACCCAACTAAATGCTTTCATTTCTTTCTCAGGTAGGCCGCTACCT
*
42104047 AATCCCATCAAAGTTCACATAAAAAATTTTCGTGTCGTATCCCATAAATCTCCCATTACTTTATG
66 AATCCCATCAAAGTTCACATAAAAAATTTTCGTGTCGCATCCCATAAATCTCCCATTACTTTATG
* *
42104112 GTTGACTCTACAAAGCATACTCAAATCACATCTTATCACATCTCTATATGAATCCATGAAAAGGG
131 GTTGACTCTACAAAGCATACTCAAATAACATCTTATCACATATCTATATGAATCCATGAAAAGGG
** * * * * *
42104177 ATTGTATGAAACTGTGATTCTACGTCCTCCTTACCCTTTCTAATAGGAGAATGACAAATTAGATT
196 ATTGTATGAAACCATGATTCTACATCATCCCTACCCTTTCTAATAGGAGAATGACAAATAAGACT
*
42104242 TTTTTCTCCTAGTTTTTAACATTTT
261 TTTTTCTCCTAATTTTTAACATTTT
42104267 TAGTTGGATT
Statistics
Matches: 262, Mismatches: 21, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
284 237 0.90
285 25 0.10
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.36
Consensus pattern (285 bp):
GTTTGCCTGTAAAAATGCTCACCCAACTAAATGCTTTCATTTCTTTCTCAGGTAGGCCGCTACCT
AATCCCATCAAAGTTCACATAAAAAATTTTCGTGTCGCATCCCATAAATCTCCCATTACTTTATG
GTTGACTCTACAAAGCATACTCAAATAACATCTTATCACATATCTATATGAATCCATGAAAAGGG
ATTGTATGAAACCATGATTCTACATCATCCCTACCCTTTCTAATAGGAGAATGACAAATAAGACT
TTTTTCTCCTAATTTTTAACATTTT
Found at i:42106425 original size:21 final size:20
Alignment explanation
Indices: 42106399--42106440 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
42106389 TGATTCTCAT
42106399 TCATTGTTCGGAGAAATCGAA
1 TCATTGTTCGGAGAAA-CGAA
* *
42106420 TCATTGTTGGGGGAAACGAA
1 TCATTGTTCGGAGAAACGAA
42106440 T
1 T
42106441 ATGACGCCAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.31, C:0.12, G:0.29, T:0.29
Consensus pattern (20 bp):
TCATTGTTCGGAGAAACGAA
Found at i:42108870 original size:19 final size:17
Alignment explanation
Indices: 42108827--42108908 Score: 58
Period size: 19 Copynumber: 4.4 Consensus size: 17
42108817 AAATTTTAAG
*
42108827 AATTTTT-TATTTTTAT
1 AATTTTTATAATTTTAT
42108843 AATACTTTTATTAATTTTATT
1 AAT--TTTTA-TAATTTTA-T
* *
42108864 AATTTTTAATCATTTCTAA
1 AATTTTT-ATAATTT-TAT
42108883 AATTTTTATAATATTTAAT
1 AATTTTTATAAT-TTT-AT
42108902 AATTTTT
1 AATTTTT
42108909 CAATAATTTA
Statistics
Matches: 52, Mismatches: 5, Indels: 15
0.72 0.07 0.21
Matches are distributed among these distances:
16 3 0.06
18 9 0.17
19 26 0.50
20 10 0.19
21 4 0.08
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (17 bp):
AATTTTTATAATTTTAT
Found at i:42108878 original size:10 final size:10
Alignment explanation
Indices: 42108806--42108917 Score: 67
Period size: 10 Copynumber: 11.4 Consensus size: 10
42108796 TTTTTTCTAT
42108806 ATTTTTAAATAA
1 ATTTTT-AAT-A
* *
42108818 AATTTTAAGA
1 ATTTTTAATA
42108828 ATTTTT--T-
1 ATTTTTAATA
42108835 ATTTTT-ATA
1 ATTTTTAATA
*
42108844 ATACTTTTATTA
1 AT--TTTTAATA
*
42108856 A-TTTTATTA
1 ATTTTTAATA
*
42108865 ATTTTTAATC
1 ATTTTTAATA
*
42108875 ATTTCTAA-A
1 ATTTTTAATA
42108884 ATTTTT-ATA
1 ATTTTTAATA
*
42108893 ATATTTAATA
1 ATTTTTAATA
42108903 ATTTTTCAATA
1 ATTTTT-AATA
42108914 ATTT
1 ATTT
42108918 AAAAAAAATT
Statistics
Matches: 79, Mismatches: 12, Indels: 19
0.72 0.11 0.17
Matches are distributed among these distances:
7 6 0.08
8 2 0.03
9 22 0.28
10 27 0.34
11 14 0.18
12 8 0.10
ACGTcount: A:0.38, C:0.04, G:0.01, T:0.58
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:42132045 original size:12 final size:13
Alignment explanation
Indices: 42132021--42132049 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
42132011 GGGATATAAA
42132021 TATTGCATTTATT
1 TATTGCATTTATT
42132034 TATTGC-TTTATT
1 TATTGCATTTATT
42132046 TATT
1 TATT
42132050 CATGTATGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (13 bp):
TATTGCATTTATT
Found at i:42139340 original size:625 final size:626
Alignment explanation
Indices: 42138150--42139379 Score: 2237
Period size: 625 Copynumber: 2.0 Consensus size: 626
42138140 TCGCTGCAGT
*
42138150 GTAAGGGTGCCGGCGTTCCAACATCCTTTCCCTCTCAACTGTTCCGTGTCAATGTTAGCTAAACA
1 GTAAGGGTGCCGGCGTTCCAACATCCTTTCCCTCTCAACTGTTCCATGTCAATGTTAGCTAAACA
* *
42138215 GAATCAGAAATAAATAATGCTATCAAATTCCATTCAAATCGAAATCATTTACAAGATCAAACATA
66 GAATCACAAATAAATAATGCTATCAAATTCCATTAAAATCGAAATCATTTACAAGATCAAACATA
42138280 TTTTACAATTTATTCAAATTAATCCCTAAACCCGGGACAATAATAACTTTCAATTTAAAACTTCA
131 TTTTACAATTTATTCAAATTAATCCCTAAACCCGGGACAATAATAACTTTCAATTTAAAACTTCA
*
42138345 GATTAAAATTTGATTTCATAAATATTCATTAGGGACATCCTACTTGCTATTTTTACCAAAATTTT
196 GATTAAAATCTGATTTCATAAATATTCATTAGGGACATCCTACTTGCTATTTTTACCAAAATTTT
42138410 TACAATTTTTTTTCCATTTTATTCAATTTGGCCCCTAATGTACGAAACTAACAACTAAGCTTTAG
261 TACAATTTTTTTTCCATTTTATTCAATTTGGCCCCTAATGTACGAAACTAACAACTAAGCTTTAG
* *
42138475 AATCAAGTCTTTTGCTTAATCTAAGCTTAATTTCTAACAATTTCATATCAACTTTGTCTCACCCA
326 AATCAAGTCTTTTGCTTAATCTAAGCTTAATTTCTAACAATTTCACATCAACTTTGTCACACCCA
42138540 AAATTTTGGTCAAAACTTGGCCATATTGAATCGACGACCCTTAGTTATTTTATATGTTTTAATTA
391 AAATTTTGGTCAAAACTTGGCCATATTGAATCGACGACCCTTAGTTATTTTATATGTTTTAATTA
42138605 GATCCTACGACATCCTATTTGTACCGAATTGTAAAATTTGGGGGATGAATTGGGCATTAATGATG
456 GATCCTACGACATCCTATTTGTACCGAATTGTAAAATTTGGGGGATGAATTGGGCATTAATGATG
*
42138670 ATTGTCAATTTTTCTAAAAGGTTATTTCTAATATTTAATCTTAATTTGGGTTAGTGCTTGTATCG
521 ATTGGCAATTTTTCTAAAAGGTTATTTCTAATATTTAATCTTAATTTGGGTTAGTGCTTGTATCG
42138735 AAAGTGGTGAACGATCAATAATGATAATTGTTAGGATCGCC
586 AAAGTGGTGAACGATCAATAATGATAATTGTTAGGATCGCC
* *
42138776 GTAAGGGTGCCGGCGTTCCAACATCCTTTCCCTCTCAACTGTTTCATGTCAATGTTAGCTAAATA
1 GTAAGGGTGCCGGCGTTCCAACATCCTTTCCCTCTCAACTGTTCCATGTCAATGTTAGCTAAACA
*
42138841 GAATCACAAATAAATAATGCTATCAAATTCCATTAAAATCGAAATCATTTACAAGATCAAGCATA
66 GAATCACAAATAAATAATGCTATCAAATTCCATTAAAATCGAAATCATTTACAAGATCAAACATA
* * *
42138906 TTTTACAATTTATTCAAATTAATCCTTAAATCCGGGACAATAATAACTTTCAATTTAAAACTTCG
131 TTTTACAATTTATTCAAATTAATCCCTAAACCCGGGACAATAATAACTTTCAATTTAAAACTTCA
42138971 GATTAAAATCTGATTTCATAAATATTCATTAGGGACATCCTACTTGCTATTTTTACCAAAATTTT
196 GATTAAAATCTGATTTCATAAATATTCATTAGGGACATCCTACTTGCTATTTTTACCAAAATTTT
42139036 TACAA-TTTTTTTCCATTTTATTCAATTTGGCCCCTAATGTACGAAACTAACAACTAAGCTTTAG
261 TACAATTTTTTTTCCATTTTATTCAATTTGGCCCCTAATGTACGAAACTAACAACTAAGCTTTAG
* * * *
42139100 AATCTAGTCTTTTTCTTAATCTAAGCTTAATTTCTAATAATTTCACATCAATTTTGTCACACCCA
326 AATCAAGTCTTTTGCTTAATCTAAGCTTAATTTCTAACAATTTCACATCAACTTTGTCACACCCA
*
42139165 AAATTTTGGTCAAAACTTGGCCATATTGAATTGACGACCCTTAGTTATTTTATATGTTTTAATTA
391 AAATTTTGGTCAAAACTTGGCCATATTGAATCGACGACCCTTAGTTATTTTATATGTTTTAATTA
*
42139230 GATCTTACGACATCCTATTTGTACCGAATTGTAAAATTTGGGGGATGAATTGGGCATTAATGATG
456 GATCCTACGACATCCTATTTGTACCGAATTGTAAAATTTGGGGGATGAATTGGGCATTAATGATG
* * * *
42139295 ATTGGCAATTTTTCTAAAAGGTTCTTTTTAATATTTTATCTTAATTTGGGTTAGTGCTTGTATGG
521 ATTGGCAATTTTTCTAAAAGGTTATTTCTAATATTTAATCTTAATTTGGGTTAGTGCTTGTATCG
*
42139360 AAAGTGGTGAATGATCAATA
586 AAAGTGGTGAACGATCAATA
42139380 TGAGAGTGGC
Statistics
Matches: 580, Mismatches: 24, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
625 325 0.56
626 255 0.44
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (626 bp):
GTAAGGGTGCCGGCGTTCCAACATCCTTTCCCTCTCAACTGTTCCATGTCAATGTTAGCTAAACA
GAATCACAAATAAATAATGCTATCAAATTCCATTAAAATCGAAATCATTTACAAGATCAAACATA
TTTTACAATTTATTCAAATTAATCCCTAAACCCGGGACAATAATAACTTTCAATTTAAAACTTCA
GATTAAAATCTGATTTCATAAATATTCATTAGGGACATCCTACTTGCTATTTTTACCAAAATTTT
TACAATTTTTTTTCCATTTTATTCAATTTGGCCCCTAATGTACGAAACTAACAACTAAGCTTTAG
AATCAAGTCTTTTGCTTAATCTAAGCTTAATTTCTAACAATTTCACATCAACTTTGTCACACCCA
AAATTTTGGTCAAAACTTGGCCATATTGAATCGACGACCCTTAGTTATTTTATATGTTTTAATTA
GATCCTACGACATCCTATTTGTACCGAATTGTAAAATTTGGGGGATGAATTGGGCATTAATGATG
ATTGGCAATTTTTCTAAAAGGTTATTTCTAATATTTAATCTTAATTTGGGTTAGTGCTTGTATCG
AAAGTGGTGAACGATCAATAATGATAATTGTTAGGATCGCC
Found at i:42140645 original size:28 final size:28
Alignment explanation
Indices: 42140629--42140684 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
42140619 ATCAAGAGCT
*
42140629 TGCATAAATTATCTTTCAAGAAAGAGTC
1 TGCATAAACTATCTTTCAAGAAAGAGTC
*
42140657 TGCATGAACTATCTTTCAAGAAAGAGTC
1 TGCATAAACTATCTTTCAAGAAAGAGTC
42140685 CACAGGGACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (28 bp):
TGCATAAACTATCTTTCAAGAAAGAGTC
Found at i:42140695 original size:28 final size:28
Alignment explanation
Indices: 42140638--42140696 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
42140628 TTGCATAAAT
** *
42140638 TATCTTTCAAGAAAGAGTCTGCATGAAC
1 TATCTTTCAAGAAAGAGTCCACAGGAAC
*
42140666 TATCTTTCAAGAAAGAGTCCACAGGGAC
1 TATCTTTCAAGAAAGAGTCCACAGGAAC
42140694 TAT
1 TAT
42140697 TCTTGAAGCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.27
Consensus pattern (28 bp):
TATCTTTCAAGAAAGAGTCCACAGGAAC
Found at i:42141201 original size:31 final size:31
Alignment explanation
Indices: 42141166--42141224 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
42141156 CAAGATATGC
* * *
42141166 TAATACACGAATGGTGAAAATGGAGAACATA
1 TAATACACGAACGATGAAAATAGAGAACATA
42141197 TAATACACGAACGATGAAAATAGAGAAC
1 TAATACACGAACGATGAAAATAGAGAAC
42141225 CATGTCAATG
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:0.51, C:0.12, G:0.20, T:0.17
Consensus pattern (31 bp):
TAATACACGAACGATGAAAATAGAGAACATA
Found at i:42156555 original size:34 final size:33
Alignment explanation
Indices: 42156488--42156551 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
42156478 ATATTTATGT
*
42156488 CTTAAATAGAAAATGATTTTAATATAATGGGAG
1 CTTAAATAGAAAATGATTTTAATATAAGGGGAG
* *
42156521 CTTAAATTGAAAATGACTTTTATTA-AAGGGG
1 CTTAAATAGAAAATGA-TTTTAATATAAGGGG
42156552 GAGCAATCTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 20 0.74
34 7 0.26
ACGTcount: A:0.42, C:0.05, G:0.19, T:0.34
Consensus pattern (33 bp):
CTTAAATAGAAAATGATTTTAATATAAGGGGAG
Found at i:42164986 original size:12 final size:12
Alignment explanation
Indices: 42164947--42164978 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
42164937 ATAAATTTCA
42164947 TATTATTACTAT
1 TATTATTACTAT
42164959 TATTATTACTAT
1 TATTATTACTAT
42164971 TATTATTA
1 TATTATTA
42164979 GTTTTATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.59
Consensus pattern (12 bp):
TATTATTACTAT
Found at i:42165355 original size:4 final size:4
Alignment explanation
Indices: 42165346--42165440 Score: 81
Period size: 4 Copynumber: 23.8 Consensus size: 4
42165336 TTATTATTAT
42165346 TTTA TTTA TTTA TTTA TTTA -TT- TTTA CTTTA TGTTCA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA T-TT-A TTTA TTTA TTTA
* * ** *
42165395 TTTA TATG TCCA TTT- TTTA TGT- TTTA GTTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTT
42165441 GTTGTTGTAT
Statistics
Matches: 74, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
3 9 0.12
4 51 0.69
5 12 0.16
6 2 0.03
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:42170040 original size:13 final size:15
Alignment explanation
Indices: 42170012--42170049 Score: 55
Period size: 13 Copynumber: 2.7 Consensus size: 15
42170002 AATATTTCAA
42170012 AAAAAGAGAGAAAAG
1 AAAAAGAGAGAAAAG
42170027 AAAAAGA-A-AAAAG
1 AAAAAGAGAGAAAAG
42170040 AAAAAG-GAGA
1 AAAAAGAGAGA
42170050 GGCGGCCAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 12 0.57
14 2 0.10
15 7 0.33
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (15 bp):
AAAAAGAGAGAAAAG
Found at i:42171502 original size:88 final size:88
Alignment explanation
Indices: 42171271--42172169 Score: 1169
Period size: 88 Copynumber: 10.2 Consensus size: 88
42171261 TCAGTGAAGA
* * ** * * ** * *
42171271 TCGAAAACA-AAACCTTGCCTC-CATCGGTTGCAGTAGAGCTGGTTAAAAATAGTAGATCTTACT
1 TCGAAGACACAAACCTTGCCTCTC-TCGGTTGTAGCGGAGCTGGTTGAAGATAACAGATCTTGCC
* * *
42171334 TTTCTGCATTGACAACGAAGCAGA
65 TTCCTGCATTGACAGCGAAGCAGG
* * * * *
42171358 TCAGAA-ACA-AAGCGTTGCCTC-CATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
1 TC-GAAGACACAAACCTTGCCTCTC-TCGGTTGTAGCGGAGCTGGTTGAAGATAACAGATCTTGC
* * * *
42171420 CTTCCTACGTTAACAGCGAAGCAGA
64 CTTCCTGCATTGACAGCGAAGCAGG
** * *
42171445 TAAAAGACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGACAACAGATCTTGCCT
1 TCGAAGACACAAACCTTGCCTCTCTCGGTTGTAGCGGAGCTGGTTGAAGATAACAGATCTTGCCT
* * *
42171510 TCCTACATTTACAGTGAAGCAGG
66 TCCTGCATTGACAGCGAAGCAGG
* * * *
42171533 TCGAAAACAAAAACCTTGCCTCTCTTGGTTGTGGCGGAGCTGGTTGAAGATAACAGATCTTGCCT
1 TCGAAGACACAAACCTTGCCTCTCTCGGTTGTAGCGGAGCTGGTTGAAGATAACAGATCTTGCCT
*
42171598 TCCTGCATTGACAGTGAAGCAGG
66 TCCTGCATTGACAGCGAAGCAGG
* * * *
42171621 TCAAAGACACAAACCTTGCCTCTCTCGATTGTAGCGGAGCTGGTTGAAGACAACAGATCTTGTCT
1 TCGAAGACACAAACCTTGCCTCTCTCGGTTGTAGCGGAGCTGGTTGAAGATAACAGATCTTGCCT
** *
42171686 TCCTATATTGACAGTGAAGCAGG
66 TCCTGCATTGACAGCGAAGCAGG
* *
42171709 TCGAAGATACAAACCTTGCCTCTCTCGGTTGTAGCGGAGCTGGTAGAAGATAACAGATCTTGCCT
1 TCGAAGACACAAACCTTGCCTCTCTCGGTTGTAGCGGAGCTGGTTGAAGATAACAGATCTTGCCT
*
42171774 TCCTACATTGACAGCGAAGCAGG
66 TCCTGCATTGACAGCGAAGCAGG
* * * * *
42171797 TCGAAGACACAAACCTTGCCTTTCTCGGTTGTGGTGGAGCTGGTTGAAGACAGCAGATCTTGCCT
1 TCGAAGACACAAACCTTGCCTCTCTCGGTTGTAGCGGAGCTGGTTGAAGATAACAGATCTTGCCT
* *
42171862 TCCTGTATTGACAGCGAAGTAGG
66 TCCTGCATTGACAGCGAAGCAGG
*
42171885 TCGAAGATACAAACCTTGCCTCTCTCGGTTGTAGCGGAGCTGGTTGAAGATAACAGATCTTGCCT
1 TCGAAGACACAAACCTTGCCTCTCTCGGTTGTAGCGGAGCTGGTTGAAGATAACAGATCTTGCCT
* *
42171950 TCCTGCATTGACAACAAAGCAGG
66 TCCTGCATTGACAGCGAAGCAGG
* * * * *
42171973 TCGAAGACACAAACCTTGCCTCTCTCGGTTATGGTGGAGCTGGTTGAAGACAGCAGATCTTGCCT
1 TCGAAGACACAAACCTTGCCTCTCTCGGTTGTAGCGGAGCTGGTTGAAGATAACAGATCTTGCCT
* *
42172038 TCCTGTATTGACAGCTAAGCAGG
66 TCCTGCATTGACAGCGAAGCAGG
* *
42172061 TCGAAGATACAAACCTTGCCTCTCTCGGTTGTAGCGAAGCTGGTTGAAGATAACAGATCTTGCCT
1 TCGAAGACACAAACCTTGCCTCTCTCGGTTGTAGCGGAGCTGGTTGAAGATAACAGATCTTGCCT
42172126 TCCTGCATTGACAGCGAAGCAGG
66 TCCTGCATTGACAGCGAAGCAGG
42172149 TCGAAGACACAAACCTTGCCT
1 TCGAAGACACAAACCTTGCCT
42172170 TCATACATTG
Statistics
Matches: 717, Mismatches: 91, Indels: 7
0.88 0.11 0.01
Matches are distributed among these distances:
86 2 0.00
87 74 0.10
88 640 0.89
89 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.25
Consensus pattern (88 bp):
TCGAAGACACAAACCTTGCCTCTCTCGGTTGTAGCGGAGCTGGTTGAAGATAACAGATCTTGCCT
TCCTGCATTGACAGCGAAGCAGG
Found at i:42172299 original size:132 final size:132
Alignment explanation
Indices: 42171490--42172303 Score: 384
Period size: 132 Copynumber: 6.2 Consensus size: 132
42171480 GGAGCTGGTT
* * * * * *
42171490 GAAGACAACAGATCTTGCCTTCCTACATTTACAGTGAAGCAGGTCGAAAACAAAAACCTTGCCTC
1 GAAGA-AACAAATCTTGCCTTCATACATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTC
* * * * ** * * *
42171555 TCTTGGTTGTGGCGGAGCTGGTTGAAGATAACAGATCTTGCCTTCCTGCATTGACAGTGAAGCAG
65 TCTCGGTTGTAGCGAAGCAGGTCAAAGATAACAGATCTTGCCTTCCTGCATTAACAGCGAAACAG
*
42171620 GTC
130 ATC
* * * * * * * * * *
42171623 AAAGACACAAACCTTGCCTCTC-T-CGATTG-TAGCGGAGCTGGTTGAAGACAACAGATCTTGTC
1 GAAGAAACAAATCTTGCCT-TCATAC-ATTGACAGCGAAGCAGGTCGAAGAC-ACAAACCTTGCC
*** * * * * * * **
42171685 T-TCCTATATTGACAGTGAAGCAGGTCGAAGAT-ACAAACCTTGCC-TCTCT-CGGTT-GTAGCG
63 TCT-CTCGGTTG-TAGCGAAGCAGGTCAAAGATAACAGATCTTGCCTTC-CTGC-ATTAACAGCG
* * * * *
42171745 GAGCTGGTA
124 AAACAGATC
* * *
42171754 GAAGATAACAGATCTTGCCTTCCTACATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTT
1 GAAGA-AACAAATCTTGCCTTCATACATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTC
* * * * ** * * * * **
42171819 TCTCGGTTGTGGTGGAGCTGGTTGAAGACAGCAGATCTTGCCTTCCTGTATTGACAGCGAAGTAG
65 TCTCGGTTGTAGCGAAGCAGGTCAAAGATAACAGATCTTGCCTTCCTGCATTAACAGCGAAACAG
*
42171884 GTC
130 ATC
* * * * * * * * * *
42171887 GAAGATACAAACCTTGCCTCTC-T-CGGTTG-TAGCGGAGCTGGTTGAAGATAACAGATCTTGCC
1 GAAGAAACAAATCTTGCCT-TCATAC-ATTGACAGCGAAGCAGGTCGAAGA-CACAAACCTTGCC
* * * * * * * * * ** *
42171949 T-TC-CTGCATTGACAACAAAGCAGGTCGAAGA-CACAAACCTTGCC-TCTCT-CGGTT-ATGGT
63 TCTCTC-G-GTTG-TAGCGAAGCAGGTCAAAGATAACAGATCTTGCCTTC-CTGC-ATTAACAGC
* * * * *
42172008 GGAGCTGGTT
123 GAAACAGATC
* * * ** * *
42172018 GAAGACAGCAGATCTTGCCTTCCTGTATTGACAGCTAAGCAGGTCGAAGATACAAACCTTGCCTC
1 GAAGA-AACAAATCTTGCCTTCATACATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTC
* ** * *
42172083 TCTCGGTTGTAGCGAAGCTGGTTGAAGATAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAG
65 TCTCGGTTGTAGCGAAGCAGGTCAAAGATAACAGATCTTGCCTTCCTGCATTAACAGCGAAACAG
*
42172148 GTC
130 ATC
* * *
42172151 GAAGACACAAACCTTGCCTTCATACATTGACAGCGAAGCAGGTCGAAGACACAAACGTTGCCTCT
1 GAAGAAACAAATCTTGCCTTCATACATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCT
* * * *
42172216 CTCGGTTGTAGTGGAGCAGGTCAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGTGAAACAGA
66 CTCGGTTGTAGCGAAGCAGGTCAAAGATAACAGATCTTGCCTTCCTGCATTAACAGCGAAACAGA
42172281 TC
131 TC
* *
42172283 GAAGAAACCAGTCTTGCCTTC
1 GAAGAAACAAATCTTGCCTTC
42172304 CTGTACTGAC
Statistics
Matches: 496, Mismatches: 151, Indels: 69
0.69 0.21 0.10
Matches are distributed among these distances:
130 1 0.00
131 98 0.20
132 295 0.59
133 101 0.20
134 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.25
Consensus pattern (132 bp):
GAAGAAACAAATCTTGCCTTCATACATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCT
CTCGGTTGTAGCGAAGCAGGTCAAAGATAACAGATCTTGCCTTCCTGCATTAACAGCGAAACAGA
TC
Found at i:42172314 original size:132 final size:132
Alignment explanation
Indices: 42172029--42172317 Score: 389
Period size: 132 Copynumber: 2.2 Consensus size: 132
42172019 AAGACAGCAG
* *
42172029 ATCTTGCCTTCCTGTATTGACAGCTAAGCAGGTCGAAGATACAAACCTTGCCTCTCTCGGTTGTA
1 ATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTA
* ** * * * *
42172094 GCGAAGCTGGTTGAAGATAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACAC
66 GCGAAGCAGGTCAAAGATAACAGATCTTGCCTTCCTGCATTAACAGCGAAACAGATCGAAGAAAC
42172159 AA
131 AA
* * ** *
42172161 ACCTTGCCTTCATACATTGACAGCGAAGCAGGTCGAAGACACAAACGTTGCCTCTCTCGGTTGTA
1 ATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTA
* * * *
42172226 GTGGAGCAGGTCAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGTGAAACAGATCGAAGAAAC
66 GCGAAGCAGGTCAAAGATAACAGATCTTGCCTTCCTGCATTAACAGCGAAACAGATCGAAGAAAC
*
42172291 CA
131 AA
* *
42172293 GTCTTGCCTTCCTGTACTGACAGCG
1 ATCTTGCCTTCCTGTATTGACAGCG
42172318 GAACAGACTA
Statistics
Matches: 132, Mismatches: 25, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
132 132 1.00
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.24
Consensus pattern (132 bp):
ATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTA
GCGAAGCAGGTCAAAGATAACAGATCTTGCCTTCCTGCATTAACAGCGAAACAGATCGAAGAAAC
AA
Found at i:42172316 original size:264 final size:260
Alignment explanation
Indices: 42171271--42172317 Score: 940
Period size: 264 Copynumber: 4.0 Consensus size: 260
42171261 TCAGTGAAGA
* ** ** * * ** * *
42171271 TCGAAAACA-AAACCTTGCCTC-CATCGGTTGCAGTAGAGCTGGTTAAAAATAGTAGATCTTACT
1 TCGAAGACACAAACCTTGCCTCTC-TCGGTTGTGGCGGAGCTGGTTGAAGATAACAGATCTTGCC
* * * * * * *
42171334 TTTCTGCATTGACAACGAAGCAGATCAGAA-ACA-AAGCGTTGCCTC-CATCGGTTGTAGTGGAG
65 TTCCTGCATTGACAGCGAAGCAGGTC-GAAGACACAAACCTTGCCTCTC-TCGATTGTAGCGGAG
* * * * * ** *
42171396 CTGGTTAAAGATAGCAGATCTTGCCTTCCTACG-TTAACAGCGAAGCAGATAAAAGACACAAACC
128 CTGGTTGAAGACA-CAGATCTTGCCTT-CT-CGATTGACAGTGAAGCAGGTCGAAGATACAAACC
* * * ** *
42171460 TTGCCTCTCT-CGGTTGTA-GTGGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTACATTTACA
190 TTGCCTCTCTGC-ATT-AACGT-GAGCTGGTAGAAGA-AACAGATCTTGCCTTCCTGTATTGACA
*
42171523 GTGAAGCAGG
251 GCGAAGCAGG
* * *
42171533 TCGAAAACAAAAACCTTGCCTCTCTTGGTTGTGGCGGAGCTGGTTGAAGATAACAGATCTTGCCT
1 TCGAAGACACAAACCTTGCCTCTCTCGGTTGTGGCGGAGCTGGTTGAAGATAACAGATCTTGCCT
* *
42171598 TCCTGCATTGACAGTGAAGCAGGTCAAAGACACAAACCTTGCCTCTCTCGATTGTAGCGGAGCTG
66 TCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGATTGTAGCGGAGCTG
* **
42171663 GTTGAAGACAACAGATCTTGTCTTCCTATATTGACAGTGAAGCAGGTCGAAGATACAAACCTTGC
131 GTTGAAGAC-ACAGATCTTGCCTT-CTCGATTGACAGTGAAGCAGGTCGAAGATACAAACCTTGC
** * **
42171728 CTCTCTCGGTTGTAGCG-GAGCTGGTAGAAGATAACAGATCTTGCCTTCCTACATTGACAGCGAA
194 CTCTCT-GCAT-TAACGTGAGCTGGTAGAAGA-AACAGATCTTGCCTTCCTGTATTGACAGCGAA
42171792 GCAGG
256 GCAGG
* * * *
42171797 TCGAAGACACAAACCTTGCCTTTCTCGGTTGTGGTGGAGCTGGTTGAAGACAGCAGATCTTGCCT
1 TCGAAGACACAAACCTTGCCTCTCTCGGTTGTGGCGGAGCTGGTTGAAGATAACAGATCTTGCCT
* * * *
42171862 TCCTGTATTGACAGCGAAGTAGGTCGAAGATACAAACCTTGCCTCTCTCGGTTGTAGCGGAGCTG
66 TCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGATTGTAGCGGAGCTG
* *** *
42171927 GTTGAAGATAACAGATCTTGCCTTC-CTGCATTGACAACAAAGCAGGTCGAAGACACAAACCTTG
131 GTTGAAGA-CACAGATCTTGCCTTCTC-G-ATTGACAGTGAAGCAGGTCGAAGATACAAACCTTG
* ** * * *
42171991 CCTCTCT-CGGTTATGGTGGAGCTGGTTGAAGACAGCAGATCTTGCCTTCCTGTATTGACAGCTA
193 CCTCTCTGC-ATTAACGT-GAGCTGGTAGAAGA-AACAGATCTTGCCTTCCTGTATTGACAGCGA
42172055 AGCAGG
255 AGCAGG
* * *
42172061 TCGAAGATACAAACCTTGCCTCTCTCGGTTGTAGCGAAGCTGGTTGAAGATAACAGATCTTGCCT
1 TCGAAGACACAAACCTTGCCTCTCTCGGTTGTGGCGGAGCTGGTTGAAGATAACAGATCTTGCCT
* *
42172126 TCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT-TCATAC-ATTGACAGCGAAG
66 TCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTC-T-CGATTG-TAGCGGAG
* * * * * * * * *
42172189 CAGGTCGAAGACACA-AACGTTGCCTCTCTCGGTTG-TAGTGGAGCAGGTCAAAGATAGCAGATC
128 CTGGTTGAAGACACAGATC-TTGCCT-TCTCGATTGACAGTGAAGCAGGTCGAAGATA-CAAACC
* * * * *
42172252 TTGCCT-TCCTGCATTAACAGTGAAACAGATCGAAGAAACCAG-TCTTGCCTTCCTGTACTGACA
190 TTGCCTCT-CTGCATTAAC-GTG-AGCTGGTAGAAGAAA-CAGATCTTGCCTTCCTGTATTGACA
42172315 GCG
251 GCG
42172318 GAACAGACTA
Statistics
Matches: 649, Mismatches: 107, Indels: 56
0.80 0.13 0.07
Matches are distributed among these distances:
262 14 0.02
263 87 0.13
264 508 0.78
265 37 0.06
266 3 0.00
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (260 bp):
TCGAAGACACAAACCTTGCCTCTCTCGGTTGTGGCGGAGCTGGTTGAAGATAACAGATCTTGCCT
TCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGATTGTAGCGGAGCTG
GTTGAAGACACAGATCTTGCCTTCTCGATTGACAGTGAAGCAGGTCGAAGATACAAACCTTGCCT
CTCTGCATTAACGTGAGCTGGTAGAAGAAACAGATCTTGCCTTCCTGTATTGACAGCGAAGCAGG
Found at i:42172323 original size:44 final size:45
Alignment explanation
Indices: 42172246--42172465 Score: 193
Period size: 45 Copynumber: 4.9 Consensus size: 45
42172236 TCAAAGATAG
* * * * *
42172246 CAGATCTTGCCTTCCTGCATTAACAGTGAAACAGATCGAAGAAAC
1 CAGATCTTGCCTTCCTGTACTGACAGCGGAACAGATCGAAGAAAC
* ** *
42172291 CAG-TCTTGCCTTCCTGTACTGACAGCGGAACAGA-CTAAAGGTAG
1 CAGATCTTGCCTTCCTGTACTGACAGCGGAACAGATC-GAAGAAAC
**
42172335 CAGAT-TATGCCTTCCTGTACTGATGGC-GAAGCAGATCGAAGAAAC
1 CAGATCT-TGCCTTCCTGTACTGACAGCGGAA-CAGATCGAAGAAAC
* * *
42172380 CAG-TCTTGCCTTCTTGTACTGACAGCGGAGCAGA-CTAAAGATAA-
1 CAGATCTTGCCTTCCTGTACTGACAGCGGAACAGATC-GAAGA-AAC
* * *
42172424 CAGATCTTGCCTTTCTGTACTGACAGCAGAGCAGATCGAAGA
1 CAGATCTTGCCTTCCTGTACTGACAGCGGAACAGATCGAAGA
42172466 TGGCAAATTT
Statistics
Matches: 140, Mismatches: 24, Indels: 22
0.75 0.13 0.12
Matches are distributed among these distances:
43 2 0.01
44 66 0.47
45 70 0.50
46 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.23
Consensus pattern (45 bp):
CAGATCTTGCCTTCCTGTACTGACAGCGGAACAGATCGAAGAAAC
Found at i:42172350 original size:45 final size:45
Alignment explanation
Indices: 42172238--42172450 Score: 181
Period size: 44 Copynumber: 4.8 Consensus size: 45
42172228 GGAGCAGGTC
* * * * * *
42172238 AAAGATAGCAGATCTTGCCTTCCTGCATTAACAGTGAAACAGA-T
1 AAAGATAACAGATCTTGCCTTCCTGTACTGACAGCGGAACAGACT
*
42172282 CGAAGA-AACCAG-TCTTGCCTTCCTGTACTGACAGCGGAACAGACT
1 -AAAGATAA-CAGATCTTGCCTTCCTGTACTGACAGCGGAACAGACT
* * **
42172327 AAAGGTAGCAGAT-TATGCCTTCCTGTACTGATGGC-GAAGCAGA-T
1 AAAGATAACAGATCT-TGCCTTCCTGTACTGACAGCGGAA-CAGACT
* * *
42172371 CGAAGA-AACCAG-TCTTGCCTTCTTGTACTGACAGCGGAGCAGACT
1 -AAAGATAA-CAGATCTTGCCTTCCTGTACTGACAGCGGAACAGACT
*
42172416 AAAGATAACAGATCTTGCCTTTCTGTACTGACAGC
1 AAAGATAACAGATCTTGCCTTCCTGTACTGACAGC
42172451 AGAGCAGATC
Statistics
Matches: 133, Mismatches: 22, Indels: 26
0.73 0.12 0.14
Matches are distributed among these distances:
44 68 0.51
45 65 0.49
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (45 bp):
AAAGATAACAGATCTTGCCTTCCTGTACTGACAGCGGAACAGACT
Found at i:42172370 original size:89 final size:89
Alignment explanation
Indices: 42172238--42172465 Score: 291
Period size: 89 Copynumber: 2.6 Consensus size: 89
42172228 GGAGCAGGTC
* * * * * *
42172238 AAAGATAGCAGATCTTGCCTTCCTGCATTAACAG-TGAAACAGATCGAAGAAACCAGTCTTGCCT
1 AAAGATAACAGATCTTGCCTTCCTGTACTGACAGCAG-AGCAGATCGAAGAAACCAGTCTTGCCT
42172302 TCCTGTACTGACAGCGGAACAGACT
65 TCCTGTACTGACAGCGGAACAGACT
* * **
42172327 AAAGGTAGCAGAT-TATGCCTTCCTGTACTGATGGC-GAAGCAGATCGAAGAAACCAGTCTTGCC
1 AAAGATAACAGATCT-TGCCTTCCTGTACTGACAGCAG-AGCAGATCGAAGAAACCAGTCTTGCC
* *
42172390 TTCTTGTACTGACAGCGGAGCAGACT
64 TTCCTGTACTGACAGCGGAACAGACT
*
42172416 AAAGATAACAGATCTTGCCTTTCTGTACTGACAGCAGAGCAGATCGAAGA
1 AAAGATAACAGATCTTGCCTTCCTGTACTGACAGCAGAGCAGATCGAAGA
42172466 TGGCAAATTT
Statistics
Matches: 121, Mismatches: 14, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
88 1 0.01
89 118 0.98
90 2 0.02
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.23
Consensus pattern (89 bp):
AAAGATAACAGATCTTGCCTTCCTGTACTGACAGCAGAGCAGATCGAAGAAACCAGTCTTGCCTT
CCTGTACTGACAGCGGAACAGACT
Found at i:42174492 original size:9 final size:9
Alignment explanation
Indices: 42174480--42174579 Score: 75
Period size: 9 Copynumber: 11.1 Consensus size: 9
42174470 ATTTTATGAT
*
42174480 TTTTATCTA
1 TTTTATTTA
*
42174489 TTTTCCTTTA
1 TTTT-ATTTA
42174499 TTGTTA-TTA
1 TT-TTATTTA
*
42174508 TTAT-TTTA
1 TTTTATTTA
42174516 TTTTATTTA
1 TTTTATTTA
42174525 TTTTATTTA
1 TTTTATTTA
*
42174534 TTTATTTTTA
1 TTT-TATTTA
*
42174544 CTTTATGTTCA
1 TTTTAT-TT-A
42174555 -TTTATTTA
1 TTTTATTTA
42174563 -TTTATTTA
1 TTTTATTTA
42174571 -TTTATTTA
1 TTTTATTTA
42174579 T
1 T
42174580 ATGTCCATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 16
0.76 0.08 0.16
Matches are distributed among these distances:
8 24 0.32
9 29 0.39
10 19 0.25
11 3 0.04
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.72
Consensus pattern (9 bp):
TTTTATTTA
Found at i:42174526 original size:4 final size:4
Alignment explanation
Indices: 42174512--42174620 Score: 91
Period size: 4 Copynumber: 26.8 Consensus size: 4
42174502 TTATTATTAT
42174512 TTTA TTTTA TTTA TTTTA TTTA TTTA -TT- TTTA CTTTA TGTTCA TTTA
1 TTTA -TTTA TTTA -TTTA TTTA TTTA TTTA TTTA -TTTA T-TT-A TTTA
* * ** *
42174559 TTTA TTTA TTTA TTTA TTTA TATG TCCA TTT- TTTA TGT- TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA
42174606 TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTT
42174621 GTTATTGTAT
Statistics
Matches: 86, Mismatches: 9, Indels: 19
0.75 0.08 0.17
Matches are distributed among these distances:
3 9 0.10
4 55 0.64
5 20 0.23
6 2 0.02
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:42174549 original size:33 final size:33
Alignment explanation
Indices: 42174502--42174573 Score: 101
Period size: 33 Copynumber: 2.2 Consensus size: 33
42174492 TCCTTTATTG
* * *
42174502 TTATTATTATTTTAT-TTTATTTATTTTATTTAT
1 TTATTTTTACTTTATGTTCATTTA-TTTATTTAT
42174535 TTATTTTTACTTTATGTTCATTTATTTATTTAT
1 TTATTTTTACTTTATGTTCATTTATTTATTTAT
42174568 TTATTT
1 TTATTT
42174574 ATTTATATGT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
33 28 0.80
34 7 0.20
ACGTcount: A:0.22, C:0.03, G:0.01, T:0.74
Consensus pattern (33 bp):
TTATTTTTACTTTATGTTCATTTATTTATTTAT
Found at i:42174978 original size:111 final size:111
Alignment explanation
Indices: 42174764--42175160 Score: 656
Period size: 111 Copynumber: 3.6 Consensus size: 111
42174754 AAATTTTTCT
* * * * * * *
42174764 AAATGAGGCAATATTTAGC-TTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGCTGTTGAT
1 AAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGAT
42174828 TTTTCTCGTTCAACCAAATGGTTTAATATCCTTTTAAAAAATTTTA
66 TTTTCTCGTTCAACCAAATGGTTTAATATCCTTTTAAAAAATTTTA
42174874 AAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGAT
1 AAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGAT
42174939 TTTTCTCGTTCAACCAAATGGTTTAATATCCTTTTAAAAAATTTTA
66 TTTTCTCGTTCAACCAAATGGTTTAATATCCTTTTAAAAAATTTTA
42174985 AAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGAT
1 AAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGAT
42175050 TTTTCTCGTTCAACCAAATGGTTTAATATCCTTTTAAAAAATTTTA
66 TTTTCTCGTTCAACCAAATGGTTTAATATCCTTTTAAAAAATTTTA
* * * * * *
42175096 AAATAAGGCAATGTTTTGCGTTT-GGAAATTTGAG-GAACGTACCATAAGGTGCTGGGTTTCGAT
1 AAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGAT
42175159 TT
66 TT
42175161 CTCGTTTAAC
Statistics
Matches: 273, Mismatches: 13, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
109 26 0.10
110 26 0.10
111 221 0.81
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (111 bp):
AAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGAT
TTTTCTCGTTCAACCAAATGGTTTAATATCCTTTTAAAAAATTTTA
Found at i:42176817 original size:9 final size:9
Alignment explanation
Indices: 42176803--42176909 Score: 166
Period size: 9 Copynumber: 12.2 Consensus size: 9
42176793 TTGGGTAATT
42176803 TTCGGGTAA
1 TTCGGGTAA
42176812 TTCGGGTAA
1 TTCGGGTAA
*
42176821 TTCGGCTAA
1 TTCGGGTAA
42176830 -TCGGGTAA
1 TTCGGGTAA
42176838 TTCGGGTAA
1 TTCGGGTAA
*
42176847 TTCGGCTAA
1 TTCGGGTAA
42176856 -TCGGGTAA
1 TTCGGGTAA
42176864 TTCGGGTAA
1 TTCGGGTAA
*
42176873 TTCGGCTAA
1 TTCGGGTAA
42176882 -TCGGGTAA
1 TTCGGGTAA
42176890 TTCGGGTAA
1 TTCGGGTAA
42176899 TTCGGGTAA
1 TTCGGGTAA
42176908 TT
1 TT
42176910 TTTAACCAAA
Statistics
Matches: 89, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
8 21 0.24
9 68 0.76
ACGTcount: A:0.22, C:0.14, G:0.31, T:0.33
Consensus pattern (9 bp):
TTCGGGTAA
Found at i:42176833 original size:26 final size:26
Alignment explanation
Indices: 42176804--42176908 Score: 201
Period size: 26 Copynumber: 4.0 Consensus size: 26
42176794 TGGGTAATTT
42176804 TCGGGTAATTCGGGTAATTCGGCTAA
1 TCGGGTAATTCGGGTAATTCGGCTAA
42176830 TCGGGTAATTCGGGTAATTCGGCTAA
1 TCGGGTAATTCGGGTAATTCGGCTAA
42176856 TCGGGTAATTCGGGTAATTCGGCTAA
1 TCGGGTAATTCGGGTAATTCGGCTAA
*
42176882 TCGGGTAATTCGGGTAATTCGGGTAA
1 TCGGGTAATTCGGGTAATTCGGCTAA
42176908 T
1 T
42176909 TTTTAACCAA
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.23, C:0.14, G:0.31, T:0.31
Consensus pattern (26 bp):
TCGGGTAATTCGGGTAATTCGGCTAA
Found at i:42179035 original size:43 final size:43
Alignment explanation
Indices: 42178987--42179123 Score: 220
Period size: 43 Copynumber: 3.2 Consensus size: 43
42178977 GTGTCGCTAA
* *
42178987 CTTTAGCGGCGCTTTTCCCACAAACGCTGCTAAAGACCAAGAC
1 CTTTAGCGGCACTTTTCCCACAAACGCTGCTAAAGACCAGGAC
42179030 CTTTAGCGGCACTTTTCCCACAAACGCTGCTAAAGACCAGGAC
1 CTTTAGCGGCACTTTTCCCACAAACGCTGCTAAAGACCAGGAC
* * * *
42179073 CTTCAGCAGTACTTTTCCCACAAACGCCGCTAAAGACCAGGAC
1 CTTTAGCGGCACTTTTCCCACAAACGCTGCTAAAGACCAGGAC
42179116 CTTTAGCG
1 CTTTAGCG
42179124 ACGCTTTCTC
Statistics
Matches: 86, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 86 1.00
ACGTcount: A:0.28, C:0.33, G:0.18, T:0.21
Consensus pattern (43 bp):
CTTTAGCGGCACTTTTCCCACAAACGCTGCTAAAGACCAGGAC
Found at i:42179141 original size:43 final size:43
Alignment explanation
Indices: 42178987--42179150 Score: 199
Period size: 43 Copynumber: 3.8 Consensus size: 43
42178977 GTGTCGCTAA
* * *
42178987 CTTTAGCGGCGCTTTTCCCACAAACGCTGCTAAAGACCAAGAC
1 CTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGACCAGGAC
* * *
42179030 CTTTAGCGGCACTTTTCCCACAAACGCTGCTAAAGACCAGGAC
1 CTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGACCAGGAC
*
42179073 CTTCAGC-A-GTACTTTTCCCACAAACGCCGCTAAAGACCAGGAC
1 CTTTAGCGACG--CTTTTCCCACAAACGCCGCTAAAGACCAGGAC
* *
42179116 CTTTAGCGACGC-TTTCTCCAAAAACGCCACTAAAG
1 CTTTAGCGACGCTTTTC-CCACAAACGCCGCTAAAG
42179151 GTCACTAAAA
Statistics
Matches: 107, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
42 4 0.04
43 101 0.94
44 1 0.01
45 1 0.01
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (43 bp):
CTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGACCAGGAC
Found at i:42180069 original size:23 final size:23
Alignment explanation
Indices: 42180035--42180315 Score: 333
Period size: 23 Copynumber: 12.3 Consensus size: 23
42180025 AATGGAAAGT
* *
42180035 AGCACTTTAACACTTCAATTTAC
1 AGCACTTAAACACTTCAATTTGC
*
42180058 AGCGA-TAAAACA-TCTCAATTTGC
1 AGC-ACTTAAACACT-TCAATTTGC
42180081 AGCAAC-TAAACACTTCAATTTGC
1 AGC-ACTTAAACACTTCAATTTGC
42180104 AGCACTTAAACACTTCAATTTGC
1 AGCACTTAAACACTTCAATTTGC
42180127 AGCACTTAAACACTTCAATTTGC
1 AGCACTTAAACACTTCAATTTGC
42180150 AGCACTTAAACACTTCAATTTGC
1 AGCACTTAAACACTTCAATTTGC
42180173 AGCACTTAAACACTTCAATTTGC
1 AGCACTTAAACACTTCAATTTGC
* **
42180196 AGCACTTAAACACATCAATTAAC
1 AGCACTTAAACACTTCAATTTGC
* * * * *
42180219 AACATTTATACACCTCAA-TTAC
1 AGCACTTAAACACTTCAATTTGC
* *
42180241 AGCGA-TAAAACA-TCTCAATTTCC
1 AGC-ACTTAAACACT-TCAATTTGC
*
42180264 AGCAAC-TAAATACTTCAATTTGC
1 AGC-ACTTAAACACTTCAATTTGC
42180287 AGCACTTAAACACTTCAATTTGC
1 AGCACTTAAACACTTCAATTTGC
42180310 AGCACT
1 AGCACT
42180316 ATCAAATTTC
Statistics
Matches: 224, Mismatches: 23, Indels: 22
0.83 0.09 0.08
Matches are distributed among these distances:
22 19 0.08
23 202 0.90
24 3 0.01
ACGTcount: A:0.38, C:0.26, G:0.08, T:0.29
Consensus pattern (23 bp):
AGCACTTAAACACTTCAATTTGC
Found at i:42180734 original size:41 final size:39
Alignment explanation
Indices: 42180651--42180734 Score: 114
Period size: 39 Copynumber: 2.1 Consensus size: 39
42180641 GCACAATACA
* **
42180651 ATATAAAAAGCATATATAAATATATGAATGTAGAGGCAT
1 ATATAAAAAGCATATATAAATATATGAATGTACAGAAAT
*
42180690 ATATAAAAAGCATATATAAATATATGTATGTCACAGAAACT
1 ATATAAAAAGCATATATAAATATATGAATGT-ACAGAAA-T
42180731 ATAT
1 ATAT
42180735 TCATTTATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
39 30 0.77
40 4 0.10
41 5 0.13
ACGTcount: A:0.51, C:0.07, G:0.12, T:0.30
Consensus pattern (39 bp):
ATATAAAAAGCATATATAAATATATGAATGTACAGAAAT
Found at i:42182618 original size:26 final size:26
Alignment explanation
Indices: 42182576--42182627 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
42182566 AACGCCACTA
42182576 TTGTTTTCTTATAAATTGATTTATTTT
1 TTGTTTTCTTATAAATTGATTT-TTTT
42182603 TTGTTTT-TTATAAATTGATTTTTTT
1 TTGTTTTCTTATAAATTGATTTTTTT
42182628 GCGGACCGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 4 0.16
26 14 0.56
27 7 0.28
ACGTcount: A:0.21, C:0.02, G:0.08, T:0.69
Consensus pattern (26 bp):
TTGTTTTCTTATAAATTGATTTTTTT
Found at i:42182809 original size:105 final size:106
Alignment explanation
Indices: 42182700--42182890 Score: 296
Period size: 105 Copynumber: 1.8 Consensus size: 106
42182690 CAAAAACATG
* ** *
42182700 CCGTTTTATTATTCTAAAAATTTTTTATTTTGTTTTTTATAAATTGATTTA-TTTTTACGGCG-T
1 CCGTTTTATTATGCTAAAAAAATTTTATTTTATTTTTTATAAATTGATTTATTTTTTACGGCGTT
42182763 TTTTATGAAAAACGCCGCTATTTCATTTTGAACAAAATGACA
66 TTTTAT-AAAAACGCCGCTATTTCATTTTGAACAAAATGACA
* *
42182805 CCGTTTTGTTATGCTAAAAAAATTTTATTTTATTTTTTATAAATTGATTTATTTTTTGCGGCGTT
1 CCGTTTTATTATGCTAAAAAAATTTTATTTTATTTTTTATAAATTGATTTATTTTTTACGGCGTT
*
42182870 TTTTATAAAAACGTCGCTATT
66 TTTTATAAAAACGCCGCTATT
42182891 GCTTACCTTT
Statistics
Matches: 77, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
105 46 0.60
106 24 0.31
107 7 0.09
ACGTcount: A:0.28, C:0.10, G:0.11, T:0.50
Consensus pattern (106 bp):
CCGTTTTATTATGCTAAAAAAATTTTATTTTATTTTTTATAAATTGATTTATTTTTTACGGCGTT
TTTTATAAAAACGCCGCTATTTCATTTTGAACAAAATGACA
Found at i:42182976 original size:152 final size:150
Alignment explanation
Indices: 42182753--42183150 Score: 540
Period size: 152 Copynumber: 2.7 Consensus size: 150
42182743 TTGATTTATT
* * *
42182753 TTTA-CGGCGTTTTTATGAAAAACGCCGC------TATTTCATTTTGAACAAAATGACACCGTTT
1 TTTAGCGGCGTTTTTATGAAAAACGCCGCAAAATTTTTTTCATTTTGAACAAAACGACGCCGTTT
* * ** *
42182811 TGTTATGCTAAAAAAATTTTATTTTATTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTT-TA
66 TGCTATTCTAAAAATTTTTTATTTTGTTTTTTATAAATTGATTTA--TTTTGCGGCGTTTTTATA
*
42182875 TAAAAACGTCGCTATTGCTTACC
129 -AAAAACGTCGCTATTACTTACC
42182898 TTTAGCGGCGTTTTTATGAAAAACGCCGCAAAATTTTTTTCATTTTGAACAAAACGACGCCGTTT
1 TTTAGCGGCGTTTTTATGAAAAACGCCGCAAAATTTTTTTCATTTTGAACAAAACGACGCCGTTT
*
42182963 TGCTATTATAAAAATTTTTTATTTTGTTTTTTATAAATTGATTTATTTTGCGGCGTTTTTATAAA
66 TGCTATTCTAAAAATTTTTTATTTTGTTTTTTATAAATTGATTTATTTTGCGGCGTTTTTATAAA
42183028 AAACGTCGCTATTACTTACC
131 AAACGTCGCTATTACTTACC
42183048 TTTAGC-G-G-----AT-AAAAACGCCGCAAAATTTTTTTTCATTTTGAACAAAACGACGCCGTT
1 TTTAGCGGCGTTTTTATGAAAAACGCCGCAAAA-TTTTTTTCATTTTGAACAAAACGACGCCGTT
*
42183105 TTGCTATTCTAAAAATTTTTTTATTTTGTTTTTTATAAATTAATTT
65 TTGCTATTCTAAAAA-TTTTTTATTTTGTTTTTTATAAATTGATTT
42183151 TTTATAAATT
Statistics
Matches: 231, Mismatches: 12, Indels: 21
0.88 0.05 0.08
Matches are distributed among these distances:
142 15 0.06
143 47 0.20
144 29 0.13
145 4 0.02
146 24 0.10
148 1 0.00
149 1 0.00
150 42 0.18
151 2 0.01
152 66 0.29
ACGTcount: A:0.29, C:0.14, G:0.13, T:0.45
Consensus pattern (150 bp):
TTTAGCGGCGTTTTTATGAAAAACGCCGCAAAATTTTTTTCATTTTGAACAAAACGACGCCGTTT
TGCTATTCTAAAAATTTTTTATTTTGTTTTTTATAAATTGATTTATTTTGCGGCGTTTTTATAAA
AAACGTCGCTATTACTTACC
Done.