Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 176 of 235
Found at i:59645245 original size:19 final size:21
Alignment explanation
Indices: 59645212--59645259 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
59645202 AGGAAGACAA
59645212 AAAAAGA-AATCAAAA-AAG-
1 AAAAAGAGAATCAAAATAAGC
* *
59645230 AAAAAGAGAATGAAAATGAGC
1 AAAAAGAGAATCAAAATAAGC
59645251 AAAAAGAGA
1 AAAAAGAGA
59645260 TTGAGATTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 7 0.28
19 7 0.28
20 2 0.08
21 9 0.36
ACGTcount: A:0.71, C:0.04, G:0.19, T:0.06
Consensus pattern (21 bp):
AAAAAGAGAATCAAAATAAGC
Found at i:59654700 original size:20 final size:20
Alignment explanation
Indices: 59654675--59654726 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
59654665 CTCTACTTCA
59654675 AGCTCATTCAGCTAAAT-CAT
1 AGCTCATTCAGCT-AATCCAT
* * *
59654695 AGCTCATTGAGCTCATCCTT
1 AGCTCATTCAGCTAATCCAT
59654715 AGCTCATTCAGC
1 AGCTCATTCAGC
59654727 CCCTTCTTAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.07
20 25 0.93
ACGTcount: A:0.27, C:0.29, G:0.13, T:0.31
Consensus pattern (20 bp):
AGCTCATTCAGCTAATCCAT
Found at i:59655848 original size:24 final size:23
Alignment explanation
Indices: 59655794--59655871 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 23
59655784 GGATAATTAA
**
59655794 GAAATGGTATTTGGTTTTGGTAC
1 GAAATGGTATTTGGAATTGGTAC
***
59655817 GTTTTGGTATTTGGGAATTGGTAC
1 GAAATGGTATTT-GGAATTGGTAC
*
59655841 GAAATGGTA--TGGAATTGGTAT
1 GAAATGGTATTTGGAATTGGTAC
*
59655862 GAAATAGTAT
1 GAAATGGTAT
59655872 GGTATTTGGT
Statistics
Matches: 43, Mismatches: 10, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
21 18 0.42
22 1 0.02
23 9 0.21
24 15 0.35
ACGTcount: A:0.27, C:0.03, G:0.31, T:0.40
Consensus pattern (23 bp):
GAAATGGTATTTGGAATTGGTAC
Found at i:59655856 original size:21 final size:21
Alignment explanation
Indices: 59655830--59655896 Score: 80
Period size: 21 Copynumber: 3.1 Consensus size: 21
59655820 TTGGTATTTG
59655830 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
59655851 GGAATTGGTATGAAATAGTAT
1 GGAATTGGTACGAAATGGTAT
* *
59655872 GGTATTTGGTACGAATTGGTTAT
1 GG-AATTGGTACGAAATGG-TAT
59655895 GG
1 GG
59655897 TTCAAAGAGG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
21 21 0.55
22 12 0.32
23 5 0.13
ACGTcount: A:0.30, C:0.03, G:0.33, T:0.34
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:59660112 original size:28 final size:25
Alignment explanation
Indices: 59660048--59660112 Score: 58
Period size: 28 Copynumber: 2.4 Consensus size: 25
59660038 TTCACTCACT
59660048 TTTTCTTTTTCTTCTTTTTCTTTTA
1 TTTTCTTTTTCTTCTTTTTCTTTTA
** *
59660073 TCGCTCTCTTTTCATTCTTTTTTTTTTGAA
1 T-TTTCT-TTTTC-TTCTTTTTCTTTT--A
59660103 TTTTCTTTTT
1 TTTTCTTTTT
59660113 TTTTTATCAT
Statistics
Matches: 30, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
25 1 0.03
26 3 0.10
27 5 0.17
28 16 0.53
29 3 0.10
30 2 0.07
ACGTcount: A:0.06, C:0.17, G:0.03, T:0.74
Consensus pattern (25 bp):
TTTTCTTTTTCTTCTTTTTCTTTTA
Found at i:59660115 original size:20 final size:20
Alignment explanation
Indices: 59660090--59660136 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
59660080 CTTTTCATTC
*
59660090 TTTTTTTTT-TGAATTTTCT
1 TTTTTTTTTATCAATTTTCT
*
59660109 TTTTTTTTTATCATTTTTCT
1 TTTTTTTTTATCAATTTTCT
*
59660129 TTTCTTTT
1 TTTTTTTT
59660137 GTATTTTCGC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.09, C:0.09, G:0.02, T:0.81
Consensus pattern (20 bp):
TTTTTTTTTATCAATTTTCT
Found at i:59662381 original size:13 final size:13
Alignment explanation
Indices: 59662363--59662395 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
59662353 CCGTATGCAA
59662363 TTTTTTTTTCAAT
1 TTTTTTTTTCAAT
59662376 TTTTTTTTTCAAT
1 TTTTTTTTTCAAT
59662389 TTTTTTT
1 TTTTTTT
59662396 ACGCACCTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTTTTTTCAAT
Found at i:59662712 original size:24 final size:23
Alignment explanation
Indices: 59662658--59662735 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 23
59662648 GGATAATTAA
**
59662658 GAAATGGTATTTGGTTTTGGTAC
1 GAAATGGTATTTGGAATTGGTAC
***
59662681 GTTTTGGTATTTGGGAATTGGTAC
1 GAAATGGTATTT-GGAATTGGTAC
*
59662705 GAAATGGTA--TGGAATTGGTAT
1 GAAATGGTATTTGGAATTGGTAC
*
59662726 GAAATAGTAT
1 GAAATGGTAT
59662736 GGTATTTGGT
Statistics
Matches: 43, Mismatches: 10, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
21 18 0.42
22 1 0.02
23 9 0.21
24 15 0.35
ACGTcount: A:0.27, C:0.03, G:0.31, T:0.40
Consensus pattern (23 bp):
GAAATGGTATTTGGAATTGGTAC
Found at i:59662720 original size:21 final size:21
Alignment explanation
Indices: 59662694--59662760 Score: 80
Period size: 21 Copynumber: 3.1 Consensus size: 21
59662684 TTGGTATTTG
59662694 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
59662715 GGAATTGGTATGAAATAGTAT
1 GGAATTGGTACGAAATGGTAT
* *
59662736 GGTATTTGGTACGAATTGGTTAT
1 GG-AATTGGTACGAAATGG-TAT
59662759 GG
1 GG
59662761 TTCAAAGAGG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
21 21 0.55
22 12 0.32
23 5 0.13
ACGTcount: A:0.30, C:0.03, G:0.33, T:0.34
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:59678299 original size:39 final size:39
Alignment explanation
Indices: 59678256--59678371 Score: 196
Period size: 39 Copynumber: 3.0 Consensus size: 39
59678246 CCGAACATAT
* * *
59678256 TTCCAGCACGTAGCCTACGGACCTTAAGTCCGGATATAA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAA
59678295 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAA
*
59678334 TTCCAGCACATAGCCTGCGGACCCTCAGTCCGGATATA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATA
59678372 CATCACTGAA
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 73 1.00
ACGTcount: A:0.27, C:0.31, G:0.21, T:0.22
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAA
Found at i:59681440 original size:31 final size:29
Alignment explanation
Indices: 59681404--59681461 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 29
59681394 AGTCGAAAAA
* *
59681404 GAAAAAGAGTGTGTGCAAGAAAGTAAAGTTT
1 GAAAAAGAGAGTGAGCAA-AAAG-AAAGTTT
59681435 GAAAAAGAGAGTGAGCAAAAAGAAAGT
1 GAAAAAGAGAGTGAGCAAAAAGAAAGT
59681462 GTGGAAGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 5 0.20
30 4 0.16
31 16 0.64
ACGTcount: A:0.52, C:0.03, G:0.29, T:0.16
Consensus pattern (29 bp):
GAAAAAGAGAGTGAGCAAAAAGAAAGTTT
Found at i:59685487 original size:20 final size:20
Alignment explanation
Indices: 59685442--59685487 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
59685432 GCTCGTTTCT
* *
59685442 AGCTTACTCGAGCTCAAGTC
1 AGCTCACTCAAGCTCAAGTC
* *
59685462 AACTCACTCAAGCTCAATTC
1 AGCTCACTCAAGCTCAAGTC
59685482 AGCTCA
1 AGCTCA
59685488 ATCTTAACCC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.30, C:0.33, G:0.13, T:0.24
Consensus pattern (20 bp):
AGCTCACTCAAGCTCAAGTC
Found at i:59687041 original size:14 final size:14
Alignment explanation
Indices: 59687024--59687092 Score: 54
Period size: 14 Copynumber: 5.1 Consensus size: 14
59687014 AAAAAATTTC
59687024 AAAAAAAAG-GAAA
1 AAAAAAAAGTGAAA
*
59687037 AAAAAGAAGTGAAA
1 AAAAAAAAGTGAAA
*** *
59687051 AAAATCGAGTTAAA
1 AAAAAAAAGTGAAA
*
59687065 AAAAAGAA--GAAA
1 AAAAAAAAGTGAAA
59687077 GAAAAAAAAGTGAAA
1 -AAAAAAAAGTGAAA
59687092 A
1 A
59687093 GTCTTGCGAG
Statistics
Matches: 42, Mismatches: 10, Indels: 7
0.71 0.17 0.12
Matches are distributed among these distances:
12 3 0.07
13 15 0.36
14 20 0.48
15 4 0.10
ACGTcount: A:0.74, C:0.01, G:0.17, T:0.07
Consensus pattern (14 bp):
AAAAAAAAGTGAAA
Found at i:59688212 original size:48 final size:47
Alignment explanation
Indices: 59688112--59688217 Score: 128
Period size: 48 Copynumber: 2.2 Consensus size: 47
59688102 GAGTGTCATG
*
59688112 GAAAAAGAAATTGAGATTGAAAAAGGATATGAAAAAGAGAAAGAAATC
1 GAAAAAGAAATTGAGATTGAAAAAGGATAGGAAAAAGAG-AAGAAATC
*
59688160 GAAAAAGAAATTGAGATTGAACAAAAGTG-TGAGGAAAAAGAG-A-AAATT
1 GAAAAAGAAATTGAGATTG-A-AAAAG-GAT-AGGAAAAAGAGAAGAAATC
59688208 GAAAAAGAAA
1 GAAAAAGAAA
59688218 GAAAAGACAA
Statistics
Matches: 52, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
48 33 0.63
49 2 0.04
50 6 0.12
51 11 0.21
ACGTcount: A:0.60, C:0.02, G:0.24, T:0.14
Consensus pattern (47 bp):
GAAAAAGAAATTGAGATTGAAAAAGGATAGGAAAAAGAGAAGAAATC
Found at i:59689971 original size:20 final size:20
Alignment explanation
Indices: 59689925--59689971 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
59689915 AGCTCGTTTC
*
59689925 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
59689945 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
59689965 CAGCTCA
1 CAGCTCA
59689972 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:59692846 original size:89 final size:89
Alignment explanation
Indices: 59692695--59692872 Score: 347
Period size: 89 Copynumber: 2.0 Consensus size: 89
59692685 CCTTAGATTA
59692695 TAATTAATTACTTTGTATGTGAAAGGATATTTTAGTAATTTCCCAACTAAATCGGTCCCTGGTTA
1 TAATTAATTACTTTGTATGTGAAAGGATATTTTAGTAATTTCCCAACTAAATCGGTCCCTGGTTA
*
59692760 ACTTATGGCATCAACTCAGTCAAG
66 ACTTATGGCATCAACTCAGGCAAG
59692784 TAATTAATTACTTTGTATGTGAAAGGATATTTTAGTAATTTCCCAACTAAATCGGTCCCTGGTTA
1 TAATTAATTACTTTGTATGTGAAAGGATATTTTAGTAATTTCCCAACTAAATCGGTCCCTGGTTA
59692849 ACTTATGGCATCAACTCAGGCAAG
66 ACTTATGGCATCAACTCAGGCAAG
59692873 AGAAGTATAT
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
89 88 1.00
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.35
Consensus pattern (89 bp):
TAATTAATTACTTTGTATGTGAAAGGATATTTTAGTAATTTCCCAACTAAATCGGTCCCTGGTTA
ACTTATGGCATCAACTCAGGCAAG
Found at i:59692979 original size:91 final size:92
Alignment explanation
Indices: 59692872--59693053 Score: 357
Period size: 92 Copynumber: 2.0 Consensus size: 92
59692862 ACTCAGGCAA
59692872 GAGAAGTATATATAGATAAATAATATTTAGTAAATAGAA-TTTTTTTATTTTAAAATTTATTTAG
1 GAGAAGTATATATAGATAAATAATATTTAGTAAATAGAATTTTTTTTATTTTAAAATTTATTTAG
59692936 TAAATAATATTTATCAGCCATTATTAC
66 TAAATAATATTTATCAGCCATTATTAC
59692963 GAGAAGTATATATAGATAAATAATATTTAGTAAATAGAATTTTTTTTATTTTAAAATTTATTTAG
1 GAGAAGTATATATAGATAAATAATATTTAGTAAATAGAATTTTTTTTATTTTAAAATTTATTTAG
59693028 TAAATAATATTTATCAGCCATTATTA
66 TAAATAATATTTATCAGCCATTATTA
59693054 TCCCTTGTAT
Statistics
Matches: 90, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
91 39 0.43
92 51 0.57
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.45
Consensus pattern (92 bp):
GAGAAGTATATATAGATAAATAATATTTAGTAAATAGAATTTTTTTTATTTTAAAATTTATTTAG
TAAATAATATTTATCAGCCATTATTAC
Found at i:59695037 original size:27 final size:27
Alignment explanation
Indices: 59695007--59695092 Score: 95
Period size: 27 Copynumber: 3.1 Consensus size: 27
59694997 GTAAATCTAC
59695007 AAACCAAGGGTATTTC-AGTAATTTTGT
1 AAACCAAGGGTATTTCTA-TAATTTTGT
*
59695034 AAACCAATGGTATTTCTATAATTTT-T
1 AAACCAAGGGTATTTCTATAATTTTGT
* *
59695060 AGAAAGTCAAGGGTATTTCTATAATTGTGT
1 --AAA-CCAAGGGTATTTCTATAATTTTGT
59695090 AAA
1 AAA
59695093 TTAGGGGTAT
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
26 1 0.02
27 22 0.44
28 7 0.14
29 19 0.38
30 1 0.02
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.38
Consensus pattern (27 bp):
AAACCAAGGGTATTTCTATAATTTTGT
Found at i:59695111 original size:27 final size:27
Alignment explanation
Indices: 59695094--59695226 Score: 135
Period size: 27 Copynumber: 4.9 Consensus size: 27
59695084 TTGTGTAAAT
59695094 TAGGGGTATTTTGGTAATTTTACAAA-
1 TAGGGGTATTTTGGTAATTTTACAAAC
* * * *
59695120 TTGAGGGTATTTCGGTAATTTCATAAAC
1 TAG-GGGTATTTTGGTAATTTTACAAAC
**
59695148 TAGTCGTATTTTGGTAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
* **
59695175 TAGGGGTATTTTGGTAATTCTACCCTA-
1 TAGGGGTATTTTGGTAATTTTA-CAAAC
* *
59695202 TAGGGGTATTTTAGTAATTTCACAA
1 TAGGGGTATTTTGGTAATTTTACAA
59695227 TCAAGGGTAA
Statistics
Matches: 84, Mismatches: 20, Indels: 6
0.76 0.18 0.05
Matches are distributed among these distances:
26 3 0.04
27 77 0.92
28 4 0.05
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (27 bp):
TAGGGGTATTTTGGTAATTTTACAAAC
Found at i:59695221 original size:54 final size:54
Alignment explanation
Indices: 59695089--59695193 Score: 149
Period size: 54 Copynumber: 1.9 Consensus size: 54
59695079 TATAATTGTG
* *
59695089 TAAATTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCA
1 TAAACTAGGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGGTAATTTCA
** *
59695143 TAAACTAGTCGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGGTAATT
1 TAAACTAGGGGTATTTTGGTAATTTTACAAA-TAGAGGGTATTTCGGTAATT
59695194 CTACCCTATA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
54 43 0.96
55 2 0.04
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.43
Consensus pattern (54 bp):
TAAACTAGGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGGTAATTTCA
Found at i:59695255 original size:27 final size:27
Alignment explanation
Indices: 59695225--59695342 Score: 157
Period size: 27 Copynumber: 4.4 Consensus size: 27
59695215 GTAATTTCAC
* **
59695225 AATCAAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTTTGTA
59695252 AATCGAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTTTGTA
59695279 AATCGAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTTTGTA
* * * * *
59695306 AATC-AAGGTAAAATAATAATTCTATA
1 AATCGAGGGTAAAACAGTAATTTTGTA
59695332 AATCGAGGGTA
1 AATCGAGGGTA
59695343 CTTTGGTAAT
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
26 21 0.26
27 60 0.74
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTTTGTA
Found at i:59695355 original size:53 final size:54
Alignment explanation
Indices: 59695225--59695342 Score: 157
Period size: 53 Copynumber: 2.2 Consensus size: 54
59695215 GTAATTTCAC
* * * * *
59695225 AATCAAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTAAATCGAAGGTAAAACAATAATTCTATA
** *
59695279 AATCGAGGGTAAAACAGTAATTTTGTAAATC-AAGGTAAAATAATAATTCTATA
1 AATCGAGGGTAAAATGGTAATTTTGTAAATCGAAGGTAAAACAATAATTCTATA
59695332 AATCGAGGGTA
1 AATCGAGGGTA
59695343 CTTTGGTAAT
Statistics
Matches: 56, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
53 28 0.50
54 28 0.50
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (54 bp):
AATCGAGGGTAAAATGGTAATTTTGTAAATCGAAGGTAAAACAATAATTCTATA
Found at i:59695672 original size:34 final size:35
Alignment explanation
Indices: 59695626--59695701 Score: 120
Period size: 34 Copynumber: 2.2 Consensus size: 35
59695616 ATTCTACATG
*
59695626 TAGAG-TAGTGAGAAATACACACCTGATAGGAGAT
1 TAGAGTTAGTGAGAAATACACACCTGATAGGAGAC
59695660 TAGAGTTA-TGAGAAATACACACCTGATAGGAGAC
1 TAGAGTTAGTGAGAAATACACACCTGATAGGAGAC
*
59695694 TGGAGTTA
1 TAGAGTTA
59695702 ATCCACGCTC
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
34 37 0.95
35 2 0.05
ACGTcount: A:0.39, C:0.12, G:0.26, T:0.22
Consensus pattern (35 bp):
TAGAGTTAGTGAGAAATACACACCTGATAGGAGAC
Found at i:59698394 original size:9 final size:9
Alignment explanation
Indices: 59698380--59698407 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
59698370 CTTACTAAAT
59698380 AATCACTCA
1 AATCACTCA
59698389 AATCACTCA
1 AATCACTCA
59698398 AATCACTCA
1 AATCACTCA
59698407 A
1 A
59698408 GGTGTTTAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.46, C:0.32, G:0.00, T:0.21
Consensus pattern (9 bp):
AATCACTCA
Found at i:59701149 original size:54 final size:54
Alignment explanation
Indices: 59700981--59701132 Score: 250
Period size: 54 Copynumber: 2.8 Consensus size: 54
59700971 TTAGTTTACC
* *
59700981 AAATTACCAAAATACGCCTGGTTTGTAAAATTACTAAAATACTCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* *
59701035 AAATCACAAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* *
59701089 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCC
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCC
59701133 CTGATTTGTG
Statistics
Matches: 90, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 90 1.00
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
Found at i:59701155 original size:27 final size:27
Alignment explanation
Indices: 59700981--59701149 Score: 221
Period size: 27 Copynumber: 6.3 Consensus size: 27
59700971 TTAGTTTACC
*
59700981 AAATTACCAAAATACGCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
59701008 AAATTACTAAAATACTCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
59701035 AAATCACAAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
59701062 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
59701089 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
59701116 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
59701143 AAATTAC
1 AAATTAC
59701150 TGAAATTGTA
Statistics
Matches: 122, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 122 1.00
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:59703906 original size:27 final size:27
Alignment explanation
Indices: 59703876--59703932 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
59703866 GTACGGGGCG
*
59703876 TTATAGAAATACCCTCGACCTGTAAAA
1 TTATAGAAATACCCTCAACCTGTAAAA
* *
59703903 TTATTGAAATACCCTCAACTTGTAAAA
1 TTATAGAAATACCCTCAACCTGTAAAA
59703930 TTA
1 TTA
59703933 CCGAAGTACC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (27 bp):
TTATAGAAATACCCTCAACCTGTAAAA
Found at i:59703942 original size:27 final size:27
Alignment explanation
Indices: 59703881--59703944 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
59703871 GGGCGTTATA
* **
59703881 GAAATACCCTCGACCTGTAAAATTATT
1 GAAATACCCTCAACCTGTAAAATTACC
*
59703908 GAAATACCCTCAACTTGTAAAATTACC
1 GAAATACCCTCAACCTGTAAAATTACC
*
59703935 GAAGTACCCT
1 GAAATACCCT
59703945 TGATTTACAG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.38, C:0.25, G:0.11, T:0.27
Consensus pattern (27 bp):
GAAATACCCTCAACCTGTAAAATTACC
Found at i:59703958 original size:27 final size:27
Alignment explanation
Indices: 59703926--59703991 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
59703916 CTCAACTTGT
*
59703926 AAAATTACCGAAGTACCCTTGATTTAC
1 AAAATTACCGAAGTACCCTCGATTTAC
* * ***
59703953 AGAATTATCGTTTTACCCTCGATTTAC
1 AAAATTACCGAAGTACCCTCGATTTAC
59703980 AAAATTACCGAA
1 AAAATTACCGAA
59703992 ATATCCCTGT
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.32
Consensus pattern (27 bp):
AAAATTACCGAAGTACCCTCGATTTAC
Found at i:59704015 original size:23 final size:23
Alignment explanation
Indices: 59703985--59704030 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
59703975 TTTACAAAAT
59703985 TACCGAAATATCCCTGTAGGGTA
1 TACCGAAATATCCCTGTAGGGTA
59704008 TACCGAAATATCCCTGTAGGGTA
1 TACCGAAATATCCCTGTAGGGTA
59704031 GAATTACTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (23 bp):
TACCGAAATATCCCTGTAGGGTA
Found at i:59704043 original size:27 final size:27
Alignment explanation
Indices: 59703982--59704173 Score: 184
Period size: 27 Copynumber: 7.3 Consensus size: 27
59703972 CGATTTACAA
59703982 AATTACCGAAATATCCCTGTAGGGT--
1 AATTACCGAAATATCCCTGTAGGGTAG
59704007 -A-TACCGAAATATCCCTGTAGGGTAG
1 AATTACCGAAATATCCCTGTAGGGTAG
** *
59704032 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATATCCCTGTAGGGTAG
* *
59704059 AATTACCGAAATA-CCCTTATAGAGTAG
1 AATTACCGAAATATCCC-TGTAGGGTAG
* *
59704086 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATATCCCTGTAGGGTAG
* * *
59704113 GATTACTGAAATAAT-CCTGTAAGGTAG
1 AATTACCGAAAT-ATCCCTGTAGGGTAG
* *
59704140 AATTACCGAGATA-CCCT-TATGGGGTAA
1 AATTACCGAAATATCCCTGTA--GGGTAG
59704167 AATTACC
1 AATTACC
59704174 ATTTTACCCC
Statistics
Matches: 137, Mismatches: 20, Indels: 18
0.78 0.11 0.10
Matches are distributed among these distances:
23 22 0.16
24 1 0.01
25 2 0.01
26 8 0.06
27 100 0.73
28 4 0.03
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATATCCCTGTAGGGTAG
Found at i:59704184 original size:81 final size:81
Alignment explanation
Indices: 59704007--59704159 Score: 243
Period size: 81 Copynumber: 1.9 Consensus size: 81
59703997 CCTGTAGGGT
* * *
59704007 ATACCGAAATATCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACCGAAATA
1 ATACCGAAATACCCCTGTAGGGTAGAATTACTAAAATAACCCTGTAAGGTAGAATTACCGAAATA
59704072 CCCTTATAGAGTAGAA
66 CCCTTATAGAGTAGAA
* * * *
59704088 ATACCGAAATACCCCTGTAGGGTAGGATTACTGAAATAATCCTGTAAGGTAGAATTACCGAGATA
1 ATACCGAAATACCCCTGTAGGGTAGAATTACTAAAATAACCCTGTAAGGTAGAATTACCGAAATA
59704153 CCCTTAT
66 CCCTTAT
59704160 GGGGTAAAAT
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 65 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (81 bp):
ATACCGAAATACCCCTGTAGGGTAGAATTACTAAAATAACCCTGTAAGGTAGAATTACCGAAATA
CCCTTATAGAGTAGAA
Found at i:59704462 original size:27 final size:26
Alignment explanation
Indices: 59704418--59704468 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
59704408 CTCGCTGCCA
*
59704418 TCTGGTGGCCTCGCCACATATATCTAT
1 TCTGGTGACCTCGCCACA-ATATCTAT
* *
59704445 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
59704469 GGTAACCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTAT
Found at i:59704597 original size:6 final size:6
Alignment explanation
Indices: 59704588--59704759 Score: 113
Period size: 6 Copynumber: 27.8 Consensus size: 6
59704578 TTGCATTCAC
* *
59704588 ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TTACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG
*
59704638 ATTCTG ATTCTTG -TTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG
1 ATTCTG ATTC-TG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
* * * * *
59704687 ATTCTG -TTACCTA ATCCTG ATTCTG ATTTTG ATTTTG ATTCTG -TCACCTG
1 ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG
* *
59704737 ATTCTG ATTCTC ATTTTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATTCT
59704760 AGTTCTAATA
Statistics
Matches: 131, Mismatches: 18, Indels: 34
0.72 0.10 0.19
Matches are distributed among these distances:
5 11 0.08
6 99 0.76
7 15 0.11
8 6 0.05
ACGTcount: A:0.18, C:0.19, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:59704619 original size:19 final size:19
Alignment explanation
Indices: 59704616--59704747 Score: 110
Period size: 19 Copynumber: 6.7 Consensus size: 19
59704606 TTACCTGATA
59704616 CTGATTCTGATTCTGTTAC
1 CTGATTCTGATTCTGTTAC
*
59704635 CTAATTCTGATTCTTGTT--
1 CTGATTCTGATTC-TGTTAC
59704653 CTGATTCTGATTCTGTTACC
1 CTGATTCTGATTCTGTTA-C
59704673 TGATACTGATTCTGATTCTGTTAC
1 -----CTGATTCTGATTCTGTTAC
* *
59704697 CTAATCCTGATTCTGATT--
1 CTGATTCTGATTCTG-TTAC
* * *
59704715 TTGATTTTGATTCTGTCAC
1 CTGATTCTGATTCTGTTAC
59704734 CTGATTCTGATTCT
1 CTGATTCTGATTCT
59704748 CATTTTGATT
Statistics
Matches: 90, Mismatches: 11, Indels: 24
0.72 0.09 0.19
Matches are distributed among these distances:
17 5 0.06
18 23 0.26
19 37 0.41
20 6 0.07
24 1 0.01
25 18 0.20
ACGTcount: A:0.17, C:0.20, G:0.14, T:0.48
Consensus pattern (19 bp):
CTGATTCTGATTCTGTTAC
Found at i:59704655 original size:25 final size:25
Alignment explanation
Indices: 59704588--59704648 Score: 104
Period size: 25 Copynumber: 2.4 Consensus size: 25
59704578 TTGCATTCAC
*
59704588 ATTCTGATTCTGATTCTGTTACCTG
1 ATTCTGATTCTGATTCTGTTACCTA
*
59704613 ATACTGATTCTGATTCTGTTACCTA
1 ATTCTGATTCTGATTCTGTTACCTA
59704638 ATTCTGATTCT
1 ATTCTGATTCT
59704649 TGTTCTGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.48
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTTACCTA
Found at i:59704683 original size:25 final size:25
Alignment explanation
Indices: 59704653--59704714 Score: 106
Period size: 25 Copynumber: 2.5 Consensus size: 25
59704643 GATTCTTGTT
*
59704653 CTGATTCTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTTACCTAATA
*
59704678 CTGATTCTGATTCTGTTACCTAATC
1 CTGATTCTGATTCTGTTACCTAATA
59704703 CTGATTCTGATT
1 CTGATTCTGATT
59704715 TTGATTTTGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.19, C:0.21, G:0.15, T:0.45
Consensus pattern (25 bp):
CTGATTCTGATTCTGTTACCTAATA
Found at i:59704686 original size:62 final size:62
Alignment explanation
Indices: 59704588--59704747 Score: 259
Period size: 62 Copynumber: 2.6 Consensus size: 62
59704578 TTGCATTCAC
*
59704588 ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATCCTGATTC-TG
59704651 -TTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATCCTGATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATCCTGATTCTG
* * * *
59704712 ATTTTGATTTTGATTCTGTCACCTGATTCTGATTCT
1 ATTCTGATTCTGATTCTGTTACCTGATACTGATTCT
59704748 CATTTTGATT
Statistics
Matches: 91, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
61 2 0.02
62 89 0.98
ACGTcount: A:0.18, C:0.19, G:0.14, T:0.48
Consensus pattern (62 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATCCTGATTCTG
Found at i:59704692 original size:37 final size:37
Alignment explanation
Indices: 59704610--59704692 Score: 123
Period size: 37 Copynumber: 2.2 Consensus size: 37
59704600 ATTCTGTTAC
* *
59704610 CTGATACTGATTCTGATTCTGTTACCTAATTCTGATT
1 CTGATTCTGATTCTGATTCTGTTACCTAATACTGATT
*
59704647 CTTG-TTCTGATTCTGATTCTGTTACCTGATACTGATT
1 C-TGATTCTGATTCTGATTCTGTTACCTAATACTGATT
59704684 CTGATTCTG
1 CTGATTCTG
59704693 TTACCTAATC
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
36 2 0.05
37 37 0.90
38 2 0.05
ACGTcount: A:0.18, C:0.19, G:0.16, T:0.47
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTGTTACCTAATACTGATT
Found at i:59704753 original size:37 final size:37
Alignment explanation
Indices: 59704679--59704759 Score: 117
Period size: 37 Copynumber: 2.2 Consensus size: 37
59704669 TACCTGATAC
* *
59704679 TGATTCTGATTCTGTTACCTAATCCTGATTCTGATTT
1 TGATTCTGATTCTGTCACCTAATCCTGATTCTCATTT
* * *
59704716 TGATTTTGATTCTGTCACCTGATTCTGATTCTCATTT
1 TGATTCTGATTCTGTCACCTAATCCTGATTCTCATTT
59704753 TGATTCT
1 TGATTCT
59704760 AGTTCTAATA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.17, C:0.19, G:0.14, T:0.51
Consensus pattern (37 bp):
TGATTCTGATTCTGTCACCTAATCCTGATTCTCATTT
Found at i:59707514 original size:27 final size:27
Alignment explanation
Indices: 59707476--59707530 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
59707466 TATAATCCTC
59707476 ATTCCTGCTATCAATCTCATCAAAATA
1 ATTCCTGCTATCAATCTCATCAAAATA
59707503 ATTCCTGCTATCAATCTCATCAAAATA
1 ATTCCTGCTATCAATCTCATCAAAATA
59707530 A
1 A
59707531 GGTTTTAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.38, C:0.25, G:0.04, T:0.33
Consensus pattern (27 bp):
ATTCCTGCTATCAATCTCATCAAAATA
Found at i:59725536 original size:49 final size:45
Alignment explanation
Indices: 59725382--59725543 Score: 184
Period size: 46 Copynumber: 3.5 Consensus size: 45
59725372 CGAGTGCTAG
* * *
59725382 TGTAAGACATGTCTAGGACATGCATCAGCCTCGGGACGTAAGCTAA
1 TGTAAGACATGTCTAGGACATGCATCAGCCTCGAGATGT-AGCCAA
* * * *
59725428 TATAAGACATGTCTAGGACATGCATC-GGCTACGAGATGT-GTCAG
1 TGTAAGACATGTCTAGGACATGCATCAGCCT-CGAGATGTAGCCAA
59725472 TGTAAGACCATGTCTAGGACATGGCATCAGCCTCGAAGATGATAGCCAA
1 TGTAAGA-CATGTCTAGGACAT-GCATCAGCCTCG-AGATG-TAGCCAA
59725521 TGTAAGACAATGTCTAGGACATG
1 TGTAAGAC-ATGTCTAGGACATG
59725544 ACATTGGCAC
Statistics
Matches: 97, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
44 8 0.08
45 17 0.18
46 38 0.39
47 8 0.08
48 3 0.03
49 23 0.24
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (45 bp):
TGTAAGACATGTCTAGGACATGCATCAGCCTCGAGATGTAGCCAA
Found at i:59728654 original size:65 final size:65
Alignment explanation
Indices: 59728550--59728875 Score: 616
Period size: 65 Copynumber: 5.0 Consensus size: 65
59728540 CCCCTAGGGT
* * *
59728550 TAAGGTTGACCTGGATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTAA
1 TAAGGTTTACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
*
59728615 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
1 TAAGGTTTACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
59728680 TAAGGTTTACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
1 TAAGGTTTACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
59728745 TAAGGTTTACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
1 TAAGGTTTACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
59728810 TAAGGTTTACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
1 TAAGGTTTACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
59728875 T
1 T
59728876 GCATGGGACT
Statistics
Matches: 258, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 258 1.00
ACGTcount: A:0.25, C:0.15, G:0.17, T:0.43
Consensus pattern (65 bp):
TAAGGTTTACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
Found at i:59736760 original size:47 final size:47
Alignment explanation
Indices: 59736691--59737233 Score: 1068
Period size: 47 Copynumber: 11.6 Consensus size: 47
59736681 CCCTTCGGGA
* *
59736691 CTTATCACATTTATACACTTTCACATCCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59736738 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59736785 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59736832 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59736879 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59736926 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59736973 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59737020 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59737067 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59737114 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59737161 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59737208 CTTATCACATATATACACTTTCACAT
1 CTTATCACATATATACACTTTCACAT
59737234 CACAATTATC
Statistics
Matches: 494, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 494 1.00
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:59740893 original size:40 final size:40
Alignment explanation
Indices: 59740863--59741083 Score: 325
Period size: 40 Copynumber: 5.5 Consensus size: 40
59740853 AGCATGATTA
* * * * *
59740863 CTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATG
1 CTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATG
** * * *
59740903 CTCTTCGAGGTTTAGCACGGATATATTACTAGCACGAATG
1 CTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATG
*
59740943 CTCTTCGAAACTTAGCCCGGATACATCACTAGCACGAATG
1 CTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATG
*
59740983 CTCTTCGAGACTTAACCCGGATACATCACTAGCACGAATG
1 CTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATG
59741023 CTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATG
1 CTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATG
*
59741063 CTCTTCGGGACTTAGCCCGGA
1 CTCTTCGAGACTTAGCCCGGA
59741084 CATCATTCAA
Statistics
Matches: 163, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 163 1.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
CTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATG
Found at i:59741428 original size:29 final size:29
Alignment explanation
Indices: 59741389--59741467 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
59741379 CTTAATAATC
*
59741389 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
59741419 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
59741448 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
59741468 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:59741510 original size:43 final size:43
Alignment explanation
Indices: 59741449--59741534 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
59741439 TGCATTTCAA
59741449 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
*
59741492 GCCCGCACACTTAGTGCCAATCTCACAATCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
59741535 TCGCACACAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.28, C:0.34, G:0.14, T:0.24
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:59741598 original size:29 final size:29
Alignment explanation
Indices: 59741559--59741637 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
59741549 CTTAATAATC
*
59741559 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
59741589 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
59741618 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
59741638 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:59741646 original size:170 final size:170
Alignment explanation
Indices: 59741364--59741678 Score: 630
Period size: 170 Copynumber: 1.9 Consensus size: 170
59741354 ATATAGTGGG
59741364 TTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGTACTTTAAACTCGCACA
1 TTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGTACTTTAAACTCGCACA
59741429 CTTAGTGCCATGCATTTCAAGCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGC
66 CTTAGTGCCATGCATTTCAAGCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGC
59741494 CCGCACACTTAGTGCCAATCTCACAATCGTGAACACTTAT
131 CCGCACACTTAGTGCCAATCTCACAATCGTGAACACTTAT
59741534 TTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGTACTTTAAACTCGCACA
1 TTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGTACTTTAAACTCGCACA
59741599 CTTAGTGCCATGCATTTCAAGCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGC
66 CTTAGTGCCATGCATTTCAAGCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGC
59741664 CCGCACACTTAGTGC
131 CCGCACACTTAGTGC
59741679 TGAAAACCAA
Statistics
Matches: 145, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
170 145 1.00
ACGTcount: A:0.29, C:0.31, G:0.14, T:0.26
Consensus pattern (170 bp):
TTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGTACTTTAAACTCGCACA
CTTAGTGCCATGCATTTCAAGCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGC
CCGCACACTTAGTGCCAATCTCACAATCGTGAACACTTAT
Found at i:59742550 original size:96 final size:96
Alignment explanation
Indices: 59742386--59742578 Score: 359
Period size: 96 Copynumber: 2.0 Consensus size: 96
59742376 ATATTCCCAT
* *
59742386 CTACATATTTTTTTCTAGAATTTTTCGTTGGGCCAATTAGTACAGTTTATTAGTCAAAGTCTCCC
1 CTACATATTTTTTTCTAAAATTTTTCGTCGGGCCAATTAGTACAGTTTATTAGTCAAAGTCTCCC
59742451 ATGTTACAGGGATCGACTACACTGACCTTTG
66 ATGTTACAGGGATCGACTACACTGACCTTTG
*
59742482 CTACATATTTTTTTCTAAAATTTTTGGTCGGGCCAATTAGTACAGTTTATTAGTCAAAGTCTCCC
1 CTACATATTTTTTTCTAAAATTTTTCGTCGGGCCAATTAGTACAGTTTATTAGTCAAAGTCTCCC
59742547 ATGTTACAGGGATCGACTACACTGACCTTTG
66 ATGTTACAGGGATCGACTACACTGACCTTTG
59742578 C
1 C
59742579 GCATTACGAC
Statistics
Matches: 94, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
96 94 1.00
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (96 bp):
CTACATATTTTTTTCTAAAATTTTTCGTCGGGCCAATTAGTACAGTTTATTAGTCAAAGTCTCCC
ATGTTACAGGGATCGACTACACTGACCTTTG
Found at i:59742965 original size:138 final size:138
Alignment explanation
Indices: 59742791--59743065 Score: 516
Period size: 138 Copynumber: 2.0 Consensus size: 138
59742781 TAACATACTC
*
59742791 TCCATATGATCGTTTCGTTACTTTCTTCTGAAAATAGATTCATCAAGGTTCGTTTACATAATTTA
1 TCCATATGATCGTTTCGTTACTTTCTTATGAAAATAGATTCATCAAGGTTCGTTTACATAATTTA
59742856 TTCATTATTTAATTCCAATCCTACTATTTTTAGTGATTTCCCAAATCTACATCACTGCTGCTGCC
66 TTCATTATTTAATTCCAATCCTACTATTTTTAGTGATTTCCCAAATCTACATCACTGCTGCTGCC
59742921 AGCATCTA
131 AGCATCTA
59742929 TCCATATGATCGTTTCGTTACTTT-TCTATGAAAATAGATTCATCAAGGTTCGTTTACATAATTT
1 TCCATATGATCGTTTCGTTACTTTCT-TATGAAAATAGATTCATCAAGGTTCGTTTACATAATTT
*
59742993 ATTCATTATTTAATTCCAATCCTACTATTTTTAGTGATTTTCCAAATCTACATCACTGCTGCTGC
65 ATTCATTATTTAATTCCAATCCTACTATTTTTAGTGATTTCCCAAATCTACATCACTGCTGCTGC
59743058 CAGCATCT
130 CAGCATCT
59743066 GCCTTTAAGG
Statistics
Matches: 134, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
137 1 0.01
138 133 0.99
ACGTcount: A:0.27, C:0.21, G:0.10, T:0.42
Consensus pattern (138 bp):
TCCATATGATCGTTTCGTTACTTTCTTATGAAAATAGATTCATCAAGGTTCGTTTACATAATTTA
TTCATTATTTAATTCCAATCCTACTATTTTTAGTGATTTCCCAAATCTACATCACTGCTGCTGCC
AGCATCTA
Found at i:59745767 original size:85 final size:85
Alignment explanation
Indices: 59745638--59745901 Score: 519
Period size: 85 Copynumber: 3.1 Consensus size: 85
59745628 TATTTTATTG
*
59745638 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
59745703 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
59745723 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
59745788 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
59745808 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
59745873 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
59745893 CCCATGCTC
1 CCCATGCTC
59745902 ATGGCCGGCC
Statistics
Matches: 178, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 178 1.00
ACGTcount: A:0.27, C:0.27, G:0.08, T:0.38
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:59750035 original size:10 final size:10
Alignment explanation
Indices: 59750020--59750047 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
59750010 ATATTACATG
59750020 TTTACTTTGT
1 TTTACTTTGT
59750030 TTTACTTTGT
1 TTTACTTTGT
59750040 TTTACTTT
1 TTTACTTT
59750048 TTCCCCTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.11, C:0.11, G:0.07, T:0.71
Consensus pattern (10 bp):
TTTACTTTGT
Found at i:59750362 original size:3 final size:3
Alignment explanation
Indices: 59750354--59750414 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
59750344 GCTTTTTTAC
59750354 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
59750402 TAT TAT TAT TAT T
1 TAT TAT TAT TAT T
59750415 TTACTTTGTC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:59750445 original size:24 final size:24
Alignment explanation
Indices: 59750413--59750460 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
59750403 ATTATTATTA
*
59750413 TTTTACTTTGTCTTCATTTTTGTC
1 TTTTACTTTGTCTTCAATTTTGTC
59750437 TTTTACTTTGTCTTCAATTTTGTC
1 TTTTACTTTGTCTTCAATTTTGTC
59750461 CATTTTTGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.10, C:0.17, G:0.08, T:0.65
Consensus pattern (24 bp):
TTTTACTTTGTCTTCAATTTTGTC
Found at i:59754478 original size:63 final size:64
Alignment explanation
Indices: 59754372--59754497 Score: 227
Period size: 63 Copynumber: 2.0 Consensus size: 64
59754362 AAACGGCCTT
*
59754372 TCACCCATCCTACGATAAATTTTTATGTACGTGACTTCAAGTATAGTTGTCACATAGGTTCAAC
1 TCACCCATCCTACGATAAATTTTTATGTACGTGACTCCAAGTATAGTTGTCACATAGGTTCAAC
*
59754436 TCACCCATCCTACGATAAA-TTTTATGTACGTGACTCCAAGTATATTTGTCACATAGGTTCAA
1 TCACCCATCCTACGATAAATTTTTATGTACGTGACTCCAAGTATAGTTGTCACATAGGTTCAA
59754498 ACTTATCGAG
Statistics
Matches: 60, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
63 41 0.68
64 19 0.32
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.34
Consensus pattern (64 bp):
TCACCCATCCTACGATAAATTTTTATGTACGTGACTCCAAGTATAGTTGTCACATAGGTTCAAC
Found at i:59754596 original size:57 final size:58
Alignment explanation
Indices: 59754498--59754619 Score: 219
Period size: 57 Copynumber: 2.1 Consensus size: 58
59754488 ATAGGTTCAA
* *
59754498 ACTTATCGAGCTCAACACCAAGTATAAGCATAGCACCTATTAGCCATGTACTCAAGAC
1 ACTTACCGAGCTCAACACCAAGTATAAGCATAGCACATATTAGCCATGTACTCAAGAC
59754556 -CTTACCGAGCTCAACACCAAGTATAAGCATAGCACATATTAGCCATGTACTCAAGAC
1 ACTTACCGAGCTCAACACCAAGTATAAGCATAGCACATATTAGCCATGTACTCAAGAC
59754613 ACTTACC
1 ACTTACC
59754620 CGATCCGCTG
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
57 55 0.90
58 6 0.10
ACGTcount: A:0.36, C:0.29, G:0.13, T:0.22
Consensus pattern (58 bp):
ACTTACCGAGCTCAACACCAAGTATAAGCATAGCACATATTAGCCATGTACTCAAGAC
Found at i:59754735 original size:27 final size:27
Alignment explanation
Indices: 59754696--59754873 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
59754686 ACATTGAGCC
* * * *
59754696 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* * *
59754723 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
**
59754750 CGCACACTTAGTGCTACATAGTCAGGCT
1 CGCACACTTAGTGCTACATAGTCA-AAT
** * *
59754778 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
59754805 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
59754832 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
59754859 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
59754874 GTACAATTTA
Statistics
Matches: 125, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
27 102 0.82
28 23 0.18
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:59754835 original size:82 final size:81
Alignment explanation
Indices: 59754717--59754872 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
59754707 TGCTATATAA
* * **
59754717 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGGCTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCA-AATCGCA
59754782 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
59754799 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
59754863 CACTTAGTGC
65 CACTTAGTGC
59754873 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 17 0.26
82 48 0.74
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:59762083 original size:215 final size:215
Alignment explanation
Indices: 59761705--59762133 Score: 822
Period size: 215 Copynumber: 2.0 Consensus size: 215
59761695 CAAGTTACCG
*
59761705 GGACTCTAAAAACGTAAAGAACTTGAAAAACGGGGTTAGAACGGACTTACAATTGAGCTTGGGAA
1 GGACTCCAAAAACGTAAAGAACTTGAAAAACGGGGTTAGAACGGACTTACAATTGAGCTTGGGAA
*
59761770 GCTTGAAAACCCTAGCCATGGAGTCTCCCTTGGTATACACGTCCATGGTGAAGAAGATGAGCAAA
66 GCTTGAAAACCCTAGCCATGGAGTCTCCATTGGTATACACGTCCATGGTGAAGAAGATGAGCAAA
59761835 ATTGGCTTTTAATTTTGTATTTTAATTCATTTTACCCCTAAATGACCAAAATACCCTTACTACTA
131 ATTGGCTTTTAATTTTGTATTTTAATTCATTTTACCCCTAAATGACCAAAATACCCTTACTACTA
59761900 AACTTTCCAAAAATTCCATA
196 AACTTTCCAAAAATTCCATA
*
59761920 GGACTCCAAAAACGTAAAGAACTTGAAAAACGGGGTTAGAATGGACTTACAATTGAGCTTGGGAA
1 GGACTCCAAAAACGTAAAGAACTTGAAAAACGGGGTTAGAACGGACTTACAATTGAGCTTGGGAA
*
59761985 GCTTGAAAACCCTAGCCATGGAGTCTCCATTGGTATACACGTCCATGGTGAAGAAGATGGGCAAA
66 GCTTGAAAACCCTAGCCATGGAGTCTCCATTGGTATACACGTCCATGGTGAAGAAGATGAGCAAA
59762050 ATTGGCTTTTAATTTTGTATTTTAATTCATTTTACCCCTAAATGACCAAAATACCCTTACTACTA
131 ATTGGCTTTTAATTTTGTATTTTAATTCATTTTACCCCTAAATGACCAAAATACCCTTACTACTA
59762115 AACTTTCCAAAAATTCCAT
196 AACTTTCCAAAAATTCCAT
59762134 CCATGTCCAA
Statistics
Matches: 210, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
215 210 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.28
Consensus pattern (215 bp):
GGACTCCAAAAACGTAAAGAACTTGAAAAACGGGGTTAGAACGGACTTACAATTGAGCTTGGGAA
GCTTGAAAACCCTAGCCATGGAGTCTCCATTGGTATACACGTCCATGGTGAAGAAGATGAGCAAA
ATTGGCTTTTAATTTTGTATTTTAATTCATTTTACCCCTAAATGACCAAAATACCCTTACTACTA
AACTTTCCAAAAATTCCATA
Found at i:59764840 original size:40 final size:40
Alignment explanation
Indices: 59764786--59764920 Score: 234
Period size: 40 Copynumber: 3.4 Consensus size: 40
59764776 TGGATGTAAC
* *
59764786 AACCAGCACAAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
59764826 AACCCGCACGAATGCCTTCGGGACTTAACCCTGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
59764866 AACCCGCATGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
59764906 AACCCGCACGAATGC
1 AACCCGCACGAATGC
59764921 TATGCACATA
Statistics
Matches: 89, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 89 1.00
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.22
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:59767601 original size:3 final size:3
Alignment explanation
Indices: 59767593--59767630 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
59767583 CCTACTTGAT
59767593 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
59767631 CTCTTTTGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:59780089 original size:40 final size:40
Alignment explanation
Indices: 59779917--59780079 Score: 258
Period size: 40 Copynumber: 4.1 Consensus size: 40
59779907 AACCCAAGTA
* * *
59779917 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCCCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
59779956 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
59779996 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
59780036 CCTTCGGGACTTAGCCCGGATGTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
59780076 CCTT
1 CCTT
59780080 TGGATCTTAG
Statistics
Matches: 116, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 13 0.11
40 102 0.88
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:59781479 original size:13 final size:13
Alignment explanation
Indices: 59781461--59781486 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
59781451 ATTTTTATTT
59781461 TTAACATAAAATA
1 TTAACATAAAATA
59781474 TTAACATAAAATA
1 TTAACATAAAATA
59781487 ATTATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:59782906 original size:31 final size:31
Alignment explanation
Indices: 59782841--59782906 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
59782831 AGGCCTCGAG
* * **
59782841 ATATGCTGGTTTTTTTTGGAGGGTAATAGTT
1 ATATGCTGGTTGTGTTTGGAGGGTAATACCT
* *
59782872 ATATGTTGGTTGTGTTTGGAGGGTGATACCT
1 ATATGCTGGTTGTGTTTGGAGGGTAATACCT
59782903 ATAT
1 ATAT
59782907 ACGAGACTCT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.20, C:0.05, G:0.30, T:0.45
Consensus pattern (31 bp):
ATATGCTGGTTGTGTTTGGAGGGTAATACCT
Found at i:59784371 original size:37 final size:37
Alignment explanation
Indices: 59784321--59784395 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
59784311 CCTTTTTCCA
59784321 TGGCAATATTTCACTTCCTTCATTCTCTTCCTCCTTT
1 TGGCAATATTTCACTTCCTTCATTCTCTTCCTCCTTT
59784358 TGGCAATATTTCACTTCCTTCATTCTCTTCCTCCTTT
1 TGGCAATATTTCACTTCCTTCATTCTCTTCCTCCTTT
59784395 T
1 T
59784396 TCTCCTTTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.13, C:0.32, G:0.05, T:0.49
Consensus pattern (37 bp):
TGGCAATATTTCACTTCCTTCATTCTCTTCCTCCTTT
Found at i:59790910 original size:17 final size:17
Alignment explanation
Indices: 59790890--59790966 Score: 72
Period size: 17 Copynumber: 4.7 Consensus size: 17
59790880 ATTTTAATAG
59790890 ATTTAATATTTAATTTA
1 ATTTAATATTTAATTTA
*
59790907 ATTTAATACTT-ATCTTA
1 ATTTAATATTTAAT-TTA
* *
59790924 A--TAGTATTTTA-TTA
1 ATTTAATATTTAATTTA
*
59790938 ATTTAATATTAAATTTA
1 ATTTAATATTTAATTTA
*
59790955 ATTTAATTTTTA
1 ATTTAATATTTA
59790967 TATTATAGAT
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
14 4 0.09
15 6 0.13
16 10 0.21
17 27 0.57
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (17 bp):
ATTTAATATTTAATTTA
Found at i:59791008 original size:62 final size:59
Alignment explanation
Indices: 59790938--59791052 Score: 167
Period size: 62 Copynumber: 1.9 Consensus size: 59
59790928 TATTTTATTA
* * * *
59790938 ATTTAATATTAAATTTAATTTAATTTTTATATTATAGATAAATATTCTATTAATTTGATAAG
1 ATTTAATATTAAATTTAATCTAATATTTAT-CT-TA-ATAAATATTATATTAATTTGATAAG
59791000 ATTTAATATTAAATTTAATCTAATATTTATCTTAATAAATATTATATTAATTT
1 ATTTAATATTAAATTTAATCTAATATTTATCTTAATAAATATTATATTAATTT
59791053 AATATTAAAG
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 18 0.37
60 2 0.04
61 1 0.02
62 28 0.57
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.52
Consensus pattern (59 bp):
ATTTAATATTAAATTTAATCTAATATTTATCTTAATAAATATTATATTAATTTGATAAG
Found at i:59795813 original size:20 final size:21
Alignment explanation
Indices: 59795772--59795814 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
59795762 TATTTTAAAC
* *
59795772 TTCTTCACTTACTTACTTAAA
1 TTCTTCACTTACTTAATCAAA
59795793 TTCTT-ACTTACTTAATCAAA
1 TTCTTCACTTACTTAATCAAA
59795813 TT
1 TT
59795815 TATTAATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.30, C:0.21, G:0.00, T:0.49
Consensus pattern (21 bp):
TTCTTCACTTACTTAATCAAA
Found at i:59796271 original size:163 final size:163
Alignment explanation
Indices: 59796046--59796960 Score: 1812
Period size: 163 Copynumber: 5.6 Consensus size: 163
59796036 ATCCTTTTGA
* *
59796046 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
59796111 TGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
66 TGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
59796176 GCATGGTCTTACATGGGACATTTGCCTTATAGT
131 GCATGGTCTTACATGGGACATTTGCCTTATAGT
59796209 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
59796274 TGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
66 TGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
59796339 GCATGGTCTTACATGGGACATTTGCCTTATAGT
131 GCATGGTCTTACATGGGACATTTGCCTTATAGT
59796372 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
59796437 TGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
66 TGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
59796502 GCATGGTCTTACATGGGACATTTGCCTTATAGT
131 GCATGGTCTTACATGGGACATTTGCCTTATAGT
59796535 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
59796600 TGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
66 TGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
59796665 GCATGGTCTTACATGGGACATTTGCCTTATAGT
131 GCATGGTCTTACATGGGACATTTGCCTTATAGT
59796698 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
59796763 TGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
66 TGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
59796828 GCATGGTCTTACATGGGACATTTGCCTTATAGT
131 GCATGGTCTTACATGGGACATTTGCCTTATAGT
59796861 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
59796926 TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
66 TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
59796961 AAACCCTAAT
Statistics
Matches: 750, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
163 750 1.00
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (163 bp):
AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
TGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
GCATGGTCTTACATGGGACATTTGCCTTATAGT
Found at i:59813379 original size:20 final size:21
Alignment explanation
Indices: 59813338--59813380 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
59813328 TATTTTAAAC
* *
59813338 TTCTTCACTTACTTACTTAAA
1 TTCTTCACTTACTTAATCAAA
59813359 TTCTT-ACTTACTTAATCAAA
1 TTCTTCACTTACTTAATCAAA
59813379 TT
1 TT
59813381 TATTAATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.30, C:0.21, G:0.00, T:0.49
Consensus pattern (21 bp):
TTCTTCACTTACTTAATCAAA
Found at i:59813693 original size:53 final size:54
Alignment explanation
Indices: 59813604--59813819 Score: 267
Period size: 55 Copynumber: 4.0 Consensus size: 54
59813594 TATGTGGTAT
* * *
59813604 CCTTTTGAAACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTG
1 CCTTATGAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTG
* * * *
59813658 CCTTATG-AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CATTTG
1 CCTTATGAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATC-CTTG
* * * * *
59813711 CCTTATAGTAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTG
1 CCTTAT-GAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTG
59813766 CCTTA-GAAACCTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTT
1 CCTTATGAAA-CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
59813820 AAACCCTAAT
Statistics
Matches: 136, Mismatches: 20, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
52 1 0.01
53 47 0.35
54 14 0.10
55 73 0.54
56 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.36
Consensus pattern (54 bp):
CCTTATGAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTG
Found at i:59813756 original size:108 final size:110
Alignment explanation
Indices: 59813612--59813812 Score: 318
Period size: 108 Copynumber: 1.8 Consensus size: 110
59813602 ATCCTTTTGA
* *
59813612 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
*
59813675 -TGCCATGCCTTGGCATGGTCTTACATGGGACATTTGCCTTATAGT
65 TTGCCATGCCTTGACATGGTCTTACATGGGACATTTGCCTTATAGT
* * *
59813720 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
59813785 TGCCATGCCTTGACATGGTCTTACATGG
66 TGCCATGCCTTGACATGGTCTTACATGG
59813813 TATCCTTAAA
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
107 1 0.01
108 49 0.58
109 7 0.08
110 27 0.32
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGACATGGTCTTACATGGGACATTTGCCTTATAGT
Found at i:59813819 original size:55 final size:54
Alignment explanation
Indices: 59813565--59813819 Score: 260
Period size: 55 Copynumber: 4.8 Consensus size: 54
59813555 ACACGGGTAC
* ** **
59813565 CTTACC-ATTGCCATGACTTTTCATGGTCTTATGTGGTATCCTT---TT-GAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
*
59813614 CTTACC-ATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAAA
* * * * *
59813667 CTCACCAA-TGCCATGCCTTGGCATGGTCTTACATGGGA-CATTTGCCTTATAGTAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATC-CTTGCC-T-TAGAAA
* * * *
59813722 CTTATCAA-TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
59813775 CCTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTT
1 -CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTT
59813820 AAACCCTAAT
Statistics
Matches: 170, Mismatches: 23, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
49 38 0.22
52 3 0.02
53 44 0.26
54 12 0.07
55 72 0.42
56 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (54 bp):
CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
Found at i:59824314 original size:35 final size:35
Alignment explanation
Indices: 59824275--59824388 Score: 140
Period size: 35 Copynumber: 3.3 Consensus size: 35
59824265 CAAGATAACT
*
59824275 TCACATATAACCGAATATACAAGTTCAATATAAGC
1 TCACATGTAACCGAATATACAAGTTCAATATAAGC
* * *
59824310 TCACATGTAATCAAATACT-CAAGTTCAATATAACC
1 TCACATGTAACCGAATA-TACAAGTTCAATATAAGC
* **
59824345 TCACCTGTAGGCGAATATACAAGTTCAATATAAGC
1 TCACATGTAACCGAATATACAAGTTCAATATAAGC
*
59824380 TCTCATGTA
1 TCACATGTA
59824389 CTTACCTATG
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
34 1 0.02
35 64 0.97
36 1 0.02
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (35 bp):
TCACATGTAACCGAATATACAAGTTCAATATAAGC
Found at i:59831195 original size:41 final size:41
Alignment explanation
Indices: 59831142--59831291 Score: 194
Period size: 41 Copynumber: 3.7 Consensus size: 41
59831132 CGCTGACTCA
* *
59831142 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTGGCCC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
* * * * * * *
59831183 GAAGGCCCTTCGAAACTAGGTTCGG-TTATGACACTGGCTT
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
* *
59831223 AAAAGCCCTTCGAGACCAAGCTCAGATTATGACACTAGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
59831264 AAAAGCCCTTCGAGACCAAGCTCGGATT
1 AAAAGCCCTTCGAGACCAAGCTCGGATT
59831292 TAAACCCCGA
Statistics
Matches: 89, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
40 30 0.34
41 59 0.66
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.21
Consensus pattern (41 bp):
AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
Found at i:59834088 original size:18 final size:17
Alignment explanation
Indices: 59834065--59834099 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
59834055 TAGGTTGCTT
*
59834065 TGGGCCATATGGGCCCAA
1 TGGGCCA-AAGGGCCCAA
59834083 TGGGCCAAAGGGCCCAA
1 TGGGCCAAAGGGCCCAA
59834100 GTGGATAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.26, C:0.29, G:0.34, T:0.11
Consensus pattern (17 bp):
TGGGCCAAAGGGCCCAA
Found at i:59834226 original size:27 final size:27
Alignment explanation
Indices: 59834196--59834627 Score: 296
Period size: 27 Copynumber: 16.0 Consensus size: 27
59834186 TGTAAGGTAG
* **
59834196 AATTACTAAAATACCCTTGGTTTACAA
1 AATTACTAAAATACCCTTGATTTGTAA
* * **
59834223 AATTACT-AAATACCTTTGGTTTAAAA
1 AATTACTAAAATACCCTTGATTTGTAA
* * ***
59834249 AATTACTAAAACACCCTCGATTAACAA
1 AATTACTAAAATACCCTTGATTTGTAA
* * * *
59834276 AATTACCAAATTACCATTGATTTATAA
1 AATTACTAAAATACCCTTGATTTGTAA
* * *
59834303 AATTACCAAAATACCCTTAATTTGTGA
1 AATTACTAAAATACCCTTGATTTGTAA
* * ** * *
59834330 AATTATTGAAATACCCTCAACTTGTGA
1 AATTACTAAAATACCCTTGATTTGTAA
* * * *
59834357 AATTATTGAAATACCCTCGACTTGTAA
1 AATTACTAAAATACCCTTGATTTGTAA
* *
59834384 AATTACTGAAATACCCTTGACTTGTAA
1 AATTACTAAAATACCCTTGATTTGTAA
* ** *
59834411 AATTA-TCGAAATACCCTCAACTTGTAA
1 AATTACT-AAAATACCCTTGATTTGTAA
**
59834438 AATTACCGAAATACCCTTGATTTGTAA
1 AATTACTAAAATACCCTTGATTTGTAA
* * * *
59834465 AATTACCAAAATACCCCTAATTTGGAA
1 AATTACTAAAATACCCTTGATTTGTAA
** *
59834492 AATTACCGAAATACCCTTGATTTGGAA
1 AATTACTAAAATACCCTTGATTTGTAA
* * * **
59834519 AATTACAAAAATACCCCTAATTTACAA
1 AATTACTAAAATACCCTTGATTTGTAA
**
59834546 AATTA-TAGAAATACCCTTGACTTTAAAAA
1 AATTACTA-AAATACCCTTGA-TTT-GTAA
* * *
59834575 AATTA-TAGAAATACCATTGGTTTGCAA
1 AATTACTA-AAATACCCTTGATTTGTAA
*
59834602 AATTACTAAAATACCCTTGGTTTGTA
1 AATTACTAAAATACCCTTGATTTGTA
59834628 GATTTACCAA
Statistics
Matches: 340, Mismatches: 58, Indels: 14
0.83 0.14 0.03
Matches are distributed among these distances:
26 26 0.08
27 285 0.84
28 8 0.02
29 21 0.06
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (27 bp):
AATTACTAAAATACCCTTGATTTGTAA
Found at i:59834258 original size:53 final size:54
Alignment explanation
Indices: 59834196--59834320 Score: 162
Period size: 53 Copynumber: 2.3 Consensus size: 54
59834186 TGTAAGGTAG
* * * * *
59834196 AATTACTAAAATACCCTTGGTTTACAAAATTACTAAA-TACCTTTGGTTTAAAA
1 AATTACTAAAATACCCTTGATTAACAAAATTACCAAATTACCATTGATTTAAAA
* * *
59834249 AATTACTAAAACACCCTCGATTAACAAAATTACCAAATTACCATTGATTTATAA
1 AATTACTAAAATACCCTTGATTAACAAAATTACCAAATTACCATTGATTTAAAA
*
59834303 AATTACCAAAATACCCTT
1 AATTACTAAAATACCCTT
59834321 AATTTGTGAA
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
53 32 0.53
54 28 0.47
ACGTcount: A:0.44, C:0.19, G:0.05, T:0.32
Consensus pattern (54 bp):
AATTACTAAAATACCCTTGATTAACAAAATTACCAAATTACCATTGATTTAAAA
Found at i:59835160 original size:22 final size:22
Alignment explanation
Indices: 59835108--59835172 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
59835098 GCCAATTATT
* *
59835108 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
59835130 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
* *
59835152 CTGATTATGGTTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
59835173 ACGTATTTAC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:59857450 original size:52 final size:50
Alignment explanation
Indices: 59857354--59857485 Score: 140
Period size: 52 Copynumber: 2.6 Consensus size: 50
59857344 GTTGTGAGAA
* ** *
59857354 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAAATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACATGTCTAAAATGG--TTAGGT
* * *
59857406 CACGTGTGTAGTACTAAGTGTAGGCTACTACATGTACT-AGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACATGT-CTAAAATGGTTAGGT
* * *
59857456 CGCATGAGTAGTACTAAGTGCAAGCTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
59857486 TGTGTACCCG
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
50 31 0.46
52 35 0.52
53 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACATGTCTAAAATGGTTAGGT
Found at i:59857492 original size:50 final size:52
Alignment explanation
Indices: 59857354--59857542 Score: 161
Period size: 50 Copynumber: 3.7 Consensus size: 52
59857344 GTTGTGAGAA
* *
59857354 CACATGTGTAGTACTATGTGCAGGCTACTATGTGT-TTAAAATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACTAAAATGG-TTTAGGT
* * ** *
59857406 CACGTGTGTAGTACTAAGTGTAGGCTACTACATGTACT-AGATGG-TTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACTAAAATGGTTTAGGT
* * * *** * * * *
59857456 CGCATGAGTAGTACTAAGTGCAAGCTACTATGTGTAC-CCGATAGCTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACTAAAATGGTTTAGGT
* * *
59857507 CATATGTGTGGTACTAAGTGCAGGCCACTATGTGTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTA
59857543 AAAGATAACT
Statistics
Matches: 110, Mismatches: 24, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
50 40 0.36
51 34 0.31
52 35 0.32
53 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (52 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACTAAAATGGTTTAGGT
Found at i:59857567 original size:51 final size:51
Alignment explanation
Indices: 59857466--59857636 Score: 148
Period size: 51 Copynumber: 3.4 Consensus size: 51
59857456 CGCATGAGTA
* * *** * * * *
59857466 GTACTAAGTGCAAGCTACTATGTGTACCCGATAGCTTCGATCATATGTGTG
1 GTACTAAGTGCAGGCCACTATGTGTAAAAGATAGCTTTGGTCACAAGTGTG
*
59857517 GTACTAAGTGCAGGCCACTATGTGTAAAAGATAACTTTGGTCACAAGTGTG
1 GTACTAAGTGCAGGCCACTATGTGTAAAAGATAGCTTTGGTCACAAGTGTG
* * * * * * *
59857568 GTACTATGTGAAGGCCACTTTTTG-AAGAAGGTAGCTTT-GACTACAAGGGTG
1 GTACTAAGTGCAGGCCACTATGTGTAA-AAGATAGCTTTGGTC-ACAAGTGTG
*
59857619 GTACTATGTGCAGGCCAC
1 GTACTAAGTGCAGGCCAC
59857637 CGGGAATCCG
Statistics
Matches: 99, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
50 4 0.04
51 95 0.96
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (51 bp):
GTACTAAGTGCAGGCCACTATGTGTAAAAGATAGCTTTGGTCACAAGTGTG
Found at i:59868396 original size:27 final size:27
Alignment explanation
Indices: 59868366--59868542 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
59868356 ATATTGAGTC
* *
59868366 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
59868393 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
59868420 CGCACACTTAGTGCTACATAGTCAATCT
1 CGCACACTTAGTGCTACATAATCAA-CT
** ** *
59868448 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
59868475 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
59868502 CGCACACTTAGTGCAACATAGT-AAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
59868528 CGCACACATAGTGCT
1 CGCACACTTAGTGCT
59868543 GTACAATTTA
Statistics
Matches: 127, Mismatches: 20, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
26 15 0.12
27 88 0.69
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:59868460 original size:55 final size:55
Alignment explanation
Indices: 59868366--59868542 Score: 200
Period size: 54 Copynumber: 3.3 Consensus size: 55
59868356 ATATTGAGTC
* * * * *
59868366 CGCACACTCAGTGCTATATAATCAA-CTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAATCTCGCACACTTAGTGCAACATAGTCAAAT
* ** * *
59868420 CGCACACTTAGTGCTACATAGTCAATCTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAATCTCGCACACTTAGTGCAACATAGTCAAAT
* *
59868475 CGCACACTTAGTGC-ATCATATTC-ATTTCGCACACTTAGTGCAACATAGT-AAAT
1 CGCACACTTAGTGCTA-CATAATCAATCTCGCACACTTAGTGCAACATAGTCAAAT
*
59868528 CGCACACATAGTGCT
1 CGCACACTTAGTGCT
59868543 GTACAATTTA
Statistics
Matches: 104, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
53 16 0.15
54 45 0.43
55 43 0.41
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAATCTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:59868505 original size:82 final size:80
Alignment explanation
Indices: 59868387--59868541 Score: 204
Period size: 82 Copynumber: 1.9 Consensus size: 80
59868377 TGCTATATAA
* * *
59868387 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAATCTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGT-AA-ATCGCA
*
59868452 CACTTAGTGCCGCATGG
64 CACATAGTGCCGCATGG
* * **
59868469 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTAAATCGCAC
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTAAATCGCAC
59868533 ACATAGTGC
65 ACATAGTGC
59868542 TGTACAATTT
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
80 14 0.22
81 3 0.05
82 47 0.73
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (80 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTAAATCGCACA
CATAGTGCCGCATGG
Found at i:59871329 original size:29 final size:29
Alignment explanation
Indices: 59871287--59871514 Score: 273
Period size: 29 Copynumber: 7.9 Consensus size: 29
59871277 CATTAAAGAA
*
59871287 GACCATCGAATATGAAAAGAGATGGTGAT
1 GACCATCGAATATGAAAAGGGATGGTGAT
59871316 GACCATCGAATATGAAAAGGG-TGGTGAT
1 GACCATCGAATATGAAAAGGGATGGTGAT
* *
59871344 GACCATTGAATATGAAAAGGGATGGTAAT
1 GACCATCGAATATGAAAAGGGATGGTGAT
* * *
59871373 GACCATTGAATATGAAGAGGGATGGTGAC
1 GACCATCGAATATGAAAAGGGATGGTGAT
* * *
59871402 GACCATCAAATATGAAAAAGGATGGT-TT
1 GACCATCGAATATGAAAAGGGATGGTGAT
* * * *
59871430 CTACCATCGAATACGAAAAGGGGTGGTGAC
1 -GACCATCGAATATGAAAAGGGATGGTGAT
* * *
59871460 GACCATCGAATATGAAAAAGGACGGTGAC
1 GACCATCGAATATGAAAAGGGATGGTGAT
59871489 GACCATCGAATAT-AGAAAGGGATGGT
1 GACCATCGAATATGA-AAAGGGATGGT
59871515 TTCAACTATC
Statistics
Matches: 169, Mismatches: 26, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
28 28 0.17
29 141 0.83
ACGTcount: A:0.39, C:0.12, G:0.29, T:0.20
Consensus pattern (29 bp):
GACCATCGAATATGAAAAGGGATGGTGAT
Found at i:59874288 original size:3 final size:3
Alignment explanation
Indices: 59874273--59874405 Score: 71
Period size: 3 Copynumber: 45.7 Consensus size: 3
59874263 ATTTTTCTAG
* * * * * * *
59874273 TTA TTA TTT TTA TTA TTA TTA CTA TT- TT- TTG TT- TGA TTT TTC TTC
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
59874318 TTA TTA TT- TGTT TTA CTA TCA TTA TTA TTA TTA TTA TTC TTA TTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
59874363 TT- TGTT TTA CTA TT- TGA TTA TTA TTA TTA TTA TTA TTG TTA TT
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
59874406 TCATTATTTG
Statistics
Matches: 100, Mismatches: 23, Indels: 14
0.73 0.17 0.10
Matches are distributed among these distances:
2 8 0.08
3 90 0.90
4 2 0.02
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:59874334 original size:39 final size:37
Alignment explanation
Indices: 59874315--59874399 Score: 134
Period size: 39 Copynumber: 2.2 Consensus size: 37
59874305 TTGATTTTTC
59874315 TTCTTATTATTTGTTTTACTATCATTATTATTATTATTA
1 TTCTTATTATTTGTTTTACTAT--TTATTATTATTATTA
59874354 TTCTTATTATTTGTTTTACTATTTGATTATTATTATTA
1 TTCTTATTATTTGTTTTACTATTT-ATTATTATTATTA
*
59874392 TTATTATT
1 TTCTTATT
59874400 GTTATTTCAT
Statistics
Matches: 44, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
37 2 0.05
38 20 0.45
39 22 0.50
ACGTcount: A:0.25, C:0.06, G:0.04, T:0.66
Consensus pattern (37 bp):
TTCTTATTATTTGTTTTACTATTTATTATTATTATTA
Found at i:59883239 original size:40 final size:40
Alignment explanation
Indices: 59883184--59883339 Score: 262
Period size: 40 Copynumber: 3.9 Consensus size: 40
59883174 NNNNNNNNNN
*
59883184 TTTGTACGAGTTGCTATATCCGGGCTAAGACCCGAAGGCA
1 TTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCA
*
59883224 TTTGTGCGAGTTGCTATCTCCGGGCTAAGACCCGAAGGCA
1 TTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCA
59883264 TTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCA
1 TTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCA
*
59883304 TTTGTGCGAGTTGTTATATCC-GGCTAA-ATCCCGAAG
1 TTTGTGCGAGTTGCTATATCCGGGCTAAGA-CCCGAAG
59883340 ATGCTTGGGT
Statistics
Matches: 111, Mismatches: 4, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
38 1 0.01
39 13 0.12
40 97 0.87
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
TTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCA
Found at i:59893824 original size:2 final size:2
Alignment explanation
Indices: 59893819--59893868 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
59893809 TATATATATA
59893819 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
59893861 TG TG TG TG
1 TG TG TG TG
59893869 ACATTGAAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:59894988 original size:49 final size:49
Alignment explanation
Indices: 59894916--59895012 Score: 185
Period size: 49 Copynumber: 2.0 Consensus size: 49
59894906 CTTACATAGT
59894916 TACCTCAAAATAGAATAAATGGTAAGTTAAGTACCATGTTATACGAACG
1 TACCTCAAAATAGAATAAATGGTAAGTTAAGTACCATGTTATACGAACG
*
59894965 TACCTCAAAATAGAATAAATGGTAGGTTAAGTACCATGTTATACGAAC
1 TACCTCAAAATAGAATAAATGGTAAGTTAAGTACCATGTTATACGAAC
59895013 TTACTAAGCA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.27
Consensus pattern (49 bp):
TACCTCAAAATAGAATAAATGGTAAGTTAAGTACCATGTTATACGAACG
Found at i:59898144 original size:39 final size:39
Alignment explanation
Indices: 59898101--59899012 Score: 1677
Period size: 39 Copynumber: 23.3 Consensus size: 39
59898091 GGACTAAGAT
*
59898101 CCGAAGGCATTTGTGTGAGATACTAATT-TCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCT-GGGCTAAGC
59898140 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGC
59898179 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGC
59898218 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGC
59898257 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGC
59898296 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGC
59898335 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGC
59898374 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGC
59898413 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGC
59898452 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGC
59898491 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGC
59898530 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGC
59898569 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGC
59898608 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGC
59898647 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGC
59898686 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGC
59898725 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGC
59898764 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGC
59898803 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGC
59898842 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGC
*
59898881 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGC
* * * *
59898920 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAG-C
* * *
59898960 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-TCTGGGCTAAG-C
59899000 CCGAAGGCATTTG
1 CCGAAGGCATTTG
59899013 AACGAGGAGC
Statistics
Matches: 859, Mismatches: 10, Indels: 7
0.98 0.01 0.01
Matches are distributed among these distances:
39 812 0.95
40 47 0.05
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGC
Found at i:59903336 original size:26 final size:26
Alignment explanation
Indices: 59903307--59903365 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
59903297 TGCTCAATAC
*
59903307 AGTCA-TACATCTCATAAGGGCATAAT
1 AGTCATTACACCTCAT-AGGGCATAAT
**
59903333 AGTCATTTTACCTCATAGGGCATAAT
1 AGTCATTACACCTCATAGGGCATAAT
*
59903359 AGACATT
1 AGTCATT
59903366 TATAAAATCT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 21 0.75
27 7 0.25
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.31
Consensus pattern (26 bp):
AGTCATTACACCTCATAGGGCATAAT
Found at i:59905089 original size:56 final size:56
Alignment explanation
Indices: 59905037--59905402 Score: 565
Period size: 56 Copynumber: 6.6 Consensus size: 56
59905027 TTTTACTTGT
* * * *
59905037 ACACATATATCAGAATCACATATCGATGCCAACGTATTAAATGTGGTA-TTACTCAC
1 ACACATATATCAGAGTCACATATCGATGCCAACATATAAAATGTGG-ACTTACTCGC
* * * * * *
59905093 ACATATATATCAGAGTCACATATTGATACCAACGTAGAAAATGTGGACTTACTCAC
1 ACACATATATCAGAGTCACATATCGATGCCAACATATAAAATGTGGACTTACTCGC
* * * * **
59905149 ACATATATATC-GGGTCACATATTGATGCCAACGTATAAAACATGGACTTACTCGC
1 ACACATATATCAGAGTCACATATCGATGCCAACATATAAAATGTGGACTTACTCGC
59905204 ACACATATATCAGAGTCACATATCGATGCCAACATATAAAATGTGGACTTACTCGC
1 ACACATATATCAGAGTCACATATCGATGCCAACATATAAAATGTGGACTTACTCGC
59905260 ACACATATATCAGAGTCACATATCGATGCCAACATATAAAATGTGGACTTACTCGC
1 ACACATATATCAGAGTCACATATCGATGCCAACATATAAAATGTGGACTTACTCGC
59905316 ACACATATATCAGAGTCACATATCGATGCCAACATATAAAATGTGGACTTACTCGC
1 ACACATATATCAGAGTCACATATCGATGCCAACATATAAAATGTGGACTTACTCGC
59905372 ACACATATATCAGAGTCACATATCGATGCCA
1 ACACATATATCAGAGTCACATATCGATGCCA
59905403 CAAATACTTC
Statistics
Matches: 290, Mismatches: 18, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
55 49 0.17
56 241 0.83
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.26
Consensus pattern (56 bp):
ACACATATATCAGAGTCACATATCGATGCCAACATATAAAATGTGGACTTACTCGC
Found at i:59910497 original size:21 final size:21
Alignment explanation
Indices: 59910472--59910512 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
59910462 ACAAGTATGA
* *
59910472 TTTTTGATTTTATCT-AAGTT
1 TTTTTTATGTTATCTCAAGTT
59910492 TTTTTTATGTTATCTCAAGTT
1 TTTTTTATGTTATCTCAAGTT
59910513 ATGTAATGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.20, C:0.07, G:0.10, T:0.63
Consensus pattern (21 bp):
TTTTTTATGTTATCTCAAGTT
Found at i:59912893 original size:42 final size:41
Alignment explanation
Indices: 59912813--59912962 Score: 162
Period size: 41 Copynumber: 3.6 Consensus size: 41
59912803 GAGCTTGGTC
59912813 TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
1 TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
* *
59912854 TCGAAGGGCTTTTTAGAGCCAGTG-TCATAACCGGACTTAGTT
1 TCGAAGGGC-TTTT-GAGCCAGTGCTAATAACCGAACTTAGTT
* * * * * *
59912896 CCGAAGGGCCTTCGAGCCAGTAGTCTAAT--CCGAGCTTGGTC
1 TCGAAGGGCTTTTGAGCCAGT-G-CTAATAACCGAACTTAGTT
*
59912937 TCGAAGGGCTTTTGAGCCGGTGCTAA
1 TCGAAGGGCTTTTGAGCCAGTGCTAA
59912963 GAGTCGGACT
Statistics
Matches: 90, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
39 4 0.04
40 9 0.10
41 37 0.41
42 28 0.31
43 12 0.13
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (41 bp):
TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
Found at i:59912945 original size:41 final size:40
Alignment explanation
Indices: 59912793--59912962 Score: 161
Period size: 41 Copynumber: 4.2 Consensus size: 40
59912783 GCTAATCAGG
*
59912793 GTCTAAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGT
1 GTCT-AATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
* *
59912834 G-CTAATAACCGAACTTAGTTTCGAAGGGCTTTTTAGAGCCAGT
1 GTCTAAT--CCGAGCTTAGTCTCGAAGGGC-TTTT-GAGCCAGT
* *
59912877 GTCATAA-CCG-GACTTAGT-TCCGAAGGGCCTTCGAGCCAGT
1 GTC-TAATCCGAG-CTTAGTCT-CGAAGGGCTTTTGAGCCAGT
* *
59912917 AGTCTAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCGGT
1 -GTCTAATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
59912958 G-CTAA
1 GTCTAA
59912963 GAGTCGGACT
Statistics
Matches: 107, Mismatches: 10, Indels: 26
0.75 0.07 0.18
Matches are distributed among these distances:
39 7 0.07
40 14 0.13
41 50 0.47
42 23 0.21
43 9 0.08
44 1 0.01
45 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (40 bp):
GTCTAATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
Found at i:59916376 original size:28 final size:28
Alignment explanation
Indices: 59916344--59916400 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
59916334 CACAGTACTT
59916344 AATTAGAACATGTTTAATCATCTAAGGA
1 AATTAGAACATGTTTAATCATCTAAGGA
59916372 AATTAGAACATGTTTAATCATCTAAGGA
1 AATTAGAACATGTTTAATCATCTAAGGA
59916400 A
1 A
59916401 GCTAAGGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.32
Consensus pattern (28 bp):
AATTAGAACATGTTTAATCATCTAAGGA
Found at i:59927142 original size:24 final size:24
Alignment explanation
Indices: 59927092--59927145 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
59927082 AATCGAATTT
*
59927092 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
59927116 GCACACATAGTGCCATAGT-ACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
59927140 GCACAC
1 GCACAC
59927146 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 5 0.19
26 3 0.11
ACGTcount: A:0.30, C:0.37, G:0.17, T:0.17
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:59937338 original size:28 final size:28
Alignment explanation
Indices: 59937256--59937345 Score: 119
Period size: 29 Copynumber: 3.1 Consensus size: 28
59937246 TGAGCATGAC
* *
59937256 TATAAATGTGAGTTGTGCAT-GATGGGCCA
1 TATAAATGTGA-TTGGGCCTAG-TGGGCCA
*
59937285 TATAAATGTGATCTGGGCCTAATGGGCCA
1 TATAAATGTGAT-TGGGCCTAGTGGGCCA
59937314 TATAAATGTGATTGGGCCTAGTGGGCCA
1 TATAAATGTGATTGGGCCTAGTGGGCCA
59937342 TATA
1 TATA
59937346 CAGGTATGTG
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
28 20 0.36
29 35 0.64
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (28 bp):
TATAAATGTGATTGGGCCTAGTGGGCCA
Found at i:59941209 original size:25 final size:25
Alignment explanation
Indices: 59941181--59941230 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
59941171 AAAAATCGAG
*
59941181 GATGTATTGGTACGTGTAGAAAAAT
1 GATGTATTGGTACATGTAGAAAAAT
59941206 GATGTATTGGTACATGTAGAAAAAT
1 GATGTATTGGTACATGTAGAAAAAT
59941231 TTATCTTTCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.26, T:0.32
Consensus pattern (25 bp):
GATGTATTGGTACATGTAGAAAAAT
Found at i:59944904 original size:46 final size:46
Alignment explanation
Indices: 59944854--59944953 Score: 148
Period size: 46 Copynumber: 2.2 Consensus size: 46
59944844 CCGATTATCC
* * * *
59944854 CTTCTCCTCTTTCTCAAATGGTTTA-TCCTTGAACCAATTGCTTTTT
1 CTTCTCCTCTCTCTCAAACGGTTTACTCCTT-AACCAATTACTTTTA
59944900 CTTCTCCTCTCTCTCAAACGGTTTACTCCTTAACCAATTACTTTTA
1 CTTCTCCTCTCTCTCAAACGGTTTACTCCTTAACCAATTACTTTTA
59944946 CTTCTCCT
1 CTTCTCCT
59944954 GCCCTCACTG
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
46 44 0.90
47 5 0.10
ACGTcount: A:0.18, C:0.31, G:0.06, T:0.45
Consensus pattern (46 bp):
CTTCTCCTCTCTCTCAAACGGTTTACTCCTTAACCAATTACTTTTA
Found at i:59948513 original size:16 final size:15
Alignment explanation
Indices: 59948492--59948521 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
59948482 TGCTATTAAT
59948492 TTATTAAAATAAAAGC
1 TTATTAAAA-AAAAGC
59948508 TTATTAAAAAAAAG
1 TTATTAAAAAAAAG
59948522 ATGATGCTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (15 bp):
TTATTAAAAAAAAGC
Found at i:59948592 original size:22 final size:19
Alignment explanation
Indices: 59948553--59948594 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
59948543 TGCAAAGTTG
59948553 ATAATAATTAATATATATT
1 ATAATAATTAATATATATT
59948572 ATAATAGATATAATTATATATT
1 ATAATA-AT-TAA-TATATATT
59948594 A
1 A
59948595 AAAATAACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 3 0.15
22 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
ATAATAATTAATATATATT
Found at i:59952921 original size:64 final size:64
Alignment explanation
Indices: 59952816--59953023 Score: 179
Period size: 67 Copynumber: 3.2 Consensus size: 64
59952806 CATCATGTGT
*
59952816 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTACAAG--A-TA-AATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
59952881 TAG
62 TAG
** * * * * * * *
59952884 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACAAGATAAATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGT
59952949 AG
63 AG
* * * * *
59952951 ATAAGAGAGCTACAAGATAAACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-G
1 ACAAGAGAGCTACAAGATAAA-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG
59953013 TACAAGAGAGC
1 -ACAAGAGAGC
59953024 CGAACTATAT
Statistics
Matches: 112, Mismatches: 23, Indels: 15
0.75 0.15 0.10
Matches are distributed among these distances:
62 1 0.01
63 18 0.16
64 21 0.19
65 10 0.09
66 17 0.15
67 29 0.26
68 16 0.14
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.23
Consensus pattern (64 bp):
ACAAGAGAGCTACAAGATAAATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG
Found at i:59953998 original size:29 final size:29
Alignment explanation
Indices: 59953956--59954015 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
59953946 TCAGCATAAC
*
59953956 AATTACTTTGATTTTATAAGCTGTTAGGT
1 AATTACTTTGATTTTACAAGCTGTTAGGT
59953985 AATTACTTTGATTTTACAAGCTGTTAGGT
1 AATTACTTTGATTTTACAAGCTGTTAGGT
59954014 AA
1 AA
59954016 AAGTATTGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.30, C:0.08, G:0.17, T:0.45
Consensus pattern (29 bp):
AATTACTTTGATTTTACAAGCTGTTAGGT
Found at i:59969025 original size:75 final size:75
Alignment explanation
Indices: 59968928--59969105 Score: 200
Period size: 75 Copynumber: 2.4 Consensus size: 75
59968918 ACACAACCGC
* * *
59968928 CGGTTTATCTGACTAGCACTGGGTGCAATCACCCTTGGTTTATCCAACTAGAGCTGGGCTTAC-T
1 CGGTTAATCTGACTAGCACTGGGTGCAAT-ACCCTTGGTCTATCCAACTAGAGCTGGGCTCACAT
59968992 ATAATTA-TCTT
65 -TAATTAGTCTT
* * ***
59969003 CGGTTAATCCGACTAGCACTGGGTGTAAATATTGTTGGTCTATCCAACTAGAGCTGGGCTCACAT
1 CGGTTAATCTGACTAGCACTGGGTG-CAATACCCTTGGTCTATCCAACTAGAGCTGGGCTCACAT
** *
59969068 TTTTTAGTGTT
65 TAATTAGTCTT
*
59969079 -GGTTAATCTGACTAGCACTGGGCGCAA
1 CGGTTAATCTGACTAGCACTGGGTGCAA
59969106 CCTTTTCTGC
Statistics
Matches: 86, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
74 2 0.02
75 77 0.90
76 7 0.08
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (75 bp):
CGGTTAATCTGACTAGCACTGGGTGCAATACCCTTGGTCTATCCAACTAGAGCTGGGCTCACATT
AATTAGTCTT
Found at i:59981424 original size:3 final size:3
Alignment explanation
Indices: 59981416--59981463 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
59981406 TTTTACTGTA
*
59981416 AAT AAT AAT AAT AATT ACT AA- AAT -AT AAT AAT AAT -AT AAT -AT
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
59981458 AAT AAT
1 AAT AAT
59981464 TAAAAGTAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
2 8 0.21
3 28 0.74
4 2 0.05
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:59981533 original size:21 final size:21
Alignment explanation
Indices: 59981504--59981545 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
59981494 AAGGGAAGAG
* *
59981504 GGAATGAAAACGAAAAAGAAA
1 GGAAAGAAAAAGAAAAAGAAA
*
59981525 GGAAAGAAAAAGAAAAGGAAA
1 GGAAAGAAAAAGAAAAAGAAA
59981546 AATTAGTGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.69, C:0.02, G:0.26, T:0.02
Consensus pattern (21 bp):
GGAAAGAAAAAGAAAAAGAAA
Found at i:59981541 original size:16 final size:15
Alignment explanation
Indices: 59981515--59981545 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
59981505 GAATGAAAAC
59981515 GAAAAAGAAAGGAAA
1 GAAAAAGAAAGGAAA
59981530 GAAAAAGAAAAGGAAA
1 GAAAAAG-AAAGGAAA
59981546 AATTAGTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (15 bp):
GAAAAAGAAAGGAAA
Found at i:59983690 original size:164 final size:164
Alignment explanation
Indices: 59983419--59983741 Score: 619
Period size: 164 Copynumber: 2.0 Consensus size: 164
59983409 TGTACCCCTT
*
59983419 TGATGCTTAAGAAATTGCAAGTCAGAATTGCCTACGGGCTGGCCACAGGGGCATGTGCCCCTAAC
1 TGATGCTTAAGAAATTGCAAGTCAGAATTGCCCACGGGCTGGCCACAGGGGCATGTGCCCCTAAC
*
59983484 TTCAAGAAAAAATTTTCGAAGTTTTCCAAAGTTACTGGTTTAGTTCCAAATTATTTCTAAAGCAT
66 TTCAAGAAAAAATTTTCAAAGTTTTCCAAAGTTACTGGTTTAGTTCCAAATTATTTCTAAAGCAT
*
59983549 GTAATGGGCCCCGTAGGTCCATATTAGGGGCATG
131 GTAATGGGCCCCGTAGGCCCATATTAGGGGCATG
59983583 TGATGCTTAAGAAATTGCAAGTCAGAATTGCCCACGGGCTGGCCACAGGGGCATGTGCCCCTAAC
1 TGATGCTTAAGAAATTGCAAGTCAGAATTGCCCACGGGCTGGCCACAGGGGCATGTGCCCCTAAC
59983648 TTCAAGAAAAAATTTTCAAAGTTTTCCAAAGTTACTGGTTTAGTTCCAAATTATTTCTAAAGCAT
66 TTCAAGAAAAAATTTTCAAAGTTTTCCAAAGTTACTGGTTTAGTTCCAAATTATTTCTAAAGCAT
59983713 GTAATGGGCCCCGTAGGCCCATATTAGGG
131 GTAATGGGCCCCGTAGGCCCATATTAGGG
59983742 ACTTTATGGT
Statistics
Matches: 156, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
164 156 1.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (164 bp):
TGATGCTTAAGAAATTGCAAGTCAGAATTGCCCACGGGCTGGCCACAGGGGCATGTGCCCCTAAC
TTCAAGAAAAAATTTTCAAAGTTTTCCAAAGTTACTGGTTTAGTTCCAAATTATTTCTAAAGCAT
GTAATGGGCCCCGTAGGCCCATATTAGGGGCATG
Found at i:59984007 original size:29 final size:29
Alignment explanation
Indices: 59983970--59984028 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
59983960 AATTTCGAGT
59983970 GTTAAAATAAAAGAAATAATAAATAAAGA
1 GTTAAAATAAAAGAAATAATAAATAAAGA
59983999 GTTAAAATAAAAGAAATAATAAATAAAGA
1 GTTAAAATAAAAGAAATAATAAATAAAGA
59984028 G
1 G
59984029 GCAAAATTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.68, C:0.00, G:0.12, T:0.20
Consensus pattern (29 bp):
GTTAAAATAAAAGAAATAATAAATAAAGA
Found at i:59984034 original size:29 final size:29
Alignment explanation
Indices: 59983973--59984044 Score: 108
Period size: 29 Copynumber: 2.5 Consensus size: 29
59983963 TTCGAGTGTT
**
59983973 AAAATAAAAGAAATAATAAATAAAGAGTT
1 AAAATAAAAGAAATAATAAATAAAGAGGC
59984002 AAAATAAAAGAAATAATAAATAAAGAGGC
1 AAAATAAAAGAAATAATAAATAAAGAGGC
* *
59984031 AAAATTAAATAAAT
1 AAAATAAAAGAAAT
59984045 GAGGGATTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.69, C:0.01, G:0.10, T:0.19
Consensus pattern (29 bp):
AAAATAAAAGAAATAATAAATAAAGAGGC
Found at i:59986279 original size:27 final size:26
Alignment explanation
Indices: 59986228--59986279 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
59986218 CCTAATACTA
* *
59986228 ATATTTATTAAAATTATTATTAAATT
1 ATATTTAATAAAATTATTATAAAATT
59986254 ATATTTAATAATAATTATGT-TAAAAT
1 ATATTTAATAA-AATTAT-TATAAAAT
59986280 ATGATTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 10 0.45
27 11 0.50
28 1 0.05
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (26 bp):
ATATTTAATAAAATTATTATAAAATT
Found at i:59986484 original size:39 final size:40
Alignment explanation
Indices: 59986414--59986491 Score: 106
Period size: 39 Copynumber: 2.0 Consensus size: 40
59986404 TTTCTTATAC
*
59986414 TATTACAACATCTATTCCATTCAATCAAACAAAAGAATTT
1 TATTACAACATCTATTCCATTCAATCAAACAAAACAATTT
* *
59986454 TATTACAAC-TCTGTTCCATTCCATTC-AACAAAACAATT
1 TATTACAACATCTATTCCATT-CAATCAAACAAAACAATT
59986492 GAATTACTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
39 21 0.62
40 13 0.38
ACGTcount: A:0.41, C:0.23, G:0.03, T:0.33
Consensus pattern (40 bp):
TATTACAACATCTATTCCATTCAATCAAACAAAACAATTT
Found at i:59988270 original size:17 final size:17
Alignment explanation
Indices: 59988248--59988282 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
59988238 ATATATATAT
*
59988248 ATATATATGCTTGATGA
1 ATATATATACTTGATGA
59988265 ATATATATACTTGATGA
1 ATATATATACTTGATGA
59988282 A
1 A
59988283 AAAATCAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.40, C:0.06, G:0.14, T:0.40
Consensus pattern (17 bp):
ATATATATACTTGATGA
Found at i:59988562 original size:16 final size:16
Alignment explanation
Indices: 59988541--59988580 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
59988531 GATATAATTA
59988541 AATAAAAT-TTATTTT
1 AATAAAATATTATTTT
*
59988556 AATTAAAATATTATTTC
1 AA-TAAAATATTATTTT
59988573 AATAAAAT
1 AATAAAAT
59988581 GGTAAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 2 0.09
16 12 0.55
17 8 0.36
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
AATAAAATATTATTTT
Found at i:59988888 original size:20 final size:20
Alignment explanation
Indices: 59988865--59988906 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
59988855 TCTTTTAACG
59988865 TTTTTTCTTTGGTTCTTACT
1 TTTTTTCTTTGGTTCTTACT
59988885 TTTTTTCTTTGGTTCTTACT
1 TTTTTTCTTTGGTTCTTACT
59988905 TT
1 TT
59988907 CTTTATTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.05, C:0.14, G:0.10, T:0.71
Consensus pattern (20 bp):
TTTTTTCTTTGGTTCTTACT
Found at i:59988915 original size:20 final size:20
Alignment explanation
Indices: 59988872--59988915 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
59988862 ACGTTTTTTC
* *
59988872 TTTGGTTCTTACTTTTTTTC
1 TTTGGTTCTTACTTTCTTTA
59988892 TTTGGTTCTTACTTTCTTTA
1 TTTGGTTCTTACTTTCTTTA
59988912 TTTG
1 TTTG
59988916 ATGGAAGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.07, C:0.14, G:0.11, T:0.68
Consensus pattern (20 bp):
TTTGGTTCTTACTTTCTTTA
Done.