Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 306 of 770
Found at i:93551854 original size:315 final size:310
Alignment explanation
Indices: 93551289--93552004 Score: 1088
Period size: 315 Copynumber: 2.3 Consensus size: 310
93551279 TATGACTAAT
* *
93551289 TGTTTTTTAATTTATATGTTAAATATTTTTTTATATAATTGTAAAAGAGATAGTATTAATTTTAA
1 TGTTTTTTAATTTATATGATAAATATTTTATTATATAATTGTAAAAGAGATAGTATTAATTTTAA
** *
93551354 AATATTGAATTAATTATCATTATAGTTTAGGGTTTACGGTATATGATTAAGGGTTTAATGTTTAT
66 AATATTGAATTAATTATCATTATAGTTTAGGGTTTACGGTATATGATTAAGGGTTTAAAATGTAT
* *
93551419 GAGTTACTATTTTAAGGTTTATGGATTATGGGTTTAGGGATTATGGTTTATGGTTTAAGGGTTGG
131 GAGCTACTATATTAAGGTTTATGGATTATGGGTTTAGGGATTATGGTTTATGGTTTAAGGGTTGG
*
93551484 GGTTTAAGGCTCAGGGGTTAAGGGTGAAGTGTTAGGTTTTTAGGGTTTATAGATTATGTTTGTGA
196 GGTTTAAGGCTCAGGGGTTAAGGGTGAAGTGTTAGGTTTTTAGGGTTTATAGATTATGTTTATGA
*
93551549 TTTAGGGTTT-AGGGGTAGGG-TTAGGGGTTAAAGGCTTAGATTAATTAG
261 TTTAGGGTTTAAGGGGTAGGGATTAGGGGTTAAAGGCTTAGATTAATTAA
* **
93551597 TGTTTTTTAATTTATATGATAAATATTTTCTTATATAATTACAAAAGAGATAGTATTAATTTTAA
1 TGTTTTTTAATTTATATGATAAATATTTTATTATATAATTGTAAAAGAGATAGTATTAATTTTAA
* * *
93551662 AATATTGAATTAATTATCATTATAGTTTAGGGTTTATGGTTTAGGGTATATGGTTTAGGGTTTAA
66 AATATTGAATTAATTATCATTATAGTTTA--G-----GGTTTACGGTATATGATTAAGGGTTTAA
93551727 AATGTATGAGCTACTATATTAAGGTTTATGGATTATGGGTTTAGGGATTATGGTTTATGGTTTAA
124 AATGTATGAGCTACTATATTAAGGTTTATGGATTATGGGTTTAGGGATTATGGTTTATGGTTTAA
* * *
93551792 GGGTTGGGGTTTAAGGCTTAGGGGTTAGGGGTTAAGTGTTAGGTTTTTAGGGTTTATAGATTATG
189 GGGTTGGGGTTTAAGGCTCAGGGGTTAAGGGTGAAGTGTTAGGTTTTTAGGGTTTATAGATTATG
*
93551857 TTTATGATTTAGGGTTTAAGGGGTAGGGATTAGGGGTTTAAGGCTTAGATTAATTAA
254 TTTATGATTTAGGGTTTAAGGGGTAGGGATTAGGGGTTAAAGGCTTAGATTAATTAA
* *
93551914 TGTTTTGTAATTTATAT-ATTAAATGA-TTTATTATATAATTGTAAAAGAGATAATATTAATTTT
1 TGTTTTTTAATTTATATGA-TAAAT-ATTTTATTATATAATTGTAAAAGAGATAGTATTAATTTT
*
93551977 AATATATT-AA--AATTA-CGATTATAGTTTA
64 AAAATATTGAATTAATTATC-ATTATAGTTTA
93552005 AATTATGTAA
Statistics
Matches: 372, Mismatches: 24, Indels: 18
0.90 0.06 0.04
Matches are distributed among these distances:
308 90 0.24
310 1 0.00
313 1 0.00
314 16 0.04
315 163 0.44
316 13 0.03
317 87 0.23
318 1 0.00
ACGTcount: A:0.30, C:0.02, G:0.24, T:0.45
Consensus pattern (310 bp):
TGTTTTTTAATTTATATGATAAATATTTTATTATATAATTGTAAAAGAGATAGTATTAATTTTAA
AATATTGAATTAATTATCATTATAGTTTAGGGTTTACGGTATATGATTAAGGGTTTAAAATGTAT
GAGCTACTATATTAAGGTTTATGGATTATGGGTTTAGGGATTATGGTTTATGGTTTAAGGGTTGG
GGTTTAAGGCTCAGGGGTTAAGGGTGAAGTGTTAGGTTTTTAGGGTTTATAGATTATGTTTATGA
TTTAGGGTTTAAGGGGTAGGGATTAGGGGTTAAAGGCTTAGATTAATTAA
Found at i:93552468 original size:35 final size:35
Alignment explanation
Indices: 93552404--93552521 Score: 191
Period size: 35 Copynumber: 3.3 Consensus size: 35
93552394 CAATGATATG
* *
93552404 CAATCTTAGATGTGATATGCAATCATAGATATGATA
1 CAATCTTAGATATGAT-TGCAATCTTAGATATGATA
93552440 CAATCTTAGATATGATTGCAATCTTAGATATGATA
1 CAATCTTAGATATGATTGCAATCTTAGATATGATA
93552475 CAATCTTAGATATGATTGCAATCTTAGATATGATATA
1 CAATCTTAGATATGATTGCAATCTTAGATATG--ATA
93552512 CAATCTTAGA
1 CAATCTTAGA
93552522 AGATATGATT
Statistics
Matches: 78, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
35 50 0.64
36 15 0.19
37 13 0.17
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (35 bp):
CAATCTTAGATATGATTGCAATCTTAGATATGATA
Found at i:93553023 original size:17 final size:17
Alignment explanation
Indices: 93552997--93553058 Score: 60
Period size: 17 Copynumber: 3.7 Consensus size: 17
93552987 TTCTAAACCA
*
93552997 ATATATTTATATATTTT
1 ATATAATTATATATTTT
93553014 ATATAATTAT-TATTCTT
1 ATATAATTATATATT-TT
93553031 ATA-AA-TATAT-TTTT
1 ATATAATTATATATTTT
93553045 ATTATATATTATAT
1 A-TATA-ATTATAT
93553059 TTTAAATTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
14 3 0.08
15 7 0.18
16 8 0.21
17 15 0.39
18 5 0.13
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (17 bp):
ATATAATTATATATTTT
Found at i:93553061 original size:17 final size:16
Alignment explanation
Indices: 93553006--93553072 Score: 59
Period size: 16 Copynumber: 4.2 Consensus size: 16
93552996 AATATATTTA
93553006 TATATTTTATATA-AT
1 TATATTTTATATATAT
*
93553021 TATTATTCTTATAAATA-
1 TA-TATT-TTATATATAT
93553038 TAT-TTTTATTATATAT
1 TATATTTTA-TATATAT
* *
93553054 TATATTTTAAATTTAT
1 TATATTTTATATATAT
93553070 TAT
1 TAT
93553073 TAAATATCAC
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
14 3 0.07
15 9 0.21
16 16 0.38
17 13 0.31
18 1 0.02
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.61
Consensus pattern (16 bp):
TATATTTTATATATAT
Found at i:93553086 original size:26 final size:25
Alignment explanation
Indices: 93553039--93553087 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
93553029 TTATAAATAT
* * *
93553039 ATTTTTATTATATATTATATTTTAA
1 ATTTTTATTAAATATCACATTTTAA
93553064 ATTTATTATTAAATATCACATTTT
1 ATTT-TTATTAAATATCACATTTT
93553088 TTTATATGCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 4 0.20
26 16 0.80
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (25 bp):
ATTTTTATTAAATATCACATTTTAA
Found at i:93556323 original size:2 final size:2
Alignment explanation
Indices: 93556316--93556348 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
93556306 AGAAAGAAAA
93556316 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A- AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
93556349 GGTCACATGT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:93557758 original size:24 final size:24
Alignment explanation
Indices: 93557722--93557811 Score: 155
Period size: 24 Copynumber: 3.8 Consensus size: 24
93557712 CTTATTATGT
**
93557722 TCGCAC-CATAGTGCCATAGCGAA
1 TCGCACACATAGTGCCATAGTAAA
93557745 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
93557769 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
93557793 TCGCACACATAGTGCCATA
1 TCGCACACATAGTGCCATA
93557812 TATCCAGCAC
Statistics
Matches: 64, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
23 6 0.09
24 58 0.91
ACGTcount: A:0.34, C:0.28, G:0.18, T:0.20
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:93557835 original size:26 final size:28
Alignment explanation
Indices: 93557794--93557864 Score: 110
Period size: 28 Copynumber: 2.6 Consensus size: 28
93557784 CATAGTAAAT
93557794 CGCACACATAGTGCCATATA-TCCAGCA
1 CGCACACATAGTGCCATATATTCCAGCA
93557821 CGCACAC-TAGTGCCATATATTTCCAGCA
1 CGCACACATAGTGCCATATA-TTCCAGCA
*
93557849 CGCACACTTAGTGCCA
1 CGCACACATAGTGCCA
93557865 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
26 12 0.29
27 7 0.17
28 14 0.34
29 8 0.20
ACGTcount: A:0.30, C:0.34, G:0.15, T:0.21
Consensus pattern (28 bp):
CGCACACATAGTGCCATATATTCCAGCA
Found at i:93565641 original size:24 final size:24
Alignment explanation
Indices: 93565605--93565718 Score: 203
Period size: 24 Copynumber: 4.8 Consensus size: 24
93565595 CTTATTATGT
**
93565605 TCGCAC-CATAGTGCCATAGCGAA
1 TCGCACACATAGTGCCATAGTAAA
93565628 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
93565652 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
93565676 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
93565700 TCGCACACATAGTGCCATA
1 TCGCACACATAGTGCCATA
93565719 TATTTCCAGC
Statistics
Matches: 88, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
23 6 0.07
24 82 0.93
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.20
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:93565743 original size:29 final size:29
Alignment explanation
Indices: 93565701--93565774 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
93565691 CATAGTAAAT
*
93565701 CGCACACATAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
93565730 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
93565759 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
93565775 ATCTCGTCAC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.24
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:93569844 original size:13 final size:12
Alignment explanation
Indices: 93569819--93569861 Score: 61
Period size: 13 Copynumber: 3.5 Consensus size: 12
93569809 CTTCTATTTC
93569819 AAAAAAAAA-AG
1 AAAAAAAAAGAG
93569830 AAAAGAAAAAGAG
1 AAAA-AAAAAGAG
93569843 AAAAAATAAAGAG
1 AAAAAA-AAAGAG
93569856 AAAAAA
1 AAAAAA
93569862 GGAAAAAATG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
11 4 0.14
12 7 0.24
13 18 0.62
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (12 bp):
AAAAAAAAAGAG
Found at i:93569870 original size:21 final size:20
Alignment explanation
Indices: 93569823--93569870 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
93569813 TATTTCAAAA
*
93569823 AAAAAAGAAAAGAAAAAGAG
1 AAAAAATAAAAGAAAAAGAG
93569843 AAAAAATAAAGAGAAAAA-AGG
1 AAAAAATAAA-AGAAAAAGA-G
93569864 AAAAAAT
1 AAAAAAT
93569871 GGATAGGCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 10 0.40
21 15 0.60
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.04
Consensus pattern (20 bp):
AAAAAATAAAAGAAAAAGAG
Found at i:93570882 original size:44 final size:44
Alignment explanation
Indices: 93570740--93570914 Score: 158
Period size: 44 Copynumber: 4.0 Consensus size: 44
93570730 AAGAAACAAG
* * * *
93570740 ATTTGGCATCCCTATGTTTATAGGGAACAGATCAAAGATAGTAG
1 ATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAA
* * * * * * * ** *
93570784 ATCTGACATTCCTGTGCTTACAGCGAAGCAGATTGAAGATTTCAGC
1 ATTTGGCATCCCTGTGTTTATAGGGAA-CAGATCGAAGATAGCA-A
* *
93570830 A--TGGCATCCCTTTGTTTATAGGGAACA-AGTTGAAGATAGCAA
1 ATTTGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGCAA
93570872 ATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCA
1 ATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCA
93570915 GATCTAACCT
Statistics
Matches: 101, Mismatches: 24, Indels: 12
0.74 0.18 0.09
Matches are distributed among these distances:
42 2 0.02
43 12 0.12
44 74 0.73
45 12 0.12
46 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (44 bp):
ATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAA
Found at i:93571336 original size:237 final size:238
Alignment explanation
Indices: 93570913--93571382 Score: 762
Period size: 237 Copynumber: 2.0 Consensus size: 238
93570903 TCGAAGATAG
*
93570913 CAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTATGTTTAC
1 CAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTATGTCTAC
* * * *
93570978 AGGGAACAAATCGAGGACATAGTAGATTTGACTCTCAGACATTCTCAAAGATAGCATATCTAACC
66 AAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACATTCTCAAAGATAGCAGATCTAACC
* * * *
93571043 TTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAAT
131 TTCAGATGTTTATACTGAAGCAGATCCAAGATGATCTGGCATCCTTGTGCTTACAAGGAACAAAT
* *
93571108 CAAGGACATAG-AGATTTGACTCTCAGACGTTCTCAAATATAA
196 CAAGGACATAGCAGATATGACTCTCAAACGTTCTCAAATATAA
* *
93571150 CAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTCTAC
1 CAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTATGTCTAC
*
93571215 AAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACATTCTCAAATATAGCAGATCTAACC
66 AAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACATTCTCAAAGATAGCAGATCTAACC
*
93571280 TTCAGATGTTTATACTGAAGCAGATCCAAGATGGTCTGGCATCCTTGTGCTTACAAGGAACAAAT
131 TTCAGATGTTTATACTGAAGCAGATCCAAGATGATCTGGCATCCTTGTGCTTACAAGGAACAAAT
* * * *
93571345 CGAGGACATTGCAGATATGACTCTTAAATGTTCTCAAA
196 CAAGGACATAGCAGATATGACTCTCAAACGTTCTCAAA
93571383 CAGACTCAAG
Statistics
Matches: 213, Mismatches: 19, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
237 191 0.90
238 22 0.10
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (238 bp):
CAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTATGTCTAC
AAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACATTCTCAAAGATAGCAGATCTAACC
TTCAGATGTTTATACTGAAGCAGATCCAAGATGATCTGGCATCCTTGTGCTTACAAGGAACAAAT
CAAGGACATAGCAGATATGACTCTCAAACGTTCTCAAATATAA
Found at i:93571382 original size:119 final size:119
Alignment explanation
Indices: 93570909--93571368 Score: 751
Period size: 119 Copynumber: 3.9 Consensus size: 119
93570899 CAGATCGAAG
*
93570909 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTATGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
* * *
93570974 TTACAGGGAACAAATCGAGGACATAGTAGATTTGACTCTCAGACATTCTCAAAG
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACATTCTCAAAT
* *
93571028 ATAGCATATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
* *
93571093 TTACAAGGAACAAATCAAGGACATAG-AGATTTGACTCTCAGACGTTCTCAAAT
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACATTCTCAAAT
* *
93571146 ATAACAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
* *
93571211 CTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACATTCTCAAAT
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACATTCTCAAAT
* * * *
93571265 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTCTGGCATCCTTGTGC
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
* *
93571330 TTACAAGGAACAAATCGAGGACATTGCAGATATGACTCT
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCT
93571369 TAAATGTTCT
Statistics
Matches: 317, Mismatches: 23, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
118 111 0.35
119 206 0.65
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (119 bp):
ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACATTCTCAAAT
Found at i:93571411 original size:83 final size:83
Alignment explanation
Indices: 93571306--93571907 Score: 990
Period size: 83 Copynumber: 7.2 Consensus size: 83
93571296 GAAGCAGATC
* * *
93571306 CAAGATGGTCTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTTA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGATATGACTCTCA
93571371 AATGTTCTCAAACAGACT
66 AATGTTCTCAAACAGACT
* *
93571389 CAAGATGGTTTGGCATCCTTGTGCTTATAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGATATGACTCTCA
93571454 AATGTTCTCAAACAGACT
66 AATGTTCTCAAACAGACT
*
93571472 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGATATGACTCTCA
*
93571537 AATGTTCTCAAATAGACT
66 AATGTTCTCAAACAGACT
* *
93571555 CAAGATGTTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGACATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGATATGACTCTCA
93571620 AATGTTCTCAAACAGACT
66 AATGTTCTCAAACAGACT
* * * *
93571638 CAAGATGGTTTAGGCATCCTTGTGCTTACAAGGAGCAAGTTGAGGACCTTGCATATATGACTCTC
1 CAAGATGGTTT-GGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGATATGACTCTC
*
93571703 AAATGTTCTCAAATAGACT
65 AAATGTTCTCAAACAGACT
*
93571722 CAAGAT-GTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGACATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGATATGACTCTCA
93571786 AATGTTCTCAAACAGACT
66 AATGTTCTCAAACAGACT
* * *
93571804 CAAGATGGTTTAGGCATCCTTGTGCTTACAAGGAGCAAGTCGAGGACCTTGCAGATATGATTCTC
1 CAAGATGGTTT-GGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGATATGACTCTC
*
93571869 AAATGTTCTCAAATAGACT
65 AAATGTTCTCAAACAGACT
* *
93571888 CAAGATGATTTGACATCCTT
1 CAAGATGGTTTGGCATCCTT
93571908 ACAAATTGAA
Statistics
Matches: 487, Mismatches: 29, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
82 72 0.15
83 266 0.55
84 149 0.31
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.28
Consensus pattern (83 bp):
CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGATATGACTCTCA
AATGTTCTCAAACAGACT
Found at i:93572341 original size:17 final size:17
Alignment explanation
Indices: 93572301--93572417 Score: 153
Period size: 17 Copynumber: 6.5 Consensus size: 17
93572291 AATGATATGT
*
93572301 AATCTTAGATGTGATATGC
1 AATCTTAGATATGATA--C
93572320 AATCTTAGATATGATAC
1 AATCTTAGATATGATAC
*
93572337 AATCTTAGATATGATTGC
1 AATCTTAGATATGA-TAC
93572355 AATCTTAGATATGATAC
1 AATCTTAGATATGATAC
*
93572372 AATCTTAGATATGATTGC
1 AATCTTAGATATGA-TAC
93572390 AATCTTAGATATTGTATAC
1 AATCTTAGATA-TG-ATAC
93572409 AATCTTAGA
1 AATCTTAGA
93572418 AGATATGATT
Statistics
Matches: 89, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
17 31 0.35
18 29 0.33
19 28 0.31
20 1 0.01
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.38
Consensus pattern (17 bp):
AATCTTAGATATGATAC
Found at i:93572361 original size:35 final size:35
Alignment explanation
Indices: 93572301--93572417 Score: 198
Period size: 35 Copynumber: 3.3 Consensus size: 35
93572291 AATGATATGT
*
93572301 AATCTTAGATGTGATATGCAATCTTAGATATGATAC
1 AATCTTAGATATGAT-TGCAATCTTAGATATGATAC
93572337 AATCTTAGATATGATTGCAATCTTAGATATGATAC
1 AATCTTAGATATGATTGCAATCTTAGATATGATAC
93572372 AATCTTAGATATGATTGCAATCTTAGATATTGTATAC
1 AATCTTAGATATGATTGCAATCTTAGATA-TG-ATAC
93572409 AATCTTAGA
1 AATCTTAGA
93572418 AGATATGATT
Statistics
Matches: 78, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
35 49 0.63
36 16 0.21
37 13 0.17
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.38
Consensus pattern (35 bp):
AATCTTAGATATGATTGCAATCTTAGATATGATAC
Found at i:93572412 original size:54 final size:53
Alignment explanation
Indices: 93572301--93572417 Score: 157
Period size: 54 Copynumber: 2.2 Consensus size: 53
93572291 AATGATATGT
* *
93572301 AATCTTAGATGTGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGC
1 AATCTTAGATATGATA-GCAATCTTAGATATGATACAATCTTAGATATGATTAC
*
93572355 AATCTTAGATATGATA-CAATCTTAGATATGATTGCAATCTTAGATATTG-TATAC
1 AATCTTAGATATGATAGCAATCTTAGATATGA-TACAATCTTAGATA-TGAT-TAC
93572409 AATCTTAGA
1 AATCTTAGA
93572418 AGATATGATT
Statistics
Matches: 57, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
52 15 0.26
53 14 0.25
54 28 0.49
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.38
Consensus pattern (53 bp):
AATCTTAGATATGATAGCAATCTTAGATATGATACAATCTTAGATATGATTAC
Found at i:93572924 original size:18 final size:17
Alignment explanation
Indices: 93572900--93572959 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
93572890 CCAGTATATT
93572900 TTATATTTTTTATATAA
1 TTATATTTTTTATATAA
*
93572917 TTAT-TATTCTTATA-AA
1 TTATAT-TTTTTATATAA
93572933 -TATATTTTTTATTATATA
1 TTATATTTTTTA-TATA-A
93572951 TTATATTTT
1 TTATATTTT
93572960 AAATTTATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
15 8 0.23
16 6 0.17
17 12 0.34
18 1 0.03
19 8 0.23
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATATTTTTTATATAA
Found at i:93572944 original size:15 final size:16
Alignment explanation
Indices: 93572901--93572959 Score: 59
Period size: 16 Copynumber: 3.5 Consensus size: 16
93572891 CAGTATATTT
93572901 TATATTTTTTATATAA
1 TATATTTTTTATATAA
93572917 T-TATTATTCTTATA-AA
1 TATATT-TT-TTATATAA
93572933 TATATTTTTTATTATATA
1 TATATTTTTTA-TATA-A
93572951 TTATATTTT
1 -TATATTTT
93572960 AAATTTATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
15 7 0.19
16 10 0.28
17 10 0.28
18 1 0.03
19 8 0.22
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (16 bp):
TATATTTTTTATATAA
Found at i:93572984 original size:26 final size:26
Alignment explanation
Indices: 93572936--93572985 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
93572926 TTATAAATAT
* * * *
93572936 ATTTTTTATTATATATTATATTTTAA
1 ATTTATTATTAAATATCACATTTTAA
93572962 ATTTATTATTAAATATCACATTTT
1 ATTTATTATTAAATATCACATTTT
93572986 TTTTTATGCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (26 bp):
ATTTATTATTAAATATCACATTTTAA
Found at i:93575077 original size:3 final size:3
Alignment explanation
Indices: 93575069--93575111 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
93575059 TGAGAACGAG
* *
93575069 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAG GAG GAA G-A GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
93575112 GGGGGGAGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:93576278 original size:13 final size:13
Alignment explanation
Indices: 93576256--93576292 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
93576246 AAATTTTGAT
*
93576256 AAATTAAGATTTG
1 AAATTGAGATTTG
93576269 AAATTGAGATTTG
1 AAATTGAGATTTG
93576282 AAATTGAGATT
1 AAATTGAGATT
93576293 CATGATTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.19, T:0.38
Consensus pattern (13 bp):
AAATTGAGATTTG
Found at i:93579216 original size:42 final size:43
Alignment explanation
Indices: 93579146--93579261 Score: 180
Period size: 42 Copynumber: 2.7 Consensus size: 43
93579136 GCATTTGTAA
* *
93579146 GAAAAGCGCAGCTAAAAGTCATGGTTTTTAGCGGCTTTTGTGG
1 GAAAAGCGCCGCTAAAAGTCATGGTTTTTAGCGGCGTTTGTGG
* *
93579189 GAAAAGGGCC-CTAAAAGTGATGGTTTTTAGCGGCGTTTGTGG
1 GAAAAGCGCCGCTAAAAGTCATGGTTTTTAGCGGCGTTTGTGG
*
93579231 TAAAAGCGCCGCTAAAAGTCATGGTTTTTAG
1 GAAAAGCGCCGCTAAAAGTCATGGTTTTTAG
93579262 TGGAGCTTTT
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
42 38 0.58
43 27 0.42
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.29
Consensus pattern (43 bp):
GAAAAGCGCCGCTAAAAGTCATGGTTTTTAGCGGCGTTTGTGG
Found at i:93582431 original size:15 final size:16
Alignment explanation
Indices: 93582411--93582443 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
93582401 TACTTTTATT
93582411 AAAAATAAA-AATAAA
1 AAAAATAAAGAATAAA
93582426 AAAAATAAAGAATAAA
1 AAAAATAAAGAATAAA
93582442 AA
1 AA
93582444 TTCATGCTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (16 bp):
AAAAATAAAGAATAAA
Found at i:93587701 original size:22 final size:23
Alignment explanation
Indices: 93587673--93587720 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
93587663 TCATATGGGA
*
93587673 AACAATA-ATGAGAATAAA-AAAT
1 AACAATATATAAG-ATAAATAAAT
93587695 AACAATATATAAGATAAATAAAT
1 AACAATATATAAGATAAATAAAT
93587718 AAC
1 AAC
93587721 CGGCAAACTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.67, C:0.06, G:0.06, T:0.21
Consensus pattern (23 bp):
AACAATATATAAGATAAATAAAT
Found at i:93587826 original size:21 final size:21
Alignment explanation
Indices: 93587800--93587839 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
93587790 AAAAAGGAAA
*
93587800 TAAATAAAAGAAATAAAATAT
1 TAAATAAAACAAATAAAATAT
*
93587821 TAAATAAAACACATAAAAT
1 TAAATAAAACAAATAAAAT
93587840 GATAATAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.70, C:0.05, G:0.03, T:0.23
Consensus pattern (21 bp):
TAAATAAAACAAATAAAATAT
Found at i:93587922 original size:12 final size:12
Alignment explanation
Indices: 93587878--93587915 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
93587868 AATTTGAAGG
*
93587878 TATATATATAAA
1 TATATAAATAAA
*
93587890 GATATAAATAAA
1 TATATAAATAAA
93587902 TATATAAATAAA
1 TATATAAATAAA
93587914 TA
1 TA
93587916 GTAAAATGAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (12 bp):
TATATAAATAAA
Found at i:93589881 original size:44 final size:43
Alignment explanation
Indices: 93589740--93590122 Score: 201
Period size: 44 Copynumber: 8.7 Consensus size: 43
93589730 CTACTGCAAC
* **
93589740 TTCAGAGAGATAAGGATTGTGGCTTCAATCTGCTTTAATGTAAT
1 TTCAGAGAGATAAGG-TTGTGGCTTCAATCTACTCCAATGTAAT
* * ** * ** *
93589784 TTCAGGGAGA-AGAGATTTGTAACTTCGATCTACTCCGCTGGAACT
1 TTCAGAGAGATA-AG-GTTGTGGCTTCAATCTACTCCAATGTAA-T
*
93589829 TT-AAAGAGATAAGGTTGATGGCTTCAATCTACTCCAATGTAAT
1 TTCAGAGAGATAAGGTTG-TGGCTTCAATCTACTCCAATGTAAT
* * * ** *
93589872 TTCAGAGAGA-AGAGAGTTGTAGCTTCGATCTTCTCCGCTAG-AAC
1 TTCAGAGAGATA-AG-GTTGTGGCTTCAATCTACTCCAAT-GTAAT
* *
93589916 TTCA-AGAAGATAAGGTTGGTGGCTTTAATCCACTCCAATGTAAT
1 TTCAGAG-AGATAAGGTT-GTGGCTTCAATCTACTCCAATGTAAT
* * * * * * * *
93589960 TTTAGGGAGA-AGAGATTTGTAGCTTCGATCTACTCCATTGGAAC
1 TTCAGAGAGATA-AG-GTTGTGGCTTCAATCTACTCCAATGTAAT
*
93590004 TTCA-AGGAGATAAGGTTGGTGGCTTCAATCCACTCCAATGTAAT
1 TTCAGA-GAGATAAGGTT-GTGGCTTCAATCTACTCCAATGTAAT
* * * * * *
93590048 TTCAGGGAGA-AGAGATTTGTAGCTTCGATCTACTCCACTAG-AAC
1 TTCAGAGAGATA-AG-GTTGTGGCTTCAATCTACTCCAAT-GTAAT
*
93590092 TTCA-AGGAGATAAGGCTGGTGGCTTCAATCT
1 TTCAGA-GAGATAAGG-TTGTGGCTTCAATCT
93590123 GCTCTACTGC
Statistics
Matches: 247, Mismatches: 66, Indels: 52
0.68 0.18 0.14
Matches are distributed among these distances:
43 18 0.07
44 211 0.85
45 18 0.07
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (43 bp):
TTCAGAGAGATAAGGTTGTGGCTTCAATCTACTCCAATGTAAT
Found at i:93590137 original size:44 final size:43
Alignment explanation
Indices: 93589806--93590148 Score: 212
Period size: 44 Copynumber: 7.8 Consensus size: 43
93589796 AGATTTGTAA
* * * * *
93589806 CTTCGATCTACTCCGCTGGAACTTTAAAGAGATAAGGTTGATGG
1 CTTCAATCTACTCCACT-GAACTTCAAGGAGATAAGGTTGGTGG
* * *
93589850 CTTCAATCTACTCCAATGTAATTTC-AGAGAGA-AGAGAGTT-GTAG
1 CTTCAATCTACTCCACTG-AACTTCAAG-GAGATA-AG-GTTGGTGG
* * * *
93589894 CTTCGATCTTCTCCGCTAGAACTTCAAGAAGATAAGGTTGGTGG
1 CTTCAATCTACTCCACT-GAACTTCAAGGAGATAAGGTTGGTGG
* * * * * * * * *
93589938 CTTTAATCCACTCCAATGTAATTTTAGGGAGA-AGAGATTTGTAG
1 CTTCAATCTACTCCACTG-AACTTCAAGGAGATA-AGGTTGGTGG
* *
93589982 CTTCGATCTACTCCATTGGAACTTCAAGGAGATAAGGTTGGTGG
1 CTTCAATCTACTCCACT-GAACTTCAAGGAGATAAGGTTGGTGG
* * * * * * *
93590026 CTTCAATCCACTCCAATGTAATTTCAGGGAGA-AGAGATTTGTAG
1 CTTCAATCTACTCCACTG-AACTTCAAGGAGATA-AGGTTGGTGG
* *
93590070 CTTCGATCTACTCCACTAGAACTTCAAGGAGATAAGGCTGGTGG
1 CTTCAATCTACTCCACT-GAACTTCAAGGAGATAAGGTTGGTGG
* *
93590114 CTTCAATCTGCTCTACTGCAACTTC-AGGAAGATAA
1 CTTCAATCTACTCCACTG-AACTTCAAGG-AGATAA
93590149 AATTCACCAT
Statistics
Matches: 223, Mismatches: 58, Indels: 36
0.70 0.18 0.11
Matches are distributed among these distances:
43 14 0.06
44 198 0.89
45 11 0.05
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.29
Consensus pattern (43 bp):
CTTCAATCTACTCCACTGAACTTCAAGGAGATAAGGTTGGTGG
Found at i:93590141 original size:88 final size:87
Alignment explanation
Indices: 93589594--93590122 Score: 571
Period size: 88 Copynumber: 6.0 Consensus size: 87
93589584 TTTGATCCAT
* * * *
93589594 TCCAATGTAATTTCAGGGAAAAGAGATTTGTAGCTTCGATCTATTCCGCTGAAATTTCAAGGAGA
1 TCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCACTG-AACTTCAAGGAGA
* *** * *
93589659 TAAGAATTGGTAATTTCAACCTGC
65 TAAG-GTTGGTGGCTTCAATCTAC
* * * * * ** * *
93589683 TCCACTGCAACTTCAGGGAGATA-AGGTTTGT-GTATTTTTATCCTGCTCTACTGCAACTTC-AG
1 TCCAATGTAATTTCAGGGAGA-AGAGATTTGTAG--CTTCGAT-CTACTCCACTG-AACTTCAAG
*
93589745 AGAGATAAGGATT-GTGGCTTCAATCTGC
61 -GAGATAAGG-TTGGTGGCTTCAATCTAC
** * * * *
93589773 TTTAATGTAATTTCAGGGAGAAGAGATTTGTAACTTCGATCTACTCCGCTGGAACTTTAAAGAGA
1 TCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCACT-GAACTTCAAGGAGA
*
93589838 TAAGGTTGATGGCTTCAATCTAC
65 TAAGGTTGGTGGCTTCAATCTAC
* * * * *
93589861 TCCAATGTAATTTCAGAGAGAAGAGAGTTGTAGCTTCGATCTTCTCCGCTAGAACTTCAAGAAGA
1 TCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCACT-GAACTTCAAGGAGA
* *
93589926 TAAGGTTGGTGGCTTTAATCCAC
65 TAAGGTTGGTGGCTTCAATCTAC
* *
93589949 TCCAATGTAATTTTAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCATTGGAACTTCAAGGAGA
1 TCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCACT-GAACTTCAAGGAGA
*
93590014 TAAGGTTGGTGGCTTCAATCCAC
65 TAAGGTTGGTGGCTTCAATCTAC
93590037 TCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCACTAGAACTTCAAGGAGA
1 TCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCACT-GAACTTCAAGGAGA
*
93590102 TAAGGCTGGTGGCTTCAATCT
65 TAAGGTTGGTGGCTTCAATCT
93590123 GCTCTACTGC
Statistics
Matches: 366, Mismatches: 63, Indels: 23
0.81 0.14 0.05
Matches are distributed among these distances:
87 2 0.01
88 270 0.74
89 31 0.08
90 41 0.11
91 22 0.06
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.31
Consensus pattern (87 bp):
TCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCACTGAACTTCAAGGAGAT
AAGGTTGGTGGCTTCAATCTAC
Found at i:93590347 original size:143 final size:143
Alignment explanation
Indices: 93590076--93590389 Score: 384
Period size: 143 Copynumber: 2.2 Consensus size: 143
93590066 GTAGCTTCGA
* *
93590076 TCTACTCCACTAGAACTTCAAGGAGATAAGGCTGGTGGCTTCAATCTGCTCTACTGCAACTTCAG
1 TCTACTCCACTAGAACTTCAAGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTGCAACTTCAG
* * * * * * * *
93590141 GAAGATAAAATTCACCATAGTTTATAAGTTTAATCTGTTCCATTGTAACGTCAAGGAAGTAAGAT
66 GAAGATAAAATCCACCATAATTCATAAGTTCAATCTATTCCACTGCAACGTCAAGGAAATAAGAT
*
93590206 TCGCTGTCTTCAG
131 CCGCTGTCTTCAG
* *
93590219 TCTACTCCGCT-GTAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTGCAACTTCA
1 TCTACTCCACTAG-AACTTCAAGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTGCAACTTCA
** * *
93590283 GGAAGATAAAATCCGTCATAATTCGT-AGCTTCAATCTATTCCACTGCAAC-TCCAGGGAAATAA
65 GGAAGATAAAATCCACCATAATTCATAAG-TTCAATCTATTCCACTGCAACGT-CAAGGAAATAA
*
93590346 GATCCGCTTTCTTC-G
128 GATCCGCTGTCTTCAG
* *
93590361 ATCTGCTCCACTACAACTTCAAGGAGATA
1 -TCTACTCCACTAGAACTTCAAGGAGATA
93590390 GGATCTATAA
Statistics
Matches: 144, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
142 5 0.03
143 139 0.97
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (143 bp):
TCTACTCCACTAGAACTTCAAGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTGCAACTTCAG
GAAGATAAAATCCACCATAATTCATAAGTTCAATCTATTCCACTGCAACGTCAAGGAAATAAGAT
CCGCTGTCTTCAG
Found at i:93600706 original size:46 final size:46
Alignment explanation
Indices: 93600634--93600721 Score: 122
Period size: 46 Copynumber: 1.9 Consensus size: 46
93600624 ATCCATCCCA
* *
93600634 CCACCACAACTCAAGGGTATAGGATTTGTATCATCTTCAATCCATC
1 CCACCACAACTCAAGGGTATAAGATTTGTAGCATCTTCAATCCATC
* * * *
93600680 CCACTACAACTTAGGGGTATAAGATTTGTAGCTTCTTCAATC
1 CCACCACAACTCAAGGGTATAAGATTTGTAGCATCTTCAATC
93600722 AATTGATCTG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 36 1.00
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.31
Consensus pattern (46 bp):
CCACCACAACTCAAGGGTATAAGATTTGTAGCATCTTCAATCCATC
Found at i:93601204 original size:53 final size:53
Alignment explanation
Indices: 93601119--93601222 Score: 165
Period size: 53 Copynumber: 2.0 Consensus size: 53
93601109 GGGAACATAG
*
93601119 CTCGAAATGAATAAATTAATCAAAGATTGCAAATGCAATAAGACA-GAAATTAA
1 CTCGAAATGAATAAATTAATCAAAGATAGCAAATGCAATAAGA-AGGAAATTAA
* *
93601172 CTCGAAATGAATAAGTTAATCAAAGATAGCAAATGTAATAAGAAGGAAATT
1 CTCGAAATGAATAAATTAATCAAAGATAGCAAATGCAATAAGAAGGAAATT
93601223 GATTAGGAGC
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.02
53 46 0.98
ACGTcount: A:0.52, C:0.10, G:0.15, T:0.23
Consensus pattern (53 bp):
CTCGAAATGAATAAATTAATCAAAGATAGCAAATGCAATAAGAAGGAAATTAA
Found at i:93602884 original size:49 final size:49
Alignment explanation
Indices: 93602810--93602994 Score: 219
Period size: 49 Copynumber: 3.8 Consensus size: 49
93602800 TAGCCGAAGC
* *
93602810 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * * * * * *
93602859 TGTCTGGTACATGTAGTAGCCTGCACATAGTACTACAGACGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-T
* * * *
93602910 TATCAGGTACGCATAGTAGCCTCCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
*
93602959 TATCTGGTACACGTAGTAGTCTGCACTT-GTACTACA
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACA
93602995 ACGTGACCCA
Statistics
Matches: 109, Mismatches: 25, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
48 8 0.07
49 60 0.55
50 6 0.06
51 35 0.32
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:93602977 original size:100 final size:98
Alignment explanation
Indices: 93602804--93603000 Score: 313
Period size: 100 Copynumber: 2.0 Consensus size: 98
93602794 CACTTGTAGC
* * *
93602804 CGAAGCTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTGTCTGGTAC
1 CGAAGCTATCAGGTACGCATAGTAGCCTCCACTTAGTACTACACATGCGACCAATTATCTGGTAC
*
93602869 ATGTAGTAGCCTGCACATAGTACTACAGACGTGAT
66 ACGTAGTAGCCTGCAC-TAGTACTACA-ACGTGAT
*
93602904 CGAAGTTATCAGGTACGCATAGTAGCCTCCACTTAGTACTACACATGCGACCAATTATCTGGTAC
1 CGAAGCTATCAGGTACGCATAGTAGCCTCCACTTAGTACTACACATGCGACCAATTATCTGGTAC
* *
93602969 ACGTAGTAGTCTGCACTTGTACTACAACGTGA
66 ACGTAGTAGCCTGCACTAGTACTACAACGTGA
93603001 CCCACAATAG
Statistics
Matches: 90, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
98 6 0.07
99 9 0.10
100 75 0.83
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.26
Consensus pattern (98 bp):
CGAAGCTATCAGGTACGCATAGTAGCCTCCACTTAGTACTACACATGCGACCAATTATCTGGTAC
ACGTAGTAGCCTGCACTAGTACTACAACGTGAT
Found at i:93606032 original size:49 final size:49
Alignment explanation
Indices: 93605960--93606202 Score: 326
Period size: 49 Copynumber: 4.9 Consensus size: 49
93605950 TAGCCGAAGC
* * *
93605960 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * *
93606009 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * * *
93606058 CATCT-ATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-T
* * * *
93606108 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
*
93606157 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
93606203 TCACAATAGC
Statistics
Matches: 167, Mismatches: 24, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
48 37 0.22
49 91 0.54
50 6 0.04
51 33 0.20
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:93606142 original size:99 final size:98
Alignment explanation
Indices: 93605973--93606202 Score: 327
Period size: 99 Copynumber: 2.3 Consensus size: 98
93605963 CTGGTACGCA
* * * *
93605973 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGTAGCCTGCACTTA
* *
93606038 GTACTACACACGTGACCTACCATCT-ATACACG
66 GTACTACACACGCGACCAACCATCTGATACACG
* *
93606070 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCAGGTACACATAGTAGCCTGCACT
* ** *
93606135 TAGTACTACACATGCGACCAATTATCTGGTACACG
64 TAGTACTACACACGCGACCAACCATCTGATACACG
93606170 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
93606203 TCACAATAGC
Statistics
Matches: 117, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
97 29 0.25
98 3 0.03
99 48 0.41
100 37 0.32
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCAACCATCTGATACACG
Found at i:93606882 original size:30 final size:29
Alignment explanation
Indices: 93606848--93606906 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
93606838 CTTTAATACG
93606848 AACTTTGGCAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGCAAAATTACAC-TTTT-CCCCTA
* *
93606878 AACTTTTGCATAATTACACTTTTCCCCTA
1 AACTTTGGCAAAATTACACTTTTCCCCTA
93606907 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 6 0.23
30 19 0.73
31 1 0.04
ACGTcount: A:0.29, C:0.27, G:0.07, T:0.37
Consensus pattern (29 bp):
AACTTTGGCAAAATTACACTTTTCCCCTA
Found at i:93610296 original size:47 final size:47
Alignment explanation
Indices: 93610225--93610622 Score: 645
Period size: 47 Copynumber: 8.5 Consensus size: 47
93610215 CCCTTCGGGA
* * * * *
93610225 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
93610272 CCTATCACATATATACACTTTCACATTCATCACATTGGCCGTTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
93610319 CTTATCACATATATACACTTTCACATTCATCACATCT-GCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACAT-TGGCCATTAGGC
*
93610366 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
93610413 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
93610460 CTTATCACATATATACACTTTCGCATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
93610507 CTTATCACATATATACACTTTCACAATCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
93610554 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
93610601 CTTATCACATATATACACTTTC
1 CTTATCACATATATACACTTTC
93610623 GTATTTATTC
Statistics
Matches: 329, Mismatches: 20, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
46 1 0.00
47 327 0.99
48 1 0.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:93610303 original size:25 final size:25
Alignment explanation
Indices: 93610275--93610353 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
93610265 ACTCGGCCCT
93610275 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
93610300 ATCACAT-T-GGC-CGTTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
93610322 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
93610347 ATCACAT
1 ATCACAT
93610354 CTGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.30, C:0.29, G:0.06, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:93610422 original size:22 final size:22
Alignment explanation
Indices: 93610394--93610516 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
93610384 TTTCACATTC
93610394 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
93610416 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
* *
93610440 CATCACATCGGCCATTAGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
** * *
93610463 ATCACATATATACACTTTC-GCATT
1 ATCACAT-T-GGC-CATTCGGCCTT
93610487 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
93610510 ATCACAT
1 ATCACAT
93610517 ATATACACTT
Statistics
Matches: 69, Mismatches: 22, Indels: 20
0.62 0.20 0.18
Matches are distributed among these distances:
22 28 0.41
23 10 0.14
24 10 0.14
25 21 0.30
ACGTcount: A:0.27, C:0.30, G:0.11, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:93615616 original size:93 final size:93
Alignment explanation
Indices: 93615504--93615675 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
93615494 GCCCATAAGT
* *
93615504 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
93615569 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
93615597 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
93615662 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
93615676 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:93615671 original size:46 final size:46
Alignment explanation
Indices: 93615496--93615671 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
93615486 TGTAACCCGC
* * *
93615496 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
93615542 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
93615592 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
93615635 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
93615672 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:93618100 original size:30 final size:30
Alignment explanation
Indices: 93618056--93618144 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
93618046 CAAAGATAAC
93618056 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
93618085 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
93618115 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
93618145 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:93618104 original size:15 final size:15
Alignment explanation
Indices: 93618056--93618135 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
93618046 CAAAGATAAC
*
93618056 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
93618070 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
93618085 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
93618100 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
93618115 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
93618130 AAGAAA
1 AAGAAA
93618136 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:93618144 original size:15 final size:15
Alignment explanation
Indices: 93618067--93618144 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
93618057 AGAAAACCGA
93618067 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
93618082 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
93618096 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
93618111 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
93618127 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
93618142 ATA
1 ATA
93618145 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:93621206 original size:93 final size:93
Alignment explanation
Indices: 93621094--93621265 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
93621084 GCCCATAAGT
* *
93621094 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
93621159 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
93621187 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
93621252 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
93621266 CAAATATCCA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:93621261 original size:46 final size:46
Alignment explanation
Indices: 93621086--93621261 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
93621076 TGTAACCCGC
* * *
93621086 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
93621132 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
93621182 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
93621225 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
93621262 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:93623686 original size:30 final size:30
Alignment explanation
Indices: 93623642--93623730 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
93623632 CAAAGATAAC
*
93623642 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCGGAATAAAGAAATCCAAGATA
*
93623671 GAGAAACCCGGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGGAATAAAGAAATCCAAG-ATA
* * *
93623701 AAGAGATCCAGG-ATAAAGAAACCCAAGATA
1 AAGA-AACCCGGAATAAAGAAATCCAAGATA
93623731 CGATACTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 9 0.18
30 34 0.68
31 7 0.14
ACGTcount: A:0.56, C:0.16, G:0.18, T:0.10
Consensus pattern (30 bp):
AAGAAACCCGGAATAAAGAAATCCAAGATA
Found at i:93623690 original size:15 final size:14
Alignment explanation
Indices: 93623642--93623724 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
93623632 CAAAGATAAC
*
93623642 AAGAAAACCGAATA
1 AAGAAACCCGAATA
* *
93623656 AAGAAATCCAAGATA
1 AAGAAACCCGA-ATA
*
93623671 GAGAAACCCGGAATA
1 AAGAAACCC-GAATA
*
93623686 AAGAAATCCAGAATA
1 AAGAAA-CCCGAATA
* * *
93623701 AAGAGATCCAGGATA
1 AAGA-AACCCGAATA
93623716 AAGAAACCC
1 AAGAAACCC
93623725 AAGATACGAT
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
14 12 0.22
15 38 0.70
16 4 0.07
ACGTcount: A:0.55, C:0.17, G:0.18, T:0.10
Consensus pattern (14 bp):
AAGAAACCCGAATA
Found at i:93623730 original size:15 final size:15
Alignment explanation
Indices: 93623653--93623730 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
93623643 AGAAAACCGA
93623653 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
93623668 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
93623682 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
93623697 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
93623713 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
93623728 ATA
1 ATA
93623731 CGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:93628144 original size:40 final size:40
Alignment explanation
Indices: 93628078--93628244 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
93628068 AAATTGAATG
* * *
93628078 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
93628117 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
93628157 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
93628197 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
93628237 ATATCCGG
1 ATATCCGG
93628245 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:93636152 original size:40 final size:40
Alignment explanation
Indices: 93636086--93636252 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
93636076 AAATTGAATG
* * *
93636086 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
93636125 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
93636165 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
93636205 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
93636245 ATATCCGG
1 ATATCCGG
93636253 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:93638086 original size:21 final size:20
Alignment explanation
Indices: 93638047--93638084 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
93638037 TTTAAAAATG
* *
93638047 CAATTTAACGGCTAAAAACT
1 CAATTTAAAGACTAAAAACT
93638067 CAATTTAAAGACTAAAAA
1 CAATTTAAAGACTAAAAA
93638085 ACATTTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.16, G:0.08, T:0.24
Consensus pattern (20 bp):
CAATTTAAAGACTAAAAACT
Found at i:93639573 original size:25 final size:24
Alignment explanation
Indices: 93639532--93639599 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 24
93639522 CTTCCCAAAA
* *
93639532 TTTTAATTTTTTTAATTGATTAAT-
1 TTTTAATTTATTAAATTG-TTAATC
93639556 TTTTCAATTTATTAAATTGTTAATC
1 TTTT-AATTTATTAAATTGTTAATC
*
93639581 TTTTATTTCTAATTAAATT
1 TTTTAATT-T-ATTAAATT
93639600 TTGGGAAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
24 12 0.32
25 17 0.46
26 8 0.22
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.62
Consensus pattern (24 bp):
TTTTAATTTATTAAATTGTTAATC
Found at i:93646339 original size:24 final size:24
Alignment explanation
Indices: 93646312--93646359 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
93646302 TTAGAGTTTG
93646312 TTTCGAAATGCTTGATATGTCAAC
1 TTTCGAAATGCTTGATATGTCAAC
93646336 TTTCGAAATGCTTGATATGTCAAC
1 TTTCGAAATGCTTGATATGTCAAC
93646360 AAGTGAAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.38
Consensus pattern (24 bp):
TTTCGAAATGCTTGATATGTCAAC
Found at i:93647618 original size:20 final size:20
Alignment explanation
Indices: 93647584--93647634 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
93647574 AGGCCGAGAA
*
93647584 ATTATTTTTAT-TGTTTTAAT
1 ATTA-TTTTATGTGTTATAAT
*
93647604 ATTATTTTATGTGTTATAGT
1 ATTATTTTATGTGTTATAAT
*
93647624 ATGATTTTATG
1 ATTATTTTATG
93647635 AGTGCATGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 6 0.22
20 21 0.78
ACGTcount: A:0.25, C:0.00, G:0.12, T:0.63
Consensus pattern (20 bp):
ATTATTTTATGTGTTATAAT
Found at i:93672735 original size:48 final size:47
Alignment explanation
Indices: 93672629--93672735 Score: 126
Period size: 47 Copynumber: 2.3 Consensus size: 47
93672619 CCCTTCGGGA
* * * *
93672629 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGC
* * *
93672676 CCTATCACATATATACACTTTCACAT-TATCACACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATCCAT--CACATCGGCCACTAGGC
93672724 CTTATCACATAT
1 CTTATCACATAT
93672736 GTATACGCCA
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
46 2 0.04
47 24 0.48
48 24 0.48
ACGTcount: A:0.28, C:0.32, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGC
Found at i:93672768 original size:19 final size:21
Alignment explanation
Indices: 93672725--93672775 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 21
93672715 CCATTAGGCC
93672725 TTATCACATATGTATACGCCACA
1 TTATCACATATGTATA--CCACA
93672748 TTATCACATAT-TATA-CACA
1 TTATCACATATGTATACCACA
*
93672767 TTGTCACAT
1 TTATCACAT
93672776 TCATCACATC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 12 0.44
22 4 0.15
23 11 0.41
ACGTcount: A:0.35, C:0.24, G:0.06, T:0.35
Consensus pattern (21 bp):
TTATCACATATGTATACCACA
Found at i:93672789 original size:73 final size:70
Alignment explanation
Indices: 93672678--93672813 Score: 211
Period size: 73 Copynumber: 1.9 Consensus size: 70
93672668 CACTCGGCCC
*
93672678 TATCACATATATACACTTTCACATTATCACACATCGGCCATTAGGCCTTATCACATATGTATACG
1 TATCACATATATACACTTTCACATTAT-ACACATCGGCCATTAGGCCTTATCACATATATATACG
93672743 CCACAT
65 CCACAT
93672749 TATCACATATTATACACATTGTCACATTCAT-CACATCGGCCATTAGGCCTTATCACATATATAT
1 TATCACATA-TATACAC-TT-TCACATT-ATACACATCGGCCATTAGGCCTTATCACATATATAT
93672813 A
62 A
93672814 TACACTTTCA
Statistics
Matches: 60, Mismatches: 1, Indels: 6
0.90 0.01 0.09
Matches are distributed among these distances:
71 9 0.15
72 7 0.12
73 35 0.58
74 7 0.12
75 2 0.03
ACGTcount: A:0.33, C:0.26, G:0.08, T:0.32
Consensus pattern (70 bp):
TATCACATATATACACTTTCACATTATACACATCGGCCATTAGGCCTTATCACATATATATACGC
CACAT
Found at i:93678773 original size:24 final size:23
Alignment explanation
Indices: 93678738--93678783 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
93678728 AGAATTTTTA
*
93678738 ATTAAGAAGCTCACGAAGAGCCT
1 ATTAAGAAGCTCACAAAGAGCCT
*
93678761 ATTAGGAATGCTCACAAAGAGCC
1 ATTAAGAA-GCTCACAAAGAGCC
93678784 ATGTAATAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.17
Consensus pattern (23 bp):
ATTAAGAAGCTCACAAAGAGCCT
Found at i:93678825 original size:21 final size:21
Alignment explanation
Indices: 93678796--93678836 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
93678786 GTAATAGAAA
*
93678796 CTCCAGATAGCATAACAGGAG
1 CTCCAGATAGAATAACAGGAG
*
93678817 CTCCGGATAGAATAACAGGA
1 CTCCAGATAGAATAACAGGA
93678837 AGTTCAAGCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.39, C:0.22, G:0.24, T:0.15
Consensus pattern (21 bp):
CTCCAGATAGAATAACAGGAG
Found at i:93678872 original size:23 final size:24
Alignment explanation
Indices: 93678846--93678896 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
93678836 AAGTTCAAGC
*
93678846 GAGCC-ATGTCAGGAAGCTCAT-AA
1 GAGCCTATATCAGG-AGCTCATGAA
*
93678869 GAGCCTATATCAGGAGCTCGTGAA
1 GAGCCTATATCAGGAGCTCATGAA
93678893 GAGC
1 GAGC
93678897 TGTGTTACCC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 11 0.46
24 13 0.54
ACGTcount: A:0.31, C:0.22, G:0.29, T:0.18
Consensus pattern (24 bp):
GAGCCTATATCAGGAGCTCATGAA
Found at i:93681881 original size:42 final size:42
Alignment explanation
Indices: 93681815--93681978 Score: 168
Period size: 42 Copynumber: 3.8 Consensus size: 42
93681805 GGGTTATGTG
* *
93681815 TGATTTCGTGTAAGACCTTATCTGGGATATGGCATCGATATT
1 TGATTTCATGTAAGACCATATCTGGGATATGGCATCGATATT
* * * * **
93681857 TGATTTCGTGCAAGACCATGTCTGGGACATGGCATCGATACG
1 TGATTTCATGTAAGACCATATCTGGGATATGGCATCGATATT
* * *
93681899 AGATATCATGTAAGACCATAGT-TGGGCTATCGGCATCGATATAT
1 TGATTTCATGTAAGACCATA-TCTGGGATAT-GGCATCGATAT-T
**
93681943 GTGATCCCATGTAAGACCATATCTGGGATATGGCAT
1 -TGATTTCATGTAAGACCATATCTGGGATATGGCAT
93681979 TGGCATTTTA
Statistics
Matches: 98, Mismatches: 19, Indels: 8
0.78 0.15 0.06
Matches are distributed among these distances:
42 57 0.58
43 11 0.11
44 6 0.06
45 24 0.24
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (42 bp):
TGATTTCATGTAAGACCATATCTGGGATATGGCATCGATATT
Found at i:93682446 original size:19 final size:19
Alignment explanation
Indices: 93682422--93682460 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
93682412 ATCTGGCATG
93682422 TATAGGGGACTTGGTCTTT
1 TATAGGGGACTTGGTCTTT
93682441 TATAGGGGACTTGGTCTTT
1 TATAGGGGACTTGGTCTTT
93682460 T
1 T
93682461 TGTTTATGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.15, C:0.10, G:0.31, T:0.44
Consensus pattern (19 bp):
TATAGGGGACTTGGTCTTT
Found at i:93686953 original size:2 final size:2
Alignment explanation
Indices: 93686946--93686987 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
93686936 TTGGCTGTCT
93686946 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
93686988 CCTTCGAATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:93687769 original size:49 final size:49
Alignment explanation
Indices: 93687642--93687858 Score: 343
Period size: 49 Copynumber: 4.5 Consensus size: 49
93687632 CCCTTCGGGA
* *
93687642 CTTATCACAT-T-TATACACTTTCACATTCATCACATTGGCCATTAAGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
93687689 CTTATCAC--ATATATACACCTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
93687736 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTTGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
93687785 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
93687834 CTTATCACATATATATACACTTTCA
1 CTTATCACATATATATACACTTTCA
93687859 TGTACAGACT
Statistics
Matches: 154, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
46 1 0.01
47 48 0.31
49 105 0.68
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.34
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:93689154 original size:2 final size:2
Alignment explanation
Indices: 93689117--93689145 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
93689107 TAAGGCATAC
93689117 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
93689146 CCTATATATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:93694562 original size:38 final size:39
Alignment explanation
Indices: 93694511--93694652 Score: 126
Period size: 41 Copynumber: 3.6 Consensus size: 39
93694501 ACTGGCTTGT
* * * **
93694511 GCTTCGCTGATACACAGCTTATCATTAAGCT-CTTGA-GA
1 GCTTCGTTAATACACAACTTATCA-TAAGCTACAAGAGGA
93694549 GCTTCGTTAATACACAACTTATCCATAAGCTCACAAGAGGA
1 GCTTCGTTAATACACAACTTAT-CATAAGCT-ACAAGAGGA
* * * *
93694590 GCTTCGTTAATACACACCTTATCCATAAGTTCATAAGGGGA
1 GCTTCGTTAATACACAACTTAT-CATAAGCT-ACAAGAGGA
* *
93694631 GCTTCGCTGATACACAACTTAT
1 GCTTCGTTAATACACAACTTAT
93694653 AAAACCATTT
Statistics
Matches: 88, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
38 25 0.28
39 2 0.02
40 3 0.03
41 58 0.66
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (39 bp):
GCTTCGTTAATACACAACTTATCATAAGCTACAAGAGGA
Found at i:93694602 original size:41 final size:41
Alignment explanation
Indices: 93694547--93694652 Score: 158
Period size: 41 Copynumber: 2.6 Consensus size: 41
93694537 AAGCTCTTGA
93694547 GAGCTTCGTTAATACACAACTTATCCATAAGCTCACAAGAG
1 GAGCTTCGTTAATACACAACTTATCCATAAGCTCACAAGAG
* * * *
93694588 GAGCTTCGTTAATACACACCTTATCCATAAGTTCATAAGGG
1 GAGCTTCGTTAATACACAACTTATCCATAAGCTCACAAGAG
* *
93694629 GAGCTTCGCTGATACACAACTTAT
1 GAGCTTCGTTAATACACAACTTAT
93694653 AAAACCATTT
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 58 1.00
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (41 bp):
GAGCTTCGTTAATACACAACTTATCCATAAGCTCACAAGAG
Found at i:93695281 original size:27 final size:27
Alignment explanation
Indices: 93695224--93695281 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
93695214 CAAGACTGGT
* * *
93695224 GAACCCCAGCTCGCCAAACAGTTTGGT
1 GAACACCAGCTCGCCAAACAGTTTAGC
*
93695251 GAACACCAGCTCGCCCACACA-TTTAGC
1 GAACACCAGCTCG-CCAAACAGTTTAGC
93695278 GAAC
1 GAAC
93695282 CTACCTCGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 20 0.77
28 6 0.23
ACGTcount: A:0.29, C:0.36, G:0.19, T:0.16
Consensus pattern (27 bp):
GAACACCAGCTCGCCAAACAGTTTAGC
Found at i:93702764 original size:54 final size:54
Alignment explanation
Indices: 93702706--93702827 Score: 185
Period size: 54 Copynumber: 2.3 Consensus size: 54
93702696 TGGAATGGTC
*
93702706 CAAAATGGAGTGAT-CTTGATGCTTCAAATGATGCAAACAA-TTCATGGACTAGTT
1 CAAAATGGAGTGATGC-TGAGGCTTCAAATGATGCAAACAACTT-ATGGACTAGTT
* *
93702760 CAAAATGGAGTGATGCTGAGGCTTCAAATGATGCGAACAACTTATGGACTGGTT
1 CAAAATGGAGTGATGCTGAGGCTTCAAATGATGCAAACAACTTATGGACTAGTT
93702814 CAAAATGGAGTGAT
1 CAAAATGGAGTGAT
93702828 ACAGGTGCCT
Statistics
Matches: 63, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
54 60 0.95
55 3 0.05
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (54 bp):
CAAAATGGAGTGATGCTGAGGCTTCAAATGATGCAAACAACTTATGGACTAGTT
Found at i:93708246 original size:46 final size:46
Alignment explanation
Indices: 93708196--93708538 Score: 605
Period size: 46 Copynumber: 7.5 Consensus size: 46
93708186 GATAGAAAAT
93708196 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAC
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAC
* *
93708242 GTGTAAGACCATGGTTGAAAGATACCATGGCAACTTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAC
93708288 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAC
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAC
*
93708334 GTGTAAGACCATGGTTGAAAGATACCATGGCAACTTGATATGAAAC
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAC
93708380 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAC
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAC
* * *
93708426 GTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAC
* * *
93708472 GTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAC
93708518 GTGTAAGACCATGGTTGAAAG
1 GTGTAAGACCATGGTTGAAAG
93708539 TGTAAGACCA
Statistics
Matches: 288, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 288 1.00
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (46 bp):
GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAC
Found at i:93708543 original size:20 final size:20
Alignment explanation
Indices: 93708512--93708558 Score: 85
Period size: 20 Copynumber: 2.3 Consensus size: 20
93708502 CAACGTGACA
93708512 TGAAATGTGTAAGACCATGGT
1 TGAAA-GTGTAAGACCATGGT
93708533 TGAAAGTGTAAGACCATGGT
1 TGAAAGTGTAAGACCATGGT
93708553 TGAAAG
1 TGAAAG
93708559 ATACCATGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 21 0.81
21 5 0.19
ACGTcount: A:0.36, C:0.09, G:0.30, T:0.26
Consensus pattern (20 bp):
TGAAAGTGTAAGACCATGGT
Found at i:93708547 original size:66 final size:65
Alignment explanation
Indices: 93708466--93708603 Score: 240
Period size: 66 Copynumber: 2.1 Consensus size: 65
93708456 CAACGTGACA
* *
93708466 TGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGTGTAAGACCATG
1 TGAAA-GTGTAAGACCATGGTTGAAAGATACCATGACAACGTAACATGAAATGTGTAAGACCAT-
93708531 GT
64 GT
93708533 TGAAAGTGTAAGACCATGGTTGAAAGATACCATGACAACGTAACATGAAATGTGTAAGACCATGT
1 TGAAAGTGTAAGACCATGGTTGAAAGATACCATGACAACGTAACATGAAATGTGTAAGACCATGT
93708598 TGAAAG
1 TGAAAG
93708604 ATACCATGGC
Statistics
Matches: 69, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
65 8 0.12
66 56 0.81
67 5 0.07
ACGTcount: A:0.38, C:0.13, G:0.25, T:0.23
Consensus pattern (65 bp):
TGAAAGTGTAAGACCATGGTTGAAAGATACCATGACAACGTAACATGAAATGTGTAAGACCATGT
Found at i:93708553 original size:112 final size:113
Alignment explanation
Indices: 93708420--93708648 Score: 381
Period size: 112 Copynumber: 2.0 Consensus size: 113
93708410 CAACCTGATA
* *
93708420 TGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGTGTAAGACCATG
1 TGAAACGTGTAAGACCATGGTTGAAAGATACCATGACAACGTAACATGAAATGTGTAAGACCAT-
* **
93708485 GTTGAAAGATACCATGGCAACGTGAC-ATGAAATGTGTAAGACCATGGT
65 GTTGAAAGATACCATGGCAACGTGACGAGGAAATGAATAAGACCATGGT
93708533 TGAAA-GTGTAAGACCATGGTTGAAAGATACCATGACAACGTAACATGAAATGTGTAAGACCATG
1 TGAAACGTGTAAGACCATGGTTGAAAGATACCATGACAACGTAACATGAAATGTGTAAGACCATG
*
93708597 TTGAAAGATACCATGGCAACGTGACGGGGAAATGAATAAGACCATGGT
66 TTGAAAGATACCATGGCAACGTGACGAGGAAATGAATAAGACCATGGT
93708645 TGAA
1 TGAA
93708649 TGATACCATG
Statistics
Matches: 109, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
111 26 0.24
112 78 0.72
113 5 0.05
ACGTcount: A:0.38, C:0.14, G:0.26, T:0.21
Consensus pattern (113 bp):
TGAAACGTGTAAGACCATGGTTGAAAGATACCATGACAACGTAACATGAAATGTGTAAGACCATG
TTGAAAGATACCATGGCAACGTGACGAGGAAATGAATAAGACCATGGT
Found at i:93708588 original size:158 final size:158
Alignment explanation
Indices: 93708374--93708696 Score: 479
Period size: 158 Copynumber: 2.0 Consensus size: 158
93708364 CAACTTGATA
* * *
93708374 TGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAACGTGTAAGACCATG
1 TGAAA-GTGTAAGACCATGGTTGAAAGATACCATGACAACCTAACATGAAACGTGTAAGACCAT-
* **
93708439 GTTGAAAGATACCATGGCAACGTGAC-ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGC
64 GTTGAAAGATACCATGGCAACGTGACGAGGAAATGAATAAGACCATGGTTGAAAGATACCATGGC
* ** *
93708503 AACGTGACATG-AAATGTGTAAGACCATGGT
129 AACATGACA-GAAAATAAGTAAGACCATAGT
* *
93708533 TGAAAGTGTAAGACCATGGTTGAAAGATACCATGACAACGTAACATGAAATGTGTAAGACCATGT
1 TGAAAGTGTAAGACCATGGTTGAAAGATACCATGACAACCTAACATGAAACGTGTAAGACCATGT
* *
93708598 TGAAAGATACCATGGCAACGTGACGGGGAAATGAATAAGACCATGGTTGAATGATACCATGGCAA
66 TGAAAGATACCATGGCAACGTGACGAGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAA
93708663 CATGACAGAAAATAAGTAAGACCATAGT
131 CATGACAGAAAATAAGTAAGACCATAGT
93708691 TGAAAG
1 TGAAAG
93708697 ACACTATGAC
Statistics
Matches: 148, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
157 27 0.18
158 116 0.78
159 5 0.03
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.21
Consensus pattern (158 bp):
TGAAAGTGTAAGACCATGGTTGAAAGATACCATGACAACCTAACATGAAACGTGTAAGACCATGT
TGAAAGATACCATGGCAACGTGACGAGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAA
CATGACAGAAAATAAGTAAGACCATAGT
Found at i:93708590 original size:46 final size:46
Alignment explanation
Indices: 93708540--93708707 Score: 187
Period size: 46 Copynumber: 3.7 Consensus size: 46
93708530 GGTTGAAAGT
* *
93708540 GTAAGACCATGGTTGAAAGATACCATGACAACGTAACATGAAATGT
1 GTAAGACCATGGTTGAAAGATACCATGACAACGTGACATGAAATGA
* **
93708586 GTAAGACCAT-GTTGAAAGATACCATGGCAACGTGACGGGGAAATGA
1 GTAAGACCATGGTTGAAAGATACCATGACAACGTGAC-ATGAAATGA
* * * * *
93708632 ATAAGACCATGGTTGAATGATACCATGGCAACATGACA-GAAAATAA
1 GTAAGACCATGGTTGAAAGATACCATGACAACGTGACATG-AAATGA
* * *
93708678 GTAAGACCATAGTTGAAAGACACTATGACA
1 GTAAGACCATGGTTGAAAGATACCATGACA
93708708 TCATGTCGAA
Statistics
Matches: 103, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
45 25 0.24
46 54 0.52
47 24 0.23
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (46 bp):
GTAAGACCATGGTTGAAAGATACCATGACAACGTGACATGAAATGA
Found at i:93709826 original size:3 final size:3
Alignment explanation
Indices: 93709820--93709861 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
93709810 AATACCTGAT
93709820 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
93709862 AAACTTAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:93720846 original size:39 final size:39
Alignment explanation
Indices: 93720728--93720910 Score: 231
Period size: 39 Copynumber: 4.6 Consensus size: 39
93720718 TCGTTCAAAC
* * ** * **
93720728 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
93720768 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
*
93720808 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCCCAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
*
93720847 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCAGAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
93720886 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
93720911 CTCGAACATT
Statistics
Matches: 125, Mismatches: 18, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 87 0.70
40 38 0.30
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:93728879 original size:39 final size:39
Alignment explanation
Indices: 93728712--93728893 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
93728702 TCGTTCAAAC
* * ** * **
93728712 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
93728752 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
93728792 GCCTTCGGGCTTAGCCCGGATATCATAACTCGC-CAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
93728830 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
93728869 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
93728894 CTCGAACATT
Statistics
Matches: 126, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
38 38 0.30
39 50 0.40
40 38 0.30
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:93736672 original size:36 final size:35
Alignment explanation
Indices: 93736624--93736739 Score: 160
Period size: 36 Copynumber: 3.2 Consensus size: 35
93736614 TATCACAATT
93736624 TGCACAATTGCCTTCGGGCTTAGCCCGGATATAAC
1 TGCACAATTGCCTTCGGGCTTAGCCCGGATATAAC
*
93736659 TCGCCCAATTGCCTTCGGGCTTAGCCCGGATATCATTAAC
1 T-GCACAATTGCCTTCGGGCTTAGCCCGG--AT-A-TAAC
*
93736699 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 TGCACAATTGCCTTCGGGCTTAGCCCGGATATAAC
*
93736734 TTCACA
1 TGCACA
93736740 TTCATACACA
Statistics
Matches: 72, Mismatches: 4, Indels: 10
0.84 0.05 0.12
Matches are distributed among these distances:
35 9 0.12
36 27 0.38
37 2 0.03
38 2 0.03
39 27 0.38
40 5 0.07
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.27
Consensus pattern (35 bp):
TGCACAATTGCCTTCGGGCTTAGCCCGGATATAAC
Found at i:93736718 original size:39 final size:38
Alignment explanation
Indices: 93736593--93736732 Score: 187
Period size: 39 Copynumber: 3.7 Consensus size: 38
93736583 CCGCACAAAG
* * *
93736593 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAA-CTGCACAATT
*
93736633 GCCTTCGGGCTTAGCCCGG--AT-ATAACTCGCCCAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACT-GCACAATT
93736669 GCCTTCGGGCTTAGCCCGGATATCATTAACTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCA-TAACTGCACAATT
93736708 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
93736733 CTTCACATTC
Statistics
Matches: 90, Mismatches: 5, Indels: 11
0.85 0.05 0.10
Matches are distributed among these distances:
35 1 0.01
36 29 0.32
37 2 0.02
38 2 0.02
39 42 0.47
40 14 0.16
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.26
Consensus pattern (38 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTGCACAATT
Found at i:93740231 original size:40 final size:40
Alignment explanation
Indices: 93740186--93740350 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
93740176 CGGAATATAA
93740186 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * *
93740226 CCGGATAGAAT-ACTCGCACGAATGCCTTC-GGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
93740264 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
93740304 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAG-
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
93740343 CCGGATAT
1 CCGGATAT
93740351 CATTCAATTT
Statistics
Matches: 104, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
38 18 0.17
39 38 0.37
40 48 0.46
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:93740265 original size:38 final size:39
Alignment explanation
Indices: 93740202--93740310 Score: 132
Period size: 39 Copynumber: 2.8 Consensus size: 39
93740192 ATAATCACGT
* *
93740202 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGA-ATACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAGACACTA
* *
93740241 GCACGAATGCCTTC-GGTCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAGACACTA
*
93740280 GCACAATTGCCTTCGGGTCTTAACCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
93740311 TAATTTCCAG
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
38 19 0.31
39 27 0.44
40 15 0.25
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAGACACTA
Found at i:93743735 original size:43 final size:42
Alignment explanation
Indices: 93743578--93743735 Score: 117
Period size: 43 Copynumber: 3.7 Consensus size: 42
93743568 TGTGTTATCG
* * * *
93743578 TGTAAGACCACGTCTTGGACGTTGGCGTCGACT-TATGATTTACA
1 TGTAAGACCACGTC-TGGACGTTGGCAT-TAATATTTGA-TTACA
* * ** * * *
93743622 TGTAAGACCATGTCTGGGATGTTGGCA-TCGTATTTAATTTCG
1 TGTAAGACCACGTCT-GGACGTTGGCATTAATATTTGATTACA
93743664 TGTAAGACC-CTGTCTGGAGCAG-TGGCATTAATATTTGATTACA
1 TGTAAGACCAC-GTCTGGA-C-GTTGGCATTAATATTTGATTACA
93743707 TGTAAGACCACGTCTAGGACGTTGGCATT
1 TGTAAGACCACGTCT-GGACGTTGGCATT
93743736 GTATGAGCTT
Statistics
Matches: 88, Mismatches: 17, Indels: 19
0.71 0.14 0.15
Matches are distributed among these distances:
41 3 0.03
42 23 0.26
43 36 0.41
44 26 0.30
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGACGTTGGCATTAATATTTGATTACA
Found at i:93746076 original size:23 final size:23
Alignment explanation
Indices: 93746050--93746106 Score: 114
Period size: 23 Copynumber: 2.5 Consensus size: 23
93746040 ATATGATCAT
93746050 ATTTCATAACCTAACTGGAAAAC
1 ATTTCATAACCTAACTGGAAAAC
93746073 ATTTCATAACCTAACTGGAAAAC
1 ATTTCATAACCTAACTGGAAAAC
93746096 ATTTCATAACC
1 ATTTCATAACC
93746107 ATTTCATATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.42, C:0.23, G:0.07, T:0.28
Consensus pattern (23 bp):
ATTTCATAACCTAACTGGAAAAC
Found at i:93747157 original size:20 final size:20
Alignment explanation
Indices: 93747130--93747217 Score: 72
Period size: 20 Copynumber: 4.5 Consensus size: 20
93747120 CGTATAAACT
* *
93747130 GTAATTCATTCATATAACTA
1 GTAATTCATCCATATAACGA
* *
93747150 GTAGTTCATCCGTATAACGA
1 GTAATTCATCCATATAACGA
* * *
93747170 GTAATTCATCAACATATC-A
1 GTAATTCATCCATATAACGA
* *
93747189 GTAATTCATTCATTTCAAC-A
1 GTAATTCATCCATAT-AACGA
93747209 GTAATTCAT
1 GTAATTCAT
93747218 ATAATCGAAA
Statistics
Matches: 53, Mismatches: 14, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
19 12 0.23
20 41 0.77
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.36
Consensus pattern (20 bp):
GTAATTCATCCATATAACGA
Found at i:93747400 original size:23 final size:23
Alignment explanation
Indices: 93747360--93747426 Score: 82
Period size: 23 Copynumber: 2.9 Consensus size: 23
93747350 AAGCTCTTCC
93747360 TGAGCTGATAAACAGTAAGCTCTAT
1 TGAGCTG--AAACAGTAAGCTCTAT
*
93747385 TGAGCTGAAACGGTAAGCTCTAT
1 TGAGCTGAAACAGTAAGCTCTAT
* *
93747408 CGAGCT-AAATAGTAAGCTC
1 TGAGCTGAAACAGTAAGCTC
93747427 ATACAAGTTG
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 11 0.29
23 20 0.53
25 7 0.18
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.25
Consensus pattern (23 bp):
TGAGCTGAAACAGTAAGCTCTAT
Found at i:93749520 original size:40 final size:40
Alignment explanation
Indices: 93749483--93749667 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
93749473 GCTACTCGTT
* *
93749483 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
93749523 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
93749563 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * *
93749603 CAAATGCCTTC-GGATCTTAGTCC-GATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
93749643 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
93749668 CATCATTCGA
Statistics
Matches: 132, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
39 25 0.19
40 105 0.80
41 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:93757620 original size:40 final size:40
Alignment explanation
Indices: 93757583--93757766 Score: 248
Period size: 40 Copynumber: 4.6 Consensus size: 40
93757573 GCTACTCGTT
* *
93757583 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
93757623 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
93757663 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * *
93757703 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
93757744 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAACCCG
93757767 ACATCATTCG
Statistics
Matches: 132, Mismatches: 8, Indels: 8
0.89 0.05 0.05
Matches are distributed among these distances:
39 3 0.02
40 116 0.88
41 13 0.10
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:93758415 original size:38 final size:38
Alignment explanation
Indices: 93758364--93758453 Score: 180
Period size: 38 Copynumber: 2.4 Consensus size: 38
93758354 AGGCTACCTA
93758364 TGGCCGAACATACACATCAACTCATATACTCATTCATG
1 TGGCCGAACATACACATCAACTCATATACTCATTCATG
93758402 TGGCCGAACATACACATCAACTCATATACTCATTCATG
1 TGGCCGAACATACACATCAACTCATATACTCATTCATG
93758440 TGGCCGAACATACA
1 TGGCCGAACATACA
93758454 TGTCTATGTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 52 1.00
ACGTcount: A:0.34, C:0.29, G:0.12, T:0.24
Consensus pattern (38 bp):
TGGCCGAACATACACATCAACTCATATACTCATTCATG
Found at i:93772555 original size:2 final size:2
Alignment explanation
Indices: 93772548--93772573 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
93772538 AACCTCAAGC
93772548 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
93772574 CATTCATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:93773191 original size:24 final size:25
Alignment explanation
Indices: 93773163--93773226 Score: 87
Period size: 24 Copynumber: 2.6 Consensus size: 25
93773153 TCACCCTAAT
* * *
93773163 TCGCACACATAGTGCTA-ATTAAGC
1 TCGCACACATAGTGCCATACTAAAC
93773187 TCGCACACATAGTGCCATACTAAAC
1 TCGCACACATAGTGCCATACTAAAC
93773212 -CGCACACATAGTGCC
1 TCGCACACATAGTGCC
93773227 TGAAATTTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 31 0.86
25 5 0.14
ACGTcount: A:0.33, C:0.31, G:0.16, T:0.20
Consensus pattern (25 bp):
TCGCACACATAGTGCCATACTAAAC
Found at i:93773482 original size:94 final size:94
Alignment explanation
Indices: 93773261--93773605 Score: 577
Period size: 94 Copynumber: 3.7 Consensus size: 94
93773251 ATTCAAATCT
*
93773261 GCACACATAGTGCCAATGTTAACTCATTATAATAAGGCAATTTACTTACTTCGAATAGCATATAA
1 GCACACATAGTGCCAATGTTAACTCATTATAATAAGGAAATTTACTTACTTCGAATAGCATATAA
* *
93773326 AATCTGGACAC-AAGTGACATTTAATTTC
66 AATCTGCACACAAAGTGACATTTAATTCC
* *
93773354 GCACACATAGTGCCAATGTTAACTTATTATAATAAGGAAATTTACTTACTTCGAATAGCATGTAA
1 GCACACATAGTGCCAATGTTAACTCATTATAATAAGGAAATTTACTTACTTCGAATAGCATATAA
93773419 AATCTGCACACAAAGTGACATTTAATTCC
66 AATCTGCACACAAAGTGACATTTAATTCC
*
93773448 GCACACATAGTGCCAATGTTAACTCATTATAATAAGGAAATTAACTTACTTCGAATAGCATATAA
1 GCACACATAGTGCCAATGTTAACTCATTATAATAAGGAAATTTACTTACTTCGAATAGCATATAA
93773513 AATCTGCACACAAAGTGACATTTAATTCC
66 AATCTGCACACAAAGTGACATTTAATTCC
* * * *
93773542 GCACACATAGTGCCAATGTTGACTCATTATAATAAGGCAATTTACGTAATTC-AATTAGCATATA
1 GCACACATAGTGCCAATGTTAACTCATTATAATAAGGAAATTTACTTACTTCGAA-TAGCATATA
93773606 CGGTTATAGT
Statistics
Matches: 237, Mismatches: 13, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
93 74 0.31
94 163 0.69
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.30
Consensus pattern (94 bp):
GCACACATAGTGCCAATGTTAACTCATTATAATAAGGAAATTTACTTACTTCGAATAGCATATAA
AATCTGCACACAAAGTGACATTTAATTCC
Found at i:93780804 original size:24 final size:24
Alignment explanation
Indices: 93780749--93780812 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
93780739 TCACGCTAAT
* * *
93780749 TCGCACACATAGTGCTAATTAAGC
1 TCGCACACATAGTGCCAACTAAAC
*
93780773 TCGTACACATAGTGCCATACTAAAC
1 TCGCACACATAGTGCCA-ACTAAAC
93780798 -CGCACACATAGTGCC
1 TCGCACACATAGTGCC
93780813 TGAAATTTTC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
24 29 0.85
25 5 0.15
ACGTcount: A:0.33, C:0.30, G:0.16, T:0.22
Consensus pattern (24 bp):
TCGCACACATAGTGCCAACTAAAC
Found at i:93780954 original size:94 final size:94
Alignment explanation
Indices: 93780847--93781191 Score: 604
Period size: 94 Copynumber: 3.7 Consensus size: 94
93780837 ATTCAAATCT
93780847 GCACACATAGTGCCAATGTTAACTCATTATAATAAGGCAATTTACTTACTTCGAATAGCATATAA
1 GCACACATAGTGCCAATGTTAACTCATTATAATAAGGCAATTTACTTACTTCGAATAGCATATAA
*
93780912 AATCTGCACACAAAGTGACATTTAATTCT
66 AATCTGCACACAAAGTGACATTTAATTCC
*
93780941 GCACACATAGTGCCAATGTTAACTCATTATAATAAGGCAATTTACTTACTTCGAATAGCATGTAA
1 GCACACATAGTGCCAATGTTAACTCATTATAATAAGGCAATTTACTTACTTCGAATAGCATATAA
93781006 AATCTGCACACAAAGTGACATTTAATTCC
66 AATCTGCACACAAAGTGACATTTAATTCC
*
93781035 GCACACATAGTGCCAATGTTAACTCATTATAATAAGGCAATTAACTTACTTCGAATAGCATATAA
1 GCACACATAGTGCCAATGTTAACTCATTATAATAAGGCAATTTACTTACTTCGAATAGCATATAA
93781100 AATCTGCACACAAAGT-ACATTTAATTCC
66 AATCTGCACACAAAGTGACATTTAATTCC
* * * *
93781128 GTACACATAGTGCCAATGTTGACTCATTATAATAAGGAAATTTACTTAATTC-AATTAGCATATA
1 GCACACATAGTGCCAATGTTAACTCATTATAATAAGGCAATTTACTTACTTCGAA-TAGCATATA
93781192 CGGTTATAGT
Statistics
Matches: 241, Mismatches: 9, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
92 2 0.01
93 68 0.28
94 171 0.71
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.31
Consensus pattern (94 bp):
GCACACATAGTGCCAATGTTAACTCATTATAATAAGGCAATTTACTTACTTCGAATAGCATATAA
AATCTGCACACAAAGTGACATTTAATTCC
Found at i:93782737 original size:46 final size:46
Alignment explanation
Indices: 93782680--93782893 Score: 211
Period size: 46 Copynumber: 4.6 Consensus size: 46
93782670 GTTATTTTTG
* *
93782680 GCTAGTATAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGA-GATGAGA
* * * *
93782726 GCTAGTGTAAGACCATGTCTGGGACATGGCATCTG-CATTGAGACGAGT
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA-CGAGATGAGA
* *
93782774 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATG-AGA
* * * * * *
93782820 GCTAGTGTGAGAGATGTCTGGGACATGTATCGGCTACGAGATAATA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGAGA
93782866 G-TCAGTGTAAGACCATGTCTGGGACATG
1 GCT-AGTGTAAGA-CATGTCTGGGACATG
93782894 GCATTGGCAC
Statistics
Matches: 140, Mismatches: 19, Indels: 17
0.80 0.11 0.10
Matches are distributed among these distances:
45 2 0.01
46 69 0.49
47 46 0.33
48 22 0.16
49 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGAGA
Found at i:93788213 original size:40 final size:40
Alignment explanation
Indices: 93788168--93788297 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
93788158 CGGAATACAA
93788168 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
93788208 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * * *
93788248 CCGGATGTAGCCACTAGCAC-AATTGCCTTTGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
93788288 CCGGATATAA
1 CCGGATATAA
93788298 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:93791386 original size:13 final size:13
Alignment explanation
Indices: 93791368--93791392 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
93791358 CAGGCGTGTG
93791368 AGTCCACATGGGT
1 AGTCCACATGGGT
93791381 AGTCCACATGGG
1 AGTCCACATGGG
93791393 CATGTGGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.32, T:0.20
Consensus pattern (13 bp):
AGTCCACATGGGT
Found at i:93791634 original size:19 final size:19
Alignment explanation
Indices: 93791610--93791669 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
93791600 GCATGTTTAA
93791610 ATTATAAATATTCTTTGCC
1 ATTATAAATATTCTTTGCC
* **
93791629 ATTAT-AACA---TTT-AA
1 ATTATAAATATTCTTTGCC
93791643 ATTATAAATATTCTTTGCC
1 ATTATAAATATTCTTTGCC
93791662 ATTATAAA
1 ATTATAAA
93791670 CTGATTCTAA
Statistics
Matches: 30, Mismatches: 6, Indels: 10
0.65 0.13 0.22
Matches are distributed among these distances:
14 5 0.17
15 6 0.20
18 6 0.20
19 13 0.43
ACGTcount: A:0.40, C:0.12, G:0.03, T:0.45
Consensus pattern (19 bp):
ATTATAAATATTCTTTGCC
Found at i:93791644 original size:33 final size:33
Alignment explanation
Indices: 93791605--93791668 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
93791595 ATTGAGCATG
93791605 TTTAAATTATAAATATTCTTTGCCATTATAACA
1 TTTAAATTATAAATATTCTTTGCCATTATAACA
93791638 TTTAAATTATAAATATTCTTTGCCATTATAA
1 TTTAAATTATAAATATTCTTTGCCATTATAA
93791669 ACTGATTCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.39, C:0.11, G:0.03, T:0.47
Consensus pattern (33 bp):
TTTAAATTATAAATATTCTTTGCCATTATAACA
Found at i:93795120 original size:53 final size:53
Alignment explanation
Indices: 93794937--93795143 Score: 204
Period size: 53 Copynumber: 3.8 Consensus size: 53
93794927 ATTAGGGTTA
* * *
93794937 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTT-ATACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCAT--AAGGC
* * * * * * *
93794991 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAAATACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* * *
93795046 AA--ATATCTCATGTAAGTCCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATA-C-CATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
* *
93795099 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
93795144 TAAAAAGGAA
Statistics
Matches: 123, Mismatches: 23, Indels: 15
0.76 0.14 0.09
Matches are distributed among these distances:
53 43 0.35
54 38 0.31
55 40 0.33
57 2 0.02
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:93802472 original size:53 final size:52
Alignment explanation
Indices: 93802293--93802496 Score: 194
Period size: 53 Copynumber: 3.8 Consensus size: 52
93802283 AGGGTTAAAG
** * * * *
93802293 GATACCAACTAAGACCATGCCAAGGCATGGCATTCGTAAGTT-ATACAAGGCAA
1 GATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCAT--AAGGCAA
* * * * * *
93802346 GGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGCAAA
1 -GATACCATGTAAGACCATGTCAAGACATGGCAATGGT-AAGTTC-ATAAGGC-AA
* * * *
93802402 GATGCCATGTAAGACCATGTCAAGGCATGGAAATGGTGAGTTCATAAGGCAA
1 GATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCATAAGGCAA
93802454 GCATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 G-ATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
93802497 AAAAAGAAAA
Statistics
Matches: 121, Mismatches: 24, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
52 3 0.02
53 44 0.36
54 32 0.26
55 38 0.31
56 2 0.02
57 2 0.02
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.21
Consensus pattern (52 bp):
GATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCATAAGGCAA
Found at i:93807712 original size:40 final size:40
Alignment explanation
Indices: 93807629--93807740 Score: 138
Period size: 40 Copynumber: 2.8 Consensus size: 40
93807619 TTCGAATGTG
* *
93807629 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACCAAA
* **
93807669 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTGACCAAA
*
93807709 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
93807741 CTATTATAAC
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
39 1 0.02
40 53 0.85
41 8 0.13
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAA
Found at i:93807754 original size:40 final size:39
Alignment explanation
Indices: 93807629--93807779 Score: 128
Period size: 40 Copynumber: 3.8 Consensus size: 39
93807619 TTCGAATGTG
* *
93807629 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGCT-ACCAAA
* * *
93807669 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGCTACCAAA
* **
93807709 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGCTACCA-AA
* * *
93807750 -CCGGGCTATGTCCGAAGGCTTTTGAGCGAG
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAG
93807780 TCGCTATATC
Statistics
Matches: 92, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
39 18 0.20
40 63 0.68
41 11 0.12
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGCTACCAAA
Found at i:93817640 original size:25 final size:26
Alignment explanation
Indices: 93817612--93817698 Score: 88
Period size: 25 Copynumber: 3.3 Consensus size: 26
93817602 GAACACATCT
* **
93817612 GTCATTTTACCTTACCGGGTAT-TCA
1 GTCATTTTACCCTAAAGGGTATGTCA
*
93817637 GTCATTTTACCCTAAAGGGTATGTCG
1 GTCATTTTACCCTAAAGGGTATGTCA
* *
93817663 GTCATTTTACCCTATGAGGGTATTTCTA
1 GTCATTTTACCCTA-AAGGGTATGTC-A
93817691 -TCATTTTA
1 GTCATTTTA
93817699 TCACATAAGG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
25 19 0.37
26 16 0.31
27 17 0.33
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.41
Consensus pattern (26 bp):
GTCATTTTACCCTAAAGGGTATGTCA
Found at i:93817770 original size:55 final size:54
Alignment explanation
Indices: 93817690--93817809 Score: 161
Period size: 55 Copynumber: 2.2 Consensus size: 54
93817680 GGGTATTTCT
* * * *
93817690 ATCATTTTATCACATAAGGGTAAAATCGTCATTTTATCACAAAAAGGGCAAAATT
1 ATCATTTTATCACATAAGGGAAAAATCATCATTTTATCAC-AAAAGGGAAAAATC
* *
93817745 GTCATTTTATCACA-AATGGGAAAAATCATCATTTTATCACATAAGGGAAAAATC
1 ATCATTTTATCACATAA-GGGAAAAATCATCATTTTATCACAAAAGGGAAAAATC
93817799 ATCATTTTATC
1 ATCATTTTATC
93817810 TTATAAGTGC
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
54 23 0.40
55 34 0.60
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.33
Consensus pattern (54 bp):
ATCATTTTATCACATAAGGGAAAAATCATCATTTTATCACAAAAGGGAAAAATC
Found at i:93817816 original size:27 final size:27
Alignment explanation
Indices: 93817690--93817809 Score: 161
Period size: 27 Copynumber: 4.4 Consensus size: 27
93817680 GGGTATTTCT
*
93817690 ATCATTTTATCACATAAGGGTAAAATC
1 ATCATTTTATCACATAAGGGAAAAATC
* * * *
93817717 GTCATTTTATCACAAAAAGGGCAAAATT
1 ATCATTTTATCAC-ATAAGGGAAAAATC
*
93817745 GTCATTTTATCACA-AATGGGAAAAATC
1 ATCATTTTATCACATAA-GGGAAAAATC
93817772 ATCATTTTATCACATAAGGGAAAAATC
1 ATCATTTTATCACATAAGGGAAAAATC
93817799 ATCATTTTATC
1 ATCATTTTATC
93817810 TTATAAGTGC
Statistics
Matches: 83, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
26 2 0.02
27 55 0.66
28 26 0.31
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.33
Consensus pattern (27 bp):
ATCATTTTATCACATAAGGGAAAAATC
Found at i:93823235 original size:16 final size:15
Alignment explanation
Indices: 93823208--93823246 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 15
93823198 TTCCTGACCA
93823208 TTCTTCCTTTTTCTTTT
1 TTCTT-CTTTTT-TTTT
93823225 TTCTTCTTTTTTTTT
1 TTCTTCTTTTTTTTT
93823240 TCTCTTC
1 T-TCTTC
93823247 ATCAACTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.24
16 11 0.52
17 5 0.24
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (15 bp):
TTCTTCTTTTTTTTT
Found at i:93824553 original size:27 final size:26
Alignment explanation
Indices: 93824484--93824595 Score: 98
Period size: 27 Copynumber: 4.2 Consensus size: 26
93824474 AGGAAGCGTC
* * *
93824484 CTGGTGGCTATGCCATAATTATCTGAT
1 CTGGTGGCTCTGCCA-CATTATCTGTT
* *
93824511 CTAGTGGCTTTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
*
93824538 CTGGTGGCTCTGCCACGATTATTTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
** * *
93824566 CTGGTTACTCTGTCACATTATCTATT
1 CTGGTGGCTCTGCCACATTATCTGTT
93824592 CTGG
1 CTGG
93824596 CAGCCATGCT
Statistics
Matches: 70, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
26 7 0.10
27 47 0.67
28 16 0.23
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.40
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:93833795 original size:27 final size:27
Alignment explanation
Indices: 93833757--93833846 Score: 92
Period size: 27 Copynumber: 3.3 Consensus size: 27
93833747 AAGCGTCCTA
*
93833757 GTGGCTATGCCACAATTATATGATCTG
1 GTGGCTCTGCCACAATTATATGATCTG
* * *
93833784 GTGGCTCTGCCACATATT-TCTGTTTTG
1 GTGGCTCTGCCACA-ATTATATGATCTG
* *
93833811 GTGGCTCTGCCACGATTATTTGTATCTG
1 GTGGCTCTGCCACAATTATATG-ATCTG
*
93833839 GTGACTCT
1 GTGGCTCT
93833847 ATCACATTAT
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
26 3 0.06
27 35 0.69
28 13 0.25
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.39
Consensus pattern (27 bp):
GTGGCTCTGCCACAATTATATGATCTG
Found at i:93840698 original size:40 final size:39
Alignment explanation
Indices: 93840617--93840762 Score: 157
Period size: 40 Copynumber: 3.7 Consensus size: 39
93840607 CCGCACCAAG
* * * * * * *
93840617 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTAGCAC-AAT
* *
93840657 GCCTTCGGGTCTTAGCCCGGATTTAACAACTGGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTAGCAC-AAT
* *
93840697 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTAGCACAA-T
*
93840737 GCCTTCGGGTCTTAACCCGGATATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
93840763 TTTTCAGCAT
Statistics
Matches: 90, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
39 2 0.02
40 88 0.98
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (39 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTAGCACAAT
Found at i:93840777 original size:40 final size:40
Alignment explanation
Indices: 93840649--93840800 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
93840639 ATCACGATTT
* * * * *
93840649 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTG
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
93840689 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
* * **
93840729 GCACAATTGCCTTCGGGTCTTAACCCGGATATA-ATTTTCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACT-A
* * *
93840769 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
93840801 CATTCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
39 4 0.04
40 91 0.94
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
Found at i:93848781 original size:40 final size:41
Alignment explanation
Indices: 93848619--93848804 Score: 155
Period size: 40 Copynumber: 4.6 Consensus size: 41
93848609 CCGCACCAAG
* * * * * *
93848619 GCCTACGGGACTTAACCCGGATATCACG-ATTTGCACAAAT
1 GCCTTCGGGTCTTAACCCGGATATAACGTACTAGCACAATT
* * * *
93848659 GCCTTCGGGTCTTTAGCCCGGATTTAAC-AACTGGCACGAATT
1 GCCTTCGGGTC-TTAACCCGGATATAACGTACTAGCAC-AATT
* *
93848701 GCCTTCGGGTCTT-AGCCGGATATAGCGTACTAGCACAATT
1 GCCTTCGGGTCTTAACCCGGATATAACGTACTAGCACAATT
** * *
93848741 GCCTTCGGGTCTTAACCCGGATATAATTTTC-AGCATAATT
1 GCCTTCGGGTCTTAACCCGGATATAACGTACTAGCACAATT
* * *
93848781 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAACCCGGATAT
93848805 CATTCAATTT
Statistics
Matches: 118, Mismatches: 23, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
40 64 0.54
41 40 0.34
42 14 0.12
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.28
Consensus pattern (41 bp):
GCCTTCGGGTCTTAACCCGGATATAACGTACTAGCACAATT
Found at i:93852976 original size:39 final size:40
Alignment explanation
Indices: 93852918--93853018 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
93852908 AAATTGAATG
* *
93852918 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
93852957 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
93852997 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
93853019 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:93853011 original size:40 final size:40
Alignment explanation
Indices: 93852918--93853068 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 40
93852908 AAATTGAATG
* * * * *
93852918 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
93852957 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
93852997 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* *
93853037 AAATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
93853069 AAATCGTGAT
Statistics
Matches: 96, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
39 32 0.33
40 62 0.65
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:93853083 original size:40 final size:38
Alignment explanation
Indices: 93852914--93853085 Score: 161
Period size: 40 Copynumber: 4.4 Consensus size: 38
93852904 TGAGAAATTG
* *
93852914 AATG-ATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-A
1 AATGTATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCA
* * *
93852953 AAT-TATATCCGGGTTAAGACCCGAAGGCAATTGTGCT
1 AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
93852990 AGTAGCTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA
1 AAT-G-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
93853030 AGTTGTTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCA
1 A-ATG-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
93853070 AATCGTGATATCCGGG
1 AAT-GT-ATATCCGGG
93853086 TAAAGTCCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
36 2 0.02
37 4 0.04
38 2 0.02
39 26 0.24
40 74 0.68
41 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (38 bp):
AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
Done.