Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 ID=Chr12-JGI_221_v2.0
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: 35429946
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 509281 characters in sequence are not A, C, G, or T
File 75 of 120
Found at i:22600268 original size:25 final size:23
Alignment explanation
Indices: 22600240--22600308 Score: 79
Period size: 22 Copynumber: 3.0 Consensus size: 23
22600230 TAATTTAAAT
22600240 ATATATAAATTAAAATATATTAATA
1 ATATATAAATT--AATATATTAATA
*
22600265 ATATATAAA-TAATATTTTAATA
1 ATATATAAATTAATATATTAATA
* *
22600287 ATATAGAAA-TAATATAATAATA
1 ATATATAAATTAATATATTAATA
22600309 TAGAAAGAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
22 30 0.75
24 1 0.03
25 9 0.22
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.39
Consensus pattern (23 bp):
ATATATAAATTAATATATTAATA
Found at i:22600269 original size:11 final size:11
Alignment explanation
Indices: 22600248--22600308 Score: 70
Period size: 11 Copynumber: 5.6 Consensus size: 11
22600238 ATATATATAA
22600248 ATTAA-AATAT
1 ATTAATAATAT
22600258 ATTAATAATAT
1 ATTAATAATAT
*
22600269 ATAAATAATAT
1 ATTAATAATAT
*
22600280 TTTAATAATAT
1 ATTAATAATAT
**
22600291 AGAAATAATAT
1 ATTAATAATAT
*
22600302 AATAATA
1 ATTAATA
22600309 TAGAAAGAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
10 5 0.12
11 37 0.88
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (11 bp):
ATTAATAATAT
Found at i:22600284 original size:22 final size:22
Alignment explanation
Indices: 22600222--22600301 Score: 81
Period size: 22 Copynumber: 3.5 Consensus size: 22
22600212 ATTTATCATT
*
22600222 TAAATATATAATTTAA-ATATATA
1 TAAATA-ATATTTTAATA-ATATA
*
22600245 TAAATTAAAATATATTAATAATATA
1 TAAA-T--AATATTTTAATAATATA
22600270 TAAATAATATTTTAATAATATA
1 TAAATAATATTTTAATAATATA
*
22600292 GAAATAATAT
1 TAAATAATAT
22600302 AATAATATAG
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
22 25 0.51
23 4 0.08
24 2 0.04
25 16 0.33
26 2 0.04
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.41
Consensus pattern (22 bp):
TAAATAATATTTTAATAATATA
Found at i:22600307 original size:22 final size:22
Alignment explanation
Indices: 22600253--22600314 Score: 85
Period size: 22 Copynumber: 3.0 Consensus size: 22
22600243 TATAAATTAA
*
22600253 AATATATTAATAATATATAAAT
1 AATATATTAATAATATAGAAAT
*
22600275 AATATTTTAATAATATAGAAAT
1 AATATATTAATAATATAGAAAT
22600297 -A-ATA-TAATAATATAGAAA
1 AATATATTAATAATATAGAAA
22600315 GAAAATATGC
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
19 14 0.38
20 2 0.05
21 1 0.03
22 20 0.54
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (22 bp):
AATATATTAATAATATAGAAAT
Found at i:22604079 original size:89 final size:86
Alignment explanation
Indices: 22603878--22604080 Score: 216
Period size: 89 Copynumber: 2.3 Consensus size: 86
22603868 CTTAAGAGTG
* * *
22603878 CAAAAAG-CCTTC-AACATTTTTTAAAAAGCAATTAAGTCCCTATTTTTTTTTCACTCATTTAGG
1 CAAAAAGACCTTCAAAC-TTTTTAAAAAAGCAATTAAGCCCCTATTTTTTTTTCACTCATTGAGG
22603941 TACTTGAACTTTCAAAATGCAT
65 TACTTGAACTTTCAAAATGCAT
* ** * * *
22603963 -AAAAAAACCTTCAAACTTTAAAAAAAAATCAATTAAGCCCCTACTTTTTTTTTTTGATTCAATT
1 CAAAAAGACCTTCAAACTTT-TTAAAAAAGCAATTAAGCCCCTA---TTTTTTTTTCACTC-ATT
*
22604027 GA-GTACTTGTACTTTCAAAATGCAT
61 GAGGTACTTGAACTTTCAAAATGCAT
*
22604052 CAAAAAGACCCTCAAACTTTTTGAAAAAA
1 CAAAAAGACCTTCAAACTTTTT-AAAAAA
22604081 AAAACACAAT
Statistics
Matches: 95, Mismatches: 14, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
84 5 0.05
85 8 0.08
86 21 0.22
89 34 0.36
90 27 0.28
ACGTcount: A:0.39, C:0.18, G:0.07, T:0.35
Consensus pattern (86 bp):
CAAAAAGACCTTCAAACTTTTTAAAAAAGCAATTAAGCCCCTATTTTTTTTTCACTCATTGAGGT
ACTTGAACTTTCAAAATGCAT
Found at i:22604400 original size:45 final size:46
Alignment explanation
Indices: 22604351--22604448 Score: 171
Period size: 46 Copynumber: 2.2 Consensus size: 46
22604341 AGATAGAAAC
*
22604351 CAAAATATTATCTCTTAAAC-TTAGCATCTAATCTCCTAATTAAAA
1 CAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATTAAAA
22604396 CAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATTAAAA
1 CAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATTAAAA
*
22604442 GAAAATA
1 CAAAATA
22604449 GATATACACA
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
45 19 0.38
46 31 0.62
ACGTcount: A:0.44, C:0.19, G:0.03, T:0.34
Consensus pattern (46 bp):
CAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATTAAAA
Found at i:22608971 original size:45 final size:46
Alignment explanation
Indices: 22608922--22609019 Score: 171
Period size: 46 Copynumber: 2.2 Consensus size: 46
22608912 AGATAGAAAC
*
22608922 CAAAATATTATCTCTTAAAC-TTAGCATCTAATCTCCTAATTAAAA
1 CAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATTAAAA
22608967 CAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATTAAAA
1 CAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATTAAAA
*
22609013 GAAAATA
1 CAAAATA
22609020 GATATACACA
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
45 19 0.38
46 31 0.62
ACGTcount: A:0.44, C:0.19, G:0.03, T:0.34
Consensus pattern (46 bp):
CAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATTAAAA
Found at i:22609088 original size:9 final size:8
Alignment explanation
Indices: 22609072--22609115 Score: 52
Period size: 9 Copynumber: 5.0 Consensus size: 8
22609062 CAATAGATTT
22609072 TATAAAAA
1 TATAAAAA
22609080 TAGTAAAAAA
1 TA-T-AAAAA
22609090 TTATAAAATA
1 -TATAAAA-A
22609100 TATAAAAA
1 TATAAAAA
22609108 TATAAAAA
1 TATAAAAA
22609116 ATTATAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
8 11 0.34
9 12 0.38
10 7 0.22
11 2 0.06
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.27
Consensus pattern (8 bp):
TATAAAAA
Found at i:22609090 original size:10 final size:9
Alignment explanation
Indices: 22609075--22609124 Score: 57
Period size: 10 Copynumber: 5.3 Consensus size: 9
22609065 TAGATTTTAT
22609075 AAAAATAGTA
1 AAAAATA-TA
22609085 AAAAAT-TA
1 AAAAATATA
*
22609093 TAAAATATA
1 AAAAATATA
22609102 TAAAAATATA
1 -AAAAATATA
22609112 AAAAATTATA
1 AAAAA-TATA
22609122 AAA
1 AAA
22609125 TTTTATAAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
8 7 0.20
9 7 0.20
10 21 0.60
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (9 bp):
AAAAATATA
Found at i:22609131 original size:28 final size:29
Alignment explanation
Indices: 22609068--22609150 Score: 109
Period size: 27 Copynumber: 2.9 Consensus size: 29
22609058 ATTCCAATAG
22609068 ATTTTATAAAAATAGTAAAAAATTATAAA
1 ATTTTATAAAAATAGTAAAAAATTATAAA
*
22609097 A-TATATAAAAATA-TAAAAAATTATAAA
1 ATTTTATAAAAATAGTAAAAAATTATAAA
* *
22609124 ATTTTAT-AAAGTCGTAAGAAAATTATA
1 ATTTTATAAAAATAGTAA-AAAATTATA
22609151 CAAAATGTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
27 19 0.40
28 18 0.38
29 10 0.21
ACGTcount: A:0.60, C:0.01, G:0.05, T:0.34
Consensus pattern (29 bp):
ATTTTATAAAAATAGTAAAAAATTATAAA
Found at i:22609430 original size:18 final size:20
Alignment explanation
Indices: 22609409--22609450 Score: 54
Period size: 18 Copynumber: 2.2 Consensus size: 20
22609399 TTTAAATTCT
22609409 TTTATAT-ATTTAT-TAAAA
1 TTTATATAATTTATCTAAAA
*
22609427 TTTA-ATAATTTTTCTAAAA
1 TTTATATAATTTATCTAAAA
22609446 TTTAT
1 TTTAT
22609451 GAATTCCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 2 0.10
18 9 0.45
19 9 0.45
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (20 bp):
TTTATATAATTTATCTAAAA
Found at i:22609975 original size:21 final size:21
Alignment explanation
Indices: 22609951--22610000 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
22609941 TTTCGAATCG
*
22609951 AGTTGAGTAAAACGAAATTCA
1 AGTTAAGTAAAACGAAATTCA
* * *
22609972 AGTTAAGTGAAATGAAATTTA
1 AGTTAAGTAAAACGAAATTCA
22609993 AGTTAAGT
1 AGTTAAGT
22610001 CAAATCGAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.46, C:0.04, G:0.20, T:0.30
Consensus pattern (21 bp):
AGTTAAGTAAAACGAAATTCA
Found at i:22610005 original size:21 final size:21
Alignment explanation
Indices: 22609964--22610005 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
22609954 TGAGTAAAAC
*
22609964 GAAATTCAAGTTAAGTGAAAT
1 GAAATTCAAGTTAAGTCAAAT
*
22609985 GAAATTTAAGTTAAGTCAAAT
1 GAAATTCAAGTTAAGTCAAAT
22610006 CGAGTGACAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.48, C:0.05, G:0.17, T:0.31
Consensus pattern (21 bp):
GAAATTCAAGTTAAGTCAAAT
Found at i:22612480 original size:231 final size:231
Alignment explanation
Indices: 22612077--22612540 Score: 892
Period size: 231 Copynumber: 2.0 Consensus size: 231
22612067 CATGTAACGC
22612077 GCATTTCATTCTTTAATTTTGTGGGGTTATTATTTTGTTAAGTGCATTGTATGAGCTTTTGCTCC
1 GCATTTCATTCTTTAATTTTGTGGGGTTATTATTTTGTTAAGTGCATTGTATGAGCTTTTGCTCC
* *
22612142 ATGCTAGTCACTGTCCCAAGTTCCAAATTGCCCATAACGTTTGATGCAGGAATTTCGGGTTGTTC
66 ATGCTAGTCACAGTCCCAAGTTCCAAATTGCCCATAACGTTTGATGCAGGAATTTCGGGTTGCTC
22612207 TTCTTTTCTTTTTTCTTTTTTTAAACAAGTTGGTCAGCTATTTGATGGATCAGATAATCCATGCA
131 TTCTTTTCTTTTTTCTTTTTTTAAACAAGTTGGTCAGCTATTTGATGGATCAGATAATCCATGCA
22612272 AAAAGCAATGGCTTTTGTCCCTGATTCAGACGGTAA
196 AAAAGCAATGGCTTTTGTCCCTGATTCAGACGGTAA
*
22612308 GCATTTCATTCTTTAATTTTGTGGGGTTATTATTTTGTTTAGTGCATTGTATGAGCTTTTGCTCC
1 GCATTTCATTCTTTAATTTTGTGGGGTTATTATTTTGTTAAGTGCATTGTATGAGCTTTTGCTCC
22612373 ATGCTAGTCACAGTCCCAAGTTCCAAATTGCCCATAACGTTTGATGCAGGAATTTCGGGTTGCTC
66 ATGCTAGTCACAGTCCCAAGTTCCAAATTGCCCATAACGTTTGATGCAGGAATTTCGGGTTGCTC
22612438 TTCTTTTCTTTTTTCTTTTTTTAAACAAGTTGGTCAGCTATTTGATGGATCAGATAATCCATGCA
131 TTCTTTTCTTTTTTCTTTTTTTAAACAAGTTGGTCAGCTATTTGATGGATCAGATAATCCATGCA
*
22612503 AAAAGCAATGGCTTTTGTCCGTGATTCAGACGGTAA
196 AAAAGCAATGGCTTTTGTCCCTGATTCAGACGGTAA
22612539 GC
1 GC
22612541 GTAGTGTGAA
Statistics
Matches: 229, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
231 229 1.00
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.41
Consensus pattern (231 bp):
GCATTTCATTCTTTAATTTTGTGGGGTTATTATTTTGTTAAGTGCATTGTATGAGCTTTTGCTCC
ATGCTAGTCACAGTCCCAAGTTCCAAATTGCCCATAACGTTTGATGCAGGAATTTCGGGTTGCTC
TTCTTTTCTTTTTTCTTTTTTTAAACAAGTTGGTCAGCTATTTGATGGATCAGATAATCCATGCA
AAAAGCAATGGCTTTTGTCCCTGATTCAGACGGTAA
Found at i:22613914 original size:18 final size:18
Alignment explanation
Indices: 22613878--22613916 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
22613868 GACTTTTGAC
*
22613878 AGACATAATCCCTAGTCT
1 AGACATAATCCATAGTCT
22613896 AGACATAATCACATA-TCT
1 AGACATAATC-CATAGTCT
22613914 AGA
1 AGA
22613917 GATATACTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.41, C:0.23, G:0.10, T:0.26
Consensus pattern (18 bp):
AGACATAATCCATAGTCT
Found at i:22618280 original size:263 final size:261
Alignment explanation
Indices: 22617808--22618327 Score: 896
Period size: 263 Copynumber: 2.0 Consensus size: 261
22617798 TTAGTCCGCC
* *
22617808 GAGTACTCTCTAAGAGGAGGTTAGTGGCACCAATGAGTCTCTTCAATAATATGCTCTAAGAGTTT
1 GAGTACTCTCTAAGAGGAGGTCAGTGGCACCAATGAGTCTCTTCAATAATATGCTCCAAGAGTTT
* *
22617873 ATATAAGGTGGGCTCGCACAATCCTGAAGATATATAAGGAAGATCTACTGACATTATTTGTTAAT
66 ATATAAGATGGGCTCGCACAATCCTGAAGATATATAAGGAAGATCTACTGACAGTATTTGTTAAT
* * *
22617938 CCATCGCATCCTATGATTGGCGACACTTATCCAGACATCTCACATAGTTCCCTCATATCAACTCC
131 CCATCGCATCCTAGGATTGGCGACACCTATCCAGACATCTCACATAGTTCCCTCACATCAACTCC
* * *
22618003 AATAATGTTCCTAGCTAACATTCACCACTCTACCCTTTGCACCTATGAAGTAGAGTGCTTGACAC
196 AATAATGGTCCTAGCTAAAATTCACCACTCTACCCTCTGCACCTATGAAGTAGAGTGCTTGACAC
22618068 T
261 T
22618069 GAGTACTCTCTAAGAGGAGGTCAGTGGCACCAATGAGTCTCTTCAATAATATGCTCCAAGAGTTT
1 GAGTACTCTCTAAGAGGAGGTCAGTGGCACCAATGAGTCTCTTCAATAATATGCTCCAAGAGTTT
* *
22618134 ATATAAGATGGGCTTGCACAATCCCTAGAAGATATATAAGGAAGATCTACTGATAGTATTTGTTA
66 ATATAAGATGGGCTCGCACAAT-CCT-GAAGATATATAAGGAAGATCTACTGACAGTATTTGTTA
*
22618199 ATCCATTGCATCCTAGGATTGGCGACACCTATCCAGACATCTCACATAGTTCCCTCACATCAACT
129 ATCCATCGCATCCTAGGATTGGCGACACCTATCCAGACATCTCACATAGTTCCCTCACATCAACT
*
22618264 CCAATAATGGTCCTAGCTAAAATTCACCACTTTACCCTCTGCACCTATGAAGTAGAGTGCTTGA
194 CCAATAATGGTCCTAGCTAAAATTCACCACTCTACCCTCTGCACCTATGAAGTAGAGTGCTTGA
22618328 TGGTTAGGAT
Statistics
Matches: 243, Mismatches: 14, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
261 83 0.34
262 3 0.01
263 157 0.65
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.29
Consensus pattern (261 bp):
GAGTACTCTCTAAGAGGAGGTCAGTGGCACCAATGAGTCTCTTCAATAATATGCTCCAAGAGTTT
ATATAAGATGGGCTCGCACAATCCTGAAGATATATAAGGAAGATCTACTGACAGTATTTGTTAAT
CCATCGCATCCTAGGATTGGCGACACCTATCCAGACATCTCACATAGTTCCCTCACATCAACTCC
AATAATGGTCCTAGCTAAAATTCACCACTCTACCCTCTGCACCTATGAAGTAGAGTGCTTGACAC
T
Found at i:22621672 original size:13 final size:13
Alignment explanation
Indices: 22621650--22621683 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
22621640 GCAATGTGGA
22621650 AAATAATAATTTT
1 AAATAATAATTTT
*
22621663 AAATACTAATTTT
1 AAATAATAATTTT
22621676 AAA-AATAA
1 AAATAATAA
22621684 AAAATATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (13 bp):
AAATAATAATTTT
Found at i:22624429 original size:97 final size:97
Alignment explanation
Indices: 22624263--22624449 Score: 320
Period size: 97 Copynumber: 1.9 Consensus size: 97
22624253 AGGAATTATT
* *
22624263 TGTATATGTGAAATTAAAATTTTAGGCTGCGAGCCTAACAGGTTTATTGACAGTGAAGTAATCCA
1 TGTATATATGAAATTAAAATTTTAGGCTGCGAGCCTAACAGGTTTATTAACAGTGAAGTAATCCA
*
22624328 GACATTACGTCTAGCACGCTTGATGTTTCACC
66 GACATTACATCTAGCACGCTTGATGTTTCACC
*
22624360 TGTATATATGAAATTAAAATTTTAGGCTTCGAGCCTAACAGGTTTATTAACAGTGAAGTAATCCA
1 TGTATATATGAAATTAAAATTTTAGGCTGCGAGCCTAACAGGTTTATTAACAGTGAAGTAATCCA
* *
22624425 GACATTACATGTAGCAGGCTTGATG
66 GACATTACATCTAGCACGCTTGATG
22624450 CCGTTGAAAC
Statistics
Matches: 84, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
97 84 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (97 bp):
TGTATATATGAAATTAAAATTTTAGGCTGCGAGCCTAACAGGTTTATTAACAGTGAAGTAATCCA
GACATTACATCTAGCACGCTTGATGTTTCACC
Found at i:22624481 original size:41 final size:41
Alignment explanation
Indices: 22624422--22624604 Score: 276
Period size: 41 Copynumber: 4.5 Consensus size: 41
22624412 GTGAAGTAAT
* * *
22624422 CCAGACATTACATGTAGCAGGCTTGATGCCGTTGAAACATA
1 CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
22624463 CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
1 CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
*
22624504 CCAGACATTACGTCTAGCAAGCTTGATGCCGGTGAAACATA
1 CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
* * *
22624545 CCAGACTTTACGTCTAGTAGGCTTGATGTCGGTGAAACATA
1 CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
* * *
22624586 TCAGACTTTATGTCTAGCA
1 CCAGACATTACGTCTAGCA
22624605 AGCTAAGTGT
Statistics
Matches: 131, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 131 1.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (41 bp):
CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
Found at i:22624649 original size:82 final size:82
Alignment explanation
Indices: 22624422--22624649 Score: 208
Period size: 82 Copynumber: 2.8 Consensus size: 82
22624412 GTGAAGTAAT
* * * * * * * * * *
22624422 CCAGACATTACATGTAGCAGGCTTGATGCCGTTGAAACATACCAGACATTACGTCTAGCAGGCTT
1 CCAGACATTACGTCTAGCAAGCTAGATGCCGGTGAAACAAAACAGACTTTAAGCCTAGCAGGCTT
22624487 GATGCCGGTGAAACATA
66 GATGCCGGTGAAACATA
* * * * * *
22624504 CCAGACATTACGTCTAGCAAGCTTGATGCCGGTGAAACATACCAGACTTTACGTCTAGTAGGCTT
1 CCAGACATTACGTCTAGCAAGCTAGATGCCGGTGAAACAAAACAGACTTTAAGCCTAGCAGGCTT
*
22624569 GATGTCGGTGAAACATA
66 GATGCCGGTGAAACATA
* * * * ** *
22624586 TCAGACTTTATGTCTAGCAAGCTA-AGTGTCGGT-CTACTAAAACAGGCTTTAAGCCTAGCAGGC
1 CCAGACATTACGTCTAGCAAGCTAGA-TGCCGGTGAAAC-AAAACAGACTTTAAGCCTAGCAGGC
22624649 T
64 T
22624650 AAGTGTCGGT
Statistics
Matches: 124, Mismatches: 20, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
81 3 0.02
82 121 0.98
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.25
Consensus pattern (82 bp):
CCAGACATTACGTCTAGCAAGCTAGATGCCGGTGAAACAAAACAGACTTTAAGCCTAGCAGGCTT
GATGCCGGTGAAACATA
Found at i:22625335 original size:13 final size:13
Alignment explanation
Indices: 22625317--22625341 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22625307 AATTATATGA
22625317 TATTTATGTGTTT
1 TATTTATGTGTTT
22625330 TATTTATGTGTT
1 TATTTATGTGTT
22625342 GTTTTAGGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.68
Consensus pattern (13 bp):
TATTTATGTGTTT
Found at i:22632661 original size:41 final size:41
Alignment explanation
Indices: 22632626--22632812 Score: 241
Period size: 41 Copynumber: 4.6 Consensus size: 41
22632616 GTGAAGTAAT
*
22632626 CCAGACATTACATCTAGCAGGCTTGATGCCGGTGAAACATA
1 CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
*
22632667 CCAGACATTACGTCTAGTAGGCTTGATGCCGGTGAAACATA
1 CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
* * *
22632708 CCAGA-ATTTACGTCTTGCAGGATTGATGCTGGTGAAACATA
1 CCAGACA-TTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
* * *
22632749 CCAGACTTTACGTCTAGCAGGCTTGATACCGGTGAAATATA
1 CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
* * * * *
22632790 TCATACTTTATGTCTAGGAGGCT
1 CCAGACATTACGTCTAGCAGGCT
22632813 AAGTGTCGGT
Statistics
Matches: 128, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
40 1 0.01
41 127 0.99
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (41 bp):
CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
Found at i:22632823 original size:41 final size:41
Alignment explanation
Indices: 22632750--22632865 Score: 99
Period size: 41 Copynumber: 2.8 Consensus size: 41
22632740 TGAAACATAC
* * * * * *
22632750 CAGACTTTACGTCTAGCAGGCT-TGATACCGGTGAAATATAT
1 CAGACTTTAAGCCTAGCAGGCTAAG-TGCCGGTGAAATAAAA
* * * * * * *
22632791 CATACTTTATGTCTAGGAGGCTAAGTGTCGGTGTACTAAAA
1 CAGACTTTAAGCCTAGCAGGCTAAGTGCCGGTGAAATAAAA
22632832 CAGACTTTAAGCCTAGCAGGCTAAGTGCCGGTGA
1 CAGACTTTAAGCCTAGCAGGCTAAGTGCCGGTGA
22632866 TATTGTTTAT
Statistics
Matches: 58, Mismatches: 16, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
41 57 0.98
42 1 0.02
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (41 bp):
CAGACTTTAAGCCTAGCAGGCTAAGTGCCGGTGAAATAAAA
Found at i:22632851 original size:123 final size:123
Alignment explanation
Indices: 22632626--22632851 Score: 258
Period size: 123 Copynumber: 1.8 Consensus size: 123
22632616 GTGAAGTAAT
* * *
22632626 CCAGACATTACATCTAGCAGGCTTGATGCCGGTGAAACATACCAGACATTACGTCTAGTAGGCTT
1 CCAGACATTACATCTAGCAGGCTTGATACCGGTGAAACATACCAGACATTACGTCTAGGAGGCTA
* * * * *
22632691 GATGCCGGTGAAACATACCAGAATTTACGTCTTGCAGGATTGATGCTGGTGAAACATA
66 GATGCCGGTGAAACAAAACAGAATTTAAGCCTAGCAGGATTGATGCTGGTGAAACATA
* * * * * * *
22632749 CCAGACTTTACGTCTAGCAGGCTTGATACCGGTGAAATATATCATACTTTATGTCTAGGAGGCTA
1 CCAGACATTACATCTAGCAGGCTTGATACCGGTGAAACATACCAGACATTACGTCTAGGAGGCTA
* * *
22632814 -AGTGTCGGTG-TACTAAAACAGACTTTAAGCCTAGCAGG
66 GA-TGCCGGTGAAAC-AAAACAGAATTTAAGCCTAGCAGG
22632852 CTAAGTGCCG
Statistics
Matches: 83, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
122 3 0.04
123 80 0.96
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (123 bp):
CCAGACATTACATCTAGCAGGCTTGATACCGGTGAAACATACCAGACATTACGTCTAGGAGGCTA
GATGCCGGTGAAACAAAACAGAATTTAAGCCTAGCAGGATTGATGCTGGTGAAACATA
Found at i:22637702 original size:37 final size:37
Alignment explanation
Indices: 22637647--22637781 Score: 150
Period size: 37 Copynumber: 3.6 Consensus size: 37
22637637 AGGACATAGT
*
22637647 TTTAGCTCAAATGAGTAACCTAATGTTGTTTTAAAAG
1 TTTAGCTCAAACGAGTAACCTAATGTTGTTTTAAAAG
* * * *
22637684 TTTAGCTCAGACGGGTAACCTGATATG-TG-TTT-ATAT
1 TTTAGCTCAAACGAGTAACCT-A-ATGTTGTTTTAAAAG
*
22637720 TATTAGCTCAAACAAGTAACCTAATGTTGTTTTAAAAG
1 T-TTAGCTCAAACGAGTAACCTAATGTTGTTTTAAAAG
**
22637758 TTTAGCTCGGACGAGTAACCTAAT
1 TTTAGCTCAAACGAGTAACCTAAT
22637782 ATGTGTTTAT
Statistics
Matches: 79, Mismatches: 13, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
35 3 0.04
36 6 0.08
37 61 0.77
38 6 0.08
39 3 0.04
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.36
Consensus pattern (37 bp):
TTTAGCTCAAACGAGTAACCTAATGTTGTTTTAAAAG
Found at i:22637776 original size:74 final size:74
Alignment explanation
Indices: 22637648--22637799 Score: 259
Period size: 74 Copynumber: 2.1 Consensus size: 74
22637638 GGACATAGTT
** * *
22637648 TTAGCTCAAATGAGTAACCTAATGTTGTTTTAAAAGTTTAGCTCAGACGGGTAACCTGATATGTG
1 TTAGCTCAAACAAGTAACCTAATGTTGTTTTAAAAGTTTAGCTCAGACGAGTAACCTAATATGTG
22637713 TTTATATTA
66 TTTATATTA
*
22637722 TTAGCTCAAACAAGTAACCTAATGTTGTTTTAAAAGTTTAGCTCGGACGAGTAACCTAATATGTG
1 TTAGCTCAAACAAGTAACCTAATGTTGTTTTAAAAGTTTAGCTCAGACGAGTAACCTAATATGTG
22637787 TTTATATTA
66 TTTATATTA
22637796 TTAG
1 TTAG
22637800 ATCGAATGAG
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
74 73 1.00
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (74 bp):
TTAGCTCAAACAAGTAACCTAATGTTGTTTTAAAAGTTTAGCTCAGACGAGTAACCTAATATGTG
TTTATATTA
Found at i:22643506 original size:19 final size:19
Alignment explanation
Indices: 22643482--22643592 Score: 168
Period size: 19 Copynumber: 5.8 Consensus size: 19
22643472 AATCTTCAGG
22643482 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
22643501 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* **
22643520 AATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
22643539 GATATGCAATCTTAGGTAT
1 GATATGCAATCTTAGATAT
**
22643558 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
22643577 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
22643593 AGATATGATT
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 80 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:22643532 original size:38 final size:38
Alignment explanation
Indices: 22643489--22643592 Score: 190
Period size: 38 Copynumber: 2.7 Consensus size: 38
22643479 AGGGATATGC
22643489 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
* *
22643527 AATCTTAGATATGATATGCAATCTTAGGTATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
22643565 AATCTTAGATATGATATGCAATCTTAGA
1 AATCTTAGATATGATATGCAATCTTAGA
22643593 AGATATGATT
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 63 1.00
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.38
Consensus pattern (38 bp):
AATCTTAGATATGATATGCAATCTTAGATATAATATAT
Found at i:22646490 original size:24 final size:24
Alignment explanation
Indices: 22646463--22646508 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
22646453 AGAACAATCC
* *
22646463 CAAAAGGAAATGCAGGAGCAGCTT
1 CAAAAGCAAATGAAGGAGCAGCTT
*
22646487 CAAAAGCAAATGAATGAGCAGC
1 CAAAAGCAAATGAAGGAGCAGC
22646509 AAAAAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (24 bp):
CAAAAGCAAATGAAGGAGCAGCTT
Found at i:22648719 original size:13 final size:13
Alignment explanation
Indices: 22648703--22648727 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22648693 GGGGATGACA
22648703 AAAAAAACAAAAC
1 AAAAAAACAAAAC
22648716 AAAAAAACAAAA
1 AAAAAAACAAAA
22648728 TCTACCAGGG
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:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAACAAAAC
Found at i:22652515 original size:23 final size:23
Alignment explanation
Indices: 22652480--22652524 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
22652470 CCTTATTTAA
**
22652480 TTCAAATTGATTAT-AATATTATT
1 TTCAAATAAATTATCAA-ATTATT
22652503 TTCAAATAAATTATCAAATTAT
1 TTCAAATAAATTATCAAATTAT
22652525 AAAATGACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.47
Consensus pattern (23 bp):
TTCAAATAAATTATCAAATTATT
Found at i:22652547 original size:11 final size:11
Alignment explanation
Indices: 22652531--22652568 Score: 76
Period size: 11 Copynumber: 3.5 Consensus size: 11
22652521 TTATAAAATG
22652531 ACAATATCTCA
1 ACAATATCTCA
22652542 ACAATATCTCA
1 ACAATATCTCA
22652553 ACAATATCTCA
1 ACAATATCTCA
22652564 ACAAT
1 ACAAT
22652569 TGATAAAATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.26
Consensus pattern (11 bp):
ACAATATCTCA
Found at i:22655576 original size:24 final size:25
Alignment explanation
Indices: 22655541--22655588 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
22655531 TTATGAAATT
22655541 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
22655565 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
22655589 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:22655789 original size:15 final size:15
Alignment explanation
Indices: 22655754--22655805 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
22655744 TTAAGAATTT
*
22655754 TATTAAATTAT-ATA
1 TATTTAATTATAATA
22655768 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
22655782 TATTTAATAATAAT-
1 TATTTAATTATAATA
22655796 TATGTTAATT
1 TAT-TTAATT
22655806 TATATTTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:22659698 original size:132 final size:132
Alignment explanation
Indices: 22657205--22659683 Score: 3796
Period size: 132 Copynumber: 18.8 Consensus size: 132
22657195 TTGACAGCGA
* * * * * *
22657205 AGCAGATCGAAGATTGTGGATTTTCCCTCCTTGTGGTTATAGTGGAGTATATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * * * *
22657270 TCTACCTCCCTAGACAATAGTGGAATAGATTGAATATTTCAGATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
22657335 GG
131 GG
* *
22657337 AGTAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* *
22657402 TCTACTTCCCTGGGA-AAAAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAG
66 TCTACTTCCCT-GGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAG
22657466 TGG
130 TGG
* * * **
22657469 AGCAGATCAAAGATGACGGATTTTACCTCACTGTGGTTACAGTGGAGTACATTGAAGCCAACAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
*
22657534 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
22657599 GG
131 GG
*
22657601 AGCAGATCGAAGATGGCGGATTTTACGTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
*
22657666 TCTACTTCCCTGGACAATAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
22657731 GG
131 GG
*
22657733 AGCAGATCGAAGATGGCGGATTTCACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
** * * * ** *
22657798 TCTACTTCCCTCAAGAATAGTGTAATAGATTGAAGATTTCAAATCTTATCTCCCTAAGCAATAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
*
22657863 AG
131 GG
* * * *
22657865 AGCAGATCGAAGATGGCGGATTTTACCTCACTGTGGTTATAGTGGAGTATATTGGAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * *
22657930 TCTACTTCCCTGGACAAAAGTGGACTAGATTGAAGATTTCAGGTCTTATCTCGCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
22657995 GG
131 GG
* * * * *
22657997 AGCAGATCAAATATGGCGGATTTTACCTCCATGTGGTTACAGTTGAGTACATTGAAGCCAATAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
*
22658062 TCTACTTCCCTGGACAATAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
22658127 GG
131 GG
* * * * *
22658129 AGCAGATCGAAGATGGTGGATTTTACCTCCCTATGGTTACAGTGCAGTGCATTGAAGCTAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * *
22658194 TCTACTTCCCTAGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTATT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
22658259 GG
131 GG
* * *
22658261 AGCAGATCGAAGATGACGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTAAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * ** *
22658326 TCTACTTCCCTAGACAATAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCGGTATGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
*
22658391 CG
131 GG
*
22658393 AGCAGATCGAAGATGGCGGATTTTACGTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * *
22658458 TTTACTTCCCTGGACAATAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGGAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
22658523 GG
131 GG
*
22658525 AGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
** * *
22658590 TCTACTTCCCTCAACAACAGTGGAATAGACTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
*
22658655 AG
131 GG
* *
22658657 AGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* *
22658722 CCTACTTACCC-GGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCGCTAAGCAGTAG
66 TCTACTT-CCCTGGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAG
22658786 TGG
130 TGG
* * *
22658789 AGCAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
** *
22658854 TCTACTTCTGTGGATAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
22658919 GG
131 GG
* * * *
22658921 AGCAGATCGAAGATGGCAGATTTTACCTCCCTATGGTTACAGTGGAGTACATTGAAGCTAGCAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* *
22658986 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTTAGATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
22659051 GG
131 GG
** * *
22659053 AGCAGATCGAAGATTACGGATTTTACCTCACTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * * *
22659118 TCTACTTCCCTGGACAACAGTGGAATAGATTCAAGATTTCAGGTCTTATCTCACTAAGTAGCAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
22659183 GG
131 GG
* **
22659185 AGCAGATCGAAGATGGCGGATTTTACATCGTTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
** * *
22659250 TCTACTTCCCTCAACAACAATGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
*
22659315 AG
131 GG
* * *
22659317 AGCAGATCGAAGATGACGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTAAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * * *
22659382 TCTACTTCCCTAGACAATAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCGCTATGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
*
22659447 CG
131 GG
*
22659449 AGCAGATCGAAGATGGCGGATTTTACGTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * *
22659514 TTTACTTCCCTGGACAATAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGGAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
22659579 GG
131 GG
*
22659581 AGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAA-
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * * *
22659645 TCATA-TCTCCTTGGTCAGCAGTGGAATAGGTTGAAGATT
66 TC-TACT-TCCCTGGACAACAGTGGAATAGATTGAAGATT
22659684 GTAAGTCCTA
Statistics
Matches: 2136, Mismatches: 205, Indels: 12
0.91 0.09 0.01
Matches are distributed among these distances:
131 6 0.00
132 2125 0.99
133 5 0.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (132 bp):
AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
GG
Found at i:22659724 original size:45 final size:43
Alignment explanation
Indices: 22659620--22659725 Score: 106
Period size: 43 Copynumber: 2.4 Consensus size: 43
22659610 CCTGTGGTTA
* * *
22659620 CAGTGGAGTACATTGAAGCCAGTAATCATATCTCCTTGGTCAG
1 CAGTGGAGTAGATTGAAGACAGTAATCATATCTCCTTGATCAG
* * ** *
22659663 CAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCTTGAT-ATTG
1 CAGTGGAGTAGATTGAAGACAGTAA-TCATATCTCCTTGATCA--G
22659708 CAGTGGAGTAGATTGAAG
1 CAGTGGAGTAGATTGAAG
22659726 CACCAATTCT
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
43 20 0.40
44 13 0.26
45 17 0.34
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (43 bp):
CAGTGGAGTAGATTGAAGACAGTAATCATATCTCCTTGATCAG
Found at i:22660033 original size:19 final size:19
Alignment explanation
Indices: 22660009--22660119 Score: 159
Period size: 19 Copynumber: 5.8 Consensus size: 19
22659999 AATCTTCAGG
22660009 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
22660028 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* **
22660047 AATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
22660066 GATATGCAATCTTAGGTAT
1 GATATGCAATCTTAGATAT
**
22660085 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
22660104 GATATGCAAACTTAGA
1 GATATGCAATCTTAGA
22660120 AGATATGATT
Statistics
Matches: 79, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 79 1.00
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:22660059 original size:38 final size:38
Alignment explanation
Indices: 22660016--22660119 Score: 181
Period size: 38 Copynumber: 2.7 Consensus size: 38
22660006 AGGGATATGC
22660016 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
* *
22660054 AATCTTAGATATGATATGCAATCTTAGGTATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
*
22660092 AATCTTAGATATGATATGCAAACTTAGA
1 AATCTTAGATATGATATGCAATCTTAGA
22660120 AGATATGATT
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 62 1.00
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (38 bp):
AATCTTAGATATGATATGCAATCTTAGATATAATATAT
Found at i:22664088 original size:27 final size:28
Alignment explanation
Indices: 22664047--22664100 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
22664037 CTTGGAGTCA
** *
22664047 GTAGTCCACCGGGATAG-TAAACAAGGG
1 GTAGTCCACAAGGATAGTTAAAAAAGGG
22664074 GTAGTCCACAAGGATAGTTAAAAAAGG
1 GTAGTCCACAAGGATAGTTAAAAAAGG
22664101 AAAATCACCG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 15 0.65
28 8 0.35
ACGTcount: A:0.39, C:0.15, G:0.30, T:0.17
Consensus pattern (28 bp):
GTAGTCCACAAGGATAGTTAAAAAAGGG
Found at i:22664773 original size:20 final size:18
Alignment explanation
Indices: 22664748--22664786 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
22664738 TTACATGATT
*
22664748 TTCATGTATATTTATATTAA
1 TTCATGT-TAATT-TATTAA
22664768 TTCATGTTAATTTATTAA
1 TTCATGTTAATTTATTAA
22664786 T
1 T
22664787 GTTTGTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 4 0.22
20 7 0.39
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.56
Consensus pattern (18 bp):
TTCATGTTAATTTATTAA
Found at i:22671689 original size:70 final size:70
Alignment explanation
Indices: 22671576--22671717 Score: 257
Period size: 70 Copynumber: 2.0 Consensus size: 70
22671566 ATAGGTACCA
*
22671576 AAGTTATAGTATTTACCGATCATGCTGCCATTAAGTGCTTACTCACGAAGAAAGATGCTAAACTG
1 AAGTTATAGTATTTACCGATCATGCTGCCATTAAGTACTTACTCACGAAGAAAGATGCTAAACTG
22671641 AGGCT
66 AGGCT
* *
22671646 AAGTTATAGTATTTACCGATCATGCTGCCATTAAGTACTTACTCATGAAGAAAGATGCTAAAGTG
1 AAGTTATAGTATTTACCGATCATGCTGCCATTAAGTACTTACTCACGAAGAAAGATGCTAAACTG
22671711 AGGCT
66 AGGCT
22671716 AA
1 AA
22671718 TTCAATGGAT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
70 69 1.00
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.29
Consensus pattern (70 bp):
AAGTTATAGTATTTACCGATCATGCTGCCATTAAGTACTTACTCACGAAGAAAGATGCTAAACTG
AGGCT
Found at i:22673362 original size:6 final size:6
Alignment explanation
Indices: 22673343--22673410 Score: 55
Period size: 6 Copynumber: 11.0 Consensus size: 6
22673333 TTAAAAAAAA
* * * *
22673343 TTATTT TTAGTT TTATTT TTCATTT TTCATTT TTATCT TTATCT TTAATT
1 TTATTT TTATTT TTATTT TT-ATTT TT-ATTT TTATTT TTATTT TTATTT
* * *
22673393 TTAATT TAATTT TAATTT
1 TTATTT TTATTT TTATTT
22673411 GTTTATGTTT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
6 41 0.76
7 13 0.24
ACGTcount: A:0.22, C:0.06, G:0.01, T:0.71
Consensus pattern (6 bp):
TTATTT
Found at i:22673374 original size:26 final size:26
Alignment explanation
Indices: 22673345--22673394 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
22673335 AAAAAAAATT
* *
22673345 ATTTTTAGT-TTTATTTTTCATTTTTC
1 ATTTTTA-TCTTTATCTTTAATTTTTC
22673371 ATTTTTATCTTTATCTTTAATTTT
1 ATTTTTATCTTTATCTTTAATTTT
22673395 AATTTAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 1 0.05
26 20 0.95
ACGTcount: A:0.18, C:0.08, G:0.02, T:0.72
Consensus pattern (26 bp):
ATTTTTATCTTTATCTTTAATTTTTC
Found at i:22673402 original size:11 final size:11
Alignment explanation
Indices: 22673386--22673410 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
22673376 TATCTTTATC
22673386 TTTAATTTTAA
1 TTTAATTTTAA
22673397 TTTAATTTTAA
1 TTTAATTTTAA
22673408 TTT
1 TTT
22673411 GTTTATGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTAATTTTAA
Found at i:22687319 original size:50 final size:50
Alignment explanation
Indices: 22687247--22687419 Score: 247
Period size: 50 Copynumber: 3.5 Consensus size: 50
22687237 GGGAATGAGA
*
22687247 TCCCATGTAAGACCATGCCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
* *
22687297 TCCCATGTAAGACCATTTCTGGGACATGGCGTTGGCACTGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
** * * * **
22687347 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
*
22687397 TCCCATGTAAGACCATATCTGGG
1 TCCCATGTAAGACCATGTCTGGG
22687420 GTATGGCATT
Statistics
Matches: 108, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 108 1.00
ACGTcount: A:0.25, C:0.24, G:0.30, T:0.21
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
Found at i:22687699 original size:12 final size:12
Alignment explanation
Indices: 22687682--22687720 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
22687672 ATGAGTTATT
22687682 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
22687694 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
22687706 TAAGTGAGTAAG
1 TAAGTAAGCAAG
22687718 TAA
1 TAA
22687721 AGAAGCGAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.51, C:0.05, G:0.23, T:0.21
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:22694864 original size:25 final size:25
Alignment explanation
Indices: 22694836--22694950 Score: 113
Period size: 25 Copynumber: 4.6 Consensus size: 25
22694826 TTCGCCATAT
*
22694836 AGGCTTTCCAGATAACGTGCCACAA
1 AGGCTTTCCAGATAACATGCCACAA
* * *
22694861 AGGCTTTCTATATAACATGCGACAA
1 AGGCTTTCCAGATAACATGCCACAA
* *
22694886 AGGCTATCCAGATAACATGTCACAA
1 AGGCTTTCCAGATAACATGCCACAA
* * * *
22694911 AGGTTTTCTAGATAATATGTCACAA
1 AGGCTTTCCAGATAACATGCCACAA
* * *
22694936 ACGTTTTCCAAATAA
1 AGGCTTTCCAGATAA
22694951 TATGAGACAA
Statistics
Matches: 74, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 74 1.00
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.27
Consensus pattern (25 bp):
AGGCTTTCCAGATAACATGCCACAA
Found at i:22694960 original size:25 final size:25
Alignment explanation
Indices: 22694892--22694960 Score: 66
Period size: 25 Copynumber: 2.8 Consensus size: 25
22694882 ACAAAGGCTA
* * * *
22694892 TCCAGATAACATGTCACAAAGGTTT
1 TCCAAATAATATGACACAAACGTTT
* * *
22694917 TCTAGATAATATGTCACAAACGTTT
1 TCCAAATAATATGACACAAACGTTT
*
22694942 TCCAAATAATATGAGACAA
1 TCCAAATAATATGACACAA
22694961 TGGCTTTTTA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.29
Consensus pattern (25 bp):
TCCAAATAATATGACACAAACGTTT
Found at i:22696798 original size:3 final size:3
Alignment explanation
Indices: 22696792--22696822 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
22696782 ATCAAAGCAA
22696792 AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
22696823 GATACTTTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:22696980 original size:18 final size:18
Alignment explanation
Indices: 22696959--22696998 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
22696949 AAATGGAATT
*
22696959 TTTTATAAA-TATTTTGAA
1 TTTTAAAAATTATTTT-AA
22696977 TTTTAAAAATTATTTTAA
1 TTTTAAAAATTATTTTAA
22696995 TTTT
1 TTTT
22696999 TTTTTGTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (18 bp):
TTTTAAAAATTATTTTAA
Found at i:22698392 original size:22 final size:22
Alignment explanation
Indices: 22698364--22698432 Score: 84
Period size: 22 Copynumber: 3.1 Consensus size: 22
22698354 AACCAATACT
*
22698364 TATATGTTAATACATGTGAACC
1 TATATGTTATTACATGTGAACC
* *
22698386 TATATGTTATTTCATGCGAACC
1 TATATGTTATTACATGTGAACC
* * *
22698408 TGTATTTTATTACTTGTGAACC
1 TATATGTTATTACATGTGAACC
22698430 TAT
1 TAT
22698433 TACATGCGAA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.29, C:0.14, G:0.13, T:0.43
Consensus pattern (22 bp):
TATATGTTATTACATGTGAACC
Found at i:22698481 original size:34 final size:34
Alignment explanation
Indices: 22698436--22698535 Score: 128
Period size: 34 Copynumber: 2.9 Consensus size: 34
22698426 AACCTATTAC
* *
22698436 ATGCGAACCCTAGGAACATGTGAGACTATATGTT
1 ATGCAAACCCTAGGAACATGAGAGACTATATGTT
* *
22698470 GTGCAAACCCTAGGAACATGAGAGTCTATATGTT
1 ATGCAAACCCTAGGAACATGAGAGACTATATGTT
* * * *
22698504 ATGCGAACCCTAGGTACATGCGAGCCTATATG
1 ATGCAAACCCTAGGAACATGAGAGACTATATG
22698536 CGAACCTCTA
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 57 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (34 bp):
ATGCAAACCCTAGGAACATGAGAGACTATATGTT
Found at i:22700207 original size:15 final size:15
Alignment explanation
Indices: 22700183--22700218 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
22700173 GCATTCTCAG
*
22700183 AATACGGACAGATTC
1 AATACAGACAGATTC
*
22700198 AATACAGACAGATTT
1 AATACAGACAGATTC
22700213 AATACA
1 AATACA
22700219 CCAAGTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.47, C:0.17, G:0.14, T:0.22
Consensus pattern (15 bp):
AATACAGACAGATTC
Found at i:22709523 original size:29 final size:29
Alignment explanation
Indices: 22709456--22709538 Score: 78
Period size: 31 Copynumber: 2.8 Consensus size: 29
22709446 ATAAATCTTA
* *
22709456 AATTTATACATGAACTTTGATTTAATGTGC
1 AATTTATACATGAACTTTAATTT-AGGTGC
*
22709486 AATTCTATATATGAACTTTAATTT-GGTGC
1 AATT-TATACATGAACTTTAATTTAGGTGC
* *
22709515 AATTATATACGTGAAACTCTAATT
1 AATT-TATACATG-AACTTTAATT
22709539 GTTGTTCAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
29 14 0.32
30 13 0.30
31 17 0.39
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.42
Consensus pattern (29 bp):
AATTTATACATGAACTTTAATTTAGGTGC
Found at i:22709778 original size:13 final size:13
Alignment explanation
Indices: 22709762--22709786 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22709752 TCATGTATAT
22709762 AATTGCACATTAC
1 AATTGCACATTAC
22709775 AATTGCACATTA
1 AATTGCACATTA
22709787 AACCATAATT
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:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (13 bp):
AATTGCACATTAC
Found at i:22716417 original size:44 final size:44
Alignment explanation
Indices: 22716366--22716476 Score: 154
Period size: 44 Copynumber: 2.5 Consensus size: 44
22716356 ATCTACTCTT
*
22716366 CTGCAACTTCAGAGG-GAT-GAGATCCATCATTTTGATCCGCTCCA
1 CTGCAACTTCAG-GGAGATAG-GATCCATCATTTTAATCCGCTCCA
* *
22716410 CTGCAACTTCAGGGAGATAGGATCTATTATTTTAATCCGCTCCA
1 CTGCAACTTCAGGGAGATAGGATCCATCATTTTAATCCGCTCCA
*
22716454 CTACAACTTCAGGGAGATAGGAT
1 CTGCAACTTCAGGGAGATAGGAT
22716477 TATCGGCTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
43 2 0.03
44 58 0.95
45 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (44 bp):
CTGCAACTTCAGGGAGATAGGATCCATCATTTTAATCCGCTCCA
Found at i:22716497 original size:44 final size:43
Alignment explanation
Indices: 22716400--22716733 Score: 160
Period size: 44 Copynumber: 7.7 Consensus size: 43
22716390 CATCATTTTG
* * * *
22716400 ATCCGCTCCACTGCAACTTCAGGGAGATAGGATCTATTATTTTA
1 ATCCACTCCACTGCAACTTCAGGGAGATAGGAT-TATGACTTCA
* * *
22716444 ATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCA
1 ATCCACTCCACTGCAACTTCAGGGAGATAGGATTAT-GACTTCA
* * * * *
22716488 ATCTACTCCACTGCAACCTCAGGGAAATAAGATT-TGTCATCCTCA
1 ATCCACTCCACTGCAACTTCAGGGAGATAGGATTATG--A-CTTCA
** * * **
22716533 AT-CTGTCCCACTGCAACTTCAGGGGGATAAGA-CCTG-CTTACTGA
1 ATCCACT-CCACTGCAACTTCAGGGAGATAGGATTATGACTT-C--A
* ** * * * * * * *
22716577 GTCTGCTTCGCTGCAACCTCAGGGAAATAAGATT-TGA-TGCG
1 ATCCACTCCACTGCAACTTCAGGGAGATAGGATTATGACTTCA
* ** * *
22716618 ATCCACTCTACTGCAACTTCAAAGAGATAAGATCTACT-ACTTTA
1 ATCCACTCCACTGCAACTTCAGGGAGATAGGAT-TA-TGACTTCA
* * *
22716662 ATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCA
1 ATCCACTCCACTGCAACTTCAGGGAGATAGGATTAT-GACTTCA
** *
22716706 ATCTGCTCCACTGCAACCTCAGGGAGAT
1 ATCCACTCCACTGCAACTTCAGGGAGAT
22716734 GAGATTCGCC
Statistics
Matches: 215, Mismatches: 57, Indels: 36
0.70 0.19 0.12
Matches are distributed among these distances:
41 25 0.12
42 4 0.02
43 8 0.04
44 147 0.68
45 31 0.14
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (43 bp):
ATCCACTCCACTGCAACTTCAGGGAGATAGGATTATGACTTCA
Found at i:22716683 original size:218 final size:218
Alignment explanation
Indices: 22716399--22716792 Score: 637
Period size: 218 Copynumber: 1.8 Consensus size: 218
22716389 CCATCATTTT
* ** * * *
22716399 GATCCGCTCCACTGCAACTTCAGGGAGATAGGATCTATTATTTTAATCCGCTCCACTACAACTTC
1 GATCCACTCCACTGCAACTTCAAAGAGATAAGATCTACTACTTTAATCCGCTCCACTACAACTTC
* *
22716464 AGGGAGATAGGATTATCGGCTTCAATCTACTCCACTGCAACCTCAGGGAAATAAGATTTGTCATC
66 AGGGAGATAGGATTATCGGCTTCAATCTACTCCACTGCAACCTCAGGGAAATAAGATTCGCCATC
22716529 CTCAATCTGTCCCACTGCAACTTCAGGGG-GATAAGACCTGCTTACTGAGTCTGCTTCGCTGCAA
131 CTCAATCTGTCCCACTGCAACTT-AGGGGAGATAAGACCTGCTTACTGAGTCTGCTTCGCTGCAA
22716593 CCTCAGGGAAATAAGATTTGATGC
195 CCTCAGGGAAATAAGATTTGATGC
*
22716617 GATCCACTCTACTGCAACTTCAAAGAGATAAGATCTACTACTTTAATCCGCTCCACTACAACTTC
1 GATCCACTCCACTGCAACTTCAAAGAGATAAGATCTACTACTTTAATCCGCTCCACTACAACTTC
* * *
22716682 AGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCAGGGAGATGAGATTCGCCATC
66 AGGGAGATAGGATTATCGGCTTCAATCTACTCCACTGCAACCTCAGGGAAATAAGATTCGCCATC
* * *
22716747 TTCGATCTGTCCCACTGTAACTTAGGGGAGATAAGACCTGCTTACT
131 CTCAATCTGTCCCACTGCAACTTAGGGGAGATAAGACCTGCTTACT
22716793 CGTTGATTTG
Statistics
Matches: 160, Mismatches: 15, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
217 5 0.03
218 155 0.97
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (218 bp):
GATCCACTCCACTGCAACTTCAAAGAGATAAGATCTACTACTTTAATCCGCTCCACTACAACTTC
AGGGAGATAGGATTATCGGCTTCAATCTACTCCACTGCAACCTCAGGGAAATAAGATTCGCCATC
CTCAATCTGTCCCACTGCAACTTAGGGGAGATAAGACCTGCTTACTGAGTCTGCTTCGCTGCAAC
CTCAGGGAAATAAGATTTGATGC
Found at i:22730718 original size:14 final size:14
Alignment explanation
Indices: 22730699--22730728 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
22730689 ACATCAAAGT
22730699 AAAATAGGACTAAC
1 AAAATAGGACTAAC
22730713 AAAATAGGACTAAC
1 AAAATAGGACTAAC
22730727 AA
1 AA
22730729 GTTAATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.60, C:0.13, G:0.13, T:0.13
Consensus pattern (14 bp):
AAAATAGGACTAAC
Found at i:22732877 original size:18 final size:18
Alignment explanation
Indices: 22732856--22732890 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
22732846 AGACACAGAT
*
22732856 GAGGAAGAAGATGCAGCC
1 GAGGAAGAAGAGGCAGCC
22732874 GAGGAAGAAGAGGCAGC
1 GAGGAAGAAGAGGCAGC
22732891 AGATGCAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.14, G:0.43, T:0.03
Consensus pattern (18 bp):
GAGGAAGAAGAGGCAGCC
Found at i:22735650 original size:24 final size:25
Alignment explanation
Indices: 22735596--22735655 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 25
22735586 ATCCTCATTT
* *
22735596 TCTTCGTCTTCACCTCTACCCTCGG
1 TCTTCATCTTCACCTCAACCCTCGG
* *
22735621 AC-TCATCTTCACCTCAACCGTC-G
1 TCTTCATCTTCACCTCAACCCTCGG
22735644 TCTTCATCTTCA
1 TCTTCATCTTCA
22735656 TCTTTATTTC
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
23 2 0.07
24 26 0.90
25 1 0.03
ACGTcount: A:0.15, C:0.42, G:0.08, T:0.35
Consensus pattern (25 bp):
TCTTCATCTTCACCTCAACCCTCGG
Found at i:22735655 original size:6 final size:6
Alignment explanation
Indices: 22735644--22735692 Score: 55
Period size: 6 Copynumber: 8.2 Consensus size: 6
22735634 TCAACCGTCG
* * *
22735644 TCTTCA TCTTCA TCTTTA T-TTCAA TCGTCA TCTTCA TCTTCG TCTTCA
1 TCTTCA TCTTCA TCTTCA TCTTC-A TCTTCA TCTTCA TCTTCA TCTTCA
22735692 T
1 T
22735693 TTCCTTCCTC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
5 2 0.06
6 31 0.89
7 2 0.06
ACGTcount: A:0.16, C:0.29, G:0.04, T:0.51
Consensus pattern (6 bp):
TCTTCA
Found at i:22735695 original size:30 final size:30
Alignment explanation
Indices: 22735623--22735695 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
22735613 ACCCTCGGAC
** *
22735623 TCATCTTCACCTCAACCGTCGTCTTCATCT
1 TCATCTTCATTTCAACCGTCATCTTCATCT
* *
22735653 TCATCTTTATTTCAATCGTCATCTTCATCT
1 TCATCTTCATTTCAACCGTCATCTTCATCT
*
22735683 TCGTCTTCATTTC
1 TCATCTTCATTTC
22735696 CTTCCTCTAT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.16, C:0.33, G:0.05, T:0.45
Consensus pattern (30 bp):
TCATCTTCATTTCAACCGTCATCTTCATCT
Found at i:22738450 original size:230 final size:231
Alignment explanation
Indices: 22738040--22738470 Score: 591
Period size: 230 Copynumber: 1.9 Consensus size: 231
22738030 CCAGCTGGGA
22738040 GTGCTTTCACACACTCTCCAAAAACAACCTATTTCCCCAATTTAAAAAAAAAACGACATAAATGC
1 GTGCTTTCACACACTCTCCAAAAACAACCTATTTCCCCAATTT-AAAAAAAAACGACATAAATGC
* *
22738105 CTAATTTAACCTAAATTTTACTTATATTTTTTTTATTCTTCATGTTGATTTTACAATTTGTATTT
65 CTAATTTAACATAAATTTTACTTATA---TTTTTATTCTTCATATTGATTTTACAATTTGTATTT
* *
22738170 AATGTTTATGGTCATTCCTCTCAATAACACCGTTTCTAAGATCCGAACTTATGTATTCTTAAAGA
127 AATATTTATGGTCATTCCTCTCAATAACACCGTTTCTAAGATCCGAACTTATGTATTATTAAAGA
22738235 ATGCAATGTGCCTTATTGCAACCAAATCTTGTTGGTTGGT
192 ATGCAATGTGCCTTATTGCAACCAAATCTTGTTGGTTGGT
* * * ** * *
22738275 GTGCTTTCATACTCTCTATCCAAAAACGACCTATTTCCTTAATTT-AAAAAAAATGGCATAAATG
1 GTGCTTTCACACACTC--TCCAAAAACAACCTATTTCCCCAATTTAAAAAAAAACGACATAAATG
*
22738339 CCTAATTTAATATAAATTTTTACTTATA-TTTT-TT-TTCATATTGATTTTACAATTTGTATTTA
64 CCTAATTTAACATAAA-TTTTACTTATATTTTTATTCTTCATATTGATTTTACAATTTGTATTTA
** ** * * **
22738401 ATATTTATTTTTGTTCCTCTCAATAACATCGTTTCTAAGGTTTGAACTTATGTATTATTAAAGAA
128 ATATTTATGGTCATTCCTCTCAATAACACCGTTTCTAAGATCCGAACTTATGTATTATTAAAGAA
22738466 TGCAA
193 TGCAA
22738471 GCCTTTCTGC
Statistics
Matches: 173, Mismatches: 20, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
230 87 0.50
231 2 0.01
232 4 0.02
235 45 0.26
236 11 0.06
237 24 0.14
ACGTcount: A:0.32, C:0.17, G:0.09, T:0.42
Consensus pattern (231 bp):
GTGCTTTCACACACTCTCCAAAAACAACCTATTTCCCCAATTTAAAAAAAAACGACATAAATGCC
TAATTTAACATAAATTTTACTTATATTTTTATTCTTCATATTGATTTTACAATTTGTATTTAATA
TTTATGGTCATTCCTCTCAATAACACCGTTTCTAAGATCCGAACTTATGTATTATTAAAGAATGC
AATGTGCCTTATTGCAACCAAATCTTGTTGGTTGGT
Found at i:22738891 original size:24 final size:24
Alignment explanation
Indices: 22738863--22738914 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
22738853 TTAGTAGGTC
* *
22738863 AAATAAACTATGCTAACAAATGCT
1 AAATAAACTATACTAACAAATACT
* * *
22738887 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAACAAATACT
22738911 AAAT
1 AAAT
22738915 TTTCTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.54, C:0.12, G:0.04, T:0.31
Consensus pattern (24 bp):
AAATAAACTATACTAACAAATACT
Found at i:22749277 original size:17 final size:17
Alignment explanation
Indices: 22749255--22749290 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
22749245 TCCCTATGGG
22749255 TATGATAACTCGACATT
1 TATGATAACTCGACATT
22749272 TATGATAACTCGACATT
1 TATGATAACTCGACATT
22749289 TA
1 TA
22749291 CTTGTCACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (17 bp):
TATGATAACTCGACATT
Found at i:22755607 original size:8 final size:8
Alignment explanation
Indices: 22755594--22755622 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
22755584 TTTAGTAACT
22755594 TTTTTATA
1 TTTTTATA
22755602 TTTTTATA
1 TTTTTATA
22755610 TTTTTATA
1 TTTTTATA
22755618 TTTTT
1 TTTTT
22755623 CCAACTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTTATA
Found at i:22756159 original size:89 final size:91
Alignment explanation
Indices: 22756039--22756268 Score: 253
Period size: 87 Copynumber: 2.6 Consensus size: 91
22756029 AGTTCTTACT
* * * ** * * **
22756039 TTTTTTTTTACATTCAA-TGGGTATTTGAACTTTCAAAATATATCAAAAAGGCCCTCAAACTTTT
1 TTTTTTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATGCATCAAAAAGACCCT-AAAATTAA
** * *
22756103 TCA-AA-AA-AAGCAATTACGCCTCTA
65 AAAGAAGAAGAAGCAATTAAGCCCCTA
*
22756127 TTTTTTTTTGCACTCAATTGGGTACTTAAACTTTCAAAATGCATCAAAAAGACCCTAAAATTAAA
1 TTTTTTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATGCATCAAAAAGACCCTAAAATTAAA
22756192 AAGAAGAAGAAGCAATTAAGCCCCTA
66 AAGAAGAAGAAGCAATTAAGCCCCTA
*
22756218 ----TTTTTGCACTCAATTGGGTACTTGAACTGTCAAAATGCATCAAAAA-ACCCT
1 TTTTTTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATGCATCAAAAAGACCCT
22756269 TTAACCGTTA
Statistics
Matches: 122, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
86 5 0.04
87 44 0.36
88 21 0.17
89 35 0.29
90 2 0.02
91 15 0.12
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (91 bp):
TTTTTTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATGCATCAAAAAGACCCTAAAATTAAA
AAGAAGAAGAAGCAATTAAGCCCCTA
Found at i:22756453 original size:27 final size:27
Alignment explanation
Indices: 22756367--22756464 Score: 74
Period size: 27 Copynumber: 3.6 Consensus size: 27
22756357 ACATGTTACA
* *
22756367 AAAAAAATGATAAAAA-ATAAAAATCAG
1 AAAAAAAT-ATAAAAATATTAAAATTAG
* ** * *
22756394 TAAAAGTTATAAAATTATTAAATTTTA-
1 AAAAAAATATAAAAATATTAAA-ATTAG
*
22756421 ATAAAAATATAAAAATATTAAAATTAG
1 AAAAAAATATAAAAATATTAAAATTAG
*
22756448 AAAAAAATTCTAAAAAT
1 AAAAAAA-TATAAAAAT
22756465 CGTAAAAAAA
Statistics
Matches: 52, Mismatches: 15, Indels: 7
0.70 0.20 0.09
Matches are distributed among these distances:
26 9 0.17
27 33 0.63
28 10 0.19
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (27 bp):
AAAAAAATATAAAAATATTAAAATTAG
Found at i:22756492 original size:19 final size:19
Alignment explanation
Indices: 22756477--22756522 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
22756467 TAAAAAAACT
*
22756477 ATAAAAAATTATAAAAATC
1 ATAAAAAAGTATAAAAATC
*
22756496 ATAAAAAAGTATAAAATTC
1 ATAAAAAAGTATAAAAATC
22756515 ATAAAAAA
1 ATAAAAAA
22756523 AACCTTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.24
Consensus pattern (19 bp):
ATAAAAAAGTATAAAAATC
Found at i:22758479 original size:19 final size:19
Alignment explanation
Indices: 22758455--22758525 Score: 74
Period size: 19 Copynumber: 3.7 Consensus size: 19
22758445 TTCTATATAG
22758455 TTTATAATTTTTTACGATT
1 TTTATAATTTTTTACGATT
**
22758474 TTTATAAAATTTTAC-ATTTTT
1 TTTATAATTTTTTACGA---TT
*
22758495 TTTATAATTTTTTACGAGT
1 TTTATAATTTTTTACGATT
22758514 TTTAT-ATTTTTT
1 TTTATAATTTTTT
22758526 TTCTAATTCT
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
18 8 0.19
19 19 0.44
21 15 0.35
22 1 0.02
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.65
Consensus pattern (19 bp):
TTTATAATTTTTTACGATT
Found at i:22758487 original size:29 final size:28
Alignment explanation
Indices: 22758396--22758496 Score: 89
Period size: 29 Copynumber: 3.5 Consensus size: 28
22758386 CTTTACATTT
**
22758396 TTTTATAATTTTCTTACAACTTTATAAAA
1 TTTTATAATTTT-TTACATTTTTATAAAA
*
22758425 TTTTATAATTTTTT-CTATATTTCTAT-ATA
1 TTTTATAATTTTTTAC-AT-TTT-TATAAAA
*
22758454 GTTTATAATTTTTTACGATTTTTATAAAA
1 TTTTATAATTTTTTAC-ATTTTTATAAAA
* *
22758483 TTTTACATTTTTTT
1 TTTTATAATTTTTT
22758497 TATAATTTTT
Statistics
Matches: 58, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
27 1 0.02
28 6 0.10
29 45 0.78
30 6 0.10
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (28 bp):
TTTTATAATTTTTTACATTTTTATAAAA
Found at i:22758515 original size:58 final size:58
Alignment explanation
Indices: 22758396--22758526 Score: 142
Period size: 58 Copynumber: 2.2 Consensus size: 58
22758386 CTTTACATTT
*
22758396 TTTTATAATTTTCTTACAACTTTATAAAATTTTATAATTTTTTCTATATTTCTATATAG
1 TTTTATAATTTT-TTACAACTTTATAAAATTTTATAATTTTTTCTATATTTCTATAGAG
** * * *
22758455 -TTTATAATTTTTTACGATTTTTATAAAATTTTA-CATTTTTTTTATAATTT-TTTACGAG
1 TTTTATAATTTTTTAC-AACTTTATAAAATTTTATAATTTTTTCTAT-ATTTCTATA-GAG
*
22758513 TTTTATATTTTTTT
1 TTTTATAATTTTTT
22758527 TCTAATTCTA
Statistics
Matches: 61, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
57 17 0.28
58 32 0.52
59 12 0.20
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (58 bp):
TTTTATAATTTTTTACAACTTTATAAAATTTTATAATTTTTTCTATATTTCTATAGAG
Found at i:22761482 original size:39 final size:39
Alignment explanation
Indices: 22761420--22761494 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 39
22761410 GAGGTATATT
* *
22761420 AGAATTAGTGGCGCTTATGAAAAAACGCCGCTAAATCAC
1 AGAATTAGCGGCGCTTATGAAAAAACGCCGCAAAATCAC
*
22761459 AGAATTAGCGGCGCATTAT-AAAAAGCGCCGCAAAAT
1 AGAATTAGCGGCGC-TTATGAAAAAACGCCGCAAAAT
22761495 ATCTTAACCA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
39 28 0.88
40 4 0.12
ACGTcount: A:0.40, C:0.20, G:0.21, T:0.19
Consensus pattern (39 bp):
AGAATTAGCGGCGCTTATGAAAAAACGCCGCAAAATCAC
Found at i:22761485 original size:114 final size:114
Alignment explanation
Indices: 22761367--22761873 Score: 838
Period size: 114 Copynumber: 4.4 Consensus size: 114
22761357 GTTTATTTGT
* *
22761367 AAGCGCCGCCAAATATCTTAACCAAAACACAACGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAACGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
*
22761432 GCTTATGAAAAAACGCCGCTAAATCACAGAATTAGCGGCGCATTATAAA
66 GCTTATGAAAAAACGCCGCTAAAGCACAGAATTAGCGGCGCATTATAAA
22761481 AAGCGCCGCAAAATATCTTAACCAAAACGCAACGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAACGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
* *
22761546 GCTTATTG-AAAAATGCCGCTAAAGCACAGAATTAGCAGCGCATTATAAA
66 GCTTA-TGAAAAAACGCCGCTAAAGCACAGAATTAGCGGCGCATTATAAA
* * *
22761595 AAGTGCCGCAAAATATCTTAACCAAAACGCAGCGTATGGTCTTGAGGTATATTAGAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAACGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
* * *
22761660 GCTTATGAAAAAATGCCGCTAAAGCACA-ACATTAGCGGCGCAATAGAAA
66 GCTTATGAAAAAACGCCGCTAAAGCACAGA-ATTAGCGGCGCATTATAAA
* *
22761709 AAGCGCCGCAAAATATCTTAACCAAAACGCAACATTTGGTCTTGAGGTATATTAGAACTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAACGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
* *
22761774 GCTTATGAAGAAACGCCGCTAAAGCACAGAATTAGCGGTGCATTATAAA
66 GCTTATGAAAAAACGCCGCTAAAGCACAGAATTAGCGGCGCATTATAAA
*
22761823 AAGCGCCGCAAAATATGTTAACCAAAACGCAACGTTTGGTCTTGAGGTATA
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAACGTTTGGTCTTGAGGTATA
22761874 GAGCCAATAG
Statistics
Matches: 366, Mismatches: 23, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
113 3 0.01
114 360 0.98
115 3 0.01
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (114 bp):
AAGCGCCGCAAAATATCTTAACCAAAACGCAACGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
GCTTATGAAAAAACGCCGCTAAAGCACAGAATTAGCGGCGCATTATAAA
Found at i:22762063 original size:342 final size:341
Alignment explanation
Indices: 22761367--22762021 Score: 833
Period size: 342 Copynumber: 1.9 Consensus size: 341
22761357 GTTTATTTGT
* * * *
22761367 AAGCGCCGCCAAATATCTTAACCAAAACACAACGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAACATTTGGTCTTGAGGTATATTAGAACTAGTGGC
*
22761432 GCTTATGAAAAAACGCCGCTAAATCACAGAATTAGCGGCGCATTATAAAAAGCGCCGCAAAATAT
66 GCTTATGAAAAAACGCCGCTAAAGCACAGAATTAGCGGCGCATTATAAAAAGCGCCGCAAAATAT
* * *
22761497 CTTAACCAAAACGCAACGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATTGAAAAATGC
131 CTTAACCAAAACGCAACGTTTGGTCTTGAGGTATATGAGAATTAGCGGCGCTTATTGAAAAACGC
*** *
22761562 CGCTAAAGCACAGAATTAGCAGCGCATTATAAAAAGTGCCGCAAAATATCTTAACCAAAACGCAG
196 CGCTAAAGCACAGAATTAGCAGCGCATTATAAAAAACACCGCAAAATATCTTAACCAAAACGCAA
* * * ** *
22761627 CGTATGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGAAAAAATGCCGCTAAAGCACAACAT
261 CGTATCGTCTTGAGCTATA-TAGAATTAGCGGCGCTTACCAAAAAACGCCGCTAAAGCACAACAT
22761692 TAGCGGCGCAATAGAAA
325 TAGCGGCGCAATAGAAA
22761709 AAGCGCCGCAAAATATCTTAACCAAAACGCAACATTTGGTCTTGAGGTATATTAGAACTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAACATTTGGTCTTGAGGTATATTAGAACTAGTGGC
* *
22761774 GCTTATGAAGAAACGCCGCTAAAGCACAGAATTAGCGGTGCATTATAAAAAGCGCCGCAAAATAT
66 GCTTATGAAAAAACGCCGCTAAAGCACAGAATTAGCGGCGCATTATAAAAAGCGCCGCAAAATAT
* * * *
22761839 GTTAACCAAAACGCAACGTTTGGTCTTGAGGTATA-GAGCCAA-TAGCGGTGGTTGTTG-AAAAC
131 CTTAACCAAAACGCAACGTTTGGTCTTGAGGTATATGAG--AATTAGCGGCGCTTATTGAAAAAC
*** * * *
22761901 GCCGCT-ATTTACCGCAATTAGCAGTG-ATTAACTAAAAAACACCAG-AAAAT-T-TTAAACCGA
194 GCCGCTAAAGCACAG-AATTAGCAGCGCATT-A-TAAAAAACACC-GCAAAATATCTT-AACCAA
* * * ** *
22761961 AATGCAATGTTTCGTCTTGAGCTATA-ACGTCGTTAGCGGCGCTTACCAGAAAACGCCGCTA
254 AACGCAACGTATCGTCTTGAGCTATATA-G-AATTAGCGGCGCTTACCAAAAAACGCCGCTA
22762022 TATATAAACT
Statistics
Matches: 268, Mismatches: 36, Indels: 19
0.83 0.11 0.06
Matches are distributed among these distances:
339 1 0.00
340 10 0.04
341 73 0.27
342 181 0.68
343 3 0.01
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.24
Consensus pattern (341 bp):
AAGCGCCGCAAAATATCTTAACCAAAACGCAACATTTGGTCTTGAGGTATATTAGAACTAGTGGC
GCTTATGAAAAAACGCCGCTAAAGCACAGAATTAGCGGCGCATTATAAAAAGCGCCGCAAAATAT
CTTAACCAAAACGCAACGTTTGGTCTTGAGGTATATGAGAATTAGCGGCGCTTATTGAAAAACGC
CGCTAAAGCACAGAATTAGCAGCGCATTATAAAAAACACCGCAAAATATCTTAACCAAAACGCAA
CGTATCGTCTTGAGCTATATAGAATTAGCGGCGCTTACCAAAAAACGCCGCTAAAGCACAACATT
AGCGGCGCAATAGAAA
Found at i:22762654 original size:21 final size:21
Alignment explanation
Indices: 22762581--22762667 Score: 81
Period size: 21 Copynumber: 4.1 Consensus size: 21
22762571 TTTGGCTAGT
*
22762581 TTTAGGGTTTAGA-GTTTATGA
1 TTTAGGGTTTA-ATGTTTATGG
* *
22762602 TTTGGTGGTTGT--TGTTTGTGG
1 TTTAG-GGTT-TAATGTTTATGG
22762623 TTTATGGGTTTAATGTTTATGG
1 TTTA-GGGTTTAATGTTTATGG
*
22762645 TTTAGGGTTTAAGGTTTATGG
1 TTTAGGGTTTAATGTTTATGG
22762666 TT
1 TT
22762668 AATGTTTACG
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
20 1 0.02
21 35 0.65
22 17 0.31
23 1 0.02
ACGTcount: A:0.15, C:0.00, G:0.32, T:0.53
Consensus pattern (21 bp):
TTTAGGGTTTAATGTTTATGG
Found at i:22762775 original size:7 final size:7
Alignment explanation
Indices: 22762738--22762789 Score: 50
Period size: 7 Copynumber: 7.4 Consensus size: 7
22762728 AATTGACGGG
22762738 TTAGGGT
1 TTAGGGT
**
22762745 TTACAGT
1 TTAGGGT
*
22762752 TTGGGGT
1 TTAGGGT
*
22762759 TTGGGGT
1 TTAGGGT
22762766 TTAGGGT
1 TTAGGGT
**
22762773 TTATAGT
1 TTAGGGT
22762780 TTAGGGT
1 TTAGGGT
22762787 TTA
1 TTA
22762790 AGATTTACGG
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.15, C:0.02, G:0.37, T:0.46
Consensus pattern (7 bp):
TTAGGGT
Found at i:22762796 original size:21 final size:21
Alignment explanation
Indices: 22762757--22762796 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
22762747 ACAGTTTGGG
* * *
22762757 GTTTGGGGTTTAGGGTTTATA
1 GTTTAGGGTTTAAGATTTATA
22762778 GTTTAGGGTTTAAGATTTA
1 GTTTAGGGTTTAAGATTTA
22762797 CGGTTAAGGC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.47
Consensus pattern (21 bp):
GTTTAGGGTTTAAGATTTATA
Found at i:22762796 original size:28 final size:28
Alignment explanation
Indices: 22762738--22762801 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 28
22762728 AATTGACGGG
* ** *
22762738 TTAGGGTTTACAGTTTGGGGTTTGGGGT
1 TTAGGGTTTACAGTTTAGGGTTTAAGAT
*
22762766 TTAGGGTTTATAGTTTAGGGTTTAAGAT
1 TTAGGGTTTACAGTTTAGGGTTTAAGAT
*
22762794 TTACGGTT
1 TTAGGGTT
22762802 AAGGCTTAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.17, C:0.03, G:0.34, T:0.45
Consensus pattern (28 bp):
TTAGGGTTTACAGTTTAGGGTTTAAGAT
Found at i:22762801 original size:14 final size:14
Alignment explanation
Indices: 22762738--22762789 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
22762728 AATTGACGGG
*
22762738 TTAGGGTTTACAGT
1 TTAGGGTTTATAGT
* ***
22762752 TTGGGGTTTGGGGT
1 TTAGGGTTTATAGT
22762766 TTAGGGTTTATAGT
1 TTAGGGTTTATAGT
22762780 TTAGGGTTTA
1 TTAGGGTTTA
22762790 AGATTTACGG
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.15, C:0.02, G:0.37, T:0.46
Consensus pattern (14 bp):
TTAGGGTTTATAGT
Found at i:22762944 original size:15 final size:16
Alignment explanation
Indices: 22762924--22762959 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
22762914 GATATTTTAG
*
22762924 AATATACATATAAA-T
1 AATATAAATATAAATT
22762939 AATATAAATATAAATT
1 AATATAAATATAAATT
22762955 AATAT
1 AATAT
22762960 TTAAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (16 bp):
AATATAAATATAAATT
Found at i:22763201 original size:21 final size:20
Alignment explanation
Indices: 22763161--22763198 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
22763151 AATATATTGA
*
22763161 TGTATTTAGTTTTTAAAATG
1 TGTAATTAGTTTTTAAAATG
*
22763181 TGTAATTATTTTTTAAAA
1 TGTAATTAGTTTTTAAAA
22763199 ATGCATTACT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (20 bp):
TGTAATTAGTTTTTAAAATG
Found at i:22763855 original size:17 final size:15
Alignment explanation
Indices: 22763821--22763849 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
22763811 AAATTTGAAT
22763821 ATTGATAGTATTTAA
1 ATTGATAGTATTTAA
22763836 ATTGATAGTATTTA
1 ATTGATAGTATTTA
22763850 TAAATTTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (15 bp):
ATTGATAGTATTTAA
Found at i:22763865 original size:16 final size:16
Alignment explanation
Indices: 22763803--22763872 Score: 50
Period size: 16 Copynumber: 3.9 Consensus size: 16
22763793 CGCCGCAAAC
22763803 ATATTTATAAATTTGA
1 ATATTTATAAATTTGA
*
22763819 ATATTGATAGTATTTAAATTGA
1 ATATT--TA-TA---AATTTGA
22763841 TAGTATTTATAAATTTGA
1 -A-TATTTATAAATTTGA
*
22763859 ATATTTAGAAATTT
1 ATATTTATAAATTT
22763873 ATTAAATTTG
Statistics
Matches: 43, Mismatches: 3, Indels: 16
0.69 0.05 0.26
Matches are distributed among these distances:
16 17 0.40
17 1 0.02
18 8 0.19
19 2 0.05
21 2 0.05
22 8 0.19
23 1 0.02
24 4 0.09
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (16 bp):
ATATTTATAAATTTGA
Found at i:22763895 original size:25 final size:24
Alignment explanation
Indices: 22763845--22763895 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
22763835 AATTGATAGT
* *
22763845 ATTTATAAATTTGAATATTTAGAA
1 ATTTATAAATTTGAATAATTAAAA
*
22763869 ATTTATTAAATTTGTATAATTAAAA
1 ATTTA-TAAATTTGAATAATTAAAA
22763894 AT
1 AT
22763896 AATATCTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (24 bp):
ATTTATAAATTTGAATAATTAAAA
Found at i:22764416 original size:49 final size:49
Alignment explanation
Indices: 22764344--22764440 Score: 194
Period size: 49 Copynumber: 2.0 Consensus size: 49
22764334 ATATTTCTGT
22764344 TTGTTTCTTTTGATTTCTTGCAAAAAAACCAATAAAAAAAGCTTCATAA
1 TTGTTTCTTTTGATTTCTTGCAAAAAAACCAATAAAAAAAGCTTCATAA
22764393 TTGTTTCTTTTGATTTCTTGCAAAAAAACCAATAAAAAAAGCTTCATA
1 TTGTTTCTTTTGATTTCTTGCAAAAAAACCAATAAAAAAAGCTTCATA
22764441 CATTCGATTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.40, C:0.14, G:0.08, T:0.37
Consensus pattern (49 bp):
TTGTTTCTTTTGATTTCTTGCAAAAAAACCAATAAAAAAAGCTTCATAA
Found at i:22765786 original size:9 final size:9
Alignment explanation
Indices: 22765755--22766476 Score: 197
Period size: 9 Copynumber: 82.4 Consensus size: 9
22765745 TTTTGTTATA
22765755 AACTTACAT
1 AACTTACAT
*
22765764 GACTTACATAAT
1 AACTTAC---AT
22765776 AACTTACAT
1 AACTTACAT
**
22765785 AACTTATTT
1 AACTTACAT
22765794 AAACTTACAT
1 -AACTTACAT
**
22765804 AACTTATTT
1 AACTTACAT
22765813 AAACTTACAT
1 -AACTTACAT
*
22765823 AA--TACAA
1 AACTTACAT
22765830 AACTTA-AT
1 AACTTACAT
** **
22765838 TCCAGA-AT
1 AACTTACAT
22765846 AACTTACAT
1 AACTTACAT
* *
22765855 AACTTATAAAGA
1 AAC-T-TACA-T
*
22765867 AACTTATATAT
1 AAC-T-TACAT
*
22765878 AAACTTGCAT
1 -AACTTACAT
22765888 AACTTACATAGT
1 AACTTAC--A-T
*
22765900 AACATA-AT
1 AACTTACAT
*
22765908 AAATTACAT
1 AACTTACAT
22765917 AA--TACAT
1 AACTTACAT
*
22765924 AA-TAACAT
1 AACTTACAT
22765932 AA--TACAT
1 AACTTACAT
*
22765939 AACTTATATAT
1 AAC-T-TACAT
*
22765950 AAGCTTGCAT
1 AA-CTTACAT
22765960 AACTTACATAAT
1 AACTTAC---AT
22765972 AACTTACAT
1 AACTTACAT
22765981 AACTTACAT
1 AACTTACAT
*
22765990 AA--TACAC
1 AACTTACAT
*
22765997 CACTTACAT
1 AACTTACAT
22766006 AACTTACAT
1 AACTTACAT
22766015 AACTTACAT
1 AACTTACAT
*
22766024 AGCTTACAT
1 AACTTACAT
* *
22766033 -TC-TACAC
1 AACTTACAT
22766040 AACTTACAT
1 AACTTACAT
* *
22766049 AGCATACAT
1 AACTTACAT
*
22766058 AA--TACAG
1 AACTTACAT
22766065 AACTTACAT
1 AACTTACAT
**
22766074 AAAATAC--
1 AACTTACAT
22766081 AACTTACAT
1 AACTTACAT
*
22766090 ATCTTACAT
1 AACTTACAT
22766099 AA--TACAT
1 AACTTACAT
22766106 AACTTACAT
1 AACTTACAT
*
22766115 AA--TACAG
1 AACTTACAT
* * *
22766122 CACTTGCAC
1 AACTTACAT
*
22766131 AACTTAAAT
1 AACTTACAT
*
22766140 AACTTGCAT
1 AACTTACAT
22766149 AA--TACAT
1 AACTTACAT
* *
22766156 AGCCTACAT
1 AACTTACAT
*
22766165 AACTTATAT
1 AACTTACAT
* *
22766174 AGCTTTCAT
1 AACTTACAT
**
22766183 AAAATAC--
1 AACTTACAT
* *
22766190 AGCTTATAT
1 AACTTACAT
**
22766199 ATTTTACAT
1 AACTTACAT
*
22766208 AAAACTTATAT
1 --AACTTACAT
22766219 AA--TACAT
1 AACTTACAT
22766226 AACTTACAT
1 AACTTACAT
22766235 AAC--ACA-
1 AACTTACAT
*
22766241 ACACTTACAC
1 A-ACTTACAT
*
22766251 AACTTAAAT
1 AACTTACAT
* *
22766260 AACTTGCAC
1 AACTTACAT
22766269 AA--TACAT
1 AACTTACAT
* * *
22766276 AGCCTCCAT
1 AACTTACAT
*
22766285 AACTTATAT
1 AACTTACAT
* *
22766294 AACTTTCAC
1 AACTTACAT
**
22766303 AAAATAC--
1 AACTTACAT
22766310 AACTTACAT
1 AACTTACAT
*
22766319 ATCTTACAT
1 AACTTACAT
*
22766328 AAAACTTATAT
1 --AACTTACAT
22766339 AA--TACAT
1 AACTTACAT
22766346 AACTTACAT
1 AACTTACAT
22766355 AA--TACA-
1 AACTTACAT
*
22766361 ACACTTACAC
1 A-ACTTACAT
*
22766371 AACTTAAAT
1 AACTTACAT
*
22766380 AACTTGCAT
1 AACTTACAT
22766389 AA--TACAT
1 AACTTACAT
* *
22766396 AGCCTACAT
1 AACTTACAT
*
22766405 AACTTATAT
1 AACTTACAT
*
22766414 -A-GTACAT
1 AACTTACAT
22766421 AACTTACAT
1 AACTTACAT
* *
22766430 AACGTACTT
1 AACTTACAT
22766439 AA--TACAT
1 AACTTACAT
* *
22766446 AA-ATATAT
1 AACTTACAT
* *
22766454 ATCATATCAT
1 AACTTA-CAT
22766464 AACTTACAT
1 AACTTACAT
22766473 AACT
1 AACT
22766477 CATTTAATTT
Statistics
Matches: 511, Mismatches: 134, Indels: 136
0.65 0.17 0.17
Matches are distributed among these distances:
6 2 0.00
7 105 0.21
8 27 0.05
9 285 0.56
10 31 0.06
11 25 0.05
12 36 0.07
ACGTcount: A:0.46, C:0.20, G:0.03, T:0.32
Consensus pattern (9 bp):
AACTTACAT
Found at i:22765800 original size:19 final size:19
Alignment explanation
Indices: 22765753--22765824 Score: 99
Period size: 19 Copynumber: 3.7 Consensus size: 19
22765743 ATTTTTGTTA
* *
22765753 TAAACTTACATGACTTACAT
1 TAAACTTACATAACTTA-TT
*
22765773 AATAACTTACATAACTTATT
1 TA-AACTTACATAACTTATT
22765793 TAAACTTACATAACTTATT
1 TAAACTTACATAACTTATT
22765812 TAAACTTACATAA
1 TAAACTTACATAA
22765825 TACAAAACTT
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
19 30 0.64
20 3 0.06
21 14 0.30
ACGTcount: A:0.44, C:0.17, G:0.01, T:0.38
Consensus pattern (19 bp):
TAAACTTACATAACTTATT
Found at i:22765914 original size:20 final size:19
Alignment explanation
Indices: 22765886--22765928 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
22765876 ATAAACTTGC
* *
22765886 ATAACTTACATAGTAACATA
1 ATAAATTACATAAT-ACATA
22765906 ATAAATTACATAATACATA
1 ATAAATTACATAATACATA
22765925 ATAA
1 ATAA
22765929 CATAATACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.56, C:0.12, G:0.02, T:0.30
Consensus pattern (19 bp):
ATAAATTACATAATACATA
Found at i:22765933 original size:15 final size:15
Alignment explanation
Indices: 22765892--22765940 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
22765882 TTGCATAACT
*
22765892 TACATAGTAACATAA
1 TACATAATAACATAA
*
22765907 T--A-AATTACATAA
1 TACATAATAACATAA
22765919 TACATAATAACATAA
1 TACATAATAACATAA
22765934 TACATAA
1 TACATAA
22765941 CTTATATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
12 9 0.32
13 1 0.04
14 1 0.04
15 17 0.61
ACGTcount: A:0.57, C:0.12, G:0.02, T:0.29
Consensus pattern (15 bp):
TACATAATAACATAA
Found at i:22766001 original size:25 final size:21
Alignment explanation
Indices: 22765886--22766032 Score: 119
Period size: 21 Copynumber: 7.0 Consensus size: 21
22765876 ATAAACTTGC
* *
22765886 ATAACTTACAT-AGTAACATA
1 ATAACTTACATAACTTACATA
*
22765906 ATAAATTACATAA--TACATA
1 ATAACTTACATAACTTACATA
*
22765925 ATAACATAATACATAACTTATAT-
1 ATAAC-T--TACATAACTTACATA
*
22765948 ATAAGCTTGCATAACTTACATA
1 ATAA-CTTACATAACTTACATA
22765970 ATAACTTACATAACTTACATA
1 ATAACTTACATAACTTACATA
22765991 ATACACCACTTACATAACTTAC---
1 AT--A--ACTTACATAACTTACATA
*
22766013 ATAACTTACATAGCTTACAT
1 ATAACTTACATAACTTACAT
22766033 TCTACACAAC
Statistics
Matches: 105, Mismatches: 8, Indels: 28
0.74 0.06 0.20
Matches are distributed among these distances:
18 14 0.13
19 9 0.09
20 12 0.11
21 31 0.30
22 13 0.12
23 6 0.06
24 5 0.05
25 15 0.14
ACGTcount: A:0.47, C:0.18, G:0.03, T:0.32
Consensus pattern (21 bp):
ATAACTTACATAACTTACATA
Found at i:22766063 original size:16 final size:16
Alignment explanation
Indices: 22765906--22766474 Score: 130
Period size: 16 Copynumber: 33.8 Consensus size: 16
22765896 TAGTAACATA
*
22765906 ATAAATTACATAATAC
1 ATAACTTACATAATAC
*
22765922 ATAA-TAACATAATAC
1 ATAACTTACATAATAC
* *
22765937 ATAACTTATATATAAGCTTGC
1 ATAAC-T-TACATAA---TAC
22765958 ATAACTTACATAATAACTTAC
1 ATAACTTAC---ATAA--TAC
22765979 ATAACTTACATAATAC
1 ATAACTTACATAATAC
**
22765995 ACCACTTACATAACTTAC
1 ATAACTTACATAA--TAC
*
22766013 ATAACTTACATAGCTTAC
1 ATAACTTACATA--ATAC
* *
22766031 AT-TC-TACACAACTTAC
1 ATAACTTACATAA--TAC
* *
22766047 ATAGCATACATAATAC
1 ATAACTTACATAATAC
*
22766063 AGAACTTACATAA-A-
1 ATAACTTACATAATAC
*
22766077 AT-AC-AAC-T--TAC
1 ATAACTTACATAATAC
*
22766088 ATATCTTACATAATAC
1 ATAACTTACATAATAC
22766104 ATAACTTACATAATAC
1 ATAACTTACATAATAC
** * * *
22766120 AGCACTTGCACAACTTAA
1 ATAACTTACATAA--TAC
*
22766138 ATAACTTGCATAATAC
1 ATAACTTACATAATAC
* * *
22766154 ATAGCCTACATAACTTAT
1 ATAACTTACATAA--TAC
* *
22766172 ATAGCTTTCATAA-A-
1 ATAACTTACATAATAC
* *
22766186 ATACAGCTTATATATTTTAC
1 ATA-A-CTTACATA--ATAC
*
22766206 ATAAAACTTATATAATAC
1 AT--AACTTACATAATAC
*
22766224 ATAACTTACATAACAC
1 ATAACTTACATAATAC
* *
22766240 A-ACACTTACACAACTTAA
1 ATA-ACTTACATAA--TAC
* *
22766258 ATAACTTGCACAATAC
1 ATAACTTACATAATAC
* * * *
22766274 ATAGCCTCCATAACTTAT
1 ATAACTTACATAA--TAC
*
22766292 ATAACTTTCACAAAATAC
1 ATAAC-TT-ACATAATAC
*
22766310 --AACTTACATATCTTAC
1 ATAACTTACATA--ATAC
*
22766326 ATAAAACTTATATAATAC
1 AT--AACTTACATAATAC
22766344 ATAACTTACATAATAC
1 ATAACTTACATAATAC
* *
22766360 A-ACACTTACACAACTTAA
1 ATA-ACTTACATAA--TAC
*
22766378 ATAACTTGCATAATAC
1 ATAACTTACATAATAC
* * *
22766394 ATAGCCTACATAACT-T
1 ATAACTTACATAA-TAC
*
22766410 ATATA-GTACATAACTTAC
1 ATA-ACTTACATAA--TAC
* *
22766428 ATAACGTACTTAATAC
1 ATAACTTACATAATAC
* * *
22766444 ATAAATATATATCATATC
1 ATAACT-TACATAATA-C
22766462 ATAACTTACATAA
1 ATAACTTACATAA
22766475 CTCATTTAAT
Statistics
Matches: 404, Mismatches: 88, Indels: 121
0.66 0.14 0.20
Matches are distributed among these distances:
10 1 0.00
11 3 0.01
12 3 0.01
13 4 0.01
14 9 0.02
15 20 0.05
16 177 0.44
17 17 0.04
18 114 0.28
19 6 0.01
20 24 0.06
21 21 0.05
22 5 0.01
ACGTcount: A:0.46, C:0.20, G:0.03, T:0.31
Consensus pattern (16 bp):
ATAACTTACATAATAC
Found at i:22766083 original size:41 final size:41
Alignment explanation
Indices: 22766038--22766116 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 41
22766028 TACATTCTAC
22766038 ACAACTTACATAGCATACATAATACAGAACTTACATAAAAT
1 ACAACTTACATAGCATACATAATACAGAACTTACATAAAAT
* * *
22766079 ACAACTTACATATCTTACATAATACATAACTTACATAA
1 ACAACTTACATAGCATACATAATACAGAACTTACATAA
22766117 TACAGCACTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.49, C:0.20, G:0.03, T:0.28
Consensus pattern (41 bp):
ACAACTTACATAGCATACATAATACAGAACTTACATAAAAT
Found at i:22766115 original size:25 final size:26
Alignment explanation
Indices: 22765976--22766170 Score: 117
Period size: 25 Copynumber: 7.8 Consensus size: 26
22765966 CATAATAACT
* *
22765976 TACATAACTTACATAA--TACACCACT
1 TACATAACTTACATAACTTACA-TACA
*
22766001 TACATAACTTACATAACTTACATAGCT
1 TACATAACTTACATAACTTACATA-CA
* *
22766028 TACAT-TC-TACACAACTTACATAGCA
1 TACATAACTTACATAACTTACATA-CA
* *
22766053 TACATAA--TACAGAACTTACATAAAA
1 TACATAACTTACATAACTTACAT-ACA
*
22766078 TAC--AACTTACATATCTTACATA-A
1 TACATAACTTACATAACTTACATACA
* *
22766101 TACATAACTTACATAA--TACAGCACT
1 TACATAACTTACATAACTTACA-TACA
* * * *
22766126 TGCACAACTTAAATAACTTGCATA-A
1 TACATAACTTACATAACTTACATACA
* *
22766151 TACATAGCCTACATAACTTA
1 TACATAACTTACATAACTTA
22766171 TATAGCTTTC
Statistics
Matches: 133, Mismatches: 24, Indels: 26
0.73 0.13 0.14
Matches are distributed among these distances:
23 10 0.08
24 2 0.02
25 103 0.77
26 4 0.03
27 14 0.11
ACGTcount: A:0.44, C:0.23, G:0.04, T:0.29
Consensus pattern (26 bp):
TACATAACTTACATAACTTACATACA
Found at i:22766256 original size:120 final size:120
Alignment explanation
Indices: 22766092--22766415 Score: 549
Period size: 120 Copynumber: 2.7 Consensus size: 120
22766082 ACTTACATAT
* * *
22766092 CTTACATAATACATAACTTACATAATACAGCACTTGCACAACTTAAATAACTTGCATAATACATA
1 CTTATATAATACATAACTTACATAATACAACACTTACACAACTTAAATAACTTGCATAATACATA
* * * *
22766157 GCCTACATAACTTATATAGCTTTCATAAAATACAGCTTATATATTTTACATAAAA
66 GCCTACATAACTTATATAGCTTTCACAAAATACAACTTACATATCTTACATAAAA
* *
22766212 CTTATATAATACATAACTTACATAACACAACACTTACACAACTTAAATAACTTGCACAATACATA
1 CTTATATAATACATAACTTACATAATACAACACTTACACAACTTAAATAACTTGCATAATACATA
* *
22766277 GCCTCCATAACTTATATAACTTTCACAAAATACAACTTACATATCTTACATAAAA
66 GCCTACATAACTTATATAGCTTTCACAAAATACAACTTACATATCTTACATAAAA
22766332 CTTATATAATACATAACTTACATAATACAACACTTACACAACTTAAATAACTTGCATAATACATA
1 CTTATATAATACATAACTTACATAATACAACACTTACACAACTTAAATAACTTGCATAATACATA
22766397 GCCTACATAACTTATATAG
66 GCCTACATAACTTATATAG
22766416 TACATAACTT
Statistics
Matches: 189, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
120 189 1.00
ACGTcount: A:0.45, C:0.21, G:0.03, T:0.31
Consensus pattern (120 bp):
CTTATATAATACATAACTTACATAATACAACACTTACACAACTTAAATAACTTGCATAATACATA
GCCTACATAACTTATATAGCTTTCACAAAATACAACTTACATATCTTACATAAAA
Found at i:22766406 original size:25 final size:25
Alignment explanation
Indices: 22766330--22766447 Score: 80
Period size: 25 Copynumber: 4.7 Consensus size: 25
22766320 TCTTACATAA
* *
22766330 AACTTATATAATACATAACTTACAT
1 AACTTACATAATACATAACCTACAT
* * *
22766355 AA--TACA-ACACTTACACAACTTAAAT
1 AACTTACATA-A--TACATAACCTACAT
* *
22766380 AACTTGCATAATACATAGCCTACAT
1 AACTTACATAATACATAACCTACAT
* * *
22766405 AACTTATATAGTACATAACTTACAT
1 AACTTACATAATACATAACCTACAT
* *
22766430 AACGTACTTAATACATAA
1 AACTTACATAATACATAA
22766448 ATATATATCA
Statistics
Matches: 70, Mismatches: 17, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
22 1 0.01
23 4 0.06
25 60 0.86
27 4 0.06
28 1 0.01
ACGTcount: A:0.47, C:0.19, G:0.03, T:0.31
Consensus pattern (25 bp):
AACTTACATAATACATAACCTACAT
Found at i:22772530 original size:44 final size:42
Alignment explanation
Indices: 22772464--22772583 Score: 159
Period size: 43 Copynumber: 2.8 Consensus size: 42
22772454 TGGAAAATTG
*
22772464 CCGCTAAAGAGCATGACCTTTAGCGGCGTTTGTGGAAAAAAACC
1 CCGCTAAAGAACATGA-CTTTAGCGGCGTTTGT-GAAAAAAACC
* * * *
22772508 CCGCTAAAGAACATTACTTTTAGCGGCGTTTGTGAATAAAGCG
1 CCGCTAAAGAACATGAC-TTTAGCGGCGTTTGTGAAAAAAACC
22772551 CCGCTAAAGAACATGAGCTTTAGCGGCGTTTGT
1 CCGCTAAAGAACATGA-CTTTAGCGGCGTTTGT
22772584 TGGTAGGCGC
Statistics
Matches: 68, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
43 38 0.56
44 30 0.44
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (42 bp):
CCGCTAAAGAACATGACTTTAGCGGCGTTTGTGAAAAAAACC
Found at i:22772573 original size:43 final size:43
Alignment explanation
Indices: 22772463--22772791 Score: 240
Period size: 42 Copynumber: 7.7 Consensus size: 43
22772453 ATGGAAAATT
* * * *
22772463 GCCGCTAAAGAGCATGACCTTTAGCGGCGTTTGTGGAAAAAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGTTTGT-GTATAAAGC
* * * *
22772507 CCCGCTAAAGAACATTACTTTTAGCGGCGTTTGTGAATAAAGC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTGTATAAAGC
* * *
22772550 GCCGCTAAAGAACATGAGCTTTAGCGGCGTTTGT-TGGT-AGGC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTGT-ATAAAGC
* ** ** *
22772592 GCCGCTATAGGTCATGTTCTTTAGCGGCGTTTTTTGTA-AAAGC
1 GCCGCTAAAGAACATGACCTTTAGCGGCG-TTTGTGTATAAAGC
* * * * ** *
22772635 GCTGCTAAAGAACATTACCTTTAGTGGCGTTTCTG-AGGAAGA
1 GCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTGTATAAAGC
* * * * *
22772677 GCCGCTGAATAACATGACCTTTAGCGGCGTTT-TTTTTGAAGC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTGTATAAAGC
* * * * * *
22772719 GTCGCTAAAGAACATCATCTTTAGCGGTGTTT-T-TTTTAAGC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTGTATAAAGC
** *
22772760 GCTACTAAAGAACATGACCTTTAGCTGCGTTT
1 GCCGCTAAAGAACATGACCTTTAGCGGCGTTT
22772792 ATTTCTGTAA
Statistics
Matches: 224, Mismatches: 55, Indels: 15
0.76 0.19 0.05
Matches are distributed among these distances:
41 34 0.15
42 93 0.42
43 66 0.29
44 31 0.14
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (43 bp):
GCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTGTATAAAGC
Found at i:22772681 original size:85 final size:84
Alignment explanation
Indices: 22772466--22772750 Score: 204
Period size: 85 Copynumber: 3.3 Consensus size: 84
22772456 GAAAATTGCC
* * * * * * * *
22772466 GCTAAAGAGCATGACCTTTAGCGGCGTTTG-TGGAAAAAAACCCCGCTAAAGAACATTACTTTTA
1 GCTAAAGAACATCACCTTTAGCGGCGTTTGCTGG--GAAGA-GCCGCT-AATAACATGACCTTTA
* * *
22772530 GCGGCG-TTTGTGAATAAAGCGCC
62 GCGGCGTTTTTTGTA-AAAGCGCT
* * * * * * * **
22772553 GCTAAAGAACATGAGCTTTAGCGGCGTTTGTTGGTAGGCGCCGCT-ATAGGTCATGTTCTTTAGC
1 GCTAAAGAACATCACCTTTAGCGGCGTTTGCTGGGAAGAGCCGCTAATA--ACATGACCTTTAGC
22772617 GGCGTTTTTTGTAAAAGCGCT
64 GGCGTTTTTTGTAAAAGCGCT
* *
22772638 GCTAAAGAACATTACCTTTAGTGGCGTTT-CTGAGGAAGAGCCGCTGAATAACATGACCTTTAGC
1 GCTAAAGAACATCACCTTTAGCGGCGTTTGCTG-GGAAGAGCCGCT-AATAACATGACCTTTAGC
**
22772702 GGCGTTTTTT-TTGAAGCG-T
64 GGCGTTTTTTGTAAAAGCGCT
* *
22772721 CGCTAAAGAACATCATCTTTAGCGGTGTTT
1 -GCTAAAGAACATCACCTTTAGCGGCGTTT
22772751 TTTTTAAGCG
Statistics
Matches: 158, Mismatches: 32, Indels: 19
0.76 0.15 0.09
Matches are distributed among these distances:
83 3 0.02
84 33 0.21
85 81 0.51
86 7 0.04
87 31 0.20
88 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (84 bp):
GCTAAAGAACATCACCTTTAGCGGCGTTTGCTGGGAAGAGCCGCTAATAACATGACCTTTAGCGG
CGTTTTTTGTAAAAGCGCT
Found at i:22772708 original size:127 final size:126
Alignment explanation
Indices: 22772510--22772791 Score: 309
Period size: 127 Copynumber: 2.2 Consensus size: 126
22772500 AAAAAACCCC
* * * * * *
22772510 GCTAAAGAACATTACTTTTAGCGGCGTTTGTGAATAAAGCGCCGCTAAAGAACATGAGCTTTAGC
1 GCTAAAGAACATTACCTTTAGTGGCGTTTCTGAAGAAAGAGCCGCTAAAGAACATGACCTTTAGC
* * ** **
22772575 GGCGTTTGTTGGT-AGGCGCCGCTATAGGTCATGTTCTTTAGCGGCGTTTTTTGTAAAAGCGCT
66 GGCGTTT-TTGGTGAAGCGCCGCTAAAGAACATCATCTTTAGCGGCGTTTTTT-T-AAAGCGCT
* * *
22772638 GCTAAAGAACATTACCTTTAGTGGCGTTTCTG-AGGAAGAGCCGCTGAATAACATGACCTTTAGC
1 GCTAAAGAACATTACCTTTAGTGGCGTTTCTGAAGAAAGAGCCGCTAAAGAACATGACCTTTAGC
** * * *
22772702 GGCGTTTTTTTTGAAGCGTCGCTAAAGAACATCATCTTTAGCGGTGTTTTTTTTAAGCGCT
66 GGCGTTTTTGGTGAAGCGCCGCTAAAGAACATCATCTTTAGCGGCGTTTTTTTAAAGCGCT
* *
22772763 ACTAAAGAACATGACCTTTAGCT-GCGTTT
1 GCTAAAGAACATTACCTTTAG-TGGCGTTT
22772792 ATTTCTGTAA
Statistics
Matches: 130, Mismatches: 22, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
125 32 0.25
126 5 0.04
127 64 0.49
128 29 0.22
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.32
Consensus pattern (126 bp):
GCTAAAGAACATTACCTTTAGTGGCGTTTCTGAAGAAAGAGCCGCTAAAGAACATGACCTTTAGC
GGCGTTTTTGGTGAAGCGCCGCTAAAGAACATCATCTTTAGCGGCGTTTTTTTAAAGCGCT
Found at i:22775154 original size:10 final size:10
Alignment explanation
Indices: 22775139--22775168 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
22775129 AATATCAATC
22775139 AATTTACCTT
1 AATTTACCTT
*
22775149 AATTTACCTC
1 AATTTACCTT
22775159 AATTTACCTT
1 AATTTACCTT
22775169 TTCTTCTCCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.30, C:0.23, G:0.00, T:0.47
Consensus pattern (10 bp):
AATTTACCTT
Found at i:22776586 original size:20 final size:19
Alignment explanation
Indices: 22776563--22776601 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
22776553 TTTTTTTATG
*
22776563 AGTATCGACATTTTTATAAA
1 AGTATCAACATTTTT-TAAA
*
22776583 AGTATCAATATTTTTTAAA
1 AGTATCAACATTTTTTAAA
22776602 TGGTATCGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.44
Consensus pattern (19 bp):
AGTATCAACATTTTTTAAA
Found at i:22783465 original size:9 final size:9
Alignment explanation
Indices: 22783453--22783491 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
22783443 CTTCAATTAC
22783453 ATAAATTGA
1 ATAAATTGA
*
22783462 AT-AATTGC
1 ATAAATTGA
22783470 ATAAATTGA
1 ATAAATTGA
*
22783479 ATAAATTTA
1 ATAAATTGA
22783488 ATAA
1 ATAA
22783492 TTGCTAGTGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
8 7 0.27
9 19 0.73
ACGTcount: A:0.54, C:0.03, G:0.08, T:0.36
Consensus pattern (9 bp):
ATAAATTGA
Found at i:22783472 original size:17 final size:17
Alignment explanation
Indices: 22783447--22783482 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
22783437 AACCAACTTC
22783447 AATTACATAAATTGAAT
1 AATTACATAAATTGAAT
*
22783464 AATTGCATAAATTGAAT
1 AATTACATAAATTGAAT
22783481 AA
1 AA
22783483 ATTTAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.53, C:0.06, G:0.08, T:0.33
Consensus pattern (17 bp):
AATTACATAAATTGAAT
Found at i:22789185 original size:46 final size:46
Alignment explanation
Indices: 22789086--22789246 Score: 189
Period size: 46 Copynumber: 3.5 Consensus size: 46
22789076 GAGGGTGTCG
* * * *
22789086 TAGTGTCTTTTAACCATGGTCTTCTTTATTCT-CGACTTGATGCCA
1 TAGTGTCTTTCAACCATGGTCTTATTTATTCTCCGTCTTGTTGCCA
* * *
22789131 TAGTGTCTTTCAACCATGGTCTTATTCATTTTCCGTCATGTTGCCA
1 TAGTGTCTTTCAACCATGGTCTTATTTATTCTCCGTCTTGTTGCCA
* * *
22789177 TAGTGTCTTTCAACTATGGTCTTATTTATTCTCCGTCTTGTTTCCG
1 TAGTGTCTTTCAACCATGGTCTTATTTATTCTCCGTCTTGTTGCCA
** * *
22789223 TAACGTCTTTCAGCTATGGTCTTA
1 TAGTGTCTTTCAACCATGGTCTTA
22789247 ATCGATAGAA
Statistics
Matches: 99, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
45 28 0.28
46 71 0.72
ACGTcount: A:0.17, C:0.22, G:0.16, T:0.45
Consensus pattern (46 bp):
TAGTGTCTTTCAACCATGGTCTTATTTATTCTCCGTCTTGTTGCCA
Found at i:22789285 original size:45 final size:45
Alignment explanation
Indices: 22789223--22789383 Score: 232
Period size: 45 Copynumber: 3.6 Consensus size: 45
22789213 CTTGTTTCCG
* *
22789223 TAACGTCTTTCAGCTATGGTCTTAATCGATAGAATCATGATGCCA
1 TAACGTCTTTCAGCTATGGTCTTACTTGATAGAATCATGATGCCA
* ** **
22789268 TAACGCCTTTCCTCTATGGTCTTACTTGATAGAATTTTGATGCCA
1 TAACGTCTTTCAGCTATGGTCTTACTTGATAGAATCATGATGCCA
* *
22789313 TAACATCTTTCAGCTATGGTCTTACTTGATAGAATCGTGATGCCA
1 TAACGTCTTTCAGCTATGGTCTTACTTGATAGAATCATGATGCCA
*
22789358 TAACGTCTTTTAGCTATGGTCTTACT
1 TAACGTCTTTCAGCTATGGTCTTACT
22789384 CGTTTCTAGT
Statistics
Matches: 101, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 101 1.00
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (45 bp):
TAACGTCTTTCAGCTATGGTCTTACTTGATAGAATCATGATGCCA
Found at i:22789402 original size:90 final size:90
Alignment explanation
Indices: 22789223--22789422 Score: 229
Period size: 90 Copynumber: 2.2 Consensus size: 90
22789213 CTTGTTTCCG
**
22789223 TAACGTCTTTCAGCTATGGTCTTAATCGATAGAATCATGATGCCATAACGCCTTTCCTCTATGGT
1 TAACGTCTTTCAGCTATGGTCTTAATCGATAGAATCATGATGCCATAACGCCTTTCAGCTATGGT
* * * *
22789288 CTTACTTGATAGAATTTTGATGCCA
66 CTTACTCGATACAAGTATGATGCCA
* * * * * *
22789313 TAACATCTTTCAGCTATGGTCTTACTTGATAGAATCGTGATGCCATAACGTCTTTTAGCTATGGT
1 TAACGTCTTTCAGCTATGGTCTTAATCGATAGAATCATGATGCCATAACGCCTTTCAGCTATGGT
* * * *
22789378 CTTACTCGTTTCTAGTATGGTGCCA
66 CTTACTCGATACAAGTATGATGCCA
** *
22789403 TAGTGTCTTTCAACTATGGT
1 TAACGTCTTTCAGCTATGGT
22789423 ATTATCTATT
Statistics
Matches: 90, Mismatches: 20, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
90 90 1.00
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.39
Consensus pattern (90 bp):
TAACGTCTTTCAGCTATGGTCTTAATCGATAGAATCATGATGCCATAACGCCTTTCAGCTATGGT
CTTACTCGATACAAGTATGATGCCA
Found at i:22795674 original size:22 final size:21
Alignment explanation
Indices: 22795646--22795687 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
22795636 CTTGGGATAT
22795646 CTTTAGGGGTATGTCGTGACAA
1 CTTTA-GGGTATGTCGTGACAA
* *
22795668 CTTTAGGTTATTTCGTGACA
1 CTTTAGGGTATGTCGTGACA
22795688 TCGAAGGCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.21, C:0.14, G:0.26, T:0.38
Consensus pattern (21 bp):
CTTTAGGGTATGTCGTGACAA
Found at i:22796023 original size:25 final size:25
Alignment explanation
Indices: 22795995--22796158 Score: 88
Period size: 25 Copynumber: 6.6 Consensus size: 25
22795985 AATGTTAGGG
* *
22795995 ACAAAGGCTTTCCATATAATATGTC
1 ACAAAGGCTTTCCACATAATATGCC
*
22796020 ACAAAGGCTTTTCACA-AGAT-TAGCC
1 ACAAAGGCTTTCCACATA-ATAT-GCC
* *
22796045 ACAAAGGCTTTCCAGATAATACGCC
1 ACAAAGGCTTTCCACATAATATGCC
* * *
22796070 ACAAATGTTTTTCACA-AGATCA-GCC
1 ACAAAGGCTTTCCACATA-AT-ATGCC
* * * **
22796095 ACAAACGCTTTTCAAATAATACACC
1 ACAAAGGCTTTCCACATAATATGCC
* * *
22796120 ATAAAGGCTTTTCA-A-AATATTAGTC
1 ACAAAGGCTTTCCACATAATA-T-GCC
22796145 ACAAAGGCTTTCCA
1 ACAAAGGCTTTCCA
22796159 AGTAAACTAT
Statistics
Matches: 108, Mismatches: 21, Indels: 20
0.72 0.14 0.13
Matches are distributed among these distances:
23 4 0.04
24 5 0.05
25 96 0.89
26 3 0.03
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.27
Consensus pattern (25 bp):
ACAAAGGCTTTCCACATAATATGCC
Found at i:22796027 original size:50 final size:50
Alignment explanation
Indices: 22795944--22796159 Score: 245
Period size: 50 Copynumber: 4.3 Consensus size: 50
22795934 CAAATCATGG
* * *
22795944 CACAAAGGCTTTACAAATAATACACCACCAAGGCTTTTCACAATG-TTAGG
1 CACAAAGGCTTTCCAAATAATACACCACAAAGGCTTTTCACAA-GATTAGC
* * ***
22795994 GACAAAGGCTTTCCATATAATATGTCACAAAGGCTTTTCACAAGATTAGC
1 CACAAAGGCTTTCCAAATAATACACCACAAAGGCTTTTCACAAGATTAGC
* * * * *
22796044 CACAAAGGCTTTCCAGATAATACGCCACAAATGTTTTTCACAAGATCAGC
1 CACAAAGGCTTTCCAAATAATACACCACAAAGGCTTTTCACAAGATTAGC
* * * * * *
22796094 CACAAACGCTTTTCAAATAATACACCATAAAGGCTTTTCAAAATATTAGT
1 CACAAAGGCTTTCCAAATAATACACCACAAAGGCTTTTCACAAGATTAGC
22796144 CACAAAGGCTTTCCAA
1 CACAAAGGCTTTCCAA
22796160 GTAAACTATC
Statistics
Matches: 137, Mismatches: 28, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
49 1 0.01
50 136 0.99
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.26
Consensus pattern (50 bp):
CACAAAGGCTTTCCAAATAATACACCACAAAGGCTTTTCACAAGATTAGC
Found at i:22813650 original size:12 final size:12
Alignment explanation
Indices: 22813630--22813665 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
22813620 TTTATGTGTG
*
22813630 TTTATTTTTTAT
1 TTTAGTTTTTAT
*
22813642 TTTTGTTTTTAT
1 TTTAGTTTTTAT
22813654 TTTAGTTTTTAT
1 TTTAGTTTTTAT
22813666 GCATTTTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.06, T:0.81
Consensus pattern (12 bp):
TTTAGTTTTTAT
Found at i:22817844 original size:16 final size:16
Alignment explanation
Indices: 22817823--22817854 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
22817813 AAGGCGCCTC
22817823 CACAATATCGTTTCAA
1 CACAATATCGTTTCAA
*
22817839 CACAATATTGTTTCAA
1 CACAATATCGTTTCAA
22817855 TCTTTGTCCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.22, G:0.06, T:0.34
Consensus pattern (16 bp):
CACAATATCGTTTCAA
Found at i:22820878 original size:25 final size:27
Alignment explanation
Indices: 22820832--22820881 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 27
22820822 AAATCAAATC
* *
22820832 AAATCAAATAAAATATATAAATTTAGA
1 AAATCAAATAAAATAGAAAAATTTAGA
22820859 AAAT-AAA-AAAATAGAAAAATTTA
1 AAATCAAATAAAATAGAAAAATTTA
22820882 AATCAAGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 14 0.67
26 3 0.14
27 4 0.19
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (27 bp):
AAATCAAATAAAATAGAAAAATTTAGA
Found at i:22826985 original size:24 final size:23
Alignment explanation
Indices: 22826938--22826986 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
22826928 GAAACATCCT
*
22826938 AAGCAAGAGGAAGAAGAGAGTGA
1 AAGCAAGAGGAAGAAGAGAATGA
* *
22826961 AAGCAAAGAGGAAGGAGATAATGA
1 AAGC-AAGAGGAAGAAGAGAATGA
22826985 AA
1 AA
22826987 TGGATTTTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.55, C:0.04, G:0.35, T:0.06
Consensus pattern (23 bp):
AAGCAAGAGGAAGAAGAGAATGA
Found at i:22833342 original size:59 final size:59
Alignment explanation
Indices: 22833250--22833370 Score: 233
Period size: 59 Copynumber: 2.1 Consensus size: 59
22833240 AAACCACTAC
*
22833250 CTCATTTATTTCCTAAAAATGCATAGATAATTTAAAAAATTAAGGCATGGTCACTCTCT
1 CTCATTTATTTCCTAAAAATGCATAGATAATTTAAAAAATTAAGGCATGATCACTCTCT
22833309 CTCATTTATTTCCTAAAAATGCATAGATAATTTAAAAAATTAAGGCATGATCACTCTCT
1 CTCATTTATTTCCTAAAAATGCATAGATAATTTAAAAAATTAAGGCATGATCACTCTCT
22833368 CTC
1 CTC
22833371 GATTCACAAA
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 61 1.00
ACGTcount: A:0.37, C:0.18, G:0.09, T:0.36
Consensus pattern (59 bp):
CTCATTTATTTCCTAAAAATGCATAGATAATTTAAAAAATTAAGGCATGATCACTCTCT
Found at i:22841596 original size:50 final size:50
Alignment explanation
Indices: 22841530--22841719 Score: 254
Period size: 50 Copynumber: 3.8 Consensus size: 50
22841520 TCTTGTACTA
* * * ** *
22841530 CCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATAGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGGTG
* ** *
22841580 CCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGGTG
* * *
22841630 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTT
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGGTG
*
22841680 CCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
22841720 TTACCCAAAT
Statistics
Matches: 122, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 122 1.00
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGGTG
Found at i:22850469 original size:25 final size:25
Alignment explanation
Indices: 22850441--22850523 Score: 121
Period size: 25 Copynumber: 3.3 Consensus size: 25
22850431 GCTGTAAACA
* * *
22850441 GTAAGCTCATACAAGTTGAATATTG
1 GTAAGCTCATGCGAGTTGAATATCG
*
22850466 GTAAGCTCATGCGAGCTGAATATCG
1 GTAAGCTCATGCGAGTTGAATATCG
*
22850491 GTAAGCTCATGCGATTTGAATATCG
1 GTAAGCTCATGCGAGTTGAATATCG
22850516 GTAAGCTC
1 GTAAGCTC
22850524 TCTCGATCTA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 52 1.00
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (25 bp):
GTAAGCTCATGCGAGTTGAATATCG
Found at i:22853219 original size:55 final size:56
Alignment explanation
Indices: 22853159--22853270 Score: 190
Period size: 56 Copynumber: 2.0 Consensus size: 56
22853149 AATTGTACTT
22853159 AAATTATTAACATATGGAA-TTTAATTAATTTTATAAGAAATTTTCATAAATTTTG
1 AAATTATTAACATATGGAATTTTAATTAATTTTATAAGAAATTTTCATAAATTTTG
** *
22853214 AAATTATTAACATATTTAATTTTAATTAATTTTATAATAAATTTTCATAAATTTTG
1 AAATTATTAACATATGGAATTTTAATTAATTTTATAAGAAATTTTCATAAATTTTG
22853270 A
1 A
22853271 TTTATTTTCG
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
55 17 0.32
56 36 0.68
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (56 bp):
AAATTATTAACATATGGAATTTTAATTAATTTTATAAGAAATTTTCATAAATTTTG
Found at i:22853740 original size:43 final size:43
Alignment explanation
Indices: 22853603--22853897 Score: 378
Period size: 43 Copynumber: 6.9 Consensus size: 43
22853593 TTTTAGAAAT
* * *
22853603 AAACGCTGCTATAGATCATGACTTTTAGCGGCGCTTTTT-CAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTCCAC
** *
22853645 AAACGCCGCTATAGATCAGGACCTTTAGCGGC-AATTTTACAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTCCAC
*
22853687 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTACAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTCCAC
* * * * *
22853730 AAACGCCGCTATAGATCAGGACCTTTACCTGCACTTTTCCCGC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTCCAC
* * *
22853773 AAACGCTGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCGC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTCCAC
* * *
22853816 AAACGCCGCTATAGATCAGGACCTTTAGTGGCGCTTTTCCCGC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTCCAC
* * * *
22853859 AAACGCCGCTGTAGATCATGACTTTTAGCAGCGCTTTTT
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTT
22853898 TAATAAATAC
Statistics
Matches: 226, Mismatches: 25, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
41 4 0.02
42 64 0.28
43 158 0.70
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.27
Consensus pattern (43 bp):
AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTCCAC
Done.