Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 293 of 343
Found at i:96512026 original size:11 final size:11
Alignment explanation
Indices: 96512000--96512035 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
96511990 TATCTTTCAC
*
96512000 ATTTATCTTAT
1 ATTTTTCTTAT
96512011 A-TTTTCTTAT
1 ATTTTTCTTAT
96512021 ATTTTTCTTAT
1 ATTTTTCTTAT
96512032 ATTT
1 ATTT
96512036 ATGATACTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.69
Consensus pattern (11 bp):
ATTTTTCTTAT
Found at i:96513269 original size:15 final size:16
Alignment explanation
Indices: 96513251--96513280 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
96513241 ATAAATTTCA
96513251 ATATTTTT-AATTTTT
1 ATATTTTTCAATTTTT
96513266 ATATTTTTCAATTTT
1 ATATTTTTCAATTTT
96513281 AATTAATTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (16 bp):
ATATTTTTCAATTTTT
Found at i:96515896 original size:15 final size:17
Alignment explanation
Indices: 96515876--96515909 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
96515866 AGGGTATTTC
96515876 AAACAAT-ATA-ATAAT
1 AAACAATAATATATAAT
96515891 AAACAATAATATATAAT
1 AAACAATAATATATAAT
96515908 AA
1 AA
96515910 TTAGTTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 3 0.18
17 7 0.41
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (17 bp):
AAACAATAATATATAAT
Found at i:96516534 original size:23 final size:25
Alignment explanation
Indices: 96516508--96516553 Score: 60
Period size: 23 Copynumber: 1.9 Consensus size: 25
96516498 TCAAATTGTA
96516508 TTTGAATATTGGA-TTTA-ATTTTC
1 TTTGAATATTGGACTTTAGATTTTC
* *
96516531 TTTGTATTTTGGACTTTAGATTT
1 TTTGAATATTGGACTTTAGATTT
96516554 GGGCTAGTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 11 0.58
24 4 0.21
25 4 0.21
ACGTcount: A:0.22, C:0.04, G:0.15, T:0.59
Consensus pattern (25 bp):
TTTGAATATTGGACTTTAGATTTTC
Found at i:96529615 original size:15 final size:15
Alignment explanation
Indices: 96529582--96529614 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
96529572 ACAATCAAGG
96529582 TTTTCTTTTTTCTTT
1 TTTTCTTTTTTCTTT
96529597 TTTTCTTTTTT-TTT
1 TTTTCTTTTTTCTTT
96529611 TTTT
1 TTTT
96529615 TTGGTAAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (15 bp):
TTTTCTTTTTTCTTT
Found at i:96529616 original size:8 final size:8
Alignment explanation
Indices: 96529582--96529615 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
96529572 ACAATCAAGG
96529582 TTTTC-TT
1 TTTTCTTT
96529589 TTTTCTTT
1 TTTTCTTT
96529597 TTTTCTTT
1 TTTTCTTT
96529605 TTTT-TTT
1 TTTTCTTT
96529612 TTTT
1 TTTT
96529616 TGGTAAAGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 12 0.46
8 14 0.54
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (8 bp):
TTTTCTTT
Found at i:96548880 original size:27 final size:27
Alignment explanation
Indices: 96548844--96548896 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
96548834 TGATGCCACA
96548844 TTACAGTAGAAGAATTAGAAGAAACAT
1 TTACAGTAGAAGAATTAGAAGAAACAT
* *
96548871 TTACATTAGAGGAATTAGAAGAAACA
1 TTACAGTAGAAGAATTAGAAGAAACA
96548897 CCATTAGGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.51, C:0.08, G:0.19, T:0.23
Consensus pattern (27 bp):
TTACAGTAGAAGAATTAGAAGAAACAT
Found at i:96552520 original size:3 final size:3
Alignment explanation
Indices: 96552512--96552541 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
96552502 ATACATTGAT
96552512 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
96552542 AAGTTATGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:96553446 original size:15 final size:15
Alignment explanation
Indices: 96553426--96553457 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
96553416 CTTTATTCTC
96553426 AAACACATATAATTA
1 AAACACATATAATTA
96553441 AAACACATATAATTA
1 AAACACATATAATTA
96553456 AA
1 AA
96553458 TATAAATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.25
Consensus pattern (15 bp):
AAACACATATAATTA
Found at i:96554147 original size:15 final size:13
Alignment explanation
Indices: 96554127--96554174 Score: 51
Period size: 15 Copynumber: 3.4 Consensus size: 13
96554117 TTTTATTTAA
96554127 TAATTTTATAAAATT
1 TAATTTT-TAAAA-T
96554142 TAATTTTTAAAAAT
1 TAATTTTT-AAAAT
*
96554156 TATTTTTTTAAAAT
1 TA-ATTTTTAAAAT
96554170 TAATT
1 TAATT
96554175 AAAAAAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
13 2 0.07
14 11 0.38
15 16 0.55
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TAATTTTTAAAAT
Found at i:96554162 original size:14 final size:14
Alignment explanation
Indices: 96554129--96554171 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
96554119 TTATTTAATA
* *
96554129 ATTTTATAAAATTT
1 ATTTTTTAAAAATT
*
96554143 AATTTTTAAAAATT
1 ATTTTTTAAAAATT
*
96554157 ATTTTTTTAAAATT
1 ATTTTTTAAAAATT
96554171 A
1 A
96554172 ATTAAAAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
ATTTTTTAAAAATT
Found at i:96554515 original size:19 final size:19
Alignment explanation
Indices: 96554487--96554523 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
96554477 CCTTTAGCCA
*
96554487 AAATTTTAAAATATAAAAG
1 AAATTATAAAATATAAAAG
*
96554506 AAATTATAAATTATAAAA
1 AAATTATAAAATATAAAA
96554524 ATATATGCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (19 bp):
AAATTATAAAATATAAAAG
Found at i:96554891 original size:15 final size:17
Alignment explanation
Indices: 96554860--96554894 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
96554850 ATTTACTAAG
96554860 TTTTGAGGTTCTGAGTT
1 TTTTGAGGTTCTGAGTT
96554877 TTTTG-GGTTCT-AGTT
1 TTTTGAGGTTCTGAGTT
96554892 TTT
1 TTT
96554895 GGGCTTATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.39
16 6 0.33
17 5 0.28
ACGTcount: A:0.09, C:0.06, G:0.26, T:0.60
Consensus pattern (17 bp):
TTTTGAGGTTCTGAGTT
Found at i:96558379 original size:13 final size:13
Alignment explanation
Indices: 96558361--96558387 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
96558351 GGGATTTGTT
96558361 TTAACTAAACTAA
1 TTAACTAAACTAA
96558374 TTAACTAAACTAA
1 TTAACTAAACTAA
96558387 T
1 T
96558388 AATGCACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (13 bp):
TTAACTAAACTAA
Found at i:96562193 original size:17 final size:17
Alignment explanation
Indices: 96562171--96562208 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
96562161 CTCCGAGACA
96562171 GAACTGGACCATTCCAG
1 GAACTGGACCATTCCAG
96562188 GAACTGGACCATTCCAG
1 GAACTGGACCATTCCAG
96562205 GAAC
1 GAAC
96562209 ATCGAACTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.32, C:0.29, G:0.24, T:0.16
Consensus pattern (17 bp):
GAACTGGACCATTCCAG
Found at i:96575117 original size:45 final size:45
Alignment explanation
Indices: 96575049--96575153 Score: 158
Period size: 45 Copynumber: 2.3 Consensus size: 45
96575039 GCGGATTCTC
*
96575049 CACAACTCATGTGAGCAATATCGAGTAAAGGTTAACATCTCGATT
1 CACAACTCATGTGAGCAACATCGAGTAAAGGTTAACATCTCGATT
**
96575094 CACAACTCATGTGAG-AAGCATCGAGTAAAGGTTAATGTCTCGATT
1 CACAACTCATGTGAGCAA-CATCGAGTAAAGGTTAACATCTCGATT
*
96575139 CACAGCTCATGTGAG
1 CACAACTCATGTGAG
96575154 TAATTACAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
44 2 0.04
45 53 0.96
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (45 bp):
CACAACTCATGTGAGCAACATCGAGTAAAGGTTAACATCTCGATT
Found at i:96576819 original size:63 final size:63
Alignment explanation
Indices: 96576740--96576946 Score: 209
Period size: 63 Copynumber: 3.3 Consensus size: 63
96576730 AAGACATAGG
* * * * *
96576740 TATGTAACTCATTGTTTTAGAATAAAAGGTATACGGGCTAGAGACACAAGCGTGTGTCCAGGC
1 TATGTAACTCACTGTTTTAGAATAAAAGGTACACGGGCTGGAGACACAGGCGTGTGTCCAAGC
* * * * * * * * *
96576803 TATGTAACTCACTGTTTTGGAATTAGAGGCACATGGGCTGGAGAAACGGGTGTGTGTCTAAGC
1 TATGTAACTCACTGTTTTAGAATAAAAGGTACACGGGCTGGAGACACAGGCGTGTGTCCAAGC
* * * * *
96576866 -AGTGTAACTTACTGTTTTAGAATCAAAGGTACACGGGCTGGAGACATAGGCATGTGTCCATGC
1 TA-TGTAACTCACTGTTTTAGAATAAAAGGTACACGGGCTGGAGACACAGGCGTGTGTCCAAGC
* *
96576929 CATGTAACTCACTATTTT
1 TATGTAACTCACTGTTTT
96576947 GGAAATAGAT
Statistics
Matches: 113, Mismatches: 29, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
62 1 0.01
63 111 0.98
64 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (63 bp):
TATGTAACTCACTGTTTTAGAATAAAAGGTACACGGGCTGGAGACACAGGCGTGTGTCCAAGC
Found at i:96580027 original size:25 final size:25
Alignment explanation
Indices: 96579999--96580047 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
96579989 CTCAAGTTTA
*
96579999 CCAATTTGTAGTTTCTTGGACACTG
1 CCAATTAGTAGTTTCTTGGACACTG
96580024 CCAATTAGTAGTTTCTTGGACACT
1 CCAATTAGTAGTTTCTTGGACACT
96580048 AAGTAACCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.39
Consensus pattern (25 bp):
CCAATTAGTAGTTTCTTGGACACTG
Found at i:96582148 original size:23 final size:23
Alignment explanation
Indices: 96582121--96582166 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
96582111 CTTTCCACTA
96582121 TATTAATGTTTCTTATCTATTAT
1 TATTAATGTTTCTTATCTATTAT
* * *
96582144 TATTATTTTTTCTTTTCTATTAT
1 TATTAATGTTTCTTATCTATTAT
96582167 CAAATCATGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.09, G:0.02, T:0.67
Consensus pattern (23 bp):
TATTAATGTTTCTTATCTATTAT
Found at i:96585189 original size:19 final size:19
Alignment explanation
Indices: 96585167--96585206 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
96585157 ATGGGTAGTT
96585167 TTTTTAATACTTGACTGCA
1 TTTTTAATACTTGACTGCA
96585186 TTTTTAATACTTGACTGCA
1 TTTTTAATACTTGACTGCA
96585205 TT
1 TT
96585207 CATATACATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.10, T:0.50
Consensus pattern (19 bp):
TTTTTAATACTTGACTGCA
Found at i:96588653 original size:17 final size:17
Alignment explanation
Indices: 96588628--96588661 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
96588618 CATAGATGAA
* *
96588628 AATATGATAGTGATAAT
1 AATACGATAGTAATAAT
96588645 AATACGATAGTAATAAT
1 AATACGATAGTAATAAT
96588662 GATAATAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.03, G:0.15, T:0.32
Consensus pattern (17 bp):
AATACGATAGTAATAAT
Found at i:96588738 original size:3 final size:3
Alignment explanation
Indices: 96588730--96588864 Score: 85
Period size: 3 Copynumber: 44.0 Consensus size: 3
96588720 TAAAGAGTGT
* *
96588730 TAA TAA TAA TAA TAA TAA TAA T-A TAT TGA TAA TAAA TAA TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA
* * * * * ** *
96588774 GGAA TAA AAA TAA TAG TAA CAA TAA GAA TGT TAA TAA TAA CAA TAA
1 -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
96588820 TCA TAA TATA TACA TGAA TAA TAA CAA TAA CAA TAA TAG TAA TAA
1 TAA TAA TA-A TA-A T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA
96588865 GGACACAACA
Statistics
Matches: 98, Mismatches: 28, Indels: 12
0.71 0.20 0.09
Matches are distributed among these distances:
2 4 0.04
3 81 0.83
4 12 0.12
5 1 0.01
ACGTcount: A:0.61, C:0.04, G:0.06, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:96588965 original size:7 final size:7
Alignment explanation
Indices: 96588953--96589012 Score: 50
Period size: 7 Copynumber: 8.3 Consensus size: 7
96588943 TAATAAGGAC
96588953 AATAATA
1 AATAATA
96588960 AATAATA
1 AATAATA
*
96588967 ATTAAT-
1 AATAATA
*
96588973 AATACTA
1 AATAATA
*
96588980 AATTAATT
1 AA-TAATA
96588988 AATAATAA
1 AATAAT-A
*
96588996 AACAATA
1 AATAATA
96589003 AATAAATA
1 AAT-AATA
96589011 AA
1 AA
96589013 CACAAAAAGA
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
6 4 0.10
7 21 0.51
8 16 0.39
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (7 bp):
AATAATA
Found at i:96590217 original size:17 final size:17
Alignment explanation
Indices: 96590187--96590219 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
96590177 AAAAGTAATG
96590187 ATATGTAAATAAAATAA
1 ATATGTAAATAAAATAA
96590204 ATATGCTAAA-AAAATA
1 ATATG-TAAATAAAATA
96590220 TACAGTTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.64, C:0.03, G:0.06, T:0.27
Consensus pattern (17 bp):
ATATGTAAATAAAATAA
Found at i:96590318 original size:3 final size:3
Alignment explanation
Indices: 96590312--96590526 Score: 63
Period size: 3 Copynumber: 72.3 Consensus size: 3
96590302 AAAATACAAC
* * * *
96590312 AAT AAT AAT AGT AA- AAG ATAT AAT AA- CAT AAT AAT -AT AAT AGT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * *
96590355 AAT AGT AAC AAT -AT GAC GAT AAT AGT AAA AAT AAT -AT ATT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
* * ** * *
96590399 AAT AGT AAT AA- AAGT AGT GCT AAT AAT AAT AAT AAT AAT -CT ATT
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
96590443 AAGT TAT AAT GAA- AAT AAT GAT AAT GAT GAT -AT ATT AGAT AAT AAT
1 AA-T AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
* *
96590489 AGT AA- AAT AAT AAGT AAT AAT AAT AAAT TAT AAT AAT A
1 AAT AAT AAT AAT AA-T AAT AAT AAT -AAT AAT AAT AAT A
96590527 GTGATGAGAA
Statistics
Matches: 153, Mismatches: 41, Indels: 36
0.67 0.18 0.16
Matches are distributed among these distances:
2 18 0.12
3 118 0.77
4 17 0.11
ACGTcount: A:0.57, C:0.02, G:0.09, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:96590318 original size:22 final size:22
Alignment explanation
Indices: 96590267--96590327 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
96590257 ATAAGTAAAT
* *
96590267 ACAAAAATAA-AGGAAAATATA
1 ACAAAAATAATAGAAAAATACA
* *
96590288 ATAACAATAATAGAAAAATACA
1 ACAAAAATAATAGAAAAATACA
* *
96590310 ACAATAATAATAGTAAAA
1 ACAAAAATAATAGAAAAA
96590328 GATATAATAA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.69, C:0.07, G:0.07, T:0.18
Consensus pattern (22 bp):
ACAAAAATAATAGAAAAATACA
Found at i:96590512 original size:13 final size:13
Alignment explanation
Indices: 96590481--96590526 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
96590471 GATATATTAG
96590481 ATAATAAT-AGTA
1 ATAATAATAAGTA
96590493 A-AATAATAAGTA
1 ATAATAATAAGTA
* *
96590505 ATAATAATAAATT
1 ATAATAATAAGTA
96590518 ATAATAATA
1 ATAATAATA
96590527 GTGATGAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
11 6 0.20
12 6 0.20
13 18 0.60
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (13 bp):
ATAATAATAAGTA
Found at i:96590545 original size:16 final size:16
Alignment explanation
Indices: 96590526--96590557 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
96590516 TTATAATAAT
96590526 AGTGATGAGAATAACA
1 AGTGATGAGAATAACA
*
96590542 AGTGATGATAATAACA
1 AGTGATGAGAATAACA
96590558 GTAACAATAG
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:0.50, C:0.06, G:0.22, T:0.22
Consensus pattern (16 bp):
AGTGATGAGAATAACA
Found at i:96590691 original size:16 final size:16
Alignment explanation
Indices: 96590662--96590699 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
96590652 TATACGTATG
*
96590662 AAAA-ATAATGATAGT
1 AAAATATAATAATAGT
96590677 AAAATATAATAATAGT
1 AAAATATAATAATAGT
96590693 AATAATA
1 AA-AATA
96590700 ATAGTGGAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 4 0.20
16 12 0.60
17 4 0.20
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (16 bp):
AAAATATAATAATAGT
Found at i:96590807 original size:3 final size:3
Alignment explanation
Indices: 96590799--96590828 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
96590789 ACACTACCAT
96590799 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
96590829 TAGAAATACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:96590937 original size:3 final size:3
Alignment explanation
Indices: 96590923--96590958 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
96590913 AAATATACAC
*
96590923 TAA TATA TAA TAA TAA TAA TAA TAA TAA TAT TAA TA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
96590959 TTAAAATGCA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:96591818 original size:3 final size:3
Alignment explanation
Indices: 96591810--96591864 Score: 76
Period size: 3 Copynumber: 18.3 Consensus size: 3
96591800 TGGGCCATAC
* *
96591810 AAT AAT AAT AGT GAT AAT AAT AAT AAT AAT AAT AAT -AT AAT AAGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T
96591855 AAT AAT AAT A
1 AAT AAT AAT A
96591865 TATTAATTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
2 2 0.04
3 41 0.89
4 3 0.07
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:96591830 original size:15 final size:13
Alignment explanation
Indices: 96591810--96591871 Score: 63
Period size: 15 Copynumber: 4.5 Consensus size: 13
96591800 TGGGCCATAC
96591810 AATAATAATAGTGAT
1 AATAATAATA-T-AT
96591825 AATAATAATA-AT
1 AATAATAATATAT
96591837 AATAATAATATAAT
1 AATAATAATAT-AT
96591851 AAGTAATAATAATAT
1 AA-TAATAAT-ATAT
*
96591866 ATTAAT
1 AATAAT
96591872 TTAATTAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
12 12 0.29
14 8 0.19
15 20 0.48
16 2 0.05
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (13 bp):
AATAATAATATAT
Found at i:96591865 original size:18 final size:17
Alignment explanation
Indices: 96591811--96591871 Score: 77
Period size: 18 Copynumber: 3.5 Consensus size: 17
96591801 GGGCCATACA
* *
96591811 ATAATAATAGTGATAAT
1 ATAATAATAATAATAAT
96591828 AATAATAATAATAATAAT
1 -ATAATAATAATAATAAT
96591846 ATAATAAGTAATAATAAT
1 ATAATAA-TAATAATAAT
*
96591864 ATATTAAT
1 ATAATAAT
96591872 TTAATTAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
17 8 0.21
18 31 0.79
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (17 bp):
ATAATAATAATAATAAT
Found at i:96594754 original size:29 final size:29
Alignment explanation
Indices: 96594721--96594776 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 29
96594711 TTTTCGTAAA
96594721 TAATTA-TTT-TCACTATCCATTTTTATAAT
1 TAATTACTTTATCA-TAT-CATTTTTATAAT
*
96594750 TAATTACTTTATCATATTATTTTTATA
1 TAATTACTTTATCATATCATTTTTATA
96594777 TAAGAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
29 15 0.62
30 6 0.25
31 3 0.12
ACGTcount: A:0.32, C:0.11, G:0.00, T:0.57
Consensus pattern (29 bp):
TAATTACTTTATCATATCATTTTTATAAT
Found at i:96597134 original size:32 final size:31
Alignment explanation
Indices: 96597097--96597223 Score: 139
Period size: 31 Copynumber: 4.0 Consensus size: 31
96597087 GTATAAAAAA
* * * *
96597097 TAAATTAATTTATATTTTATGTATTATTTTAT
1 TAAATT-ATTTAAATTTCATTTATTATTATAT
* * *
96597129 TAAATTAGTTAAATATTTCATATATCATTATA-
1 TAAATTA-TTTAA-ATTTCATTTATTATTATAT
*
96597161 TAAATTATTTAAATATCATTTATTATTATAT
1 TAAATTATTTAAATTTCATTTATTATTATAT
*
96597192 TAAATTATTTAAATTTCATTTATTAGTATAT
1 TAAATTATTTAAATTTCATTTATTATTATAT
96597223 T
1 T
96597224 TAAGTTTTTT
Statistics
Matches: 80, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
30 15 0.19
31 35 0.44
32 16 0.20
33 14 0.17
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.55
Consensus pattern (31 bp):
TAAATTATTTAAATTTCATTTATTATTATAT
Found at i:96597200 original size:8 final size:9
Alignment explanation
Indices: 96597155--96597206 Score: 50
Period size: 9 Copynumber: 5.3 Consensus size: 9
96597145 TTCATATATC
*
96597155 ATTATATAA
1 ATTATTTAA
96597164 ATTATTTAA
1 ATTATTTAA
*
96597173 ATATCATTTATT
1 AT-T-ATTTA-A
96597185 ATTATATTAA
1 ATTAT-TTAA
96597195 ATTATTTAA
1 ATTATTTAA
96597204 ATT
1 ATT
96597207 TCATTTATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
9 17 0.47
10 8 0.22
11 9 0.25
12 2 0.06
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (9 bp):
ATTATTTAA
Found at i:96597274 original size:21 final size:24
Alignment explanation
Indices: 96597232--96597286 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
96597222 TTTAAGTTTT
96597232 TTTAAAAAAAATTTGTATTATTAA
1 TTTAAAAAAAATTTGTATTATTAA
* *
96597256 TTTAAAAATAATTTATATTAATT-A
1 TTTAAAAAAAATTTGTATT-ATTAA
96597280 TTTAAAA
1 TTTAAAA
96597287 GCTTTTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 25 0.89
25 3 0.11
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (24 bp):
TTTAAAAAAAATTTGTATTATTAA
Found at i:96599352 original size:45 final size:45
Alignment explanation
Indices: 96599301--96599393 Score: 170
Period size: 45 Copynumber: 2.1 Consensus size: 45
96599291 AGCCCGATTT
96599301 TGACTCTAATTGGACATAGTGTTTCGGGACCAC-AAATCCGAGTTC
1 TGACTCTAATTGGACATAGTGTTTCGGGACCACAAAATCCGAG-TC
96599346 TGACTCTAATTGGACATAGTGTTTCGGGACCACAAAATCCGAGTC
1 TGACTCTAATTGGACATAGTGTTTCGGGACCACAAAATCCGAGTC
96599391 TGA
1 TGA
96599394 AAAATATTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
45 38 0.81
46 9 0.19
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (45 bp):
TGACTCTAATTGGACATAGTGTTTCGGGACCACAAAATCCGAGTC
Found at i:96601038 original size:41 final size:41
Alignment explanation
Indices: 96600948--96601221 Score: 479
Period size: 41 Copynumber: 6.8 Consensus size: 41
96600938 GAATGTAATA
* *
96600948 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG----ATTT
1 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
96600985 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
96601026 CAGACTATATGTCTAGCAGGCTTAATG-CGGTGATACATTT
1 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
96601066 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
96601107 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
96601148 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
96601189 CAGACTATATGTCTAGCAGGC-TAAGTGCCGGTG
1 CAGACTATATGTCTAGCAGGCTTAA-TGCCGGTG
96601222 TACTGAATCA
Statistics
Matches: 229, Mismatches: 2, Indels: 8
0.96 0.01 0.03
Matches are distributed among these distances:
37 31 0.14
40 43 0.19
41 155 0.68
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.31
Consensus pattern (41 bp):
CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
Found at i:96601161 original size:122 final size:119
Alignment explanation
Indices: 96600948--96601221 Score: 471
Period size: 122 Copynumber: 2.3 Consensus size: 119
96600938 GAATGTAATA
* *
96600948 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATTTCAGACTATATGTCTAGCAGGCTTAATGC
1 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATTTCAGACTATATGTCTAGCAGGCTTAATGC
96601013 CGGTGATACATTTCAGACTATATGTCTAGCAGGCTTAATG-CGGTGATACATTT
66 CGGTGATACATTTCAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
96601066 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGCTTA
1 CAGACTATATGTCTAGCAGGCTTAATGCCGGTG----ATTTCAGACTATATGTCTAGCAGGCTTA
96601131 ATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
62 ATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
96601189 CAGACTATATGTCTAGCAGGC-TAAGTGCCGGTG
1 CAGACTATATGTCTAGCAGGCTTAA-TGCCGGTG
96601222 TACTGAATCA
Statistics
Matches: 148, Mismatches: 2, Indels: 7
0.94 0.01 0.04
Matches are distributed among these distances:
118 31 0.21
122 75 0.51
123 42 0.28
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.31
Consensus pattern (119 bp):
CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATTTCAGACTATATGTCTAGCAGGCTTAATGC
CGGTGATACATTTCAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
Found at i:96608704 original size:41 final size:41
Alignment explanation
Indices: 96608647--96608884 Score: 442
Period size: 41 Copynumber: 5.8 Consensus size: 41
96608637 GAATGTAATA
* *
96608647 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
96608688 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
96608729 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
96608770 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
96608811 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
96608852 CAGACTATATGTCTAGCAGGC-TAAGTGCCGGTG
1 CAGACTATATGTCTAGCAGGCTTAA-TGCCGGTG
96608885 TACTGAATCA
Statistics
Matches: 194, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
40 3 0.02
41 191 0.98
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (41 bp):
CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
Found at i:96608909 original size:123 final size:123
Alignment explanation
Indices: 96608647--96608926 Score: 449
Period size: 123 Copynumber: 2.3 Consensus size: 123
96608637 GAATGTAATA
96608647 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGCTTA
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGCTTA
*
96608712 ATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
66 ATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATAT
* *
96608770 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGCTTA
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGCTTA
96608835 ATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGC-TAAGTGCCGGTG-TAC-TGAAT
66 ATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGCTTAA-TGCCGGTGATACAT--AT
* * **
96608893 CAGGCTTTAAGCCTAGCAGGCAAAATGCCGGTGA
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
96608927 ATCTGTTTAA
Statistics
Matches: 145, Mismatches: 9, Indels: 6
0.91 0.06 0.04
Matches are distributed among these distances:
121 1 0.01
122 6 0.04
123 138 0.95
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (123 bp):
CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGCTTA
ATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATAT
Found at i:96611833 original size:17 final size:17
Alignment explanation
Indices: 96611811--96611845 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
96611801 CGGAGGGCTC
96611811 AGTGGTGGCCACAAGTA
1 AGTGGTGGCCACAAGTA
96611828 AGTGGTGGCCACAAGTA
1 AGTGGTGGCCACAAGTA
96611845 A
1 A
96611846 ATTTTAGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.17, G:0.34, T:0.17
Consensus pattern (17 bp):
AGTGGTGGCCACAAGTA
Found at i:96616612 original size:64 final size:64
Alignment explanation
Indices: 96616511--96616635 Score: 160
Period size: 64 Copynumber: 2.0 Consensus size: 64
96616501 ATTGGGATAG
* * * * * *
96616511 TTCTTAATTAATTTGGTTAACATTACCGGCATAGGAATATAGCTCCATAGTTAGATTAATTTAA
1 TTCTTAATCAATTTGGTCAACATTACCAGCATAGGAATATAGCTCAACAATTAGATTAATTTAA
* ** *
96616575 TTCTTAATCAATTTGGTCGACATTATTAGCATAGGAATATGGCTCAACAATTAGATTAATT
1 TTCTTAATCAATTTGGTCAACATTACCAGCATAGGAATATAGCTCAACAATTAGATTAATT
96616636 GCTCGAAAGA
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
64 51 1.00
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.38
Consensus pattern (64 bp):
TTCTTAATCAATTTGGTCAACATTACCAGCATAGGAATATAGCTCAACAATTAGATTAATTTAA
Found at i:96617298 original size:30 final size:30
Alignment explanation
Indices: 96617262--96617376 Score: 176
Period size: 30 Copynumber: 3.8 Consensus size: 30
96617252 ACTTTTCTCA
* *
96617262 ACTAGCCACTCCTTTTCCTCCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
96617292 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* * *
96617322 ACTAGCCACTCTTTTTCCACCACTAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
96617352 ACTAGCCACACCTTCTCCACCACCA
1 ACTAGCCACACCTTTTCCACCACCA
96617377 CTTGTACCTA
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 76 1.00
ACGTcount: A:0.24, C:0.49, G:0.03, T:0.23
Consensus pattern (30 bp):
ACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:96617327 original size:60 final size:60
Alignment explanation
Indices: 96617262--96617376 Score: 194
Period size: 60 Copynumber: 1.9 Consensus size: 60
96617252 ACTTTTCTCA
* *
96617262 ACTAGCCACTCCTTTTCCTCCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACACCTTCTCCACCACCAACTCC
* *
96617322 ACTAGCCACTCTTTTTCCACCACTAACTCCACTAGCCACACCTTCTCCACCACCA
1 ACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACACCTTCTCCACCACCA
96617377 CTTGTACCTA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 51 1.00
ACGTcount: A:0.24, C:0.49, G:0.03, T:0.23
Consensus pattern (60 bp):
ACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACACCTTCTCCACCACCAACTCC
Found at i:96617900 original size:23 final size:23
Alignment explanation
Indices: 96617863--96617994 Score: 65
Period size: 25 Copynumber: 5.5 Consensus size: 23
96617853 CCTTTTTTGT
96617863 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATATTA
* *
96617886 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATATTA
**
96617908 TATTAGGTATATT-TTAA-ATTCTA
1 TATTATATATATTCTTAATA-T-TA
* * *
96617931 TATTACGTATATATATATTTTATACTA
1 TATTA--TATATAT-T-CTTAATATTA
* *
96617958 TTTTATGTATATATCTTTAATATTA
1 TATTATATATAT-TC-TTAATATTA
*
96617983 TATTATTTATAT
1 TATTATATATAT
96617995 ATATATTTTT
Statistics
Matches: 81, Mismatches: 17, Indels: 20
0.69 0.14 0.17
Matches are distributed among these distances:
21 3 0.04
22 15 0.19
23 18 0.22
24 4 0.05
25 30 0.37
26 1 0.01
27 6 0.07
28 3 0.04
29 1 0.01
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.58
Consensus pattern (23 bp):
TATTATATATATTCTTAATATTA
Found at i:96617958 original size:27 final size:27
Alignment explanation
Indices: 96617928--96618046 Score: 75
Period size: 27 Copynumber: 4.5 Consensus size: 27
96617918 ATTTTAAATT
96617928 CTATATTACGTATATATATATTTTATA
1 CTATATTACGTATATATATATTTTATA
* * * *
96617955 CTATTTTA--TGTATATATCTTTAATA
1 CTATATTACGTATATATATATTTTATA
* ** *
96617980 TTATATTATTTATATATATATTTTTTTA
1 CTATATTACGTATATATATA-TTTTATA
* * * *
96618008 C-ATGTTATCTTATGTATATATCTTA-A
1 CTATATTA-CGTATATATATATTTTATA
*
96618034 CTATATTATGTAT
1 CTATATTACGTAT
96618047 GTATTTTTAA
Statistics
Matches: 68, Mismatches: 19, Indels: 11
0.69 0.19 0.11
Matches are distributed among these distances:
25 20 0.29
26 5 0.07
27 28 0.41
28 15 0.22
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (27 bp):
CTATATTACGTATATATATATTTTATA
Found at i:96617968 original size:25 final size:25
Alignment explanation
Indices: 96617877--96618083 Score: 79
Period size: 25 Copynumber: 8.2 Consensus size: 25
96617867 ATTATATTTC
* * *
96617877 TTAATATTATATTATATATAT-TCT
1 TTAATACTATATTATGTATATATAT
* *
96617901 TT--TAATATATTAGGTATAT-T-T
1 TTAATACTATATTATGTATATATAT
* * *
96617922 TAAATTCTATATTACGTATATATATAT
1 TTAATACTATATTA--TGTATATATAT
* * *
96617949 TTTATACTATTTTATGTATATATCT
1 TTAATACTATATTATGTATATATAT
* *
96617974 TTAATATTATATTATTTATATATATATTTTT
1 TTAATACTATATTA--TGTATATATA----T
** * *
96618005 TTACATGTTATCTTATGTATATAT-C
1 TTA-ATACTATATTATGTATATATAT
* *
96618030 TT-A-ACTATATTATGTATGTATTT
1 TTAATACTATATTATGTATATATAT
* * *
96618053 TTAACACTATATTATGTACATATTT
1 TTAATACTATATTATGTATATATAT
96618078 TTAATA
1 TTAATA
96618084 TTATCACGTA
Statistics
Matches: 136, Mismatches: 31, Indels: 31
0.69 0.16 0.16
Matches are distributed among these distances:
21 2 0.01
22 29 0.21
23 11 0.08
24 3 0.02
25 50 0.37
26 1 0.01
27 19 0.14
30 8 0.06
31 4 0.03
32 9 0.07
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.56
Consensus pattern (25 bp):
TTAATACTATATTATGTATATATAT
Found at i:96617990 original size:30 final size:30
Alignment explanation
Indices: 96617950--96618031 Score: 80
Period size: 28 Copynumber: 2.8 Consensus size: 30
96617940 TATATATATT
*
96617950 TTATACTATTTTATGTATATATCTTTAATA
1 TTATATTATTTTATGTATATATCTTTAATA
* **
96617980 TTATATTA-TTTATATATATAT-TTTTTTA
1 TTATATTATTTTATGTATATATCTTTAATA
* * *
96618008 -CATGTTATCTTATGTATATATCTT
1 TTATATTATTTTATGTATATATCTT
96618032 AACTATATTA
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
27 5 0.12
28 16 0.38
29 14 0.33
30 7 0.17
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.60
Consensus pattern (30 bp):
TTATATTATTTTATGTATATATCTTTAATA
Found at i:96618275 original size:17 final size:17
Alignment explanation
Indices: 96618234--96618282 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 17
96618224 ATATTAATTA
*
96618234 TTAT-TATTCTAATATT
1 TTATATATTTTAATATT
*
96618250 TT-GATATTTTAATATT
1 TTATATATTTTAATATT
*
96618266 TTATATATTTTATTATT
1 TTATATATTTTAATATT
96618283 CACATCATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 15 0.56
17 12 0.44
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (17 bp):
TTATATATTTTAATATT
Found at i:96619696 original size:234 final size:235
Alignment explanation
Indices: 96619060--96619878 Score: 1270
Period size: 236 Copynumber: 3.5 Consensus size: 235
96619050 ATTGCATGAT
*
96619060 TGAAACCAAATATCATGATTAAACACCATTTTTTATAGATAAAAATCAGGAACAATTACAACATT
1 TGAAACCAAATATCATGATTAAACACCATTTTTTATAGATAAAAATCAGAAACAATTACAACATT
* * * *
96619125 ATTCTAATATTATCATGCATAAACCGATCATCTAACCCTAAATGCTCCACGATGATTTTCGAGAA
66 ATTCCAATATTATCATGCATAAATCAATCATCTAACCCTAAATGCTCCACGATGATTTCCGAGAA
* * * *
96619190 CTTCATCAAATTGTTCACAACGTGCAGAAATTCCATAACTTTTAATTGGTTCCATCAAGAAAACA
131 CTTCATCAAATTGTTTACAACGTGCAAAAATTCCATAACTTTTAACTGATTCCATCAAGAAAA-A
*
96619255 AATGGGTAGCAGTAATAAACAAACCCTTTTTGGTCCTTGAA
195 AATGGGTAGCAGTAATAAACAAACCTTTTTTGGTCCTTGAA
* *
96619296 TGAAACCAAATATCATGATTAAACACCATTTTTTATAGATAAAAATTAGAAATAATTACAACATT
1 TGAAACCAAATATCATGATTAAACACCATTTTTTATAGATAAAAATCAGAAACAATTACAACATT
* * *
96619361 ATTCCAATATTATCATGCATAAAAT-GATCATCTAACCCTAAATGCTCTACGATGATTTCCAAGA
66 ATTCCAATATTATCATGCAT-AAATCAATCATCTAACCCTAAATGCTCCACGATGATTTCCGAGA
*
96619425 ACTTCATCAAATTGTTTATAACGTGCAAAAATTCCATAACTTTTAACTGATTCCATCAAGAAAAT
130 ACTTCATCAAATTGTTTACAACGTGCAAAAATTCCATAACTTTTAACTGATTCCATCAAGAAAA-
96619490 AAATGGGTAGCAGTAATAAACAAACCTTTTTTGGTCCTTGAA
194 AAATGGGTAGCAGTAATAAACAAACCTTTTTTGGTCCTTGAA
96619532 TGAAACCAAATATCATGATTAAACACCA-TTTTTATAGAT-AAAATCAGAAACAATTACAACATT
1 TGAAACCAAATATCATGATTAAACACCATTTTTTATAGATAAAAATCAGAAACAATTACAACATT
*
96619595 ATTCCAATATTATCATGCATAAATCAATCATCTAACCCTAAATGCTCCAAGATGATTTCCGAGAA
66 ATTCCAATATTATCATGCATAAATCAATCATCTAACCCTAAATGCTCCACGATGATTTCCGAGAA
* *
96619660 CTTCATCAAATTGTTTACAACGTGCAAAAATTCCATAACTTTTAACTGATTCCATCCAGAAAACA
131 CTTCATCAAATTGTTTACAACGTGCAAAAATTCCATAACTTTTAACTGATTCCATCAAGAAAAAA
* * *
96619725 ATGGGTAGCAGTAACT-AACAAACCTATTTTGGTCATTGAC
196 ATGGGTAGCAGTAA-TAAACAAACCTTTTTTGGTCCTTGAA
* *
96619765 TGAAACTAAATATCATGATTAAACACCATTTTTTATAGATAAAAA-CTGGAAACAATTACAACAT
1 TGAAACCAAATATCATGATTAAACACCATTTTTTATAGATAAAAATC-AGAAACAATTACAACAT
* * * * * ***
96619829 TATCCCAGTATCATCATGTATAAATCAATTATCTAATTGTAAATGCTCCA
65 TATTCCAATATTATCATGCATAAATCAATCATCTAACCCTAAATGCTCCA
96619879 GGACTATTTT
Statistics
Matches: 540, Mismatches: 37, Indels: 13
0.92 0.06 0.02
Matches are distributed among these distances:
233 67 0.12
234 152 0.28
235 73 0.14
236 245 0.45
237 3 0.01
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.31
Consensus pattern (235 bp):
TGAAACCAAATATCATGATTAAACACCATTTTTTATAGATAAAAATCAGAAACAATTACAACATT
ATTCCAATATTATCATGCATAAATCAATCATCTAACCCTAAATGCTCCACGATGATTTCCGAGAA
CTTCATCAAATTGTTTACAACGTGCAAAAATTCCATAACTTTTAACTGATTCCATCAAGAAAAAA
ATGGGTAGCAGTAATAAACAAACCTTTTTTGGTCCTTGAA
Found at i:96620383 original size:4 final size:4
Alignment explanation
Indices: 96620376--96620436 Score: 50
Period size: 4 Copynumber: 14.0 Consensus size: 4
96620366 TCTCTAACCG
* * *
96620376 AATT AATTT AATT AATT AACT AATT AACTA AATTT AATT AATT AATCA
1 AATT AA-TT AATT AATT AATT AATT AA-TT AA-TT AATT AATT AAT-T
96620424 AATT AATTT AATT
1 AATT AA-TT AATT
96620437 TTACTCGAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
4 29 0.63
5 17 0.37
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (4 bp):
AATT
Found at i:96620390 original size:9 final size:8
Alignment explanation
Indices: 96620376--96620436 Score: 50
Period size: 9 Copynumber: 7.0 Consensus size: 8
96620366 TCTCTAACCG
96620376 AATTAATTT
1 AATTAA-TT
96620385 AATTAATT
1 AATTAATT
*
96620393 AACTAATT
1 AATTAATT
*
96620401 AACTAAATTT
1 AA-TTAA-TT
96620411 AATTAATT
1 AATTAATT
*
96620419 AATCAAATT
1 AAT-TAATT
96620428 AATTTAATT
1 AA-TTAATT
96620437 TTACTCGAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
8 16 0.38
9 21 0.50
10 5 0.12
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (8 bp):
AATTAATT
Found at i:96620412 original size:22 final size:22
Alignment explanation
Indices: 96620387--96620436 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
96620377 ATTAATTTAA
* *
96620387 TTAATTAACTAATTAACTAAAT
1 TTAATTAACTAATCAAATAAAT
* *
96620409 TTAATTAATTAATCAAATTAAT
1 TTAATTAACTAATCAAATAAAT
96620431 TTAATT
1 TTAATT
96620437 TTACTCGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (22 bp):
TTAATTAACTAATCAAATAAAT
Found at i:96626679 original size:30 final size:30
Alignment explanation
Indices: 96626623--96626679 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
96626613 ACGACTATGA
*
96626623 CACACGGGCGTGTGGCCTACCCGTGTGTCT
1 CACACGGGCGTGTGGACTACCCGTGTGTCT
* * *
96626653 CACACGGGTGTGTGGATTACCTGTGTG
1 CACACGGGCGTGTGGACTACCCGTGTG
96626680 GAAGTGTCTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.12, C:0.26, G:0.35, T:0.26
Consensus pattern (30 bp):
CACACGGGCGTGTGGACTACCCGTGTGTCT
Found at i:96631759 original size:174 final size:174
Alignment explanation
Indices: 96631463--96631811 Score: 619
Period size: 174 Copynumber: 2.0 Consensus size: 174
96631453 CACAGTTTCT
*
96631463 TTCCTTGGTTCTGGTTTGAACTCAACTAACCCTTCTTTATCTCGAACGGTAATCGCATAGAGTTG
1 TTCCTTGGTTCTGGTTTGAACTCAACTAACCCTTCTTTATCTCGAACAGTAATCGCATAGAGTTG
*
96631528 CTCTCTTGGGTTAGTCGTGGTGTTGCTAGGCAAGCTACCTTGTGGTCTTTTTGAGATCAGCTTAG
66 CTCTCTTGGGTTAGTCGTGGTGTTGCTAGGCAAGCTACCTTGTGGTCTTTCTGAGATCAGCTTAG
*
96631593 AAACCTGACCTATTTGAGTCTCGAGACCTTGGATTGCCGTTTGC
131 AAACCTGACCTATTTGAGTCTCGAGACCTTGGATTGCCGCTTGC
*
96631637 TTCCTTGGTTCTGGTTTGAACTCAACTAACCCTT-TTTCATCTCGAACAGTAATCGCATGGAGTT
1 TTCCTTGGTTCTGGTTTGAACTCAACTAACCCTTCTTT-ATCTCGAACAGTAATCGCATAGAGTT
* *
96631701 GCTCTCTTGGGTTAGTTGTGGTGTTGCTAGGCAAGCTACTTTGTGGTCTTTCTGAGATCAGCTTA
65 GCTCTCTTGGGTTAGTCGTGGTGTTGCTAGGCAAGCTACCTTGTGGTCTTTCTGAGATCAGCTTA
*
96631766 GCAACCTGACCTATTTGAGTCTCGAGACCTTGGATTGCCGCTTGC
130 GAAACCTGACCTATTTGAGTCTCGAGACCTTGGATTGCCGCTTGC
96631811 T
1 T
96631812 AATTTTTAAG
Statistics
Matches: 167, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
173 3 0.02
174 164 0.98
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.36
Consensus pattern (174 bp):
TTCCTTGGTTCTGGTTTGAACTCAACTAACCCTTCTTTATCTCGAACAGTAATCGCATAGAGTTG
CTCTCTTGGGTTAGTCGTGGTGTTGCTAGGCAAGCTACCTTGTGGTCTTTCTGAGATCAGCTTAG
AAACCTGACCTATTTGAGTCTCGAGACCTTGGATTGCCGCTTGC
Found at i:96634534 original size:33 final size:33
Alignment explanation
Indices: 96634497--96634612 Score: 101
Period size: 33 Copynumber: 3.5 Consensus size: 33
96634487 GGGAAGAGCA
*
96634497 GAGTACGGCGGTGGATATGGACTGAGAGAAGTG
1 GAGTACGGCGGTGGATATGGACAGAGAGAAGTG
* * * * *
96634530 GAGTACAGTGGTGGATA-CGAGCCGAGAGGAGTG
1 GAGTACGGCGGTGGATATGGA-CAGAGAGAAGTG
* * *
96634563 GAGTATGGCGATGGATATGGGCAGAGAGGAA-TG
1 GAGTACGGCGGTGGATATGGACAGAGA-GAAGTG
**
96634596 GAGTACGATGGTGGATA
1 GAGTACGGCGGTGGATA
96634613 CGGGTCGAAA
Statistics
Matches: 63, Mismatches: 17, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
32 2 0.03
33 58 0.92
34 3 0.05
ACGTcount: A:0.28, C:0.09, G:0.45, T:0.18
Consensus pattern (33 bp):
GAGTACGGCGGTGGATATGGACAGAGAGAAGTG
Found at i:96634567 original size:66 final size:66
Alignment explanation
Indices: 96634496--96634634 Score: 174
Period size: 66 Copynumber: 2.1 Consensus size: 66
96634486 TGGGAAGAGC
* * *
96634496 AGAGTACGGCGGTGGATATGGACTGAGA-GAAGTGGAGTAC-AGTGGTGGATACGAGCCGAGAGG
1 AGAGTACGGCGATGGATATGGACAGAGAGGAA-TGGAGTACGA-TGGTGGATACGAGCCGAAAGG
96634559 AGT
64 AGT
* * * * *
96634562 GGAGTATGGCGATGGATATGGGCAGAGAGGAATGGAGTACGATGGTGGATACGGGTCGAAAGGAG
1 AGAGTACGGCGATGGATATGGACAGAGAGGAATGGAGTACGATGGTGGATACGAGCCGAAAGGAG
96634627 T
66 T
96634628 AGAGTAC
1 AGAGTAC
96634635 TGAGGTGATA
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
66 57 0.93
67 4 0.07
ACGTcount: A:0.29, C:0.09, G:0.44, T:0.17
Consensus pattern (66 bp):
AGAGTACGGCGATGGATATGGACAGAGAGGAATGGAGTACGATGGTGGATACGAGCCGAAAGGAG
T
Found at i:96636877 original size:18 final size:19
Alignment explanation
Indices: 96636835--96636879 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
96636825 TCCCATAAAT
* *
96636835 TACTAACAAAATAAATAAC
1 TACTAACAAAACAAAAAAC
96636854 TA-TAACAAAACAAAAAAC
1 TACTAACAAAACAAAAAAC
96636872 -ACTAACAA
1 TACTAACAA
96636880 TTTATAACCT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 1 0.04
18 20 0.87
19 2 0.09
ACGTcount: A:0.67, C:0.18, G:0.00, T:0.16
Consensus pattern (19 bp):
TACTAACAAAACAAAAAAC
Found at i:96637032 original size:29 final size:29
Alignment explanation
Indices: 96636999--96637092 Score: 77
Period size: 30 Copynumber: 3.2 Consensus size: 29
96636989 AAAAATTTAT
96636999 CAAAATAATTTTACATTAATAAAAACTCA
1 CAAAATAATTTTACATTAATAAAAACTCA
* * * *
96637028 TAAAACACAATAATTT--A-TAATAAATTACTAA
1 -CAAA-ATAAT--TTTACATTAATAAA-AACTCA
*
96637059 CAAAATAATTTTACATTACTAAAAACTCA
1 CAAAATAATTTTACATTAATAAAAACTCA
96637088 CAAAA
1 CAAAA
96637093 CACAACAATT
Statistics
Matches: 48, Mismatches: 9, Indels: 15
0.67 0.12 0.21
Matches are distributed among these distances:
27 3 0.06
29 14 0.29
30 19 0.40
31 9 0.19
33 3 0.06
ACGTcount: A:0.56, C:0.14, G:0.00, T:0.30
Consensus pattern (29 bp):
CAAAATAATTTTACATTAATAAAAACTCA
Found at i:96637041 original size:34 final size:34
Alignment explanation
Indices: 96637002--96637103 Score: 87
Period size: 34 Copynumber: 3.2 Consensus size: 34
96636992 AATTTATCAA
96637002 AATAATTTTACATTAATAAAAACTCATAAAACAC
1 AATAATTTTACATTAATAAAAACTCATAAAACAC
* *
96637036 AATAA-TTT--A-TAAT--AAA-T--TACTAACAA
1 AATAATTTTACATTAATAAAAACTCATA-AAACAC
* *
96637062 AATAATTTTACATTACTAAAAACTCACAAAACAC
1 AATAATTTTACATTAATAAAAACTCATAAAACAC
*
96637096 AACAATTT
1 AATAATTT
96637104 ATAATAAATT
Statistics
Matches: 51, Mismatches: 7, Indels: 20
0.65 0.09 0.26
Matches are distributed among these distances:
25 2 0.04
26 9 0.18
27 4 0.08
28 3 0.06
29 1 0.02
30 7 0.14
31 1 0.02
32 3 0.06
33 4 0.08
34 16 0.31
35 1 0.02
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (34 bp):
AATAATTTTACATTAATAAAAACTCATAAAACAC
Found at i:96637064 original size:70 final size:69
Alignment explanation
Indices: 96636938--96637164 Score: 269
Period size: 60 Copynumber: 3.3 Consensus size: 69
96636928 TTTTAAGAAA
*
96636938 TTTACATTACTAAAAACTCACAAAACAAAACAATTTATAATAAATT-CTTAAAAAAATTTATCAA
1 TTTACATTACTAAAAACTCACAAAACACAACAATTTATAATAAATTAC-T-AAAAAATTTATCAA
96637002 AATAAT
64 AATAAT
* * *
96637008 TTTACATTAATAAAAACTCATAAAACACAATAATTTATAATAAATTACT-----A---A-CAAAA
1 TTTACATTACTAAAAACTCACAAAACACAACAATTTATAATAAATTACTAAAAAATTTATCAAAA
96637064 TAAT
66 TAAT
96637068 TTTACATTACTAAAAACTCACAAAACACAACAATTTATAATAAATTACTAACAAAATATTTAAT-
1 TTTACATTACTAAAAACTCACAAAACACAACAATTTATAATAAATTACT-A-AAAA-ATTT-ATC
*
96637132 AAAATTAT
62 AAAATAAT
96637140 TTTACATTACTAAAAACTCATCAAA
1 TTTACATTACTAAAAACTCA-CAAA
96637165 TACTAAACTA
Statistics
Matches: 134, Mismatches: 8, Indels: 27
0.79 0.05 0.16
Matches are distributed among these distances:
60 55 0.41
61 1 0.01
64 1 0.01
68 1 0.01
70 43 0.32
71 1 0.01
72 28 0.21
73 4 0.03
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.32
Consensus pattern (69 bp):
TTTACATTACTAAAAACTCACAAAACACAACAATTTATAATAAATTACTAAAAAATTTATCAAAA
TAAT
Found at i:96637207 original size:130 final size:128
Alignment explanation
Indices: 96636943--96637210 Score: 296
Period size: 130 Copynumber: 2.1 Consensus size: 128
96636933 AGAAATTTAC
96636943 ATTACTAAAAACTCACAAAACAAAACAATTTATAATAAATTCTTAAAAAAATTTATCAAAATAAT
1 ATTACTAAAAACTCACAAAACAAAACAATTTATAATAAATTCTTAAAAAAATTTATCAAAATAAT
** * * ** *
96637008 TTTACATTAATAAAAACTCATAAAACACAATAATTTATAATAAATTACTAACAAAATAATTTTAC
66 TTTACATTAATAAAAACTCATAAAACACAATAATACACAACAAATTACTAAC--AATAATCCTAA
*
96637073 ATTACTAAAAACTCACAAAACACAACAATTTATAATAAATTAC-TAACAAAATATTTAAT-AAAA
1 ATTACTAAAAACTCACAAAACAAAACAATTTATAATAAATT-CTTAA-AAAA-ATTT-ATCAAAA
* * * *
96637136 TTATTTTACATTACTAAAAACTCATCAAATACTA-AACTAA-ACACAACAATTTA-TAAC-ATCA
62 TAATTTTACATTAATAAAAACTCAT-AAA-AC-ACAA-TAATACACAACAAATTACTAACAATAA
96637197 TCCTAA
123 TCCTAA
96637203 ATTACTAA
1 ATTACTAA
96637211 TAAATTAATT
Statistics
Matches: 118, Mismatches: 12, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
130 57 0.48
131 5 0.04
132 31 0.26
133 9 0.08
134 12 0.10
135 4 0.03
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (128 bp):
ATTACTAAAAACTCACAAAACAAAACAATTTATAATAAATTCTTAAAAAAATTTATCAAAATAAT
TTTACATTAATAAAAACTCATAAAACACAATAATACACAACAAATTACTAACAATAATCCTAA
Found at i:96637727 original size:23 final size:24
Alignment explanation
Indices: 96637663--96637728 Score: 68
Period size: 23 Copynumber: 2.8 Consensus size: 24
96637653 ATATATATTT
96637663 AAATAT-TTTTAATA-AAAATAAA
1 AAATATATTTTAATATAAAATAAA
* *
96637685 ATAATAATATTTT-ATTTAAAGT-AA
1 A-AAT-ATATTTTAATATAAAATAAA
96637709 AAATATATTTTAATATAAAA
1 AAATATATTTTAATATAAAA
96637729 AAGTGGTTGT
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
22 8 0.23
23 12 0.34
24 7 0.20
25 8 0.23
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.41
Consensus pattern (24 bp):
AAATATATTTTAATATAAAATAAA
Found at i:96646326 original size:45 final size:45
Alignment explanation
Indices: 96646274--96646705 Score: 364
Period size: 45 Copynumber: 9.6 Consensus size: 45
96646264 GTGGCTTCGA
* *
96646274 TCTGCTCCACTGCAACTTCAGGGAGGTAAGATCTGCTAACTCCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGCTAACTTCAG
* *
96646319 TCTGCTCCACTGCAACTTCAGGAAGATGAGATCTGCTAACTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGCTAACTTCAG
* * * *
96646364 TCTGCTCCAGTGCAACTTTAGGGAGATGAGA-CTTGGGTGATA-TT-A-
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATC-T-GCT-A-ACTTCAG
* * * ** **
96646409 TCCTGCTCTACTGCAAGTTTAGAAAGATAAGGAT-TG-TGGCTTC-G
1 T-CTGCTCCACTGCAACTTCAGGGAGATAA-GATCTGCTAACTTCAG
* *
96646453 ATCTGCTCCTCTGCAACTTCAGGGATATAAGATCTGCTAACTTCAG
1 -TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGCTAACTTCAG
* * * * * * *
96646499 TTTGCTTCATTGCAACTTCAAGAAGATGAGATCTGCTAACTTTAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGCTAACTTCAG
* * * * *
96646544 TCTGCTCCACTGCAACTTCAGGGATATGAGA-CTTGGCTGATTTTA-
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATC-T-GCTAACTTCAG
* ** ** *
96646589 TCCTGCTCTACTGCAACTTCAGAAAGATAAGGAT-TG-TGGCTTCAA
1 T-CTGCTCCACTGCAACTTCAGGGAGATAA-GATCTGCTAACTTCAG
96646634 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGCTAACTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGCTAACTTCAG
*
96646679 TCTGCTCCACTGCAACTTCAAGGAGAT
1 TCTGCTCCACTGCAACTTCAGGGAGAT
96646706 GAGACTTGGG
Statistics
Matches: 308, Mismatches: 57, Indels: 44
0.75 0.14 0.11
Matches are distributed among these distances:
43 8 0.03
44 58 0.19
45 175 0.57
46 59 0.19
47 7 0.02
48 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (45 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGCTAACTTCAG
Found at i:96646488 original size:180 final size:180
Alignment explanation
Indices: 96646226--96646709 Score: 772
Period size: 180 Copynumber: 2.7 Consensus size: 180
96646216 TCGTGTATTT
* * *
96646226 TTATCCTGTTCTACTGTAACTTCAGAGAGATAAGGATTGTGGCTTCGATCTGCTCCACTGCAACT
1 TTATCCTGCTCTACTGCAACTTCAGAAAGATAAGGATTGTGGCTTCGATCTGCTCCACTGCAACT
* *
96646291 TCAGGGAGGTAAGATCTGCTAACTCCAGTCTGCTCCACTGCAACTTCAGGAAGATGAGATCTGCT
66 TCAGGGAGATAAGATCTGCTAACTTCAGTCTGCTCCACTGCAACTTCAGGAAGATGAGATCTGCT
* * *
96646356 AACTTCAGTCTGCTCCAGTGCAACTTTAGGGAGATGAGACTTGGGTGATA
131 AACTTCAGTCTGCTCCACTGCAACTTCAGGGAGATGAGACTTGGCTGATA
* * *
96646406 TTATCCTGCTCTACTGCAAGTTTAGAAAGATAAGGATTGTGGCTTCGATCTGCTCCTCTGCAACT
1 TTATCCTGCTCTACTGCAACTTCAGAAAGATAAGGATTGTGGCTTCGATCTGCTCCACTGCAACT
* * * * *
96646471 TCAGGGATATAAGATCTGCTAACTTCAGTTTGCTTCATTGCAACTTCAAGAAGATGAGATCTGCT
66 TCAGGGAGATAAGATCTGCTAACTTCAGTCTGCTCCACTGCAACTTCAGGAAGATGAGATCTGCT
* * *
96646536 AACTTTAGTCTGCTCCACTGCAACTTCAGGGATATGAGACTTGGCTGATT
131 AACTTCAGTCTGCTCCACTGCAACTTCAGGGAGATGAGACTTGGCTGATA
*
96646586 TTATCCTGCTCTACTGCAACTTCAGAAAGATAAGGATTGTGGCTTCAATCTGCTCCACTGCAACT
1 TTATCCTGCTCTACTGCAACTTCAGAAAGATAAGGATTGTGGCTTCGATCTGCTCCACTGCAACT
96646651 TCAGGGAGATAAGATCTGCTAACTTCAGTCTGCTCCACTGCAACTTCAAGG-AGATGAGA
66 TCAGGGAGATAAGATCTGCTAACTTCAGTCTGCTCCACTGCAACTTC-AGGAAGATGAGA
96646710 CTTGGGTAAT
Statistics
Matches: 275, Mismatches: 28, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
180 273 0.99
181 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (180 bp):
TTATCCTGCTCTACTGCAACTTCAGAAAGATAAGGATTGTGGCTTCGATCTGCTCCACTGCAACT
TCAGGGAGATAAGATCTGCTAACTTCAGTCTGCTCCACTGCAACTTCAGGAAGATGAGATCTGCT
AACTTCAGTCTGCTCCACTGCAACTTCAGGGAGATGAGACTTGGCTGATA
Found at i:96646632 original size:135 final size:134
Alignment explanation
Indices: 96646509--96646778 Score: 414
Period size: 135 Copynumber: 2.0 Consensus size: 134
96646499 TTTGCTTCAT
* * * *
96646509 TGCAACTTCAAGAAGATGAGATCTGCTAACTTTAGTCTGCTCCACTGCAACTTCAGGGATATGAG
1 TGCAACTTCAAGAAGATAAGATCTGCTAACTTCAGTCTGCTCCACTGCAACTTCAAGGAGATGAG
* *
96646574 ACTTGGCTGATTTTATCCTGCTCTACTGCAACTTCAGAAAGATAAGGATTGTGGCTTCAATCTGC
66 ACTTGGCTAATTTTATCCTGCTCTACTACAACTTCAGAAAGAT-AGGATTGTGGCTTCAATCTGC
96646639 TCCAC
130 TCCAC
* *
96646644 TGCAACTTCAGGGAGATAAGATCTGCTAACTTCAGTCTGCTCCACTGCAACTTCAAGGAGATGAG
1 TGCAACTTCAAGAAGATAAGATCTGCTAACTTCAGTCTGCTCCACTGCAACTTCAAGGAGATGAG
* * * * *
96646709 ACTTGGGTAATTTTATCCTGCTCTACTACAACTTCAGAGAGATAGGATAGTAGCTTAAATCTGCT
66 ACTTGGCTAATTTTATCCTGCTCTACTACAACTTCAGAAAGATAGGATTGTGGCTTCAATCTGCT
96646774 CCAC
131 CCAC
96646778 T
1 T
96646779 ACTGGTTAAG
Statistics
Matches: 122, Mismatches: 13, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
134 24 0.20
135 98 0.80
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (134 bp):
TGCAACTTCAAGAAGATAAGATCTGCTAACTTCAGTCTGCTCCACTGCAACTTCAAGGAGATGAG
ACTTGGCTAATTTTATCCTGCTCTACTACAACTTCAGAAAGATAGGATTGTGGCTTCAATCTGCT
CCAC
Found at i:96646751 original size:46 final size:44
Alignment explanation
Indices: 96646186--96646752 Score: 225
Period size: 45 Copynumber: 12.6 Consensus size: 44
96646176 CTACTGTAAT
* * * * *
96646186 TGCTCCATTGCAACTTCAGGGAGATACGGTTCGTG-TATTTTTATCC
1 TGCTCCACTGCAACTTCAGAGAGATAAGATT-G-GCTAATTTTAT-C
* * * **
96646232 TGTTCTACTGTAACTTCAGAGAGATAAGGATTGTGGC---TTCGATC
1 TGCTCCACTGCAACTTCAGAGAGATAA-GA-T-TGGCTAATTTTATC
* * * **
96646276 TGCTCCACTGCAACTTCAGGGAGGTAAGATCT-GCTAACTCCAGTC
1 TGCTCCACTGCAACTTCAGAGAGATAAGAT-TGGCTAATTTTA-TC
* * *
96646321 TGCTCCACTGCAACTTCAG-GAAGATGAGATCT-GCTAACTTCAGTC
1 TGCTCCACTGCAACTTCAGAG-AGATAAGAT-TGGCTAATTTTA-TC
* * * * * * *
96646366 TGCTCCAGTGCAACTTTAGGGAGATGAGACTTGGGTGATATTATCC
1 TGCTCCACTGCAACTTCAGAGAGATAAGA-TTGGCTAATTTTAT-C
* * * * **
96646412 TGCTCTACTGCAAGTTTAGAAAGATAAGGATTGTGGC---TTCGATC
1 TGCTCCACTGCAACTTCAGAGAGATAA-GA-T-TGGCTAATTTTATC
* * * * * *
96646456 TGCTCCTCTGCAACTTCAGGGATATAAGATCT-GCTAACTTCAGTT
1 TGCTCCACTGCAACTTCAGAGAGATAAGAT-TGGCTAATTTTA-TC
* * * *
96646501 TGCTTCATTGCAACTTCA-AGAAGATGAGATCT-GCTAACTTTAGTC
1 TGCTCCACTGCAACTTCAGAG-AGATAAGAT-TGGCTAATTTTA-TC
* * * *
96646546 TGCTCCACTGCAACTTCAGGGATATGAGACTTGGCTGATTTTATCC
1 TGCTCCACTGCAACTTCAGAGAGATAAGA-TTGGCTAATTTTAT-C
* * **
96646592 TGCTCTACTGCAACTTCAGAAAGATAAGGATTGTGGC---TTCAATC
1 TGCTCCACTGCAACTTCAGAGAGATAA-GA-T-TGGCTAATTTTATC
* * *
96646636 TGCTCCACTGCAACTTCAGGGAGATAAGATCT-GCTAACTTCAGTC
1 TGCTCCACTGCAACTTCAGAGAGATAAGAT-TGGCTAATTTTA-TC
* *
96646681 TGCTCCACTGCAACTTCA-AGGAGATGAGACTTGGGTAATTTTATCC
1 TGCTCCACTGCAACTTCAGA-GAGATAAGA-TTGGCTAATTTTAT-C
* *
96646727 TGCTCTACTACAACTTCAGAGAGATA
1 TGCTCCACTGCAACTTCAGAGAGATA
96646753 GGATAGTAGC
Statistics
Matches: 399, Mismatches: 87, Indels: 70
0.72 0.16 0.13
Matches are distributed among these distances:
41 6 0.02
42 6 0.02
43 6 0.02
44 78 0.20
45 171 0.43
46 113 0.28
47 9 0.02
48 9 0.02
49 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.31
Consensus pattern (44 bp):
TGCTCCACTGCAACTTCAGAGAGATAAGATTGGCTAATTTTATC
Found at i:96647005 original size:220 final size:220
Alignment explanation
Indices: 96646747--96647199 Score: 658
Period size: 220 Copynumber: 2.1 Consensus size: 220
96646737 CAACTTCAGA
* *
96646747 GAGATAGGATAGTAGCTTAAATCTGCTCCACTACTGGTTA-AGGAGATAAGATTCACCGTCTTCG
1 GAGATAGGATAGTAGCTTAAATATGCTCCACTACTGGTTAGA-GAGACAAGATTCACCGTCTTCG
* * *
96646811 ATCTGTTTCACTGTAACTTCAGGGAGATAAGATCAT-CAATTTCTAGCCTGTTACCCTACTGCTT
65 ATCTGTTCCACTGCAACTTCAGGGAGACAAGATC-TGCAATTTCTAGCCTGTTACCCTACTGCTT
* * * ** * *
96646875 AGGGGGTTAAGGCTTATTATTTTTTATCTGCTCCACTACAACTTCAGGGAGGCAAGATCTGCAAT
129 AGGGGGTTAAGGCTCATCATCTTCGATATGCTCCACTACAACTTCAGGGAGGCAAGATCTACAAT
*
96646940 TTTTAACCTACTCCACTACTGCTTAGG
194 TTTCAACCTACTCCACTACTGCTTAGG
* *
96646967 GAGATAGGATGGTGGCTTAAATATGCTCCACTACTGGTTAGAGAGACAAGATTCACCGTCTTCGA
1 GAGATAGGATAGTAGCTTAAATATGCTCCACTACTGGTTAGAGAGACAAGATTCACCGTCTTCGA
* * *
96647032 TCTGTTCCACTGCAGCTTCAGGGAGACAAGATCTGTAATTTCTAGCCTGTTACCCTACTGTTTAG
66 TCTGTTCCACTGCAACTTCAGGGAGACAAGATCTGCAATTTCTAGCCTGTTACCCTACTGCTTAG
* * * * *
96647097 GGGGTTAAGGCTCATCGTCTTCGATATGTTCCCCTGCAACTTCAGGGAGGCAAGATTTACAATTT
131 GGGGTTAAGGCTCATCATCTTCGATATGCTCCACTACAACTTCAGGGAGGCAAGATCTACAATTT
96647162 TCAACCTACTCCACTACTGCTTAGG
196 TCAACCTACTCCACTACTGCTTAGG
*
96647187 GTGATAGGATAGT
1 GAGATAGGATAGT
96647200 CAAACCTCAG
Statistics
Matches: 206, Mismatches: 25, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
219 1 0.00
220 204 0.99
221 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (220 bp):
GAGATAGGATAGTAGCTTAAATATGCTCCACTACTGGTTAGAGAGACAAGATTCACCGTCTTCGA
TCTGTTCCACTGCAACTTCAGGGAGACAAGATCTGCAATTTCTAGCCTGTTACCCTACTGCTTAG
GGGGTTAAGGCTCATCATCTTCGATATGCTCCACTACAACTTCAGGGAGGCAAGATCTACAATTT
TCAACCTACTCCACTACTGCTTAGG
Found at i:96647179 original size:89 final size:89
Alignment explanation
Indices: 96647023--96647187 Score: 199
Period size: 89 Copynumber: 1.9 Consensus size: 89
96647013 CAAGATTCAC
* * ** * **
96647023 CGTCTTCGATCTGTTCCACTGCAGCTTCAGGGAGACAAGATCTGTAATTTCTAGCCTGTTACCCT
1 CGTCTTCGATATGTTCCACTGCAACTTCAGGGAGACAAGATCTACAATTTCTAACCTACTACCCT
*
96647088 ACTGTTTAGGGGGTTAAGGCTCAT
66 ACTGCTTAGGGGGTTAAGGCTCAT
* * *
96647112 CGTCTTCGATATGTTCCCCTGCAACTTCAGGGAGGCAAGATTTACAATTT-TCAACCTACT-CCA
1 CGTCTTCGATATGTTCCACTGCAACTTCAGGGAGACAAGATCTACAATTTCT-AACCTACTACC-
96647175 CTACTGCTTAGGG
64 CTACTGCTTAGGG
96647188 TGATAGGATA
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
88 3 0.05
89 60 0.95
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.32
Consensus pattern (89 bp):
CGTCTTCGATATGTTCCACTGCAACTTCAGGGAGACAAGATCTACAATTTCTAACCTACTACCCT
ACTGCTTAGGGGGTTAAGGCTCAT
Found at i:96650801 original size:38 final size:38
Alignment explanation
Indices: 96650759--96650834 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
96650749 GCGTCAACCC
*
96650759 CATAATAGTAGTCAACATTCTCCATTGCCTTAACTTTT
1 CATAATAGTAGTCAACATTCTCCATTGCCTTAAATTTT
96650797 CATAATAGTAGTCAACATTCTCCATTGCCTTAAATTTT
1 CATAATAGTAGTCAACATTCTCCATTGCCTTAAATTTT
96650835 TCCTCCAACC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.39
Consensus pattern (38 bp):
CATAATAGTAGTCAACATTCTCCATTGCCTTAAATTTT
Found at i:96651911 original size:5 final size:5
Alignment explanation
Indices: 96651903--96651927 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
96651893 ATGCAGTCAT
96651903 AAACA AAACA AAACA AAACA AAACA
1 AAACA AAACA AAACA AAACA AAACA
96651928 CGTTAGTACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.20, G:0.00, T:0.00
Consensus pattern (5 bp):
AAACA
Found at i:96655562 original size:127 final size:124
Alignment explanation
Indices: 96655407--96655965 Score: 538
Period size: 127 Copynumber: 4.4 Consensus size: 124
96655397 TCTCAGCAGA
* * *
96655407 AGGCAATATTTCGTGTTGGGAAGTTTTGAAGGTCATGCCCAATCGTGCTGGGCTTCAATTTTCCA
1 AGGCAATATTTCGTGTTTGGAAGTTTGGAAGGTCGTGCCCAATCGTGCTGGGCTTCAATTTTCCA
* * * * *
96655472 TTCGGCTAAAATACGGAATATCC-TTTGGAAATTTCGTCCATGCTTTTGAAAAAATTAAAAGG
66 TTCGACTAAAATACGGAATATCCTTTTTGAAATTTCATCCATG-TTTT--TAAAA-TAAAACG
* * * ** ***
96655534 AGGCAATATTTCGTATTTAGGGAGTTT-GAGAGATCGTGCCCAATCGTGCTGGATTTTGTTTTGT
1 AGGCAATATTTCGTGTTT-GGAAGTTTGGA-AGGTCGTGCCCAATCGTGCTGGGCTTCAATTT-T
* * * *
96655598 TCATTCGACT-AAATATGGAATATCCTTTTTTTTAAA-TTCATCCGTGTTTACTTAAAATAAAAC
63 CCATTCGACTAAAATACGGAATATCC--TTTTTGAAATTTCATCCATGTTT--TTAAAATAAAAC
*
96655661 A
124 G
*
96655662 AGGCAATATTTCGGGTTTGGAAGTTTGGGAA-GTCGTGCCCAATCGTGCTGGGCTTCAATTTTCC
1 AGGCAATATTTCGTGTTTGGAAGTTT-GGAAGGTCGTGCCCAATCGTGCTGGGCTTCAATTTTCC
* * *
96655726 ACTCGACTAAAATATGGAATATCCTTTTTTGAAATTTCATCCACGCTTTCTTAAAATAAAACG
65 ATTCGACTAAAATACGGAATATCC-TTTTTGAAATTTCATCCATG-TTT-TTAAAATAAAACG
* * * * *
96655789 AGGTAATATTTCGTGCTTGGAAGTTTGGGAGGTCGTGCCCAATCGTGCTGGGTTTCAATTTTTCA
1 AGGCAATATTTCGTGTTTGGAAGTTTGGAAGGTCGTGCCCAATCGTGCTGGGCTTCAATTTTCCA
* ** *
96655854 TTCGACTAAAATACAGAATATCC-TTTTGAAATTTCATCCATGTTTTCTCAATTTAAAATG
66 TTCGACTAAAATACGGAATATCCTTTTTGAAATTTCATCCATGTTTT-T-AAAATAAAACG
* * * * * **
96655914 TGGCAATGTTTCGTATTTGGAA-ATTCGATAAATCGTGCCCAATCGTGCTGGG
1 AGGCAATATTTCGTGTTTGGAAGTTTGGA-AGGTCGTGCCCAATCGTGCTGGG
96655966 TTTCGGCTTA
Statistics
Matches: 357, Mismatches: 58, Indels: 36
0.79 0.13 0.08
Matches are distributed among these distances:
123 1 0.00
124 7 0.02
125 64 0.18
126 21 0.06
127 160 0.45
128 71 0.20
129 18 0.05
130 8 0.02
131 7 0.02
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.36
Consensus pattern (124 bp):
AGGCAATATTTCGTGTTTGGAAGTTTGGAAGGTCGTGCCCAATCGTGCTGGGCTTCAATTTTCCA
TTCGACTAAAATACGGAATATCCTTTTTGAAATTTCATCCATGTTTTTAAAATAAAACG
Found at i:96667220 original size:64 final size:64
Alignment explanation
Indices: 96667109--96667232 Score: 162
Period size: 64 Copynumber: 1.9 Consensus size: 64
96667099 TCATAATACA
* *
96667109 TCTAGCTAGGAGCACTTGATTCATTCTAGTCATAACATCTTAATTATTTGATATAAGCATCACG
1 TCTAGCTAGGAGCACTTGATTCATTCTAGTCATAACATCCTAATTATTTGACATAAGCATCACG
* * * *
96667173 TCTAGCTAGGAGCACTTGGATT-ATT-TTGATCATAGCATCCTAGTTATTTGGCATAAGCAT
1 TCTAGCTAGGAGCACTT-GATTCATTCTAG-TCATAACATCCTAATTATTTGACATAAGCAT
96667233 AGATACATGA
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
63 2 0.04
64 46 0.88
65 4 0.08
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (64 bp):
TCTAGCTAGGAGCACTTGATTCATTCTAGTCATAACATCCTAATTATTTGACATAAGCATCACG
Found at i:96667615 original size:89 final size:90
Alignment explanation
Indices: 96667522--96667888 Score: 266
Period size: 89 Copynumber: 4.1 Consensus size: 90
96667512 AAATGACAAG
*
96667522 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-GTAGATAGCAAGTCTTATCTTCCTGAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAGAAGATAGCAAGTCTTATCTTCCTGAAGTTG
96667586 CAGGAAGCAGACT-AAAAGTTACAGA
66 CAGGAAGCAGACTGAAAA-TTACAGA
* * * * *
96667611 TCTTATCTCCATGTA-TTGGCTA-TGGAGCAGA-TCGAAAAT-GACAAGTCTTATCTCCCTGAAG
1 TCTTATCTCCCTGAAGTT-GC-AGTGGAGCAGACTAGAAGATAG-CAAGTCTTATCTTCCTGAAG
* * * * *
96667672 TTGTAGTGGAGTAAACTGAAGACATCA-AG-
63 TTGCAG-GAAGCAGACTGAA-A-ATTACAGA
* * * * *
96667701 TCTTATCTTCCTGAAGATGCAG-GAAGCAGACTAAAAGTTA-C-AGATCTTATC-TCCATGTATC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAGAAGATAGCAAG-TCTTATCTTCC-TG-A--
* *
96667762 AGTT--ATGG-ATCAGA-TCGAAAATGACA-A
61 AGTTGCA-GGAAGCAGACT-GAAAATTACAGA
* * **
96667789 GTCTTATCTCCGTGAAGTTGCAATGGAGCAGACT-GAAGACGGCAAGTCTTATCTTCCTGAAGTT
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAGAAGATAGCAAGTCTTATCTTCCTGAAGTT
*
96667853 GCAGGAAGCAGACTGAAAATTATAGA
65 GCAGGAAGCAGACTGAAAATTACAGA
96667879 TCTTATCTCC
1 TCTTATCTCC
96667889 ATGTATCGAC
Statistics
Matches: 211, Mismatches: 36, Indels: 62
0.68 0.12 0.20
Matches are distributed among these distances:
87 7 0.03
88 13 0.06
89 122 0.58
90 50 0.24
91 11 0.05
92 7 0.03
93 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (90 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAGAAGATAGCAAGTCTTATCTTCCTGAAGTTG
CAGGAAGCAGACTGAAAATTACAGA
Found at i:96667632 original size:134 final size:134
Alignment explanation
Indices: 96667311--96668043 Score: 994
Period size: 134 Copynumber: 5.5 Consensus size: 134
96667301 CTTATTGTCT
* *
96667311 TGAAGTTGCAGGAAGTAGACTGAAAA-TTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGA
1 TGAAGTTGCAGGAAGCAGACT-AAAAGTTACAGATCTTATCTCCATGTATCGGCTATGGAGTAGA
* * * *** * * ** * *
96667375 TC-AGAAATGGCAAGTCTTATCTCCATGTACCGGCTA-TAGAGCAGATTTTAGCCA-CTAGTCTT
65 TCGA-AAATGACAAGTCTTATCTCCCTGAAGTTGC-AGTGGAGCAGACTGAAGACAGCAAGTCTT
96667437 ATCTTCC
128 ATCTTCC
* *
96667444 TAAAGTTGCAAGAAGCAGACTAAAAGTTACAGATCTTATCTCCATGTATCGGCTATGGAGTAGAT
1 TGAAGTTGCAGGAAGCAGACTAAAAGTTACAGATCTTATCTCCATGTATCGGCTATGGAGTAGAT
* *
96667509 CGAAAATGACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGTAGATAGCAAGTCTTATC
66 CGAAAATGACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGCAAGTCTTATC
96667574 TTCC
131 TTCC
* *
96667578 TGAAGTTGCAGGAAGCAGACTAAAAGTTACAGATCTTATCTCCATGTATTGGCTATGGAGCAGAT
1 TGAAGTTGCAGGAAGCAGACTAAAAGTTACAGATCTTATCTCCATGTATCGGCTATGGAGTAGAT
* * * *
96667643 CGAAAATGACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGTAAACTGAAGACATCAAGTCTTATC
66 CGAAAATGACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGCAAGTCTTATC
96667708 TTCC
131 TTCC
* * *
96667712 TGAAGATGCAGGAAGCAGACTAAAAGTTACAGATCTTATCTCCATGTATCAGTTATGGA-TCAGA
1 TGAAGTTGCAGGAAGCAGACTAAAAGTTACAGATCTTATCTCCATGTATCGGCTATGGAGT-AGA
* * *
96667776 TCGAAAATGACAAGTCTTATCTCCGTGAAGTTGCAATGGAGCAGACTGAAGACGGCAAGTCTTAT
65 TCGAAAATGACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGCAAGTCTTAT
96667841 CTTCC
130 CTTCC
* * *
96667846 TGAAGTTGCAGGAAGCAGACTGAAAA-TTATAGATCTTATCTCCATGTATCGACTATGGAGAAGA
1 TGAAGTTGCAGGAAGCAGACT-AAAAGTTACAGATCTTATCTCCATGTATCGGCTATGGAGTAGA
* * * * *
96667910 TCGAAAATAACAAGTCTTATCTCCCTGAAGTTACCGTGG-GCAGACTGAAGACGGCAAGTTTTAT
65 TCGAAAATGACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGCAAGTCTTAT
96667974 CTTCC
130 CTTCC
* * **
96667979 TGAAGTTGCAGGAAGCAGACTGAAAGTTACATATCTTATCTCCATGTATCAACTATGGAGTAGAT
1 TGAAGTTGCAGGAAGCAGACTAAAAGTTACAGATCTTATCTCCATGTATCGGCTATGGAGTAGAT
96668044 TTTAGCCATC
Statistics
Matches: 537, Mismatches: 55, Indels: 16
0.88 0.09 0.03
Matches are distributed among these distances:
132 8 0.01
133 179 0.33
134 346 0.64
135 4 0.01
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.28
Consensus pattern (134 bp):
TGAAGTTGCAGGAAGCAGACTAAAAGTTACAGATCTTATCTCCATGTATCGGCTATGGAGTAGAT
CGAAAATGACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGCAAGTCTTATC
TTCC
Found at i:96667904 original size:89 final size:89
Alignment explanation
Indices: 96667544--96667941 Score: 258
Period size: 89 Copynumber: 4.5 Consensus size: 89
96667534 GAAGTTGCAG
* *
96667544 TGGAGCAGACTGTAGAT-AGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACT-AAAAGTTA
1 TGGAGCAGACTGAAAATGA-CAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAA-TTA
*
96667607 CAGATCTTATCTCCATGTATTGGCTA
64 CAGATCTTATCTCCATGTATTGACTA
* * * * *
96667633 TGGAGCAGA-TCGAAAATGACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGTAAACTGAAGACAT
1 TGGAGCAGACT-GAAAATGACAAGTCTTATCTTCCTGAAGTTGCAG-GAAGCAGACTGAA-A-AT
* * *
96667697 CA-AG-TCTTATCTTCC-TGAAGATG-C-A
62 TACAGATCTTATC-TCCATGTA-TTGACTA
* *
96667722 -GGAAGCAGACT-AAAAGTTAC-AGATCTTATC-TCCATGTATCAGTT--ATGG-ATCAGA-TCG
1 TGG-AGCAGACTGAAAA-TGACAAG-TCTTATCTTCC-TG-A--AGTTGCA-GGAAGCAGACT-G
* * * *
96667779 AAAATGACA-AGTCTTATCTCCGTGAAGTTG-CAA
57 AAAATTACAGA-TCTTATCTCCATGTA-TTGACTA
* * * *
96667812 TGGAGCAGACTGAAGACGGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTATA
1 TGGAGCAGACTGAAAATGACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACA
*
96667877 GATCTTATCTCCATGTATCGACTA
66 GATCTTATCTCCATGTATTGACTA
* * *
96667901 TGGAGAAGA-TCGAAAATAACAAGTCTTATCTCCCTGAAGTT
1 TGGAGCAGACT-GAAAATGACAAGTCTTATCTTCCTGAAGTT
96667942 ACCGTGGGCA
Statistics
Matches: 241, Mismatches: 34, Indels: 68
0.70 0.10 0.20
Matches are distributed among these distances:
87 7 0.03
88 22 0.09
89 140 0.58
90 44 0.18
91 20 0.08
92 7 0.03
93 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.28
Consensus pattern (89 bp):
TGGAGCAGACTGAAAATGACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACA
GATCTTATCTCCATGTATTGACTA
Found at i:96668796 original size:127 final size:126
Alignment explanation
Indices: 96668471--96668938 Score: 525
Period size: 127 Copynumber: 3.7 Consensus size: 126
96668461 AATCGTCTTG
* *
96668471 GGAAGTTTGGGACGTCGTGCCCAATCGTGCTGGGCTTCAATTTTCCATTCGGCTAAAATACGGAA
1 GGAAGTTTGGGAGGTCGTGCCCAATCGTGCTGGGCTTCAATTTTCCATTCGACTAAAATACGGAA
* * *** * * * * *
96668536 TATCC--TTTGGAAATTTCGTCCATGTTTTTTAAAAAATTAAAAGGAGGCAATATTTTGTATTT
66 TATCCTTTTTTGAAATTTCATCCGCATTTCTT--AAAA-TAAAACGAGGTAATATTTCGTGTTT
* * * * * * *
96668598 GGGGAGTTTGAGAGGTCATGCCCAATCGTGCTGGGTTTCATTTTGTTCATTCGACT-AAATATGG
1 -GGAAGTTTGGGAGGTCGTGCCCAATCGTGCTGGGCTTCAATTT-TCCATTCGACTAAAATACGG
* * *
96668662 AATATCCTTTTTTTAAAATTCATCCGCATTTACTTAAAATAAAACGAGGTAATATTTCATGTTT
64 AATATCCTTTTTTGAAATTTCATCCGCATTT-CTTAAAATAAAACGAGGTAATATTTCGTGTTT
* * * *
96668726 GGAAGTTTGGGAAGTCGTGCCCAATCGTGTTGGGCTTCAATTTTCCACTCGACTAAAATATGGAA
1 GGAAGTTTGGGAGGTCGTGCCCAATCGTGCTGGGCTTCAATTTTCCATTCGACTAAAATACGGAA
*
96668791 TATCCTTTTTTGAAATTTCATCCACGC-TTTCTTAAAATAAAACGAGGTAATATTTCGTGCTT
66 TATCCTTTTTTGAAATTTCAT-C-CGCATTTCTTAAAATAAAACGAGGTAATATTTCGTGTTT
* * * *
96668853 GGAAGTTTGGGAGGTCGTGCCCAATCGTGCTGGGTTTCAATTTTTCATTCAACTAAAATACAGAA
1 GGAAGTTTGGGAGGTCGTGCCCAATCGTGCTGGGCTTCAATTTTCCATTCGACTAAAATACGGAA
* *
96668918 TAT--TCTTTTGAAATTCCATCC
66 TATCCTTTTTTGAAATTTCATCC
96668939 ATGTTTTCTC
Statistics
Matches: 288, Mismatches: 45, Indels: 19
0.82 0.13 0.05
Matches are distributed among these distances:
123 1 0.00
124 1 0.00
125 14 0.05
126 9 0.03
127 155 0.54
128 75 0.26
129 16 0.06
130 15 0.05
131 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.36
Consensus pattern (126 bp):
GGAAGTTTGGGAGGTCGTGCCCAATCGTGCTGGGCTTCAATTTTCCATTCGACTAAAATACGGAA
TATCCTTTTTTGAAATTTCATCCGCATTTCTTAAAATAAAACGAGGTAATATTTCGTGTTT
Found at i:96671279 original size:16 final size:15
Alignment explanation
Indices: 96671258--96671359 Score: 76
Period size: 15 Copynumber: 6.9 Consensus size: 15
96671248 ATTTTTACTT
96671258 TTATTATATATATTA
1 TTATTATATATATTA
96671273 CTTATTATAT-TATT-
1 -TTATTATATATATTA
*
96671287 TTTTTAT-TATA-TA
1 TTATTATATATATTA
96671300 TTATGTATATCATA-TA
1 TTAT-TATAT-ATATTA
96671316 TTATT-TATTATATTA
1 TTATTATA-TATATTA
*
96671331 TT-TATATTTATATTA
1 TTAT-TATATATATTA
96671346 TTCATTATAT-TATT
1 TT-ATTATATATATT
96671360 TATAATTTTA
Statistics
Matches: 71, Mismatches: 4, Indels: 23
0.72 0.04 0.23
Matches are distributed among these distances:
12 2 0.03
13 11 0.15
14 9 0.13
15 25 0.35
16 23 0.32
17 1 0.01
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (15 bp):
TTATTATATATATTA
Found at i:96671300 original size:30 final size:30
Alignment explanation
Indices: 96671215--96671302 Score: 90
Period size: 33 Copynumber: 2.9 Consensus size: 30
96671205 CTATATATAT
* ** *
96671215 TTATA-TTGTATTTTATTATATAGCATTTA
1 TTATATTTTTATTTTATTATATATTACTTA
96671244 TTATATTTTTACTTTTATTATATATATTACTTA
1 TTATATTTTTA-TTTTA-T-TATATATTACTTA
96671277 TTATATTATTT-TTTTATTATATATTA
1 TTATATT-TTTATTTTATTATATATTA
96671303 TGTATATCAT
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
29 5 0.10
30 13 0.26
31 6 0.12
32 6 0.12
33 17 0.34
34 3 0.06
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (30 bp):
TTATATTTTTATTTTATTATATATTACTTA
Found at i:96671301 original size:18 final size:19
Alignment explanation
Indices: 96671218--96671358 Score: 72
Period size: 19 Copynumber: 7.8 Consensus size: 19
96671208 TATATATTTA
* *
96671218 TATTGTATTTTATTATATAG
1 TATT-TATTATATTATATAT
* * *
96671238 CATTTATTATATT-TTTAC
1 TATTTATTATATTATATAT
96671256 T-TTTA-T-TA-TATATAT
1 TATTTATTATATTATATAT
*
96671271 TACTTATTATATTAT-T-T
1 TATTTATTATATTATATAT
96671288 T-TTTATTATA-TAT-TAT
1 TATTTATTATATTATATAT
* *
96671304 GTATATCA-TATATTATTTAT
1 -TAT-TTATTATATTATATAT
96671324 TATATTATTTATATT-TATAT
1 TAT-TTA-TTATATTATATAT
*
96671344 TATTCATTATATTAT
1 TATTTATTATATTAT
96671359 TTATAATTTT
Statistics
Matches: 94, Mismatches: 13, Indels: 29
0.69 0.10 0.21
Matches are distributed among these distances:
14 1 0.01
15 10 0.11
16 13 0.14
17 8 0.09
18 18 0.19
19 25 0.27
20 13 0.14
21 6 0.06
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (19 bp):
TATTTATTATATTATATAT
Found at i:96671308 original size:11 final size:10
Alignment explanation
Indices: 96671259--96671363 Score: 60
Period size: 12 Copynumber: 10.2 Consensus size: 10
96671249 TTTTTACTTT
96671259 TATTA-TATA
1 TATTATTATA
96671268 TATTACTTATTA
1 TATTA-TTA-TA
96671280 TATTATT-T-
1 TATTATTATA
*
96671288 TTTTATTATA
1 TATTATTATA
96671298 TATTATGTATA
1 TATTAT-TATA
*
96671309 TCATATATTATT
1 T-AT-TATTATA
96671321 TATTA-TAT-
1 TATTATTATA
*
96671329 TATTTATATTTA
1 TA-TTAT-TATA
96671341 TATTATTCATTA
1 TATTATT-A-TA
96671353 TATTATT-TA
1 TATTATTATA
96671362 TA
1 TA
96671364 ATTTTAAGAT
Statistics
Matches: 77, Mismatches: 5, Indels: 28
0.70 0.05 0.25
Matches are distributed among these distances:
8 8 0.10
9 17 0.22
10 8 0.10
11 17 0.22
12 24 0.31
13 3 0.04
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (10 bp):
TATTATTATA
Found at i:96671323 original size:27 final size:27
Alignment explanation
Indices: 96671261--96671363 Score: 100
Period size: 27 Copynumber: 3.6 Consensus size: 27
96671251 TTTACTTTTA
* *
96671261 TTATATATATTACTTAT-TATATTATTTTT
1 TTAT-TATATTATTTATATATA-TA-TTAT
*
96671290 TTATTATATATTATGTATATCATATATTAT
1 TTA-T-TATATTATTTATAT-ATATATTAT
*
96671320 TTATTATATTATTTATATTTATATTAT
1 TTATTATATTATTTATATATATATTAT
*
96671347 TCATTATATTATTTATA
1 TTATTATATTATTTATA
96671364 ATTTTAAGAT
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
27 24 0.37
28 13 0.20
29 4 0.06
30 18 0.28
31 3 0.05
32 3 0.05
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (27 bp):
TTATTATATTATTTATATATATATTAT
Found at i:96671335 original size:9 final size:9
Alignment explanation
Indices: 96671277--96671363 Score: 58
Period size: 9 Copynumber: 9.6 Consensus size: 9
96671267 ATATTACTTA
96671277 TTATATTAT
1 TTATATTAT
*
96671286 TT-TTTTAT
1 TTATATTAT
96671294 TATATATTAT
1 T-TATATTAT
*
96671304 GTATATCATAT
1 TTATAT--TAT
96671315 ATTAT-TTA-
1 -TTATATTAT
96671323 TTATATTAT
1 TTATATTAT
96671332 TTATATTTAT
1 TTATA-TTAT
*
96671342 ATTAT-TCA-
1 -TTATATTAT
96671350 TTATATTAT
1 TTATATTAT
96671359 TTATA
1 TTATA
96671364 ATTTTAAGAT
Statistics
Matches: 61, Mismatches: 6, Indels: 22
0.69 0.07 0.25
Matches are distributed among these distances:
7 8 0.13
8 11 0.18
9 22 0.36
10 9 0.15
11 8 0.13
12 3 0.05
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.63
Consensus pattern (9 bp):
TTATATTAT
Found at i:96671355 original size:39 final size:39
Alignment explanation
Indices: 96671257--96671362 Score: 109
Period size: 39 Copynumber: 2.8 Consensus size: 39
96671247 TATTTTTACT
* *
96671257 TTTATTATATATATTACTT-ATTATATTATTT-TTTTATTA
1 TTTA-TATTTATATTA-TTCATTATATTATTTATTATATTA
*
96671296 --TATA-TTAT-GTATATCA-TATATTATTTATTATATTA
1 TTTATATTTATATTAT-TCATTATATTATTTATTATATTA
96671331 TTTATATTTATATTATTCATTATATTATTTAT
1 TTTATATTTATATTATTCATTATATTATTTAT
96671363 AATTTTAAGA
Statistics
Matches: 55, Mismatches: 4, Indels: 16
0.73 0.05 0.21
Matches are distributed among these distances:
33 1 0.02
34 13 0.24
35 11 0.20
36 2 0.04
37 6 0.11
38 7 0.13
39 15 0.27
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (39 bp):
TTTATATTTATATTATTCATTATATTATTTATTATATTA
Found at i:96675381 original size:15 final size:15
Alignment explanation
Indices: 96675347--96675394 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
96675337 ATATTCTTTA
96675347 TGCAT-TCATGCATT
1 TGCATCTCATGCATT
96675361 TGCATCTCATGGCATT
1 TGCATCTCAT-GCATT
*
96675377 T-CATCACAT-CATT
1 TGCATCTCATGCATT
96675390 TGCAT
1 TGCAT
96675395 TTAAAGTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
13 5 0.17
14 8 0.27
15 11 0.37
16 6 0.20
ACGTcount: A:0.23, C:0.25, G:0.12, T:0.40
Consensus pattern (15 bp):
TGCATCTCATGCATT
Found at i:96683612 original size:119 final size:119
Alignment explanation
Indices: 96683401--96683875 Score: 682
Period size: 119 Copynumber: 4.0 Consensus size: 119
96683391 TAAGCCGCAG
* *
96683401 TATAGCAGATCTAGCTTTTAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTTTTGTG
1 TATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
* * * *
96683466 TTTACAAGGAACAAATCGGGGACATAGCAGATTTGACTCTCAGACGTTCCCAGA
66 GTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAGA
*
96683520 TATAGCAGATCTAACTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
1 TATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
* * * *
96683585 GTTACAAGGAGCAAATCGAGGACATAGCAGATTTAACTCTCAAATGTTCTCAAA
66 GTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAGA
* *
96683639 TATATCAGATCTAGCTTTTAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGT-
1 TATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
* * *
96683703 GTTCACAAGGAACAAACCGAGGACATAGCAGATTTGACTCTCAGATGTTATTAGA
66 GTT-ACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAGA
* * * * *** *
96683758 CATGGCAGATCTAGCCTTCAGAGGTTTATACTGAAGCAAGATCCAAGATGATTTAACATTCTTAT
1 TATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGC-AGATCCAAGATGATTTGGTATTCTTGT
* * *
96683823 GTTTACAAGAAACAAATCAAGGACATAGCAGATTTGACTCTCAGATGTTCTCA
65 GGTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCA
96683876 AACAGACTCA
Statistics
Matches: 316, Mismatches: 37, Indels: 5
0.88 0.10 0.01
Matches are distributed among these distances:
118 3 0.01
119 244 0.77
120 67 0.21
121 2 0.01
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (119 bp):
TATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
GTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAGA
Found at i:96685737 original size:27 final size:27
Alignment explanation
Indices: 96685675--96685777 Score: 91
Period size: 27 Copynumber: 3.6 Consensus size: 27
96685665 TTTACTTTTA
* *
96685675 TTATATATATTACTTACTATAT-TATTTTT
1 TTAT-TATATTATTTA-TATATATA-TTAT
*
96685704 TTATTATATATTATGTATATCATATATTAT
1 TTA-T-TATATTATTTATAT-ATATATTAT
* *
96685734 TTATTATATTATTTATGTTTATATTAT
1 TTATTATATTATTTATATATATATTAT
*
96685761 TCATTATATTATTTATA
1 TTATTATATTATTTATA
96685778 ATTTTAAGAT
Statistics
Matches: 63, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
27 23 0.37
28 12 0.19
29 7 0.11
30 19 0.30
31 2 0.03
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (27 bp):
TTATTATATTATTTATATATATATTAT
Found at i:96685755 original size:15 final size:12
Alignment explanation
Indices: 96685653--96685776 Score: 82
Period size: 12 Copynumber: 10.5 Consensus size: 12
96685643 ATTATATAGA
96685653 ATTTATTATATT
1 ATTTATTATATT
*
96685665 -TTTACT-T-TT
1 ATTTATTATATT
96685674 A-TTATATATATT
1 ATTTAT-TATATT
* *
96685686 ACTTACTATATT
1 ATTTATTATATT
*
96685698 ATTT-TTTTATT
1 ATTTATTATATT
* *
96685709 ATATATTAT-GT
1 ATTTATTATATT
*
96685720 ATATCA-TATATT
1 AT-TTATTATATT
96685732 ATTTATTATATT
1 ATTTATTATATT
96685744 ATTTATGTTTATATT
1 ATTTA---TTATATT
*
96685759 ATTCATTATATT
1 ATTTATTATATT
96685771 ATTTAT
1 ATTTAT
96685777 AATTTTAAGA
Statistics
Matches: 85, Mismatches: 15, Indels: 24
0.69 0.12 0.19
Matches are distributed among these distances:
9 5 0.06
10 2 0.02
11 22 0.26
12 42 0.49
13 3 0.04
15 11 0.13
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (12 bp):
ATTTATTATATT
Found at i:96689815 original size:21 final size:20
Alignment explanation
Indices: 96689786--96689825 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
96689776 AGAGTCATTG
* *
96689786 ATAACTTGTTGAAATAAATAA
1 ATAAATTGTT-AAAAAAATAA
96689807 ATAAATTGTTAAAAAAATA
1 ATAAATTGTTAAAAAAATA
96689826 TTTTTATTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.33
Consensus pattern (20 bp):
ATAAATTGTTAAAAAAATAA
Found at i:96694793 original size:29 final size:29
Alignment explanation
Indices: 96694751--96694806 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
96694741 ACGGCCTAGA
96694751 CACACGCCCATGTCCTTGCCCGTGTGGCT
1 CACACGCCCATGTCCTTGCCCGTGTGGCT
* *
96694780 CACACGTCCATGTCCTTGGCCGTGTGG
1 CACACGCCCATGTCCTTGCCCGTGTGG
96694807 TTCTAAATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.11, C:0.38, G:0.27, T:0.25
Consensus pattern (29 bp):
CACACGCCCATGTCCTTGCCCGTGTGGCT
Found at i:96701688 original size:12 final size:12
Alignment explanation
Indices: 96701666--96701705 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
96701656 ATATGAAAGA
96701666 AAAAGAAGAAAAT
1 AAAA-AAGAAAAT
96701679 AAAAAAGAAAAT
1 AAAAAAGAAAAT
*
96701691 AAAAAA-AAATT
1 AAAAAAGAAAAT
96701702 AAAA
1 AAAA
96701706 TCTTTTGTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 8 0.31
12 14 0.54
13 4 0.15
ACGTcount: A:0.82, C:0.00, G:0.07, T:0.10
Consensus pattern (12 bp):
AAAAAAGAAAAT
Found at i:96704980 original size:33 final size:34
Alignment explanation
Indices: 96704943--96705015 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 34
96704933 TTCTTTCTAT
*
96704943 TAATGAAAATT-TTAAAATAATAACA-TAAAAAAA
1 TAATGAAAATTATTAAAA-AATAAAACTAAAAAAA
*
96704976 TAATG-AAATTGATTAAAAAATAAAACTAAACAAA
1 TAATGAAAATT-ATTAAAAAATAAAACTAAAAAAA
96705010 TAATGA
1 TAATGA
96705016 TGAGAGAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
32 5 0.15
33 11 0.32
34 18 0.53
ACGTcount: A:0.64, C:0.04, G:0.05, T:0.26
Consensus pattern (34 bp):
TAATGAAAATTATTAAAAAATAAAACTAAAAAAA
Found at i:96726078 original size:11 final size:11
Alignment explanation
Indices: 96726058--96726091 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
96726048 TAGAGGCACA
96726058 TGGCCGTGTGG
1 TGGCCGTGTGG
*
96726069 TGGCCTTGTGG
1 TGGCCGTGTGG
*
96726080 TGGCGGTGTGG
1 TGGCCGTGTGG
96726091 T
1 T
96726092 CCACATGCCC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.53, T:0.32
Consensus pattern (11 bp):
TGGCCGTGTGG
Found at i:96730075 original size:18 final size:17
Alignment explanation
Indices: 96730052--96730095 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
96730042 CACACGGGCT
96730052 GGCCATTTAGGCCGTGTG
1 GGCCATTT-GGCCGTGTG
* *
96730070 GGCCATATGGCTGTGTG
1 GGCCATTTGGCCGTGTG
96730087 GGCCTATTT
1 GGCC-ATTT
96730096 TTAAGAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 12 0.55
18 10 0.45
ACGTcount: A:0.11, C:0.20, G:0.36, T:0.32
Consensus pattern (17 bp):
GGCCATTTGGCCGTGTG
Found at i:96730816 original size:27 final size:27
Alignment explanation
Indices: 96730764--96730816 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
96730754 GATCTGACAA
*
96730764 ATGATTCTTGATATATGACATTCTAAT
1 ATGATTCTTGATATATGACATACTAAT
* *
96730791 ATGATTTTTGCATATGTGA-ATACTAA
1 ATGATTCTTG-ATATATGACATACTAA
96730817 AAGCACAACT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 15 0.68
28 7 0.32
ACGTcount: A:0.34, C:0.09, G:0.13, T:0.43
Consensus pattern (27 bp):
ATGATTCTTGATATATGACATACTAAT
Found at i:96735598 original size:26 final size:26
Alignment explanation
Indices: 96735562--96735623 Score: 115
Period size: 26 Copynumber: 2.4 Consensus size: 26
96735552 CACTAAAAAG
96735562 TAAAATTTTCCAAAAATGATGGATTT
1 TAAAATTTTCCAAAAATGATGGATTT
96735588 TAAAATTTTCCAAAAATGATGGATTT
1 TAAAATTTTCCAAAAATGATGGATTT
*
96735614 TAAAGTTTTC
1 TAAAATTTTC
96735624 TTAGCAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.40
Consensus pattern (26 bp):
TAAAATTTTCCAAAAATGATGGATTT
Found at i:96736775 original size:17 final size:17
Alignment explanation
Indices: 96736755--96736798 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
96736745 AGTATGGCGT
96736755 AAAGAAAAGGAAAAGAA
1 AAAGAAAAGGAAAAGAA
* *
96736772 AAAGAAAAAGAGAAGAA
1 AAAGAAAAGGAAAAGAA
96736789 ATAA-AAAAGG
1 A-AAGAAAAGG
96736799 TGAAGAGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 21 0.91
18 2 0.09
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (17 bp):
AAAGAAAAGGAAAAGAA
Found at i:96739382 original size:23 final size:23
Alignment explanation
Indices: 96739340--96739383 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
96739330 AAATACACAA
*
96739340 TTCTTTCTTTCAACTGTTTTATC
1 TTCTTTCTTTCAACTATTTTATC
96739363 TTCTTTC-TTCAACATATTTTA
1 TTCTTTCTTTCAAC-TATTTTA
96739384 AGTTCTCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.18, C:0.20, G:0.02, T:0.59
Consensus pattern (23 bp):
TTCTTTCTTTCAACTATTTTATC
Found at i:96739389 original size:23 final size:23
Alignment explanation
Indices: 96739340--96739389 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
96739330 AAATACACAA
* *
96739340 TTCTTTCTTTCAACTGTTTTATC
1 TTCTTTCTTTCAACTATTTTAAC
*
96739363 TTCTTTC-TTCAACATATTTTAAG
1 TTCTTTCTTTCAAC-TATTTTAAC
96739386 TTCT
1 TTCT
96739390 CAAATCTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 6 0.26
23 17 0.74
ACGTcount: A:0.18, C:0.20, G:0.04, T:0.58
Consensus pattern (23 bp):
TTCTTTCTTTCAACTATTTTAAC
Found at i:96742771 original size:53 final size:53
Alignment explanation
Indices: 96742689--96742797 Score: 164
Period size: 53 Copynumber: 2.1 Consensus size: 53
96742679 CTGAAGAACT
* *
96742689 ATATCGTGTAAGATCGTAACTAGTGGGTTACGATATCATATGGAAAAAAGACC
1 ATATCGTGTAAGACCGTAACTAGTGGGTTACGACATCATATGGAAAAAAGACC
* * * *
96742742 ATATCGTGTAAGACCGTAACTGGTTGGTTATGACATCATATGGAAATAAGACC
1 ATATCGTGTAAGACCGTAACTAGTGGGTTACGACATCATATGGAAAAAAGACC
96742795 ATA
1 ATA
96742798 ACTGGTGGGT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.28
Consensus pattern (53 bp):
ATATCGTGTAAGACCGTAACTAGTGGGTTACGACATCATATGGAAAAAAGACC
Found at i:96742792 original size:38 final size:39
Alignment explanation
Indices: 96742750--96742826 Score: 111
Period size: 38 Copynumber: 2.0 Consensus size: 39
96742740 CCATATCGTG
* *
96742750 TAAGACCGTAACTGGTTGGTTATGACATCATA-TGGAAA
1 TAAGACCATAACTGGTGGGTTATGACATCATATTGGAAA
**
96742788 TAAGACCATAACTGGTGGGTTATGGTATCATATTGGAAA
1 TAAGACCATAACTGGTGGGTTATGACATCATATTGGAAA
96742827 ATTTAAATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
38 28 0.82
39 6 0.18
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.30
Consensus pattern (39 bp):
TAAGACCATAACTGGTGGGTTATGACATCATATTGGAAA
Found at i:96742999 original size:28 final size:28
Alignment explanation
Indices: 96742966--96743152 Score: 86
Period size: 28 Copynumber: 6.7 Consensus size: 28
96742956 AAAAACTCCA
96742966 GAAAGGTAAGCCTTTGTGGTGAACT-TG
1 GAAAGGTAAGCCTTTGTGGTGAACTCTG
**
96742993 GTAAAGG-ACA-CCTTTGTGGCAAAACTCTG
1 G-AAAGGTA-AGCCTTTGTGG-TGAACTCTG
*
96743022 GAAAGGTAAGCGTTTGTGGTGAAC-CTG
1 GAAAGGTAAGCCTTTGTGGTGAACTCTG
* * * ** *
96743049 TTAAATG-ACAACCTTTGTGGAAAAACTCTT
1 -GAAAGGTA-AGCCTTTGTGG-TGAACTCTG
* **
96743079 GAAAGGTAAGGCTTCAT-GTCGAACCTCT-
1 GAAAGGTAAGCCTTTGTGGT-GAA-CTCTG
* *
96743107 TAAAGG-ATGCCTTTGTGGTGAAACTCT-
1 GAAAGGTAAGCCTTTGTGGTG-AACTCTG
* *
96743134 GAATGGAAAGCCTTTGTGG
1 GAAAGGTAAGCCTTTGTGG
96743153 CGAGTACTTA
Statistics
Matches: 116, Mismatches: 28, Indels: 31
0.66 0.16 0.18
Matches are distributed among these distances:
27 30 0.26
28 55 0.47
29 28 0.24
30 3 0.03
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (28 bp):
GAAAGGTAAGCCTTTGTGGTGAACTCTG
Found at i:96743083 original size:57 final size:57
Alignment explanation
Indices: 96742938--96743088 Score: 205
Period size: 56 Copynumber: 2.7 Consensus size: 57
96742928 AACACCGGTA
* * * *
96742938 AAAGTACAACATTTGTGGAAAAACTCCAGAAAGGTAAGCCTTTGTGGTGAACTTGGT
1 AAAGGACAACCTTTGTGGAAAAACTCTAGAAAGGTAAGCCTTTGTGGTGAACCTGGT
* * * *
96742995 AAAGGAC-ACCTTTGTGGCAAAACTCTGGAAAGGTAAGCGTTTGTGGTGAACCTGTT
1 AAAGGACAACCTTTGTGGAAAAACTCTAGAAAGGTAAGCCTTTGTGGTGAACCTGGT
* *
96743051 AAATGACAACCTTTGTGGAAAAACTCTTGAAAGGTAAG
1 AAAGGACAACCTTTGTGGAAAAACTCTAGAAAGGTAAG
96743089 GCTTCATGTC
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
56 48 0.59
57 34 0.41
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (57 bp):
AAAGGACAACCTTTGTGGAAAAACTCTAGAAAGGTAAGCCTTTGTGGTGAACCTGGT
Found at i:96743103 original size:57 final size:57
Alignment explanation
Indices: 96742938--96743152 Score: 197
Period size: 56 Copynumber: 3.8 Consensus size: 57
96742928 AACACCGGTA
* * * * * *
96742938 AAAGTACAACATTTGTGGAAAAACTCCAGAAAGGTAAGCCTTTGTGGTGAACTTGGT
1 AAAGGACAACCTTTGTGGAAAAACTCTAGAAAGGTAAGGCTTTGTGGTGAACCTGTT
* *
96742995 AAAGGAC-ACCTTTGTGGCAAAACTCTGGAAAGGTAA-GCGTTTGTGGTGAACCTGTT
1 AAAGGACAACCTTTGTGGAAAAACTCTAGAAAGGTAAGGC-TTTGTGGTGAACCTGTT
* * ** *
96743051 AAATGACAACCTTTGTGGAAAAACTCTTGAAAGGTAAGGCTTCAT-GTCGAACCTCTT
1 AAAGGACAACCTTTGTGGAAAAACTCTAGAAAGGTAAGGCTTTGTGGT-GAACCTGTT
** ** * * *
96743108 AAAGGA-TGCCTTTGTGGTGAAACTCT-GAATGGAAAGCCTTTGTGG
1 AAAGGACAACCTTTGTGGAAAAACTCTAGAAAGGTAAGGCTTTGTGG
96743153 CGAGTACTTA
Statistics
Matches: 129, Mismatches: 24, Indels: 11
0.79 0.15 0.07
Matches are distributed among these distances:
55 13 0.10
56 65 0.50
57 49 0.38
58 2 0.02
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (57 bp):
AAAGGACAACCTTTGTGGAAAAACTCTAGAAAGGTAAGGCTTTGTGGTGAACCTGTT
Found at i:96746764 original size:9 final size:9
Alignment explanation
Indices: 96746750--96746783 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
96746740 AATATAGTTC
96746750 TTAAAATAT
1 TTAAAATAT
96746759 TTAAAATA-
1 TTAAAATAT
96746767 -TAAAATAT
1 TTAAAATAT
96746775 TTAAAATAT
1 TTAAAATAT
96746784 ATGTTTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 7 0.30
9 16 0.70
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (9 bp):
TTAAAATAT
Found at i:96746772 original size:16 final size:16
Alignment explanation
Indices: 96746751--96746784 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
96746741 ATATAGTTCT
96746751 TAAAATATTTAAAATA
1 TAAAATATTTAAAATA
96746767 TAAAATATTTAAAATA
1 TAAAATATTTAAAATA
96746783 TA
1 TA
96746785 TGTTTTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
TAAAATATTTAAAATA
Found at i:96751033 original size:23 final size:22
Alignment explanation
Indices: 96750983--96751026 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
96750973 TAGGTATTAA
96750983 ATTATTGGTAAATTTTTGTTTT
1 ATTATTGGTAAATTTTTGTTTT
96751005 ATTATTGGTAAATTTTTGTTTT
1 ATTATTGGTAAATTTTTGTTTT
96751027 GTTTATTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.14, T:0.64
Consensus pattern (22 bp):
ATTATTGGTAAATTTTTGTTTT
Found at i:96751407 original size:31 final size:31
Alignment explanation
Indices: 96751372--96751440 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 31
96751362 TAGCTTAGTG
96751372 ACTTAAATAAAAACATTT-AAATAATTCAATA
1 ACTTAAATAAAAAC-TTTCAAATAATTCAATA
*
96751403 ACTTAAATAAAAACTTTCAAATAATTCAATG
1 ACTTAAATAAAAACTTTCAAATAATTCAATA
96751434 AC-TAAAT
1 ACTTAAAT
96751441 TGTATCTTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
30 8 0.22
31 28 0.78
ACGTcount: A:0.55, C:0.12, G:0.01, T:0.32
Consensus pattern (31 bp):
ACTTAAATAAAAACTTTCAAATAATTCAATA
Found at i:96761131 original size:27 final size:26
Alignment explanation
Indices: 96761073--96761132 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
96761063 AGAGCTTAAC
*
96761073 ATAA-AATATATAAAACAATTTCAAA
1 ATAATAATATATAAAACAATTTAAAA
**
96761098 ATAAATAATATATAAGTCAATTTTAAAA
1 AT-AATAATATATAAAACAA-TTTAAAA
96761126 ATAATAA
1 ATAATAA
96761133 ATAAGGATCT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 2 0.07
26 2 0.07
27 17 0.59
28 8 0.28
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.32
Consensus pattern (26 bp):
ATAATAATATATAAAACAATTTAAAA
Found at i:96761135 original size:28 final size:26
Alignment explanation
Indices: 96761075--96761135 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 26
96761065 AGCTTAACAT
*
96761075 AAAATATATAAAACAATTTCAAAATA
1 AAAATATATAAAACAATTTAAAAATA
**
96761101 AATAATATATAAGTCAATTTTAAAAATA
1 AA-AATATATAAAACAA-TTTAAAAATA
96761129 ATAAATA
1 A-AAATA
96761136 AGGATCTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 2 0.07
27 12 0.41
28 14 0.48
29 1 0.03
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.31
Consensus pattern (26 bp):
AAAATATATAAAACAATTTAAAAATA
Found at i:96763367 original size:25 final size:25
Alignment explanation
Indices: 96763339--96763445 Score: 85
Period size: 25 Copynumber: 4.3 Consensus size: 25
96763329 TGGAGGCCTA
96763339 TCCTATTTTAAT-AACTGGGGCAAAG
1 TCCT-TTTTAATAAACTGGGGCAAAG
*
96763364 TCCTTTTTGATAAACTGGGGCAAAG
1 TCCTTTTTAATAAACTGGGGCAAAG
* *
96763389 --CTCTTTTAGGTAAACTGGGGCAAAA
1 TCCT-TTTTA-ATAAACTGGGGCAAAG
* *** *
96763414 CCCTTTTCGGTAAACTAGGGCAAAG
1 TCCTTTTTAATAAACTGGGGCAAAG
*
96763439 CCCTTTT
1 TCCTTTT
96763446 AGCACTTCCT
Statistics
Matches: 69, Mismatches: 8, Indels: 10
0.79 0.09 0.11
Matches are distributed among these distances:
23 2 0.03
24 10 0.14
25 52 0.75
26 3 0.04
27 2 0.03
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (25 bp):
TCCTTTTTAATAAACTGGGGCAAAG
Found at i:96763405 original size:50 final size:50
Alignment explanation
Indices: 96763351--96763447 Score: 140
Period size: 50 Copynumber: 1.9 Consensus size: 50
96763341 CTATTTTAAT
** * * *
96763351 AACTGGGGCAAAGTCCTTTTTGATAAACTGGGGCAAAGCTCTTTTAGGTA
1 AACTGGGGCAAAACCCTTTTCGATAAACTAGGGCAAAGCCCTTTTAGGTA
*
96763401 AACTGGGGCAAAACCCTTTTCGGTAAACTAGGGCAAAGCCCTTTTAG
1 AACTGGGGCAAAACCCTTTTCGATAAACTAGGGCAAAGCCCTTTTAG
96763448 CACTTCCTCC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.27
Consensus pattern (50 bp):
AACTGGGGCAAAACCCTTTTCGATAAACTAGGGCAAAGCCCTTTTAGGTA
Found at i:96763682 original size:27 final size:27
Alignment explanation
Indices: 96763652--96763767 Score: 130
Period size: 27 Copynumber: 4.3 Consensus size: 27
96763642 GGCAAAATGG
* * *
96763652 TAATTTTACCCCACAAGGGTATCTCGA
1 TAATTTTACCCTACAGGGGTATTTCGA
* *
96763679 TAATTCTACCCTACAGGGGTATTT-TA
1 TAATTTTACCCTACAGGGGTATTTCGA
96763705 GT-ATTTCTACCCTACAGGGGTATTTCGA
1 -TAATTT-TACCCTACAGGGGTATTTCGA
* *
96763733 TAATTCTACCCTACAGGGGTATTTTGA
1 TAATTTTACCCTACAGGGGTATTTCGA
96763760 T-ATTTTAC
1 TAATTTTAC
96763768 AAATCGAGAG
Statistics
Matches: 75, Mismatches: 10, Indels: 9
0.80 0.11 0.10
Matches are distributed among these distances:
26 10 0.13
27 61 0.81
28 4 0.05
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (27 bp):
TAATTTTACCCTACAGGGGTATTTCGA
Found at i:96763716 original size:54 final size:53
Alignment explanation
Indices: 96763654--96763767 Score: 176
Period size: 54 Copynumber: 2.1 Consensus size: 53
96763644 CAAAATGGTA
96763654 ATTTTACCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTTTAGT
1 ATTTTACCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTTTAGT
* * *
96763707 ATTTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTT-GAT
1 ATTT-TACCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTTTAG-T
96763761 ATTTTAC
1 ATTTTAC
96763768 AAATCGAGAG
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
53 8 0.14
54 48 0.86
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.37
Consensus pattern (53 bp):
ATTTTACCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTTTAGT
Found at i:96763807 original size:27 final size:27
Alignment explanation
Indices: 96763719--96763818 Score: 82
Period size: 27 Copynumber: 3.7 Consensus size: 27
96763709 TTCTACCCTA
**
96763719 CAGGGGTATTTCGATAA-TTCTAC-CCT
1 CAGGGGTATTTCGATAATTTC-ACAAAT
* *
96763745 ACAGGGGTATTTTGAT-ATTTTACAAAT
1 -CAGGGGTATTTCGATAATTTCACAAAT
*
96763772 C-GAGAGTATTTCGATAATTTCACAAAT
1 CAG-GGGTATTTCGATAATTTCACAAAT
* *
96763799 CAGGGGTATTTTGGTAATTT
1 CAGGGGTATTTCGATAATTT
96763819 TACTGATCGA
Statistics
Matches: 58, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
25 1 0.02
26 14 0.24
27 42 0.72
28 1 0.02
ACGTcount: A:0.29, C:0.13, G:0.20, T:0.38
Consensus pattern (27 bp):
CAGGGGTATTTCGATAATTTCACAAAT
Found at i:96763832 original size:27 final size:27
Alignment explanation
Indices: 96763749--96763888 Score: 115
Period size: 27 Copynumber: 5.2 Consensus size: 27
96763739 TACCCTACAG
96763749 GGGTATTTTGAT-ATTTTACAAATCGA
1 GGGTATTTTGATAATTTTACAAATCGA
* * *
96763775 GAGTATTTCGATAATTTCACAAATC-A
1 GGGTATTTTGATAATTTTACAAATCGA
* **
96763801 GGGGTATTTTGGTAATTTTACTGATCGA
1 -GGGTATTTTGATAATTTTACAAATCGA
* ** * *
96763829 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGATAATTTTACAAATCGA
* *
96763856 GGGTATTTT-AGTAATTTTTCAAAATCAA
1 GGGTATTTTGA-TAATTTTAC-AAATCGA
96763884 GGGTA
1 GGGTA
96763889 AAACGGTAAT
Statistics
Matches: 90, Mismatches: 19, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
26 11 0.12
27 67 0.74
28 12 0.13
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGATAATTTTACAAATCGA
Found at i:96763844 original size:54 final size:54
Alignment explanation
Indices: 96763746--96763878 Score: 142
Period size: 54 Copynumber: 2.5 Consensus size: 54
96763736 TTCTACCCTA
* *
96763746 CAGGGGTATTTTGAT-ATTTTACAAATCGAGAGTATTTCGATAATTTCACAAAT
1 CAGGGGTATTTTGGTAATTTTACAAATCGAGAGTATTTCGATAATTTCACAAAC
** * * * ***
96763799 CAGGGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAAC
1 CAGGGGTATTTTGGTAATTTTACAAATCGAGAGTATTTCGATAATTTCACAAAC
* * *
96763853 CAAGGGTATTTTAGTAATTTTTCAAA
1 CAGGGGTATTTTGGTAATTTTACAAA
96763879 ATCAAGGGTA
Statistics
Matches: 64, Mismatches: 15, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
53 14 0.22
54 50 0.78
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (54 bp):
CAGGGGTATTTTGGTAATTTTACAAATCGAGAGTATTTCGATAATTTCACAAAC
Done.