Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007712.1 Hibiscus syriacus cultivar Beakdansim tig00109936_pilon, whole genome shotgun sequence
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: 920388
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 5
Found at i:616692 original size:21 final size:20
Alignment explanation
Indices: 616651--616692 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
616641 CCAGATTCTT
*
616651 TATGAATTCTTGTTAAGTGG
1 TATGAATTCTTGTTAACTGG
*
616671 TATGATATTCTTGTTGACTGG
1 TATGA-ATTCTTGTTAACTGG
616692 T
1 T
616693 GGTATTGGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.21, C:0.07, G:0.24, T:0.48
Consensus pattern (20 bp):
TATGAATTCTTGTTAACTGG
Found at i:618302 original size:22 final size:22
Alignment explanation
Indices: 618246--618306 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 22
618236 ATACATACTC
* *
618246 TAATATCATAACATAAAATTTAA
1 TAAT-TCATAATATAAAATCTAA
618269 -AAGTTCGA-AATATAAAATCTAA
1 TAA-TTC-ATAATATAAAATCTAA
618291 TAATTCATAATATAAA
1 TAATTCATAATATAAA
618307 TAATTCATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
21 1 0.03
22 27 0.84
23 4 0.12
ACGTcount: A:0.56, C:0.08, G:0.03, T:0.33
Consensus pattern (22 bp):
TAATTCATAATATAAAATCTAA
Found at i:618310 original size:16 final size:16
Alignment explanation
Indices: 618289--618319 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
618279 TATAAAATCT
618289 AATAATTCATAATATA
1 AATAATTCATAATATA
*
618305 AATAATTCATTATAT
1 AATAATTCATAATAT
618320 TTTTATATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (16 bp):
AATAATTCATAATATA
Found at i:618743 original size:36 final size:34
Alignment explanation
Indices: 618664--618756 Score: 107
Period size: 36 Copynumber: 2.6 Consensus size: 34
618654 TTTTTCATTA
* * *
618664 TATTTTTTATTTATATAATTGA-TTCCTTTAGTTT
1 TATTTTTTATTT-TATAATTGAGTTCCTGTAATCT
*
618698 TATTTTTTATTTTCATAATTGAGGTTTCTGTAATCT
1 TATTTTTTATTTT-ATAATTGA-GTTCCTGTAATCT
618734 TATTTTTTATCTTTATAATTGAG
1 TATTTTTTAT-TTTATAATTGAG
618757 ACTTTTAATT
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
33 1 0.02
34 20 0.39
35 1 0.02
36 26 0.51
37 3 0.06
ACGTcount: A:0.24, C:0.06, G:0.09, T:0.61
Consensus pattern (34 bp):
TATTTTTTATTTTATAATTGAGTTCCTGTAATCT
Found at i:618909 original size:83 final size:84
Alignment explanation
Indices: 618775--618972 Score: 222
Period size: 83 Copynumber: 2.4 Consensus size: 84
618765 TTTTTTCACG
* * * *
618775 TTTATAATTGATGACTCTAGTTTTTCAATCTCACTTTGTACATTTATAATTGA-GCTC-CTAACT
1 TTTATAATTGAAGACTCTAATTTTTTAATCTCACTTTGTACATTTACAATTGAGGC-CACTAA-T
618838 TTTTCAATCCCACTTTCTACC
64 TTTTCAATCCCACTTTCTACC
* * * *
618859 TTTATAATTGAAG-CCCTAATTTTTTAATCTCAGTTTTTACCTTTACAATTGAGGCCACTAATTT
1 TTTATAATTGAAGACTCTAATTTTTTAATCTCACTTTGTACATTTACAATTGAGGCCACTAATTT
* * *
618923 TTCAATCTCGCTTTTTACC
66 TTCAATCCCACTTTCTACC
* * *
618942 TTTATGATTGAGGTCTCTAATTTTTTTAATC
1 TTTATAATTGAAGACTCTAA-TTTTTTAATC
618973 ATACTTTATT
Statistics
Matches: 96, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
83 63 0.66
84 23 0.24
85 10 0.10
ACGTcount: A:0.25, C:0.20, G:0.09, T:0.47
Consensus pattern (84 bp):
TTTATAATTGAAGACTCTAATTTTTTAATCTCACTTTGTACATTTACAATTGAGGCCACTAATTT
TTCAATCCCACTTTCTACC
Found at i:618954 original size:42 final size:41
Alignment explanation
Indices: 618766--618966 Score: 206
Period size: 42 Copynumber: 4.8 Consensus size: 41
618756 GACTTTTAAT
* * * *
618766 TTTTTCACGTTTATAATTGATGACTCTAGTTTTTCAATCTCAC
1 TTTTT-ACCTTTATAATTGA-GGCCCTAATTTTTCAATCTCAC
* * *
618809 TTTGTACATTTATAATTGA-GCTCCTAACTTTTTCAATCCCAC
1 TTTTTACCTTTATAATTGAGGC-CCTAA-TTTTTCAATCTCAC
* * * *
618851 TTTCTACCTTTATAATTGAAGCCCTAATTTTTTAATCTCAG
1 TTTTTACCTTTATAATTGAGGCCCTAATTTTTCAATCTCAC
* *
618892 TTTTTACCTTTACAATTGAGGCCACTAATTTTTCAATCTCGC
1 TTTTTACCTTTATAATTGAGGCC-CTAATTTTTCAATCTCAC
* *
618934 TTTTTACCTTTATGATTGAGGTCTCTAATTTTT
1 TTTTTACCTTTATAATTGAGG-CCCTAATTTTT
618967 TTAATCATAC
Statistics
Matches: 133, Mismatches: 20, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
40 1 0.01
41 34 0.26
42 91 0.68
43 7 0.05
ACGTcount: A:0.24, C:0.20, G:0.09, T:0.47
Consensus pattern (41 bp):
TTTTTACCTTTATAATTGAGGCCCTAATTTTTCAATCTCAC
Found at i:621414 original size:25 final size:26
Alignment explanation
Indices: 621380--621429 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 26
621370 AAAACTGATG
*
621380 CCCCTACATGCTG-CCTGGGTCGTCA
1 CCCCTACATGCTGCCCTGGGCCGTCA
621405 CCCCTACATGCTGCCCTGGGCCGTC
1 CCCCTACATGCTGCCCTGGGCCGTC
621430 GCCCATCTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.10, C:0.44, G:0.24, T:0.22
Consensus pattern (26 bp):
CCCCTACATGCTGCCCTGGGCCGTCA
Found at i:629118 original size:21 final size:21
Alignment explanation
Indices: 629088--629242 Score: 133
Period size: 21 Copynumber: 7.4 Consensus size: 21
629078 GATTTACATA
* *
629088 TTCGCATTGCGATAATCCAAG
1 TTCGCGTTGCGATAGTCCAAG
*
629109 TTCGCGTTGCGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
*
629132 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
629151 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
629174 TT--CGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
629193 TTCGCATTGCGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
*
629216 TTCG-G-TGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
629235 TTCGCGTT
1 TTCGCGTT
629243 TTGCGATTTA
Statistics
Matches: 108, Mismatches: 14, Indels: 24
0.74 0.10 0.16
Matches are distributed among these distances:
19 29 0.27
20 1 0.01
21 48 0.44
23 30 0.28
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.35
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:629152 original size:42 final size:42
Alignment explanation
Indices: 629094--629316 Score: 331
Period size: 42 Copynumber: 5.3 Consensus size: 42
629084 CATATTCGCA
* * *
629094 TTGCGATAATCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
629136 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
* * *
629178 TTGCGATAGTCCAAGTTCGCATTGCGATTTATTCCAAGTTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
*
629220 GTGCGATAGTCGAAGTTCGCGTTTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCG--TTGCGATTTATTCCAAATTCG
* *
629264 TTGCGATAGTCG-ACTATCGCATTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCGAAGT-TCGCGTTGCGATTTATTCCAAATTCG
629306 TTGCGATAGTC
1 TTGCGATAGTC
629317 CAAAATCGCA
Statistics
Matches: 165, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
42 128 0.78
43 2 0.01
44 35 0.21
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (42 bp):
TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
Found at i:629290 original size:86 final size:84
Alignment explanation
Indices: 629094--629316 Score: 349
Period size: 86 Copynumber: 2.6 Consensus size: 84
629084 CATATTCGCA
* * *
629094 TTGCGATAATCCAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTT
1 TTGCGATAGTCCAACTTCGCATTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTT
629159 GCGATTTATTCCAAATTCG
66 GCGATTTATTCCAAATTCG
* *
629178 TTGCGATAGTCCAAGTTCGCATTGCGATTTATTCCAAGTTCGGTGCGATAGTCGAAGTTCGCGTT
1 TTGCGATAGTCCAACTTCGCATTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCG--
629243 TTGCGATTTATTCCAAATTCG
64 TTGCGATTTATTCCAAATTCG
* *
629264 TTGCGATAGT-CGACTATCGCATTGCGATTTATTCCAAATTCGTTGCGATAGTC
1 TTGCGATAGTCCAACT-TCGCATTGCGATTTATTCCAAGTTCGTTGCGATAGTC
629317 CAAAATCGCA
Statistics
Matches: 129, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
84 60 0.47
85 3 0.02
86 66 0.51
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (84 bp):
TTGCGATAGTCCAACTTCGCATTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTT
GCGATTTATTCCAAATTCG
Found at i:629326 original size:42 final size:42
Alignment explanation
Indices: 629069--629319 Score: 321
Period size: 42 Copynumber: 6.0 Consensus size: 42
629059 ACTTCGACTA
* *
629069 TCGCATTGCGATTTA---CATATTCGCATTGCGATAATCCAAGT
1 TCGCATTGCGATTTATTCCAAATTCG--TTGCGATAGTCCAAGT
* * *
629110 TCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGT
1 TCGCATTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGT
*
629152 TCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGT
1 TCGCATTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGT
* * *
629194 TCGCATTGCGATTTATTCCAAGTTCGGTGCGATAGTCGAAGT
1 TCGCATTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGT
* * *
629236 TCGCGTTTTGCGATTTATTCCAAATTCGTTGCGATAGT-CGACT
1 TCGC--ATTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGT
629279 ATCGCATTGCGATTTATTCCAAATTCGTTGCGATAGTCCAA
1 -TCGCATTGCGATTTATTCCAAATTCGTTGCGATAGTCCAA
629320 AATCGCAACG
Statistics
Matches: 184, Mismatches: 19, Indels: 12
0.86 0.09 0.06
Matches are distributed among these distances:
41 14 0.08
42 127 0.69
43 4 0.02
44 39 0.21
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (42 bp):
TCGCATTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGT
Found at i:629326 original size:128 final size:126
Alignment explanation
Indices: 629095--629326 Score: 367
Period size: 128 Copynumber: 1.8 Consensus size: 126
629085 ATATTCGCAT
* * *
629095 TGCGATAATCCAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTG
1 TGCGATAATCCAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAACTTCGCATTG
**
629160 CGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCATTGCGATTTATTCCAAGTTCGG
66 CGATTTATTCCAAATTCGTTGCGATAGTCCAAAATCGCATTGCGATTTATTCCAAGTTCGG
* *
629221 TGCGATAGTCGAAGTTCGCGTTTTGCGATTTATTCCAAATTCGTTGCGATAGTCG-ACTATCGCA
1 TGCGATAATCCAAGTTCGCG--TTGCGATTTATTCCAAATTCGTTGCGATAGTCGAACT-TCGCA
629285 TTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAAATCGCA
63 TTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAAATCGCA
629327 ACGACTATTG
Statistics
Matches: 96, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
126 18 0.19
127 2 0.02
128 76 0.79
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.34
Consensus pattern (126 bp):
TGCGATAATCCAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAACTTCGCATTG
CGATTTATTCCAAATTCGTTGCGATAGTCCAAAATCGCATTGCGATTTATTCCAAGTTCGG
Found at i:629952 original size:6 final size:6
Alignment explanation
Indices: 629931--629973 Score: 72
Period size: 6 Copynumber: 7.5 Consensus size: 6
629921 TCTCGTCTCG
629931 GGTCG- GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
629974 AATAGTAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 10 0.27
6 27 0.73
ACGTcount: A:0.00, C:0.16, G:0.53, T:0.30
Consensus pattern (6 bp):
GGTCGT
Found at i:630147 original size:27 final size:27
Alignment explanation
Indices: 630109--630179 Score: 73
Period size: 21 Copynumber: 2.9 Consensus size: 27
630099 TTTGGAATAA
*
630109 ATCGCAATGCGATAGTCGACTATGACT
1 ATCGCATTGCGATAGTCGACTATGACT
*
630136 ATCGCATTGCGA-A--C--TTA-GACT
1 ATCGCATTGCGATAGTCGACTATGACT
*
630157 ATCGCATTGCGTTAGTCGACTAT
1 ATCGCATTGCGATAGTCGACTAT
630180 CGCAATGCGA
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
21 15 0.44
22 3 0.09
24 2 0.06
26 3 0.09
27 11 0.32
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.30
Consensus pattern (27 bp):
ATCGCATTGCGATAGTCGACTATGACT
Found at i:630158 original size:21 final size:21
Alignment explanation
Indices: 630132--630231 Score: 130
Period size: 21 Copynumber: 4.8 Consensus size: 21
630122 AGTCGACTAT
*
630132 GACTATCGCATTGCGAACTTA
1 GACTATCGCATTGCGAACTTC
* *
630153 GACTATCGCATTGCGTTA-GTC
1 GACTATCGCATTGCG-AACTTC
* *
630174 GACTATCGCAATGCGAACTTG
1 GACTATCGCATTGCGAACTTC
*
630195 GACTATCGCAATGCGAACTTC
1 GACTATCGCATTGCGAACTTC
630216 GACTATCGCATTGCGA
1 GACTATCGCATTGCGA
630232 TTTACATATT
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
20 1 0.01
21 66 0.97
22 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (21 bp):
GACTATCGCATTGCGAACTTC
Found at i:630191 original size:42 final size:41
Alignment explanation
Indices: 630132--630256 Score: 137
Period size: 42 Copynumber: 3.0 Consensus size: 41
630122 AGTCGACTAT
630132 GACTATCGCATTGCGAACTTAGACTATCGCATTGCGTTAGTC
1 GACTATCGCATTGCGAACTTAGACTATCGCATTGCG-TAGTC
* * * * *
630174 GACTATCGCAATGCGAACTTGGACTATCGCAATGCGAACTTC
1 GACTATCGCATTGCGAACTTAGACTATCGCATTGCGTA-GTC
* *
630216 GACTATCGCATTGCG-ATTTACA-TATTCGCATTGCGATAGTC
1 GACTATCGCATTGCGAACTTAGACTA-TCGCATTGCG-TAGTC
630257 CAAGTTCGCA
Statistics
Matches: 68, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
40 2 0.03
41 16 0.24
42 50 0.74
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.30
Consensus pattern (41 bp):
GACTATCGCATTGCGAACTTAGACTATCGCATTGCGTAGTC
Found at i:630266 original size:21 final size:21
Alignment explanation
Indices: 630240--630479 Score: 208
Period size: 21 Copynumber: 11.6 Consensus size: 21
630230 GATTTACATA
630240 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
* *
630261 TTCGCATTGCGAT-TTACATA-
1 TTCGCATTGCGATAGTCCA-AG
630281 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
* * *
630302 TCCGCATTGCGATAGT-CGAC
1 TTCGCATTGCGATAGTCCAAG
* *
630322 TATCGCATTGCGAT-TTACATA-
1 T-TCGCATTGCGATAGTCCA-AG
* *
630343 TTTGCATTGTGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
**
630364 TTCGTGTTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
* *
630385 TTCGCATTGCGATAGT-CGAC
1 TTCGCATTGCGATAGTCCAAG
* * *
630405 TATCGCAATGCGAT-TTACATA-
1 T-TCGCATTGCGATAGTCCA-AG
*
630426 TTCACATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
*
630447 TTCGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAG
*
630468 TTCGCGTTGCGA
1 TTCGCATTGCGA
630480 ATCTGAAAAC
Statistics
Matches: 174, Mismatches: 32, Indels: 26
0.75 0.14 0.11
Matches are distributed among these distances:
20 47 0.27
21 125 0.72
22 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.32
Consensus pattern (21 bp):
TTCGCATTGCGATAGTCCAAG
Found at i:630266 original size:41 final size:41
Alignment explanation
Indices: 630221--630314 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
630211 ACTTCGACTA
630221 TCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGT
630262 TCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGT
*
630303 CCGCATTGCGAT
1 TCGCATTGCGAT
630315 AGTCGACTAT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.33
Consensus pattern (41 bp):
TCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGT
Found at i:630308 original size:62 final size:62
Alignment explanation
Indices: 630240--630459 Score: 252
Period size: 62 Copynumber: 3.5 Consensus size: 62
630230 GATTTACATA
630240 TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAG
* * * * *
630302 TCCGCATTGCGATAGT-CGACTATCGCATTGCGATTTACATATTTGCATTGTGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAGT-TCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAG
** * * * *
630364 TTCGTGTTGCGATAGTCCAAGTTCGCATTGCGATAGT-CGACTA-TCGCAATGCGAT-TTACATA
1 TTCGCATTGCGATAGTCCAAGTTCGCATTGCGAT-TTAC-A-TATTCGCATTGCGATAGTCCA-A
630426 -
62 G
*
630426 TTCACATTGCGATAGTCCAAGTTCGCATTGCGAT
1 TTCGCATTGCGATAGTCCAAGTTCGCATTGCGAT
630460 AGTCGAAGTT
Statistics
Matches: 133, Mismatches: 19, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
61 3 0.02
62 113 0.85
63 15 0.11
64 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (62 bp):
TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAG
Found at i:630328 original size:83 final size:83
Alignment explanation
Indices: 630281--630479 Score: 317
Period size: 83 Copynumber: 2.4 Consensus size: 83
630271 GATTTACATA
* *
630281 TTCGCATTGCGATAGTCCAAGTCCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATATTT
1 TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATATTC
*
630346 GCATTGTGATAGTCCAAG
66 GCATTGCGATAGTCCAAG
** *
630364 TTCGTGTTGCGATAGTCCAAGTTCGCATTGCGATAGTCGACTATCGCAATGCGATTTACATATTC
1 TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATATTC
*
630429 ACATTGCGATAGTCCAAG
66 GCATTGCGATAGTCCAAG
* *
630447 TTCGCATTGCGATAGTCGAAGTTCGCGTTGCGA
1 TTCGCATTGCGATAGTCCAAGTTCGCATTGCGA
630480 ATCTGAAAAC
Statistics
Matches: 105, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
83 105 1.00
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.32
Consensus pattern (83 bp):
TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATATTC
GCATTGCGATAGTCCAAG
Found at i:633782 original size:33 final size:33
Alignment explanation
Indices: 633745--633810 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
633735 CTATTTCTTA
633745 GGTTC-ACTACTTAGTATTCGAGAGAAACTAGGT
1 GGTTCGAC-ACTTAGTATTCGAGAGAAACTAGGT
* *
633778 GGTTCGACACTTAGTGTTCGAGATAAACTAGGT
1 GGTTCGACACTTAGTATTCGAGAGAAACTAGGT
633811 AAAGATCAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.93
34 2 0.07
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (33 bp):
GGTTCGACACTTAGTATTCGAGAGAAACTAGGT
Found at i:636029 original size:79 final size:79
Alignment explanation
Indices: 635918--636248 Score: 345
Period size: 79 Copynumber: 4.3 Consensus size: 79
635908 AACATCATCA
* * *
635918 CTTTTCTCAATTCCATCACAAAAGGAGGTGGATCAGCCTTTCCGAAGAAGAAGTTCATAATGAGA
1 CTTTGCTCGATTCCATCACAACAGGAGGTGGATCAGCCTTTCCGAAGAAGAAGTTCATAATGAGA
*
635983 ATAACTTTTTCAAC
66 AGAACTTTTTCAAC
* * * *
635997 CTTTGGTCGATTCCATCA-AAGCATGAGGTGGATCAGCCTTACCAAAGAAGAAGTTCATAATGAG
1 CTTTGCTCGATTCCATCACAA-CAGGAGGTGGATCAGCCTTTCCGAAGAAGAAGTTCATAATGAG
*
636061 AAGAACTTGTTCAAC
65 AAGAACTTTTTCAAC
* * * * * *
636076 CTTTGCTCGCTTCCATCACAACAGGAAGTTGATCAGTCTTTCCGAAGAAAAAATTCATAATGAGA
1 CTTTGCTCGATTCCATCACAACAGGAGGTGGATCAGCCTTTCCGAAGAAGAAGTTCATAATGAGA
636141 AGAA-TTTGTTCAAC
66 AGAACTTT-TTCAAC
* * * * * * *
636155 CTTTGCTCGATCCCATCATAAAAGGATGTAGATTAGCATTTCC---GAAGAAGTTCCA-AATGAG
1 CTTTGCTCGATTCCATCACAACAGGAGGTGGATCAGCCTTTCCGAAGAAGAAGTT-CATAATGAG
* * *
636216 AAGAACTTGTTGAAT
65 AAGAACTTTTTCAAC
*
636231 CTTTTCTC-A-TCCATCACA
1 CTTTGCTCGATTCCATCACA
636249 TAAAGGGTTG
Statistics
Matches: 210, Mismatches: 37, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
74 7 0.03
75 1 0.00
76 29 0.14
77 4 0.02
78 4 0.02
79 163 0.78
80 2 0.01
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.29
Consensus pattern (79 bp):
CTTTGCTCGATTCCATCACAACAGGAGGTGGATCAGCCTTTCCGAAGAAGAAGTTCATAATGAGA
AGAACTTTTTCAAC
Found at i:641317 original size:50 final size:50
Alignment explanation
Indices: 641242--641379 Score: 251
Period size: 50 Copynumber: 2.8 Consensus size: 50
641232 CTGAGTTGGA
*
641242 TGCCACGTGTAGAAGGCGCATCCCCGGGGACGCGCCTTCACTGACTCGAC
1 TGCCACGTGTGGAAGGCGCATCCCCGGGGACGCGCCTTCACTGACTCGAC
*
641292 TGCCACGTGTGGAAAGCGCATCCCCGGGGACGCGCCTTCACTGACTCGAC
1 TGCCACGTGTGGAAGGCGCATCCCCGGGGACGCGCCTTCACTGACTCGAC
641342 TGCCACGTGTGGAAGGCGCAT-CCCGGGGACGCGCCTTC
1 TGCCACGTGTGGAAGGCGCATCCCCGGGGACGCGCCTTC
641380 CATTAAATGC
Statistics
Matches: 85, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
49 17 0.20
50 68 0.80
ACGTcount: A:0.17, C:0.36, G:0.32, T:0.16
Consensus pattern (50 bp):
TGCCACGTGTGGAAGGCGCATCCCCGGGGACGCGCCTTCACTGACTCGAC
Found at i:641622 original size:35 final size:35
Alignment explanation
Indices: 641577--641662 Score: 97
Period size: 35 Copynumber: 2.4 Consensus size: 35
641567 GTATTTTTTA
*
641577 AAATAGTTATTATATTTTATATT-AAT-ATATTTATGT
1 AAATA-TTATT-TATTTT-TATTAAATAATATTTATAT
641613 AAATATTATTT-TTTTTATTAAAATAATATTTATAT
1 AAATATTATTTATTTTTATT-AAATAATATTTATAT
*
641648 AATTATTATTTATTT
1 AAATATTATTTATTT
641663 AGAATTATTA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
32 4 0.09
33 4 0.09
34 4 0.09
35 24 0.55
36 8 0.18
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (35 bp):
AAATATTATTTATTTTTATTAAATAATATTTATAT
Found at i:641826 original size:17 final size:17
Alignment explanation
Indices: 641804--641857 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
641794 AATGTTAATA
641804 TTTAAATTTATTTTTAT
1 TTTAAATTTATTTTTAT
* * * *
641821 TTTAAAGTTATTATGAA
1 TTTAAATTTATTTTTAT
* *
641838 TTTATATTAATTTTTAT
1 TTTAAATTTATTTTTAT
641855 TTT
1 TTT
641858 TTATAATGTA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (17 bp):
TTTAAATTTATTTTTAT
Found at i:643195 original size:31 final size:33
Alignment explanation
Indices: 643147--643225 Score: 90
Period size: 34 Copynumber: 2.4 Consensus size: 33
643137 TTAAAATAGT
* *
643147 TATTATATTTTATATT-AAT-ATATTTATGTAAA
1 TATTAT-TTTTTTATTAAATAATATTTATATAAA
*
643179 TATTATTTTTTTATTAAAATAATATTTATATAAT
1 TATTATTTTTTTATT-AAATAATATTTATATAAA
*
643213 TATTATTTATTTA
1 TATTATTTTTTTA
643226 GAATTATTAG
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
31 8 0.20
32 6 0.15
33 3 0.08
34 23 0.57
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.59
Consensus pattern (33 bp):
TATTATTTTTTTATTAAATAATATTTATATAAA
Found at i:643387 original size:17 final size:17
Alignment explanation
Indices: 643365--643418 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
643355 AATGTTAATA
643365 TTTAAATTTATTTTTAT
1 TTTAAATTTATTTTTAT
* * * *
643382 TTTAAAGTTATTATGAA
1 TTTAAATTTATTTTTAT
* *
643399 TTTATATTAATTTTTAT
1 TTTAAATTTATTTTTAT
643416 TTT
1 TTT
643419 TTATAATGTA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (17 bp):
TTTAAATTTATTTTTAT
Found at i:644540 original size:50 final size:50
Alignment explanation
Indices: 644464--644602 Score: 224
Period size: 50 Copynumber: 2.8 Consensus size: 50
644454 CTGAGTTGGA
* * *
644464 TGCCACGTCTAGAAGGCGCGTCCCCGGGGATGCGCCTTCACTGACTCGAC
1 TGCCACGTGTGGAAGGCGCGTCCCCGGGGACGCGCCTTCACTGACTCGAC
* *
644514 TGCCACGTGTGGAAGGCGCATTCCCGGGGACGCGCCTTCACTGACTCGAC
1 TGCCACGTGTGGAAGGCGCGTCCCCGGGGACGCGCCTTCACTGACTCGAC
*
644564 TGCCACGTGTGGAAGGCGCGTCCCCGAGGACGCGCCTTC
1 TGCCACGTGTGGAAGGCGCGTCCCCGGGGACGCGCCTTC
644603 CATTTAATGC
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 81 1.00
ACGTcount: A:0.15, C:0.35, G:0.32, T:0.17
Consensus pattern (50 bp):
TGCCACGTGTGGAAGGCGCGTCCCCGGGGACGCGCCTTCACTGACTCGAC
Found at i:644876 original size:33 final size:30
Alignment explanation
Indices: 644806--644884 Score: 86
Period size: 33 Copynumber: 2.4 Consensus size: 30
644796 TTTAAAATAG
*
644806 TTATTATATTTTATATTAATATATTTATGTAA
1 TTATTAT-TTTT-TATTAATATATTTATATAA
*
644838 ATATTATTTTTTATTAAAATAATATTTATATAA
1 TTATTATTTTTTATT--AAT-ATATTTATATAA
644871 TTATTATTTATTTA
1 TTATTATTT-TTTA
644885 GAATTATTAG
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
30 4 0.10
31 4 0.10
32 9 0.22
33 19 0.47
34 4 0.10
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.59
Consensus pattern (30 bp):
TTATTATTTTTTATTAATATATTTATATAA
Found at i:645045 original size:17 final size:17
Alignment explanation
Indices: 645023--645076 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
645013 AATGTTAATA
645023 TTTAAATTTATTTTTAT
1 TTTAAATTTATTTTTAT
* * * *
645040 TTTAAAGTTATTATGAA
1 TTTAAATTTATTTTTAT
* *
645057 TTTATATTAATTTTTAT
1 TTTAAATTTATTTTTAT
645074 TTT
1 TTT
645077 TTATAATGTA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (17 bp):
TTTAAATTTATTTTTAT
Found at i:646618 original size:21 final size:21
Alignment explanation
Indices: 646594--646635 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
646584 GTACATACCC
*
646594 AGCCCTCCACTTCATATGCCA
1 AGCCCACCACTTCATATGCCA
*
646615 AGCCCACCAGTTCATATGCCA
1 AGCCCACCACTTCATATGCCA
646636 TCTCCGCAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.40, G:0.12, T:0.21
Consensus pattern (21 bp):
AGCCCACCACTTCATATGCCA
Found at i:646665 original size:21 final size:21
Alignment explanation
Indices: 646639--646753 Score: 135
Period size: 21 Copynumber: 5.5 Consensus size: 21
646629 TATGCCATCT
*
646639 CCGCAGGGTTACATTCTTAGC
1 CCGCAGGGTTACATTCCTAGC
*
646660 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCTAGC
* *
646681 TCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCTAGC
*
646702 CTGCAGGGTTACATTCCTAGTC
1 CCGCAGGGTTACATTCCTAG-C
*
646724 CTC-CA-GGTTACATGCCTAGC
1 C-CGCAGGGTTACATTCCTAGC
*
646744 CCACAGGGTT
1 CCGCAGGGTT
646754 TTATACCATA
Statistics
Matches: 82, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
19 1 0.01
20 4 0.05
21 73 0.89
22 4 0.05
ACGTcount: A:0.19, C:0.30, G:0.25, T:0.25
Consensus pattern (21 bp):
CCGCAGGGTTACATTCCTAGC
Found at i:647305 original size:28 final size:28
Alignment explanation
Indices: 647273--647351 Score: 106
Period size: 28 Copynumber: 2.8 Consensus size: 28
647263 GATAAATGTT
* * *
647273 TTTAAAATACAAATTATATTATTTGAAA
1 TTTAAAATAAAAATAATATTATTCGAAA
647301 TTTAAAATAAAAATAATATTATTCGAAA
1 TTTAAAATAAAAATAATATTATTCGAAA
647329 TTTAAAATTAAAATATAA-ATTAT
1 TTTAAAA-TAAAA-ATAATATTAT
647352 AGTATTCAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
28 32 0.70
29 10 0.22
30 4 0.09
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (28 bp):
TTTAAAATAAAAATAATATTATTCGAAA
Found at i:647314 original size:34 final size:33
Alignment explanation
Indices: 647276--647367 Score: 95
Period size: 28 Copynumber: 2.9 Consensus size: 33
647266 AAATGTTTTT
*
647276 AAAATACAAATTATATTATTTGAAATTTAAAATA
1 AAAATA-AAATTATATTATTCGAAATTTAAAATA
*
647310 AAAAT---A--ATATTATTCGAAATTTAAAATT
1 AAAATAAAATTATATTATTCGAAATTTAAAATA
* *
647338 AAAATATAAATTATAGTATTCAAAATTTAA
1 AAAATA-AAATTATATTATTCGAAATTTAA
647368 CATTAAATTT
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
28 25 0.52
30 1 0.02
32 1 0.02
34 21 0.44
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.38
Consensus pattern (33 bp):
AAAATAAAATTATATTATTCGAAATTTAAAATA
Found at i:647373 original size:34 final size:34
Alignment explanation
Indices: 647293--647374 Score: 101
Period size: 34 Copynumber: 2.4 Consensus size: 34
647283 AAATTATATT
* * *
647293 ATTTGAAATTTAAAATAAAAATAATATTATTCGAA
1 ATTT-AAAATTAAAATAAAAATAATAGTATTCAAA
* *
647328 ATTTAAAATTAAAATATAAATTATAGTATTCAAA
1 ATTTAAAATTAAAATAAAAATAATAGTATTCAAA
*
647362 ATTTAACATTAAA
1 ATTTAAAATTAAA
647375 TTTCAACTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
34 37 0.90
35 4 0.10
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.38
Consensus pattern (34 bp):
ATTTAAAATTAAAATAAAAATAATAGTATTCAAA
Found at i:647998 original size:128 final size:128
Alignment explanation
Indices: 647770--648374 Score: 1075
Period size: 128 Copynumber: 4.7 Consensus size: 128
647760 ACAATCCATC
647770 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
*
647835 GGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCTTGAGAAATAATAGGTACTGATATGAA
66 GGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
* * *
647898 TAGTGTCCCCGAGGGATATGAGTTACATAATAGGGAAATGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
*
647963 GGAAGGCGCACCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
66 GGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
*
648026 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTTTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
** * * *
648091 GGAAGGCGTACCCCCGGGAACGCTCCTTCAAGTCCCCCGAGAAATAATAGGTATTGATATGAA
66 GGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
648154 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* *
648219 GGAAGGCGCGCCCCCAGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTATTGATATGAA
66 GGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
*
648282 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTAACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
*
648347 GGAAGGCGCGCCCCCGTGAACGCGCCTT
66 GGAAGGCGCGCCCCCGGGAACGCGCCTT
648375 TATGTGAATA
Statistics
Matches: 455, Mismatches: 22, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
128 455 1.00
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.21
Consensus pattern (128 bp):
TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
GGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
Found at i:648470 original size:8 final size:8
Alignment explanation
Indices: 648457--648497 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
648447 TCACAAGCTT
648457 TCAAATTC
1 TCAAATTC
648465 TCAAATTC
1 TCAAATTC
* *
648473 CCAAACTC
1 TCAAATTC
648481 T-AAATTC
1 TCAAATTC
648488 TCAAATTC
1 TCAAATTC
648496 TC
1 TC
648498 TGAAAATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:656894 original size:24 final size:25
Alignment explanation
Indices: 656862--656908 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
656852 ATTAAAAATA
656862 TAATATAAAAAATCATTCTAATATT
1 TAATATAAAAAATCATTCTAATATT
* * *
656887 TAAT-TAAATAATTATTTTAATA
1 TAATATAAAAAATCATTCTAATA
656909 CATATTTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 15 0.79
25 4 0.21
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (25 bp):
TAATATAAAAAATCATTCTAATATT
Found at i:662290 original size:21 final size:21
Alignment explanation
Indices: 662264--662308 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
662254 GTTTGAATCC
662264 GTTGAAGTTTCGAAGTTTTGG
1 GTTGAAGTTTCGAAGTTTTGG
662285 GTTGAAGTTTCGAAGTTTTGG
1 GTTGAAGTTTCGAAGTTTTGG
662306 GTT
1 GTT
662309 TGATCAGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.18, C:0.04, G:0.33, T:0.44
Consensus pattern (21 bp):
GTTGAAGTTTCGAAGTTTTGG
Found at i:662357 original size:26 final size:26
Alignment explanation
Indices: 662321--662398 Score: 75
Period size: 32 Copynumber: 2.8 Consensus size: 26
662311 ATCAGTTACA
*
662321 TTTAAAGATGAACGTGTATTTTTGGG
1 TTTATAGATGAACGTGTATTTTTGGG
**
662347 TTTATAGATGAATTTGTATTCAAAGTTTTGGG
1 TTTATAGATGAACGTGTA-T-----TTTTGGG
662379 TTTATAGATGAACGTGTATT
1 TTTATAGATGAACGTGTATT
662399 CAGAGACGGT
Statistics
Matches: 41, Mismatches: 5, Indels: 12
0.71 0.09 0.21
Matches are distributed among these distances:
26 16 0.39
27 1 0.02
31 1 0.02
32 23 0.56
ACGTcount: A:0.28, C:0.04, G:0.23, T:0.45
Consensus pattern (26 bp):
TTTATAGATGAACGTGTATTTTTGGG
Found at i:662381 original size:32 final size:32
Alignment explanation
Indices: 662340--662400 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
662330 GAACGTGTAT
**
662340 TTTTGGGTTTATAGATGAATTTGTATTCAAAG
1 TTTTGGGTTTATAGATGAACGTGTATTCAAAG
662372 TTTTGGGTTTATAGATGAACGTGTATTCA
1 TTTTGGGTTTATAGATGAACGTGTATTCA
662401 GAGACGGTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.26, C:0.05, G:0.23, T:0.46
Consensus pattern (32 bp):
TTTTGGGTTTATAGATGAACGTGTATTCAAAG
Found at i:662601 original size:70 final size:70
Alignment explanation
Indices: 662412--662708 Score: 419
Period size: 70 Copynumber: 4.3 Consensus size: 70
662402 AGACGGTGTA
662412 AGATTTTGTGTTATAGATGAACATGCATTCAAGGATGGTGTAAGATATGGTGTAAGATTTTGTGT
1 AGATTTTGTGTTATAGATGAACATGCATTCAAGGATGGTGTAAGATATGGTGTAAGATTTTGTGT
662477 TATAGATG
66 TAT-G--G
* * *
662485 AGTTTTTGTGTTGTAGATGAACATACATTCAAGGATGGTGTAAGATATGGTGTAAGATTTTGTGT
1 AGATTTTGTGTTATAGATGAACATGCATTCAAGGATGGTGTAAGATATGGTGTAAGATTTTGTGT
662550 TATGG
66 TATGG
* *
662555 AGATTTTGTGTTATAGATGAACGTGCATTCAAGGATGGTGTAAGATATGATGTAAGATTTTGTGT
1 AGATTTTGTGTTATAGATGAACATGCATTCAAGGATGGTGTAAGATATGGTGTAAGATTTTGTGT
662620 TATGG
66 TATGG
* * * * *
662625 AGATTTTGTGTTATAGATGAACATG-A-AC-ATG-T-AT-TCAG-GATGGTGTAAGATTTTGTGT
1 AGATTTTGTGTTATAGATGAACATGCATTCAAGGATGGTGTAAGATATGGTGTAAGATTTTGTGT
*
662683 TACGG
66 TATGG
662688 AGATTTTGTGTTATAGATGAA
1 AGATTTTGTGTTATAGATGAA
662709 TATGTATTAT
Statistics
Matches: 208, Mismatches: 16, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
63 43 0.21
64 3 0.01
65 1 0.00
66 1 0.00
67 2 0.01
68 1 0.00
69 1 0.00
70 90 0.43
72 1 0.00
73 65 0.31
ACGTcount: A:0.29, C:0.04, G:0.28, T:0.39
Consensus pattern (70 bp):
AGATTTTGTGTTATAGATGAACATGCATTCAAGGATGGTGTAAGATATGGTGTAAGATTTTGTGT
TATGG
Found at i:662729 original size:22 final size:22
Alignment explanation
Indices: 662698--662741 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
662688 AGATTTTGTG
*
662698 TTATAGATGAATATGTATTATA
1 TTATACATGAATATGTATTATA
662720 TTATACATGAATATGTATTATA
1 TTATACATGAATATGTATTATA
662742 GGATGAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.41, C:0.02, G:0.11, T:0.45
Consensus pattern (22 bp):
TTATACATGAATATGTATTATA
Found at i:662864 original size:15 final size:15
Alignment explanation
Indices: 662844--662901 Score: 84
Period size: 15 Copynumber: 4.0 Consensus size: 15
662834 AAAAATAAAA
662844 AACATATAATAAATT
1 AACATATAATAAATT
*
662859 AACATATGATAAA--
1 AACATATAATAAATT
*
662872 AACATATGATAAATT
1 AACATATAATAAATT
662887 AACATATAATAAATT
1 AACATATAATAAATT
662902 TAGATTTTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
13 13 0.33
15 26 0.67
ACGTcount: A:0.59, C:0.07, G:0.03, T:0.31
Consensus pattern (15 bp):
AACATATAATAAATT
Found at i:662877 original size:13 final size:14
Alignment explanation
Indices: 662837--662900 Score: 76
Period size: 15 Copynumber: 4.5 Consensus size: 14
662827 ATATTAAAAA
*
662837 AATAAAAAACATAT
1 AATAAATAACATAT
662851 AATAAATTAACATAT
1 AATAAA-TAACATAT
*
662866 GATAAA-AACATAT
1 AATAAATAACATAT
*
662879 GATAAATTAACATAT
1 AATAAA-TAACATAT
662894 AATAAAT
1 AATAAAT
662901 TTAGATTTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
13 13 0.30
14 7 0.16
15 24 0.55
ACGTcount: A:0.62, C:0.06, G:0.03, T:0.28
Consensus pattern (14 bp):
AATAAATAACATAT
Found at i:662877 original size:28 final size:28
Alignment explanation
Indices: 662841--662899 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
662831 TAAAAAAATA
*
662841 AAAAACATATAATAAATTAACATATGAT
1 AAAAACATATAATAAATTAACATATAAT
*
662869 AAAAACATATGATAAATTAACATATAAT
1 AAAAACATATAATAAATTAACATATAAT
662897 AAA
1 AAA
662900 TTTAGATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.63, C:0.07, G:0.03, T:0.27
Consensus pattern (28 bp):
AAAAACATATAATAAATTAACATATAAT
Found at i:663027 original size:56 final size:56
Alignment explanation
Indices: 662941--663047 Score: 187
Period size: 56 Copynumber: 1.9 Consensus size: 56
662931 GTGTGTTTTT
* *
662941 AATAATTAAGAAAGATTATAAATATATATTATTTTATATTAATAAAAGAAACAAAA
1 AATAATTAAGAAAGAATATAAATAGATATTATTTTATATTAATAAAAGAAACAAAA
*
662997 AATAATTAATAAAGAATATAAATAGATATTATTTTATATTAATAAAAGAAA
1 AATAATTAAGAAAGAATATAAATAGATATTATTTTATATTAATAAAAGAAA
663048 TTAAAATAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 48 1.00
ACGTcount: A:0.59, C:0.01, G:0.06, T:0.35
Consensus pattern (56 bp):
AATAATTAAGAAAGAATATAAATAGATATTATTTTATATTAATAAAAGAAACAAAA
Found at i:663064 original size:34 final size:33
Alignment explanation
Indices: 663001--663064 Score: 78
Period size: 34 Copynumber: 1.9 Consensus size: 33
662991 ACAAAAAATA
*
663001 ATTAATAAAGAATATAAATAGATATTATTTTAT
1 ATTAATAAAGAATATAAATAGATAGTATTTTAT
663034 ATTAATAAAAGAA-ATTAAAATA-ATAGTATTT
1 ATTAAT-AAAGAATA-T-AAATAGATAGTATTT
663065 GTAACGGTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
33 7 0.26
34 15 0.56
35 5 0.19
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (33 bp):
ATTAATAAAGAATATAAATAGATAGTATTTTAT
Found at i:669363 original size:12 final size:12
Alignment explanation
Indices: 669343--669374 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
669333 TAGCATTTAC
*
669343 AATAGATCAAAA
1 AATAAATCAAAA
669355 AATAAATCAAAA
1 AATAAATCAAAA
669367 AATAAATC
1 AATAAATC
669375 CGACGAGACC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.69, C:0.09, G:0.03, T:0.19
Consensus pattern (12 bp):
AATAAATCAAAA
Found at i:670350 original size:25 final size:25
Alignment explanation
Indices: 670322--670375 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
670312 TTTTATTTAA
670322 ATTTTAAGAATTAA-ATT-AATAAA-
1 ATTTTAA-AATTAAGATTAAATAAAT
*
670345 ATATTTAAATTTAAGATTAAATAAAT
1 AT-TTTAAAATTAAGATTAAATAAAT
670371 ATTTT
1 ATTTT
670376 TATCTAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
23 7 0.27
24 8 0.31
25 9 0.35
26 2 0.08
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (25 bp):
ATTTTAAAATTAAGATTAAATAAAT
Found at i:670351 original size:24 final size:24
Alignment explanation
Indices: 670319--670374 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
670309 ATATTTTATT
670319 TAAAT-TTTAAGAATTAA-ATT-AA
1 TAAATATTTAA-AATTAAGATTAAA
*
670341 TAAAATATTTAAATTTAAGATTAAA
1 T-AAATATTTAAAATTAAGATTAAA
670366 TAAATATTT
1 TAAATATTT
670375 TTATCTAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
22 1 0.03
23 9 0.31
24 16 0.55
25 3 0.10
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.43
Consensus pattern (24 bp):
TAAATATTTAAAATTAAGATTAAA
Found at i:670391 original size:24 final size:24
Alignment explanation
Indices: 670337--670392 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
670327 AAGAATTAAA
* *
670337 TTAATAAAATATTTAAATTTAAGAT
1 TTAAT-AAATATTTAAATCTAAAAT
* **
670362 TAAATAAATATTTTTATCTAAAAT
1 TTAATAAATATTTAAATCTAAAAT
670386 TTAATAA
1 TTAATAA
670393 TCAAATTAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
24 21 0.84
25 4 0.16
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (24 bp):
TTAATAAATATTTAAATCTAAAAT
Found at i:677033 original size:24 final size:24
Alignment explanation
Indices: 677004--677076 Score: 85
Period size: 24 Copynumber: 3.0 Consensus size: 24
676994 AACGATTCAT
*
677004 CTGGAAGAAAAAGTTATGTCAGCA
1 CTGGAAGAAAAAGTCATGTCAGCA
*
677028 CTGGAAGAAACAGTCATGTCAGCA
1 CTGGAAGAAAAAGTCATGTCAGCA
** *
677052 -TGGGAAGAAGCAGTCATGGCAGCA
1 CT-GGAAGAAAAAGTCATGTCAGCA
677076 C
1 C
677077 AATTACCCTC
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
23 1 0.02
24 42 0.98
ACGTcount: A:0.37, C:0.18, G:0.29, T:0.16
Consensus pattern (24 bp):
CTGGAAGAAAAAGTCATGTCAGCA
Found at i:677831 original size:184 final size:182
Alignment explanation
Indices: 677496--677864 Score: 607
Period size: 184 Copynumber: 2.0 Consensus size: 182
677486 TTCCCAGTAA
*
677496 TTTACAGAGAAAGTGTAAGTATAGAATCCGTTATATAATGTATGTTGTGACCATATGATCCTAGC
1 TTTACAGAGAAAGTGTAAGTATAGAATCCATTATATAATGTATGTTGTGACCATATGATCCTAGC
* *
677561 ATGAACATTGAAAAAATTTGGTAAGATAAATGAGCCAAACTGAATGGTCTGTCTATCAAATATTA
66 ATGAAAATTGAAAAAATTTGGTAAGATAAATGAGCCAAACTGAATGGTCTGTCTATCAAATATCA
*
677626 AGAATGTGTTAACAACAGTTCCTAATCTTTTTGCTTTCATCCCTTGTTTTCT
131 AGAATGTGTTAACAACAGTTCCTAATCTTTTTGCTTTCATCCCTTGCTTTCT
* * *
677678 TTTACAGAGAAAATGTTGTAATTATAGAATCCATTATATAATGTATGTTGTGACCCTGTGATCCT
1 TTTACAGAG-AAA-G-TGTAAGTATAGAATCCATTATATAATGTATGTTGTGACCATATGATCCT
*
677743 ATCATGAAAATTG-AAAAATTCTGG-AAGATAAATGAGCCAAACTGAATGGTCTGTCTATCAAAT
63 AGCATGAAAATTGAAAAAATT-TGGTAAGATAAATGAGCCAAACTGAATGGTCTGTCTATCAAAT
*
677806 ATCAAGAATGTGTTAACAGCAGTTCCTAATCTTTTTGCTTTCATCCCTTGCTTTCT
127 ATCAAGAATGTGTTAACAACAGTTCCTAATCTTTTTGCTTTCATCCCTTGCTTTCT
677862 TTT
1 TTT
677865 TCTTTCTTCT
Statistics
Matches: 174, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
182 9 0.05
183 3 0.02
184 103 0.59
185 59 0.34
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (182 bp):
TTTACAGAGAAAGTGTAAGTATAGAATCCATTATATAATGTATGTTGTGACCATATGATCCTAGC
ATGAAAATTGAAAAAATTTGGTAAGATAAATGAGCCAAACTGAATGGTCTGTCTATCAAATATCA
AGAATGTGTTAACAACAGTTCCTAATCTTTTTGCTTTCATCCCTTGCTTTCT
Found at i:679702 original size:14 final size:14
Alignment explanation
Indices: 679683--679730 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 14
679673 AAATTTTATG
679683 TAATTATTTAAAAA
1 TAATTATTTAAAAA
679697 TAATTATTTAAAAAAA
1 TAATTATTT--AAAAA
679713 TAATATAATTTAAAAA
1 TAAT-T-ATTTAAAAA
679729 TA
1 TA
679731 TAAAATTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
14 9 0.30
16 16 0.53
17 1 0.03
18 4 0.13
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
TAATTATTTAAAAA
Found at i:679725 original size:18 final size:16
Alignment explanation
Indices: 679683--679733 Score: 61
Period size: 18 Copynumber: 3.2 Consensus size: 16
679673 AAATTTTATG
679683 TAATTATTT--AAAAA
1 TAATTATTTAAAAAAA
679697 TAATTATTTAAAAAAA
1 TAATTATTTAAAAAAA
*
679713 TAATATAATTTAAAAATA
1 TAAT-T-ATTTAAAAAAA
679731 TAA
1 TAA
679734 AATTTTTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
14 9 0.28
16 9 0.28
17 1 0.03
18 13 0.41
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
TAATTATTTAAAAAAA
Found at i:679902 original size:4 final size:4
Alignment explanation
Indices: 679888--679919 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
679878 GACTGTTCAA
*
679888 TTAT ATAT TTAT TTAT TTAT TTAT TTAT TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
679920 ATATGCATTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (4 bp):
TTAT
Found at i:680228 original size:21 final size:21
Alignment explanation
Indices: 680204--680261 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
680194 TAACAATAAC
680204 CAAATAATTCGAGGGTATCCA
1 CAAATAATTCGAGGGTATCCA
*
680225 CAAATGTAAATC--GGGTATCCA
1 CAAA--TAATTCGAGGGTATCCA
**
680246 CATCTAATTCGAGGGT
1 CAAATAATTCGAGGGT
680262 CCAAAGCATG
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
19 5 0.17
21 19 0.66
23 5 0.17
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (21 bp):
CAAATAATTCGAGGGTATCCA
Found at i:686811 original size:7 final size:7
Alignment explanation
Indices: 686749--686799 Score: 102
Period size: 7 Copynumber: 7.3 Consensus size: 7
686739 ATAAATTTAA
686749 AAATTTT
1 AAATTTT
686756 AAATTTT
1 AAATTTT
686763 AAATTTT
1 AAATTTT
686770 AAATTTT
1 AAATTTT
686777 AAATTTT
1 AAATTTT
686784 AAATTTT
1 AAATTTT
686791 AAATTTT
1 AAATTTT
686798 AA
1 AA
686800 CTTTAAACTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 44 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (7 bp):
AAATTTT
Found at i:687565 original size:25 final size:25
Alignment explanation
Indices: 687525--687575 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
687515 AATATGGGTT
* *
687525 CATGATTTAGTTAGACACAAATTTA
1 CATGATTTAATGAGACACAAATTTA
*
687550 CATGATTTAATGAGACATAAATTTA
1 CATGATTTAATGAGACACAAATTTA
687575 C
1 C
687576 TTAGAAGTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (25 bp):
CATGATTTAATGAGACACAAATTTA
Found at i:688335 original size:2 final size:2
Alignment explanation
Indices: 688330--688355 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
688320 CCACCAACTA
688330 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
688356 TACGTGACGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:688937 original size:2 final size:2
Alignment explanation
Indices: 688930--688960 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
688920 TTATTACTCT
688930 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
688961 CCAACGTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:689282 original size:61 final size:61
Alignment explanation
Indices: 689207--689329 Score: 237
Period size: 61 Copynumber: 2.0 Consensus size: 61
689197 AACTTTCTTC
*
689207 ATCCCTTCTATTTCTCTTCTATCTTCTTATGTAGATAAAATAGACCGAGAAAAGGTTGTCT
1 ATCCCTTCTATTTCTCTTCTATCTTCTTATGTAGATAAAATAGACCAAGAAAAGGTTGTCT
689268 ATCCCTTCTATTTCTCTTCTATCTTCTTATGTAGATAAAATAGACCAAGAAAAGGTTGTCT
1 ATCCCTTCTATTTCTCTTCTATCTTCTTATGTAGATAAAATAGACCAAGAAAAGGTTGTCT
689329 A
1 A
689330 ATTATTGACG
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (61 bp):
ATCCCTTCTATTTCTCTTCTATCTTCTTATGTAGATAAAATAGACCAAGAAAAGGTTGTCT
Found at i:697814 original size:111 final size:111
Alignment explanation
Indices: 697667--697891 Score: 441
Period size: 111 Copynumber: 2.0 Consensus size: 111
697657 ATCATCTCTC
697667 TAAAGTTTATGCATAATTTTGATATTTTTATTGTAAGATTATTATTATTTTTTATATAATGAAAT
1 TAAAGTTTATGCATAATTTTGATATTTTTATTGTAAGATTATTATTATTTTTTATATAATGAAAT
697732 TTTGAATCATATTATTTATATTAATATTTAATTCTTTGATTAAGTT
66 TTTGAATCATATTATTTATATTAATATTTAATTCTTTGATTAAGTT
*
697778 TAAAGTTTATGCATAATTTTGATATTTTTATTGTAAGATTCTTATTATTTTTTATATAATGAAAT
1 TAAAGTTTATGCATAATTTTGATATTTTTATTGTAAGATTATTATTATTTTTTATATAATGAAAT
697843 TTTGAATCATATTATTTATATTAATATTTAATTCTTTGATTAAGTT
66 TTTGAATCATATTATTTATATTAATATTTAATTCTTTGATTAAGTT
697889 TAA
1 TAA
697892 CATCAACGAT
Statistics
Matches: 113, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
111 113 1.00
ACGTcount: A:0.34, C:0.03, G:0.08, T:0.55
Consensus pattern (111 bp):
TAAAGTTTATGCATAATTTTGATATTTTTATTGTAAGATTATTATTATTTTTTATATAATGAAAT
TTTGAATCATATTATTTATATTAATATTTAATTCTTTGATTAAGTT
Found at i:697934 original size:111 final size:111
Alignment explanation
Indices: 697700--697935 Score: 273
Period size: 111 Copynumber: 2.1 Consensus size: 111
697690 ATTTTTATTG
*
697700 TAAGATTATTATTATTTTTTATATAATGAAATTTTGAATCATATTATTTATATTAATATTTAATT
1 TAAGATAATTATTATTTTTTATATAATGAAATTTTGAATCATATTATTTATATTAATATTTAATT
** * * * ** ***
697765 CTTTGATTAAGTTTAAAGTTTATGCATAATTTTGATATTTTTATTG
66 CTTTGATTAAGTTTAAAGTCAACGCATAATTTAGACATAGTTACCC
**
697811 TAAGATTCTTATTATTTTTTATATAATGAAATTTTGAATCATATTATTTATATTAATATTTAATT
1 TAAGATAATTATTATTTTTTATATAATGAAATTTTGAATCATATTATTTATATTAATATTTAATT
* *
697876 CTTTGATTAAGTTTAACA-TCAACG-ATTGA-TTAGACATCAGTTCCCC
66 CTTTGATTAAGTTTAA-AGTCAACGCA-TAATTTAGACAT-AGTTACCC
697922 TAAAGA-AATTATTA
1 T-AAGATAATTATTA
697936 AATTATTCTT
Statistics
Matches: 106, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
110 7 0.07
111 94 0.89
112 5 0.05
ACGTcount: A:0.36, C:0.06, G:0.08, T:0.50
Consensus pattern (111 bp):
TAAGATAATTATTATTTTTTATATAATGAAATTTTGAATCATATTATTTATATTAATATTTAATT
CTTTGATTAAGTTTAAAGTCAACGCATAATTTAGACATAGTTACCC
Found at i:698600 original size:21 final size:21
Alignment explanation
Indices: 698584--698637 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
698574 GCGTTGCATT
698584 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
698605 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
*
698626 CCGCGTTGCGAT
1 TCGCGTTGCGAT
698638 TTTCCATTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.28
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:698694 original size:19 final size:19
Alignment explanation
Indices: 698670--698736 Score: 125
Period size: 19 Copynumber: 3.5 Consensus size: 19
698660 TCTACAGTTG
698670 TCGTTGCGATTTTCCAAAT
1 TCGTTGCGATTTTCCAAAT
698689 TCGTTGCGATTTTCCAAAT
1 TCGTTGCGATTTTCCAAAT
*
698708 TCGTTGCGATTTTTCAAAT
1 TCGTTGCGATTTTCCAAAT
698727 TCGTTGCGAT
1 TCGTTGCGAT
698737 AGCGAAAATT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 47 1.00
ACGTcount: A:0.19, C:0.19, G:0.18, T:0.43
Consensus pattern (19 bp):
TCGTTGCGATTTTCCAAAT
Found at i:698746 original size:38 final size:38
Alignment explanation
Indices: 698670--698751 Score: 112
Period size: 38 Copynumber: 2.2 Consensus size: 38
698660 TCTACAGTTG
** *
698670 TCGTTGCGATTTTCCAAATTCGTTGCGATTTTCCAAAT
1 TCGTTGCGATTTTCCAAATTCGTTGCGATTAGCAAAAT
*
698708 TCGTTGCGATTTTTCAAATTCGTTGCGA-TAGCGAAAAT
1 TCGTTGCGATTTTCCAAATTCGTTGCGATTAGC-AAAAT
698746 TCGTTG
1 TCGTTG
698752 TGATAGTAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
37 2 0.05
38 37 0.95
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.40
Consensus pattern (38 bp):
TCGTTGCGATTTTCCAAATTCGTTGCGATTAGCAAAAT
Found at i:698763 original size:19 final size:19
Alignment explanation
Indices: 698723--698763 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
698713 GCGATTTTTC
*
698723 AAATTCGTTGCGATAGCGA
1 AAATTCGTTGCGATAGCAA
* *
698742 AAATTCGTTGTGATAGTAA
1 AAATTCGTTGCGATAGCAA
698761 AAA
1 AAA
698764 AAAAAGATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.39, C:0.10, G:0.22, T:0.29
Consensus pattern (19 bp):
AAATTCGTTGCGATAGCAA
Found at i:698847 original size:6 final size:6
Alignment explanation
Indices: 698836--698874 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
698826 GACACGTATT
698836 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
698875 CGAGACGAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.33, C:0.51, G:0.15, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:699397 original size:6 final size:6
Alignment explanation
Indices: 699386--699425 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
699376 TCCCGTCTCG
699386 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTC
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTC
699426 ATACGTGTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.00, C:0.17, G:0.50, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:699548 original size:22 final size:22
Alignment explanation
Indices: 699523--699573 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
699513 AATTTGGAAA
699523 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
*
699545 ATCGCAACGACAATTGTAGACT
1 ATCGCAACGACAACTGTAGACT
699567 ATCGCAA
1 ATCGCAA
699574 TGCGAAATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:699613 original size:41 final size:41
Alignment explanation
Indices: 699564--699783 Score: 395
Period size: 41 Copynumber: 5.4 Consensus size: 41
699554 ACAATTGTAG
*
699564 ACTATCGCAATGCGAAATGGAAAATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
*
699605 ACTATCGCAACGCGAAATAGAAAATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
*
699646 ACTATCGCAACGCGAAATGGAAAAGCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
* *
699687 ACTATCGCAACGCGAAATGAAAAAGCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
699728 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
699769 ACTATCGCAACGCGA
1 ACTATCGCAACGCGA
699784 TTTTCAATTA
Statistics
Matches: 172, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 172 1.00
ACGTcount: A:0.37, C:0.25, G:0.20, T:0.19
Consensus pattern (41 bp):
ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
Found at i:699839 original size:123 final size:122
Alignment explanation
Indices: 699576--699812 Score: 330
Period size: 123 Copynumber: 1.9 Consensus size: 122
699566 TATCGCAATG
*
699576 CGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATAGAAAATCGCAACGCGAT
1 CGAAATGAAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATAGAAAATCGCAACGCGAT
* ** * * *
699641 TTTCAACTATCGCAACGCGAAATGGAAAAGCGCAACGCGATTTTCAACTATCGCAACG
66 TTTCAACTATCGCAACGCGAAATGCAAAAGCGCAACGCGAAATGCAAC-AGCGCAACA
* *
699699 CGAAATGAAAAAGCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAAATCGCAACGCGAT
1 CGAAATGAAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATAGAAAATCGCAACGCGAT
** * * *
699764 TTTCAACTATCGCAACGCGATTTTCAATTATCGCAACGCGAAATGCAAC
66 TTTCAACTATCGCAACGCGAAATGCAA-AAGCGCAACGCGAAATGCAAC
699813 GCGAATTTAC
Statistics
Matches: 101, Mismatches: 12, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
123 85 0.84
124 16 0.16
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.19
Consensus pattern (122 bp):
CGAAATGAAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATAGAAAATCGCAACGCGAT
TTTCAACTATCGCAACGCGAAATGCAAAAGCGCAACGCGAAATGCAACAGCGCAACA
Found at i:701440 original size:21 final size:23
Alignment explanation
Indices: 701400--701463 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 23
701390 CATGATAGTT
* **
701400 CATGATACTGATGTTACAG-TC-
1 CATGATAATGATGTGGCAGTTCA
*
701421 CATGATATTGATGTGGCAGTTCA
1 CATGATAATGATGTGGCAGTTCA
701444 CGATGACTAATGATGTGGCA
1 C-ATGA-TAATGATGTGGCA
701464 AATGCCATGG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
21 16 0.46
22 2 0.06
23 1 0.03
24 4 0.11
25 12 0.34
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (23 bp):
CATGATAATGATGTGGCAGTTCA
Found at i:701588 original size:24 final size:24
Alignment explanation
Indices: 701568--701613 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
701558 AAGTTATTTT
701568 AAATTGTAAATATAAAATTATTCA
1 AAATTGTAAATATAAAATTATTCA
* *
701592 AAATTTTAAATATAAAAATATT
1 AAATTGTAAATATAAAATTATT
701614 AAGAATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (24 bp):
AAATTGTAAATATAAAATTATTCA
Found at i:701999 original size:25 final size:25
Alignment explanation
Indices: 701966--702031 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
701956 AGAAAACATA
* *
701966 GTAACTTTCAATTAATTCAAAATTT
1 GTAAGTTTCGATTAATTCAAAATTT
* * *
701991 GTAAGTTTCGCTTAATTTAAATTTT
1 GTAAGTTTCGATTAATTCAAAATTT
702016 GTAAGTTTCGATTAAT
1 GTAAGTTTCGATTAAT
702032 CCAATAAGAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.33, C:0.09, G:0.11, T:0.47
Consensus pattern (25 bp):
GTAAGTTTCGATTAATTCAAAATTT
Found at i:703232 original size:85 final size:85
Alignment explanation
Indices: 703089--703258 Score: 313
Period size: 85 Copynumber: 2.0 Consensus size: 85
703079 TAATTAATTA
* *
703089 AAAATGTTAAAGTTTTAGCGTAGTTCACATGATATCTTACATGACAATTTATTTGTTCATGTAAT
1 AAAATGTTAAAGTTTTAACGTAATTCACATGATATCTTACATGACAATTTATTTGTTCATGTAAT
703154 TTTATTTTATTTTTATATTT
66 TTTATTTTATTTTTATATTT
*
703174 AAAATGTTAAAGTTTTAATGTAATTCACATGATATCTTACATGACAATTTATTTGTTCATGTAAT
1 AAAATGTTAAAGTTTTAACGTAATTCACATGATATCTTACATGACAATTTATTTGTTCATGTAAT
703239 TTTATTTTATTTTTATATTT
66 TTTATTTTATTTTTATATTT
703259 TTATAATTTT
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 82 1.00
ACGTcount: A:0.32, C:0.08, G:0.09, T:0.51
Consensus pattern (85 bp):
AAAATGTTAAAGTTTTAACGTAATTCACATGATATCTTACATGACAATTTATTTGTTCATGTAAT
TTTATTTTATTTTTATATTT
Found at i:707042 original size:32 final size:33
Alignment explanation
Indices: 707001--707067 Score: 100
Period size: 32 Copynumber: 2.1 Consensus size: 33
706991 GAATAAGAGT
* * *
707001 TGGTGTAGCTGAAGTTGGTGTGTTGCGTG-AGC
1 TGGTGTAGCTGAAGGTGGTATGTTGCATGTAGC
707033 TGGTGTAGCTGAAGGTGGTATGTTGCATGTAGC
1 TGGTGTAGCTGAAGGTGGTATGTTGCATGTAGC
707066 TG
1 TG
707068 AAGGTGGTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
32 26 0.84
33 5 0.16
ACGTcount: A:0.15, C:0.09, G:0.42, T:0.34
Consensus pattern (33 bp):
TGGTGTAGCTGAAGGTGGTATGTTGCATGTAGC
Found at i:710192 original size:2 final size:2
Alignment explanation
Indices: 710187--710233 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
710177 TTAAAATTTA
710187 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
710229 AT AT A
1 AT AT A
710234 ACTGATGGAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:713259 original size:3 final size:3
Alignment explanation
Indices: 713251--713317 Score: 127
Period size: 3 Copynumber: 22.7 Consensus size: 3
713241 AAAGGGTAGA
713251 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
713299 AAG AAG AAG AAG AA- AAG AA
1 AAG AAG AAG AAG AAG AAG AA
713318 ACATAGTGTC
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 61 0.97
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:713891 original size:29 final size:29
Alignment explanation
Indices: 713848--713930 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
713838 CTCACCTAAC
713848 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
713878 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
713907 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
713931 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:718661 original size:29 final size:29
Alignment explanation
Indices: 718618--718700 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
718608 CTCACCTAAC
718618 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
718648 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
718677 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
718701 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:722836 original size:29 final size:29
Alignment explanation
Indices: 722803--722914 Score: 143
Period size: 29 Copynumber: 3.9 Consensus size: 29
722793 AAAATAGAAC
* *
722803 GGGGATAAAATATCATGCAGAATCAGGAT
1 GGGGATACAATCTCATGCAGAATCAGGAT
* * *
722832 GGGGATACAATCTCATGCAAAATTAGGAC
1 GGGGATACAATCTCATGCAGAATCAGGAT
* *
722861 GGGGATACAATCCCATGTAGAATCAGGAT
1 GGGGATACAATCTCATGCAGAATCAGGAT
* *
722890 GGGGATATAATCTCATGCATAATCA
1 GGGGATACAATCTCATGCAGAATCA
722915 TAACGGGGAT
Statistics
Matches: 69, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 69 1.00
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (29 bp):
GGGGATACAATCTCATGCAGAATCAGGAT
Found at i:722921 original size:58 final size:58
Alignment explanation
Indices: 722793--722924 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
722783 ATCCCATGTA
*
722793 AAAAT-AGAACGGGGATAAAATATCATGCAGAATCAGGATGGGGATACAATCTCATGC
1 AAAATCAGAACGGGGATAAAATACCATGCAGAATCAGGATGGGGATACAATCTCATGC
* * * * * *
722850 AAAATTAGGACGGGGATACAATCCCATGTAGAATCAGGATGGGGATATAATCTCATGC
1 AAAATCAGAACGGGGATAAAATACCATGCAGAATCAGGATGGGGATACAATCTCATGC
* *
722908 ATAATCATAACGGGGAT
1 AAAATCAGAACGGGGAT
722925 TATGCCCTCC
Statistics
Matches: 64, Mismatches: 10, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
57 5 0.08
58 59 0.92
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.21
Consensus pattern (58 bp):
AAAATCAGAACGGGGATAAAATACCATGCAGAATCAGGATGGGGATACAATCTCATGC
Found at i:725149 original size:20 final size:20
Alignment explanation
Indices: 725126--725173 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
725116 GTCTTTAGAA
*
725126 AAAGTCAATGTGTCAA-AGTC
1 AAAGTCAAT-AGTCAACAGTC
* *
725146 AAAGTCGATAGTCAACGGTC
1 AAAGTCAATAGTCAACAGTC
725166 AAAGTCAA
1 AAAGTCAA
725174 CAGTATATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.42, C:0.17, G:0.21, T:0.21
Consensus pattern (20 bp):
AAAGTCAATAGTCAACAGTC
Found at i:726905 original size:13 final size:13
Alignment explanation
Indices: 726865--726947 Score: 72
Period size: 13 Copynumber: 6.8 Consensus size: 13
726855 ACAATCTGTC
726865 CATCACCAT-TAT
1 CATCACCATATAT
*
726877 CA-CGCC-TATAT
1 CATCACCATATAT
*
726888 CATCACCATATTT
1 CATCACCATATAT
726901 CATCACCAT-TAT
1 CATCACCATATAT
*
726913 CA-CGCC-TATAT
1 CATCACCATATAT
*
726924 CATCACCATAGT-C
1 CATCACCATA-TAT
726937 CATCACCATAT
1 CATCACCATAT
726948 CACGTCTATA
Statistics
Matches: 57, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
10 2 0.04
11 16 0.28
12 13 0.23
13 25 0.44
14 1 0.02
ACGTcount: A:0.31, C:0.35, G:0.04, T:0.30
Consensus pattern (13 bp):
CATCACCATATAT
Found at i:726912 original size:36 final size:36
Alignment explanation
Indices: 726862--726966 Score: 167
Period size: 36 Copynumber: 2.9 Consensus size: 36
726852 GATACAATCT
726862 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
* *
726898 TTTCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
* *
726934 GTCCATCACCA-TATCACGTCTATATTATCACCA
1 GTCCATCACCATTATCACGCCTATATCATCACCA
726967 ACTTCTAAAT
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
35 20 0.32
36 43 0.68
ACGTcount: A:0.30, C:0.34, G:0.05, T:0.30
Consensus pattern (36 bp):
GTCCATCACCATTATCACGCCTATATCATCACCATA
Found at i:732611 original size:13 final size:12
Alignment explanation
Indices: 732592--732671 Score: 55
Period size: 13 Copynumber: 6.8 Consensus size: 12
732582 CACGCCTATA
732592 TCATCACCATAT
1 TCATCACCATAT
732604 TCCATCACC--AT
1 T-CATCACCATAT
*
732615 T-ATCACGCCTAT
1 TCATCAC-CATAT
732627 ATCATCACCATAGT
1 -TCATCACCATA-T
*
732641 CCATCACCATA-
1 TCATCACCATAT
732652 TCA-CACCTATAT
1 TCATCACC-ATAT
732664 T-ATCACCA
1 TCATCACCA
732672 ACTTCTAAAT
Statistics
Matches: 55, Mismatches: 3, Indels: 21
0.70 0.04 0.27
Matches are distributed among these distances:
9 5 0.09
10 5 0.09
11 10 0.18
12 8 0.15
13 21 0.38
14 6 0.11
ACGTcount: A:0.33, C:0.36, G:0.03, T:0.29
Consensus pattern (12 bp):
TCATCACCATAT
Found at i:732615 original size:36 final size:36
Alignment explanation
Indices: 732567--732671 Score: 167
Period size: 36 Copynumber: 2.9 Consensus size: 36
732557 GATACAATCT
*
732567 GTCCATCGCCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
*
732603 TTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
* *
732639 GTCCATCACCA-TATCACACCTATATTATCACCA
1 GTCCATCACCATTATCACGCCTATATCATCACCA
732672 ACTTCTAAAT
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
35 20 0.31
36 44 0.69
ACGTcount: A:0.30, C:0.36, G:0.05, T:0.29
Consensus pattern (36 bp):
GTCCATCACCATTATCACGCCTATATCATCACCATA
Found at i:738980 original size:13 final size:13
Alignment explanation
Indices: 738937--739028 Score: 71
Period size: 13 Copynumber: 6.8 Consensus size: 13
738927 TATTTTAGTC
* *
738937 TTATTATTTTAAA
1 TTATAATTTTAAT
*
738950 TT-TAATTGTAACT
1 TTATAATTTTAA-T
738963 TTATAATTTTAAT
1 TTATAATTTTAAT
*
738976 TTATATTTTTATAT
1 TTATAATTTTA-AT
*
738990 TT-TATTTTTAGAT
1 TTATAATTTTA-AT
*
739003 TATATAATTTGAAT
1 T-TATAATTTTAAT
739017 TTATAAATTTTA
1 TTAT-AATTTTA
739029 TGTTTATGTT
Statistics
Matches: 64, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
12 7 0.11
13 29 0.45
14 22 0.34
15 6 0.09
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (13 bp):
TTATAATTTTAAT
Found at i:741465 original size:6 final size:6
Alignment explanation
Indices: 741438--741471 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
741428 AGTTTCATGT
*
741438 ATTTAA AGTTTAA ATTTGA ATTTAA ATTTAA ATT
1 ATTTAA A-TTTAA ATTTAA ATTTAA ATTTAA ATT
741472 GAGTTTATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (6 bp):
ATTTAA
Found at i:742382 original size:14 final size:14
Alignment explanation
Indices: 742359--742389 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
742349 ATTATTTAAA
742359 TTATTAGAATTTAT
1 TTATTAGAATTTAT
*
742373 TTATTTGAATTTAT
1 TTATTAGAATTTAT
742387 TTA
1 TTA
742390 AATAATTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.61
Consensus pattern (14 bp):
TTATTAGAATTTAT
Found at i:744334 original size:6 final size:6
Alignment explanation
Indices: 744311--744393 Score: 51
Period size: 6 Copynumber: 13.8 Consensus size: 6
744301 TGACAATGAG
* * * * * *
744311 GAGGAG GAGGAG GAGGAT GAGGAT GATGG-T GATGAT GACGAC GAAGAT
1 GAGGAT GAGGAT GAGGAT GAGGAT GA-GGAT GAGGAT GAGGAT GAGGAT
* * * * *
744359 GAGGAT GAGGTT GAAGAT GATGAG GACGAT GAGGA
1 GAGGAT GAGGAT GAGGAT GAGGAT GAGGAT GAGGA
744394 GAAGTATACA
Statistics
Matches: 60, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
5 1 0.02
6 57 0.95
7 2 0.03
ACGTcount: A:0.34, C:0.04, G:0.47, T:0.16
Consensus pattern (6 bp):
GAGGAT
Found at i:744362 original size:30 final size:30
Alignment explanation
Indices: 744326--744393 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
744316 GGAGGAGGAG
*
744326 GATGAGGATGATGG-TGATGATGACGACGAA
1 GATGAGGATGA-GGTTGAAGATGACGACGAA
* * *
744356 GATGAGGATGAGGTTGAAGATGATGAGGAC
1 GATGAGGATGAGGTTGAAGATGACGACGAA
744386 GATGAGGA
1 GATGAGGA
744394 GAAGTATACA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 2 0.06
30 31 0.94
ACGTcount: A:0.34, C:0.04, G:0.43, T:0.19
Consensus pattern (30 bp):
GATGAGGATGAGGTTGAAGATGACGACGAA
Found at i:747138 original size:60 final size:60
Alignment explanation
Indices: 747025--747140 Score: 142
Period size: 60 Copynumber: 1.9 Consensus size: 60
747015 CATCAAGTTT
*** * *
747025 TAGGGGGAGACATTCATCTATCACTTTTTTCGACATCAATATAGAGATGTCTTCCATTTC
1 TAGGGGGAGACATTCATCTATCACTACCTTCGACATCAATATAGAAATATCTTCCATTTC
* * * * *
747085 TAGGGGGAGACATTCATCTGTCAGTACCTTCGACCTCGATATGGAAATATCTTCCA
1 TAGGGGGAGACATTCATCTATCACTACCTTCGACATCAATATAGAAATATCTTCCA
747141 CACAACACTT
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
60 46 1.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.33
Consensus pattern (60 bp):
TAGGGGGAGACATTCATCTATCACTACCTTCGACATCAATATAGAAATATCTTCCATTTC
Found at i:748385 original size:21 final size:24
Alignment explanation
Indices: 748359--748414 Score: 73
Period size: 21 Copynumber: 2.5 Consensus size: 24
748349 TAAAACACTA
748359 AAAACCCTAAAACCA-ATT-ACG-
1 AAAACCCTAAAACCACATTAACGT
* *
748380 AAAACCCTAAAATCACTTTAACGT
1 AAAACCCTAAAACCACATTAACGT
748404 AAAACCCTAAA
1 AAAACCCTAAA
748415 CATAAAACCA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 14 0.47
22 2 0.07
23 3 0.10
24 11 0.37
ACGTcount: A:0.52, C:0.27, G:0.04, T:0.18
Consensus pattern (24 bp):
AAAACCCTAAAACCACATTAACGT
Found at i:748841 original size:29 final size:28
Alignment explanation
Indices: 748809--748864 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
748799 TGTAATTGAA
*
748809 TTAATTTTATTAT-TATAAAATTATTATTG
1 TTAAATTT-TTATATATAAAATT-TTATTG
*
748838 TTAAATTTTTATATATAATATTTTATT
1 TTAAATTTTTATATATAAAATTTTATT
748865 TTTATAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 9 0.38
29 15 0.62
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (28 bp):
TTAAATTTTTATATATAAAATTTTATTG
Found at i:750245 original size:28 final size:27
Alignment explanation
Indices: 750204--750262 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 27
750194 CTAGTAAATT
* *
750204 TTTATTTCCGCTTATAATCTTACATTCC
1 TTTATTTCCACTTATAATCTTAC-TTCA
*
750232 TTTATTTTCACTTATAATCTTACTTCA
1 TTTATTTCCACTTATAATCTTACTTCA
750259 TTTA
1 TTTA
750263 ATCAAAGGCT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 7 0.25
28 21 0.75
ACGTcount: A:0.24, C:0.20, G:0.02, T:0.54
Consensus pattern (27 bp):
TTTATTTCCACTTATAATCTTACTTCA
Found at i:752887 original size:23 final size:23
Alignment explanation
Indices: 752844--752889 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
752834 AAATGAAACT
* *
752844 AAATATTAAATATATTTTTAAAA
1 AAATATTAAATATAATATTAAAA
752867 AAATA-TAAATATAAATATTAAAA
1 AAATATTAAATAT-AATATTAAAA
752890 CAGGCTCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (23 bp):
AAATATTAAATATAATATTAAAA
Found at i:769850 original size:3 final size:3
Alignment explanation
Indices: 769838--769883 Score: 71
Period size: 3 Copynumber: 16.3 Consensus size: 3
769828 CCCAACCCCC
769838 ATA A-A ATA ATA ATA ATA ATA ATA ATA AT- ATA ATA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
769883 A
1 A
769884 AGTTTAGGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
2 6 0.15
3 34 0.85
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:769869 original size:14 final size:14
Alignment explanation
Indices: 769838--769883 Score: 67
Period size: 14 Copynumber: 3.3 Consensus size: 14
769828 CCCAACCCCC
769838 ATAA-AATAATAAT
1 ATAATAATAATAAT
769851 AATAATAATAATAAT
1 -ATAATAATAATAAT
*
769866 ATAATAATAATAAA
1 ATAATAATAATAAT
769880 ATAA
1 ATAA
769884 AGTTTAGGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
14 21 0.70
15 9 0.30
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
ATAATAATAATAAT
Found at i:771884 original size:24 final size:24
Alignment explanation
Indices: 771851--771933 Score: 157
Period size: 24 Copynumber: 3.5 Consensus size: 24
771841 TTGTTCATAT
*
771851 GGTATTGATACCAAAGGTAAGGGA
1 GGTATCGATACCAAAGGTAAGGGA
771875 GGTATCGATACCAAAGGTAAGGGA
1 GGTATCGATACCAAAGGTAAGGGA
771899 GGTATCGATACCAAAGGTAAGGGA
1 GGTATCGATACCAAAGGTAAGGGA
771923 GGTATCGATAC
1 GGTATCGATAC
771934 TCACTCGGTA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 58 1.00
ACGTcount: A:0.36, C:0.12, G:0.33, T:0.19
Consensus pattern (24 bp):
GGTATCGATACCAAAGGTAAGGGA
Found at i:775047 original size:23 final size:23
Alignment explanation
Indices: 775015--775080 Score: 96
Period size: 23 Copynumber: 2.8 Consensus size: 23
775005 GAAGTGCCAC
* *
775015 ATAGAATTTGTCTCGAATGACCAT
1 ATAG-ATTTGTCCCGAAGGACCAT
*
775039 ATAGGTTTGTCCCGAAGGACCAT
1 ATAGATTTGTCCCGAAGGACCAT
775062 ATAGATTTGTCCCGAAGGA
1 ATAGATTTGTCCCGAAGGA
775081 TCCCATAGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
23 34 0.89
24 4 0.11
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (23 bp):
ATAGATTTGTCCCGAAGGACCAT
Found at i:775088 original size:23 final size:23
Alignment explanation
Indices: 775011--775089 Score: 88
Period size: 23 Copynumber: 3.4 Consensus size: 23
775001 CACTGAAGTG
* *
775011 CCACATAGAATTTGTCTCGAATGA
1 CCACATAG-ATTTGTCCCGAAGGA
* *
775035 CCATATAGGTTTGTCCCGAAGGA
1 CCACATAGATTTGTCCCGAAGGA
*
775058 CCATATAGATTTGTCCCGAAGGA
1 CCACATAGATTTGTCCCGAAGGA
775081 TCC-CATAGA
1 -CCACATAGA
775090 ACCCTCGACT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
23 39 0.81
24 9 0.19
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (23 bp):
CCACATAGATTTGTCCCGAAGGA
Found at i:777274 original size:39 final size:38
Alignment explanation
Indices: 777221--777295 Score: 100
Period size: 39 Copynumber: 1.9 Consensus size: 38
777211 TATATTATTC
*
777221 TTATGTGTGCATGAA-TACATGAAATCATGC-ATATGTTA
1 TTATATGTGCATGAACTACATG-AAT-ATGCAATATGTTA
777259 TTATATGTGACATGAACTACATGAATATGCAATATGT
1 TTATATGTG-CATGAACTACATGAATATGCAATATGT
777296 GATACATGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
38 12 0.36
39 15 0.45
40 6 0.18
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (38 bp):
TTATATGTGCATGAACTACATGAATATGCAATATGTTA
Found at i:777384 original size:31 final size:31
Alignment explanation
Indices: 777344--777435 Score: 139
Period size: 31 Copynumber: 3.0 Consensus size: 31
777334 TAGTCGAGGG
* *
777344 TTACTTATGTTCTTCGGGACATATAGACTGA
1 TTACCTATGTTCTTCGGGACATATGGACTGA
*
777375 TTACCTATGTTCTTCAGGACATATGGACTGA
1 TTACCTATGTTCTTCGGGACATATGGACTGA
* *
777406 TTACCTATATTCTTCGGAACATATGGACTG
1 TTACCTATGTTCTTCGGGACATATGGACTG
777436 GTCCTTCGGG
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 55 1.00
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.37
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGACTGA
Found at i:778002 original size:22 final size:22
Alignment explanation
Indices: 777956--778015 Score: 81
Period size: 22 Copynumber: 2.8 Consensus size: 22
777946 GAAATTACTA
777956 TAGCAGGGTATC-AGTACACTG
1 TAGCAGGGTATCGAGTACACTG
*
777977 TAGCAGGGTATCGA-TACCCCTG
1 TAGCAGGGTATCGAGTA-CACTG
777999 TAGCAGGGTATCG-GTAC
1 TAGCAGGGTATCGAGTAC
778016 TATTATTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
21 15 0.43
22 20 0.57
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.23
Consensus pattern (22 bp):
TAGCAGGGTATCGAGTACACTG
Found at i:780205 original size:31 final size:31
Alignment explanation
Indices: 780167--780227 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
780157 GAGTCGAGGG
* *
780167 TTACCTATGTTCTTCGGGACATATGGACTGA
1 TTACCTATATTCTTCGGAACATATGGACTGA
*
780198 TTACCTATATTCTTCTGAACATATGGACTG
1 TTACCTATATTCTTCGGAACATATGGACTG
780228 GTACTTCGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.38
Consensus pattern (31 bp):
TTACCTATATTCTTCGGAACATATGGACTGA
Found at i:780869 original size:20 final size:19
Alignment explanation
Indices: 780836--780885 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 19
780826 CTGTTCACGT
* * *
780836 TACTATTTACACAGCATTG
1 TACTATTCATACAGCATAG
*
780855 ATACTATTCATACAGTATAG
1 -TACTATTCATACAGCATAG
780875 TACTATTCATA
1 TACTATTCATA
780886 AAAACATTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 11 0.42
20 15 0.58
ACGTcount: A:0.36, C:0.18, G:0.08, T:0.38
Consensus pattern (19 bp):
TACTATTCATACAGCATAG
Found at i:781337 original size:18 final size:18
Alignment explanation
Indices: 781310--781355 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
781300 CTCCTCAATC
781310 CTTT-AGCTTCTAATTAT
1 CTTTAAGCTTCTAATTAT
*
781327 CTTTAAGCTTCTAATTGT
1 CTTTAAGCTTCTAATTAT
781345 CTTTAAGCTTC
1 CTTTAAGCTTC
781356 CTTAAGTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
17 4 0.15
18 23 0.85
ACGTcount: A:0.22, C:0.20, G:0.09, T:0.50
Consensus pattern (18 bp):
CTTTAAGCTTCTAATTAT
Found at i:784797 original size:17 final size:20
Alignment explanation
Indices: 784775--784814 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
784765 CCAAAATATA
784775 ATTTTA-AT-AAAAT-AATT
1 ATTTTACATAAAAATAAATT
784792 ATTTTACATAAAAATAAATT
1 ATTTTACATAAAAATAAATT
784812 ATT
1 ATT
784815 AATATAATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 6 0.30
18 2 0.10
19 5 0.25
20 7 0.35
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (20 bp):
ATTTTACATAAAAATAAATT
Found at i:784935 original size:19 final size:19
Alignment explanation
Indices: 784908--784949 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
784898 GAATAAAATA
784908 ATTTG-AAAATATATATTTT
1 ATTTGAAAAATATAT-TTTT
* *
784927 ATTTTAAAAATTTATTTTT
1 ATTTGAAAAATATATTTTT
784946 ATTT
1 ATTT
784950 ACATCTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
ATTTGAAAAATATATTTTT
Found at i:784950 original size:18 final size:19
Alignment explanation
Indices: 784908--784950 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
784898 GAATAAAATA
*
784908 ATTTGAAAATATATATTTT
1 ATTTAAAAATATATATTTT
*
784927 ATTTTAAAAATTTAT-TTTT
1 A-TTTAAAAATATATATTTT
784946 ATTTA
1 ATTTA
784951 CATCTAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 4 0.19
19 6 0.29
20 11 0.52
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (19 bp):
ATTTAAAAATATATATTTT
Found at i:785390 original size:2 final size:2
Alignment explanation
Indices: 785383--785407 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
785373 CCGATAATTT
785383 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
785408 TAGTTTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:785690 original size:2 final size:2
Alignment explanation
Indices: 785683--785732 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
785673 GTGATATTAC
785683 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
785725 AT AT AT AT
1 AT AT AT AT
785733 GAATCAGGTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:786805 original size:21 final size:21
Alignment explanation
Indices: 786781--786846 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
786771 TCGAGGGTTC
* *
786781 TATGTGGTTCTTAGGGATATA
1 TATGTGGTTCTTAGGAACATA
** * *
786802 TATGTAATCCTTTGGAACATA
1 TATGTGGTTCTTAGGAACATA
786823 TATGTGGTTCTTCAGGACACATA
1 TATGTGGTTCTT-AGGA-ACATA
786846 T
1 T
786847 TTGGTCCTTT
Statistics
Matches: 33, Mismatches: 10, Indels: 2
0.73 0.22 0.04
Matches are distributed among these distances:
21 24 0.73
22 3 0.09
23 6 0.18
ACGTcount: A:0.27, C:0.12, G:0.21, T:0.39
Consensus pattern (21 bp):
TATGTGGTTCTTAGGAACATA
Found at i:786903 original size:35 final size:35
Alignment explanation
Indices: 786850--786916 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 35
786840 CACATATTTG
*
786850 GTCCTTTGGAATAAATATGTGATCCTTAAGGAGTA
1 GTCCTTCGGAATAAATATGTGATCCTTAAGGAGTA
* * * *
786885 GTCCTTCGGGATATATATGTGGTCCTTCAGGA
1 GTCCTTCGGAATAAATATGTGATCCTTAAGGA
786917 CAAATTCTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 27 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.34
Consensus pattern (35 bp):
GTCCTTCGGAATAAATATGTGATCCTTAAGGAGTA
Found at i:788119 original size:26 final size:27
Alignment explanation
Indices: 788090--788158 Score: 85
Period size: 25 Copynumber: 2.7 Consensus size: 27
788080 TTCATAACAT
788090 TTTTTTATATATTAACTTAAAC-AATA
1 TTTTTTATATATTAACTTAAACAAATA
*
788116 -TTTTT-TATATTAACTT-ATCAAATA
1 TTTTTTATATATTAACTTAAACAAATA
*
788140 TATTTTAT-TATTAACTTAA
1 TTTTTTATATATTAACTTAA
788159 TTTAAAATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
23 2 0.05
24 15 0.41
25 18 0.49
26 2 0.05
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (27 bp):
TTTTTTATATATTAACTTAAACAAATA
Found at i:788168 original size:26 final size:25
Alignment explanation
Indices: 788092--788177 Score: 90
Period size: 26 Copynumber: 3.4 Consensus size: 25
788082 CATAACATTT
*
788092 TTTTATATATTAACTTAA-ACAATA
1 TTTTATATATTAACTTAATAAAATA
*
788116 TTTTTTATATTAACTT-ATCAAATATA
1 TTTTATATATTAACTTAAT-AAA-ATA
788142 TTTTAT-TATTAACTTAATTTAAAATA
1 TTTTATATATTAACTTAA--TAAAATA
788168 TTTTAT-TATT
1 TTTTATATATT
788178 TTCATTTAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
23 1 0.02
24 15 0.28
25 11 0.21
26 22 0.42
27 3 0.06
28 1 0.02
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.55
Consensus pattern (25 bp):
TTTTATATATTAACTTAATAAAATA
Done.