Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008660.1 Hibiscus syriacus cultivar Beakdansim tig00111657_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: 1057077
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 4 of 5
Found at i:832808 original size:37 final size:38
Alignment explanation
Indices: 832743--832852 Score: 163
Period size: 37 Copynumber: 2.9 Consensus size: 38
832733 AGATTTCATA
*
832743 GGATTGCATTAAAG-CATCTATCCA-TTTCAATTGCATT
1 GGATTGCACT-AAGCCATCTATCCATTTTCAATTGCATT
* *
832780 GGATTGCACTTA-CCATCTATCCATTTTCAATTCCATT
1 GGATTGCACTAAGCCATCTATCCATTTTCAATTGCATT
832817 GGATTGCACTAAGCCATCTATCCATTTTCAATTGCA
1 GGATTGCACTAAGCCATCTATCCATTTTCAATTGCA
832853 CTAGCTCGAT
Statistics
Matches: 65, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
36 11 0.17
37 32 0.49
38 22 0.34
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.37
Consensus pattern (38 bp):
GGATTGCACTAAGCCATCTATCCATTTTCAATTGCATT
Found at i:832955 original size:21 final size:22
Alignment explanation
Indices: 832931--832980 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
832921 AAAAATTGAC
* *
832931 ATTCGGATCGGATA-TTCGGAT
1 ATTCGGATCCGAAATTTCGGAT
*
832952 ATTC-AATCCGAAATTTCGGAT
1 ATTCGGATCCGAAATTTCGGAT
832973 ATTCGGAT
1 ATTCGGAT
832981 ATTTAATCCG
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 6 0.26
21 15 0.65
22 2 0.09
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (22 bp):
ATTCGGATCCGAAATTTCGGAT
Found at i:833013 original size:29 final size:29
Alignment explanation
Indices: 832938--833003 Score: 123
Period size: 29 Copynumber: 2.3 Consensus size: 29
832928 GACATTCGGA
*
832938 TCGGATATTCGGATATTCAATCCGAAATT
1 TCGGATATTCGGATATTTAATCCGAAATT
832967 TCGGATATTCGGATATTTAATCCGAAATT
1 TCGGATATTCGGATATTTAATCCGAAATT
832996 TCGGATAT
1 TCGGATAT
833004 CCGATTATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.36
Consensus pattern (29 bp):
TCGGATATTCGGATATTTAATCCGAAATT
Found at i:835334 original size:65 final size:65
Alignment explanation
Indices: 835196--835352 Score: 167
Period size: 65 Copynumber: 2.4 Consensus size: 65
835186 ACTACGAATG
* * *
835196 CATCGATGCATCAAGTGCATTCAATG-TTTCAAAATAGCCAGAGTGCATCGATGCATGGCTGGTG
1 CATCGATGCATCAAATGCATTCGATGTTTTCAAAATAGCCAGAGTGCATCGATGCATGGCTGGTA
* * * ** *
835260 CATCAATGCATCAAATGTATTCGATGTTTTCATAAA-ATCCTTAGTGCATCGATGCATGG-TATG
1 CATCGATGCATCAAATGCATTCGATGTTTTCA-AAATAGCCAGAGTGCATCGATGCATGGCT-GG
835323 TA
64 TA
* * *
835325 TATCGATGCATGAAATACATTCGATGTT
1 CATCGATGCATCAAATGCATTCGATGTT
835353 CAATTTAATT
Statistics
Matches: 76, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
64 23 0.30
65 50 0.66
66 3 0.04
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (65 bp):
CATCGATGCATCAAATGCATTCGATGTTTTCAAAATAGCCAGAGTGCATCGATGCATGGCTGGTA
Found at i:836077 original size:14 final size:15
Alignment explanation
Indices: 836058--836086 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
836048 TCAAGCATTT
836058 AACAATCCA-AAACA
1 AACAATCCAGAAACA
836072 AACAATCCAGAAACA
1 AACAATCCAGAAACA
836087 TAAAAAACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.62, C:0.28, G:0.03, T:0.07
Consensus pattern (15 bp):
AACAATCCAGAAACA
Found at i:843707 original size:64 final size:65
Alignment explanation
Indices: 843639--843763 Score: 191
Period size: 64 Copynumber: 1.9 Consensus size: 65
843629 TACACTAAGA
* *
843639 GTGCATCGATGCATCAAGTGCATTCGATG-TTTCA-AAATAGCCAGAGTGCATCGATGCATGGCT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-AGCCACAGTGCATCGATGCATGGCT
843702 G
65 G
* *
843703 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAATCCTCAGTGCATCGATGCATG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAAGCCACAGTGCATCGATGCATG
843764 AAATGCATTC
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
64 28 0.51
65 24 0.44
66 3 0.05
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (65 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAAGCCACAGTGCATCGATGCATGGCTG
Found at i:843776 original size:64 final size:64
Alignment explanation
Indices: 843640--843777 Score: 165
Period size: 64 Copynumber: 2.2 Consensus size: 64
843630 ACACTAAGAG
* * ***
843640 TGCATCGATGCATCAAGTGCATTCGATGTTTCAAAATAGCCAGAGTGCATCGATGCATGGCTGG
1 TGCATCGATGCATCAAATGCATTCGATGTTTCAAAATAGCCACAGTGCATCGATGCATGGCAAA
* *
843704 TGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-ATCCTCAGTGCATCGATGCAT-G-AA
1 TGCATCGATGCATCAAATGCATTCGATG-TTTCA-AAATAGCCACAGTGCATCGATGCATGGCAA
843766 A
64 A
843767 TGCATTCGATG
1 TGCA-TCGATG
843778 TTCAATTTAA
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
63 4 0.06
64 34 0.53
65 23 0.36
66 3 0.05
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.29
Consensus pattern (64 bp):
TGCATCGATGCATCAAATGCATTCGATGTTTCAAAATAGCCACAGTGCATCGATGCATGGCAAA
Found at i:852596 original size:31 final size:31
Alignment explanation
Indices: 852561--852672 Score: 181
Period size: 31 Copynumber: 3.6 Consensus size: 31
852551 ATATGTGGTC
*
852561 CTTCGGGACATATGGACTGCTTACCTATGTT
1 CTTCGGGACATATGGACTGTTTACCTATGTT
*
852592 CTTCGGGACATATGGACTGTTTACCTATATT
1 CTTCGGGACATATGGACTGTTTACCTATGTT
*
852623 CTTCGGGACATATGGACTGTTTACCTAGGTT
1 CTTCGGGACATATGGACTGTTTACCTATGTT
852654 CTTCGGGATC-TATGGACTG
1 CTTCGGGA-CATATGGACTG
852673 GTCCTTCGGG
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
31 75 0.99
32 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.24, T:0.36
Consensus pattern (31 bp):
CTTCGGGACATATGGACTGTTTACCTATGTT
Found at i:856977 original size:31 final size:31
Alignment explanation
Indices: 856942--857053 Score: 181
Period size: 31 Copynumber: 3.6 Consensus size: 31
856932 ATATGTGGTC
856942 CTTCGGGACATATGGACTGTTTACCTATGTT
1 CTTCGGGACATATGGACTGTTTACCTATGTT
* *
856973 CTTCGGGACATATGGGCTGTTTTCCTATGTT
1 CTTCGGGACATATGGACTGTTTACCTATGTT
*
857004 CTTCGGGACATATGGACTGTTTACCTAAGTT
1 CTTCGGGACATATGGACTGTTTACCTATGTT
857035 CTTCGGGATC-TATGGACTG
1 CTTCGGGA-CATATGGACTG
857054 GTCCTTCGGG
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
31 74 0.99
32 1 0.01
ACGTcount: A:0.18, C:0.20, G:0.25, T:0.38
Consensus pattern (31 bp):
CTTCGGGACATATGGACTGTTTACCTATGTT
Found at i:861358 original size:31 final size:31
Alignment explanation
Indices: 861317--861428 Score: 154
Period size: 31 Copynumber: 3.6 Consensus size: 31
861307 ATATGTGGTC
* *
861317 CTTCGAGACATATGGATTGTTTACCTATGTT
1 CTTCGGGACATATGGACTGTTTACCTATGTT
* *
861348 CTTTGGGACATATAGACTGTTTACCTATGTT
1 CTTCGGGACATATGGACTGTTTACCTATGTT
* *
861379 CGTCGGGACATATGGACTGTTTACCTAGGTT
1 CTTCGGGACATATGGACTGTTTACCTATGTT
861410 CTTCGGGATC-TATGGACTG
1 CTTCGGGA-CATATGGACTG
861429 GTCCTTCGGG
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
31 70 0.99
32 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.38
Consensus pattern (31 bp):
CTTCGGGACATATGGACTGTTTACCTATGTT
Found at i:866417 original size:24 final size:26
Alignment explanation
Indices: 866385--866445 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 26
866375 GATGTCAAAG
*
866385 ATAAAAATAAAATGA-AATAAAAA-A
1 ATAAAAATAAAACGAGAATAAAAATA
* *
866409 ATAAAAATAGAACGAGATTAAAAATA
1 ATAAAAATAAAACGAGAATAAAAATA
866435 AT-AAAATAAAA
1 ATAAAAATAAAA
866446 ATGTAAAACA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
24 13 0.42
25 15 0.48
26 3 0.10
ACGTcount: A:0.74, C:0.02, G:0.07, T:0.18
Consensus pattern (26 bp):
ATAAAAATAAAACGAGAATAAAAATA
Found at i:867231 original size:45 final size:44
Alignment explanation
Indices: 867180--867267 Score: 133
Period size: 45 Copynumber: 2.0 Consensus size: 44
867170 GTTTGTGCAG
*
867180 TAAAATAAAAAGTTAGTA-AGTTAGTAAGAACAATAAAAATAAAAA
1 TAAAATAAAAAGTCAGTATA-TTAGTAAGAACAAT-AAAATAAAAA
*
867225 TAAAATAAAAAGTCAGTATATTAGTATGAACAATAAAATAAAA
1 TAAAATAAAAAGTCAGTATATTAGTAAGAACAATAAAATAAAA
867268 GTTAGAATGT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
44 9 0.22
45 30 0.75
46 1 0.03
ACGTcount: A:0.62, C:0.03, G:0.10, T:0.24
Consensus pattern (44 bp):
TAAAATAAAAAGTCAGTATATTAGTAAGAACAATAAAATAAAAA
Found at i:867416 original size:20 final size:20
Alignment explanation
Indices: 867379--867415 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
867369 TAATGCAAAC
*
867379 AAATATATAAAAATAAAATG
1 AAATAAATAAAAATAAAATG
867399 AAATAAAT-AAAATAAAA
1 AAATAAATAAAAATAAAA
867416 AAAGTTTATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.22
Consensus pattern (20 bp):
AAATAAATAAAAATAAAATG
Found at i:867522 original size:5 final size:5
Alignment explanation
Indices: 867512--867540 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
867502 CAAATATATA
867512 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
867541 AGTTAGTGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:867644 original size:123 final size:124
Alignment explanation
Indices: 867315--867611 Score: 415
Period size: 124 Copynumber: 2.4 Consensus size: 124
867305 CCGAGTCTGG
* *
867315 ACCATAATAATGTGGATCTT-ACCCTGGATCGAGTCACCAAAAGGTCGAATCGAATAATGCAAAC
1 ACCATAATAATGTGGATCTTAACCC-GGATCGGGTCACCACAAGGTCGAAT-GAATAATGCAAAC
* * *
867379 AAATATATAAAAATAAAATGAAATAAATAAAATAAAAAAAGTTTATGGTTAGCATAGTCCGA
64 AAATATATAAAAATAAAATAAAATAAATAAAAT-AAAAAAGTTTATGGTTAGAAGAGTCCGA
*
867441 ACCATAATAATGT--ATCTTATCCCGGATCGGGTCACCACAAGGTCGAATAGAATAATGCAAACA
1 ACCATAATAATGTGGATCTTAACCCGGATCGGGTCACCACAAGGTCGAAT-GAATAATGCAAACA
867504 AATATATAAAAATAAAATAAAATAAAATAAAAT-AAAAAG-TTAGTGGTTAGAAGAGTCCGA
65 AATATATAAAAATAAAATAAAAT-AAATAAAATAAAAAAGTTTA-TGGTTAGAAGAGTCCGA
* ** *
867564 TCCATAATAATGTGGATCTTAAATCGGATCGGGTCACCACAAGATCGA
1 ACCATAATAATGTGGATCTTAACCCGGATCGGGTCACCACAAGGTCGA
867612 GTAATAAGAG
Statistics
Matches: 154, Mismatches: 12, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
122 3 0.02
123 33 0.21
124 64 0.42
125 41 0.27
126 13 0.08
ACGTcount: A:0.46, C:0.14, G:0.16, T:0.24
Consensus pattern (124 bp):
ACCATAATAATGTGGATCTTAACCCGGATCGGGTCACCACAAGGTCGAATGAATAATGCAAACAA
ATATATAAAAATAAAATAAAATAAATAAAATAAAAAAGTTTATGGTTAGAAGAGTCCGA
Found at i:867707 original size:29 final size:29
Alignment explanation
Indices: 867653--867709 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
867643 ATGGTTAGAA
**
867653 TGCAAAAAAATAAAAGTCAGTGGTTAATG
1 TGCAAAAAAATAAAAGTCAGCAGTTAATG
* *
867682 TGCAATAAAATAAAAGTTAGCAGTTAAT
1 TGCAAAAAAATAAAAGTCAGCAGTTAAT
867710 TTAAAATAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.49, C:0.07, G:0.18, T:0.26
Consensus pattern (29 bp):
TGCAAAAAAATAAAAGTCAGCAGTTAATG
Found at i:868063 original size:16 final size:16
Alignment explanation
Indices: 868039--868083 Score: 81
Period size: 16 Copynumber: 2.8 Consensus size: 16
868029 AAAAATGGCA
*
868039 TGATTGGTTAAAAAAG
1 TGATCGGTTAAAAAAG
868055 TGATCGGTTAAAAAAG
1 TGATCGGTTAAAAAAG
868071 TGATCGGTTAAAA
1 TGATCGGTTAAAA
868084 TTTAGACCGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.42, C:0.04, G:0.24, T:0.29
Consensus pattern (16 bp):
TGATCGGTTAAAAAAG
Found at i:868674 original size:200 final size:199
Alignment explanation
Indices: 868216--868740 Score: 623
Period size: 200 Copynumber: 2.6 Consensus size: 199
868206 TAGATAGCGC
* * ** * * *
868216 TTATATTGACCTATTTTCTAACT-AAACCGGTTTATTTATACC-GATAACATTGCAAATTTACCT
1 TTATGTTGACATATTTTCTAA-TAAAACCAATATATTTATACCAG-TTACATTGTAAATTTACCT
* * * *
868279 AATACATTATAATTATCGGTTTCGATATTTTTGAGATCGATACAATTT--TAAATGTATCGACAC
64 ATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATAC-TTTTAATAAATGTATCGACAC
* *
868342 TTTATGCGTGCACCTCGTTGGGCATTCATTCTGGAAAAAAATATCGACACATATTTAAAAAGTGT
128 TTTATGCGTGCACCTCGTTGGGCATTCATTCTGGAAAAAAATATCGACACAAATTCAAAAAGTGT
868407 TGATACA
193 TGATACA
*
868414 TTATGTTGACATATTTTCTCATAAAACCAATATATTTATACCAGTTACATTGTAAATTTACCTAT
1 TTATGTTGACATATTTTCTAATAAAACCAATATATTTATACCAGTTACATTGTAAATTTACCTAT
* * *
868479 TACATCATAATTATCAGTTTCAATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTT
66 TACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTT
* * * * *
868544 ATGCGTGCACCTCGTTTGGGCATTCATTTTGGACAATAAGTATCGACACAAATTCCACAAGTGTT
131 ATGCGTGCACCTCG-TTGGGCATTCATTCTGGA-AAAAAATATCGACACAAATTCAAAAAGTGTT
868609 GATACA
194 GATACA
** * * * * * * *
868615 TTATGTTTTCCTGTTTTGTAAT-TAACCAGTATATTTATACTAGTTACAATT-TTAATTTACCTA
1 TTATGTTGACATATTTTCTAATAAAACCAATATATTTATACCAGTTAC-ATTGTAAATTTACCTA
* * * *
868678 TTACATTATAATTATTGGTTTTGATGTTTTTGGGGTCGATACTTTTAGA-AAGTGTATCGACAC
65 TTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTA-ATAAATGTATCGACAC
868741 ATCTTTTTAC
Statistics
Matches: 280, Mismatches: 39, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
197 4 0.01
198 88 0.31
199 33 0.12
200 104 0.37
201 51 0.18
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.40
Consensus pattern (199 bp):
TTATGTTGACATATTTTCTAATAAAACCAATATATTTATACCAGTTACATTGTAAATTTACCTAT
TACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTT
ATGCGTGCACCTCGTTGGGCATTCATTCTGGAAAAAAATATCGACACAAATTCAAAAAGTGTTGA
TACA
Found at i:871261 original size:11 final size:11
Alignment explanation
Indices: 871241--871290 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
871231 CGATGCACTG
*
871241 CTACATTACTA
1 CTACAGTACTA
*
871252 CTACAGTACTG
1 CTACAGTACTA
*
871263 CTACATTACTA
1 CTACAGTACTA
* *
871274 CTACACTACTG
1 CTACAGTACTA
871285 CTACAG
1 CTACAG
871291 AAACTTCGGT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 32 1.00
ACGTcount: A:0.32, C:0.30, G:0.08, T:0.30
Consensus pattern (11 bp):
CTACAGTACTA
Found at i:871265 original size:22 final size:22
Alignment explanation
Indices: 871237--871289 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
871227 GTATCGATGC
*
871237 ACTGCTACATTACTACTACAGT
1 ACTGCTACATTACTACTACACT
871259 ACTGCTACATTACTACTACACT
1 ACTGCTACATTACTACTACACT
871281 ACTGCTACA
1 ACTGCTACA
871290 GAAACTTCGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.30, G:0.08, T:0.30
Consensus pattern (22 bp):
ACTGCTACATTACTACTACACT
Found at i:871634 original size:17 final size:18
Alignment explanation
Indices: 871601--871634 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
871591 TATTCTGATA
871601 TTTAATCTCCAAGGAATC
1 TTTAATCTCCAAGGAATC
*
871619 TTTAAT-TCCAATGAAT
1 TTTAATCTCCAAGGAAT
871635 ATACTACAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.38
Consensus pattern (18 bp):
TTTAATCTCCAAGGAATC
Found at i:871887 original size:59 final size:59
Alignment explanation
Indices: 871796--871907 Score: 163
Period size: 59 Copynumber: 1.9 Consensus size: 59
871786 GCTTCCCTTT
* *
871796 CATTTTAGCACACAAAGTGCCTTATTAAAAAATTCATACCATTAGTATGATTTTGTTAC
1 CATTTTAGCACACAAAATGCCCTATTAAAAAATTCATACCATTAGTATGATTTTGTTAC
* * *
871855 CATTTTAGCACATAAAATGCCCTATGT-GAAAATTCATATCATTAGTATGATTT
1 CATTTTAGCACACAAAATGCCCTAT-TAAAAAATTCATACCATTAGTATGATTT
871908 CCTTATCTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
59 46 0.98
60 1 0.02
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (59 bp):
CATTTTAGCACACAAAATGCCCTATTAAAAAATTCATACCATTAGTATGATTTTGTTAC
Found at i:872080 original size:58 final size:58
Alignment explanation
Indices: 871898--872160 Score: 251
Period size: 58 Copynumber: 4.5 Consensus size: 58
871888 TCATATCATT
* * * ** ** * *
871898 AGTATGATTTCCTTATCTTTGTAGCACCCTTAGTATTTTATCTGGAAATCCATACACTC
1 AGTATGATTTCCTTATCATT-TAGCACACTCAGTGCTCCATATGGAAATCTATACACTC
* * * * * * * * ***
871957 AGTATGATTCCCTTACCATTTTAGTAC-GTAAAATGC-CCTATCTGGAAATCCATATTTTC
1 AGTATGATTTCCTTATCA-TTTAGCACACT-CAGTGCTCC-ATATGGAAATCTATACACTC
* * *
872016 AATATGATTTCCTTATCATTTAGCACACTTAGTGCTCCATATGGAAATCTATACACTT
1 AGTATGATTTCCTTATCATTTAGCACACTCAGTGCTCCATATGGAAATCTATACACTC
*
872074 AGTATGATTTCCTTATCATTTAGCACACTCAGTGTTCCATATGGAAATCTATACACTC
1 AGTATGATTTCCTTATCATTTAGCACACTCAGTGCTCCATATGGAAATCTATACACTC
872132 AGTATGATTTCCTTATCATTTTAGCACAC
1 AGTATGATTTCCTTATCA-TTTAGCACAC
872161 AAAGTGCCAT
Statistics
Matches: 167, Mismatches: 31, Indels: 12
0.80 0.15 0.06
Matches are distributed among these distances:
58 98 0.59
59 67 0.40
60 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.38
Consensus pattern (58 bp):
AGTATGATTTCCTTATCATTTAGCACACTCAGTGCTCCATATGGAAATCTATACACTC
Found at i:872094 original size:117 final size:118
Alignment explanation
Indices: 871837--872100 Score: 318
Period size: 118 Copynumber: 2.3 Consensus size: 118
871827 ATTCATACCA
** * * *
871837 TTAGTATGATTTTGTTACCATTTTAGCACATAAAATGCCCTATGTGAAAATTCATATCATTAGTA
1 TTAGTATGATTTCCTTACCATTTTAGCACATAAAATGCCCTATCTGAAAATCCATATCATTAATA
* * * ** *
871902 TGATTTCCTTATCTTTGTAGCACCCTTAGTATTTTATCTGGAAATCCATACAC
66 TGATTTCCTTATCATTGTAGCACACTTAGTACTCCATATGGAAATCCATACAC
* * * * * *
871955 TCAGTATGATTCCCTTACCATTTTAGTACGTAAAATGCCCTATCTGGAAATCCATAT-TTTCAAT
1 TTAGTATGATTTCCTTACCATTTTAGCACATAAAATGCCCTATCTGAAAATCCATATCATT-AAT
* *
872019 ATGATTTCCTTATCATT-TAGCACACTTAGTGCTCCATATGGAAATCTATACAC
65 ATGATTTCCTTATCATTGTAGCACACTTAGTACTCCATATGGAAATCCATACAC
*
872072 TTAGTATGATTTCCTTATCA-TTTAGCACA
1 TTAGTATGATTTCCTTACCATTTTAGCACA
872101 CTCAGTGTTC
Statistics
Matches: 121, Mismatches: 24, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
116 7 0.06
117 48 0.40
118 66 0.55
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (118 bp):
TTAGTATGATTTCCTTACCATTTTAGCACATAAAATGCCCTATCTGAAAATCCATATCATTAATA
TGATTTCCTTATCATTGTAGCACACTTAGTACTCCATATGGAAATCCATACAC
Found at i:882470 original size:64 final size:67
Alignment explanation
Indices: 882384--882542 Score: 200
Period size: 67 Copynumber: 2.4 Consensus size: 67
882374 TGGACCCTTA
* * * * * *
882384 GTGCATCGATGTATGAAGTGCATTCGATA-TTT-CAAAA-TAGCTTGAGTGCATCGATGCAT-GT
1 GTGCATCGATGCATAAAATGCATTCGATATTTTAAAAAACAAACTTGAGTGCATCGATGCATGGT
*
882445 CTT
66 -GT
* *
882448 GTGCATCGATGCATCAAATGCATTCGATATTTTAAAAAACAAACTTGAGTGCATCGATGTATGGT
1 GTGCATCGATGCATAAAATGCATTCGATATTTTAAAAAACAAACTTGAGTGCATCGATGCATGGT
882513 GT
66 GT
882515 GTGCATCGATGCATAAAATGCATTCGAT
1 GTGCATCGATGCATAAAATGCATTCGAT
882543 GTTCAATTTA
Statistics
Matches: 82, Mismatches: 9, Indels: 5
0.85 0.09 0.05
Matches are distributed among these distances:
64 26 0.32
65 3 0.04
66 4 0.05
67 47 0.57
68 2 0.02
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (67 bp):
GTGCATCGATGCATAAAATGCATTCGATATTTTAAAAAACAAACTTGAGTGCATCGATGCATGGT
GT
Found at i:887793 original size:17 final size:18
Alignment explanation
Indices: 887760--887793 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
887750 TATTCTGATA
*
887760 TTTAATCTCCAAGGAATC
1 TTTAATCTCCAACGAATC
887778 TTTAAT-TCCAACGAAT
1 TTTAATCTCCAACGAAT
887794 ATACTATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (18 bp):
TTTAATCTCCAACGAATC
Found at i:888129 original size:58 final size:58
Alignment explanation
Indices: 887911--888257 Score: 213
Period size: 59 Copynumber: 5.9 Consensus size: 58
887901 TAGCACTCAC
* * * * * *
887911 AGTGCTCTATTTGAAAGAT-CATACACTTAGTATGCTTCCCCTT-TCATTTTAGCACACGA
1 AGTGCTCTATCTGGAA-ATCCATACACTCAGTATGATT-TCCTTATCATTTTAGCAC-CTA
* ** * * ** * *
887970 AGTGCCCTAT-TCAAAAATTCATAC-CATTAGTATGATTTTGTTACCATTTTAGCACATAA
1 AGTGCTCTATCT-GGAAATCCATACAC-TCAGTATGATTTCCTTATCATTTTAGCACCT-A
* * * * * * *
888029 AATGCCCTATGTGAAAATTCATATCA-TTAGTATGATTTCCTTATC-TTTGTAGCACCTT
1 AGTGCTCTATCTGGAAATCCATA-CACTCAGTATGATTTCCTTATCATTT-TAGCACCTA
* * * *
888087 AGTGCTTTATCTGGAAATCCATACACTCAGTATGATTCCCTTACCATTTTAGCACATAA
1 AGTGCTCTATCTGGAAATCCATACACTCAGTATGATTTCCTTATCATTTTAGCACCT-A
* * * * *** * *
888146 AATGCCCTATCCGAAAATCCATATTTTCAATATGATTTCCTTATCA-TTTAGCACACTC
1 AGTGCTCTATCTGGAAATCCATACACTCAGTATGATTTCCTTATCATTTTAGCAC-CTA
* * *
888204 AGTGCTCCATATGGAAATCTATACACTCAGTATGATTTCCTTATCATTTTAGCA
1 AGTGCTCTATCTGGAAATCCATACACTCAGTATGATTTCCTTATCATTTTAGCA
888258 AACAAAGTGT
Statistics
Matches: 223, Mismatches: 51, Indels: 28
0.74 0.17 0.09
Matches are distributed among these distances:
57 2 0.01
58 92 0.41
59 127 0.57
60 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.37
Consensus pattern (58 bp):
AGTGCTCTATCTGGAAATCCATACACTCAGTATGATTTCCTTATCATTTTAGCACCTA
Found at i:888138 original size:117 final size:117
Alignment explanation
Indices: 888010--888257 Score: 347
Period size: 117 Copynumber: 2.1 Consensus size: 117
888000 TATGATTTTG
** * *
888010 TTACCATTTTAGCACATAAAATGCCCTATGTGAAAATTCATATCATT-AGTATGATTTCCTTATC
1 TTACCATTTTAGCACATAAAATGCCCTATCCGAAAATCCATAT-ATTCAATATGATTTCCTTATC
* * ** *
888074 TTTGTAGCAC-CTTAGTGCTTTATCTGGAAATCCATACACTCAGTATGATTCCC
65 ATT-TAGCACACTCAGTGCTCCATATGGAAATCCATACACTCAGTATGATTCCC
*
888127 TTACCATTTTAGCACATAAAATGCCCTATCCGAAAATCCATATTTTCAATATGATTTCCTTATCA
1 TTACCATTTTAGCACATAAAATGCCCTATCCGAAAATCCATATATTCAATATGATTTCCTTATCA
* *
888192 TTTAGCACACTCAGTGCTCCATATGGAAATCTATACACTCAGTATGATTTCC
66 TTTAGCACACTCAGTGCTCCATATGGAAATCCATACACTCAGTATGATTCCC
*
888244 TTATCATTTTAGCA
1 TTACCATTTTAGCA
888258 AACAAAGTGT
Statistics
Matches: 116, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
116 8 0.07
117 108 0.93
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.37
Consensus pattern (117 bp):
TTACCATTTTAGCACATAAAATGCCCTATCCGAAAATCCATATATTCAATATGATTTCCTTATCA
TTTAGCACACTCAGTGCTCCATATGGAAATCCATACACTCAGTATGATTCCC
Found at i:889779 original size:19 final size:19
Alignment explanation
Indices: 889755--889802 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
889745 TTGCATTCAC
889755 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
889774 ATACAAAATTATGAATCGT
1 ATACAAAATTATAAATCGT
889793 ATACAAAATT
1 ATACAAAATT
889803 TCCCCTATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.52, C:0.10, G:0.06, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:890736 original size:346 final size:344
Alignment explanation
Indices: 890103--890799 Score: 1331
Period size: 346 Copynumber: 2.0 Consensus size: 344
890093 TTATGTATAA
890103 TAGTTGTATTCAGTTGTTGAAGAATTGTTCTTAATTTTATATAAGGATAGTTGTAATGATATACA
1 TAGTTGTATTCAGTTGTTGAAGAATTGTTCTTAATTTTATATAAGGATAGTTGTAATGATATACA
*
890168 TTCACGTTTCGGGACCAATTAGTTAGATGCATGCAGTACCCTATATCCTTGAGGCATATCACAAG
66 TTCACGTTTAGGGACCAATTAGTTAGATGCATGCAGTACCCTATATCCTTGAGGCATATCACAAG
890233 AAATCTGGCACTTAAAGATTTACCAAGAGCGGTAGCTTTTGCTCTGAATGAAGAATAAACCTAGA
131 AAATCTGGCACTTAAAGATTTACCAAGAGCGGTAGCTTTTGCTCTGAATGAAGAATAAACCTAGA
*
890298 ATCAACTTTGCAATTGTGCCTATCATGCTGAAGAGAACCTACTGAATTATAGGATTTGCACACAA
196 ATCAACTTTGCAATTGTGCCTATCATACTGAAGAGAACCTACTGAATTATAGGATTTGCACACAA
* *
890363 CTGCAAGCATTTTAAACCCTAAACCCAACTACTCACATAAAAAATTATGTAACAGAGTTGTCAGG
261 ATGCAAGCATTTTAAAACCTAAACCCAACTACTCACATAAAAAATTATGTAACAGAGTTGTCAGG
*
890428 ATTTCCCATAAATTATGTTTG
326 ATTTCCCATAAA--ATATTTG
890449 TAGTTGTATTCAGTTGTTGAAGAATTGTTCTTAATTTTATATAAGGATAGTTGTAATGATATACA
1 TAGTTGTATTCAGTTGTTGAAGAATTGTTCTTAATTTTATATAAGGATAGTTGTAATGATATACA
890514 TTCACGTTTAGGGACCAATTAGTTAGATGCATGCAGTACCCTATATCCTTGAGGCATATCACAAG
66 TTCACGTTTAGGGACCAATTAGTTAGATGCATGCAGTACCCTATATCCTTGAGGCATATCACAAG
890579 AAATCTGGCACTTAAAGATTTACCAAGAGCGGTAGCTTTTGCTCTGAATGAAGAATAAACCTAGA
131 AAATCTGGCACTTAAAGATTTACCAAGAGCGGTAGCTTTTGCTCTGAATGAAGAATAAACCTAGA
890644 ATCAACTTTGCAATTGTGCCTATCATACTGAAGAGAACCTACTGAATTATAGGATTTGCACACAA
196 ATCAACTTTGCAATTGTGCCTATCATACTGAAGAGAACCTACTGAATTATAGGATTTGCACACAA
890709 ATGCAAGCATTTTAAAACCTAAACCCAACTACTCACATAAAAAATTATGTAACAGAGTTGTCAGG
261 ATGCAAGCATTTTAAAACCTAAACCCAACTACTCACATAAAAAATTATGTAACAGAGTTGTCAGG
890774 ATTTCCCATAAAATATTTG
326 ATTTCCCATAAAATATTTG
890793 TAGTTGT
1 TAGTTGT
890800 GTGCAAATCC
Statistics
Matches: 346, Mismatches: 5, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
344 13 0.04
346 333 0.96
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (344 bp):
TAGTTGTATTCAGTTGTTGAAGAATTGTTCTTAATTTTATATAAGGATAGTTGTAATGATATACA
TTCACGTTTAGGGACCAATTAGTTAGATGCATGCAGTACCCTATATCCTTGAGGCATATCACAAG
AAATCTGGCACTTAAAGATTTACCAAGAGCGGTAGCTTTTGCTCTGAATGAAGAATAAACCTAGA
ATCAACTTTGCAATTGTGCCTATCATACTGAAGAGAACCTACTGAATTATAGGATTTGCACACAA
ATGCAAGCATTTTAAAACCTAAACCCAACTACTCACATAAAAAATTATGTAACAGAGTTGTCAGG
ATTTCCCATAAAATATTTG
Found at i:892349 original size:199 final size:200
Alignment explanation
Indices: 891717--892906 Score: 1546
Period size: 199 Copynumber: 6.0 Consensus size: 200
891707 GTGTAATTTA
* * *
891717 AAAAAGTATCGACACAACTTTAAAAAGTGTTGATACATTATGTAGACTTATTTTCTAATTAACCG
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
* * * *
891782 GTATATTTCTACCGTTTACATTGAAAATTTACCTATTACATTATATTTATCGGT-TTCTATGTTT
66 GTATATTTCTACCGGTTACATTGGAAATTTACCTATTACATTATAATTATC-GTATTCGATGTTT
* * * * * *
891846 ATGGGATTGATACATTTTATAAATGTATCGACACTTTATTCATACACC-CCGTTGGGCATTCCTT
130 TTGGGATCGATACATTTTATAAATGTATCGACACTTTATTCGTGCACCTCGGTTGGGCATTCATT
* *
891910 CTAGTC
195 CTGGAC
* * *
891916 AAAACGTATCGACACAAATTTTAAAAGTGTCGATACATTATGTATACCTATTTTCTAATTAACCG
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
* * * * *
891981 GTATATTTCTACTGGTTATATTGTAAAGTTACCTATTACATTATAATTATCGGT-TTTGATGTTT
66 GTATATTTCTACCGGTTACATTGGAAATTTACCTATTACATTATAATTATC-GTATTCGATGTTT
* ** *
892045 TTGGGATCGATACAATTT-TAAATGTATCGACACTTTATGT-GTGCA-CTCCTTTAGGCATTCAT
130 TTGGGATCGATACATTTTATAAATGTATCGACACTTTAT-TCGTGCACCTCGGTTGGGCATTCAT
892107 TCTGGAC
194 TCTGGAC
** * * *
892114 AAAAAGTATCGACACAAATTCCACAAGTGTCGATACATGATGTAGACCTATTCTCTAATTAACCG
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
* * * *
892179 ATATATTTCTATCGGTTACATTGGAAATTTAGCTATTACATTATATTTATCAGT-TTCGATGTTT
66 GTATATTTCTACCGGTTACATTGGAAATTTACCTATTACATTATAATTATC-GTATTCGATGTTT
* * *
892243 TTGGGATCGATACGTTTTATAAATGTATTGACACTTTATTTGTGCACCTC-GTTGGGCATTCATT
130 TTGGGATCGATACATTTTATAAATGTATCGACACTTTATTCGTGCACCTCGGTTGGGCATTCATT
892307 CT-GATC
195 CTGGA-C
*
892313 AAAATGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
* * *
892378 GTATATTTCTAACGGTTACATTGGAAATTGACCTATTACATTATAATTATCTTATTCGATGTTTT
66 GTATATTTCTACCGGTTACATTGGAAATTTACCTATTACATTATAATTATCGTATTCGATGTTTT
* * * * *
892443 TGGGATTGATACTTTTTATAAATGTATCGACACTTTATTCGTGCACCTCGGTTAGTCATTTATTC
131 TGGGATCGATACATTTTATAAATGTATCGACACTTTATTCGTGCACCTCGGTTGGGCATTCATTC
892508 TGGAC
196 TGGAC
* *
892513 ---AA-TATCCACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCC
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
* * * * * * *
892574 GTATATTTTTATCGATTACATTGGAAATTGATCTATTACATTATAATTATCTTATTCGATGTTTC
66 GTATATTTCTACCGGTTACATTGGAAATTTACCTATTACATTATAATTATCGTATTCGATGTTTT
* * * * *
892639 TAGGATCAATACTTTTTATAAATGTATCGACACTTTATTCGTACACCTCGGTTGGTCATTCATTC
131 TGGGATCGATACATTTTATAAATGTATCGACACTTTATTCGTGCACCTCGGTTGGGCATTCATTC
892704 TGGAC
196 TGGAC
* * * *
892709 AAAAAGTATCGTCA-TAATTAAAAAAGTGTCGATATATTATGTAGACCTATTTTCTAATTAACCG
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
* * * * *
892773 ATATATATCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCTTATTCGGTGTTTT
66 GTATATTTCTACCGGTTACATTGGAAATTTACCTATTACATTATAATTATCGTATTCGATGTTTT
* * * *
892838 TGGGATCAATAC-TTTTAATAAATGTATCGACACTTTATTTGTGTACCTCGGTTGGACATTCATT
131 TGGGATCGATACATTTT-ATAAATGTATCGACACTTTATTCGTGCACCTCGGTTGGGCATTCATT
892902 CTGGA
195 CTGGA
892907 TATTACTGAA
Statistics
Matches: 877, Mismatches: 100, Indels: 28
0.87 0.10 0.03
Matches are distributed among these distances:
196 181 0.21
197 2 0.00
198 176 0.20
199 493 0.56
200 23 0.03
201 2 0.00
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.40
Consensus pattern (200 bp):
AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
GTATATTTCTACCGGTTACATTGGAAATTTACCTATTACATTATAATTATCGTATTCGATGTTTT
TGGGATCGATACATTTTATAAATGTATCGACACTTTATTCGTGCACCTCGGTTGGGCATTCATTC
TGGAC
Found at i:892688 original size:395 final size:395
Alignment explanation
Indices: 891719--892906 Score: 1590
Period size: 395 Copynumber: 3.0 Consensus size: 395
891709 GTAATTTAAA
* * * *
891719 AAAGTATCGACACAACTTTAAAAAGTGTTGATACATTATGTAGACTTATTTTCTAATTAACCGGT
1 AAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCCGT
* * * * *
891784 ATATTTCTACCGTTTACATTGAAAATTTACCTATTACATTATATTTATCGGTTTCTATGTTTATG
66 ATATTTCTATCGATTACATTGGAAATTTACCTATTACATTATATTTATCAGTTTCGATGTTTATG
* * * *
891849 GGATTGATACATTTTATAAATGTATCGACACTTTATTCATACACCCCGTTGGGCATTCCTTCT-A
131 GGATCGATACATTTTATAAATGTATCGACACTTTATTCGTACACCTCGTTGGGCATTCATTCTGA
* * *
891913 GTCAAAACGTATCGACACAAATTTTAAAAGTGTCGATACATTATGTATACCTATTTTCTAATTAA
196 -TCAAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAA
*
891978 CCGGTATATTTCT-ACTGGTTATATTGTAAAGTTACCTATTACATTATAATTATCGGTT-TT-GA
260 CCGGTATATTTCTAAC-GGTTACATTGTAAA-TTACCTATTACATTATAATTATC--TTATTCGA
** ** *
892040 TGTTTTTGGGATCGATACAATTT-TAAATGTATCGACACTTTATGTGTGCA-CTCCTTTAGGCAT
321 TGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTAT-TGTGCACCTCGGTTAGACAT
892103 TCATTCTGGAC
385 TCATTCTGGAC
** * * *
892114 AAAAAGTATCGACACAAATTCCACAAGTGTCGATACATGATGTAGACCTATTCTCTAATTAA-CC
1 --AAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCC
* *
892178 GATATATTTCTATCGGTTACATTGGAAATTTAGCTATTACATTATATTTATCAGTTTCGATGTTT
64 G-TATATTTCTATCGATTACATTGGAAATTTACCTATTACATTATATTTATCAGTTTCGATGTTT
* * * * *
892243 TTGGGATCGATACGTTTTATAAATGTATTGACACTTTATTTGTGCACCTCGTTGGGCATTCATTC
128 ATGGGATCGATACATTTTATAAATGTATCGACACTTTATTCGTACACCTCGTTGGGCATTCATTC
*
892308 TGATCAAAATGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATT
193 TGATCAAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATT
*
892373 AACCGGTATATTTCTAACGGTTACATTGGAAATTGACCTATTACATTATAATTATCTTATTCGAT
258 AACCGGTATATTTCTAACGGTTACATTGTAAATT-ACCTATTACATTATAATTATCTTATTCGAT
* *
892438 GTTTTTGGGATTGATACTTTTTATAAATGTATCGACACTTTATTCGTGCACCTCGGTTAGTCATT
322 GTTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATT-GTGCACCTCGGTTAGACATT
*
892503 TATTCTGGAC
386 CATTCTGGAC
*
892513 -AA-TATCCACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCCGT
1 AAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCCGT
* * * * * *
892576 ATATTTTTATCGATTACATTGGAAATTGATCTATTACATTATAATTATC-TTATTCGATGTTTCT
66 ATATTTCTATCGATTACATTGGAAATTTACCTATTACATTATATTTATCAGT-TTCGATGTTTAT
* * * *
892640 AGGATCAATACTTTTTATAAATGTATCGACACTTTATTCGTACACCTCGGTTGGTCATTCATTCT
130 GGGATCGATACATTTTATAAATGTATCGACACTTTATTCGTACACCTC-GTTGGGCATTCATTCT
* * * *
892705 GGA-CAAAAAGTATCGTCA-TAATTAAAAAAGTGTCGATATATTATGTAGACCTATTTTCTAATT
194 -GATCAAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATT
* * * *
892768 AACCGATATATATCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCTTATTCGGT
258 AACCGGTATATTTCTAACGGTTACATTGTAAA-TTACCTATTACATTATAATTATCTTATTCGAT
* * * *
892833 GTTTTTGGGATCAATACTTTTAATAAATGTATCGACACTTTATTTGTGTACCTCGGTTGGACATT
322 GTTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTA-TTGTGCACCTCGGTTAGACATT
892898 CATTCTGGA
386 CATTCTGGA
892907 TATTACTGAA
Statistics
Matches: 703, Mismatches: 73, Indels: 32
0.87 0.09 0.04
Matches are distributed among these distances:
394 1 0.00
395 313 0.45
396 43 0.06
397 298 0.42
398 28 0.04
399 20 0.03
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (395 bp):
AAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCCGT
ATATTTCTATCGATTACATTGGAAATTTACCTATTACATTATATTTATCAGTTTCGATGTTTATG
GGATCGATACATTTTATAAATGTATCGACACTTTATTCGTACACCTCGTTGGGCATTCATTCTGA
TCAAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAAC
CGGTATATTTCTAACGGTTACATTGTAAATTACCTATTACATTATAATTATCTTATTCGATGTTT
TTGGGATCGATACTTTTTATAAATGTATCGACACTTTATTGTGCACCTCGGTTAGACATTCATTC
TGGAC
Found at i:896568 original size:18 final size:18
Alignment explanation
Indices: 896545--896581 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
896535 CGAAATTTAT
896545 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
*
896563 ATTGAAATTTAAACTCAA
1 ATTGAAATTCAAACTCAA
896581 A
1 A
896582 CTCCAATTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.51, C:0.14, G:0.05, T:0.30
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:897900 original size:6 final size:6
Alignment explanation
Indices: 897893--897926 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
897883 GTTTGGATCA
* *
897893 TCATCA TCATCT TCATCT TCATCG TCATCT TCAT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCAT
897927 TGATCGCTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.21, C:0.32, G:0.03, T:0.44
Consensus pattern (6 bp):
TCATCT
Found at i:899108 original size:15 final size:15
Alignment explanation
Indices: 899088--899116 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
899078 AGAGGTTTTT
899088 GTTGAGAAGAGCTTG
1 GTTGAGAAGAGCTTG
899103 GTTGAGAAGAGCTT
1 GTTGAGAAGAGCTT
899117 TGAGAAAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.07, G:0.38, T:0.28
Consensus pattern (15 bp):
GTTGAGAAGAGCTTG
Found at i:899769 original size:201 final size:201
Alignment explanation
Indices: 899418--900173 Score: 1110
Period size: 201 Copynumber: 3.8 Consensus size: 201
899408 GCGAAATTTA
* * *
899418 AAAAAATATCGACACAAATTTAAAAAGTGTCGATACATTATGTATACCTATTCTCTCTTAAAACC
1 AAAAAATATCGACACAAACTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACC
* * ** * * *
899483 GGTATATTTATACC-AGTTACATTGGAAATTTAAGTATTACATTTTAATTATCGGTTTTGATGTT
66 GGTATATTTATACCGA-TTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTT
* *
899547 TTTGGGATCGATATTTTTTATAAATGTATCGACACTTTATGCTTGCACCTAGTTTAGGCATTCAT
130 TTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCTTGCACCTAGTTTGGGCATTCAT
899612 TCTGGAC
195 TCTGGAC
* * * *
899619 GAAAAGTATCGACACAAATTTAAAAAGTGTCGATATATTATGTAGACCTATTCTCTCATAAAACC
1 AAAAAATATCGACACAAACTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACC
*
899684 GGTATATTTATACCGATTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTC
66 GGTATATTTATACCGATTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTT
*
899749 TTGGGATCGATACTTTTTATAAATGTATCGACACTTTATG-TGTGCACCTAGTTTGGGCATTAAT
131 TTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCT-TGCACCTAGTTTGGGCATTCAT
*
899813 TCTAGAC
195 TCTGGAC
899820 AAAAAAAATATCGACACAAACTTAAAAAGTGTCGATACATTATGTAGACCTA-T-TCTC-T----
1 --AAAAAATATCGACACAAACTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAA
*
899878 -C--T-TA--TATACCGATTACATTGAAAAATTACCTATTACATTATAATTATGAGTTTCGATGT
64 CCGGTATATTTATACCGATTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGT
* *
899937 TTTTGGGATCGATACTTTTCATAAATGTATCGACACTTTATGCATGCACCTAGTTTGGGCATTCA
129 TTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCTTGCACCTAGTTTGGGCATTCA
900002 TTCTGGAC
194 TTCTGGAC
* * * * *
900010 AAAAAGTATCGACACAAACTTAAAAAGTGTCGATACATTATGTAGACATGTTTTCACATAAAACC
1 AAAAAATATCGACACAAACTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACC
*
900075 GGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTT
66 GGTATATTTATACCGATTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTT
*
900140 TTGGGATCGATACGTTTTATAAATGTATCGACAC
131 TTGGGATCGATACTTTTTATAAATGTATCGACAC
900174 ATATGTTTAC
Statistics
Matches: 502, Mismatches: 35, Indels: 36
0.88 0.06 0.06
Matches are distributed among these distances:
188 47 0.09
189 1 0.00
190 124 0.25
191 1 0.00
192 2 0.00
193 1 0.00
195 1 0.00
196 1 0.00
198 1 0.00
199 2 0.00
200 2 0.00
201 271 0.54
202 2 0.00
203 46 0.09
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (201 bp):
AAAAAATATCGACACAAACTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACC
GGTATATTTATACCGATTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTT
TTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCTTGCACCTAGTTTGGGCATTCATT
CTGGAC
Found at i:900151 original size:391 final size:398
Alignment explanation
Indices: 899417--900173 Score: 1181
Period size: 391 Copynumber: 1.9 Consensus size: 398
899407 CGCGAAATTT
* *
899417 AAAAAAATATCGACACAAATTTAAAAAGTGTCGATACATTATGTATACCTATTCTCTCTTAAAAC
1 AAAAAAATATCGACACAAACTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCTT---A-
* * * * *
899482 CGGTATATTTATACCAGTTACATTGGAAATTTAAGTATTACATTTTAATTATCGGTTTTGATGTT
62 C-GTATA-TTATACCAGTTACATTGAAAAATTAACTATTACATTATAATTATCGGTTTCGATGTT
* * *
899547 TTTGGGATCGATATTTTTTATAAATGTATCGACACTTTATGCTTGCACCTAGTTTAGGCATTCAT
125 TTTGGGATCGATACTTTTCATAAATGTATCGACACTTTATGCATGCACCTAGTTTAGGCATTCAT
* * * * *
899612 TCTGGACGAAAAGTATCGACACAAATTTAAAAAGTGTCGATATATTATGTAGACCTATTCTCTCA
190 TCTGGACAAAAAGTATCGACACAAACTTAAAAAGTGTCGATACATTATGTAGACATATTCTCACA
899677 TAAAACCGGTATATTTATACCGATTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTC
255 TAAAACCGGTATATTTATACCGATTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTC
*
899742 GATGTTCTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGTGTGCACCTAGTTTGGGC
320 GATGTTCTTGGGATCGATACGTTTTATAAATGTATCGACACTTTATGTGTGCACCTAGTTTGGGC
899807 ATTAATTCTAGACA
385 ATTAATTCTAGACA
899821 AAAAAAATATCGACACAAACTTAAAAAGTGTCGATACATTATGTAGACCTA-T-TCTC-T-C-T-
1 AAAAAAATATCGACACAAACTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCTTACGTA
*
899880 TA-TATACC-GATTACATTGAAAAATTACCTATTACATTATAATTAT-GAGTTTCGATGTTTTTG
66 TATTATACCAG-TTACATTGAAAAATTAACTATTACATTATAATTATCG-GTTTCGATGTTTTTG
*
899942 GGATCGATACTTTTCATAAATGTATCGACACTTTATGCATGCACCTAGTTTGGGCATTCATTCTG
129 GGATCGATACTTTTCATAAATGTATCGACACTTTATGCATGCACCTAGTTTAGGCATTCATTCTG
* *
900007 GACAAAAAGTATCGACACAAACTTAAAAAGTGTCGATACATTATGTAGACATGTTTTCACATAAA
194 GACAAAAAGTATCGACACAAACTTAAAAAGTGTCGATACATTATGTAGACATATTCTCACATAAA
*
900072 ACCGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATG
259 ACCGGTATATTTATACCGATTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATG
*
900137 TTTTTGGGATCGATACGTTTTATAAATGTATCGACAC
324 TTCTTGGGATCGATACGTTTTATAAATGTATCGACAC
900174 ATATGTTTAC
Statistics
Matches: 329, Mismatches: 22, Indels: 17
0.89 0.06 0.05
Matches are distributed among these distances:
390 2 0.01
391 268 0.81
393 2 0.01
394 1 0.00
396 1 0.00
401 1 0.00
402 4 0.01
403 1 0.00
404 49 0.15
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.37
Consensus pattern (398 bp):
AAAAAAATATCGACACAAACTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCTTACGTA
TATTATACCAGTTACATTGAAAAATTAACTATTACATTATAATTATCGGTTTCGATGTTTTTGGG
ATCGATACTTTTCATAAATGTATCGACACTTTATGCATGCACCTAGTTTAGGCATTCATTCTGGA
CAAAAAGTATCGACACAAACTTAAAAAGTGTCGATACATTATGTAGACATATTCTCACATAAAAC
CGGTATATTTATACCGATTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTT
CTTGGGATCGATACGTTTTATAAATGTATCGACACTTTATGTGTGCACCTAGTTTGGGCATTAAT
TCTAGACA
Found at i:900646 original size:19 final size:19
Alignment explanation
Indices: 900622--900670 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
900612 TTACATTCAC
900622 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
* *
900641 ATACAAATTTATAAATCTT
1 ATACAAAATTATAAATCGT
900660 ATACAAAATTA
1 ATACAAAATTA
900671 ACCCTACATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.53, C:0.10, G:0.02, T:0.35
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:902258 original size:18 final size:19
Alignment explanation
Indices: 902224--902263 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
902214 TCCTCCTCAT
*
902224 TTCCTCCATATTTTTCTTC
1 TTCCTCCATACTTTTCTTC
902243 TTCCTCCAT-CTTTTCTTC
1 TTCCTCCATACTTTTCTTC
902261 TTC
1 TTC
902264 ATATTTTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.07, C:0.35, G:0.00, T:0.57
Consensus pattern (19 bp):
TTCCTCCATACTTTTCTTC
Found at i:902484 original size:33 final size:33
Alignment explanation
Indices: 902447--902513 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
902437 CCATCTTAAG
*
902447 TTCACCCCTCAACACCTCAACTTCTTTCACCAC
1 TTCACCACTCAACACCTCAACTTCTTTCACCAC
*
902480 TTCACCACTCAATACCTCAACTTCTTTCACCAC
1 TTCACCACTCAACACCTCAACTTCTTTCACCAC
902513 T
1 T
902514 CCATCTATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.25, C:0.45, G:0.00, T:0.30
Consensus pattern (33 bp):
TTCACCACTCAACACCTCAACTTCTTTCACCAC
Found at i:902998 original size:22 final size:23
Alignment explanation
Indices: 902970--903026 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 23
902960 AACCTGTATT
*
902970 TATAATAAAAT-TTATCATTTTA
1 TATAATAAAATACTATCATTTTA
*
902992 TATAATAACTATACTATCATTTTA
1 TATAATAA-AATACTATCATTTTA
903016 TATAA-AAAATA
1 TATAATAAAATA
903027 AAAACATTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 11 0.37
23 4 0.13
24 15 0.50
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (23 bp):
TATAATAAAATACTATCATTTTA
Found at i:904893 original size:180 final size:180
Alignment explanation
Indices: 904673--905055 Score: 400
Period size: 181 Copynumber: 2.1 Consensus size: 180
904663 TTGTTTCTAA
* *
904673 TTATATATTTTAATTATAGTAACAAAATGTATAGTCACAAATGATTAT-C-TCCA-A-TTTTTGG
1 TTATATATTTTAATTATAGTGACAAAATATATAGTCACAAA-GATT-TCCTTCCATATTTTTTGG
* * * ** * *
904734 TAAAAAACAAAATTATATAGTGACATGTTTTGTAACTAT-ACGCTATAATTATTGTTACAAAAAA
64 CAAAAAA-AAAATCATATAATGACAAATTTTGTAACTATAACG-T-TAATAATTATTACAAAAAA
* * *
904798 AATTGTCACAACAAATAATGAGATTCAAGTTTTTAGTAAAAAATAATATTTTTCG
126 AATTGTCACAAAAAATAATGAGATTCAAGTTTTTAGTAAAAAATAATATTTGTAG
* * *
904853 TTATATGTTTTAATTATAGTGACAAAGTATATTA-TCACAAAGATTTCCTTCCATATTTTTTTGC
1 TTATATATTTTAATTATAGTGACAAAATATA-TAGTCACAAAGATTTCCTTCCATATTTTTTGGC
** * * *
904917 GCAAAAAAAGTCATATAATGACAAATTTTGTAACTATAAATGTTAATAATTATTACAAAAAACAT
65 AAAAAAAAAATCATATAATGACAAATTTTGTAACTAT-AACGTTAATAATTATTACAAAAAAAAT
* * * * * * *
904982 TGTCACAAAAAATAATTATATTCACGTTTTTTGTGACAAATTATATTTGTAG
129 TGTCACAAAAAATAATGAGATTCAAGTTTTTAGTAAAAAATAATATTTGTAG
* *
905034 TTATAAATTTTAACTATAGTGA
1 TTATATATTTTAATTATAGTGA
905056 TAGCATATAT
Statistics
Matches: 166, Mismatches: 30, Indels: 13
0.79 0.14 0.06
Matches are distributed among these distances:
178 1 0.01
179 5 0.03
180 38 0.23
181 109 0.66
182 11 0.07
183 2 0.01
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.39
Consensus pattern (180 bp):
TTATATATTTTAATTATAGTGACAAAATATATAGTCACAAAGATTTCCTTCCATATTTTTTGGCA
AAAAAAAAATCATATAATGACAAATTTTGTAACTATAACGTTAATAATTATTACAAAAAAAATTG
TCACAAAAAATAATGAGATTCAAGTTTTTAGTAAAAAATAATATTTGTAG
Found at i:905335 original size:63 final size:64
Alignment explanation
Indices: 905235--905363 Score: 145
Period size: 63 Copynumber: 2.0 Consensus size: 64
905225 TAATCATTAT
* * * * * * *
905235 AAATTTATACTATCATAACCATTTATCCTTATTTTTTA-GTGTCAAAAATATTATATAGTAACA
1 AAATATATACTATCATAAACATTTATCCTTATATTTTATGCGCCAAAAAAATCATATAGTAACA
* *
905298 AAATATATATTATCATAAAGATTT-TCCTCTATATTTTATTGCGCCAAAAAAATCATATAGTAAC
1 AAATATATACTATCATAAACATTTATCCT-TATATTTTA-TGCGCCAAAAAAATCATATAGTAAC
905362 A
64 A
905363 A
1 A
905364 TTTTTGTAAC
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
62 4 0.07
63 28 0.52
65 22 0.41
ACGTcount: A:0.42, C:0.13, G:0.05, T:0.40
Consensus pattern (64 bp):
AAATATATACTATCATAAACATTTATCCTTATATTTTATGCGCCAAAAAAATCATATAGTAACA
Found at i:905476 original size:19 final size:19
Alignment explanation
Indices: 905437--905481 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
905427 TCACATTTTT
* * *
905437 GTGACAAATTATACTTGTA
1 GTGATAAATTATAATTATA
*
905456 GTTATAAATTATAATTATA
1 GTGATAAATTATAATTATA
905475 GTGATAA
1 GTGATAA
905482 CATATATTGT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.04, G:0.13, T:0.40
Consensus pattern (19 bp):
GTGATAAATTATAATTATA
Found at i:905905 original size:2 final size:2
Alignment explanation
Indices: 905900--905941 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
905890 AATTTCTGTG
905900 AT AT AT -T 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
905941 A
1 A
905942 ATTCAATGAC
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:906674 original size:22 final size:22
Alignment explanation
Indices: 906633--906676 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
906623 TATAGATTTA
* *
906633 AAATTTAAAATATACAAAAAAT
1 AAATATAAAAAATACAAAAAAT
906655 AAATATAAAAAATACTAAAAAA
1 AAATATAAAAAATAC-AAAAAA
906677 AGAAACTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.23
Consensus pattern (22 bp):
AAATATAAAAAATACAAAAAAT
Found at i:907683 original size:24 final size:23
Alignment explanation
Indices: 907649--907693 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
907639 TATGATTTTG
*
907649 TTTAATATTTAATTTATTGTTATA
1 TTTAATATTTAAATT-TTGTTATA
*
907673 TTTAATTTTTAAATTTTGTTA
1 TTTAATATTTAAATTTTGTTA
907694 CAAGTTGAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.64
Consensus pattern (23 bp):
TTTAATATTTAAATTTTGTTATA
Found at i:911508 original size:22 final size:21
Alignment explanation
Indices: 911483--911537 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 21
911473 AATCAATTAG
911483 AACAAGTTTATTTAGTCAAAAT
1 AACAA-TTTATTTAGTCAAAAT
*
911505 AACATATTAAATTTAGTCAAAAT
1 AACA-ATT-TATTTAGTCAAAAT
911528 AA-AACTTTAT
1 AACAA-TTTAT
911538 GTTAAATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
21 3 0.11
22 9 0.32
23 16 0.57
ACGTcount: A:0.49, C:0.09, G:0.05, T:0.36
Consensus pattern (21 bp):
AACAATTTATTTAGTCAAAAT
Found at i:913464 original size:182 final size:183
Alignment explanation
Indices: 913157--913816 Score: 917
Period size: 182 Copynumber: 3.6 Consensus size: 183
913147 GACGCGTACT
* * * *
913157 TATTAAAGTATCGACACTTTCAATATATTCGA-TAGCGCTTCACCGATTTTATCATTTCGAGACC
1 TATTAAAGTATCGACACTTTCAATATATTCCAGTAGCGCTTTATCGGTTTTATCATTTCGAGACC
* * * *
913221 GGTTTTGTCATATTTTTACATGTTATATCGTTATGGATCGATACATTTTTATAAAGTATCGACAT
66 GATTTTGTCATATTTTTACCTGTTATATCATTATGGATCGATACATTTTTATAAAGTATCGACAC
*
913286 TTTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCCAAAGTGTCGATACTTA
131 TTTATAGGCACTATTACTGCTTCTCTTTTAAATTCCCAAAGTGTCGATACTTA
* *
913339 TATTAAAGTATCGACACTTTCAATAT-TTCCAGTAGCGCTTTATCAGTTTTTTCATTTCGAGACC
1 TATTAAAGTATCGACACTTTCAATATATTCCAGTAGCGCTTTATCGGTTTTATCATTTCGAGACC
913403 GATTTTGTCATATTTTTACCTGTTATATCATTATGGATCGATACATTTTTATAAAGTATCGACAC
66 GATTTTGTCATATTTTTACCTGTTATATCATTATGGATCGATACATTTTTATAAAGTATCGACAC
*
913468 TTTATAGGCACTATTATTGCTTCTCTTTTAAATTCCCAAAGTGTCGATACTTA
131 TTTATAGGCACTATTACTGCTTCTCTTTTAAATTCCCAAAGTGTCGATACTTA
* * * * * *
913521 TATTAAAGTATCGTCACTTTCAATATATT-CGGTAGTGTTTTACCGGTTTTATCTTTTCGAGACC
1 TATTAAAGTATCGACACTTTCAATATATTCCAGTAGCGCTTTATCGGTTTTATCATTTCGAGACC
* ** *
913585 GATTTTTTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCAACAC
66 GATTTTGTCATATTTTTACCTGTTATATCATTATGGATCGATACATTTTTATAAAGTATCGACAC
* *
913650 TTTATAGGTACTATTACTGCTTCTCTTTTAAATTTCCAAAG-GTCGATACTTA
131 TTTATAGGCACTATTACTGCTTCTCTTTTAAATTCCCAAAGTGTCGATACTTA
** * *
913702 T-TTCAATCTAATCGACACTTTCAACATA-TCC-GATAGCGCTTTATCGGTTTTGTCATAATT--
1 TATT-AAAGT-ATCGACACTTTCAATATATTCCAG-TAGCGCTTTATCGGTTTTATCAT--TTCG
* * *
913762 AAACCGATTTTTTCATATTTTTACCTGTTATATTGA-TATGGATCGATACATTTTT
61 AGACCGATTTTGTCATATTTTTACCTGTTATA-TCATTATGGATCGATACATTTTT
913817 TATTTGGATC
Statistics
Matches: 430, Mismatches: 39, Indels: 18
0.88 0.08 0.04
Matches are distributed among these distances:
180 2 0.00
181 21 0.05
182 402 0.93
183 3 0.01
184 2 0.00
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.43
Consensus pattern (183 bp):
TATTAAAGTATCGACACTTTCAATATATTCCAGTAGCGCTTTATCGGTTTTATCATTTCGAGACC
GATTTTGTCATATTTTTACCTGTTATATCATTATGGATCGATACATTTTTATAAAGTATCGACAC
TTTATAGGCACTATTACTGCTTCTCTTTTAAATTCCCAAAGTGTCGATACTTA
Found at i:915960 original size:20 final size:19
Alignment explanation
Indices: 915937--915983 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
915927 CGATATACCA
915937 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
915957 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
915977 GGTAAAA
1 GGTAAAA
915984 CGTTACCAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:916060 original size:181 final size:182
Alignment explanation
Indices: 915725--916197 Score: 723
Period size: 181 Copynumber: 2.6 Consensus size: 182
915715 GATCCAAATT
* * * * **
915725 AAAAATGTGTCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCTGTATTGAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
** * * * * *
915790 AAACCGGTAAAGTGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTTC
66 AAACCGGTAAAACGATACCAGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
* *
915855 GTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTA
131 GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
*
915907 AAAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* *
915972 AAACCGGTAAAACGTTACCAGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGATACCAGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
** *
916036 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCGATACTTTAA
131 GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
* * *
916088 AAAAATATATCGATCCACAACGATATAACAGGTAAAAATATGGTAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
916153 AAACCGGTAAAACGATACCAGATATATTGAAAGTGTCGATACTTT
66 AAACCGGTAAAACGATACCAGATATATTGAAAGTGTCGATACTTT
916198 CGTAAGTACG
Statistics
Matches: 266, Mismatches: 25, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
181 170 0.64
182 96 0.36
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (182 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
AAACCGGTAAAACGATACCAGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
Found at i:918410 original size:21 final size:21
Alignment explanation
Indices: 918384--918448 Score: 94
Period size: 21 Copynumber: 3.1 Consensus size: 21
918374 AAGACAATCA
*
918384 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
918405 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* * *
918426 AGAGTTGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
918447 AG
1 AG
918449 GCATAAGGGG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.42, C:0.09, G:0.31, T:0.18
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:918524 original size:33 final size:33
Alignment explanation
Indices: 918482--918547 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
918472 AAATAGATGG
*
918482 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
918515 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
918548 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:920367 original size:19 final size:19
Alignment explanation
Indices: 920343--920391 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
920333 AATGTAGGGT
920343 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
920362 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
920381 TAATTTTGTAT
1 TAATTTTGTAT
920392 GTGAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:920885 original size:200 final size:200
Alignment explanation
Indices: 920542--921734 Score: 2056
Period size: 200 Copynumber: 6.0 Consensus size: 200
920532 ATCATGTGCG
*
920542 AGAATGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCA
1 AGAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCA
* * *
920607 TAAACATCGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGATACAAGTATAC
66 TAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATAC
*
920672 CGGTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCAATATTTTT
131 CGGTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTT
920737 GGTCC
196 GGTCC
*
920742 AGAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCGA
1 AGAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCA
**
920807 TAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATTT
66 TAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATAC
*
920872 CGGTTTTATGAGAGAATAGGTCTAAATAATGTATCAACACTTTTGTAGTTTGTGTCGATATTTTT
131 CGGTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTT
920937 GGTCC
196 GGTCC
920942 AGAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCA
1 AGAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCA
*
921007 TAAATATCGAAACCCATAAGTATAATGTAATAGGTAA-TTTTCAATCTAACCGGTACAAGTATAC
66 TAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATAC
*
921071 CGGTTTTATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTT
131 CGGTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTT
921136 GGTCC
196 GGTCC
* *
921141 AGAATGAATGGCAAACAGGGTGCAACCATAAAATGTCGATCCATATATAAAAAGTGTCGATCCCA
1 AGAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCA
* *
921206 TAAACATCGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAGTATAC
66 TAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATAC
*
921271 CGGTTTTATGAGAGAATAGGTCTAAATAATATATCGACACTTTTGTAGTTTGTGTCGATATTTTT
131 CGGTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTT
921336 GGTCC
196 GGTCC
* * *
921341 AGAATTAATGGAAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCGA
1 AGAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCA
*
921406 TAAACATCGAAACTCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATAC
66 TAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATAC
*
921471 CGGTTTTATGAGAGAATATGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTT
131 CGGTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTT
921536 GGTCC
196 GGTCC
* *
921541 AGAATGAATGGCAAACAAGGTGCAATAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCA
1 AGAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCA
921606 TAAACATCGAAACCCATAAG--T-A--TAAT--G------TTCAATCTAACCGGTACAAGTATAC
66 TAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATAC
* *
921658 CGGTTTTATGAGAGAATAGGTCTAAATCATGTATCGACACTTTTTTAGTTTGTGTCGATATTTTT
131 CGGTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTT
921723 -GTCC
196 GGTCC
921727 AGAATGAA
1 AGAATGAA
921735 ATATTAAAAC
Statistics
Matches: 951, Mismatches: 41, Indels: 16
0.94 0.04 0.02
Matches are distributed among these distances:
186 12 0.01
187 87 0.09
193 1 0.00
195 4 0.00
197 1 0.00
198 1 0.00
199 191 0.20
200 654 0.69
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.31
Consensus pattern (200 bp):
AGAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCA
TAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATAC
CGGTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTT
GGTCC
Found at i:921281 original size:399 final size:399
Alignment explanation
Indices: 920542--921734 Score: 2045
Period size: 399 Copynumber: 3.0 Consensus size: 399
920532 ATCATGTGCG
*
920542 AGAATGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCA
1 AGAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCA
* * *
920607 TAAACATCGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGATACAAGTATAC
66 TAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATAC
*
920672 CGGTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCAATATTTTT
131 CGGTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTT
920737 GGTCCAGAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGA
196 GGTCCAGAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGA
*
920802 TCCGATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAG
261 TCCCATAAACATCGAAACCCA-AAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAG
** *
920867 TATTTCGGTTTTATGAGAGAATAGGTCTAAATAATGTATCAACACTTTTGTAGTTTGTGTCGATA
325 TATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATA
920932 TTTTTGGTCC
390 TTTTTGGTCC
920942 AGAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCA
1 AGAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCA
*
921007 TAAATATCGAAACCCATAAGTATAATGTAATAGGTAA-TTTTCAATCTAACCGGTACAAGTATAC
66 TAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATAC
*
921071 CGGTTTTATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTT
131 CGGTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTT
* *
921136 GGTCCAGAATGAATGGCAAACAGGGTGCAACCATAAAATGTCGATCCATATATAAAAAGTGTCGA
196 GGTCCAGAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGA
*
921201 TCCCATAAACATCGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAG
261 TCCCATAAACATCGAAACCC-AAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAG
*
921266 TATACCGGTTTTATGAGAGAATAGGTCTAAATAATATATCGACACTTTTGTAGTTTGTGTCGATA
325 TATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATA
921331 TTTTTGGTCC
390 TTTTTGGTCC
* * *
921341 AGAATTAATGGAAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCGA
1 AGAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCA
*
921406 TAAACATCGAAACTCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATAC
66 TAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATAC
*
921471 CGGTTTTATGAGAGAATATGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTT
131 CGGTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTT
* *
921536 GGTCCAGAATGAATGGCAAACAAGGTGCAATAATAAAGTGTCGATCCATATATAAAAAGTGTCGA
196 GGTCCAGAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGA
*
921601 TCCCATAAACATCGAAACCC-----ATAA-G---TA--TAA-TGTTCAATCTAACCGGTACAAGT
261 TCCCATAAACATCGAAACCCAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGT
* *
921654 ATACCGGTTTTATGAGAGAATAGGTCTAAATCATGTATCGACACTTTTTTAGTTTGTGTCGATAT
326 ATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATAT
921719 TTTT-GTCC
391 TTTTGGTCC
921727 AGAATGAA
1 AGAATGAA
921735 ATATTAAAAC
Statistics
Matches: 759, Mismatches: 32, Indels: 18
0.94 0.04 0.02
Matches are distributed among these distances:
386 11 0.01
387 87 0.11
388 3 0.00
390 2 0.00
393 1 0.00
394 4 0.01
399 380 0.50
400 271 0.36
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.31
Consensus pattern (399 bp):
AGAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCA
TAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATAC
CGGTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTT
GGTCCAGAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGA
TCCCATAAACATCGAAACCCAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGT
ATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATAT
TTTTGGTCC
Found at i:921848 original size:23 final size:23
Alignment explanation
Indices: 921817--921889 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
921807 ATAGGTAAAA
*
921817 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
921840 ATATAATGTAATATGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
921863 ATATAAAGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
921886 ATAT
1 ATAT
921890 TGTAAAGTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:921914 original size:46 final size:45
Alignment explanation
Indices: 921824--921915 Score: 105
Period size: 46 Copynumber: 2.0 Consensus size: 45
921814 AAAATATGAT
* *
921824 GTAATAGGTAGCGCTTATATAATGTAATATGTAGCGTTTATATAAA
1 GTAATAGGTAGCGCTTATAT-ATGTAATATCTAGCATTTATATAAA
* * *
921870 GTAATAGGTAGTGCTTATAT-TGTAAAGTATCTATCATTTTTATAAA
1 GTAATAGGTAGCGCTTATATATGT-AA-TATCTAGCATTTATATAAA
921916 AGTGTCCATA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
44 3 0.08
45 2 0.05
46 34 0.87
ACGTcount: A:0.36, C:0.07, G:0.17, T:0.40
Consensus pattern (45 bp):
GTAATAGGTAGCGCTTATATATGTAATATCTAGCATTTATATAAA
Found at i:922336 original size:23 final size:23
Alignment explanation
Indices: 922306--922378 Score: 128
Period size: 23 Copynumber: 3.2 Consensus size: 23
922296 ATAGGTAAAA
922306 ATATAATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
922329 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
922352 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
922375 ATAT
1 ATAT
922379 TGTAAAGTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:922822 original size:23 final size:23
Alignment explanation
Indices: 922791--922863 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
922781 ATAGGTAAAA
*
922791 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
922814 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
922837 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
922860 ATAT
1 ATAT
922864 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:923313 original size:23 final size:23
Alignment explanation
Indices: 923282--923354 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
923272 ATAGGTAAAA
*
923282 ATATGATGTAATATGTAGCGCTT
1 ATATAATGTAATATGTAGCGCTT
*
923305 ATATAATGTAATATGTAGCGTTT
1 ATATAATGTAATATGTAGCGCTT
* *
923328 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATATGTAGCGCTT
923351 ATAT
1 ATAT
923355 TGTAAAGTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.34, C:0.05, G:0.19, T:0.41
Consensus pattern (23 bp):
ATATAATGTAATATGTAGCGCTT
Found at i:923360 original size:491 final size:489
Alignment explanation
Indices: 921762--923752 Score: 3468
Period size: 491 Copynumber: 4.1 Consensus size: 489
921752 GTGCAAGCAT
* *
921762 AAAGTGTCGATACTTTTTATAAAAAGTATAGACACTTTCAATATAATAGGTAAAAATATGATGTA
1 AAAGTATCGATCCTTTTTATAAAAAGTATAGACACTTTCAATATAATAGGTAAAAATATGATGTA
* *
921827 ATAGGTAGCGCTTATATAATGTAATATGTAGCGTTTATATAAAGTAATAGGTAGTGCTTATATTG
66 ATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTG
*
921892 TAAAGTATCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAG
131 TAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAG
921957 GTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTT
196 GTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTT
* *
922022 TACGTTATGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATT
261 TACGTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATT
*
922087 ATCTTTGGTTAATATTGTTAAATTTAAATACTAAAAAATATTTTATAAAATATCAAAACAATCAA
326 ATCTTTGGTTAATATTGTTAAATTTAAATACT-AAATATATTTTATAAAATATCAAAACAATCAA
* *
922152 ATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTGTTA
390 ATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTA
*
922217 AAAAAAATTGAAACATAAATTACATAACATTAAAA
455 AAAAAAATTGAAACATAAATTACATAACTTTAAAA
*
922252 AAA-TATCGATCCTTTTTATAAAAAGTATAGACACTTTCAATATAATAGGTAAAAATATAATGTA
1 AAAGTATCGATCCTTTTTATAAAAAGTATAGACACTTTCAATATAATAGGTAAAAATATGATGTA
922316 ATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTG
66 ATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTG
*
922381 TAAAGTATCTATCCATTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAG
131 TAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAG
922446 GTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTA-TTTT
196 GTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTT
*
922510 TACGTTACGGTATATATTATTATTAAATTAAAAACAATAAAC--ATATATTACATATTTATTATT
261 TACGTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATT
922573 ATCTTTGGTTAATATTGTTAAATTTAAATACTAAATA-ATTTTATAAAATATCAAAACAATCAAA
326 ATCTTTGGTTAATATTGTTAAATTTAAATACTAAATATATTTTATAAAATATCAAAACAATCAAA
* * *
922637 T-ATTTTTTGTGTAAATAAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTGTTAA
391 TAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
*
922701 AAAAAATTGAAACATAAATTACATAACTTAAAAAA
456 AAAAAATTGAAACATAAATTACATAACTT-TAAAA
* *
922736 AAAATATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTA
1 AAAGTATCGATCCTTTTTATAAAAAGTATAGACACTTTCAATATAATAGGTAAAAATATGATGTA
922801 ATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTG
66 ATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTG
*
922866 TAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGAAAAACATTAATTTAAG
131 TAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAG
* *
922931 GTTATATTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTAGAGGCGTCTAATGATTTATTTTT
196 GTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTT
* *
922996 TACGTTACGATATATATTATTATTAAATTAAAAATAATAAACATATATATTGCATATTTATTATT
261 TACGTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATT
* *
923061 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATACTATTTTATAAAATAACAAAACAATCAA
326 ATCTTTGGTTAATATTGTTAAATTTAAATACTAAATA-TATTTTATAAAATATCAAAACAATCAA
923126 ATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-
390 ATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTA
923190 AAAAAAATTGAAACATAAATTACATAACTTTAAAAAA
455 AAAAAAATTGAAACATAAATTACATAACTTT--AAAA
* *
923227 AAAGTATTGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTA
1 AAAGTATCGATCCTTTTTATAAAAAGTATAGACACTTTCAATATAATAGGTAAAAATATGATGTA
* *
923292 ATATGTAGCGCTTATATAATGTAATATGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTG
66 ATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTG
* * * *
923357 TAAAGTATTTATCCTTTTTATAAAAGTGTGCATAGTTTTTTCACTGTGGAAAACATTAATTTAAA
131 TAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAG
*
923422 ATTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTT
196 GTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTT
923487 TACGTTACGATATATATTATTATTAAATTAAAAACAAT-AA-ATATATATTAC--ATTTATTATT
261 TACGTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATT
*
923548 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAA
326 ATCTTTGGTTAATATTGTTAAATTTAAATACTAAATA-TATTTTATAAAATATCAAAACAATCAA
*
923613 ATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTATGTGGAAAACATGAAACACTATT-
390 ATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTA
923677 -AAAAAATTGAAACATAAATTACATAACTTTAAAA
455 AAAAAAATTGAAACATAAATTACATAACTTTAAAA
* *
923711 AAAGTATCAATCATTTTTATAAAAAAGTATAGACACTTTCAA
1 AAAGTATCGATCCTTTTTAT-AAAAAGTATAGACACTTTCAA
923753 CATATTATAA
Statistics
Matches: 1442, Mismatches: 48, Indels: 27
0.95 0.03 0.02
Matches are distributed among these distances:
483 90 0.06
484 56 0.04
485 269 0.19
486 127 0.09
487 136 0.09
488 101 0.07
489 254 0.18
490 62 0.04
491 347 0.24
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.40
Consensus pattern (489 bp):
AAAGTATCGATCCTTTTTATAAAAAGTATAGACACTTTCAATATAATAGGTAAAAATATGATGTA
ATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTG
TAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAG
GTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTT
TACGTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATT
ATCTTTGGTTAATATTGTTAAATTTAAATACTAAATATATTTTATAAAATATCAAAACAATCAAA
TAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
AAAAAATTGAAACATAAATTACATAACTTTAAAA
Found at i:923713 original size:974 final size:972
Alignment explanation
Indices: 921762--923752 Score: 3486
Period size: 974 Copynumber: 2.0 Consensus size: 972
921752 GTGCAAGCAT
* *
921762 AAAGTGTCGATACTTTTTATAAAAAGTATAGACACTTTCAATATAATAGGTAAAAATATGATGTA
1 AAAGTATCGATCCTTTTTATAAAAAGTATAGACACTTTCAATATAATAGGTAAAAATATGATGTA
*
921827 ATAGGTAGCGCTTATATAATGTAATATGTAGCGTTTATATAAAGTAATAGGTAGTGCTTATATTG
66 ATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAAAGTAATAGGTAGTGCTTATATTG
*
921892 TAAAGTATCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAG
131 TAAAGTATCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTGAAAAACATTAATTTAAG
* *
921957 GTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTT
196 GTTATATTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTAGAGGCGTCTAATGATTTATTTTT
* *
922022 TACGTTATGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATT
261 TACGTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATT
*
922087 ATCTTTGGTTAATATTGTTAAATTTAAATACTAAAAAATATTTTATAAAATATCAAAACAATCAA
326 ATCTTTGGTTAATATTGTTAAATTTAAATACTAAAAAATATTTTATAAAATAACAAAACAATCAA
* *
922152 ATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTGTTA
391 ATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTA
922217 AAAAAAATTGAAACATAAATTACATAACATTAAAAAAATATCGATCCTTTTTATAAAAAGTATAG
456 AAAAAAATTGAAACATAAATTACATAACATTAAAAAAATATCGATCCTTTTTATAAAAAGTATAG
922282 ACACTTTCAATATAATAGGTAAAAATATAATGTAATAGGTAGCGCTTATATAATGTAATAGGTAG
521 ACACTTTCAATATAATAGGTAAAAATATAATGTAATAGGTAGCGCTTATATAATGTAATAGGTAG
922347 CGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCATTTTATAAAAGTGTCC
586 CGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCATTTTATAAAAGTGTCC
**
922412 ATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAA
651 ATACTTTTTTCACTGTGGAAAACATTAATTTAAAATTATCTTTTGAGTGAGTTTTAAGATATTAA
*
922477 TTTAGTAATTATAGGCGTCTAATGATTTATTTTTACGTTACGGTATATATTATTATTAAATTAAA
716 TTTAGTAATTATAGGCGTCTAATGATTTATTTTTACGTTACGATATATATTATTATTAAATTAAA
922542 AACAATAAACATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATACTAA
781 AACAATAAACATATATTACA-ATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATACTAA
*
922607 ATAATTTTATAAAATATCAAAACAATCAAATATTTTTTGTGTAAATAAAATTATTAAATTAATAT
845 ATAATTTTATAAAATATCAAAACAATCAAATATTTTTTGTGCAAATAAAATTATTAAATTAATAT
*
922672 TGTAGGTGGAAAACATGAAACACTGTTAAAAAAAATTGAAACATAAATTACATAACTTAAAAAA
910 TGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACATAAATTACATAACTTAAAAAA
* *
922736 AAAATATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTA
1 AAAGTATCGATCCTTTTTATAAAAAGTATAGACACTTTCAATATAATAGGTAAAAATATGATGTA
*
922801 ATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTG
66 ATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAAAGTAATAGGTAGTGCTTATATTG
*
922866 TAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGAAAAACATTAATTTAAG
131 TAAAGTATCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTGAAAAACATTAATTTAAG
922931 GTTATATTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTAGAGGCGTCTAATGATTTATTTTT
196 GTTATATTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTAGAGGCGTCTAATGATTTATTTTT
* *
922996 TACGTTACGATATATATTATTATTAAATTAAAAATAATAAACATATATATTGCATATTTATTATT
261 TACGTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATT
* * *
923061 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATACTATTTTATAAAATAACAAAACAATCAA
326 ATCTTTGGTTAATATTGTTAAATTTAAATACTAAAAAATATTTTATAAAATAACAAAACAATCAA
923126 ATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-
391 ATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTA
* *
923190 AAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAAAGTATTGATCCTTTTTATAAAAAGTA
456 AAAAAAATTGAAACATAAATTACATAACATT--AAAAAAA-TATCGATCCTTTTTATAAAAAGTA
* * * *
923255 TGGACACTTTCAATATAATAGGTAAAAATATGATGTAATATGTAGCGCTTATATAATGTAATATG
518 TAGACACTTTCAATATAATAGGTAAAAATATAATGTAATAGGTAGCGCTTATATAATGTAATAGG
* *
923320 TAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATTTATCCTTTTTATAAAAGTG
583 TAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCATTTTATAAAAGTG
* *
923385 TGCATAGTTTTTTCACTGTGGAAAACATTAATTTAAAATTATCTTTTGAGTGAGTTTTAAGATAT
648 TCCATACTTTTTTCACTGTGGAAAACATTAATTTAAAATTATCTTTTGAGTGAGTTTTAAGATAT
923450 TAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAAT
713 TAATTTAGTAATTATAGGCGTCTAATGATTTA-TTTTTACGTTACGATATATATTATTATTAAAT
* *
923515 TAAAAACAATAAATATATATTAC-ATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTC
777 TAAAAACAATAAACATATATTACAATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATAC
*
923579 TAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAAT
842 TAAATA--ATTTTATAAAATATCAAAACAATCAAAT-ATTTTTTGTGCAAATAAAATTATTAAAT
* *
923644 TAATATTGTATGTGGAAAACATGAAACACTATT-AAAAAATTGAAACATAAATTACATAACTT-T
904 TAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTAA
923707 AAAA
969 AAAA
* *
923711 AAAGTATCAATCATTTTTATAAAAAAGTATAGACACTTTCAA
1 AAAGTATCGATCCTTTTTAT-AAAAAGTATAGACACTTTCAA
923753 CATATTATAA
Statistics
Matches: 965, Mismatches: 44, Indels: 14
0.94 0.04 0.01
Matches are distributed among these distances:
973 30 0.03
974 434 0.45
975 74 0.08
976 289 0.30
977 81 0.08
978 57 0.06
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.40
Consensus pattern (972 bp):
AAAGTATCGATCCTTTTTATAAAAAGTATAGACACTTTCAATATAATAGGTAAAAATATGATGTA
ATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAAAGTAATAGGTAGTGCTTATATTG
TAAAGTATCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTGAAAAACATTAATTTAAG
GTTATATTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTAGAGGCGTCTAATGATTTATTTTT
TACGTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATT
ATCTTTGGTTAATATTGTTAAATTTAAATACTAAAAAATATTTTATAAAATAACAAAACAATCAA
ATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTA
AAAAAAATTGAAACATAAATTACATAACATTAAAAAAATATCGATCCTTTTTATAAAAAGTATAG
ACACTTTCAATATAATAGGTAAAAATATAATGTAATAGGTAGCGCTTATATAATGTAATAGGTAG
CGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCATTTTATAAAAGTGTCC
ATACTTTTTTCACTGTGGAAAACATTAATTTAAAATTATCTTTTGAGTGAGTTTTAAGATATTAA
TTTAGTAATTATAGGCGTCTAATGATTTATTTTTACGTTACGATATATATTATTATTAAATTAAA
AACAATAAACATATATTACAATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATACTAAA
TAATTTTATAAAATATCAAAACAATCAAATATTTTTTGTGCAAATAAAATTATTAAATTAATATT
GTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTAAAAAA
Found at i:923873 original size:23 final size:23
Alignment explanation
Indices: 923826--923873 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
923816 AAATAGGTCA
* *
923826 ATATAAGCGCTACCTATTATATT
1 ATATAAACGCTACCTAATATATT
* *
923849 ATATAAACGCTACTTAATATGTT
1 ATATAAACGCTACCTAATATATT
923872 AT
1 AT
923874 TGTACTTTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.40
Consensus pattern (23 bp):
ATATAAACGCTACCTAATATATT
Found at i:927728 original size:2 final size:2
Alignment explanation
Indices: 927721--927754 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
927711 TAAAATCTGC
927721 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
927755 TATTGTGCCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:929453 original size:75 final size:75
Alignment explanation
Indices: 929362--929546 Score: 228
Period size: 75 Copynumber: 2.5 Consensus size: 75
929352 GTTAAATATC
* * * *
929362 AAGACTCAAACTATAATATTAAGTTTAGAATAATAAAATTTATAAACAAATCACATTATTAAAAT
1 AAGACTAAAACCATAATATTAAGTTTAGAATAATAAAATTTATAAACAAACCACAATATTAAAAT
*
929427 GTTAAATCTT
66 GTCAAATCTT
* * * * * *
929437 AATATTTAAACCATAATATTAA-TTCTAGAATAATAAAATTTATAATCAAACCATAATATTAAAG
1 AAGACTAAAACCATAATATTAAGTT-TAGAATAATAAAATTTATAAACAAACCACAATATTAAAA
*
929501 TGTCAAATTTT
65 TGTCAAATCTT
* *
929512 AAGACTAAAACCATAATATTAAGTATAGAAAAATA
1 AAGACTAAAACCATAATATTAAGTTTAGAATAATA
929547 TTAAACAACA
Statistics
Matches: 92, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
74 2 0.02
75 89 0.97
76 1 0.01
ACGTcount: A:0.52, C:0.09, G:0.05, T:0.34
Consensus pattern (75 bp):
AAGACTAAAACCATAATATTAAGTTTAGAATAATAAAATTTATAAACAAACCACAATATTAAAAT
GTCAAATCTT
Found at i:929927 original size:2 final size:2
Alignment explanation
Indices: 929915--929948 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
929905 TGTGATATTA
*
929915 AT AT GT 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
929949 GTAACAACCC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:930695 original size:9 final size:9
Alignment explanation
Indices: 930681--930765 Score: 53
Period size: 10 Copynumber: 8.8 Consensus size: 9
930671 GGCTGCTGGA
930681 AACCGGTTT
1 AACCGGTTT
930690 AACCGGTTTT
1 AACCGG-TTT
*
930700 CAACCAGTTCT
1 -AACCGGTT-T
*
930711 GACCGGTTTT
1 AACCGG-TTT
*
930721 AACCGGTTCG
1 AACCGGTT-T
930731 AACCGGTTT
1 AACCGGTTT
* **
930740 GACCGGTCCG
1 AACCGGT-TT
930750 AACCGGTTT
1 AACCGGTTT
*
930759 GACCGGT
1 AACCGGT
930766 CTGACCCGAC
Statistics
Matches: 57, Mismatches: 13, Indels: 12
0.70 0.16 0.15
Matches are distributed among these distances:
9 20 0.35
10 29 0.51
11 8 0.14
ACGTcount: A:0.19, C:0.27, G:0.26, T:0.28
Consensus pattern (9 bp):
AACCGGTTT
Found at i:930715 original size:21 final size:20
Alignment explanation
Indices: 930690--930758 Score: 70
Period size: 19 Copynumber: 3.5 Consensus size: 20
930680 AAACCGGTTT
930690 AACCGGTTTTCAACCAGTTCTG
1 AACCGGTTTT-AACCAGTTC-G
*
930712 -ACCGGTTTTAACCGGTTCG
1 AACCGGTTTTAACCAGTTCG
* * *
930731 AACCGG-TTTGACCGGTCCG
1 AACCGGTTTTAACCAGTTCG
930750 AACCGGTTT
1 AACCGGTTT
930759 GACCGGTCTG
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
19 18 0.43
20 15 0.36
21 9 0.21
ACGTcount: A:0.19, C:0.28, G:0.25, T:0.29
Consensus pattern (20 bp):
AACCGGTTTTAACCAGTTCG
Found at i:930727 original size:10 final size:10
Alignment explanation
Indices: 930681--930739 Score: 57
Period size: 10 Copynumber: 5.9 Consensus size: 10
930671 GGCTGCTGGA
930681 AACCGG-TTT
1 AACCGGTTTT
930690 AACCGGTTTT
1 AACCGGTTTT
* *
930700 CAACCAGTTCT
1 -AACCGGTTTT
*
930711 GACCGGTTTT
1 AACCGGTTTT
**
930721 AACCGGTTCG
1 AACCGGTTTT
930731 AACCGGTTT
1 AACCGGTTT
930740 GACCGGTCCG
Statistics
Matches: 39, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
9 6 0.15
10 25 0.64
11 8 0.21
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (10 bp):
AACCGGTTTT
Found at i:930729 original size:20 final size:21
Alignment explanation
Indices: 930681--930739 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 21
930671 GGCTGCTGGA
*
930681 AACCGGTT-TAACCGGTTTTC
1 AACCGGTTCTGACCGGTTTTC
*
930701 AACCAGTTCTGACCGGTTTT-
1 AACCGGTTCTGACCGGTTTTC
930721 AACCGGTTC-GAACCGGTTT
1 AACCGGTTCTG-ACCGGTTT
930740 GACCGGTCCG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 1 0.03
20 23 0.68
21 10 0.29
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (21 bp):
AACCGGTTCTGACCGGTTTTC
Found at i:930746 original size:19 final size:19
Alignment explanation
Indices: 930712--930766 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 19
930702 ACCAGTTCTG
* *
930712 ACCGGTTTTAACCGGTTCGA
1 ACCGG-TTTGACCGGTCCGA
930732 ACCGGTTTGACCGGTCCGA
1 ACCGGTTTGACCGGTCCGA
930751 ACCGGTTTGACCGGTC
1 ACCGGTTTGACCGGTC
930767 TGACCCGACC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
19 28 0.85
20 5 0.15
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.25
Consensus pattern (19 bp):
ACCGGTTTGACCGGTCCGA
Found at i:930794 original size:22 final size:22
Alignment explanation
Indices: 930768--930810 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
930758 TGACCGGTCT
930768 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
930790 GACCCGACCCGACCGTTGACC
1 GACCCGACCCGACCGTTGACC
930811 GTTGACCGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.19, C:0.49, G:0.23, T:0.09
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCC
Found at i:930812 original size:7 final size:7
Alignment explanation
Indices: 930800--930830 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
930790 GACCCGACCC
930800 GACCGTT
1 GACCGTT
930807 GACCGTT
1 GACCGTT
930814 GACCGTT
1 GACCGTT
930821 GACCGTT
1 GACCGTT
930828 GAC
1 GAC
930831 TTTCTTTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.26
Consensus pattern (7 bp):
GACCGTT
Found at i:935229 original size:14 final size:14
Alignment explanation
Indices: 935210--935245 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
935200 TTTTGTTGAG
935210 GGCTTCTCGATCAT
1 GGCTTCTCGATCAT
935224 GGCTTCTCGATCAT
1 GGCTTCTCGATCAT
*
935238 TGCTTCTC
1 GGCTTCTC
935246 CTTTGACAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.11, C:0.31, G:0.19, T:0.39
Consensus pattern (14 bp):
GGCTTCTCGATCAT
Found at i:938004 original size:9 final size:9
Alignment explanation
Indices: 937990--938083 Score: 53
Period size: 10 Copynumber: 9.8 Consensus size: 9
937980 GGCTGCTGGA
937990 AACCGGTTT
1 AACCGGTTT
937999 AACCGGTTTT
1 AACCGG-TTT
*
938009 CAACCAGTTCT
1 -AACCGGTT-T
* *
938020 GACTGGTTT
1 AACCGGTTT
*
938029 GACCGGTTT
1 AACCGGTTT
* *
938038 CAATCGGTTCG
1 -AACCGGTT-T
938049 AACCGGTTT
1 AACCGGTTT
* *
938058 GACCGGTCTG
1 AACCGGT-TT
938068 AACCGGTTT
1 AACCGGTTT
*
938077 GACCGGT
1 AACCGGT
938084 CTGACCCGAC
Statistics
Matches: 64, Mismatches: 15, Indels: 12
0.70 0.16 0.13
Matches are distributed among these distances:
9 28 0.44
10 30 0.47
11 6 0.09
ACGTcount: A:0.18, C:0.24, G:0.27, T:0.31
Consensus pattern (9 bp):
AACCGGTTT
Found at i:938056 original size:29 final size:30
Alignment explanation
Indices: 937990--938089 Score: 91
Period size: 29 Copynumber: 3.4 Consensus size: 30
937980 GGCTGCTGGA
*
937990 AACCGGTTTAACCGGTTTTCAACCAGTTCTG
1 AACCGGTTTGACCGG-TTTCAACCAGTTCTG
* * *
938021 -ACTGGTTTGACCGGTTTCAATCGGTTC-G
1 AACCGGTTTGACCGGTTTCAACCAGTTCTG
* * *
938049 AACCGGTTTGACCGGTCTGAACCGGTT-TG
1 AACCGGTTTGACCGGTTTCAACCAGTTCTG
*
938078 -ACCGGTCTGACC
1 AACCGGTTTGACC
938090 CGACCCGACC
Statistics
Matches: 58, Mismatches: 9, Indels: 7
0.78 0.12 0.09
Matches are distributed among these distances:
28 12 0.21
29 34 0.59
30 12 0.21
ACGTcount: A:0.18, C:0.26, G:0.26, T:0.30
Consensus pattern (30 bp):
AACCGGTTTGACCGGTTTCAACCAGTTCTG
Found at i:938064 original size:19 final size:20
Alignment explanation
Indices: 937990--938087 Score: 80
Period size: 19 Copynumber: 5.0 Consensus size: 20
937980 GGCTGCTGGA
* * *
937990 AACCGGTTTAACCGGTTTTC
1 AACCGGTTTGACCGGTTCTG
* *
938010 AACCAGTTCTGACTGGTT-TG
1 AACCGGTT-TGACCGGTTCTG
* *
938030 -ACCGGTTTCAATCGGTTC-G
1 AACCGGTTT-GACCGGTTCTG
938049 AACCGGTTTGACCGG-TCTG
1 AACCGGTTTGACCGGTTCTG
938068 AACCGGTTTGACCGG-TCTG
1 AACCGGTTTGACCGGTTCTG
938087 A
1 A
938088 CCCGACCCGA
Statistics
Matches: 63, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
18 3 0.05
19 37 0.59
20 16 0.25
21 7 0.11
ACGTcount: A:0.18, C:0.24, G:0.27, T:0.31
Consensus pattern (20 bp):
AACCGGTTTGACCGGTTCTG
Found at i:938088 original size:9 final size:9
Alignment explanation
Indices: 938050--938089 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
938040 ATCGGTTCGA
*
938050 ACCGGTTTG
1 ACCGGTCTG
938059 ACCGGTCTG
1 ACCGGTCTG
*
938068 AACCGGTTTG
1 -ACCGGTCTG
938078 ACCGGTCTG
1 ACCGGTCTG
938087 ACC
1 ACC
938090 CGACCCGACC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
9 19 0.70
10 8 0.30
ACGTcount: A:0.15, C:0.30, G:0.30, T:0.25
Consensus pattern (9 bp):
ACCGGTCTG
Found at i:938096 original size:5 final size:5
Alignment explanation
Indices: 938086--938172 Score: 66
Period size: 5 Copynumber: 15.8 Consensus size: 5
938076 TGACCGGTCT
* *
938086 GACCC GACCC GACCGTT GACCC GACCC GACCC GACCGTT GACCC GACCC
1 GACCC GACCC GACC--C GACCC GACCC GACCC GACC--C GACCC GACCC
* *
938135 GACCC GACCGTT GACCGTT GACCC GACCC GACCC GACC
1 GACCC GACC--C GACC--C GACCC GACCC GACCC GACC
938173 GTTGACCGTT
Statistics
Matches: 70, Mismatches: 6, Indels: 12
0.80 0.07 0.14
Matches are distributed among these distances:
5 51 0.73
7 19 0.27
ACGTcount: A:0.18, C:0.49, G:0.23, T:0.09
Consensus pattern (5 bp):
GACCC
Found at i:938151 original size:29 final size:29
Alignment explanation
Indices: 938103--938186 Score: 145
Period size: 29 Copynumber: 3.0 Consensus size: 29
938093 CCCGACCGTT
*
938103 GACCCGACCCGACC--CGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCGTTGACCC
938130 GACCCGACCCGACCGTTGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCGTTGACCC
938159 GACCCGACCCGACCGTTGACCGTTGACC
1 GACCCGACCCGACCGTTGACCGTTGACC
938187 GTTGACTTTC
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
27 14 0.26
29 40 0.74
ACGTcount: A:0.18, C:0.46, G:0.24, T:0.12
Consensus pattern (29 bp):
GACCCGACCCGACCGTTGACCGTTGACCC
Found at i:938179 original size:17 final size:15
Alignment explanation
Indices: 938084--938172 Score: 61
Period size: 17 Copynumber: 5.4 Consensus size: 15
938074 TTTGACCGGT
938084 CTGACCCGACCCGAC
1 CTGACCCGACCCGAC
938099 CGTTGACCCGACCCGAC
1 C--TGACCCGACCCGAC
* *
938116 CCGACCGTTGACCCGAC
1 CTGACC--CGACCCGAC
* *
938133 CCGACCCGACCGTTGAC
1 CTGACCCGACC--CGAC
938150 CGTTGACCCGACCCGAC
1 C--TGACCCGACCCGAC
*
938167 CCGACC
1 CTGACC
938173 GTTGACCGTT
Statistics
Matches: 59, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
15 13 0.22
17 37 0.63
19 9 0.15
ACGTcount: A:0.18, C:0.49, G:0.22, T:0.10
Consensus pattern (15 bp):
CTGACCCGACCCGAC
Found at i:938179 original size:22 final size:22
Alignment explanation
Indices: 938086--938167 Score: 137
Period size: 22 Copynumber: 3.6 Consensus size: 22
938076 TGACCGGTCT
938086 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
938108 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
*
938130 GACCCGACCCGACCGTTGACCGTT
1 GACCCGACCCGACCGTTGACC--C
938154 GACCCGACCCGACC
1 GACCCGACCCGACC
938168 CGACCGTTGA
Statistics
Matches: 57, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
22 43 0.75
24 14 0.25
ACGTcount: A:0.18, C:0.49, G:0.23, T:0.10
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCC
Found at i:940180 original size:21 final size:21
Alignment explanation
Indices: 940128--940180 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
940118 CATGTTGTCC
* * *
940128 CCGAAACGTTCCCAGCGAGTA
1 CCGAAACGTCCCCAACGAGCA
* *
940149 CCAAAATGTCCCCAACGAGCA
1 CCGAAACGTCCCCAACGAGCA
*
940170 TCGAAACGTCC
1 CCGAAACGTCC
940181 TTGTATTGTT
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.32, C:0.36, G:0.19, T:0.13
Consensus pattern (21 bp):
CCGAAACGTCCCCAACGAGCA
Found at i:940892 original size:21 final size:21
Alignment explanation
Indices: 940857--940907 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 21
940847 ACCCTTGCTA
940857 TAATTTCAAAATCCA-AAATTCT
1 TAATTTC--AATCCATAAATTCT
940879 TACATTTCAATCCATAAATTCT
1 TA-ATTTCAATCCATAAATTCT
940901 TAATTTC
1 TAATTTC
940908 TCAAAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
21 11 0.41
22 11 0.41
23 5 0.19
ACGTcount: A:0.39, C:0.20, G:0.00, T:0.41
Consensus pattern (21 bp):
TAATTTCAATCCATAAATTCT
Found at i:943229 original size:31 final size:31
Alignment explanation
Indices: 943154--943230 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 31
943144 ATCTATGTTA
* *
943154 TTCGAGACATATGGACTGATTACCTATGATC
1 TTCGGGACATATGGACTGATTACCTAAGATC
* *
943185 TTCGGGATATATGGACTGATTACCTAAGTTC
1 TTCGGGACATATGGACTGATTACCTAAGATC
* *
943216 TTTGGGACCTATGGA
1 TTCGGGACATATGGA
943231 TTGGTCATTC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (31 bp):
TTCGGGACATATGGACTGATTACCTAAGATC
Found at i:943875 original size:20 final size:20
Alignment explanation
Indices: 943847--943916 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
943837 TACTGTTCAT
* * * *
943847 TACTGTTCACACAGTATTTG
1 TACTATTCATACAATATTAG
*
943867 TACTATTCATACAATATCAG
1 TACTATTCATACAATATTAG
*
943887 TACTATTCATACATTA-TAG
1 TACTATTCATACAATATTAG
943906 TACTATTCATA
1 TACTATTCATA
943917 AAAACATTTG
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
19 13 0.30
20 30 0.70
ACGTcount: A:0.34, C:0.19, G:0.07, T:0.40
Consensus pattern (20 bp):
TACTATTCATACAATATTAG
Found at i:943909 original size:19 final size:20
Alignment explanation
Indices: 943866--943916 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
943856 CACAGTATTT
943866 GTACTATTCATACAATATCA
1 GTACTATTCATACAATATCA
*
943886 GTACTATTCATACATTAT-A
1 GTACTATTCATACAATATCA
943905 GTACTATTCATA
1 GTACTATTCATA
943917 AAAACATTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 13 0.43
20 17 0.57
ACGTcount: A:0.37, C:0.18, G:0.06, T:0.39
Consensus pattern (20 bp):
GTACTATTCATACAATATCA
Found at i:945472 original size:24 final size:24
Alignment explanation
Indices: 945444--945499 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
945434 TGTTCGCTTA
* *
945444 ATGTTCGTGAATGTACTCATTTAT
1 ATGTTCATGAACGTACTCATTTAT
* **
945468 ATGTTCATGAACGTATTTGTTTAT
1 ATGTTCATGAACGTACTCATTTAT
945492 ATGTTCAT
1 ATGTTCAT
945500 TTAATGTTCA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.25, C:0.11, G:0.16, T:0.48
Consensus pattern (24 bp):
ATGTTCATGAACGTACTCATTTAT
Found at i:952849 original size:15 final size:15
Alignment explanation
Indices: 952829--952858 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
952819 TCAGTTAAGG
952829 TTGCTTTCAGTTCGA
1 TTGCTTTCAGTTCGA
*
952844 TTGCTTTCGGTTCGA
1 TTGCTTTCAGTTCGA
952859 GTTACTTTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.20, G:0.23, T:0.47
Consensus pattern (15 bp):
TTGCTTTCAGTTCGA
Found at i:953691 original size:198 final size:196
Alignment explanation
Indices: 953163--953755 Score: 852
Period size: 194 Copynumber: 3.0 Consensus size: 196
953153 TTATAAATGG
** * * * *
953163 TCCATACCTATATAAAAGTATTAATACTTTGTATTTACGT-TTATTATCATTATACCGATAGACT
1 TCCATACCTATATAAAAGTATCGATACTTGGTATTTAC-TCCTATTATCATTATACTGGTAGACT
* * **
953227 TTTACCGTTTACATTGTTAATTTACCTATTACTTTAAAGTAATATGTTTTGAAATTTTAAGTATC
65 TTTACCGTTTACATTGTTAATTTACCTATTACTTTAAAGT-ATAGGTTTCGAAATTCCAAGTATC
* *
953292 AATACTTTATATGTGTATCAATACATTTTGCGTGCAAAGTGTTTGAGAATCATACTGGAATAAAA
129 AATACTTTATATGTGTATCGATACATTTTGCGTGCAAATTGTTTGAGAATCATACTGGAATAAAA
953357 GTA
194 GTA
* * *
953360 TCAATACCTATATAAAAGTATCGATACTTGGTATTTACACCTATTATC---ATACTAGTAGACTT
1 TCCATACCTATATAAAAGTATCGATACTTGGTATTTACTCCTATTATCATTATACTGGTAGACTT
953422 TTACCGTTTACATTGTTAATTTACCTATTACTTTAAAGTGATAGGTTTCGAAATTCCAAGTATCA
66 TTACCGTTTACATTGTTAATTTACCTATTACTTTAAAGT-ATAGGTTTCGAAATTCCAAGTATCA
** * *
953487 ATACTTTATACATGTATCGATACATTTTGCGTGCAAATTGTTTGAGAAGCATACTGAAATAAAAG
130 ATACTTTATATGTGTATCGATACATTTTGCGTGCAAATTGTTTGAGAATCATACTGGAATAAAAG
953552 TA
195 TA
* *
953554 TCCATACCTATATAAAGAGTATCGATACTTGGCATTTACTCCTATTATCATTATACTGGTCGACT
1 TCCATACCTATATAAA-AGTATCGATACTTGGTATTTACTCCTATTATCATTATACTGGTAGACT
*
953619 TTTACCGTTTATATTGTTAATTTACCTATTACTTTAAAGTATTAGGTTTCGAAATTCCAAGTATC
65 TTTACCGTTTACATTGTTAATTTACCTATTACTTTAAAGTA-TAGGTTTCGAAATTCCAAGTATC
* * * * *
953684 GATACTTTTTATATGTGTATTGATATATTTTGCATGCAAATTGTTTAAGAATCATACTGGAATAA
129 AATAC--TTTATATGTGTATCGATACATTTTGCGTGCAAATTGTTTGAGAATCATACTGGAATAA
953749 AAGTA
192 AAGTA
953754 TC
1 TC
953756 AGTTTGGAAA
Statistics
Matches: 353, Mismatches: 35, Indels: 13
0.88 0.09 0.03
Matches are distributed among these distances:
194 147 0.42
195 30 0.08
197 42 0.12
198 77 0.22
200 57 0.16
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.40
Consensus pattern (196 bp):
TCCATACCTATATAAAAGTATCGATACTTGGTATTTACTCCTATTATCATTATACTGGTAGACTT
TTACCGTTTACATTGTTAATTTACCTATTACTTTAAAGTATAGGTTTCGAAATTCCAAGTATCAA
TACTTTATATGTGTATCGATACATTTTGCGTGCAAATTGTTTGAGAATCATACTGGAATAAAAGT
A
Found at i:954088 original size:18 final size:18
Alignment explanation
Indices: 954049--954099 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
954039 ACTTTGGTAA
* * *
954049 TCACATACATAATTTCAT
1 TCACATACAAAATTTAAC
954067 TCACATACAAAATTTAAC
1 TCACATACAAAATTTAAC
*
954085 TCACTTACAAAATTT
1 TCACATACAAAATTT
954100 GTTGTAACTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.43, C:0.22, G:0.00, T:0.35
Consensus pattern (18 bp):
TCACATACAAAATTTAAC
Found at i:956358 original size:20 final size:20
Alignment explanation
Indices: 956333--956371 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
956323 GCTCTTTACC
956333 GGTTTTGTCAAATTGAAACT
1 GGTTTTGTCAAATTGAAACT
*
956353 GGTTTTGTCAAATTTAAAC
1 GGTTTTGTCAAATTGAAAC
956372 CTGTTATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (20 bp):
GGTTTTGTCAAATTGAAACT
Found at i:956563 original size:197 final size:197
Alignment explanation
Indices: 956199--956757 Score: 789
Period size: 197 Copynumber: 2.8 Consensus size: 197
956189 GTTATATTGT
* * * ** ** *
956199 CATGTATCTAAGTTGTCGATACTTTATAGGCTCTATTATTACAATTCTTTTAAATTCCTAAAGTA
1 CATGTGTCTAAGGTATCGATACTTTATAAACGATATTATTGCAATTCTTTTAAATTCCTAAAGTA
* * * *
956264 CTGATACTTTGGTTCATATACTTATAAA-AGTATCGATACAAATTTTAGCCATTCTGGTAGCTCT
66 CCGATACTTTGGTACATATACTTATAAACA-TATCGATACAAATTTTAACAATTCTGGTAGCTCT
*
956328 TTACCGGTTTTGTCAAATTGAAACTGGTTTTGTCAAATTTAAACCTGTTATATTATCATCT-GTC
130 TTACCGGTTTTGTCAAATTGAAACCGGTTTTGTCAAATTTAAACCTGTTATATTATCATCTAG-C
956392 GATA
194 GATA
*
956396 CATGTGTCTAAGGTATTGATACTTTATAAACGATATTATTGCAATTCTTTTAAATTCCTAAAGTA
1 CATGTGTCTAAGGTATCGATACTTTATAAACGATATTATTGCAATTCTTTTAAATTCCTAAAGTA
*
956461 CCGATACTTTGGTACATATACTTATAAACATATCGATACAAATTTCAACAATTCTGGTAGCTCTT
66 CCGATACTTTGGTACATATACTTATAAACATATCGATACAAATTTTAACAATTCTGGTAGCTCTT
* * * * *
956526 TATCGGTTTTGTCAAATTGAAACCGATTTTATCAAATTTCAACCTGTTATATTTTCATCTAGCGA
131 TACCGGTTTTGTCAAATTGAAACCGGTTTTGTCAAATTTAAACCTGTTATATTATCATCTAGCGA
956591 TA
196 TA
* ** ** * *
956593 CATGTGTGTAAGGTATCGATACTTTATAGCCGCCATTATTGTAATTCTTTTAAATTCCTATAGTA
1 CATGTGTCTAAGGTATCGATACTTTATAAACGATATTATTGCAATTCTTTTAAATTCCTAAAGTA
* * * * * *
956658 CCGATACTTTGGTACATATACTTACAAACGTATCGATAGAAATTTTAATAATTCCGATAGCTCTT
66 CCGATACTTTGGTACATATACTTATAAACATATCGATACAAATTTTAACAATTCTGGTAGCTCTT
956723 TACCGGTTTTGTCAAATTGAAACCGGTTTTGTCAA
131 TACCGGTTTTGTCAAATTGAAACCGGTTTTGTCAA
956758 TTTCCAATCG
Statistics
Matches: 322, Mismatches: 38, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
197 320 0.99
198 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.40
Consensus pattern (197 bp):
CATGTGTCTAAGGTATCGATACTTTATAAACGATATTATTGCAATTCTTTTAAATTCCTAAAGTA
CCGATACTTTGGTACATATACTTATAAACATATCGATACAAATTTTAACAATTCTGGTAGCTCTT
TACCGGTTTTGTCAAATTGAAACCGGTTTTGTCAAATTTAAACCTGTTATATTATCATCTAGCGA
TA
Found at i:956749 original size:20 final size:20
Alignment explanation
Indices: 956724--956781 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
956714 ATAGCTCTTT
*
956724 ACCGGTTTTGTCAAATTGAA
1 ACCGGTTTTGTCAAATTCAA
* *
956744 ACCGGTTTTGTCAATTTCCA
1 ACCGGTTTTGTCAAATTCAA
*
956764 ATCGGTTTTGTCAAATTC
1 ACCGGTTTTGTCAAATTC
956782 GTTGTAACAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.40
Consensus pattern (20 bp):
ACCGGTTTTGTCAAATTCAA
Found at i:961738 original size:12 final size:12
Alignment explanation
Indices: 961721--961748 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
961711 TTTTCTTTCA
961721 GAAATCATTTTT
1 GAAATCATTTTT
961733 GAAATCATTTTT
1 GAAATCATTTTT
961745 GAAA
1 GAAA
961749 CACTACTCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.39, C:0.07, G:0.11, T:0.43
Consensus pattern (12 bp):
GAAATCATTTTT
Found at i:965753 original size:20 final size:21
Alignment explanation
Indices: 965699--965761 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 21
965689 GATTCCCCTG
965699 TGGGGGGAATCGGTTCCCCTTCAA
1 TGGGGGG-ATCGGTT-CCC-TCAA
* *
965723 AGGGGGAATCGGTTCCCTC-A
1 TGGGGGGATCGGTTCCCTCAA
*
965743 TGGGGGGATCGATTCCCTC
1 TGGGGGGATCGGTTCCCTC
965762 TGCACCAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 17 0.50
21 2 0.06
22 3 0.09
23 7 0.21
24 5 0.15
ACGTcount: A:0.16, C:0.25, G:0.35, T:0.24
Consensus pattern (21 bp):
TGGGGGGATCGGTTCCCTCAA
Found at i:972662 original size:13 final size:14
Alignment explanation
Indices: 972644--972678 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
972634 ATGGGAAAAT
*
972644 TTTGAAAACT-ATG
1 TTTGAAAAATGATG
972657 TTTGAAAAATGATG
1 TTTGAAAAATGATG
972671 TTTGAAAA
1 TTTGAAAA
972679 TCAATATGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.43, C:0.03, G:0.17, T:0.37
Consensus pattern (14 bp):
TTTGAAAAATGATG
Found at i:973261 original size:44 final size:44
Alignment explanation
Indices: 973162--973264 Score: 138
Period size: 44 Copynumber: 2.3 Consensus size: 44
973152 TACACTGCAG
* * *
973162 AGTGTATCGATACACGTTCAAGGAATGCATCAGAGCATCTTCAT
1 AGTGTATCGATGCACATTCAAGGAATGCATAAGAGCATCTTCAT
*
973206 AGTGTATCGATGCATATTCAAGGAATGCATAAGTA-CA-CTTTCAT
1 AGTGTATCGATGCACATTCAAGGAATGCATAAG-AGCATC-TTCAT
973250 AGTGTATCGATGCAC
1 AGTGTATCGATGCAC
973265 TTAGCACAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
43 1 0.02
44 50 0.96
45 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.29
Consensus pattern (44 bp):
AGTGTATCGATGCACATTCAAGGAATGCATAAGAGCATCTTCAT
Found at i:979096 original size:74 final size:75
Alignment explanation
Indices: 979016--979180 Score: 251
Period size: 74 Copynumber: 2.2 Consensus size: 75
979006 TTAAATGTTC
* * * *
979016 AGGGGTATCGGTACCCATTGGGCATTCCGTTTTTCTCGGAGCCAAAATTGGCATAGGGTTATCGG
1 AGGGGTATCGGTACCCATTGAGCATTCCGTTTTTCTCAGAGCCAAAAATGGCATAGGGGTATCGG
*
979081 T-ACCTTATG
66 TAACCCTATG
* *
979090 AGGGGTATCGGTACCCATTTAGCATTCTGTTTTTCTCAGAGCCAAAAATGGCATAGGGGTATCGG
1 AGGGGTATCGGTACCCATTGAGCATTCCGTTTTTCTCAGAGCCAAAAATGGCATAGGGGTATCGG
979155 TACACCCTATG
66 TA-ACCCTATG
979166 AGGGGTATCGGTACC
1 AGGGGTATCGGTACC
979181 TCCTATTTAA
Statistics
Matches: 82, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
74 60 0.73
76 22 0.27
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (75 bp):
AGGGGTATCGGTACCCATTGAGCATTCCGTTTTTCTCAGAGCCAAAAATGGCATAGGGGTATCGG
TAACCCTATG
Found at i:981611 original size:20 final size:20
Alignment explanation
Indices: 981578--981617 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
981568 TCATTTTGAT
*
981578 TTTCAAAATCAATT-TTTTC
1 TTTCAAAACCAATTATTTTC
981597 TTTCAAAACCAAATTATTTTC
1 TTTCAAAACC-AATTATTTTC
981618 AACTTTGAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 4 0.22
21 5 0.28
ACGTcount: A:0.35, C:0.17, G:0.00, T:0.47
Consensus pattern (20 bp):
TTTCAAAACCAATTATTTTC
Found at i:988956 original size:10 final size:10
Alignment explanation
Indices: 988941--989019 Score: 80
Period size: 10 Copynumber: 8.3 Consensus size: 10
988931 CCGGTTTTCA
988941 ACCGGTTCTG
1 ACCGGTTCTG
988951 ACCGGTT-TG
1 ACCGGTTCTG
* *
988960 ACCGGTTTTA
1 ACCGGTTCTG
988970 ACCGGTTC-G
1 ACCGGTTCTG
988979 AACCGGTT-TG
1 -ACCGGTTCTG
988989 ACCGG-TCTG
1 ACCGGTTCTG
988998 AACCGGTT-TG
1 -ACCGGTTCTG
989008 ACCGG-TCTG
1 ACCGGTTCTG
989017 ACC
1 ACC
989020 CGACCCGACC
Statistics
Matches: 59, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
8 2 0.03
9 26 0.44
10 30 0.51
11 1 0.02
ACGTcount: A:0.15, C:0.28, G:0.29, T:0.28
Consensus pattern (10 bp):
ACCGGTTCTG
Found at i:988965 original size:19 final size:19
Alignment explanation
Indices: 988922--989019 Score: 87
Period size: 19 Copynumber: 5.1 Consensus size: 19
988912 CTGCTGGAAA
* * *
988922 CCGGTTTAACCGGTTTTCAA
1 CCGGTTTGACCGGTTCT-GA
988942 CCGGTTCTGACCGGTT-TGA
1 CCGGTT-TGACCGGTTCTGA
*
988961 CCGGTTTTAACCGGTTC-GAA
1 CCGG-TTTGACCGGTTCTG-A
988981 CCGGTTTGACCGG-TCTGAA
1 CCGGTTTGACCGGTTCTG-A
989000 CCGGTTTGACCGG-TCTGA
1 CCGGTTTGACCGGTTCTGA
989018 CC
1 CC
989020 CGACCCGACC
Statistics
Matches: 69, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
18 5 0.07
19 42 0.61
20 14 0.20
21 8 0.12
ACGTcount: A:0.15, C:0.28, G:0.28, T:0.30
Consensus pattern (19 bp):
CCGGTTTGACCGGTTCTGA
Found at i:988983 original size:29 final size:28
Alignment explanation
Indices: 988921--989019 Score: 126
Period size: 29 Copynumber: 3.4 Consensus size: 28
988911 GCTGCTGGAA
*
988921 ACCGGTTTAACCGGTTTTCAACCGGTTCTG
1 ACCGGTTTGACCGGTTTT-AACCGGTTC-G
988951 ACCGGTTTGACCGGTTTTAACCGGTTCG
1 ACCGGTTTGACCGGTTTTAACCGGTTCG
* * *
988979 AACCGGTTTGACCGGTCTGAACCGGTTTG
1 -ACCGGTTTGACCGGTTTTAACCGGTTCG
*
989008 ACCGGTCTGACC
1 ACCGGTTTGACC
989020 CGACCCGACC
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
28 12 0.19
29 34 0.54
30 17 0.27
ACGTcount: A:0.16, C:0.27, G:0.27, T:0.29
Consensus pattern (28 bp):
ACCGGTTTGACCGGTTTTAACCGGTTCG
Found at i:989037 original size:17 final size:17
Alignment explanation
Indices: 989015--989047 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
989005 TTGACCGGTC
989015 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
*
989032 TGACCCGACCGGACCG
1 TGACCCGACCCGACCG
989048 GACCGTTGAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.45, G:0.27, T:0.09
Consensus pattern (17 bp):
TGACCCGACCCGACCGT
Found at i:989046 original size:22 final size:22
Alignment explanation
Indices: 989016--989058 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
989006 TGACCGGTCT
989016 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
* *
989038 GACCGGACCGGACCGTTGACC
1 GACCCGACCCGACCGTTGACC
989059 GTTGACTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.19, C:0.44, G:0.28, T:0.09
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCC
Found at i:989059 original size:12 final size:12
Alignment explanation
Indices: 989021--989058 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
989011 GGTCTGACCC
989021 GACCCGACCGTT
1 GACCCGACCGTT
989033 GACCCGACCG--
1 GACCCGACCGTT
*
989043 GACCGGACCGTT
1 GACCCGACCGTT
989055 GACC
1 GACC
989059 GTTGACTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
10 9 0.39
12 14 0.61
ACGTcount: A:0.18, C:0.42, G:0.29, T:0.11
Consensus pattern (12 bp):
GACCCGACCGTT
Found at i:995473 original size:10 final size:9
Alignment explanation
Indices: 995458--995536 Score: 68
Period size: 10 Copynumber: 8.3 Consensus size: 9
995448 GCTGCTGGAA
995458 ACCGGTTCTG
1 ACCGGTT-TG
995468 ACCGGTTTG
1 ACCGGTTTG
*
995477 ACCGGTTTCA
1 ACCGGTTT-G
*
995487 ACCGGTTCG
1 ACCGGTTTG
995496 AACCGGTTTG
1 -ACCGGTTTG
*
995506 ACCGGTCTG
1 ACCGGTTTG
*
995515 AATCGGTTTG
1 -ACCGGTTTG
* *
995525 ACTGGTCTG
1 ACCGGTTTG
995534 ACC
1 ACC
995537 CGACCCGACC
Statistics
Matches: 55, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
9 26 0.47
10 29 0.53
ACGTcount: A:0.15, C:0.27, G:0.29, T:0.29
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:995482 original size:19 final size:19
Alignment explanation
Indices: 995457--995534 Score: 79
Period size: 19 Copynumber: 4.1 Consensus size: 19
995447 GGCTGCTGGA
*
995457 AACCGGTTCTGACCGGTTTG
1 AACCGGTT-TGACCGGTCTG
*
995477 -ACCGGTTTCAACCGGT-TCG
1 AACCGGTTT-GACCGGTCT-G
995496 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
* *
995515 AATCGGTTTGACTGGTCTG
1 AACCGGTTTGACCGGTCTG
995534 A
1 A
995535 CCCGACCCGA
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
18 2 0.04
19 39 0.78
20 9 0.18
ACGTcount: A:0.17, C:0.24, G:0.29, T:0.29
Consensus pattern (19 bp):
AACCGGTTTGACCGGTCTG
Found at i:995521 original size:29 final size:29
Alignment explanation
Indices: 995457--995536 Score: 92
Period size: 29 Copynumber: 2.8 Consensus size: 29
995447 GGCTGCTGGA
*
995457 AACCGGTTCTGACCGGTTTGACCGGTTTC
1 AACCGGTTCTGACCGGTTTGACCGGTCTC
*
995486 AACCGGTTC-GAACCGGTTTGACCGGTCTG
1 AACCGGTTCTG-ACCGGTTTGACCGGTCTC
* * *
995515 AATCGGTT-TGACTGGTCTGACC
1 AACCGGTTCTGACCGGTTTGACC
995537 CGACCCGACC
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
28 11 0.25
29 33 0.75
ACGTcount: A:0.16, C:0.26, G:0.29, T:0.29
Consensus pattern (29 bp):
AACCGGTTCTGACCGGTTTGACCGGTCTC
Found at i:995561 original size:22 final size:22
Alignment explanation
Indices: 995533--995575 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
995523 TGACTGGTCT
995533 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
*
995555 GACCCGACCGGACCGTTGACC
1 GACCCGACCCGACCGTTGACC
995576 GTTGACCGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.19, C:0.47, G:0.26, T:0.09
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCC
Found at i:995575 original size:17 final size:17
Alignment explanation
Indices: 995532--995564 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
995522 TTGACTGGTC
995532 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
995549 TGACCCGACCCGACCG
1 TGACCCGACCCGACCG
995565 GACCGTTGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.48, G:0.24, T:0.09
Consensus pattern (17 bp):
TGACCCGACCCGACCGT
Found at i:997504 original size:32 final size:32
Alignment explanation
Indices: 997429--997526 Score: 108
Period size: 32 Copynumber: 3.0 Consensus size: 32
997419 TGAGGTCAAC
* * * *
997429 TTTTGGGTCAGATGATTATCGGATAGGTTG-T
1 TTTTGGGTCGGATCAATATCGGATCGGTTGAT
* *
997460 TTTTCGGTTCGGATCAATATTGGATCGGTTGAT
1 TTTT-GGGTCGGATCAATATCGGATCGGTTGAT
*
997493 TTTTGGGTCGGATCAATATCAGATCGGTTAGAT
1 TTTTGGGTCGGATCAATATCGGATCGGTT-GAT
997526 T
1 T
997527 CGGGTCAGGT
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
31 4 0.07
32 42 0.76
33 9 0.16
ACGTcount: A:0.20, C:0.10, G:0.29, T:0.41
Consensus pattern (32 bp):
TTTTGGGTCGGATCAATATCGGATCGGTTGAT
Found at i:1011763 original size:19 final size:19
Alignment explanation
Indices: 1011721--1011764 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
1011711 AAGGGGATTT
*
1011721 TAAAGAGTTGAAATAAAAA
1 TAAAGAGTTGAAAGAAAAA
*
1011740 T-AAGATTTGAAAGAAAAA
1 TAAAGAGTTGAAAGAAAAA
1011758 TAAAGAG
1 TAAAGAG
1011765 AGTAAAAGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.61, C:0.00, G:0.18, T:0.20
Consensus pattern (19 bp):
TAAAGAGTTGAAAGAAAAA
Found at i:1014731 original size:15 final size:15
Alignment explanation
Indices: 1014711--1014743 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
1014701 TTGTTCATTT
1014711 TTTTTACATTT-TTAA
1 TTTTTA-ATTTATTAA
1014726 TTTTTAATTTATTAA
1 TTTTTAATTTATTAA
1014741 TTT
1 TTT
1014744 GAATTTTGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTTAATTTATTAA
Found at i:1019520 original size:12 final size:12
Alignment explanation
Indices: 1019503--1019537 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
1019493 ATAAACCCTC
1019503 CCCCTTATCAAT
1 CCCCTTATCAAT
1019515 CCCCTTATCAAT
1 CCCCTTATCAAT
*
1019527 CCCCTTTTCAA
1 CCCCTTATCAA
1019538 ACTTAAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.23, C:0.43, G:0.00, T:0.34
Consensus pattern (12 bp):
CCCCTTATCAAT
Found at i:1024892 original size:39 final size:39
Alignment explanation
Indices: 1024838--1024964 Score: 137
Period size: 39 Copynumber: 3.2 Consensus size: 39
1024828 GCCTAAAGTT
* **
1024838 AAAAAACTTAGAGTGAAAACTCGTAAAGGGCGCTCTAAG
1 AAAAAAATTAGAGTGAAAACTCAAAAAGGGCGCTCTAAG
*
1024877 AAAAAAATTAGAGTGAAAACTCAAAAAGGGCGCCCTAAG
1 AAAAAAATTAGAGTGAAAACTCAAAAAGGGCGCTCTAAG
* * * * *
1024916 CCAAAAAAAACTTATAGTGAAAACCCACAAAGGGCACTCTAGG
1 ---AAAAAAA-TTAGAGTGAAAACTCAAAAAGGGCGCTCTAAG
1024959 AAAAAA
1 AAAAAA
1024965 GGTTCAAGAT
Statistics
Matches: 74, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
39 35 0.47
40 6 0.08
42 7 0.09
43 26 0.35
ACGTcount: A:0.50, C:0.17, G:0.19, T:0.14
Consensus pattern (39 bp):
AAAAAAATTAGAGTGAAAACTCAAAAAGGGCGCTCTAAG
Found at i:1026865 original size:225 final size:225
Alignment explanation
Indices: 1025999--1026868 Score: 773
Period size: 225 Copynumber: 3.9 Consensus size: 225
1025989 AAAGATTCGA
* * * *
1025999 AACCGACTGCATTTTGGCATAACTCAACGGCGAGGAGCCATCTTCTAGACAAATCT-TTTCGAAG
1 AACCGACTGCATTTTGGCTTAACTCAGCGGCGAGGAGCCATCTTCCAGTCAAATCTCTTT-GAAG
* * ** * * * ** *
1026063 TCAATCTCAACTCCATGACAGAGGATATTGGGTTTGAAAACTAATCCACAATCGAATATAGTCTA
65 TCAATCTCAACTCCACGACAGAGGATATTAGGTTCAAAAACCAATCCAAAATCGATTGCAATCTA
* * * * * *
1026128 GCTTAAC-TAAGCGGTGATAAGCTAGTTTATAGTCGAAGTTTTCAGGCCAAATCTCAACTTCATG
130 GCTTAACTTAA-CGGCGATGAGCTAGTTTCTAGTCAAAGTTTTCAGGCCAAGTCTCAACTTCACG
* * *
1026192 AAA-AAAATTTCTTGACCCA-GAAACACATCCAA
194 AAAGAAGA-TTCTTGA-CCAGGAAACACATCTAG
* * * * * * * *
1026224 AATCGACTGTATTTTGGCTTAACTCATCGGTGATGAGCTATCTTCTAGTCAAATATCTTTGAAGT
1 AACCGACTGCATTTTGGCTTAACTCAGCGGCGAGGAGCCATCTTCCAGTCAAATCTCTTTGAAGT
* * * * *
1026289 CAATTTCAACTCCACGACAGATGATATTAAGTCCAAAAACCAATCCAAAATCGACTGCAATCTAG
66 CAATCTCAACTCCACGACAGAGGATATTAGGTTCAAAAACCAATCCAAAATCGATTGCAATCTAG
* * *** * * * * *
1026354 TTTAAATTAATTACAAGGAGCTAGTTTCTAATCAAAAGTTTTCAGGCCAAGTCTCAATTTTAC-A
131 CTTAACTTAACGGCGATGAGCTAGTTTCTAGTC-AAAGTTTTCAGGCCAAGTCTCAACTTCACGA
* * * **
1026418 ACGAAGGATTATTGACCCGGAAACTTATCTAG
195 AAGAA-GATTCTTGACCAGGAAACACATCTAG
** * * * *
1026450 AACCGACTATATTTTGGATTAACTCAGCGACGAGGAGCCATCTTCCAGTTAAATCTCTTTAAAGT
1 AACCGACTGCATTTTGGCTTAACTCAGCGGCGAGGAGCCATCTTCCAGTCAAATCTCTTTGAAGT
* ** * * *
1026515 CAATCTCAACTCTACG-GTGAAGGATATTAGGTTCGAAAACCAATCCAGAATCAGCTT-CAATCT
66 CAATCTCAACTCCACGACAG-AGGATATTAGGTTCAAAAACCAATCCAAAATC-GATTGCAATCT
* * * * * *
1026578 AGCTTAACTCAACAGTGATGAGCTAGTTTCCAGTCAAAGTTTTCATGCCAAGTTTCAACTTCACG
129 AGCTTAACTTAACGGCGATGAGCTAGTTTCTAGTCAAAGTTTTCAGGCCAAGTCTCAACTTCACG
* * *
1026643 AAAGATGATTCTTGACCAGGAGACGCATCTAG
194 AAAGAAGATTCTTGACCAGGAAACACATCTAG
* * ** * * *
1026675 AACCTACTGCATTTTGGTTTAACTCAGCTCCGAGGAGCAATTTTCCAGTCAAATCTCATTGAAGT
1 AACCGACTGCATTTTGGCTTAACTCAGCGGCGAGGAGCCATCTTCCAGTCAAATCTCTTTGAAGT
* * * * * *
1026740 CGATATCAACTCCACGACGGAGGATATTGGGTTCAAAAACCAATCCAAAATCGATTGTAGTCTAG
66 CAATCTCAACTCCACGACAGAGGATATTAGGTTCAAAAACCAATCCAAAATCGATTGCAATCTAG
* * ** * * * * *
1026805 CTTAACTTAGCGGCGATGAGCTAGTTTTTAGTTGATGTTCTCAGACCAACTCTTAACTTCACGA
131 CTTAACTTAACGGCGATGAGCTAGTTTCTAGTCAAAGTTTTCAGGCCAAGTCTCAACTTCACGA
1026869 CGGAGAATTC
Statistics
Matches: 505, Mismatches: 129, Indels: 22
0.77 0.20 0.03
Matches are distributed among these distances:
224 3 0.01
225 323 0.64
226 176 0.35
227 3 0.01
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (225 bp):
AACCGACTGCATTTTGGCTTAACTCAGCGGCGAGGAGCCATCTTCCAGTCAAATCTCTTTGAAGT
CAATCTCAACTCCACGACAGAGGATATTAGGTTCAAAAACCAATCCAAAATCGATTGCAATCTAG
CTTAACTTAACGGCGATGAGCTAGTTTCTAGTCAAAGTTTTCAGGCCAAGTCTCAACTTCACGAA
AGAAGATTCTTGACCAGGAAACACATCTAG
Found at i:1028211 original size:21 final size:21
Alignment explanation
Indices: 1028187--1028234 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
1028177 ATCCAAGTTG
*
1028187 TTGGGCTTAATTGTGTTGGTC
1 TTGGGCTTAATTGGGTTGGTC
1028208 TTGGGCTTAATTGGGTTGGTC
1 TTGGGCTTAATTGGGTTGGTC
1028229 TTGGGC
1 TTGGGC
1028235 CCAATTAGCC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.08, C:0.10, G:0.38, T:0.44
Consensus pattern (21 bp):
TTGGGCTTAATTGGGTTGGTC
Found at i:1028240 original size:21 final size:21
Alignment explanation
Indices: 1028195--1028240 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
1028185 TGTTGGGCTT
* **
1028195 AATTGTGTTGGTCTTGGGCTT
1 AATTGGGTTGGTCTTGGGCCC
1028216 AATTGGGTTGGTCTTGGGCCC
1 AATTGGGTTGGTCTTGGGCCC
1028237 AATT
1 AATT
1028241 AGCCATAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.13, C:0.13, G:0.33, T:0.41
Consensus pattern (21 bp):
AATTGGGTTGGTCTTGGGCCC
Done.