Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 200 of 235
Found at i:68138197 original size:15 final size:16
Alignment explanation
Indices: 68138172--68138213 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
68138162 CACAAACAAA
68138172 TAATCAATATAACT-GT
1 TAAT-AATATAACTAGT
68138188 TAATAATAT-ACTAGT
1 TAATAATATAACTAGT
*
68138203 TAATATTATAA
1 TAATAATATAA
68138214 TGTACTGATC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 15 0.65
16 5 0.22
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.40
Consensus pattern (16 bp):
TAATAATATAACTAGT
Found at i:68139189 original size:42 final size:42
Alignment explanation
Indices: 68139140--68139251 Score: 154
Period size: 42 Copynumber: 2.7 Consensus size: 42
68139130 CTTCGTTTTC
** * *
68139140 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
*
68139183 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
*
68139224 TCGATGCCATAGCGCAGCTATGGTCTTA
1 TCGATGCCATAGCCCAGCTATGGTCTTA
68139252 TACGAATCAC
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
41 2 0.03
42 59 0.95
43 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:68139326 original size:47 final size:46
Alignment explanation
Indices: 68139225--68139348 Score: 167
Period size: 47 Copynumber: 2.7 Consensus size: 46
68139215 ATTCATATAT
* * * * *
68139225 CGATGCCATAGCGCAGCTATGGTCTTATACGAATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACAC
* * *
68139271 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTATAC-GAAGCACATATCACAC
68139318 CGATGCCATATCCCAGATATGGTCTTATACG
1 CGATGCCATATCCCAGATATGGTCTTATACG
68139349 GAAATCACTC
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
46 27 0.40
47 41 0.60
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (46 bp):
CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACAC
Found at i:68139408 original size:31 final size:31
Alignment explanation
Indices: 68139373--68139552 Score: 245
Period size: 31 Copynumber: 5.8 Consensus size: 31
68139363 CTTGTCACTT
* * *
68139373 GTAGCCAAATCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
68139404 GTAGCCGGAGCTACCATTTTTCATTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
68139435 GTAGCCGGAGCTACCACTTTTCACTGATCAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
68139466 GTAGCCGGAA-CTATCACTTTTCACTGATCAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
*
68139497 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
68139528 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
68139553 TGTCATTTGT
Statistics
Matches: 132, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
30 3 0.02
31 127 0.96
32 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:68139634 original size:50 final size:51
Alignment explanation
Indices: 68139528--68139656 Score: 181
Period size: 50 Copynumber: 2.5 Consensus size: 51
68139518 CACTGATCAG
* * *
68139528 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
* * *
68139579 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATTAGATATGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGT
68139629 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
68139657 TGCCATGGTC
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
50 43 0.61
51 27 0.39
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Found at i:68141877 original size:22 final size:22
Alignment explanation
Indices: 68141836--68141877 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
68141826 TGTTATTAAA
*
68141836 ATGATAAAATTACATTTTTACT
1 ATGATAAAATTACATATTTACT
68141858 ATGATAAAAATTACA-ATTTA
1 ATGAT-AAAATTACATATTTA
68141878 ATTTCGATCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.40
Consensus pattern (22 bp):
ATGATAAAATTACATATTTACT
Found at i:68142593 original size:22 final size:22
Alignment explanation
Indices: 68142568--68142625 Score: 89
Period size: 22 Copynumber: 2.6 Consensus size: 22
68142558 CATGAAGCAA
68142568 CCCCATACCCCCACTACAACAG
1 CCCCATACCCCCACTACAACAG
*
68142590 CCCCGTACCCCCACTACAACAG
1 CCCCATACCCCCACTACAACAG
* *
68142612 TCCCATACCTCCAC
1 CCCCATACCCCCAC
68142626 AGTCCTCGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.28, C:0.55, G:0.05, T:0.12
Consensus pattern (22 bp):
CCCCATACCCCCACTACAACAG
Found at i:68143259 original size:16 final size:15
Alignment explanation
Indices: 68143226--68143268 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
68143216 NNNNNTATTA
68143226 TATTTATTATTATAT
1 TATTTATTATTATAT
68143241 TATTTATT-TTCACTAT
1 TATTTATTATT-A-TAT
68143257 TA-TTATTATTAT
1 TATTTATTATTAT
68143269 TTTCATCATT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
14 3 0.12
15 15 0.60
16 7 0.28
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (15 bp):
TATTTATTATTATAT
Found at i:68143268 original size:21 final size:21
Alignment explanation
Indices: 68143233--68143283 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 21
68143223 TTATATTTAT
68143233 TATTA-TATTATTTATTTTCA
1 TATTATTATTATTTATTTTCA
68143253 CTATTATTATTA-TTATTTTCA
1 -TATTATTATTATTTATTTTCA
68143274 TCATTATTAT
1 T-ATTATTAT
68143284 ACATATATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 1 0.04
21 22 0.79
22 5 0.18
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (21 bp):
TATTATTATTATTTATTTTCA
Found at i:68144071 original size:91 final size:91
Alignment explanation
Indices: 68143916--68144096 Score: 353
Period size: 91 Copynumber: 2.0 Consensus size: 91
68143906 TTGAAAATCA
*
68143916 TATTCTTGTTTTGCTAAATAATTTCAATAATCAAGGTAATGTATCGATTTAACATTAAGTCATCG
1 TATTCTTGTTTTGCTAAATAATTTCAATAATCAAGGCAATGTATCGATTTAACATTAAGTCATCG
68143981 AGTTCATCGCTATGTTGGGTGAACGG
66 AGTTCATCGCTATGTTGGGTGAACGG
68144007 TATTCTTGTTTTGCTAAATAATTTCAATAATCAAGGCAATGTATCGATTTAACATTAAGTCATCG
1 TATTCTTGTTTTGCTAAATAATTTCAATAATCAAGGCAATGTATCGATTTAACATTAAGTCATCG
68144072 AGTTCATCGCTATGTTGGGTGAACG
66 AGTTCATCGCTATGTTGGGTGAACG
68144097 ACAATTGACT
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 89 1.00
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.38
Consensus pattern (91 bp):
TATTCTTGTTTTGCTAAATAATTTCAATAATCAAGGCAATGTATCGATTTAACATTAAGTCATCG
AGTTCATCGCTATGTTGGGTGAACGG
Found at i:68149255 original size:8 final size:8
Alignment explanation
Indices: 68149242--68149267 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
68149232 AAAATCAAAC
68149242 TTTAAATT
1 TTTAAATT
68149250 TTTAAATT
1 TTTAAATT
68149258 TTTAAATT
1 TTTAAATT
68149266 TT
1 TT
68149268 CAATAAATCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (8 bp):
TTTAAATT
Found at i:68160672 original size:72 final size:73
Alignment explanation
Indices: 68160594--68160809 Score: 204
Period size: 78 Copynumber: 2.9 Consensus size: 73
68160584 TATGTTTTTC
* * *
68160594 AAAAAAATCAACTCATAATGCGAGAGGGGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAAGGCACGTTGAGGTATTTTCAATT
68160659 TATGCT-TT
66 TATG-TGTT
* ** *
68160667 AAAAAAAAAGAGTCAACTCAT-ATGGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTT
1 ---AAAAAA-A-TCAACTCATAAT-GCGAGAGGTGAGTTGAGCCTCAAGGCACGTTGAGGTATTT
*
68160731 TCAATTTTTGTGTT
60 TCAATTTATGTGTT
** ** * * * *
68160745 -TTAATTTCAACTCATATTGCGAGAGGTGAGTCGAGCCTCAAGGCAGGTTGAGGTATTTTAAATT
1 AAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAAGGCACGTTGAGGTATTTTCAATT
68160809 T
66 T
68160810 CTGTCGTCAG
Statistics
Matches: 115, Mismatches: 20, Indels: 14
0.77 0.13 0.09
Matches are distributed among these distances:
72 49 0.43
73 1 0.01
74 2 0.02
76 6 0.05
77 4 0.03
78 53 0.46
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (73 bp):
AAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAAGGCACGTTGAGGTATTTTCAATT
TATGTGTT
Found at i:68161318 original size:74 final size:73
Alignment explanation
Indices: 68161084--68161319 Score: 280
Period size: 74 Copynumber: 3.2 Consensus size: 73
68161074 GAGTTAAGCC
* * * *
68161084 TTTT-AATTTTGGTTTTTCAAAATCAACTCATATCGCTAGAGGTGAGTTGAGCCTCGGGGCAC--
1 TTTTCAATTTTTG-TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACAT
68161146 GCTGAGGTA
65 GCTGAGGTA
* **
68161155 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACAT
1 TTTTCAATTTTTGT-TTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACAT
*
68161220 GCCGAGGTA
65 GCTGAGGTA
** * * ** *
68161229 TTTTCAAAATCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTTGTTCACAT
1 TTTTCAATTTTTGTTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACAT
*
68161294 GCTGAGATA
65 GCTGAGGTA
68161303 TTTTCAATTTTTGTTTT
1 TTTTCAATTTTTGTTTT
68161320 TAATGTCTAT
Statistics
Matches: 137, Mismatches: 23, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
71 5 0.04
72 49 0.36
73 3 0.02
74 80 0.58
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.39
Consensus pattern (73 bp):
TTTTCAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATG
CTGAGGTA
Found at i:68162083 original size:22 final size:22
Alignment explanation
Indices: 68162058--68162115 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
68162048 CATGAAGCAA
68162058 CCCCATACCCCCACTACAACAG
1 CCCCATACCCCCACTACAACAG
68162080 CCCCATACCCCCACTACAACAG
1 CCCCATACCCCCACTACAACAG
* *
68162102 TCCCATACCTCCAC
1 CCCCATACCCCCAC
68162116 AGTCCTCGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.29, C:0.55, G:0.03, T:0.12
Consensus pattern (22 bp):
CCCCATACCCCCACTACAACAG
Found at i:68163258 original size:26 final size:27
Alignment explanation
Indices: 68163225--68163289 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 27
68163215 GTGAATATTG
*
68163225 TATA-TATTTATATATAATATTATTTT
1 TATATTATTTATATATAATATTATTAT
*
68163251 TA-ATTATTGTAT-TTTAATATTATTAT
1 TATATTATT-TATATATAATATTATTAT
*
68163277 TATATTATATATA
1 TATATTATTTATA
68163290 CTTCTTCGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
25 1 0.03
26 23 0.72
27 8 0.25
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (27 bp):
TATATTATTTATATATAATATTATTAT
Found at i:68163276 original size:3 final size:3
Alignment explanation
Indices: 68163242--68163333 Score: 50
Period size: 3 Copynumber: 31.3 Consensus size: 3
68163232 TTATATATAA
* * *
68163242 TAT TAT TTT TAAT TAT T-G TAT T-T TAA TAT TAT TAT TA- TAT TA-
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* ** * *
68163284 TAT ATACT TCT TCG TAT T-T TAT TAT TAT TAT TAG TAT TAT TAT CAT
1 TAT -TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
68163330 TAT T
1 TAT T
68163334 CATATTAGCA
Statistics
Matches: 67, Mismatches: 14, Indels: 16
0.69 0.14 0.16
Matches are distributed among these distances:
2 9 0.13
3 52 0.78
4 5 0.07
5 1 0.01
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:68163444 original size:21 final size:21
Alignment explanation
Indices: 68163409--68163459 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 21
68163399 TTATATTTAT
68163409 TATTA-TATTATTTATTTTCA
1 TATTATTATTATTTATTTTCA
68163429 CTATTATTATTA-TTATTTTCA
1 -TATTATTATTATTTATTTTCA
68163450 TCATTATTAT
1 T-ATTATTAT
68163460 ACATATATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 1 0.04
21 22 0.79
22 5 0.18
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (21 bp):
TATTATTATTATTTATTTTCA
Found at i:68164535 original size:8 final size:8
Alignment explanation
Indices: 68164522--68164547 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
68164512 AAAATCAAAC
68164522 TTTAAATT
1 TTTAAATT
68164530 TTTAAATT
1 TTTAAATT
68164538 TTTAAATT
1 TTTAAATT
68164546 TT
1 TT
68164548 CAATAAATCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (8 bp):
TTTAAATT
Found at i:68165088 original size:15 final size:16
Alignment explanation
Indices: 68165063--68165096 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
68165053 AAAGTTTAAT
68165063 TTTATTATTTTAATAA
1 TTTATTATTTTAATAA
*
68165079 TTTA-TATTTTTATAA
1 TTTATTATTTTAATAA
68165094 TTT
1 TTT
68165097 TTAAAGAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTATTATTTTAATAA
Found at i:68165173 original size:22 final size:22
Alignment explanation
Indices: 68165145--68165188 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
68165135 ACCAAAATAT
*
68165145 AATTTTAT-CATTACTAATTTAA
1 AATTTTATAAATTA-TAATTTAA
68165167 AATTTTATAAATTATAATTTAA
1 AATTTTATAAATTATAATTTAA
68165189 CTTAAATGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (22 bp):
AATTTTATAAATTATAATTTAA
Found at i:68166591 original size:20 final size:21
Alignment explanation
Indices: 68166552--68166591 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
68166542 ATAACAAGTT
68166552 TTGAACATAGATAAACAAAAA
1 TTGAACATAGATAAACAAAAA
68166573 TTGAA-ATA-ATAATACAAAA
1 TTGAACATAGATAA-ACAAAA
68166592 GACAAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 9 0.50
21 5 0.28
ACGTcount: A:0.62, C:0.07, G:0.07, T:0.23
Consensus pattern (21 bp):
TTGAACATAGATAAACAAAAA
Found at i:68167128 original size:16 final size:16
Alignment explanation
Indices: 68167107--68167137 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
68167097 AGCAAACGTG
68167107 AGAAAGAAAGAAATAA
1 AGAAAGAAAGAAATAA
68167123 AGAAAGAAAGAAATA
1 AGAAAGAAAGAAATA
68167138 GAAAAGGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.74, C:0.00, G:0.19, T:0.06
Consensus pattern (16 bp):
AGAAAGAAAGAAATAA
Found at i:68169475 original size:26 final size:26
Alignment explanation
Indices: 68169427--68169479 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
68169417 AAGAATAAAC
* *
68169427 TATATACATAATAGATTTGAAAGGAAA
1 TATATACATAATAAATTT-AAAAGAAA
*
68169454 TATATATA-AATAAATTTAAAAGAAA
1 TATATACATAATAAATTTAAAAGAAA
68169479 T
1 T
68169480 TGCATATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 8 0.35
26 8 0.35
27 7 0.30
ACGTcount: A:0.57, C:0.02, G:0.09, T:0.32
Consensus pattern (26 bp):
TATATACATAATAAATTTAAAAGAAA
Found at i:68171732 original size:13 final size:13
Alignment explanation
Indices: 68171716--68171776 Score: 77
Period size: 13 Copynumber: 4.7 Consensus size: 13
68171706 ACCAAATTTT
68171716 TCAAAAGCACTTC
1 TCAAAAGCACTTC
*
68171729 TCAAAAGCACTTT
1 TCAAAAGCACTTC
* * * *
68171742 TCCACAGTACTTA
1 TCAAAAGCACTTC
68171755 TCAAAAGCACTTC
1 TCAAAAGCACTTC
68171768 TCAAAAGCA
1 TCAAAAGCA
68171777 TTGCCAAACT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 39 1.00
ACGTcount: A:0.39, C:0.28, G:0.08, T:0.25
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:68185030 original size:32 final size:32
Alignment explanation
Indices: 68184989--68185054 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
68184979 TTTTGAATTC
68184989 CTCTGTACAAAGAAACCCTTCAACAAAACTGA
1 CTCTGTACAAAGAAACCCTTCAACAAAACTGA
68185021 CTCTGTACAAAGAAACCCTTCAACAAAACTGA
1 CTCTGTACAAAGAAACCCTTCAACAAAACTGA
68185053 CT
1 CT
68185055 TTTTGATACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.42, C:0.29, G:0.09, T:0.20
Consensus pattern (32 bp):
CTCTGTACAAAGAAACCCTTCAACAAAACTGA
Found at i:68190554 original size:7 final size:7
Alignment explanation
Indices: 68190542--68190645 Score: 63
Period size: 7 Copynumber: 14.3 Consensus size: 7
68190532 TTATTTATAA
68190542 TATATTT
1 TATATTT
68190549 TATATTT
1 TATATTT
* *
68190556 TTTCTTT
1 TATATTT
68190563 TATATTT
1 TATATTT
68190570 TCA-ATTT
1 T-ATATTT
68190577 TAAATATTT
1 T--ATATTT
*
68190586 TCAATTTTT
1 T--ATATTT
68190595 TATGATTT
1 TAT-ATTT
68190603 TATATTT
1 TATATTT
*
68190610 T-T-TAT
1 TATATTT
*
68190615 TATATTC
1 TATATTT
68190622 TATATTTT
1 TATA-TTT
68190630 TATGATTT
1 TAT-ATTT
68190638 TA-ATTT
1 TATATTT
68190644 TA
1 TA
68190646 AAAAATACAA
Statistics
Matches: 77, Mismatches: 12, Indels: 17
0.73 0.11 0.16
Matches are distributed among these distances:
5 3 0.04
6 8 0.10
7 35 0.45
8 18 0.23
9 13 0.17
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (7 bp):
TATATTT
Found at i:68190625 original size:19 final size:17
Alignment explanation
Indices: 68190589--68190644 Score: 71
Period size: 17 Copynumber: 3.3 Consensus size: 17
68190579 AATATTTTCA
68190589 ATTTTTTATGATTTTAT
1 ATTTTTTATGATTTTAT
*
68190606 ATTTTTTATTATATTCTAT
1 ATTTTTTATGAT-TT-TAT
68190625 A-TTTTTATGATTTTA-
1 ATTTTTTATGATTTTAT
68190640 ATTTT
1 ATTTT
68190645 AAAAAATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
15 1 0.03
16 5 0.15
17 13 0.38
18 11 0.32
19 4 0.12
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.70
Consensus pattern (17 bp):
ATTTTTTATGATTTTAT
Found at i:68192215 original size:7 final size:7
Alignment explanation
Indices: 68192203--68192234 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
68192193 AGCATGGGTG
68192203 AAGAACA
1 AAGAACA
68192210 AAGAACA
1 AAGAACA
68192217 AAGAACA
1 AAGAACA
*
68192224 AAGAATA
1 AAGAACA
68192231 AAGA
1 AAGA
68192235 TTGTTGACCG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.72, C:0.09, G:0.16, T:0.03
Consensus pattern (7 bp):
AAGAACA
Found at i:68201262 original size:15 final size:17
Alignment explanation
Indices: 68201232--68201264 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
68201222 TGATAATTCA
68201232 TTCCAATCTATTTATTT
1 TTCCAATCTATTTATTT
68201249 TTCCAAT-T-TTTATTT
1 TTCCAATCTATTTATTT
68201264 T
1 T
68201265 CTCCCCCTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 1 0.06
17 7 0.44
ACGTcount: A:0.21, C:0.15, G:0.00, T:0.64
Consensus pattern (17 bp):
TTCCAATCTATTTATTT
Found at i:68201542 original size:19 final size:18
Alignment explanation
Indices: 68201508--68201549 Score: 66
Period size: 19 Copynumber: 2.3 Consensus size: 18
68201498 AAATAGAAGA
*
68201508 TATTATTTTGTTTTATTT
1 TATTATTTTATTTTATTT
68201526 TATTATTATTATTTTATTT
1 TATTATT-TTATTTTATTT
68201545 TATTA
1 TATTA
68201550 GGATTAAGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (18 bp):
TATTATTTTATTTTATTT
Found at i:68201555 original size:19 final size:19
Alignment explanation
Indices: 68201518--68201555 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
68201508 TATTATTTTG
**
68201518 TTTTATTTTATTATTATTA
1 TTTTATTTTATTAGGATTA
68201537 TTTTATTTTATTAGGATTA
1 TTTTATTTTATTAGGATTA
68201556 AGCTATTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.68
Consensus pattern (19 bp):
TTTTATTTTATTAGGATTA
Found at i:68208184 original size:10 final size:10
Alignment explanation
Indices: 68208169--68208201 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
68208159 GGCAACCCAA
68208169 ATTTATTTTT
1 ATTTATTTTT
*
68208179 ATTTATTTTC
1 ATTTATTTTT
68208189 ATTTA-TTTT
1 ATTTATTTTT
68208198 ATTT
1 ATTT
68208202 TTAGTTTAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 7 0.33
10 14 0.67
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:68208698 original size:11 final size:11
Alignment explanation
Indices: 68208682--68208729 Score: 60
Period size: 11 Copynumber: 4.2 Consensus size: 11
68208672 TGACCCAAAG
68208682 AAAGAAAATAA
1 AAAGAAAATAA
68208693 AAAGAAAATAA
1 AAAGAAAATAA
* *
68208704 AAAAAAAGAGAA
1 AAAGAAA-ATAA
68208716 AAAGAAAATTAA
1 AAAGAAAA-TAA
68208728 AA
1 AA
68208730 CACCCAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
11 18 0.58
12 13 0.42
ACGTcount: A:0.81, C:0.00, G:0.10, T:0.08
Consensus pattern (11 bp):
AAAGAAAATAA
Found at i:68212030 original size:6 final size:5
Alignment explanation
Indices: 68212000--68212041 Score: 57
Period size: 5 Copynumber: 8.0 Consensus size: 5
68211990 ATAGAAGATA
*
68212000 TTATT TTATT TTGTT TTATT ATTATT GTTATT TTATT TTATT
1 TTATT TTATT TTATT TTATT -TTATT -TTATT TTATT TTATT
68212042 AGGATTAAGC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
5 23 0.70
6 10 0.30
ACGTcount: A:0.19, C:0.00, G:0.05, T:0.76
Consensus pattern (5 bp):
TTATT
Found at i:68212033 original size:22 final size:21
Alignment explanation
Indices: 68211998--68212042 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
68211988 AAATAGAAGA
*
68211998 TATTATTTTATTTTGTTTTAT
1 TATTATTTTATTTTATTTTAT
68212019 TATTATTGTTATTTTATTTTAT
1 TATTATT-TTATTTTATTTTAT
68212041 TA
1 TA
68212043 GGATTAAGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.73
Consensus pattern (21 bp):
TATTATTTTATTTTATTTTAT
Found at i:68212426 original size:6 final size:5
Alignment explanation
Indices: 68212396--68212437 Score: 57
Period size: 5 Copynumber: 8.0 Consensus size: 5
68212386 ATAGAAGATA
*
68212396 TTATT TTATT TTGTT TTATT ATTATT GTTATT TTATT TTATT
1 TTATT TTATT TTATT TTATT -TTATT -TTATT TTATT TTATT
68212438 AGGATTAAGC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
5 23 0.70
6 10 0.30
ACGTcount: A:0.19, C:0.00, G:0.05, T:0.76
Consensus pattern (5 bp):
TTATT
Found at i:68212429 original size:22 final size:21
Alignment explanation
Indices: 68212394--68212438 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
68212384 AAATAGAAGA
*
68212394 TATTATTTTATTTTGTTTTAT
1 TATTATTTTATTTTATTTTAT
68212415 TATTATTGTTATTTTATTTTAT
1 TATTATT-TTATTTTATTTTAT
68212437 TA
1 TA
68212439 GGATTAAGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.73
Consensus pattern (21 bp):
TATTATTTTATTTTATTTTAT
Found at i:68216095 original size:33 final size:35
Alignment explanation
Indices: 68216047--68216118 Score: 112
Period size: 33 Copynumber: 2.1 Consensus size: 35
68216037 TAATATAAAT
* *
68216047 ATAAGTAGTCTCTTAAC-AAACTTTCAAGCA-AAC
1 ATAAGTAATCCCTTAACAAAACTTTCAAGCATAAC
68216080 ATAAGTAATCCCTTAACAAAACTTTCAAGCATAAC
1 ATAAGTAATCCCTTAACAAAACTTTCAAGCATAAC
68216115 ATAA
1 ATAA
68216119 CAAAACAGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
33 15 0.43
34 13 0.37
35 7 0.20
ACGTcount: A:0.46, C:0.21, G:0.07, T:0.26
Consensus pattern (35 bp):
ATAAGTAATCCCTTAACAAAACTTTCAAGCATAAC
Found at i:68216414 original size:3 final size:3
Alignment explanation
Indices: 68216341--68216394 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
68216331 CGTATTATGA
68216341 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
68216389 AAT AAT
1 AAT AAT
68216395 GCAAAGAACA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:68217763 original size:4 final size:4
Alignment explanation
Indices: 68217754--68217816 Score: 126
Period size: 4 Copynumber: 15.8 Consensus size: 4
68217744 CACTTACACT
68217754 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
68217802 ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATA
68217817 TACCTTCTTT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 59 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:68219709 original size:31 final size:30
Alignment explanation
Indices: 68219666--68219725 Score: 102
Period size: 31 Copynumber: 2.0 Consensus size: 30
68219656 ACTTTAAAAA
*
68219666 AAAACTTTTGAATAGTTCAATGACCTAAATG
1 AAAACTTGTGAATAGTTCAATGACC-AAATG
68219697 AAAACTTGTGAATAGTTCAATGACCAAAT
1 AAAACTTGTGAATAGTTCAATGACCAAAT
68219726 TGTAACTTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 4 0.14
31 24 0.86
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.30
Consensus pattern (30 bp):
AAAACTTGTGAATAGTTCAATGACCAAATG
Found at i:68220473 original size:26 final size:24
Alignment explanation
Indices: 68220429--68220477 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
68220419 CACCTTTTTT
68220429 ATATTTTTTTTACTTTTAAAAAAA
1 ATATTTTTTTTACTTTTAAAAAAA
68220453 ATATTATTATTTTA-TTCTTAAAAAA
1 ATATT-TT-TTTTACTT-TTAAAAAA
68220478 TATTTATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 5 0.23
25 4 0.18
26 13 0.59
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (24 bp):
ATATTTTTTTTACTTTTAAAAAAA
Found at i:68220786 original size:21 final size:22
Alignment explanation
Indices: 68220755--68220801 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
68220745 TGTCGGGAAG
*
68220755 AAAAGAGAGAA-AGGAGAAGAAA
1 AAAAGAGAGAAGAAGA-AAGAAA
68220777 AAAAGA-AGAAGAAGAAAGAAA
1 AAAAGAGAGAAGAAGAAAGAAA
68220798 AAAA
1 AAAA
68220802 AAGTAATGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (22 bp):
AAAAGAGAGAAGAAGAAAGAAA
Found at i:68221072 original size:92 final size:92
Alignment explanation
Indices: 68220973--68221174 Score: 404
Period size: 92 Copynumber: 2.2 Consensus size: 92
68220963 GTTTTAAAAT
68220973 TAATTTGTTAGTAATTTAGGATTATGTTATAAATTGTTGTGCTTAGTTTAGTATTTGGTGCTTTT
1 TAATTTGTTAGTAATTTAGGATTATGTTATAAATTGTTGTGCTTAGTTTAGTATTTGGTGCTTTT
68221038 TTATTAATGTAAAATTATTTTGTTAAA
66 TTATTAATGTAAAATTATTTTGTTAAA
68221065 TAATTTGTTAGTAATTTAGGATTATGTTATAAATTGTTGTGCTTAGTTTAGTATTTGGTGCTTTT
1 TAATTTGTTAGTAATTTAGGATTATGTTATAAATTGTTGTGCTTAGTTTAGTATTTGGTGCTTTT
68221130 TTATTAATGTAAAATTATTTTGTTAAA
66 TTATTAATGTAAAATTATTTTGTTAAA
68221157 TAATTTGTTAGTAATTTA
1 TAATTTGTTAGTAATTTA
68221175 TTATAAATTG
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 110 1.00
ACGTcount: A:0.29, C:0.02, G:0.16, T:0.53
Consensus pattern (92 bp):
TAATTTGTTAGTAATTTAGGATTATGTTATAAATTGTTGTGCTTAGTTTAGTATTTGGTGCTTTT
TTATTAATGTAAAATTATTTTGTTAAA
Found at i:68221312 original size:100 final size:100
Alignment explanation
Indices: 68221190--68221577 Score: 358
Period size: 103 Copynumber: 3.8 Consensus size: 100
68221180 AATTGTTGTG
* * *
68221190 TTTTGTGAGTTTTTAGTAATGTAAATTTTTAAAAAAAATAATTTTATAGTTATTTTTGCTAGTAG
1 TTTTGTGACTTTTTAGTAATGTAAATTTTTAAAAAAAATAA--TTATAGTTA-TTTTGTTAGTAA
* * *
68221255 TATATGATTAGGTTACAAATTTTTAGTGTTT-TGT-GC
63 TTTATGATTAGGTTATAAATTGTTAGTGTTTATGTAGC
* ** *
68221291 TTTT-TTACTTTTTAGTAATGT-AATTTCTTAAAAAATGTTACA-TATATTTATTTTGTTAGTAA
1 TTTTGTGACTTTTTAGTAATGTAAATTT-TTAAAAAA-AATA-ATTATAGTTATTTTGTTAGTAA
* *
68221353 TTTATGGGATTAGGTTATAAATTGTTAGTGTTTAGTTTAGGG
63 TTTAT--GATTAGGTTATAAATTGTTAGTGTTTA-TGTA-GC
* **
68221395 TTTTGTGATTTTTTAGTAATGTAAATTTTTTTAAAAAA-AATTATAGTTATTTTGTTAGTAATTT
1 TTTTGTGACTTTTTAGTAATGTAAATTTTTAAAAAAAATAATTATAGTTATTTTGTTAGTAATTT
* *
68221459 ATGATTAGGTTATATAAATTGTTAGTGTTTAGTTTAGTA
66 ATGATTAGG-T-TATAAATTGTTAGTGTTTA-TGTAG-C
* * * * * * *
68221498 TTTTGTGATTTTTTTGGTAATGTAATTTTTTTAAAAATAAT-TTTATAATTATTTTGTTAATAAT
1 TTTTGTGA-CTTTTTAGTAATGTAA-ATTTTTAAAAAAAATAATTATAGTTATTTTGTTAGTAAT
*
68221562 TTATGATTAAGTTATA
64 TTATGATTAGGTTATA
68221578 TAAATTGTCA
Statistics
Matches: 240, Mismatches: 29, Indels: 34
0.79 0.10 0.11
Matches are distributed among these distances:
98 14 0.06
99 12 0.05
100 47 0.20
101 13 0.05
102 6 0.03
103 61 0.25
104 21 0.09
105 61 0.25
106 5 0.02
ACGTcount: A:0.31, C:0.02, G:0.14, T:0.53
Consensus pattern (100 bp):
TTTTGTGACTTTTTAGTAATGTAAATTTTTAAAAAAAATAATTATAGTTATTTTGTTAGTAATTT
ATGATTAGGTTATAAATTGTTAGTGTTTATGTAGC
Found at i:68221475 original size:103 final size:104
Alignment explanation
Indices: 68221299--68221616 Score: 428
Period size: 105 Copynumber: 3.0 Consensus size: 104
68221289 GCTTTTTTAC
* * ** * *
68221299 TTTTTAGTAATGTAATTTCTTAAAAAATGTTACATATATTTATTTTGTTAGTAATTTATGGGATT
1 TTTTTAGTAATGTAATTTTTTTAAAAATAATA-TTATAATTATTTTGTTAGTAATTTAT--GATT
*
68221364 AGG-T-TATAAATTGTTAGTGTTTAGTTTAGGGTTTTGTGAT
63 AGGTTATATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGAT
*
68221404 TTTTTAGTAATGTAAATTTTTTTAAAAA-AA-ATTATAGTTATTTTGTTAGTAATTTATGATTAG
1 TTTTTAGTAATGT-AATTTTTTTAAAAATAATATTATAATTATTTTGTTAGTAATTTATGATTAG
*
68221467 GTTATATAAATTGTTAGTGTTTAGTTTAGTATTTTGTGATT
65 GTTATATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGA-T
* * * *
68221508 TTTTTGGTAATGTAATTTTTTTAAAAATAATTTTATAATTATTTTGTTAATAATTTATGATTAAG
1 TTTTTAGTAATGTAATTTTTTTAAAAATAATATTATAATTATTTTGTTAGTAATTTATGATTAGG
* *
68221573 TTATATAAATTGTCAATGTTTAGTTTAGTGTTTTGTGAT
66 TTATATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGAT
68221612 TTTTT
1 TTTTT
68221617 TATGTAATTT
Statistics
Matches: 191, Mismatches: 16, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
101 7 0.04
102 1 0.01
103 71 0.37
104 22 0.12
105 78 0.41
106 12 0.06
ACGTcount: A:0.30, C:0.01, G:0.15, T:0.54
Consensus pattern (104 bp):
TTTTTAGTAATGTAATTTTTTTAAAAATAATATTATAATTATTTTGTTAGTAATTTATGATTAGG
TTATATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGAT
Found at i:68221670 original size:105 final size:104
Alignment explanation
Indices: 68221368--68221645 Score: 296
Period size: 105 Copynumber: 2.7 Consensus size: 104
68221358 GGGATTAGGT
* * ** * * *
68221368 TATAAATTGTTAGTGTTTAGTTTAGGGTTTTGTGATTTTTTAGTAATGTAAATTTTTTTAAAAA-
1 TATAAATTGTCAATGTTTAGTTTAGTATTTTGTGATTTTTTTGTAATGT-AATTTGTATAAAAAT
* * * ** *
68221432 AA-ATTATAGTTATTTTGTTAGTAATTTATGATTAGGTTA
65 AATTTTATAATTATTTTATTAACAATTTATGATTAAGTTA
* * * *
68221471 TATAAATTGTTAGTGTTTAGTTTAGTATTTTGTGATTTTTTTGGTAATGTAATTTTTTTAAAAAT
1 TATAAATTGTCAATGTTTAGTTTAGTATTTTGTGATTTTTTT-GTAATGTAATTTGTATAAAAAT
* *
68221536 AATTTTATAATTATTTTGTTAATAATTTATGATTAAGTTA
65 AATTTTATAATTATTTTATTAACAATTTATGATTAAGTTA
* **
68221576 TATAAATTGTCAATGTTTAGTTTAGTGTTTTGTGA-TTTTTT-T-ATGTAATTTGTATATAATGT
1 TATAAATTGTCAATGTTTAGTTTAGTATTTTGTGATTTTTTTGTAATGTAATTTGTATA-AAAAT
68221638 AATTTTAT
65 AATTTTAT
68221646 TTTTTTATTT
Statistics
Matches: 157, Mismatches: 14, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
101 12 0.08
102 12 0.08
103 53 0.34
104 15 0.10
105 65 0.41
ACGTcount: A:0.30, C:0.00, G:0.14, T:0.55
Consensus pattern (104 bp):
TATAAATTGTCAATGTTTAGTTTAGTATTTTGTGATTTTTTTGTAATGTAATTTGTATAAAAATA
ATTTTATAATTATTTTATTAACAATTTATGATTAAGTTA
Found at i:68224558 original size:31 final size:31
Alignment explanation
Indices: 68224520--68224699 Score: 290
Period size: 31 Copynumber: 5.8 Consensus size: 31
68224510 ACAAATGACA
*
68224520 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
68224551 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
68224582 AGTGAAAAGTGGTAG-TTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTT-CGGCTACCTGATC
*
68224613 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
68224644 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
68224675 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
68224700 AAGTGACAAG
Statistics
Matches: 140, Mismatches: 7, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
30 2 0.01
31 137 0.98
32 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:68224785 original size:47 final size:46
Alignment explanation
Indices: 68224718--68224930 Score: 200
Period size: 47 Copynumber: 4.6 Consensus size: 46
68224708 AGTGATTTCT
* * *
68224718 GTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTAC
1 GTATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGATAC
* * * *
68224764 TGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATTC
1 -GTATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGATAC
* * * *
68224811 GTGTAAGACCATAGCTGGGCTATGGCATCGATATATGATATGTGATTAC
1 GTATAAGACCATAGCTGGGATATGGCATCG--GTGTGATATGTGA-TAC
* * * * *
68224860 GTGTAAGACCATAGCTGGGCTATGGCATC-G-AT-ATATG-AATAT
1 GTATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGATAC
* *
68224902 GTGTAAGACCATAGCTGGGCTATGGCATC
1 GTATAAGACCATAGCTGGGATATGGCATC
68224931 ATTATGTGAA
Statistics
Matches: 147, Mismatches: 16, Indels: 11
0.84 0.09 0.06
Matches are distributed among these distances:
42 31 0.21
43 1 0.01
44 5 0.03
45 2 0.01
46 26 0.18
47 41 0.28
48 10 0.07
49 31 0.21
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.30
Consensus pattern (46 bp):
GTATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGATAC
Found at i:68224872 original size:49 final size:48
Alignment explanation
Indices: 68224721--68224930 Score: 219
Period size: 49 Copynumber: 4.5 Consensus size: 48
68224711 GATTTCTGTA
* * * * * *
68224721 TAAGACCATATCTGGGATATGGCATCGGTGTGAT-ATATGCT-ACT-GTA
1 TAAGACCATAGCTGGGCTATGGCATCGATAT-ATGATATG-TGATTCGTG
* * *
68224768 TAAGACCATATCTGGGATATGGCATC-AGT-GA-GATATGTGATTCGTG
1 TAAGACCATAGCTGGGCTATGGCATCGA-TATATGATATGTGATTCGTG
68224814 TAAGACCATAGCTGGGCTATGGCATCGATATATGATATGTGATTACGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATATGATATGTGATT-CGTG
68224863 TAAGACCATAGCTGGGCTATGGCATCGATATATGA-A--T-A-T-GTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATATGATATGTGATTCGTG
68224905 TAAGACCATAGCTGGGCTATGGCATC
1 TAAGACCATAGCTGGGCTATGGCATC
68224931 ATTATGTGAA
Statistics
Matches: 148, Mismatches: 7, Indels: 21
0.84 0.04 0.12
Matches are distributed among these distances:
42 29 0.20
44 2 0.01
45 9 0.06
46 28 0.19
47 29 0.20
48 12 0.08
49 39 0.26
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.30
Consensus pattern (48 bp):
TAAGACCATAGCTGGGCTATGGCATCGATATATGATATGTGATTCGTG
Found at i:68224906 original size:42 final size:43
Alignment explanation
Indices: 68224811--68224974 Score: 199
Period size: 42 Copynumber: 3.7 Consensus size: 43
68224801 TATGTGATTC
68224811 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGATATGTGATT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGA-A---GA-T
*
68224858 ACGTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 --GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
*
68224902 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* **
68224944 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
68224975 GAAAACGAAG
Statistics
Matches: 107, Mismatches: 6, Indels: 10
0.87 0.05 0.08
Matches are distributed among these distances:
41 1 0.01
42 64 0.60
43 1 0.01
44 1 0.01
45 1 0.01
48 1 0.01
49 38 0.36
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
Found at i:68226739 original size:26 final size:26
Alignment explanation
Indices: 68226710--68226817 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
68226700 TGGTACAAAT
68226710 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
68226736 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
68226762 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
68226788 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
68226814 TGAT
1 TGAT
68226818 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:68232233 original size:19 final size:19
Alignment explanation
Indices: 68232179--68232233 Score: 51
Period size: 19 Copynumber: 3.0 Consensus size: 19
68232169 ATTCAAAAGC
* *
68232179 TAACAAAATTAATAAC--C
1 TAACAAAATTACTAACAAA
* **
68232196 TAACAAAATAACTTTCAAA
1 TAACAAAATTACTAACAAA
68232215 TAACAAAATTACTAACAAA
1 TAACAAAATTACTAACAAA
68232234 ACTCTCCATT
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
17 12 0.43
19 16 0.57
ACGTcount: A:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (19 bp):
TAACAAAATTACTAACAAA
Found at i:68235128 original size:19 final size:20
Alignment explanation
Indices: 68235067--68235131 Score: 78
Period size: 21 Copynumber: 3.2 Consensus size: 20
68235057 GTGTTTTACT
*
68235067 TTCTGTTCAACTCTTCTGAGT
1 TTCTGTTCAACTCTTC-GAGC
*
68235088 TTCTTTTCAACTCTTACGAGC
1 TTCTGTTCAACTCTT-CGAGC
*
68235109 TTCTGTTCAGCT-TTCGAGC
1 TTCTGTTCAACTCTTCGAGC
68235128 TTCT
1 TTCT
68235132 AATTGGCGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
19 9 0.23
20 2 0.05
21 27 0.69
22 1 0.03
ACGTcount: A:0.14, C:0.26, G:0.14, T:0.46
Consensus pattern (20 bp):
TTCTGTTCAACTCTTCGAGC
Found at i:68235853 original size:17 final size:17
Alignment explanation
Indices: 68235831--68235863 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
68235821 GATATGATAC
68235831 TAAAAT-TATTAAAAAAT
1 TAAAATATA-TAAAAAAT
68235848 TAAAATATATAAAAAA
1 TAAAATATATAAAAAA
68235864 AGAATCAGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
TAAAATATATAAAAAAT
Found at i:68235864 original size:18 final size:17
Alignment explanation
Indices: 68235831--68235864 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
68235821 GATATGATAC
*
68235831 TAAAATTATTAAAAAAT
1 TAAAATTATAAAAAAAT
68235848 TAAAATATATAAAAAAA
1 TAAAAT-TATAAAAAAA
68235865 GAATCAGGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAATTATAAAAAAAT
Found at i:68236223 original size:19 final size:19
Alignment explanation
Indices: 68236160--68236230 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
68236150 TCATATCTTA
** *
68236160 TAAGATTGTTTATCACATC
1 TAAGATTGCATATCATATC
68236179 TAAGATTG--TATCATATC
1 TAAGATTGCATATCATATC
68236196 TAAGATTGCATATCATATC
1 TAAGATTGCATATCATATC
68236215 TAAGATTGCATATCAT
1 TAAGATTGCATATCAT
68236231 TGAAGATTAT
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
17 16 0.33
19 33 0.67
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.39
Consensus pattern (19 bp):
TAAGATTGCATATCATATC
Found at i:68236237 original size:36 final size:36
Alignment explanation
Indices: 68236161--68236238 Score: 88
Period size: 36 Copynumber: 2.2 Consensus size: 36
68236151 CATATCTTAT
** *
68236161 AAGATTGTTTATCACATCTAAGATTGTATCATATCT
1 AAGATTGCATATCACATCTAAGATTGTATCATATCG
*
68236197 AAGATTGCATATCATATCTAAGATTGCATATCAT-T-G
1 AAGATTGCATATCACATCTAAGATTG--TATCATATCG
68236233 AAGATT
1 AAGATT
68236239 ATATTTCCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
36 29 0.81
37 1 0.03
38 6 0.17
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (36 bp):
AAGATTGCATATCACATCTAAGATTGTATCATATCG
Found at i:68236238 original size:17 final size:19
Alignment explanation
Indices: 68236170--68236238 Score: 74
Period size: 19 Copynumber: 3.8 Consensus size: 19
68236160 TAAGATTGTT
* *
68236170 TATCACATCTAAGATTG--
1 TATCATATCGAAGATTGCA
*
68236187 TATCATATCTAAGATTGCA
1 TATCATATCGAAGATTGCA
*
68236206 TATCATATCTAAGATTGCA
1 TATCATATCGAAGATTGCA
68236225 TATCAT-T-GAAGATT
1 TATCATATCGAAGATT
68236239 ATATTTCCAT
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
17 22 0.46
18 1 0.02
19 25 0.52
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (19 bp):
TATCATATCGAAGATTGCA
Found at i:68238494 original size:17 final size:18
Alignment explanation
Indices: 68238472--68238506 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
68238462 AATCACATTT
*
68238472 TTTTTACATTT-AATATA
1 TTTTTAAATTTCAATATA
68238489 TTTTTAAATTTCAATATA
1 TTTTTAAATTTCAATATA
68238507 CAAAGAATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTTTAAATTTCAATATA
Found at i:68238621 original size:19 final size:19
Alignment explanation
Indices: 68238585--68238622 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
68238575 AAGTTAATAA
*
68238585 CAAATTTGATTACGGTGGG
1 CAAATTTGATTACAGTGGG
*
68238604 CAAATTTGATTATAGTGGG
1 CAAATTTGATTACAGTGGG
68238623 TGACAGTGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.29, C:0.08, G:0.29, T:0.34
Consensus pattern (19 bp):
CAAATTTGATTACAGTGGG
Found at i:68239531 original size:31 final size:32
Alignment explanation
Indices: 68239467--68239539 Score: 103
Period size: 31 Copynumber: 2.3 Consensus size: 32
68239457 TTTGAGTCAA
68239467 GACTAAAATTTCAAAATCTAAAAAAGTACAAG
1 GACTAAAATTTCAAAATCTAAAAAAGTACAAG
* ** *
68239499 GATTAAAATTTCAAAAT-TTGAAAAGTATAAG
1 GACTAAAATTTCAAAATCTAAAAAAGTACAAG
68239530 GACTAAAATT
1 GACTAAAATT
68239540 GACTGATTCA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
31 20 0.56
32 16 0.44
ACGTcount: A:0.53, C:0.08, G:0.11, T:0.27
Consensus pattern (32 bp):
GACTAAAATTTCAAAATCTAAAAAAGTACAAG
Found at i:68239805 original size:2 final size:2
Alignment explanation
Indices: 68239798--68239822 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
68239788 TATTGAGTTT
68239798 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
68239823 TTTGGATTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:68242198 original size:15 final size:15
Alignment explanation
Indices: 68242159--68242211 Score: 79
Period size: 15 Copynumber: 3.3 Consensus size: 15
68242149 AATTTTGATT
68242159 TATTTATTTATATTTC
1 TATTTA-TTATATTTC
68242175 TACTATTATTATATTTC
1 TA-T-TTATTATATTTC
68242192 TATTTATTATATTTC
1 TATTTATTATATTTC
68242207 TATTT
1 TATTT
68242212 CTATTTATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
15 17 0.49
16 3 0.09
17 12 0.34
18 3 0.09
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.66
Consensus pattern (15 bp):
TATTTATTATATTTC
Found at i:68242883 original size:129 final size:125
Alignment explanation
Indices: 68242572--68243011 Score: 468
Period size: 125 Copynumber: 3.4 Consensus size: 125
68242562 CTTAAGGGAT
* * * *
68242572 TATTTCGTGTTTGGAGGTCCGAGAAATCGTGCCCAATCGTGCTGGGTTTCGATTTTTTTTTCCGT
1 TATTTCATGTTTGGAAGTCCGAGAAATCGTGCCCAATCGTGCTGGGTTTC-A---ATTTTT-CAT
* * * *
68242637 TCAACTAAAATACGAAATATCCTTTGGAAATTTTGTCCATGCTTTT-TAAAACTAAAATGAGGAA
61 TCAACTAAAATACGGAATATCCTTTTGAAATTTTATCCATG-TTTTCTAAAACTAAAATGAGGCA
68242701 A
125 A
* * *
68242702 TATTTCATGTTTGGGGAGTCCGAGAGATCGTGCCCAATCGTGCTGGGTTTCAATTTTTCATTCGA
1 TATTTCATGTTT-GGAAGTCCGAGAAATCGTGCCCAATCGTGCTGGGTTTCAATTTTTCATTCAA
* * * * *
68242767 GTAAAATACGGAATATCTTTTTTTTTGAAATTTTATTCATGTTTTCTTAAACTAAAACGAGGCAA
65 CTAAAATACGGAATATC----CTTTTGAAATTTTATCCATGTTTTCTAAAACTAAAATGAGGCAA
* ** * * *
68242832 TATTTCGTGTTTGGAAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCAATTTTCCATTCAAT
1 TATTTCATGTTTGGAAGTCCGAGAAATCGTGCCCAATCGTGCTGGGTTTCAATTTTTCATTCAAC
* * * * *
68242897 TAAAATACAGAATATCCTTTTGAAATTTCATCCGTGTTTTCTCAAATTAAAATGAGGCAA
66 TAAAATACGGAATATCCTTTTGAAATTTTATCCATGTTTTCTAAAACTAAAATGAGGCAA
** * * * * *
68242957 CGTTTCATATTTGGAAATTCGATAAATCGTGCCCAATCGTGCTGGGTTTCGATTT
1 TATTTCATGTTTGGAAGTCCGAGAAATCGTGCCCAATCGTGCTGGGTTTCAATTT
68243012 ACCGTTTGGG
Statistics
Matches: 264, Mismatches: 40, Indels: 17
0.82 0.12 0.05
Matches are distributed among these distances:
125 83 0.31
126 20 0.08
127 5 0.02
129 66 0.25
130 55 0.21
131 35 0.13
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (125 bp):
TATTTCATGTTTGGAAGTCCGAGAAATCGTGCCCAATCGTGCTGGGTTTCAATTTTTCATTCAAC
TAAAATACGGAATATCCTTTTGAAATTTTATCCATGTTTTCTAAAACTAAAATGAGGCAA
Found at i:68248426 original size:64 final size:64
Alignment explanation
Indices: 68248346--68248472 Score: 218
Period size: 64 Copynumber: 2.0 Consensus size: 64
68248336 CATTTATAGT
* * *
68248346 ACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGGCATAAGCATC
1 ACATCTAGCTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAACTATTTGGCATAAGCATC
*
68248410 ACATCTAGCTAGGAGCATTTGATTCCTTTCGATCATAGCATCCTAACTATTTGGCATAAGCAT
1 ACATCTAGCTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAACTATTTGGCATAAGCAT
68248473 ATATACGTGA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 59 1.00
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.35
Consensus pattern (64 bp):
ACATCTAGCTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAACTATTTGGCATAAGCATC
Found at i:68248749 original size:45 final size:45
Alignment explanation
Indices: 68248583--68249102 Score: 224
Period size: 45 Copynumber: 11.7 Consensus size: 45
68248573 TGCAAATTAT
* *
68248583 AGATCTTATCTCCATGTATCGGCTATGGAGTAGA-T-CGAAAATGG
1 AGATCTTATCTCCATGTATCGGCTATGGAGCAGACTGC-AAAATCG
* * * * ** *
68248627 AGGGTCTTATCTCTATGTATCAGCTATGGAGCAGATTTTAACAA-CT
1 A-GATCTTATCTCCATGTATCGGCTATGGAGCAGACTGCAA-AATCG
* * * * *
68248673 AG-TCTTATCTTCC-TGAAGT-TGC-AGGGAGCAGACTGCAAATTAG
1 AGATCTTATC-TCCATGTA-TCGGCTATGGAGCAGACTGCAAAATCG
* * *
68248716 AGATCTTATCTCCATGTATCGACTATGGAGCAGATTAG-AAAATGG
1 AGATCTTATCTCCATGTATCGGCTATGGAGCAGACT-GCAAAATCG
* * * ** *** *
68248761 CAGGTCTTATCTCCATGTATCGGCTATGGAGTAGATTTTAGCCTCT
1 -AGATCTTATCTCCATGTATCGGCTATGGAGCAGACTGCAAAATCG
* * * * *
68248807 AG-TCTTATCTTCC-TGAAGT-TGC-AGGGAGCAGACTGCAAATTCC
1 AGATCTTATC-TCCATGTA-TCGGCTATGGAGCAGACTGCAAAATCG
68248850 AGATCTTATCTCCATGTATCGGCTATGGAGCAGA-T-CAAAGATGGCG
1 AGATCTTATCTCCATGTATCGGCTATGGAGCAGACTGCAAA-AT--CG
* *
68248896 AG-TCTTATCTTCATGTATCGGCTATGGAGTAGA-T-CAGAAATGGCG
1 AGATCTTATCTCCATGTATCGGCTATGGAGCAGACTGCA-AAAT--CG
* * * ** *** *
68248941 AG-TCTTATCTCCATGTATCGGTTATAGAGCAGATTTTAGCCTCT
1 AGATCTTATCTCCATGTATCGGCTATGGAGCAGACTGCAAAATCG
* * * * * * **
68248985 AG-TCTTATCTTCTTGAAGT-TGC-AAGGAGCAGACTGCAAATTAT
1 AGATCTTATCTCCATGTA-TCGGCTATGGAGCAGACTGCAAAATCG
* *
68249028 AGATCTTATCTCCATGTATCGGCTATGGAACA-AAT-CAGAAATGGCG
1 AGATCTTATCTCCATGTATCGGCTATGGAGCAGACTGCA-AAAT--CG
*
68249074 AG-TCTTATCTTCATGTATCGGCTATGGAG
1 AGATCTTATCTCCATGTATCGGCTATGGAG
68249103 TAGATTTTAG
Statistics
Matches: 357, Mismatches: 86, Indels: 65
0.70 0.17 0.13
Matches are distributed among these distances:
42 1 0.00
43 57 0.16
44 85 0.24
45 162 0.45
46 49 0.14
47 3 0.01
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.31
Consensus pattern (45 bp):
AGATCTTATCTCCATGTATCGGCTATGGAGCAGACTGCAAAATCG
Found at i:68248811 original size:134 final size:134
Alignment explanation
Indices: 68248572--68248929 Score: 535
Period size: 134 Copynumber: 2.7 Consensus size: 134
68248562 AGGTAACAGG
* * *
68248572 CTGCAAATTATAGATCTTATCTCCATGTATCGGCTATGGAGTAGA-TCGAAAATGG-AGGGTCTT
1 CTGCAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATTAGAAAATGGCA-GGTCTT
* * *
68248635 ATCTCTATGTATCAGCTATGGAGCAGATTTTAACAACTAGTCTTATCTTCCTGAAGTTGCAGGGA
65 ATCTCCATGTATCGGCTATGGAGTAGATTTTAACAACTAGTCTTATCTTCCTGAAGTTGCAGGGA
68248700 GCAGA
130 GCAGA
* *
68248705 CTGCAAATTAGAGATCTTATCTCCATGTATCGACTATGGAGCAGATTAGAAAATGGCAGGTCTTA
1 CTGCAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATTAGAAAATGGCAGGTCTTA
* **
68248770 TCTCCATGTATCGGCTATGGAGTAGATTTTAGCCTCTAGTCTTATCTTCCTGAAGTTGCAGGGAG
66 TCTCCATGTATCGGCTATGGAGTAGATTTTAACAACTAGTCTTATCTTCCTGAAGTTGCAGGGAG
68248835 CAGA
131 CAGA
* * *
68248839 CTGCAAATTCCAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCA-AAGATGGC-GAGTCTT
1 CTGCAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATTAGAAAATGGCAG-GTCTT
*
68248902 ATCTTCATGTATCGGCTATGGAGTAGAT
65 ATCTCCATGTATCGGCTATGGAGTAGAT
68248930 CAGAAATGGC
Statistics
Matches: 206, Mismatches: 16, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
132 1 0.00
133 81 0.39
134 123 0.60
135 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.31
Consensus pattern (134 bp):
CTGCAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATTAGAAAATGGCAGGTCTTA
TCTCCATGTATCGGCTATGGAGTAGATTTTAACAACTAGTCTTATCTTCCTGAAGTTGCAGGGAG
CAGA
Found at i:68248977 original size:178 final size:179
Alignment explanation
Indices: 68248719--68249107 Score: 622
Period size: 178 Copynumber: 2.2 Consensus size: 179
68248709 AAATTAGAGA
* * * *
68248719 TCTTATCTCCATGTATCGACTATGGAGCAGATTAGAAAATGGCAGGTCTTATCTCCATGTATCGG
1 TCTTATCTTCATGTATCGGCTATGGAGTAGATCAGAAAATGGCAGGTCTTATCTCCATGTATCGG
* * * *
68248784 CTATGGAGTAGATTTTAGCCTCTAGTCTTATCTTCCTGAAGTTGCAGGGAGCAGACTGCAAATTC
66 CTATAGAGCAGATTTTAGCCTCTAGTCTTATCTTCCTGAAGTTGCAAGGAGCAGACTGCAAATTA
* *
68248849 CAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCA-AAGATGGCGAG
131 CAGATCTTATCTCCATGTATCGGCTATGGAACAAATCAGAA-ATGGCGAG
68248898 TCTTATCTTCATGTATCGGCTATGGAGTAGATCAG-AAATGGC-GAGTCTTATCTCCATGTATCG
1 TCTTATCTTCATGTATCGGCTATGGAGTAGATCAGAAAATGGCAG-GTCTTATCTCCATGTATCG
* *
68248961 GTTATAGAGCAGATTTTAGCCTCTAGTCTTATCTTCTTGAAGTTGCAAGGAGCAGACTGCAAATT
65 GCTATAGAGCAGATTTTAGCCTCTAGTCTTATCTTCCTGAAGTTGCAAGGAGCAGACTGCAAATT
*
68249026 ATAGATCTTATCTCCATGTATCGGCTATGGAACAAATCAGAAATGGCGAG
130 ACAGATCTTATCTCCATGTATCGGCTATGGAACAAATCAGAAATGGCGAG
68249076 TCTTATCTTCATGTATCGGCTATGGAGTAGAT
1 TCTTATCTTCATGTATCGGCTATGGAGTAGAT
68249108 TTTAGCCACT
Statistics
Matches: 195, Mismatches: 13, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
177 1 0.01
178 161 0.83
179 33 0.17
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.32
Consensus pattern (179 bp):
TCTTATCTTCATGTATCGGCTATGGAGTAGATCAGAAAATGGCAGGTCTTATCTCCATGTATCGG
CTATAGAGCAGATTTTAGCCTCTAGTCTTATCTTCCTGAAGTTGCAAGGAGCAGACTGCAAATTA
CAGATCTTATCTCCATGTATCGGCTATGGAACAAATCAGAAATGGCGAG
Found at i:68249013 original size:133 final size:133
Alignment explanation
Indices: 68248898--68249461 Score: 779
Period size: 133 Copynumber: 4.2 Consensus size: 133
68248888 AGATGGCGAG
* * *
68248898 TCTTATCTTCATGTATCGGCTATGGAGTAGATCAGAAATGGCGAGTCTTATCTCCATGTATCGGT
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGTATCGGC
* * * * * *
68248963 TATAGAGCAGATTTTAGCCTCTAGTCTTATCTTCTTGAAGTTGCAAGGAGCAGACTGCAAATTAT
66 TATGGAGCAGATTTTAGCCACTAGTCTTATCTTCCTGAAGTTGCAAGGAGCAGACTACAAAATAG
68249028 AGA
131 AGA
* * *
68249031 TCTTATCTCCATGTATCGGCTATGGAACAAATCAGAAATGGCGAGTCTTATCTTCATGTATCGGC
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGTATCGGC
* * * * * *
68249096 TATGGAGTAGATTTTAGCCACTACTCTTATCTTCCTGGAGTTGCAGGGAGTAGACTACAAATTAG
66 TATGGAGCAGATTTTAGCCACTAGTCTTATCTTCCTGAAGTTGCAAGGAGCAGACTACAAAATAG
68249161 AGA
131 AGA
* * * *
68249164 TCTTATCTCCATGTACCGGCTATTGAGTAGATCAGAAATGGCGAGTCTTATCTCCATGTATCGAC
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGTATCGGC
* * * * *
68249229 TATGGAGTAAATTTTAGTCACTAGTCTTATCTTCCTGAAGTTG-TAGGTAGCAGACTACAAATTA
66 TATGGAGCAGATTTTAGCCACTAGTCTTATCTTCCTGAAGTTGCAAGG-AGCAGACTACAAAATA
68249293 GAGA
130 GAGA
* * * *
68249297 TCTTATCTCCATGTATCAGCTATGAAGCAGATCAGAAGTGGTGAGTCTTATCTCCATGTATCGGC
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGTATCGGC
* * * * * *
68249362 TATGGAGCAGATTTTAGCCACTAGTCTTATCTTTCTGAAGTTACAGGGAGCAGACTGCAAATTAC
66 TATGGAGCAGATTTTAGCCACTAGTCTTATCTTCCTGAAGTTGCAAGGAGCAGACTACAAAATAG
68249427 AGA
131 AGA
68249430 TCTTATCTCCATGTATCGGCTATGGAGCAGAT
1 TCTTATCTCCATGTATCGGCTATGGAGCAGAT
68249462 TTAAGCCACC
Statistics
Matches: 380, Mismatches: 49, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
132 2 0.01
133 376 0.99
134 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.32
Consensus pattern (133 bp):
TCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGTATCGGC
TATGGAGCAGATTTTAGCCACTAGTCTTATCTTCCTGAAGTTGCAAGGAGCAGACTACAAAATAG
AGA
Found at i:68249655 original size:43 final size:44
Alignment explanation
Indices: 68249607--68249706 Score: 123
Period size: 43 Copynumber: 2.3 Consensus size: 44
68249597 GACGGTGAGC
* *
68249607 CTTATCCCCCTAAACAGTGGGGAAACAGGCTG-AAATTACAAAT
1 CTTATCCCCCTAAACAGTAGGGAAACAAGCTGAAAATTACAAAT
* * * *
68249650 CTTATCTCCCTAAGCGGTAGGGAAACAAGCTGAAAATTACAGAT
1 CTTATCCCCCTAAACAGTAGGGAAACAAGCTGAAAATTACAAAT
68249694 CTTA-CCTCCCTAA
1 CTTATCC-CCCTAA
68249707 GCAATAGTGG
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
43 28 0.58
44 20 0.42
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (44 bp):
CTTATCCCCCTAAACAGTAGGGAAACAAGCTGAAAATTACAAAT
Found at i:68249703 original size:44 final size:43
Alignment explanation
Indices: 68249626--68249708 Score: 130
Period size: 44 Copynumber: 1.9 Consensus size: 43
68249616 CTAAACAGTG
* *
68249626 GGGAAACAGGCTGAAATTACAAATCTTATCTCCCTAAGCGGTA
1 GGGAAACAAGCTGAAATTACAAATCTTACCTCCCTAAGCGGTA
*
68249669 GGGAAACAAGCTGAAAATTACAGATCTTACCTCCCTAAGC
1 GGGAAACAAGCTG-AAATTACAAATCTTACCTCCCTAAGC
68249709 AATAGTGGAG
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
43 12 0.33
44 24 0.67
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.22
Consensus pattern (43 bp):
GGGAAACAAGCTGAAATTACAAATCTTACCTCCCTAAGCGGTA
Found at i:68250800 original size:44 final size:44
Alignment explanation
Indices: 68250752--68250837 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 44
68250742 TTATGCTAAT
68250752 ACTATTATTAT-TTATCTAATTT-TTAT-TTATTTATTTATATTTCC
1 ACTATTATTATATT-TCT-ATTTATTATATT-TTTATTTATATTTCC
*
68250796 ACTATTATTATATTTCTATTTATTATATTTTTATTTCTATTT
1 ACTATTATTATATTTCTATTTATTATATTTTTATTTATATTT
68250838 ATATACTAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
43 4 0.11
44 30 0.79
45 4 0.11
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (44 bp):
ACTATTATTATATTTCTATTTATTATATTTTTATTTATATTTCC
Found at i:68250818 original size:15 final size:15
Alignment explanation
Indices: 68250779--68250831 Score: 61
Period size: 15 Copynumber: 3.3 Consensus size: 15
68250769 AATTTTTATT
68250779 TATTTATTTATATTTC
1 TATTTA-TTATATTTC
*
68250795 CACTATTATTATATTTC
1 TA-T-TTATTATATTTC
*
68250812 TATTTATTATATTTT
1 TATTTATTATATTTC
68250827 TATTT
1 TATTT
68250832 CTATTTATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
15 16 0.50
16 2 0.06
17 11 0.34
18 3 0.09
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.66
Consensus pattern (15 bp):
TATTTATTATATTTC
Found at i:68250824 original size:23 final size:23
Alignment explanation
Indices: 68250798--68250864 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 23
68250788 ATATTTCCAC
68250798 TATTATTATATTTCTATTTATTA
1 TATTATTATATTTCTATTTATTA
68250821 TATT-TT-TATTTCTATTTATATA
1 TATTATTATATTTCTATTTAT-TA
*
68250843 CTAATATTAT-TTTC-A-TTATTA
1 -TATTATTATATTTCTATTTATTA
68250864 T
1 T
68250865 TTTCCTTATA
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
20 1 0.03
21 15 0.38
22 8 0.21
23 8 0.21
24 6 0.15
25 1 0.03
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (23 bp):
TATTATTATATTTCTATTTATTA
Found at i:68251519 original size:129 final size:125
Alignment explanation
Indices: 68251198--68251637 Score: 486
Period size: 125 Copynumber: 3.4 Consensus size: 125
68251188 CTTAAAGGAT
* * ** * * *
68251198 TATTTCATGTTTGGAGGTCCGAGAAATTGTGCCCAATCGTGCTGGGTTTCGATTTTTTTTTCCGT
1 TATTTCGTGTTTGGAAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGA-----TTTTCCAT
* * * *
68251263 TCAACTAAAATATGAAATATCCTTTGGAAATTTTGTCCATGCTTTT-TAAAACTAAAACGAGGCA
61 TCGACTAAAATATGGAATATCCTTTTGAAATTTTATCCATG-TTTTCTAAAACTAAAACGAGGCA
68251327 A
125 A
* * *
68251328 TATTTCGTGTTTGGGGAGTCTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGATTTTTCATTCGA
1 TATTTCGTGTTT-GGAAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGATTTTCCATTCGA
* * *
68251393 CTAAAATATGGAATATCCTTTTTTTTGAAATTTTATTCATGTTTTCTTAAACAAAAACGAGGCAA
65 CTAAAATATGGAATATCC----TTTTGAAATTTTATCCATGTTTTCTAAAACTAAAACGAGGCAA
* *
68251458 TATTTCGTGTTTGGAAGTTTGAGAGATCGTGCCCAATAGTGTTGGGTTTCGATTTTCCATTCGAC
1 TATTTCGTGTTTGGAAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGATTTTCCATTCGAC
** * * * * *
68251523 TAAAATACAGAATATCCATTTGAAATTTCATCCATGTTTTCTCAAATTAAAATGAGGCAA
66 TAAAATATGGAATATCCTTTTGAAATTTTATCCATGTTTTCTAAAACTAAAACGAGGCAA
* * * * * *
68251583 TGTTTCGTATTTGGAAATTCGATAAATCGTGCCCAATCGTGCTGGGTTTCGATTT
1 TATTTCGTGTTTGGAAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGATTT
68251638 ACCGTTTGGG
Statistics
Matches: 267, Mismatches: 37, Indels: 17
0.83 0.12 0.05
Matches are distributed among these distances:
125 83 0.31
126 26 0.10
129 67 0.25
130 56 0.21
131 35 0.13
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.38
Consensus pattern (125 bp):
TATTTCGTGTTTGGAAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGATTTTCCATTCGAC
TAAAATATGGAATATCCTTTTGAAATTTTATCCATGTTTTCTAAAACTAAAACGAGGCAA
Found at i:68259723 original size:4 final size:4
Alignment explanation
Indices: 68259709--68259751 Score: 77
Period size: 4 Copynumber: 10.8 Consensus size: 4
68259699 AACTGTAGGG
*
68259709 CATA TATA CATA CATA CATA CATA CATA CATA CATA CATA CAT
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CAT
68259752 TTCCTAACTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.49, C:0.23, G:0.00, T:0.28
Consensus pattern (4 bp):
CATA
Found at i:68264493 original size:5 final size:5
Alignment explanation
Indices: 68264483--68264513 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
68264473 AATAATTAAG
68264483 TATAT TATAT TATAT TATAT TATAAT TATAT
1 TATAT TATAT TATAT TATAT TAT-AT TATAT
68264514 ATAAAAGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:68264503 original size:15 final size:16
Alignment explanation
Indices: 68264474--68264513 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
68264464 TATTTATTTA
*
68264474 ATAATTA-AGTATATT
1 ATAATTATATTATATT
68264489 AT-ATTATATTATATT
1 ATAATTATATTATATT
68264504 ATAATTATAT
1 ATAATTATAT
68264514 ATAAAAGAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 4 0.18
15 11 0.50
16 7 0.32
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
ATAATTATATTATATT
Found at i:68267942 original size:32 final size:34
Alignment explanation
Indices: 68267882--68267947 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 34
68267872 AGCGCATAAT
* *
68267882 AAAAGCATATAATAAAAAAAAATTAG-AAAGGGA
1 AAAAGCATACAATAAAAAAAAATCAGAAAAGGGA
* *
68267915 AAAAGTATACAAT-AAAAATAATCAGAAAAGGGA
1 AAAAGCATACAATAAAAAAAAATCAGAAAAGGGA
68267948 CAACGACTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 10 0.36
33 18 0.64
ACGTcount: A:0.65, C:0.05, G:0.15, T:0.15
Consensus pattern (34 bp):
AAAAGCATACAATAAAAAAAAATCAGAAAAGGGA
Found at i:68274607 original size:25 final size:25
Alignment explanation
Indices: 68274575--68274641 Score: 77
Period size: 25 Copynumber: 2.7 Consensus size: 25
68274565 TATTATATTT
68274575 TTTTTCTCTTCTCTTTCTCCTTC-C
1 TTTTTCTCTTCTCTTTCTCCTTCTC
*
68274599 TTCTTTCTC-TCTATTCTCTCCTTCTC
1 TT-TTTCTCTTCTCTT-TCTCCTTCTC
*
68274625 TTTTTCT-TTTTCTTTCT
1 TTTTTCTCTTCTCTTTCT
68274642 TCTTTTTCCC
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
24 10 0.28
25 23 0.64
26 3 0.08
ACGTcount: A:0.01, C:0.33, G:0.00, T:0.66
Consensus pattern (25 bp):
TTTTTCTCTTCTCTTTCTCCTTCTC
Found at i:68278992 original size:18 final size:18
Alignment explanation
Indices: 68278965--68278999 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
68278955 AGCTTTTAAG
68278965 AAGCACTTTTGAGACAAA
1 AAGCACTTTTGAGACAAA
* *
68278983 AAGCATTTTTGGGACAA
1 AAGCACTTTTGAGACAA
68279000 TAGCATTCCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.26
Consensus pattern (18 bp):
AAGCACTTTTGAGACAAA
Found at i:68280561 original size:12 final size:12
Alignment explanation
Indices: 68280544--68280568 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
68280534 TTCCAGAAAG
68280544 AGGTAGCGAATC
1 AGGTAGCGAATC
68280556 AGGTAGCGAATC
1 AGGTAGCGAATC
68280568 A
1 A
68280569 ACTGTGACCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.16, G:0.32, T:0.16
Consensus pattern (12 bp):
AGGTAGCGAATC
Found at i:68282365 original size:34 final size:35
Alignment explanation
Indices: 68282306--68282371 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
68282296 ATTTAAATGA
* *
68282306 TTATTTATATTAATATATATGAAATA-ATTGAAAG
1 TTATTTATATAAATATATATAAAATATATTGAAAG
68282340 TTATTTATATAAATCATATA-AAAATATATTGA
1 TTATTTATATAAAT-ATATATAAAATATATTGA
68282372 TTAGAATATG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 18 0.64
35 10 0.36
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (35 bp):
TTATTTATATAAATATATATAAAATATATTGAAAG
Found at i:68283261 original size:26 final size:26
Alignment explanation
Indices: 68283224--68283274 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
68283214 ATACCCATTA
*
68283224 AAAAGTGGTATTTATTT-TATAAAAAG
1 AAAAGTGATATTTATTTAT-TAAAAAG
68283250 AAAAGTGATATTTATTTATTAAAAA
1 AAAAGTGATATTTATTTATTAAAAA
68283275 AATAATTGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 22 0.96
27 1 0.04
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.39
Consensus pattern (26 bp):
AAAAGTGATATTTATTTATTAAAAAG
Found at i:68303648 original size:38 final size:38
Alignment explanation
Indices: 68303597--68303674 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
68303587 AATTGGTTTC
68303597 TATACGCTTCCTCTTTTGTGTGTTTCATTGTGCTTATT
1 TATACGCTTCCTCTTTTGTGTGTTTCATTGTGCTTATT
68303635 TATACGCTTCCTCTTTTGTGTGTTTCATTGTGCTTATT
1 TATACGCTTCCTCTTTTGTGTGTTTCATTGTGCTTATT
68303673 TA
1 TA
68303675 CATATAGGGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.12, C:0.18, G:0.15, T:0.55
Consensus pattern (38 bp):
TATACGCTTCCTCTTTTGTGTGTTTCATTGTGCTTATT
Found at i:68304219 original size:36 final size:35
Alignment explanation
Indices: 68304179--68304249 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
68304169 GCTTGATCCG
*
68304179 AGTTTATAAGTACTACTAAAAATGCCTTTAATGGTT
1 AGTTTATAA-TACTACTAAAAATACCTTTAATGGTT
** *
68304215 AGTTTATAATTTTACTATAAATACCTTTAATGGTT
1 AGTTTATAATACTACTAAAAATACCTTTAATGGTT
68304250 GGCTTGCAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 22 0.71
36 9 0.29
ACGTcount: A:0.35, C:0.10, G:0.11, T:0.44
Consensus pattern (35 bp):
AGTTTATAATACTACTAAAAATACCTTTAATGGTT
Found at i:68307939 original size:2 final size:2
Alignment explanation
Indices: 68307932--68307958 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
68307922 GTAGTTAATT
68307932 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
68307959 GGATGGCATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:68312270 original size:29 final size:29
Alignment explanation
Indices: 68312237--68312295 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
68312227 ACCATTCTAG
68312237 TTTCAATTGGTTTATCAATATGATTTTAT
1 TTTCAATTGGTTTATCAATATGATTTTAT
68312266 TTTCAATTGGTTTATCAATATGATTTTAT
1 TTTCAATTGGTTTATCAATATGATTTTAT
68312295 T
1 T
68312296 GCATGTTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.27, C:0.07, G:0.10, T:0.56
Consensus pattern (29 bp):
TTTCAATTGGTTTATCAATATGATTTTAT
Found at i:68312709 original size:4 final size:4
Alignment explanation
Indices: 68312700--68312741 Score: 59
Period size: 4 Copynumber: 10.5 Consensus size: 4
68312690 ACAATCTTTA
*
68312700 TATG TATG TATG TATG TATG TATG CT-TG TAAG TATG TATG TA
1 TATG TATG TATG TATG TATG TATG -TATG TATG TATG TATG TA
68312742 GATGTGGTAG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 1 0.03
4 32 0.94
5 1 0.03
ACGTcount: A:0.26, C:0.02, G:0.24, T:0.48
Consensus pattern (4 bp):
TATG
Found at i:68315372 original size:20 final size:20
Alignment explanation
Indices: 68315343--68315385 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
68315333 AACAAAGGTC
*
68315343 TTATCTTTTTTATCCATAAA
1 TTATCATTTTTATCCATAAA
*
68315363 TTATCATTTTTGTCCATAAA
1 TTATCATTTTTATCCATAAA
68315383 TTA
1 TTA
68315386 CCCAATTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.30, C:0.14, G:0.02, T:0.53
Consensus pattern (20 bp):
TTATCATTTTTATCCATAAA
Found at i:68321751 original size:13 final size:13
Alignment explanation
Indices: 68321733--68321758 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
68321723 CAAGCTTTTC
68321733 ATTTTTAATATAT
1 ATTTTTAATATAT
68321746 ATTTTTAATATAT
1 ATTTTTAATATAT
68321759 TATTAAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
ATTTTTAATATAT
Found at i:68329474 original size:90 final size:90
Alignment explanation
Indices: 68329307--68329475 Score: 209
Period size: 90 Copynumber: 1.9 Consensus size: 90
68329297 GACACATGGA
* * *
68329307 TATGGGGATATGATCTTAAAAGATCTTCCAAATTGGTGGAAAAACTTGTAAAAATCTAACCATGC
1 TATGGGGATATGAACTTAAAAGATCTTCCAAATTGATGGAAAAACTTGTAAAAATCTAACCATAC
* *
68329372 CCTTGTTTGATACTCACATCCTGAT
66 CCATGTTGGATACTCACATCCTGAT
* * * *
68329397 TATGGGGATATGAACTTCAATGATCTTCCAAATAT-ATGGAACAA-TTTTGAAAAATCTAA-CAG
1 TATGGGGATATGAACTTAAAAGATCTTCCAAAT-TGATGGAAAAACTTGT-AAAAATCTAACCA-
68329459 TACCCATGTTGGATACT
63 TACCCATGTTGGATACT
68329476 TACCTATATT
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
89 5 0.07
90 61 0.91
91 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.32
Consensus pattern (90 bp):
TATGGGGATATGAACTTAAAAGATCTTCCAAATTGATGGAAAAACTTGTAAAAATCTAACCATAC
CCATGTTGGATACTCACATCCTGAT
Found at i:68332145 original size:87 final size:89
Alignment explanation
Indices: 68332026--68332191 Score: 239
Period size: 90 Copynumber: 1.9 Consensus size: 89
68332016 CCCTCAAATT
* * * *
68332026 TTTTTTAGAAAAATAATTTAGCTTCTT-TTTTTTTTTT-ACTTATTTAGGTACTTAAACTTTTAA
1 TTTTTTAGAAAAACAATTAAGCTTCTTATTTTTTTTTTCACTTAATTAGGTACTTAAACTTTCAA
68332089 AATACATTAAAAAAGCTTTTAAAC
66 AATACATTAAAAAAGCTTTTAAAC
*
68332113 TTTTTTAGAAAAAGCAATTAAGC-TCTTATTTTTTTTTTGCACTTAATTGGGTACTTAAACTTTC
1 TTTTTTAGAAAAA-CAATTAAGCTTCTTATTTTTTTTTT-CACTTAATTAGGTACTTAAACTTTC
*
68332177 AAAATGCATTAAAAA
64 AAAATACATTAAAAA
68332192 GACCTTCAAA
Statistics
Matches: 69, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
87 17 0.25
88 17 0.25
90 35 0.51
ACGTcount: A:0.36, C:0.10, G:0.08, T:0.46
Consensus pattern (89 bp):
TTTTTTAGAAAAACAATTAAGCTTCTTATTTTTTTTTTCACTTAATTAGGTACTTAAACTTTCAA
AATACATTAAAAAAGCTTTTAAAC
Found at i:68332203 original size:90 final size:86
Alignment explanation
Indices: 68332009--68332204 Score: 232
Period size: 90 Copynumber: 2.2 Consensus size: 86
68331999 TTTAAAGATG
* * * * *
68332009 TAAAAAACCCTCAAATTTTTTTTAGAAAAATAATTTAGCTTCTTTTTTTTTTTTACTTATTTAGG
1 TAAAAAACCTTCAAA-CTTTTTTAGAAAAACAATTAAGCTTCTTTTTTTTTTTTACTTAATTAGG
*
68332074 TACTTAAACTTTTAAAATACAT
65 TACTTAAACTTTCAAAATACAT
* *
68332096 TAAAAAAGCTTTTAAACTTTTTTAGAAAAAGCAATTAAGC-TCTTATTTTTTTTTTGCACTTAAT
1 TAAAAAA-CCTTCAAACTTTTTTAGAAAAA-CAATTAAGCTTCTT-TTTTTTTTTT--ACTTAAT
* *
68332160 TGGGTACTTAAACTTTCAAAATGCAT
61 TAGGTACTTAAACTTTCAAAATACAT
68332186 TAAAAAGACCTTCAAACTT
1 TAAAAA-ACCTTCAAACTT
68332205 AAAAAAAAAA
Statistics
Matches: 91, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
87 24 0.26
88 22 0.24
90 44 0.48
91 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.07, T:0.43
Consensus pattern (86 bp):
TAAAAAACCTTCAAACTTTTTTAGAAAAACAATTAAGCTTCTTTTTTTTTTTTACTTAATTAGGT
ACTTAAACTTTCAAAATACAT
Found at i:68332310 original size:28 final size:29
Alignment explanation
Indices: 68332255--68332310 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 29
68332245 AAAATTAAAA
* **
68332255 TTAATAAAAACTATAAATATTATTAATTT
1 TTAATAAAAAATATAAATATTAAAAATTT
*
68332284 TTAATAAAAAAT-TTAATATTAAAAATT
1 TTAATAAAAAATATAAATATTAAAAATT
68332311 AGAAAAAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 12 0.52
29 11 0.48
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (29 bp):
TTAATAAAAAATATAAATATTAAAAATTT
Found at i:68332334 original size:17 final size:18
Alignment explanation
Indices: 68332314--68332361 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
68332304 AAAAATTAGA
*
68332314 AAAAATATAAAAAT-CTT
1 AAAAATATAAAAATACAT
68332331 AAAAAT-TATAAAATACAT
1 AAAAATATA-AAAATACAT
*
68332349 AGAAATATAAAAA
1 AAAAATATAAAAA
68332362 ATTATAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 2 0.08
17 11 0.42
18 11 0.42
19 2 0.08
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (18 bp):
AAAAATATAAAAATACAT
Found at i:68332354 original size:27 final size:27
Alignment explanation
Indices: 68332298--68332369 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 27
68332288 TAAAAAATTT
* *
68332298 AATATTAAAAATTAGAAAAAATATAAA
1 AATATTAAAAATTATAAAAAACATAAA
* * *
68332325 AATCTTAAAAATTATAAAATACATAGA
1 AATATTAAAAATTATAAAAAACATAAA
*
68332352 AATATAAAAAATTATAAA
1 AATATTAAAAATTATAAA
68332370 TTTTATAAAG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (27 bp):
AATATTAAAAATTATAAAAAACATAAA
Found at i:68332650 original size:20 final size:20
Alignment explanation
Indices: 68332622--68332699 Score: 79
Period size: 20 Copynumber: 3.9 Consensus size: 20
68332612 GATAGTTTAC
68332622 AATAATTTTTTAAAATTTTT
1 AATAATTTTTTAAAATTTTT
* **
68332642 AACAATTTTTTTTAATTTTT
1 AATAATTTTTTAAAATTTTT
* *
68332662 TATATTTTTATTAAAA--TTT
1 AATAATTTT-TTAAAATTTTT
68332681 AATAATTTTTATAAAATTT
1 AATAATTTTT-TAAAATTT
68332700 ATTATTTATT
Statistics
Matches: 44, Mismatches: 10, Indels: 7
0.72 0.16 0.11
Matches are distributed among these distances:
18 1 0.02
19 15 0.34
20 23 0.52
21 5 0.11
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.60
Consensus pattern (20 bp):
AATAATTTTTTAAAATTTTT
Found at i:68332689 original size:19 final size:18
Alignment explanation
Indices: 68332622--68332700 Score: 59
Period size: 19 Copynumber: 4.1 Consensus size: 18
68332612 GATAGTTTAC
68332622 AATAATTTTTTAAAATTTTT
1 AATAATTTTTTAAAA--TTT
* **
68332642 AACAATTTTTTTTAATTTTT
1 AATAA--TTTTTTAAAATTT
* *
68332662 TATATTTTTATTAAAATTT
1 AATAATTTT-TTAAAATTT
68332681 AATAATTTTTATAAAATTT
1 AATAATTTTT-TAAAATTT
68332700 A
1 A
68332701 TTATTTATTA
Statistics
Matches: 45, Mismatches: 10, Indels: 9
0.70 0.16 0.14
Matches are distributed among these distances:
18 5 0.11
19 23 0.51
20 9 0.20
22 8 0.18
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.59
Consensus pattern (18 bp):
AATAATTTTTTAAAATTT
Found at i:68332711 original size:19 final size:18
Alignment explanation
Indices: 68332660--68332711 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
68332650 TTTTTAATTT
68332660 TTTA-TATTTTTATTAAAA
1 TTTATTATTTTTA-TAAAA
*
68332678 TTTAATAATTTTTATAAAA
1 TTT-ATTATTTTTATAAAA
68332697 TTTATTATTTATTAT
1 TTTATTATTT-TTAT
68332712 TTTTATAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
18 9 0.31
19 13 0.45
20 7 0.24
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTATTATTTTTATAAAA
Found at i:68332724 original size:10 final size:10
Alignment explanation
Indices: 68332623--68332731 Score: 60
Period size: 10 Copynumber: 10.5 Consensus size: 10
68332613 ATAGTTTACA
68332623 ATAATTTTTT
1 ATAATTTTTT
* *
68332633 AAAATTTTTA
1 ATAATTTTTT
*
68332643 ACAATTTTTT
1 ATAATTTTTT
*
68332653 TTAATTTTTT
1 ATAATTTTTT
68332663 AT-A-TTTTT
1 ATAATTTTTT
** *
68332671 ATTAAAATTTA
1 A-TAATTTTTT
68332682 ATAATTTTTAT
1 ATAATTTTT-T
*
68332693 AAAATTTATTAT
1 ATAATTT-TT-T
* *
68332705 TTATTATTTTT
1 ATAAT-TTTTT
68332716 ATAATTTTTTT
1 ATAA-TTTTTT
68332727 ATAAT
1 ATAAT
68332732 CTTTAATAAG
Statistics
Matches: 74, Mismatches: 18, Indels: 14
0.70 0.17 0.13
Matches are distributed among these distances:
8 6 0.08
9 2 0.03
10 33 0.45
11 22 0.30
12 9 0.12
13 2 0.03
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (10 bp):
ATAATTTTTT
Found at i:68332938 original size:86 final size:87
Alignment explanation
Indices: 68332748--68332937 Score: 208
Period size: 86 Copynumber: 2.2 Consensus size: 87
68332738 TAAGAGTAAG
* *** * * * *
68332748 GACTTAATTACTTTTTAAAAAAATTTTAAAGAGTTTTTTAATGCATTTTAAAAGTTTAAATATCC
1 GACTTAATTATTTTTTTTGAAAAGTTTAAAGAGTTTTTTAATACATTTTAAAAATTCAAATATCC
* * *
68332813 AAATGAGTGAAAAAAAGACAGA
66 AAATGAATAAAAAAAAGACACA
* *
68332835 GACTTAATTATTTTTTTTGAAAAGTTTAAAG-TTTTTTTAATACATTTTAAAAATTCAAGTA-CT
1 GACTTAATTATTTTTTTTGAAAAGTTTAAAGAGTTTTTTAATACATTTTAAAAATTCAAATATC-
*
68332898 CAATTGAATAAAAAAAAGA-ACA
65 CAAATGAATAAAAAAAAGACACA
68332920 G-CTTAATTACTTTTTTTT
1 GACTTAATTA-TTTTTTTT
68332938 TTTAAAAAAA
Statistics
Matches: 87, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
84 8 0.09
85 12 0.14
86 41 0.47
87 26 0.30
ACGTcount: A:0.43, C:0.07, G:0.09, T:0.41
Consensus pattern (87 bp):
GACTTAATTATTTTTTTTGAAAAGTTTAAAGAGTTTTTTAATACATTTTAAAAATTCAAATATCC
AAATGAATAAAAAAAAGACACA
Found at i:68336397 original size:19 final size:19
Alignment explanation
Indices: 68336373--68336409 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
68336363 AAAAAAAATC
*
68336373 ATTGCAATTAATTTAATTA
1 ATTGCAATTAATTAAATTA
*
68336392 ATTGCATTTAATTAAATT
1 ATTGCAATTAATTAAATT
68336410 TAATATTACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (19 bp):
ATTGCAATTAATTAAATTA
Found at i:68336909 original size:51 final size:52
Alignment explanation
Indices: 68336851--68336964 Score: 135
Period size: 51 Copynumber: 2.2 Consensus size: 52
68336841 ATTGGTATAA
* *
68336851 TAACAAATTTAA-TCATAAAAATTTTACACAT-TCTATCAAATTGGTATTG-TT
1 TAACAAATTTAACCCACAAAAA-TTTACACATAT-TATCAAATTGGTATTGATT
* * * *
68336902 TAACAAATTTAACCCACAAACATTTACATATATTATCAATTTGGTCTTGATT
1 TAACAAATTTAACCCACAAAAATTTACACATATTATCAAATTGGTATTGATT
68336954 TAACAAATTTA
1 TAACAAATTTA
68336965 GCTCGTAACA
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
51 34 0.63
52 20 0.37
ACGTcount: A:0.41, C:0.14, G:0.05, T:0.39
Consensus pattern (52 bp):
TAACAAATTTAACCCACAAAAATTTACACATATTATCAAATTGGTATTGATT
Found at i:68339893 original size:26 final size:28
Alignment explanation
Indices: 68339833--68339893 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 28
68339823 TTTTAATTCA
*
68339833 TATTATTAAAAAATATATTTAATAATAAT
1 TATTATT-AAAAATATAGTTAATAATAAT
* *
68339862 TA-TATT-AAAATATAGTTAA-AGTATT
1 TATTATTAAAAATATAGTTAATAATAAT
68339887 TATTATT
1 TATTATT
68339894 TTTATTAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
25 6 0.21
26 16 0.57
28 4 0.14
29 2 0.07
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (28 bp):
TATTATTAAAAATATAGTTAATAATAAT
Found at i:68342783 original size:19 final size:19
Alignment explanation
Indices: 68342748--68342809 Score: 97
Period size: 19 Copynumber: 3.2 Consensus size: 19
68342738 AGATTACAGG
68342748 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
68342769 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
*
68342788 ATCATATCTAAGATTACAT
1 ATCATATCTAAGATTGCAT
68342807 ATC
1 ATC
68342810 CTTAAAGATT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
19 31 0.77
20 1 0.03
21 8 0.20
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:68343229 original size:53 final size:53
Alignment explanation
Indices: 68343147--68343249 Score: 134
Period size: 53 Copynumber: 1.9 Consensus size: 53
68343137 TCATGGAAAT
* * * * *
68343147 ATGTGATTATGTACTTTCGTATAAGACCATAGCTGGGCTATGGCATCGGTATG
1 ATGTGATTATGTACCTCCGTATAAGACCATAGCTAGGATATGACATCGGTATG
* * *
68343200 ATGTGATTATGTGCCTCCGTATAATACCATATCTAGGATATGACATCGGT
1 ATGTGATTATGTACCTCCGTATAAGACCATAGCTAGGATATGACATCGGT
68343250 GCGATATGTA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
53 42 1.00
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (53 bp):
ATGTGATTATGTACCTCCGTATAAGACCATAGCTAGGATATGACATCGGTATG
Found at i:68347445 original size:28 final size:28
Alignment explanation
Indices: 68347405--68347464 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
68347395 GTCATTATCA
*
68347405 ACCCCATAAGTTATAAAACACTTCCTAT
1 ACCCCAAAAGTTATAAAACACTTCCTAT
* * **
68347433 ACCCCAAAAGTTATGAGACTTTTCCTAT
1 ACCCCAAAAGTTATAAAACACTTCCTAT
68347461 ACCC
1 ACCC
68347465 TATTAATATG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.35, C:0.30, G:0.07, T:0.28
Consensus pattern (28 bp):
ACCCCAAAAGTTATAAAACACTTCCTAT
Found at i:68350734 original size:509 final size:510
Alignment explanation
Indices: 68349776--68350796 Score: 1882
Period size: 509 Copynumber: 2.0 Consensus size: 510
68349766 TCCCCCATGT
68349776 GGACCATTTAAGTACTTTATGGTTTTAATCGATGCATCGAGTAGATGGTCTCATGTATCTTTGTT
1 GGACCATTTAAGTACTTTATGGTTTTAATCGATGCATCGAGTAGATGGTCTCATGTATCTTTGTT
* *
68349841 ATCAACTCGCAACCTGGTGTTTGCAAGATTGCTTGCTCAATTGATTCGATTACGAGCCTATTTCC
66 ATCAACTCGCAACCTGGCGTTTGCAAGATTGCTTGCTCAATTGATTCGATTACGAGCCCATTTCC
*
68349906 CAGATTTTCCTATTAAGACCATCCGTCTTGATAATGCTGGTGAATTTACTTTTCAGTCTTTTAAT
131 CAGATTTTCCTATTAAGACCATCCGTCTTGATAATGCTGGTGAATTTACTTCTCAGTCTTTTAAT
* *
68349971 AACTATTGCATGTTCATTGGAATAAGTGTTGAACATCCTGTAGCTCATGTTCATACACAAAATGG
196 AACTATTGCATGTCCATTGGAATAAGTGTTGAACATCCTGTAGCTCATGTTCACACACAAAATGG
* *
68350036 TCTAGCAGAATCTTTAATAAAACGACTTTAATTGATAGCAAGGCCATTACTTATGAAGTTAAAAC
261 TCTAGCAGAATCTTTAATAAAACGACTTCAATTGATAGCAAGGCCATTACTTATGAAGTCAAAAC
*
68350101 TCCCAATCACTGCTTGGGGGCATGCAATTTTACATGCAGCTGCATTAATTCGCATCAGGCCAACA
326 TCCCAATCACTGCTTGGGGGCATGCAATTTTACATGCAGCTGCATTAATTCGCATCAGGACAACA
68350166 AGTTATCATAAAGTCTCCCCCTTACAAATAGTTCATGGTCAGGAACCAAATATTTCCCATCTAAG
391 AGTTATCATAAAGTCTCCCCCTTACAAATAGTTCATGGTCAGGAACCAAATATTTCCCATCTAAG
* * *
68350231 AACATTTGGATGTGCCGTATATGTTACAATTTCTCCACCACATAGAACTAAGATG
456 AACATTTGGATGTGCCATATATGTTACAATTGCTCCACCACATAAAACTAAGATG
*
68350286 GGACCATTTAGGTACTTTATGGTTTTAATCGATGCATCGAGTAGATGGTCTCATGTATCTTTGTT
1 GGACCATTTAAGTACTTTATGGTTTTAATCGATGCATCGAGTAGATGGTCTCATGTATCTTTGTT
*
68350351 ATCAACTCGCAACCTGGCGTTTGCGAGATTGCTTGCTCAATTGATTCGATTA-GAGCCCATTTCC
66 ATCAACTCGCAACCTGGCGTTTGCAAGATTGCTTGCTCAATTGATTCGATTACGAGCCCATTTCC
68350415 CAGATTTTCCTATTAAGACCATCCGTCTTGATAATGCTGGTGAATTTACTTCTCAGTCTTTTAAT
131 CAGATTTTCCTATTAAGACCATCCGTCTTGATAATGCTGGTGAATTTACTTCTCAGTCTTTTAAT
*
68350480 AACTATTGCATGTCCATTGGAATAAGTGTTGAACATCTTGTAGCTCATGTTCACACACAAAATGG
196 AACTATTGCATGTCCATTGGAATAAGTGTTGAACATCCTGTAGCTCATGTTCACACACAAAATGG
*
68350545 TCTAGCAGAATCTTTAATAAAACGACTTCAATTGATAGCAAGGCCATTACTTATGAGGTCAAAAC
261 TCTAGCAGAATCTTTAATAAAACGACTTCAATTGATAGCAAGGCCATTACTTATGAAGTCAAAAC
68350610 TCCCAATCACTGCTTGGGGGCATGCAATTTTACATGCAGCTGCATTAATTCGCATCAGGACAACA
326 TCCCAATCACTGCTTGGGGGCATGCAATTTTACATGCAGCTGCATTAATTCGCATCAGGACAACA
*
68350675 AGTTATCATAAAGTCTCCCCCTTACAAATAGTTCATGGTTAGGAACCAAATATTTCCCATCTAAG
391 AGTTATCATAAAGTCTCCCCCTTACAAATAGTTCATGGTCAGGAACCAAATATTTCCCATCTAAG
*
68350740 AACATTTGGATGTGCCATATATGTTCCAATTGCTCCACCACATAAAACTAAGATG
456 AACATTTGGATGTGCCATATATGTTACAATTGCTCCACCACATAAAACTAAGATG
68350795 GG
1 GG
68350797 GCCTCAAAGA
Statistics
Matches: 494, Mismatches: 17, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
509 380 0.77
510 114 0.23
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (510 bp):
GGACCATTTAAGTACTTTATGGTTTTAATCGATGCATCGAGTAGATGGTCTCATGTATCTTTGTT
ATCAACTCGCAACCTGGCGTTTGCAAGATTGCTTGCTCAATTGATTCGATTACGAGCCCATTTCC
CAGATTTTCCTATTAAGACCATCCGTCTTGATAATGCTGGTGAATTTACTTCTCAGTCTTTTAAT
AACTATTGCATGTCCATTGGAATAAGTGTTGAACATCCTGTAGCTCATGTTCACACACAAAATGG
TCTAGCAGAATCTTTAATAAAACGACTTCAATTGATAGCAAGGCCATTACTTATGAAGTCAAAAC
TCCCAATCACTGCTTGGGGGCATGCAATTTTACATGCAGCTGCATTAATTCGCATCAGGACAACA
AGTTATCATAAAGTCTCCCCCTTACAAATAGTTCATGGTCAGGAACCAAATATTTCCCATCTAAG
AACATTTGGATGTGCCATATATGTTACAATTGCTCCACCACATAAAACTAAGATG
Found at i:68353357 original size:28 final size:28
Alignment explanation
Indices: 68353317--68353376 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
68353307 GTCATTATCA
68353317 ACCCCATAAGTTATAAAACTCTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
* * *
68353345 ACCCCATAAGTTATGAGACTTTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
68353373 ACCC
1 ACCC
68353377 TATTAATATG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.32, C:0.30, G:0.07, T:0.32
Consensus pattern (28 bp):
ACCCCATAAGTTATAAAACTCTTCCTAT
Found at i:68353535 original size:39 final size:38
Alignment explanation
Indices: 68353481--68353557 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 38
68353471 TCATGAAAAA
68353481 ATATATATATAAAAAGAAGATACACTCTCTACACTCTT
1 ATATATATATAAAAAGAAGATACACTCTCTACACTCTT
*
68353519 NATATATATATAAAAAGAAGATACACTCTCTTCACTCTT
1 -ATATATATATAAAAAGAAGATACACTCTCTACACTCTT
68353558 TCTTCTATCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.43, C:0.18, G:0.05, T:0.32
Consensus pattern (38 bp):
ATATATATATAAAAAGAAGATACACTCTCTACACTCTT
Found at i:68355809 original size:14 final size:15
Alignment explanation
Indices: 68355780--68355809 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
68355770 TTTTTTGGTT
68355780 TCAGTTGTTCTTTTA
1 TCAGTTGTTCTTTTA
68355795 TCAGTTGTT-TTTTA
1 TCAGTTGTTCTTTTA
68355809 T
1 T
68355810 TATTTGTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.13, C:0.10, G:0.13, T:0.63
Consensus pattern (15 bp):
TCAGTTGTTCTTTTA
Found at i:68376188 original size:104 final size:105
Alignment explanation
Indices: 68376073--68376282 Score: 395
Period size: 104 Copynumber: 2.0 Consensus size: 105
68376063 ACACAAAAAA
*
68376073 ATGGTATATATATATAAGATAAAACAAATAATGTATATAAAGTAATACGAAGGAAAAGAAAAATC
1 ATGGTATATATATATAAGATAAAACAAATAATGTATATAAAGTAATACGAAGGAAAAGAAAAATA
68376138 TTTGAAACG-AAAAAAATAAAACATTTTTAAATAAATAAG
66 TTTGAAACGAAAAAAAATAAAACATTTTTAAATAAATAAG
68376177 ATGGTATATATATATAAGATAAAACAAATAATGTATATAAAGTAATACGAAGGAAAAGAAAAATA
1 ATGGTATATATATATAAGATAAAACAAATAATGTATATAAAGTAATACGAAGGAAAAGAAAAATA
68376242 TTTGAAACGAAAAAAAAATAAAACATTTTTAAATAAATAAG
66 TTTGAAACG-AAAAAAAATAAAACATTTTTAAATAAATAAG
68376283 TTGCGTTTAA
Statistics
Matches: 103, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
104 73 0.71
106 30 0.29
ACGTcount: A:0.59, C:0.04, G:0.11, T:0.26
Consensus pattern (105 bp):
ATGGTATATATATATAAGATAAAACAAATAATGTATATAAAGTAATACGAAGGAAAAGAAAAATA
TTTGAAACGAAAAAAAATAAAACATTTTTAAATAAATAAG
Found at i:68377634 original size:74 final size:73
Alignment explanation
Indices: 68377513--68377658 Score: 274
Period size: 74 Copynumber: 2.0 Consensus size: 73
68377503 CAATCGTCTG
68377513 ATTTTCGGCTTTTATAGCCGATTTACAGCCTTTTAGTTTCTATTTTTTTTTGTCACTTTGATATT
1 ATTTTCGGCTTTTATAGCCGATTTACAGCCTTTTAGTTTCTA-TTTTTTTTGTCACTTTGATATT
68377578 TGGCTTCTA
65 TGGCTTCTA
*
68377587 ATTTTTGGCTTTTATAGCCGATTTACAGCCTTTTAGTTTCTATTTTTTTTGTCACTTTGATATTT
1 ATTTTCGGCTTTTATAGCCGATTTACAGCCTTTTAGTTTCTATTTTTTTTGTCACTTTGATATTT
68377652 GGCTTCT
66 GGCTTCT
68377659 TGCAGGTGGC
Statistics
Matches: 71, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
73 30 0.42
74 41 0.58
ACGTcount: A:0.16, C:0.16, G:0.14, T:0.55
Consensus pattern (73 bp):
ATTTTCGGCTTTTATAGCCGATTTACAGCCTTTTAGTTTCTATTTTTTTTGTCACTTTGATATTT
GGCTTCTA
Found at i:68377849 original size:66 final size:66
Alignment explanation
Indices: 68377738--68377869 Score: 246
Period size: 66 Copynumber: 2.0 Consensus size: 66
68377728 ACGAGGAGGG
* *
68377738 GGAGTGGCACACATGCGGCGCTCATGGGCAGTTGGGGCTAGGGTTTGCTGTTGCTGAAAGTTTGT
1 GGAGCGGCACACATGCGGCACTCATGGGCAGTTGGGGCTAGGGTTTGCTGTTGCTGAAAGTTTGT
68377803 T
66 T
68377804 GGAGCGGCACACATGCGGCACTCATGGGCAGTTGGGGCTAGGGTTTGCTGTTGCTGAAAGTTTGT
1 GGAGCGGCACACATGCGGCACTCATGGGCAGTTGGGGCTAGGGTTTGCTGTTGCTGAAAGTTTGT
68377869 T
66 T
68377870 ATGGGCTATT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.16, C:0.17, G:0.39, T:0.28
Consensus pattern (66 bp):
GGAGCGGCACACATGCGGCACTCATGGGCAGTTGGGGCTAGGGTTTGCTGTTGCTGAAAGTTTGT
T
Found at i:68379857 original size:17 final size:17
Alignment explanation
Indices: 68379818--68379849 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
68379808 CAATTTGACC
68379818 TAGAAATAATTTATAAG
1 TAGAAATAATTTATAAG
68379835 TAGAAAT-ATTTATAA
1 TAGAAATAATTTATAA
68379850 TAGGGAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (17 bp):
TAGAAATAATTTATAAG
Found at i:68396445 original size:21 final size:21
Alignment explanation
Indices: 68396421--68396489 Score: 63
Period size: 21 Copynumber: 3.2 Consensus size: 21
68396411 GCACATAGCT
68396421 GTGTG-GTAGAGGCACACGCTC
1 GTGTGAGTAGAGGCACACGC-C
68396442 GTGTGAAG-AGAGGCACACGACC
1 GTGTG-AGTAGAGGCACACG-CC
* *
68396464 GTGTGACTA-AGGCACATGCCC
1 GTGTGAGTAGAGGCACACG-CC
68396485 GTGTG
1 GTGTG
68396490 GACTAGGGAC
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
21 21 0.51
22 18 0.44
23 2 0.05
ACGTcount: A:0.23, C:0.23, G:0.36, T:0.17
Consensus pattern (21 bp):
GTGTGAGTAGAGGCACACGCC
Found at i:68396456 original size:22 final size:22
Alignment explanation
Indices: 68396428--68396469 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
68396418 GCTGTGTGGT
68396428 AGAGGCACACG-CTCGTGTGAAG
1 AGAGGCACACGAC-CGTGTGAAG
68396450 AGAGGCACACGACCGTGTGA
1 AGAGGCACACGACCGTGTGA
68396470 CTAAGGCACA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.29, C:0.24, G:0.36, T:0.12
Consensus pattern (22 bp):
AGAGGCACACGACCGTGTGAAG
Found at i:68396501 original size:21 final size:21
Alignment explanation
Indices: 68396452--68396502 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
68396442 GTGTGAAGAG
* *
68396452 AGGCACACGACCGTGTGACTA
1 AGGCACATGCCCGTGTGACTA
68396473 AGGCACATGCCCGTGTGGACT-
1 AGGCACATGCCCGTGT-GACTA
*
68396494 AGGGACATG
1 AGGCACATG
68396503 GCCTTGGGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.25, C:0.25, G:0.33, T:0.16
Consensus pattern (21 bp):
AGGCACATGCCCGTGTGACTA
Done.