Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 385 of 410
Found at i:116878493 original size:102 final size:97
Alignment explanation
Indices: 116878309--116878547 Score: 222
Period size: 98 Copynumber: 2.4 Consensus size: 97
116878299 TTTTATTATA
* *
116878309 TATTATTTATATTATTATTATTATTTATTATATATTATTTTTCACAAATTATTATTATTTTACAT
1 TATTATATATATTATTATTATTATTTATTATATATTATTTTT-ACAAATTATTATGATTTTACAT
116878374 TATTATTTATATATTATTATTATATTTTTACTTG
65 TATTATTTATATATTATTA-TATATTTTTACTTG
* *
116878408 TATTATATAT-TTATTAATTATTTATATATATTATATATTATTTTT-TAAA-TA-TATGCTTTTA
1 TATTATATATATTATT-ATTA-TTAT-T-TATTATATATTATTTTTACAAATTATTATGATTTTA
* * *
116878469 TATTATATATTATAATTATTTTATTATATATTATTA--TG
62 CATTAT-TATT-T-A-TATATTATTATATATTTTTACTTG
* * *
116878507 TCATTTTTTATATTATTATACATT-TTTATCTATATATTATT
1 T-ATTATATATATTATTAT-TATTATTTAT-TATATATTATT
116878548 ATCATTAAAG
Statistics
Matches: 118, Mismatches: 10, Indels: 25
0.77 0.07 0.16
Matches are distributed among these distances:
97 3 0.03
98 30 0.25
99 23 0.19
100 19 0.16
101 17 0.14
102 26 0.22
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.62
Consensus pattern (97 bp):
TATTATATATATTATTATTATTATTTATTATATATTATTTTTACAAATTATTATGATTTTACATT
ATTATTTATATATTATTATATATTTTTACTTG
Found at i:116878521 original size:156 final size:159
Alignment explanation
Indices: 116878311--116878595 Score: 368
Period size: 156 Copynumber: 1.8 Consensus size: 159
116878301 TTATTATATA
* * *
116878311 TTATTTATATTATTATTATTATTTATTATATATTATTTTTCACAAATTATTATTATTTTACATTA
1 TTATTTATATTATTATAATTATTTATTATATATTATTTGTCACAAATTATTATTATTATACATTA
* * *
116878376 TTAT-T-TATA-TATTATTATTATA-TTTTT-ACTTGTATTATATATTTATTAATTATTTATATA
66 TTATCTATATATTATTATCATTAAAGTTTTTAACTTGTATTATATACTTATT-ATTATTTATATA
116878436 TATTATATATTATTTTTTAAATATATGCTT
130 TATTATATATTATTTTTTAAATATATGCTT
****
116878466 TTATATTATA-TATTATAATTATTTTATTATATATTATTATGTCATTTTTTA-TATTATTATACA
1 TTAT-TTATATTATTATAATTA-TTTATTATATATTATT-TGTCACAAATTATTATTATTATACA
* *
116878529 TTTTTATCTATATATTATTATCATTAAAGGTTTTTAACTTGTATTATATACTTATTTTTATTTAT
63 TTATTATCTATATATTATTATCATTAAA-GTTTTTAACTTGTATTATATACTTATTATTATTTAT
116878594 AT
127 AT
116878596 GTTAATAATT
Statistics
Matches: 109, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
155 14 0.13
156 38 0.35
157 8 0.07
158 4 0.04
159 11 0.10
161 15 0.14
162 19 0.17
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (159 bp):
TTATTTATATTATTATAATTATTTATTATATATTATTTGTCACAAATTATTATTATTATACATTA
TTATCTATATATTATTATCATTAAAGTTTTTAACTTGTATTATATACTTATTATTATTTATATAT
ATTATATATTATTTTTTAAATATATGCTT
Found at i:116878524 original size:44 final size:45
Alignment explanation
Indices: 116878408--116878549 Score: 128
Period size: 44 Copynumber: 3.3 Consensus size: 45
116878398 TTTTTACTTG
* * *
116878408 TATTATATAT-TTAT-TAATTATTTATATATATTATATATTATTT
1 TATTATATATATTATGTCATTTTTTATATATATTATACATTATTT
*
116878451 T-TTA-A-ATA-TATG-C-TTTTATATTATATATTATA-ATTATTT
1 TATTATATATATTATGTCATTTTTTA-TATATATTATACATTATTT
116878490 TATTATATATTATTATGTCATTTTTTATAT-TATTATACA-T-TTT
1 TATTATATA-TATTATGTCATTTTTTATATATATTATACATTATTT
116878533 TATCTATATATTATTAT
1 TAT-TATATA-TATTAT
116878550 CATTAAAGGT
Statistics
Matches: 83, Mismatches: 4, Indels: 23
0.75 0.04 0.21
Matches are distributed among these distances:
39 13 0.16
40 19 0.23
41 2 0.02
42 4 0.05
43 9 0.11
44 25 0.30
45 5 0.06
46 6 0.07
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (45 bp):
TATTATATATATTATGTCATTTTTTATATATATTATACATTATTT
Found at i:116878851 original size:15 final size:16
Alignment explanation
Indices: 116878808--116878866 Score: 50
Period size: 16 Copynumber: 3.5 Consensus size: 16
116878798 CAATATATTT
*
116878808 TATATATTTTATATAA
1 TATATTTTTTATATAA
116878824 T-TATTATTCTTATA-AA
1 TATATT-TT-TTATATAA
116878840 TATATTTTTTATTATATA
1 TATATTTTTTA-TATA-A
116878858 TTATATTTT
1 -TATATTTT
116878867 AAATTTATTA
Statistics
Matches: 35, Mismatches: 1, Indels: 11
0.74 0.02 0.23
Matches are distributed among these distances:
15 6 0.17
16 10 0.29
17 10 0.29
18 1 0.03
19 8 0.23
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.63
Consensus pattern (16 bp):
TATATTTTTTATATAA
Found at i:116878870 original size:30 final size:29
Alignment explanation
Indices: 116878801--116878875 Score: 75
Period size: 30 Copynumber: 2.6 Consensus size: 29
116878791 TCTAAACCAA
116878801 TATATTTT--ATATATTTTATATAATTAT
1 TATATTTTAAATATATTTTATATAATTAT
* *
116878828 TAT-TCTTATAAATATATTTTTTATTATATAT
1 TATAT-TT-TAAATATATTTTATATAAT-TAT
*
116878859 TATATTTTAAATTTATT
1 TATATTTTAAATATATT
116878876 ATTAAATATC
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
26 1 0.03
27 5 0.13
28 1 0.03
30 23 0.59
31 8 0.21
32 1 0.03
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (29 bp):
TATATTTTAAATATATTTTATATAATTAT
Found at i:116878891 original size:26 final size:26
Alignment explanation
Indices: 116878843--116878892 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
116878833 TTATAAATAT
* * * *
116878843 ATTTTTTATTATATATTATATTTTAA
1 ATTTATTATTAAATATCACATTTTAA
116878869 ATTTATTATTAAATATCACATTTT
1 ATTTATTATTAAATATCACATTTT
116878893 TTTTATTATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (26 bp):
ATTTATTATTAAATATCACATTTTAA
Found at i:116882330 original size:42 final size:42
Alignment explanation
Indices: 116882222--116882336 Score: 126
Period size: 44 Copynumber: 2.7 Consensus size: 42
116882212 TTTTGTTATG
* * *
116882222 TGATTTCGTGTAAGACCAC-GTCAGGGACGTTGGCATCGACTTC
1 TGATTTCGTGTAAGACC-CTGTCTGGGACATCGGCATCGAC-TC
* *
116882265 TGTTTTACGTGTAAGACCATGTCTGGGACATCGGCATCGTA-TC
1 TGATTT-CGTGTAAGACCCTGTCTGGGACATCGGCATCG-ACTC
*
116882308 TGATTTCGTGTAAGACCCTGTCTAGGACA
1 TGATTTCGTGTAAGACCCTGTCTGGGACA
116882337 GTGGCATTGA
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
42 21 0.34
43 12 0.20
44 27 0.44
45 1 0.02
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCCTGTCTGGGACATCGGCATCGACTC
Found at i:116882343 original size:42 final size:42
Alignment explanation
Indices: 116882222--116882343 Score: 119
Period size: 42 Copynumber: 2.9 Consensus size: 42
116882212 TTTTGTTATG
116882222 TGATTTCGTGTAAGACCAC-GTC-AGGGAC-GTTGGCATCGACTTC
1 TGATTTCGTGTAAGACC-CTGTCTA-GGACAG-TGGCATCGAC-TC
* * *
116882265 TGTTTTACGTGTAAGACCATGTCTGGGACA-TCGGCATCGTA-TC
1 TGATTT-CGTGTAAGACCCTGTCTAGGACAGT-GGCATCG-ACTC
116882308 TGATTTCGTGTAAGACCCTGTCTAGGACAGTGGCAT
1 TGATTTCGTGTAAGACCCTGTCTAGGACAGTGGCAT
116882344 TGATGTTTGA
Statistics
Matches: 66, Mismatches: 6, Indels: 15
0.76 0.07 0.17
Matches are distributed among these distances:
42 26 0.39
43 14 0.21
44 25 0.38
45 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.30
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCCTGTCTAGGACAGTGGCATCGACTC
Found at i:116882388 original size:43 final size:42
Alignment explanation
Indices: 116882222--116882386 Score: 156
Period size: 43 Copynumber: 3.9 Consensus size: 42
116882212 TTTTGTTATG
* *
116882222 TGATTTCGTGTAAGACCACGTCAGGGACGTTGGCATCGACTTC
1 TGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCGA-TTC
* * * *
116882265 TGTTTTACGTGTAAGACCATGTCTGGGACATCGGCATCG-TATC
1 TG-ATTACGTGTAAGACCACGTCTGGGACGTTGGCATCGAT-TC
* * * *
116882308 TGATTTCGTGTAAGACC-CTGTCTAGGACAG-TGGCATTGATGTT
1 TGATTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGAT-TC
*
116882351 TGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 TGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
116882387 TGTATATGTT
Statistics
Matches: 97, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
42 29 0.30
43 37 0.38
44 31 0.32
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (42 bp):
TGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCGATTC
Found at i:116883921 original size:23 final size:24
Alignment explanation
Indices: 116883892--116883939 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
116883882 GGTAAACAAA
*
116883892 TTGAAGCTGGAAGGTG-AATGATG
1 TTGAAGCTGGAAGCTGAAATGATG
*
116883915 TTGAAGCTTGAAGCTGAAATGATG
1 TTGAAGCTGGAAGCTGAAATGATG
116883939 T
1 T
116883940 AGCCGTTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.31, C:0.06, G:0.33, T:0.29
Consensus pattern (24 bp):
TTGAAGCTGGAAGCTGAAATGATG
Found at i:116887626 original size:249 final size:249
Alignment explanation
Indices: 116887188--116887685 Score: 827
Period size: 249 Copynumber: 2.0 Consensus size: 249
116887178 TGCGATACCC
* *
116887188 AAAGAGGATATTGCGATACCACTGAAGGGACTCCTTATTCTTCAACACTGTCAGAGGTATCACGA
1 AAAGAGGATATTGCGATACCACTGAAGGAACTCCTTAGTCTTCAACACTGTCAGAGGTATCACGA
* *
116887253 TTCCAAGGGTTGATATCATGATACCCTTGCCTTAGATGCCATTCTTGCTCATTTTTAACCTCCAA
66 TTCCAAGGGTTGATATCATGATACCCTTGCCCTAGATGCCATTCTCGCTCATTTTTAACCTCCAA
* * *
116887318 CATGTCCTTACAGCATTTAAACACATGTTAGTCCTCCCAATGGCGTTATCGACCAATTTGGGTAA
131 CATGTCCTTACAGCATTTAAACACATGTTAGGCCTCCCAATGGCGCTATCGACCAATTTGAGTAA
116887383 AAAATGAGACAAAAAGGAGACATTTTCACTTATTACCCGAA-ATTATTAAAATAA
196 AAAATGAGACAAAAAGGAGACATTTTCACTTATTACCC-AAGATTATTAAAATAA
* * * *
116887437 AAAGAGGATATTGTGATACCACTGAAGGAAGTCCTTAGTCTTCTACACTGTCAGAGGTATCATGA
1 AAAGAGGATATTGCGATACCACTGAAGGAACTCCTTAGTCTTCAACACTGTCAGAGGTATCACGA
* * * *
116887502 TTCCAGGGGTTGATATCATGATACGCTTGCCCTAGATGCCGTTCTCGCTCGTTTTTAACCTCCAA
66 TTCCAAGGGTTGATATCATGATACCCTTGCCCTAGATGCCATTCTCGCTCATTTTTAACCTCCAA
*
116887567 CATGTCCTTACAGCATTTAAACACATGTTAGGCCTCCCAATGGCGCTATCGGCCAATTTGAGTAA
131 CATGTCCTTACAGCATTTAAACACATGTTAGGCCTCCCAATGGCGCTATCGACCAATTTGAGTAA
*
116887632 AAAATGAGACAAAAAGGTGACATTTTCACTTATTACCCAAGATTATTAAAATAA
196 AAAATGAGACAAAAAGGAGACATTTTCACTTATTACCCAAGATTATTAAAATAA
116887686 TGAAAATAAC
Statistics
Matches: 231, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
248 2 0.01
249 229 0.99
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (249 bp):
AAAGAGGATATTGCGATACCACTGAAGGAACTCCTTAGTCTTCAACACTGTCAGAGGTATCACGA
TTCCAAGGGTTGATATCATGATACCCTTGCCCTAGATGCCATTCTCGCTCATTTTTAACCTCCAA
CATGTCCTTACAGCATTTAAACACATGTTAGGCCTCCCAATGGCGCTATCGACCAATTTGAGTAA
AAAATGAGACAAAAAGGAGACATTTTCACTTATTACCCAAGATTATTAAAATAA
Found at i:116897965 original size:81 final size:81
Alignment explanation
Indices: 116897874--116898051 Score: 261
Period size: 81 Copynumber: 2.2 Consensus size: 81
116897864 AAAGTACTCC
* **
116897874 CGATTTACAGAATTACCGTTTTACCCTC-AGTTTATAGAATTACTGTTTTACCCTCGATTTGTAA
1 CGATTTACAGAATTACCATTTTACCCTCGA-TTTATAGAATTACTGTTTTACCCTCGATTTACAA
116897938 AATTA-TCGTTTTACCCT
65 AATTACT-GTTTTACCCT
* *
116897955 CGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTACAGA
1 CGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTACAAA
116898020 ATTACTGTTTTACCCT
66 ATTACTGTTTTACCCT
* *
116898036 TGATTTACAAAATTAC
1 CGATTTACAGAATTAC
116898052 TAAAATACCC
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
81 86 0.98
82 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.10, T:0.42
Consensus pattern (81 bp):
CGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTACAAA
ATTACTGTTTTACCCT
Found at i:116898052 original size:27 final size:27
Alignment explanation
Indices: 116897874--116898052 Score: 227
Period size: 27 Copynumber: 6.6 Consensus size: 27
116897864 AAAGTACTCC
*
116897874 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
*
116897901 C-AGTTTATAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACTGTTTTACCCT
** *
116897928 CGATTTGTAAAATTA-TCGTTTTACCCT
1 CGATTTACAGAATTACT-GTTTTACCCT
**
116897955 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
*
116897982 CGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
*
116898009 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
* *
116898036 TGATTTACAAAATTACT
1 CGATTTACAGAATTACT
116898053 AAAATACCCT
Statistics
Matches: 133, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
26 2 0.02
27 130 0.98
28 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.10, T:0.42
Consensus pattern (27 bp):
CGATTTACAGAATTACTGTTTTACCCT
Found at i:116898060 original size:27 final size:27
Alignment explanation
Indices: 116898003--116898064 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
116897993 ATTACTGTTT
* ****
116898003 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTTGATTTACAAAATTACTAAAA
116898030 TACCCTTGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAAAATTACTAAAA
116898057 TACCCTTG
1 TACCCTTG
116898065 GTTTGTGAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.39
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACTAAAA
Found at i:116899318 original size:25 final size:25
Alignment explanation
Indices: 116899289--116899336 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
116899279 TTATAATATG
* * *
116899289 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
116899314 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
116899337 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:116899387 original size:9 final size:9
Alignment explanation
Indices: 116899375--116899431 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
116899365 TTTGATAAAC
116899375 ATGATATGT
1 ATGATATGT
*
116899384 ATGATATGCAC
1 ATGATATG--T
*
116899395 ATGACATGT
1 ATGATATGT
*
116899404 ATGATATGCAC
1 ATGATATG--T
116899415 ATGATATGT
1 ATGATATGT
116899424 ATGATATG
1 ATGATATG
116899432 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:116899398 original size:20 final size:20
Alignment explanation
Indices: 116899373--116899443 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
116899363 ATTTTGATAA
116899373 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
116899393 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
116899413 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
116899433 ACATGAGATGT
1 ACATGATATGT
116899444 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:116899420 original size:11 final size:11
Alignment explanation
Indices: 116899384--116899438 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
116899374 CATGATATGT
116899384 ATGATATGCAC
1 ATGATATGCAC
* *
116899395 ATGACATG--T
1 ATGATATGCAC
116899404 ATGATATGCAC
1 ATGATATGCAC
*
116899415 ATGATATG--T
1 ATGATATGCAC
116899424 ATGATATGCAC
1 ATGATATGCAC
116899435 ATGA
1 ATGA
116899439 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:116899546 original size:25 final size:25
Alignment explanation
Indices: 116899490--116899632 Score: 220
Period size: 25 Copynumber: 5.8 Consensus size: 25
116899480 AGGAAGTGCA
116899490 AAAGGGCTTATGCCCCAGTTAT--T
1 AAAGGGCTTATGCCCCAGTTATGAT
116899513 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
116899538 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
* *
116899563 GAAGGGCTTATGCCCCAGTTACGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
*
116899588 AAAGGGCTTATGCCCCAGTTAT-AA
1 AAAGGGCTTATGCCCCAGTTATGAT
* *
116899612 AAAGGGTTTTTGCCCCAGTTA
1 AAAGGGCTTATGCCCCAGTTA
116899633 CTAAAAGAGG
Statistics
Matches: 111, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
23 22 0.20
24 20 0.18
25 69 0.62
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (25 bp):
AAAGGGCTTATGCCCCAGTTATGAT
Found at i:116899625 original size:24 final size:24
Alignment explanation
Indices: 116899490--116899660 Score: 213
Period size: 25 Copynumber: 7.0 Consensus size: 24
116899480 AGGAAGTGCA
116899490 AAAGGGCTTATGCCCCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATAT
116899513 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
116899538 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
* *
116899563 GAAGGGCTTATGCCCCAGTTACGAT
1 AAAGGGCTTATGCCCCAGTTA-TAT
*
116899588 AAAGGGCTTATGCCCCAGTTATAA
1 AAAGGGCTTATGCCCCAGTTATAT
* *
116899612 AAAGGGTTTTTGCCCCAGTTACTA-
1 AAAGGGCTTATGCCCCAGTTA-TAT
*
116899636 AAAGAGGC-TAGGCCTCCAGTTATAT
1 AAAG-GGCTTATGCC-CCAGTTATAT
116899661 GATAAAGCAG
Statistics
Matches: 131, Mismatches: 10, Indels: 12
0.86 0.07 0.08
Matches are distributed among these distances:
23 22 0.17
24 30 0.23
25 79 0.60
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAGGGCTTATGCCCCAGTTATAT
Found at i:116900733 original size:2 final size:2
Alignment explanation
Indices: 116900726--116900784 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
116900716 TTTGTTCAAA
116900726 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
116900768 CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT C
116900785 GCTCGCTCGC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:116905624 original size:46 final size:45
Alignment explanation
Indices: 116905410--116905626 Score: 158
Period size: 46 Copynumber: 4.7 Consensus size: 45
116905400 TTTGTGTGCT
* * * * *
116905410 AGTGTAAGACATGTTTGGGACAT-GCATCGGCCACATTATGA-GAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGG-C-TATGA-GATGTGGC
* * * *
116905456 AATGTAAGACCATGTCTAGGACATGGCATCGGC-ATTGAGACGAGAGC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCTA-TGAGATGTG-GC
* * * *
116905503 TAGTGTAAGACATGTTTGGGACAT-GCATTAGCCT-CGAGATGTAAGGC
1 -AGTGTAAGACATGTCTGGGACATGGCA-TCGGCTATGAGATGT--GGC
* *
116905550 AGTGTAAGACATGTCTGGGACA-CGCATCGGCTATGAGATGTGTC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCTATGAGATGTGGC
116905594 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGC
116905627 ATTATACCCT
Statistics
Matches: 138, Mismatches: 19, Indels: 28
0.75 0.10 0.15
Matches are distributed among these distances:
44 11 0.08
45 20 0.14
46 60 0.43
47 31 0.22
48 16 0.12
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGGCTATGAGATGTGGC
Found at i:116917053 original size:17 final size:17
Alignment explanation
Indices: 116917021--116917054 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
116917011 ACGGTTAGAA
*
116917021 ATTTGAATCTATTAAAT
1 ATTTGAATCTAGTAAAT
*
116917038 ATTTGAATTTAGTAAAT
1 ATTTGAATCTAGTAAAT
116917055 TACTTTAACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.47
Consensus pattern (17 bp):
ATTTGAATCTAGTAAAT
Found at i:116932373 original size:23 final size:23
Alignment explanation
Indices: 116932346--116932390 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
116932336 AAATATGTAT
116932346 AAATTATGGTTTATCAAATACCC
1 AAATTATGGTTTATCAAATACCC
116932369 AAATTATGGTTTATCAAATACC
1 AAATTATGGTTTATCAAATACC
116932391 TCCACACTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.36
Consensus pattern (23 bp):
AAATTATGGTTTATCAAATACCC
Found at i:116938428 original size:21 final size:20
Alignment explanation
Indices: 116938391--116938433 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
116938381 CTGCTCAAAG
*
116938391 GAAGCCGATTGATCCATCTCA
1 GAAGCCGATTCATCCATC-CA
116938412 GAAGCCGGATTCA-CCATCCA
1 GAAGCC-GATTCATCCATCCA
116938432 GA
1 GA
116938434 CTGAGGATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 4 0.20
21 11 0.55
22 5 0.25
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (20 bp):
GAAGCCGATTCATCCATCCA
Found at i:116943585 original size:49 final size:49
Alignment explanation
Indices: 116943513--116943700 Score: 259
Period size: 49 Copynumber: 3.8 Consensus size: 49
116943503 TGAGGTCACG
* *
116943513 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGGTCGCA
* * * * * * *
116943562 TGTGTAGCACTAAGTGCAGGCTACTATACGTACCCGAAAAATGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAG-ATAAT-TGGTCGCA
* *
116943613 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGGTCGCA
116943662 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
116943701 GCTTCGGCTA
Statistics
Matches: 117, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
49 73 0.62
50 7 0.06
51 37 0.32
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGGTCGCA
Found at i:116943681 original size:100 final size:100
Alignment explanation
Indices: 116943508--116943695 Score: 340
Period size: 100 Copynumber: 1.9 Consensus size: 100
116943498 TATTGTGAGG
116943508 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGCACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGCACT
116943573 AAGTGCAGGCTACTATACGTACCCGAAAAATGTGA
66 AAGTGCAGGCTACTATACGTACCCGAAAAATGTGA
* * *
116943608 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGCACT
*
116943673 AAGTGCAGGCTACTATGCGTACC
66 AAGTGCAGGCTACTATACGTACC
116943696 AGATAGCTTC
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 84 1.00
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.28
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGCACT
AAGTGCAGGCTACTATACGTACCCGAAAAATGTGA
Found at i:116944886 original size:43 final size:43
Alignment explanation
Indices: 116944831--116945057 Score: 310
Period size: 43 Copynumber: 5.3 Consensus size: 43
116944821 TTTTTAGAAA
116944831 AAAAAACGCCGCTAAAGACCAGGACCTTTCGCGGCGCTTTTTT
1 AAAAAACGCCGCTAAAGACCAGGACCTTTCGCGGCGCTTTTTT
* *
116944874 AAAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTTT
1 AAAAAACGCCGCTAAAGACCAGGACCTTTCGCGGCGCTTTTTT
* * * *
116944917 AAAAAACGTCGCTAAAGACGAGGACTTTTCGCGACGCTTTTTT
1 AAAAAACGCCGCTAAAGACCAGGACCTTTCGCGGCGCTTTTTT
* * * *
116944960 AAAAAACGCCGCTAAAGACCAGGACTTTTTGCGGTGCTTTTAT
1 AAAAAACGCCGCTAAAGACCAGGACCTTTCGCGGCGCTTTTTT
* ** * *
116945003 AAAAAACGCCACTAAAGATTAGGTCCTTTCGCGGCACTTTTTT
1 AAAAAACGCCGCTAAAGACCAGGACCTTTCGCGGCGCTTTTTT
*
116945046 AAAGAACGCCGC
1 AAAAAACGCCGC
116945058 GCCGCTAAGT
Statistics
Matches: 159, Mismatches: 25, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 159 1.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (43 bp):
AAAAAACGCCGCTAAAGACCAGGACCTTTCGCGGCGCTTTTTT
Found at i:116945389 original size:21 final size:21
Alignment explanation
Indices: 116945363--116945403 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
116945353 GTTCTGGTCC
*
116945363 GCCTCCCTCGCTGCTGCCTCT
1 GCCTCCCTCACTGCTGCCTCT
116945384 GCCTCCCTCACTGCTGCCTC
1 GCCTCCCTCACTGCTGCCTC
116945404 CGCTCTAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.02, C:0.54, G:0.17, T:0.27
Consensus pattern (21 bp):
GCCTCCCTCACTGCTGCCTCT
Found at i:116946868 original size:30 final size:30
Alignment explanation
Indices: 116946832--116946892 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
116946822 ATCATGATCA
*
116946832 AAATTCACGAGTTGATATAGCACAGAACTT
1 AAATTCACGAGTTGATATAACACAGAACTT
*
116946862 AAATTCACGAGTTGATATAACACGGAACTT
1 AAATTCACGAGTTGATATAACACAGAACTT
116946892 A
1 A
116946893 TTTGGAAGAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.26
Consensus pattern (30 bp):
AAATTCACGAGTTGATATAACACAGAACTT
Found at i:116949854 original size:8 final size:9
Alignment explanation
Indices: 116949833--116949858 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
116949823 TAACATATAT
116949833 TTTTTTCTA
1 TTTTTTCTA
116949842 TTTTTTCTA
1 TTTTTTCTA
116949851 TTTTTTCT
1 TTTTTTCT
116949859 TTTAAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTTTCTA
Found at i:116950303 original size:7 final size:7
Alignment explanation
Indices: 116950291--116950395 Score: 58
Period size: 7 Copynumber: 15.1 Consensus size: 7
116950281 ACTAACTAAT
116950291 CTAAACC
1 CTAAACC
116950298 CTAAACTC
1 CTAAAC-C
* *
116950306 TTAATCC
1 CTAAACC
*
116950313 CTAAACA
1 CTAAACC
*
116950320 TTAAACC
1 CTAAACC
116950327 CTAAACC
1 CTAAACC
116950334 CTAAACCC
1 CTAAA-CC
*
116950342 CT-CACC
1 CTAAACC
*
116950348 CTTAACC
1 CTAAACC
*
116950355 CTTAACCC
1 C-TAAACC
116950363 CT-AACAC
1 CTAAAC-C
116950370 CT-AACC
1 CTAAACC
*
116950376 TTAAACC
1 CTAAACC
116950383 C--AACC
1 CTAAACC
*
116950388 CTTAACC
1 CTAAACC
116950395 C
1 C
116950396 ACCTTTAAAC
Statistics
Matches: 75, Mismatches: 15, Indels: 16
0.71 0.14 0.15
Matches are distributed among these distances:
5 5 0.07
6 8 0.11
7 48 0.64
8 14 0.19
ACGTcount: A:0.36, C:0.43, G:0.00, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:116950348 original size:21 final size:20
Alignment explanation
Indices: 116950323--116950395 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 20
116950313 CTAAACATTA
116950323 AACCCTAAACCCTAAACCCCT
1 AACCCT-AACCCTAAACCCCT
* *
116950344 CACCCTTAACCCTTAACCCCT
1 AACCC-TAACCCTAAACCCCT
*
116950365 AACACCTAACCTTAAA-CCC-
1 AAC-CCTAACCCTAAACCCCT
116950384 AACCCTTAACCC
1 AACCC-TAACCC
116950396 ACCTTTAAAC
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
18 2 0.05
19 8 0.19
20 3 0.07
21 27 0.63
22 3 0.07
ACGTcount: A:0.34, C:0.48, G:0.00, T:0.18
Consensus pattern (20 bp):
AACCCTAACCCTAAACCCCT
Found at i:116950444 original size:15 final size:15
Alignment explanation
Indices: 116950418--116950464 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 15
116950408 TAGTTAACTC
*
116950418 ATAAACCTTAAACCT
1 ATAAAGCTTAAACCT
*
116950433 ATATAGCTTAAACC-
1 ATAAAGCTTAAACCT
*
116950447 ATAAATCTTAAA-CT
1 ATAAAGCTTAAACCT
116950461 ATAA
1 ATAA
116950465 TGATAATTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
13 1 0.04
14 14 0.52
15 12 0.44
ACGTcount: A:0.49, C:0.19, G:0.02, T:0.30
Consensus pattern (15 bp):
ATAAAGCTTAAACCT
Found at i:116950813 original size:23 final size:22
Alignment explanation
Indices: 116950783--116950830 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
116950773 GTTTAAGATT
* *
116950783 TTTTAAGGTTTAGGAGTTTAGTG
1 TTTTAAGGATTA-GAGGTTAGTG
*
116950806 TTTTAAGGATTATAGGTTAGTG
1 TTTTAAGGATTAGAGGTTAGTG
116950828 TTT
1 TTT
116950831 ATGATTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (22 bp):
TTTTAAGGATTAGAGGTTAGTG
Found at i:116950928 original size:41 final size:40
Alignment explanation
Indices: 116950871--116951090 Score: 287
Period size: 41 Copynumber: 5.4 Consensus size: 40
116950861 GTTATATGAC
*
116950871 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCCGAT
1 TTTTAGCGGCGTTTTACAAAAAGCGCCGCTAATGCTCCG-T
* *
116950912 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGATCCGAT
1 TTTTAGCGGCGTTTTACAAAAAGCGCCGCTAATGCTCCG-T
116950953 TTTTAGCGGCGTTTTACAAAAAGCGCCGCTAATGCTCCGGT
1 TTTTAGCGGCGTTTTACAAAAAGCGCCGCTAATGCTCC-GT
* * * * *
116950994 TTTTAGCGGCGTTTTAACAAAAAACGCTGTTATTGCTCTGT
1 TTTTAGCGGCGTTTT-ACAAAAAGCGCCGCTAATGCTCCGT
* * *
116951035 TTTTAGCGGCGTTTTAACAAAAAACGCCGCTATTGCTCTGT
1 TTTTAGCGGCGTTTT-ACAAAAAGCGCCGCTAATGCTCCGT
*
116951076 TTTTAGCGGCATTTT
1 TTTTAGCGGCGTTTT
116951091 TGGTAAAACG
Statistics
Matches: 166, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
41 147 0.89
42 19 0.11
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTACAAAAAGCGCCGCTAATGCTCCGT
Found at i:116951121 original size:82 final size:79
Alignment explanation
Indices: 116950871--116951121 Score: 268
Period size: 82 Copynumber: 3.1 Consensus size: 79
116950861 GTTATATGAC
* * * *
116950871 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCCGATTTTTAGCGGCGTTTTACCAAAAGC
1 TTTTAGCGGCGTTTTACAAAAAGCGCCGCTAATGCTCCG-TTTTTAGCGGCTTTTTA-AAAAAAC
* * *
116950936 GCCGCTAATGATCCGAT
64 GCCGCTATTGCT-CTAT
*
116950953 TTTTAGCGGCGTTTTACAAAAAGCGCCGCTAATGCTCCGGTTTTTAGCGGCGTTTTAACAAAAAA
1 TTTTAGCGGCGTTTTACAAAAAGCGCCGCTAATGCTCC-GTTTTTAGCGGC-TTTTTA-AAAAAA
* * *
116951018 CGCTGTTATTGCTCTGT
63 CGCCGCTATTGCTCTAT
* * * ***
116951035 TTTTAGCGGCGTTTTAACAAAAAACGCCGCTATTGCTCTGTTTTTAGCGGCATTTTTGGTAAAAC
1 TTTTAGCGGCGTTTT-ACAAAAAGCGCCGCTAATGCTCCGTTTTTAGCGGC-TTTTTAAAAAAAC
116951100 GCCGCTATTGCTCTAT
64 GCCGCTATTGCTCTAT
116951116 GTTTTA
1 -TTTTA
116951122 CATTTTTTGT
Statistics
Matches: 143, Mismatches: 22, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
81 18 0.13
82 86 0.60
83 39 0.27
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (79 bp):
TTTTAGCGGCGTTTTACAAAAAGCGCCGCTAATGCTCCGTTTTTAGCGGCTTTTTAAAAAAACGC
CGCTATTGCTCTAT
Found at i:116951160 original size:12 final size:12
Alignment explanation
Indices: 116951145--116951170 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
116951135 GTTTTTTGAT
116951145 AAAACGCCGCTA
1 AAAACGCCGCTA
116951157 AAAACGCCGCTA
1 AAAACGCCGCTA
116951169 AA
1 AA
116951171 GCCCTGTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:116953240 original size:15 final size:15
Alignment explanation
Indices: 116953220--116953273 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
116953210 GTATCTTGGG
116953220 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
116953235 TTTCTTTATT-TGGG
1 TTTCTTTATTCTGGA
116953249 TTT-TTCTA-TCTTGGA
1 TTTCTT-TATTC-TGGA
116953264 TTTCTTTATT
1 TTTCTTTATT
116953274 TGTTTTCTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
13 3 0.09
14 8 0.25
15 18 0.56
16 3 0.09
ACGTcount: A:0.11, C:0.11, G:0.13, T:0.65
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:116953248 original size:29 final size:29
Alignment explanation
Indices: 116953215--116953275 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 29
116953205 GTATCGTATC
116953215 TTGGGTTTCTT-TAT-TCTGGATTTCTTTAT
1 TTGGGTTT-TTCTATCT-TGGATTTCTTTAT
116953244 TTGGGTTTTTCTATCTTGGATTTCTTTAT
1 TTGGGTTTTTCTATCTTGGATTTCTTTAT
116953273 TTG
1 TTG
116953276 TTTTCTTGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
28 2 0.07
29 27 0.90
30 1 0.03
ACGTcount: A:0.10, C:0.10, G:0.18, T:0.62
Consensus pattern (29 bp):
TTGGGTTTTTCTATCTTGGATTTCTTTAT
Found at i:116955485 original size:47 final size:47
Alignment explanation
Indices: 116955416--116955585 Score: 268
Period size: 48 Copynumber: 3.6 Consensus size: 47
116955406 TGAGGTCACG
116955416 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAAATTGGTCGCA
* * * *
116955463 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCGAAATGTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAAAT-TGGTCGCA
*
116955511 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACC-GA-AATTGGTCGCA
116955560 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
116955586 TGCGTACCAG
Statistics
Matches: 111, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
47 37 0.33
48 38 0.34
49 34 0.31
50 2 0.02
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (47 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAAATTGGTCGCA
Found at i:116955590 original size:97 final size:95
Alignment explanation
Indices: 116955409--116955593 Score: 343
Period size: 97 Copynumber: 1.9 Consensus size: 95
116955399 ACTATTGTGA
116955409 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAAATTGGTCGCATGTGTAGTACT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAAATTGGTCGCATGTGTAGTACT
116955474 AAGTGCAGGCTACTATGCGTACCGAAATGT
66 AAGTGCAGGCTACTATGCGTACCGAAATGT
*
116955504 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCATGTGTAGTA
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACC-GA-AATTGGTCGCATGTGTAGTA
116955569 CTAAGTGCAGGCTACTATGCGTACC
64 CTAAGTGCAGGCTACTATGCGTACC
116955594 AGATAGCTTT
Statistics
Matches: 87, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
95 41 0.47
96 2 0.02
97 44 0.51
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.28
Consensus pattern (95 bp):
GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCGAAATGT
Found at i:116955597 original size:49 final size:47
Alignment explanation
Indices: 116955416--116955593 Score: 266
Period size: 49 Copynumber: 3.7 Consensus size: 47
116955406 TGAGGTCACG
*
116955416 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGAAATTGGTCGCA
* * *
116955463 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCGAAATGTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGAAAT-TGGTCGCA
* *
116955511 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACC-GA-AATTGGTCGCA
*
116955560 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACC
116955594 AGATAGCTTT
Statistics
Matches: 117, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
47 37 0.32
48 38 0.32
49 40 0.34
50 2 0.02
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.29
Consensus pattern (47 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGAAATTGGTCGCA
Found at i:116969495 original size:25 final size:23
Alignment explanation
Indices: 116969467--116969623 Score: 188
Period size: 25 Copynumber: 6.4 Consensus size: 23
116969457 CTGGAAGCCT
*
116969467 AGCCTCTTTTAGTAACTGGGGCAAA
1 AGCC-CTTTTA-TAACTGGGGCATA
116969492 AGCCCTTTTTATAACTGGGGCATA
1 AGCCC-TTTTATAACTGGGGCATA
*
116969516 AGCCCTTTATCGTAACTGGGGCATA
1 AGCCCTTT-T-ATAACTGGGGCATA
*
116969541 AGCCCTTCATCATAACTGGGGCATA
1 AGCCCTT--TTATAACTGGGGCATA
116969566 AGCCCTTTTATCATAACTGGGGCATA
1 AGCCC-TTT-T-ATAACTGGGGCATA
*
116969592 AGCCCTTTAATAACTGGGGCATA
1 AGCCCTTTTATAACTGGGGCATA
116969615 AGCCCTTTT
1 AGCCCTTTT
116969624 GCACTTCCTC
Statistics
Matches: 117, Mismatches: 7, Indels: 18
0.82 0.05 0.13
Matches are distributed among these distances:
23 25 0.21
24 20 0.17
25 50 0.43
26 21 0.18
27 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (23 bp):
AGCCCTTTTATAACTGGGGCATA
Found at i:116969531 original size:49 final size:49
Alignment explanation
Indices: 116969478--116969622 Score: 220
Period size: 49 Copynumber: 2.9 Consensus size: 49
116969468 GCCTCTTTTA
* *
116969478 GTAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAAGCCCTTTATC
1 GTAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTATC
* *
116969527 GTAACTGGGGCATAAGCCCTTCATCATAACTGGGGCATAAGCCCTTTTATC
1 GTAACTGGGGCATAAGCCCTT-TTAATAACTGGGGCATAAGCCC-TTTATC
*
116969578 ATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTT
1 GTAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
116969623 TGCACTTCCT
Statistics
Matches: 88, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
48 3 0.03
49 40 0.45
50 21 0.24
51 24 0.27
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (49 bp):
GTAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTATC
Found at i:116969557 original size:74 final size:74
Alignment explanation
Indices: 116969479--116969621 Score: 236
Period size: 74 Copynumber: 1.9 Consensus size: 74
116969469 CCTCTTTTAG
*
116969479 TAACTGGGGCAAAAGCCCTTTT-T-ATAACTGGGGCATAAGCCCTTTATCGTAACTGGGGCATAA
1 TAACTGGGGCAAAAGCCCTTTTATCATAACTGGGGCATAAGCCCTTTA--ATAACTGGGGCATAA
116969542 GCCCTTCATCA
64 GCCCTTCATCA
*
116969553 TAACTGGGGCATAAGCCCTTTTATCATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGC
1 TAACTGGGGCAAAAGCCCTTTTATCATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGC
116969618 CCTT
66 CCTT
116969622 TTGCACTTCC
Statistics
Matches: 65, Mismatches: 2, Indels: 4
0.92 0.03 0.06
Matches are distributed among these distances:
74 41 0.63
75 1 0.02
76 23 0.35
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (74 bp):
TAACTGGGGCAAAAGCCCTTTTATCATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGC
CCTTCATCA
Found at i:116969695 original size:9 final size:9
Alignment explanation
Indices: 116969681--116969737 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
116969671 ATCTCATGTG
116969681 CATATCATA
1 CATATCATA
*
116969690 CATATCATGTG
1 CATATCA--TA
116969701 CATATCATA
1 CATATCATA
* *
116969710 CATGTCATGTG
1 CATATCA--TA
116969721 CATATCATA
1 CATATCATA
116969730 CATATCAT
1 CATATCAT
116969738 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:116969697 original size:20 final size:20
Alignment explanation
Indices: 116969669--116969739 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
116969659 GCATTTATGA
*
116969669 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
116969689 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
116969709 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
116969729 ACATATCATGT
1 ACATATCATGT
116969740 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:116969704 original size:11 final size:11
Alignment explanation
Indices: 116969674--116969728 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
116969664 TATGAACATC
116969674 TCATGTGCATA
1 TCATGTGCATA
*
116969685 TCA--TACATA
1 TCATGTGCATA
116969694 TCATGTGCATA
1 TCATGTGCATA
* *
116969705 TCA--TACATG
1 TCATGTGCATA
116969714 TCATGTGCATA
1 TCATGTGCATA
116969725 TCAT
1 TCAT
116969729 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:116976716 original size:30 final size:30
Alignment explanation
Indices: 116976682--116976797 Score: 160
Period size: 30 Copynumber: 3.9 Consensus size: 30
116976672 TTTAATGTCG
* *
116976682 ACACGGGCGTGTGGCCTACTCGTGTGTTAC
1 ACACGGGCGTGTGGCCTACCCGTGTGTTAA
* * *
116976712 ACACGGGCGTGTGGCCTACTCATGTGTTAT
1 ACACGGGCGTGTGGCCTACCCGTGTGTTAA
116976742 ACACGGGCGTGTGGCCTACCCGTGTGTTAA
1 ACACGGGCGTGTGGCCTACCCGTGTGTTAA
* * *
116976772 ACACAGGCATGTGGACTACCCGTGTG
1 ACACGGGCGTGTGGCCTACCCGTGTG
116976798 GAAGTGCCTA
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 78 1.00
ACGTcount: A:0.17, C:0.26, G:0.32, T:0.25
Consensus pattern (30 bp):
ACACGGGCGTGTGGCCTACCCGTGTGTTAA
Found at i:116980238 original size:16 final size:18
Alignment explanation
Indices: 116980206--116980239 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
116980196 ATATGGCCTA
116980206 CCCGTGTGAGCCCACACG
1 CCCGTGTGAGCCCACACG
116980224 CCCGTGT-AG-CCACACG
1 CCCGTGTGAGCCCACACG
116980240 ACCCAAATCG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 2 0.12
18 7 0.44
ACGTcount: A:0.18, C:0.44, G:0.26, T:0.12
Consensus pattern (18 bp):
CCCGTGTGAGCCCACACG
Found at i:116980471 original size:12 final size:12
Alignment explanation
Indices: 116980454--116980479 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
116980444 TATGGCATAT
116980454 GGCCTACCACAC
1 GGCCTACCACAC
116980466 GGCCTACCACAC
1 GGCCTACCACAC
116980478 GG
1 GG
116980480 TCGTCTAGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.46, G:0.23, T:0.08
Consensus pattern (12 bp):
GGCCTACCACAC
Found at i:116983704 original size:27 final size:27
Alignment explanation
Indices: 116983664--116983775 Score: 138
Period size: 27 Copynumber: 4.1 Consensus size: 27
116983654 AGGAAGCGTC
*
116983664 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
116983691 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
116983718 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
116983746 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
116983772 CTGG
1 CTGG
116983776 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 8 0.11
27 49 0.65
28 18 0.24
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:116983770 original size:54 final size:54
Alignment explanation
Indices: 116983664--116983775 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
116983654 AGGAAGCGTC
* *
116983664 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * *
116983718 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
116983772 CTGG
1 CTGG
116983776 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:116988964 original size:26 final size:27
Alignment explanation
Indices: 116988898--116988967 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
116988888 CATCAGAATA
*
116988898 CAATCAAATACAGTCTAGGCCTGAGCC
1 CAATCAGATACAGTCTAGGCCTGAGCC
* * * *
116988925 TATTACAGATACAGT-TTGGCCTTAGCC
1 CAAT-CAGATACAGTCTAGGCCTGAGCC
116988952 CAATCAGATACAGTCT
1 CAATCAGATACAGTCT
116988968 CAGATATAAG
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
26 10 0.29
27 15 0.44
28 9 0.26
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (27 bp):
CAATCAGATACAGTCTAGGCCTGAGCC
Found at i:116995130 original size:5 final size:5
Alignment explanation
Indices: 116995120--116995147 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
116995110 TTGTGTCTTC
116995120 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
116995148 TTACAAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:117001318 original size:45 final size:45
Alignment explanation
Indices: 117001164--117001330 Score: 171
Period size: 45 Copynumber: 3.6 Consensus size: 45
117001154 GGCATCCGAA
* * * *
117001164 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGTCCT-AA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATAGATG-CAACG-CCTGAG
* * * *
117001210 CTCGTTGAGTTGAGTCCGAGTT--C-GAGAGATGTAACTAGGCATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAC---GC--CTGAG
117001257 CTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAACGCCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAACGCCTGAG
117001302 CTCGTTGAGTTGAGTCCGAGTTCACTTAT
1 CTCGTTGAGTTGAGTCCGAGTTCACTTAT
117001331 GGGCAGGTTA
Statistics
Matches: 101, Mismatches: 11, Indels: 19
0.77 0.08 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 2 0.02
45 34 0.34
46 23 0.23
47 25 0.25
49 1 0.01
50 9 0.09
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.31
Consensus pattern (45 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAACGCCTGAG
Found at i:117016498 original size:22 final size:23
Alignment explanation
Indices: 117016453--117016496 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
117016443 TTCTTTTAAA
*
117016453 AAAATTTATAATTTATTTATTTT
1 AAAATTTATAATATATTTATTTT
117016476 AAAATTTAT-ATATA-TTATTTT
1 AAAATTTATAATATATTTATTTT
117016497 TATATAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 7 0.35
22 4 0.20
23 9 0.45
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (23 bp):
AAAATTTATAATATATTTATTTT
Found at i:117016507 original size:17 final size:16
Alignment explanation
Indices: 117016482--117016518 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
117016472 TTTTAAAATT
*
117016482 TATATATATTATTTTTA
1 TATAAATATTA-TTTTA
117016499 TATAAATATTATTTTA
1 TATAAATATTATTTTA
117016515 TATA
1 TATA
117016519 TCATTTCATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATAAATATTATTTTA
Found at i:117021896 original size:12 final size:11
Alignment explanation
Indices: 117021871--117021895 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
117021861 ATATATTGAG
117021871 AAATTTAAAAA
1 AAATTTAAAAA
117021882 AAATTTAAAAA
1 AAATTTAAAAA
117021893 AAA
1 AAA
117021896 AACTCAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
AAATTTAAAAA
Found at i:117032590 original size:274 final size:272
Alignment explanation
Indices: 117032091--117032617 Score: 1018
Period size: 274 Copynumber: 1.9 Consensus size: 272
117032081 TACCTATAAG
117032091 CATCATCCTATGGTCTTACTATATCATTGATTCCTTTAGCTGAAAGGATTTACAATATTGTGATT
1 CATCATCCTATGGTCTTACTATATCATTGATTCCTTTAGCTGAAAGGATTTACAATATTGTGATT
117032156 GAAAAGATTGTAACAAGATCTATTTTACTGATAACACACACACACACACACACATACATACATTC
66 GAAAAGATTGTAACAAGATCTATTTTACTGATAACACACACACACACACACACATACATACATTC
*
117032221 GTGCCCTTATCTTCCTCTCCTGTTTACAGTTTTTGTTTTCTTAAAACTTATCTACTTAGATAGTG
131 GTGCCCTAATCTTCCTCTCCTGTTTACAGTTTTTGTTTTCTTAAAACTTATCTACTTAGATAGTG
*
117032286 CAGTTAGAGAGGAGAAAAAAAAATCAGTTTGAGACGACATTATTGTTATTGGATTCTGGAAGTAA
196 CAGTTAAAGAGGAGAAAAAAAAATCAGTTTGAGACGACATTATTGTTATTGGATTCTGGAAGTAA
117032351 CTTTTTGTTCAC
261 CTTTTTGTTCAC
117032363 CATCATCCTATGGTCTTACTATATCATTGATTCCTTTAGCTGAAAGGATTTACAATATTGTGATT
1 CATCATCCTATGGTCTTACTATATCATTGATTCCTTTAGCTGAAAGGATTTACAATATTGTGATT
117032428 GAAAAGATTGTAACAAGATCTATTTTACTGATAACACACACACACACACACACACATACATACAT
66 GAAAAGATTGTAACAAGATCTATTTTACTGAT-A-ACACACACACACACACACACATACATACAT
117032493 TCGTGCCCTAATCTTCCTCTCCTGTTTACAGTTTTTGTTTTCTTAAAACTTATCTACTTAGATAG
129 TCGTGCCCTAATCTTCCTCTCCTGTTTACAGTTTTTGTTTTCTTAAAACTTATCTACTTAGATAG
117032558 TGCAGTTAAAGAGGAGAAAAAAAAATCAGTTTGAGACGACATTATTGTTATTGGATTCTG
194 TGCAGTTAAAGAGGAGAAAAAAAAATCAGTTTGAGACGACATTATTGTTATTGGATTCTG
117032618 CAGTCATTGA
Statistics
Matches: 251, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
272 97 0.39
273 1 0.00
274 153 0.61
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.35
Consensus pattern (272 bp):
CATCATCCTATGGTCTTACTATATCATTGATTCCTTTAGCTGAAAGGATTTACAATATTGTGATT
GAAAAGATTGTAACAAGATCTATTTTACTGATAACACACACACACACACACACATACATACATTC
GTGCCCTAATCTTCCTCTCCTGTTTACAGTTTTTGTTTTCTTAAAACTTATCTACTTAGATAGTG
CAGTTAAAGAGGAGAAAAAAAAATCAGTTTGAGACGACATTATTGTTATTGGATTCTGGAAGTAA
CTTTTTGTTCAC
Found at i:117033600 original size:31 final size:31
Alignment explanation
Indices: 117033560--117033622 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
117033550 CAATTTTGTC
*
117033560 ACTAAACTATTTGAAAGTTTTTATTCAAGTT
1 ACTAAACTATTTAAAAGTTTTTATTCAAGTT
* *
117033591 ACTAGACTATTTAAAAGTTTTTATTTAAGTT
1 ACTAAACTATTTAAAAGTTTTTATTCAAGTT
117033622 A
1 A
117033623 GTAGGTTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.46
Consensus pattern (31 bp):
ACTAAACTATTTAAAAGTTTTTATTCAAGTT
Found at i:117037130 original size:6 final size:6
Alignment explanation
Indices: 117037110--117037154 Score: 63
Period size: 6 Copynumber: 7.3 Consensus size: 6
117037100 TTCGGGGGGC
* *
117037110 TTGACT TTGATTT TTGATT TTGACT TTGACT TTGACT TTGACT TT
1 TTGACT TTGA-CT TTGACT TTGACT TTGACT TTGACT TTGACT TT
117037155 TTATTTATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
6 31 0.86
7 5 0.14
ACGTcount: A:0.16, C:0.11, G:0.16, T:0.58
Consensus pattern (6 bp):
TTGACT
Found at i:117039764 original size:23 final size:23
Alignment explanation
Indices: 117039737--117039780 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
117039727 CCAGAGAAAT
*
117039737 AACAGTAGCAAAATCAAGTCATG
1 AACAGTAACAAAATCAAGTCATG
117039760 AACAGTAACAAAATCAAGTCA
1 AACAGTAACAAAATCAAGTCA
117039781 AGTGTAACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.52, C:0.18, G:0.14, T:0.16
Consensus pattern (23 bp):
AACAGTAACAAAATCAAGTCATG
Found at i:117040894 original size:3 final size:3
Alignment explanation
Indices: 117040825--117040876 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
117040815 TTTGTGCCTA
117040825 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
117040873 TAT T
1 TAT T
117040877 TATCTATCTA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:117041148 original size:3 final size:3
Alignment explanation
Indices: 117041140--117041182 Score: 70
Period size: 3 Copynumber: 14.7 Consensus size: 3
117041130 TCACACACTT
*
117041140 TTA TTA TTA TTA TTA TTT TTA TTA TTA TTA TTA -TA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
117041183 CTATATCGTC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:117043123 original size:19 final size:20
Alignment explanation
Indices: 117043083--117043126 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
117043073 GCCTCTTTTG
* *
117043083 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
117043102 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
117043121 GCATTA
1 GCATTA
117043127 AATTTCACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:117046967 original size:37 final size:37
Alignment explanation
Indices: 117046909--117047053 Score: 236
Period size: 37 Copynumber: 3.9 Consensus size: 37
117046899 GCTCAGACGA
* *
117046909 AATCTCCACACGAAGTTATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
117046946 ACTCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
* *
117046983 AATCTCCACACGTAGTCGTTGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
117047020 AATCTCCACACGTAGTCATCGGGTCTCACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
117047054 ATATATTTCC
Statistics
Matches: 99, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 99 1.00
ACGTcount: A:0.23, C:0.32, G:0.20, T:0.24
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:117047165 original size:48 final size:48
Alignment explanation
Indices: 117047098--117048011 Score: 1407
Period size: 48 Copynumber: 19.0 Consensus size: 48
117047088 TGTTACAATA
* * *
117047098 TTCACATTAGCCATTCGGCTTTACCACATATTCATATCTTATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
117047146 TTCACATTCGCCATTCGGCTTTACGACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
117047194 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
117047242 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
117047290 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * * * *
117047338 TTCACATTCGCCATTCGGCCTTACCACATCTACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
117047386 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * * *
117047434 TTCACATTAGCCATACAGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
117047482 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
117047530 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * * * * *
117047578 TTCACATTCGCCATTCGGCCTTACCACATCTTCATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
117047626 TTCACATTAGCCATTCGGCTTTACCACATATTCATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * *
117047674 TTCACATTCA-CCATTCGGCTTTACCACATCTACATATCACACATATAT
1 TTCACATT-AGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
117047722 TTCATATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * *
117047770 TTCAAATTAGCCATTCGGCTTTACCACATATTCATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * * * * *
117047818 TTCACATTCGCCATTTGGCTTCACCACATCTACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
117047866 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
117047914 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * *
117047962 TTCACATTAGCCATTCGGCTTTAACACATATTCATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
117048010 TT
1 TT
117048012 ATCTTGTACA
Statistics
Matches: 795, Mismatches: 69, Indels: 4
0.92 0.08 0.00
Matches are distributed among these distances:
47 1 0.00
48 793 1.00
49 1 0.00
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
Found at i:117050547 original size:40 final size:40
Alignment explanation
Indices: 117050510--117050820 Score: 509
Period size: 40 Copynumber: 7.8 Consensus size: 40
117050500 CCAGCATGAT
* * *
117050510 TGCTCTTCGGGACCTA-TCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGAACTTAGT-CCGGATACATCACTAGCACGAA
117050550 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
117050590 TGCTCTTCGG-ACTTAGTCCGGATACATCATTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
117050629 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
117050669 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
117050709 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
117050749 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACTAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* * * *
117050789 TGCTCTTCGGGATTTAGCCCGGATATATCACT
1 TGCTCTTCGGAACTTAGTCCGGATACATCACT
117050821 CTCAATTCTC
Statistics
Matches: 258, Mismatches: 11, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
39 38 0.15
40 219 0.85
41 1 0.00
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:117052232 original size:37 final size:37
Alignment explanation
Indices: 117052053--117052234 Score: 274
Period size: 37 Copynumber: 4.9 Consensus size: 37
117052043 GCTCAGACGA
* * * * *
117052053 AATCTTCACACGAAGTTATCAGGTCTTACCCAGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
117052090 ACTCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
* **
117052127 ACTCTCCACACGTAGTCATCGGGTCTTACCCAAACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
117052164 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
117052201 AATCTCCACACGTAGTCATCGGGTCTCACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
117052235 ATATATTTCC
Statistics
Matches: 133, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 133 1.00
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.24
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:117053143 original size:48 final size:48
Alignment explanation
Indices: 117052279--117053131 Score: 1375
Period size: 48 Copynumber: 17.8 Consensus size: 48
117052269 TGTTACAACA
* * * *
117052279 TTCACATTAGCCATTCGGCTTTACCACATATTCATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * * *
117052327 TTCACATTCGCCATTCGGCTTTACGACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
117052375 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATACAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
117052423 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * *
117052471 TTCACATTAGTCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
117052519 TTCACATTCGCCATTCGGC-TTACCACATCTACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
117052566 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
117052614 TTCACATTAGCCATTCCGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
117052662 TTCACATTAGCCATTCGGCCTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
117052710 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
117052758 TTCACATTAGCCATTCGGCCTTACCACATCTACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * * *
117052806 TTCACATTAGCCATTCGGCTTTACCACATATTCATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
117052854 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
117052902 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * * *
117052950 TTCACATTAGCCATTCGGCTTTACCACATATTCATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
117052998 TTCACATTCGCCATTCGGCTTTACCACATCTACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
117053046 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
117053094 TTCACATTAGCCATTCGGCTTTACCACATATTCATATC
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATC
117053132 TCATACATAT
Statistics
Matches: 747, Mismatches: 57, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
47 43 0.06
48 704 0.94
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:117054633 original size:6 final size:6
Alignment explanation
Indices: 117054600--117054645 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
117054590 AGGCAGCCAA
* *
117054600 AAAAAT GAAAA- AAATAT AAAATAT AAAAAT -AAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAA-AT AAAAAT AAAAAT AAAAAT AAAAA
117054646 AACAAAAACA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
5 8 0.24
6 19 0.58
7 6 0.18
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:117054658 original size:19 final size:19
Alignment explanation
Indices: 117054610--117054652 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
117054600 AAAAATGAAA
* *
117054610 AAAATATAAAATATAAAAAT
1 AAAATA-AAAATAAAAAAAC
117054630 AAAATAAAAATAAAAAAAC
1 AAAATAAAAATAAAAAAAC
117054649 AAAA
1 AAAA
117054653 ACAAAAAGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.16
Consensus pattern (19 bp):
AAAATAAAAATAAAAAAAC
Found at i:117055230 original size:17 final size:16
Alignment explanation
Indices: 117055204--117055237 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
117055194 AAAAGAAAAT
117055204 AAAAAAAGGAAAAAGG
1 AAAAAAAGGAAAAAGG
117055220 AAAAGAAAGGAAAAAGG
1 AAAA-AAAGGAAAAAGG
117055237 A
1 A
117055238 GAGGCCAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (16 bp):
AAAAAAAGGAAAAAGG
Found at i:117056139 original size:44 final size:44
Alignment explanation
Indices: 117056085--117056714 Score: 427
Period size: 44 Copynumber: 14.2 Consensus size: 44
117056075 AAATTCTGTA
* * *
117056085 TCCCTGAAGTTGCAGTAGAGCAGATTAAAGTCACAAACCTTATC
1 TCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAATCTTATC
* * *
117056129 TCTCTAAAGTTGCAGTGGA--A-AAT-AA--T--AAATCTTATC
1 TCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAATCTTATC
* * * **
117056165 TCTCTGAAGTTTCAGTGGAGTAGATTGCAGTTACAAATCTTATC
1 TCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAATCTTATC
** * * *
117056209 TCCCTGAAGTTGCAGTGGATTAGGTTGAAGTTAGCAAACCTTATC
1 TCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTA-CAAATCTTATC
* * * *
117056254 -CCTCTGAAGTTACAGTGGGGCAGGTTGAAGTTA-AAAGTCTTATC
1 TCC-CTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAA-TCTTATC
* * * *
117056298 TCCCTAAAGTTGCAGTGGAGCAGACTAAAAGTTACAAACCTTATT
1 TCCCTGAAGTTGCAGTGGAGCAGA-TTAAAGTTACAAATCTTATC
* * * * * *
117056343 TCCCTAAAGTTGTAATAGAGCAGGTTGAAGTTACAAATCTTATC
1 TCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAATCTTATC
* * *
117056387 TCCCTGAAGTTGCAGTGGAGTAGACTGAAGGTTACAAATCTTATC
1 TCCCTGAAGTTGCAGTGGAGCAGA-TTAAAGTTACAAATCTTATC
* * * * * *
117056432 TCCCAGAAGCTGCAGTGGAGCAGATTGAA-TCCACTAGTCTTATC
1 TCCCTGAAGTTGCAGTGGAGCAGATTAAAGT-TACAAATCTTATC
** * ** * *
117056476 TCCCTGAAGTTATAGTGAAGTGGATCAAAGATAGCAAATCTTATC
1 TCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTA-CAAATCTTATC
** * * * * * *
117056521 TATCTGAAGTTGTAGTAGAGTAGATTAAAGCTATAAACCTTATC
1 TCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAATCTTATC
* * * * * * * *
117056565 TCTCTGAAGTTTCATTGGAGTAGATTGAAGTCACTAGTCTTATC
1 TCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAATCTTATC
* *
117056609 TCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACGAGTTAAAAATCTTATC
1 TCCCTGAAGTTGCAGTGGAGCAGATT--A---A--AGTTACAAATCTTATC
* * * * **
117056660 TCCCTGAAGTTGCAGTGGAGCAGATTGAAGATGCGAATCAAATC
1 TCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAATCTTATC
117056704 TCCCTGAAGTT
1 TCCCTGAAGTT
117056715 ATAGTAGAGT
Statistics
Matches: 453, Mismatches: 108, Indels: 50
0.74 0.18 0.08
Matches are distributed among these distances:
36 26 0.06
38 1 0.00
39 2 0.00
40 3 0.01
41 2 0.00
42 2 0.00
43 4 0.01
44 229 0.51
45 142 0.31
46 4 0.01
49 1 0.00
51 37 0.08
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (44 bp):
TCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAATCTTATC
Found at i:117056310 original size:89 final size:88
Alignment explanation
Indices: 117056159--117056689 Score: 361
Period size: 89 Copynumber: 5.9 Consensus size: 88
117056149 AATAATAAAT
* * * * *
117056159 CTTATCTCTCTGAAGTTTCAGTGGAGTAGATTGCAGTTACAAATCTTATCTCCCTGAAGTTGCAG
1 CTTATCCCTCTGAAGTTACAGTGGAGCAGGTTGAAGTTACAAATCTTATCTCCCTGAAGTTGCAG
* *
117056224 TGGATTAGGTTGAAGTTAGCAAAC
66 TGGAGTAGATTGAAGTTA-CAAAC
* *
117056248 CTTATCCCTCTGAAGTTACAGTGGGGCAGGTTGAAGTTA-AAAGTCTTATCTCCCTAAAGTTGCA
1 CTTATCCCTCTGAAGTTACAGTGGAGCAGGTTGAAGTTACAAA-TCTTATCTCCCTGAAGTTGCA
* **
117056312 GTGGAGCAGACTAAAAGTTACAAAC
65 GTGGAGTAGA-TTGAAGTTACAAAC
* * ** * *
117056337 CTTATTTCC-CTAAAGTTGTAATAGAGCAGGTTGAAGTTACAAATCTTATCTCCCTGAAGTTGCA
1 CTTA-TCCCTCTGAAGTTACAGTGGAGCAGGTTGAAGTTACAAATCTTATCTCCCTGAAGTTGCA
* *
117056401 GTGGAGTAGACTGAAGGTTACAAAT
65 GTGGAGTAGATTGAA-GTTACAAAC
* * * * * * * **
117056426 CTTATCTCC-CAGAAGCTGCAGTGGAGCAGATTGAA-TCCACTAGTCTTATCTCCCTGAAGTTAT
1 CTTATC-CCTCTGAAGTTACAGTGGAGCAGGTTGAAGT-TACAAATCTTATCTCCCTGAAGTTGC
* * ** * *
117056489 AGTGAAGTGGATCAAAGATAGCAAAT
64 AGTGGAGTAGATTGAAGTTA-CAAAC
** ** * * * * * * * * * *
117056515 CTTATCTATCTGAAGTTGTAGTAGAGTAGATTAAAGCTATAAACCTTATCTCTCTGAAGTTTCAT
1 CTTATCCCTCTGAAGTTACAGTGGAGCAGGTTGAAGTTACAAATCTTATCTCCCTGAAGTTGCAG
* * **
117056580 TGGAGTAGATTGAAGTCACTAGT
66 TGGAGTAGATTGAAGTTACAAAC
* * * *
117056603 CTTATCTCC-CTGAAGTTGCAGTGGAACAGATTAAAGCTACGAGTTAAAAATCTTATCTCCCTGA
1 CTTATC-CCTCTGAAGTTACAGTGGAGCAGGTT---G--A--AGTTACAAATCTTATCTCCCTGA
*
117056667 AGTTGCAGTGGAGCAGATTGAAG
58 AGTTGCAGTGGAGTAGATTGAAG
117056690 ATGCGAATCA
Statistics
Matches: 340, Mismatches: 84, Indels: 30
0.75 0.19 0.07
Matches are distributed among these distances:
88 38 0.11
89 249 0.73
90 13 0.04
93 1 0.00
95 39 0.11
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.31
Consensus pattern (88 bp):
CTTATCCCTCTGAAGTTACAGTGGAGCAGGTTGAAGTTACAAATCTTATCTCCCTGAAGTTGCAG
TGGAGTAGATTGAAGTTACAAAC
Found at i:117056473 original size:178 final size:177
Alignment explanation
Indices: 117056193--117056634 Score: 467
Period size: 178 Copynumber: 2.5 Consensus size: 177
117056183 AGTAGATTGC
* * *
117056193 AGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGATTAGGTTGAAGTTAGCAAACCTTATC-CCT
1 AGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTA-CAAATCTTATCTCC-
* * * * * *
117056257 CTGAAGTTACAGTGGGGCAGGTTGAAGTTAAAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGA
64 CTGAAGTTGCAGTGGAGCAGATTGAAGTCAAAAGTCTTATCTCCCTAAAGTTACAGTGAAGCAGA
* * * * *
117056322 CTAAAAGTTA-CAAACCTTATTTCCCTAAAGTTGTAATAGAGCAGGTTGA
129 -TAAAAGATAGCAAACCTTATCTACCTAAAGTTGTAATAGAGCAGATTAA
*
117056371 AGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGGTTACAAATCTTATCTCCC
1 AGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAA-GTTACAAATCTTATCTCCC
* * ** * * **
117056436 AGAAGCTGCAGTGGAGCAGATTGAA-TCCACTAGTCTTATCTCCCTGAAGTTATAGTGAAGTGGA
65 TGAAGTTGCAGTGGAGCAGATTGAAGT-CAAAAGTCTTATCTCCCTAAAGTTACAGTGAAGCAGA
* * * * * *
117056500 TCAAAGATAGCAAATCTTATCTATCTGAAGTTGTAGTAGAGTAGATTAA
129 TAAAAGATAGCAAACCTTATCTACCTAAAGTTGTAATAGAGCAGATTAA
* * * * * * * * *
117056549 AGCTATAAACCTTATCTCTCTGAAGTTTCATTGGAGTAGATTGAAGTCACTAGTCTTATCTCCCT
1 AGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACAAATCTTATCTCCCT
*
117056614 GAAGTTGCAGTGGAACAGATT
66 GAAGTTGCAGTGGAGCAGATT
117056635 AAAGCTACGA
Statistics
Matches: 218, Mismatches: 42, Indels: 9
0.81 0.16 0.03
Matches are distributed among these distances:
177 43 0.20
178 169 0.78
179 6 0.03
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (177 bp):
AGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACAAATCTTATCTCCCT
GAAGTTGCAGTGGAGCAGATTGAAGTCAAAAGTCTTATCTCCCTAAAGTTACAGTGAAGCAGATA
AAAGATAGCAAACCTTATCTACCTAAAGTTGTAATAGAGCAGATTAA
Found at i:117056713 original size:139 final size:137
Alignment explanation
Indices: 117056155--117056765 Score: 391
Period size: 133 Copynumber: 4.5 Consensus size: 137
117056145 GGAAAATAAT
* * * * *
117056155 AAATCTTATCTCTCTGAAGTTTCAGTGGAGTAGATTGCAGTTACAAATCTTATCTCCCTGAAGTT
1 AAATCTTATCTCCCTGAAGTTTCAGTGGAGTAGATTGAAGTCACTAGTCTTATCTCCCTGAAGTT
** * * * * * * *
117056220 GCAGTGG-ATTAGGT---TGA-AGTTAGCAAACCTTATC-CCTCTGAAGTTACAGTGGGGCAGGT
66 GCAGTGGAAGCAGATCAAAGAGAGTTA-CAAATCTTATCTCC-CTGAAGTTGCAGTGGAGTAGAT
*
117056279 TGAAGTTA-
129 TGAAGATAC
* * * ** * * ** * *
117056287 AAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAAGTTACAAACCTTATTTCCCTAAAG
1 AAA-TCTTATCTCCCTGAAGTTTCAGTGGAGTAGA-TTGAAGTCACTAGTCTTATCTCCCTGAAG
* * * * * *
117056352 TTGTAATAG-AGCAGGT---TGA-AGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGAC
64 TTGCAGTGGAAGCAGATCAAAGAGAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGAT
*
117056412 TGAAGGTTAC
129 TGAA-GATAC
* * * *
117056422 AAATCTTATCTCCCAGAAGCTGCAGTGGAGCAGATTGAA-TCCACTAGTCTTATCTCCCTGAAGT
1 AAATCTTATCTCCCTGAAGTTTCAGTGGAGTAGATTGAAGT-CACTAGTCTTATCTCCCTGAAGT
** ** * ** * *
117056486 TATAGT-GAAGTGGATCAAAGATAG---CAAATCTTATCTATCTGAAGTTGTAGTAGAGTAGATT
65 TGCAGTGGAAGCAGATCAAAGAGAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATT
* * *
117056547 AAAGCTAT
130 GAAGATAC
* * *
117056555 AAACCTTATCTCTCTGAAGTTTCATTGGAGTAGATTGAAGTCACTAGTCTTATCTCCCTGAAGTT
1 AAATCTTATCTCCCTGAAGTTTCAGTGGAGTAGATTGAAGTCACTAGTCTTATCTCCCTGAAGTT
* * *
117056620 GCAGTGGAA-CAGATTAAAGCTACGAGTTAAAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
66 GCAGTGGAAGCAGATCAAAG--A-GAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGA
*
117056684 TTGAAGATGC
128 TTGAAGATAC
* ** * * * *
117056694 GAATCAAATCTCCCTGAAGTTAT-AGTAGAGTAGATCGAAG-CACTAATTTCTATAC-CCCTGAA
1 AAATCTTATCTCCCTGAAGTT-TCAGTGGAGTAGATTGAAGTCACTAGTCT-TAT-CTCCCTGAA
*
117056756 GATGCAGTGG
63 GTTGCAGTGG
117056766 GATAGAATAA
Statistics
Matches: 377, Mismatches: 80, Indels: 37
0.76 0.16 0.07
Matches are distributed among these distances:
132 5 0.01
133 155 0.41
134 114 0.30
135 4 0.01
136 4 0.01
137 2 0.01
138 7 0.02
139 84 0.22
140 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (137 bp):
AAATCTTATCTCCCTGAAGTTTCAGTGGAGTAGATTGAAGTCACTAGTCTTATCTCCCTGAAGTT
GCAGTGGAAGCAGATCAAAGAGAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTG
AAGATAC
Found at i:117057220 original size:23 final size:23
Alignment explanation
Indices: 117057194--117057237 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
117057184 ACAGAGAAAT
*
117057194 AACAGTAGCAAAATCAAGTCATG
1 AACAGTAACAAAATCAAGTCATG
117057217 AACAGTAACAAAATCAAGTCA
1 AACAGTAACAAAATCAAGTCA
117057238 AGTGTAACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.52, C:0.18, G:0.14, T:0.16
Consensus pattern (23 bp):
AACAGTAACAAAATCAAGTCATG
Found at i:117058281 original size:3 final size:3
Alignment explanation
Indices: 117058273--117058317 Score: 56
Period size: 3 Copynumber: 15.3 Consensus size: 3
117058263 TTTGTGTCTA
* * *
117058273 TAT TAT TAT TAT TAT TAT TGT CAT TAA TAT TAT TAT T-T TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
117058318 TATTTATCTA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:117058288 original size:24 final size:25
Alignment explanation
Indices: 117058257--117058317 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 25
117058247 TTAATCTTTC
117058257 ATTTTATT-TGTGTC-T-ATATTATT
1 ATTTTATTAT-TGTCATAATATTATT
117058280 ATTATTATTATTGTCATTAATATTATT
1 ATT-TTATTATTGTCA-TAATATTATT
117058307 ATTTTATTATT
1 ATTTTATTATT
117058318 TATTTATCTA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
23 3 0.09
24 9 0.27
25 1 0.03
26 9 0.27
27 11 0.33
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.64
Consensus pattern (25 bp):
ATTTTATTATTGTCATAATATTATT
Found at i:117058320 original size:15 final size:16
Alignment explanation
Indices: 117058273--117058339 Score: 54
Period size: 15 Copynumber: 4.4 Consensus size: 16
117058263 TTTGTGTCTA
117058273 TATTATTATTATTA-T
1 TATTATTATTATTATT
* * *
117058288 TATTGTCATTAATA-T
1 TATTATTATTATTATT
117058303 TATTATT-TTATTATT
1 TATTATTATTATTATT
117058318 TA-T-TTATCTATCTATT
1 TATTATTAT-TAT-TATT
117058334 TATTAT
1 TATTAT
117058340 CCTTATATAT
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
13 2 0.05
14 7 0.17
15 23 0.57
16 6 0.15
17 1 0.03
18 1 0.03
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.64
Consensus pattern (16 bp):
TATTATTATTATTATT
Found at i:117058350 original size:2 final size:2
Alignment explanation
Indices: 117058343--117058367 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
117058333 TTATTATCCT
117058343 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
117058368 TTTAAAATTT
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:117058588 original size:3 final size:3
Alignment explanation
Indices: 117058580--117058658 Score: 158
Period size: 3 Copynumber: 26.3 Consensus size: 3
117058570 ACTCACACTT
117058580 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
117058628 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
117058659 ATCTCGTCTT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 76 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:117062019 original size:20 final size:21
Alignment explanation
Indices: 117061994--117062044 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
117061984 CTTTTACATA
117061994 TTATATATTTTTTAAACTT-G-
1 TTATATATTTTTTAAA-TTAGC
*
117062014 TTATATATCATTTTAAATTAGC
1 TTATATAT-TTTTTAAATTAGC
117062036 TTATATATT
1 TTATATATT
117062045 ACTTATTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 10 0.38
21 8 0.31
22 8 0.31
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (21 bp):
TTATATATTTTTTAAATTAGC
Found at i:117064272 original size:19 final size:18
Alignment explanation
Indices: 117064250--117064297 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
117064240 CTTCCTTTCT
117064250 TTTGCATTCATTCCATACA
1 TTTGCATTCATTCCAT-CA
* *
117064269 TTTGCATTGTATTGCATCA
1 TTTGCATT-CATTCCATCA
117064288 TTTGCATTCA
1 TTTGCATTCA
117064298 ACTTTCACTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 1 0.04
19 18 0.72
20 6 0.24
ACGTcount: A:0.23, C:0.21, G:0.10, T:0.46
Consensus pattern (18 bp):
TTTGCATTCATTCCATCA
Found at i:117066928 original size:14 final size:12
Alignment explanation
Indices: 117066893--117066926 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
117066883 CAAATACTTC
117066893 AAAAAAAAAGAG
1 AAAAAAAAAGAG
*
117066905 AAGAAAAAAGAG
1 AAAAAAAAAGAG
117066917 AAAAAGAAAA
1 AAAAA-AAAA
117066927 AGGAGAGGCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 15 0.79
13 4 0.21
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAGAG
Found at i:117068043 original size:64 final size:64
Alignment explanation
Indices: 117067959--117068083 Score: 178
Period size: 64 Copynumber: 2.0 Consensus size: 64
117067949 TTCATAACAT
* * ** * *
117067959 ATCTAGTTAGGAGCACTTGATTCATTTTGATCATAGCATTCTAATTATTTGACATAAGCATCAC
1 ATCTAATTAGGAACACTTGATTCATTTCAATCATAGCATCCTAATCATTTGACATAAGCATCAC
* *
117068023 ATCTAATTAGGAACATTTGATTCATTTCAATCATAGCATCCTAATCATTTGGCATAAGCAT
1 ATCTAATTAGGAACACTTGATTCATTTCAATCATAGCATCCTAATCATTTGACATAAGCAT
117068084 AGATACATGA
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
64 53 1.00
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.37
Consensus pattern (64 bp):
ATCTAATTAGGAACACTTGATTCATTTCAATCATAGCATCCTAATCATTTGACATAAGCATCAC
Found at i:117068541 original size:132 final size:132
Alignment explanation
Indices: 117068150--117068982 Score: 1064
Period size: 132 Copynumber: 6.3 Consensus size: 132
117068140 GGTGAATTTA
* * * * * *
117068150 CAGATATTGTCTCTCTGAAGTTGCAGTAGAACAGATCGAAGACGGTGAATCTTGTCTCCCT-AAC
1 CAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGGCGAATCTTGTCTTCCTGAAG
** * * * * *
117068214 CAGTAGTGGAGCAGATTTAAGCCACCATCCTATATCCCTAATCAGTAGTGGAGTAGGCTAAAGAT
66 TTGCAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGAT
117068279 TG
131 TG
* * * * *
117068281 CAGATCTTGTCTCCTTGAAGTTACAGTGGAACAGATCAAAGACGGCGAATCTTGTCTCCCT-AAC
1 CAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGGCGAATCTTGTCTTCCTGAAG
** * *
117068345 CAGTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGAT
66 TTGCAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGAT
*
117068410 TA
131 TG
* * * * *
117068412 CATATCTTGTCTCCTTGAAGTTGTAGTGGAACAGATCGAAGACGGTGAATCGTGTC-TCTCTGAA
1 CAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGGCGAATCTTGTCTTC-CTGAA
* **
117068476 GTTGCAGT-AATGCAGATTTAAGCCACCATCCTATCTCTCTAAGCAGTAGTGGAGTAAACTGAAG
65 GTTGCAGTGAA-GCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAG
117068540 ATTG
129 ATTG
* * * * *
117068544 CAAATCTTGTCTCCCTGAAATTGCAGTGGAACAGATCGAAGATGACAAATCTTGTCTTCCTGAAG
1 CAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGGCGAATCTTGTCTTCCTGAAG
* ** * *
117068609 TTGTAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAGTTGTAATGGAGTAGGCTAAAGAT
66 TTGCAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGAT
117068674 TG
131 TG
* * * * * *
117068676 TAGATCTTGTCTCCCTAAAGTCGCAGTTGAGCAGATCGAAGACGACGAATCTTGTCTTCCTGAAG
1 CAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGGCGAATCTTGTCTTCCTGAAG
**
117068741 TTGCAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAGTTGTAGTGGAGTAGGCTGAAGAT
66 TTGCAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGAT
117068806 TG
131 TG
* * * *
117068808 TAGATCTTGTCTCCCTGAAATTGCAGTGGAGCAAATCGAAGACGGCGAATCTTGTCTTCCTGAAG
1 CAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGGCGAATCTTGTCTTCCTGAAG
* * * *
117068873 TTGCAGTGAAGCAAATTTAAGCCACTATCCTATCTCCCTAAGTTA-TAGTAGAGTAGGCTGAAGA
66 TTGCAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAG-CAGTAGTGGAGTAGGCTGAAGA
117068937 TTG
130 TTG
* * *
117068940 TAGATCTTGTCTTCCTGAAGTTGCAGTGGAGCAGATCGAAGAC
1 CAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGAC
117068983 AACAAATCTT
Statistics
Matches: 627, Mismatches: 69, Indels: 11
0.89 0.10 0.02
Matches are distributed among these distances:
130 1 0.00
131 173 0.28
132 448 0.71
133 5 0.01
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (132 bp):
CAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGGCGAATCTTGTCTTCCTGAAG
TTGCAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGAT
TG
Found at i:117068624 original size:45 final size:45
Alignment explanation
Indices: 117068544--117069012 Score: 173
Period size: 45 Copynumber: 10.6 Consensus size: 45
117068534 CTGAAGATTG
* *
117068544 CAAATCTTGTCTCCCTGAAATTGCAGTGGAA-CAGATCGAAGATGA
1 CAAATCTTGTCTCCCTGAAGTTGCAGT-GAAGCAGATCGAAGACGA
* * ** *
117068589 CAAATCTTGTCTTCCTGAAGTTGTAGTGAAGCAGATTTAAG-CCA
1 CAAATCTTGTCTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGA
* * * * * * * * * *
117068633 C-CATCCTATCTCCCT-AAGTTGTAATGGAGTAG-GCTAAAGATTG-
1 CAAATCTTGTCTCCCTGAAGTTGCAGTGAAGCAGATC-GAAGA-CGA
* * * *
117068676 TAGATCTTGTCTCCCTAAAGTCGCAGTTG-AGCAGATCGAAGACGA
1 CAAATCTTGTCTCCCTGAAGTTGCAG-TGAAGCAGATCGAAGACGA
* * ** *
117068721 CGAATCTTGTCTTCCTGAAGTTGCAGTGAAGCAGATTTAAG-CCA
1 CAAATCTTGTCTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGA
* * * * * * * *
117068765 C-CATCCTATCTCCCT-AAGTTGTAGTGGAGTAG-GCTGAAGATTG-
1 CAAATCTTGTCTCCCTGAAGTTGCAGTGAAGCAGATC-GAAGA-CGA
* * * * * *
117068808 TAGATCTTGTCTCCCTGAAATTGCAGTGGAGCAAATCGAAGACGG
1 CAAATCTTGTCTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGA
* * * ** *
117068853 CGAATCTTGTCTTCCTGAAGTTGCAGTGAAGCAAATTTAAG-CCA
1 CAAATCTTGTCTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGA
* * * ** * * *
117068897 C-TATCCTATCTCCCT-AAGTTATAGT-AGAGTAG-GCTGAAGATTG-
1 CAAATCTTGTCTCCCTGAAGTTGCAGTGA-AGCAGATC-GAAGA-CGA
* * * * *
117068940 TAGATCTTGTCTTCCTGAAGTTGCAGTGGAGCAGATCGAAGACAA
1 CAAATCTTGTCTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGA
* * *
117068985 CAAATCTTATTTCCCTGAAGTTGTAGTG
1 CAAATCTTGTCTCCCTGAAGTTGCAGTG
117069013 GAATAGGTTA
Statistics
Matches: 296, Mismatches: 102, Indels: 52
0.66 0.23 0.12
Matches are distributed among these distances:
41 1 0.00
42 48 0.16
43 30 0.10
44 46 0.16
45 166 0.56
46 5 0.02
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (45 bp):
CAAATCTTGTCTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGA
Found at i:117074037 original size:8 final size:8
Alignment explanation
Indices: 117074024--117074064 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
117074014 ATTTTAAATA
117074024 TTTCATTT
1 TTTCATTT
117074032 TTTCATTT
1 TTTCATTT
*
117074040 TTTCA-TA
1 TTTCATTT
*
117074047 TAT-ATTT
1 TTTCATTT
117074054 TTTCATTT
1 TTTCATTT
117074062 TTT
1 TTT
117074065 TTATATTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
6 1 0.04
7 6 0.22
8 20 0.74
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.73
Consensus pattern (8 bp):
TTTCATTT
Found at i:117077581 original size:2 final size:2
Alignment explanation
Indices: 117077574--117077599 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
117077564 ACTCCACAAA
117077574 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
117077600 GAGTAGAGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:117078105 original size:5 final size:5
Alignment explanation
Indices: 117078095--117078119 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
117078085 GCTAATATAC
117078095 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
117078120 CCTTCTTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:117079147 original size:101 final size:101
Alignment explanation
Indices: 117078972--117079197 Score: 303
Period size: 101 Copynumber: 2.2 Consensus size: 101
117078962 AATTGATGGA
** * *
117078972 TAAGACCATGGTTGGACCATGACAGTGTTTATATGTAAGACCATAGCTAGGCTATGGCATTTTAA
1 TAAGACCATGGTTGGACCATGACAGTAATTATAAGTAAGACCATAGCTAGGCTATGGCATTCTAA
* **
117079037 TGAAAAGACCATAACTGGGTTATGGCACTTTGAACG
66 TGAAAAGACCATAACTGGGTTATGGCAATACGAACG
117079073 TAAGACCATGGTTGGACCAT-AGCAGTAATTATAAGTAAGACCATAGCT-GGACTATGGCATTCT
1 TAAGACCATGGTTGGACCATGA-CAGTAATTATAAGTAAGACCATAGCTAGG-CTATGGCATTCT
* * *
117079136 GATGATAAGACCATAACTGGGTTATGGCAATACGAATG
64 AATGAAAAGACCATAACTGGGTTATGGCAATACGAACG
* **
117079174 TAAGACCATAGTTGGGTCATGACA
1 TAAGACCATGGTTGGACCATGACA
117079198 ATGCATGTGT
Statistics
Matches: 109, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
100 3 0.03
101 105 0.96
102 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATGACAGTAATTATAAGTAAGACCATAGCTAGGCTATGGCATTCTAA
TGAAAAGACCATAACTGGGTTATGGCAATACGAACG
Found at i:117079150 original size:33 final size:33
Alignment explanation
Indices: 117079007--117079164 Score: 90
Period size: 33 Copynumber: 4.7 Consensus size: 33
117078997 TGTTTATATG
* *
117079007 TAAGACCATAGCTAGG-CTATGGCATTTTAATGA
1 TAAGACCATAGCT-GGACTATGGCACTTTGATGA
* * ** *
117079040 AAAGACCATAACTGGGTTATGGCACTTTGAACG-
1 TAAGACCATAGCTGGACTATGGCACTTTG-ATGA
* * * * * *
117079073 TAAGACCATGGTTGGACCATAGCAGTAATT-ATAA
1 TAAGACCATAGCTGGACTATGGCACT--TTGATGA
117079107 GTAAGACCATAGCTGGACTATGGCA-TTCTGATGA
1 -TAAGACCATAGCTGGACTATGGCACTT-TGATGA
* **
117079141 TAAGACCATAACTGGGTTATGGCA
1 TAAGACCATAGCTGGACTATGGCA
117079165 ATACGAATGT
Statistics
Matches: 92, Mismatches: 25, Indels: 16
0.69 0.19 0.12
Matches are distributed among these distances:
32 3 0.03
33 61 0.66
34 6 0.07
35 22 0.24
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (33 bp):
TAAGACCATAGCTGGACTATGGCACTTTGATGA
Found at i:117079190 original size:33 final size:33
Alignment explanation
Indices: 117079107--117079183 Score: 86
Period size: 33 Copynumber: 2.3 Consensus size: 33
117079097 GTAATTATAA
* ** *
117079107 GTAAGACCATAGCTGGACTATGGC-ATTCTG-AT
1 GTAAGACCATAACTGGGTTATGGCAATAC-GAAT
117079139 GATAAGACCATAACTGGGTTATGGCAATACGAAT
1 G-TAAGACCATAACTGGGTTATGGCAATACGAAT
117079173 GTAAGACCATA
1 GTAAGACCATA
117079184 GTTGGGTCAT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
32 1 0.03
33 31 0.82
34 6 0.16
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (33 bp):
GTAAGACCATAACTGGGTTATGGCAATACGAAT
Found at i:117083231 original size:19 final size:19
Alignment explanation
Indices: 117083209--117083245 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
117083199 TCAATTAAAC
* *
117083209 ATATATTTGTATTTGTCTA
1 ATATATTTATAATTGTCTA
117083228 ATATATTTATAATTGTCT
1 ATATATTTATAATTGTCT
117083246 TTTTACTATT
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:0.30, C:0.05, G:0.08, T:0.57
Consensus pattern (19 bp):
ATATATTTATAATTGTCTA
Found at i:117085485 original size:13 final size:13
Alignment explanation
Indices: 117085467--117085495 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
117085457 TGTAATAAGG
117085467 AAAGAAAATTTCA
1 AAAGAAAATTTCA
117085480 AAAGAAAATTTCA
1 AAAGAAAATTTCA
117085493 AAA
1 AAA
117085496 CATAATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (13 bp):
AAAGAAAATTTCA
Found at i:117095888 original size:19 final size:19
Alignment explanation
Indices: 117095864--117095905 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
117095854 CGGATAGCTT
* *
117095864 TAACTTTGGAGAGATTTTA
1 TAACTTCGGACAGATTTTA
117095883 TAACTTCGGACAGATTTTA
1 TAACTTCGGACAGATTTTA
117095902 TAAC
1 TAAC
117095906 CATAAAAGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (19 bp):
TAACTTCGGACAGATTTTA
Found at i:117096362 original size:31 final size:31
Alignment explanation
Indices: 117096327--117096386 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
117096317 TTTTGAGAAG
*
117096327 CCCTTATATGA-GAACTTTCGAAAATATTTAA
1 CCCTTAT-TGATGAACTTTCGAAAAGATTTAA
* *
117096358 CCCTTATTTATGCACTTTCGAAAAGATTT
1 CCCTTATTGATGAACTTTCGAAAAGATTT
117096387 GACCATTTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 2 0.08
31 23 0.92
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.38
Consensus pattern (31 bp):
CCCTTATTGATGAACTTTCGAAAAGATTTAA
Found at i:117098213 original size:2 final size:2
Alignment explanation
Indices: 117098206--117098258 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
117098196 TGTAGATGAT
117098206 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
117098248 AC AC AC AC AC A
1 AC AC AC AC AC A
117098259 TATATATAGA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:117102370 original size:24 final size:25
Alignment explanation
Indices: 117102343--117102397 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
117102333 TAAAGTCCCT
*
117102343 TATACGGGCCTATGA-GGCCCAAAA
1 TATACGGGCCTACGAGGGCCCAAAA
117102367 TATACGGGCCTACGAGGGCCCAAAA
1 TATACGGGCCTACGAGGGCCCAAAA
117102392 TATACG
1 TATACG
117102398 CCCGTGTATC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 14 0.48
25 15 0.52
ACGTcount: A:0.33, C:0.25, G:0.25, T:0.16
Consensus pattern (25 bp):
TATACGGGCCTACGAGGGCCCAAAA
Found at i:117103131 original size:47 final size:46
Alignment explanation
Indices: 117103077--117103168 Score: 139
Period size: 47 Copynumber: 2.0 Consensus size: 46
117103067 AAATCATACT
*
117103077 GATGCCATATCCCAGATATGGTTTTACACAGAAGCACATATATCACC
1 GATGCCATATCCCAGATATGGTCTTACACAGAAGCACAT-TATCACC
* **
117103124 GATGCCATATCCCAGATATGGTCTTATATGGAAGCACATTATCAC
1 GATGCCATATCCCAGATATGGTCTTACACAGAAGCACATTATCAC
117103169 ATCACACCGA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
46 6 0.15
47 35 0.85
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (46 bp):
GATGCCATATCCCAGATATGGTCTTACACAGAAGCACATTATCACC
Found at i:117103178 original size:53 final size:51
Alignment explanation
Indices: 117103077--117103223 Score: 151
Period size: 53 Copynumber: 2.9 Consensus size: 51
117103067 AAATCATACT
* * *
117103077 GATGCCATATCCCAGATATGGTTTTACACAGAAGCACA-TAT---ATCACC
1 GATGCCATATCCCAGATATGGTCTTATACGGAAGCACATTATCACATCACC
*
117103124 GATGCCATATCCCAGATATGGTCTTATATGGAAGCACATTATCACATCACACC
1 GATGCCATATCCCAGATATGGTCTTATACGGAAGCACATTATCACAT--CACC
* * * * *
117103177 GATGCCATAGT-CTAGCTATGGTCTTATACGGGAGCATATTGTCACAT
1 GATGCCATA-TCCCAGATATGGTCTTATACGGAAGCACATTATCACAT
117103224 GTTGCCATGG
Statistics
Matches: 83, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
47 34 0.41
48 3 0.04
51 2 0.02
53 43 0.52
54 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.28
Consensus pattern (51 bp):
GATGCCATATCCCAGATATGGTCTTATACGGAAGCACATTATCACATCACC
Found at i:117107690 original size:38 final size:39
Alignment explanation
Indices: 117107640--117107842 Score: 248
Period size: 38 Copynumber: 4.9 Consensus size: 39
117107630 CTGATATGAA
117107640 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
117107679 -TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
117107717 -TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----T--G
*
117107762 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
* *
117107801 ACATGAAAAGAAAAGACCATGGTTGAAAGATACCATGGCAAC
1 --ATG---TG-TAAGACCATGGTTGAAAGATACCATGGCAAC
117107843 ATGACAGAAA
Statistics
Matches: 147, Mismatches: 3, Indels: 22
0.85 0.02 0.13
Matches are distributed among these distances:
38 74 0.50
39 1 0.01
41 4 0.03
43 1 0.01
44 1 0.01
45 31 0.21
46 35 0.24
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.22
Consensus pattern (39 bp):
ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
Found at i:117107784 original size:46 final size:46
Alignment explanation
Indices: 117107717--117107886 Score: 218
Period size: 46 Copynumber: 3.7 Consensus size: 46
117107707 TGGCAACCTG
* * *
117107717 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAA
*
117107763 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAA
* **
117107809 AG-AAAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATG-AAA
* * * *
117107854 TGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
117107887 TCACGTCAAA
Statistics
Matches: 109, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
44 1 0.01
45 39 0.36
46 69 0.63
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.20
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAA
Found at i:117107908 original size:91 final size:91
Alignment explanation
Indices: 117107721--117107909 Score: 231
Period size: 91 Copynumber: 2.1 Consensus size: 91
117107711 AACCTGTGTG
* * * * *
117107721 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATAGTTGAAAGA
* * *
117107786 TACCATGGCAACGTGACATGAAAAGA
66 CACCATGGCAACGTCACAAGAAAAGA
*
117107812 AAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATG-AAATGAGTAAGACCATAGTTGAAAG
* *
117107876 ACACTATGGCATCACGTCA-AAGATAA-A
65 ACACCATGGCA--ACGTCACAAGAAAAGA
117107903 TAAGACC
1 TAAGACC
117107910 GTGGATGGGA
Statistics
Matches: 83, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
90 1 0.01
91 72 0.87
92 5 0.06
93 5 0.06
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.19
Consensus pattern (91 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATAGTTGAAAGA
CACCATGGCAACGTCACAAGAAAAGA
Found at i:117108192 original size:23 final size:25
Alignment explanation
Indices: 117108147--117108193 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
117108137 AATAAATATA
*
117108147 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
117108172 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
117108194 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:117120975 original size:21 final size:21
Alignment explanation
Indices: 117120949--117121047 Score: 76
Period size: 21 Copynumber: 4.6 Consensus size: 21
117120939 TTCAACTTCA
117120949 AATATTATATTATATTATTTT
1 AATATTATATTATATTATTTT
* *
117120970 AATATT-TAATAATTTTATTTT
1 AATATTAT-ATTATATTATTTT
** * *
117120991 TTTATT-TATTAAATTTTTTT
1 AATATTATATTATATTATTTT
*
117121011 ATATAATTATCTTAATATTATTTT
1 A-AT-ATTATATT-ATATTATTTT
117121035 AATATTTATATTA
1 AATA-TTATATTA
117121048 GAGTAATATT
Statistics
Matches: 58, Mismatches: 14, Indels: 11
0.70 0.17 0.13
Matches are distributed among these distances:
20 10 0.17
21 23 0.40
22 5 0.09
23 11 0.19
24 9 0.16
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (21 bp):
AATATTATATTATATTATTTT
Found at i:117121019 original size:18 final size:17
Alignment explanation
Indices: 117120986--117121019 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
117120976 TAATAATTTT
*
117120986 ATTTTTTTATTTATTAA
1 ATTTTTTTATTAATTAA
117121003 ATTTTTTTATATAATTA
1 ATTTTTTTAT-TAATTA
117121020 TCTTAATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
ATTTTTTTATTAATTAA
Found at i:117121025 original size:23 final size:23
Alignment explanation
Indices: 117120999--117121043 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
117120989 TTTTTATTTA
*
117120999 TTAA-ATTTTTTTATATAATTATC
1 TTAATATTATTTTA-ATAATTATC
*
117121022 TTAATATTATTTTAATATTTAT
1 TTAATATTATTTTAATAATTAT
117121044 ATTAGAGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (23 bp):
TTAATATTATTTTAATAATTATC
Found at i:117121047 original size:17 final size:17
Alignment explanation
Indices: 117120958--117121047 Score: 57
Period size: 16 Copynumber: 5.5 Consensus size: 17
117120948 AAATATTATA
117120958 TTATATTATTTTAATAT
1 TTATATTATTTTAATAT
* *
117120975 TTA-ATAATTTT-ATTT
1 TTATATTATTTTAATAT
* *
117120990 TTTTATT-TATTAA-AT
1 TTATATTATTTTAATAT
* *
117121005 TT-TTTTA-TATAATTAT
1 TTATATTATTTTAA-TAT
117121021 CTTAATATTATTTTAATAT
1 -TT-ATATTATTTTAATAT
117121040 TTATATTA
1 TTATATTA
117121048 GAGTAATATT
Statistics
Matches: 53, Mismatches: 11, Indels: 18
0.65 0.13 0.22
Matches are distributed among these distances:
14 6 0.11
15 11 0.21
16 12 0.23
17 11 0.21
18 2 0.04
19 7 0.13
20 4 0.08
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.64
Consensus pattern (17 bp):
TTATATTATTTTAATAT
Found at i:117121774 original size:15 final size:15
Alignment explanation
Indices: 117121753--117121799 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
117121743 ATATATCATA
117121753 ATAAATAAATAAATT
1 ATAAATAAATAAATT
* * *
117121768 TTAAATAATTAAATG
1 ATAAATAAATAAATT
117121783 ATAATATAAATAAATT
1 ATAA-ATAAATAAATT
117121799 A
1 A
117121800 GTTTTTCCTA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
15 15 0.60
16 10 0.40
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (15 bp):
ATAAATAAATAAATT
Found at i:117126433 original size:55 final size:55
Alignment explanation
Indices: 117126370--117126477 Score: 157
Period size: 55 Copynumber: 2.0 Consensus size: 55
117126360 TAAAATTATG
*
117126370 AAAATATAAATTATTAAAAT-A-ATGAAATAACATTTTGAGAATATTTTAGTTTCAT
1 AAAATATAAATTA-TAAAATGAGA-GAAATAACATTTTGACAATATTTTAGTTTCAT
* *
117126425 AAAATATAAATTATAAAATGAGAGAAATTATATTTTGACAATATTTTAGTTTC
1 AAAATATAAATTATAAAATGAGAGAAATAACATTTTGACAATATTTTAGTTTC
117126478 GTCCCTGTCT
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
54 6 0.12
55 41 0.85
56 1 0.02
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (55 bp):
AAAATATAAATTATAAAATGAGAGAAATAACATTTTGACAATATTTTAGTTTCAT
Found at i:117128720 original size:19 final size:21
Alignment explanation
Indices: 117128684--117128725 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
117128674 TTCCTTGTAT
117128684 AATTCAAAGGAAAAAC-TTGAA
1 AATTCAAAGG-AAAACTTTGAA
117128705 AATTCAAAGG-AAACTTTGAA
1 AATTCAAAGGAAAACTTTGAA
117128725 A
1 A
117128726 GAGAAGGTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 4 0.20
20 6 0.30
21 10 0.50
ACGTcount: A:0.55, C:0.10, G:0.14, T:0.21
Consensus pattern (21 bp):
AATTCAAAGGAAAACTTTGAA
Found at i:117131816 original size:2 final size:2
Alignment explanation
Indices: 117131805--117131852 Score: 53
Period size: 2 Copynumber: 24.5 Consensus size: 2
117131795 CAAAACAGAT
* * *
117131805 TA TA TA -A TA TA TA TA TA TA TA TA GA TA TA GA TA TA GA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
117131846 GA TA TA T
1 TA TA TA T
117131853 GTAATGCTTA
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (2 bp):
TA
Found at i:117131822 original size:6 final size:6
Alignment explanation
Indices: 117131806--117131851 Score: 67
Period size: 6 Copynumber: 7.8 Consensus size: 6
117131796 AAAACAGATT
* *
117131806 ATATA- ATATAT ATATAT ATATAG ATATAG ATATAG ATATAG ATATA
1 ATATAG ATATAG ATATAG ATATAG ATATAG ATATAG ATATAG ATATA
117131852 TGTAATGCTT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
5 5 0.13
6 34 0.87
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (6 bp):
ATATAG
Found at i:117132985 original size:13 final size:12
Alignment explanation
Indices: 117132967--117133000 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
117132957 ACGTAGAGCC
117132967 TTTTTGTTTTTGT
1 TTTTTGTTTTT-T
117132980 TTTTTGTTTTTT
1 TTTTTGTTTTTT
117132992 TTTTT-TTTT
1 TTTTTGTTTT
117133001 ACCCAGAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 4 0.19
12 6 0.29
13 11 0.52
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (12 bp):
TTTTTGTTTTTT
Found at i:117141396 original size:17 final size:17
Alignment explanation
Indices: 117141376--117141408 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
117141366 ATTAATTAAC
117141376 TAAATTAATTTCTCAAT
1 TAAATTAATTTCTCAAT
*
117141393 TAAATTATTTTCTCAA
1 TAAATTAATTTCTCAA
117141409 CCCAATTCTA
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:0.39, C:0.12, G:0.00, T:0.48
Consensus pattern (17 bp):
TAAATTAATTTCTCAAT
Done.