Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 288 of 292
Found at i:83118578 original size:30 final size:30
Alignment explanation
Indices: 83118544--83118629 Score: 73
Period size: 30 Copynumber: 3.2 Consensus size: 30
83118534 TGATGATGAC
83118544 TCCCTGTTTCAGCCATAGAAGATGGTTCTT
1 TCCCTGTTTCAGCCATAGAAGATGGTTCTT
* *
83118574 TCCCT-TTT--G-C-T-GATGAT-G-AC-T
1 TCCCTGTTTCAGCCATAGAAGATGGTTCTT
* *
83118595 CCCCTGTTTCAGCCATAGAATATGGTTCTT
1 TCCCTGTTTCAGCCATAGAAGATGGTTCTT
83118625 TCCCT
1 TCCCT
83118630 TTTGCTGCTG
Statistics
Matches: 40, Mismatches: 7, Indels: 18
0.62 0.11 0.28
Matches are distributed among these distances:
21 5 0.12
22 4 0.10
23 1 0.03
24 6 0.15
25 2 0.05
26 2 0.05
27 5 0.12
28 1 0.03
29 4 0.10
30 10 0.25
ACGTcount: A:0.17, C:0.27, G:0.17, T:0.38
Consensus pattern (30 bp):
TCCCTGTTTCAGCCATAGAAGATGGTTCTT
Found at i:83118600 original size:101 final size:102
Alignment explanation
Indices: 83118471--83118717 Score: 336
Period size: 101 Copynumber: 2.4 Consensus size: 102
83118461 ACTCCCTTAC
* * * *
83118471 TTCCCTTGCAGCTGCTGATGGCTCCCCTGTTTCAGCCATTGAAGATGATTCCTTCCCTTTTGTTG
1 TTCCCTTG-TGCTGATGATGACTCCCCTGTTTCAGCCATTGAAGATGATTCCTTCCCTTTTGCTG
*
83118536 ATGATGACTCCC-TGTTTCAGCCATAGAAGATGGTTCT
65 ATGATGACTCCCATGTTTCAGCCATAGAAGATAGTTCT
* * * * * *
83118573 TTCCCTTTTGCTGATGATGACTCCCCTGTTTCAGCCATAGAATATGGTTCTTTCCCTTTTGCTGC
1 TTCCCTTGTGCTGATGATGACTCCCCTGTTTCAGCCATTGAAGATGATTCCTTCCCTTTTGCTGA
* *
83118638 TGATGACTCCCATGTTTCAGCCATTGAAGATAGTTTT
66 TGATGACTCCCATGTTTCAGCCATAGAAGATAGTTCT
* *
83118675 TTCCCTTGTGCTGAAGATGACTCCCCTTTTTCAGCC-TTGAAGA
1 TTCCCTTGTGCTGATGATGACTCCCCTGTTTCAGCCATTGAAGA
83118718 AAGAAAAAGA
Statistics
Matches: 126, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
101 64 0.51
102 62 0.49
ACGTcount: A:0.17, C:0.26, G:0.19, T:0.38
Consensus pattern (102 bp):
TTCCCTTGTGCTGATGATGACTCCCCTGTTTCAGCCATTGAAGATGATTCCTTCCCTTTTGCTGA
TGATGACTCCCATGTTTCAGCCATAGAAGATAGTTCT
Found at i:83122175 original size:51 final size:52
Alignment explanation
Indices: 83122106--83122550 Score: 419
Period size: 51 Copynumber: 8.7 Consensus size: 52
83122096 TGATGATGAA
* * * *
83122106 TCCCCTGTTTCAGCCATTGAAGATTGTTCTTTCCCGT-TTGCTGCTGGTGAC
1 TCCCCTGTTTCAGTCATTGAAGATGGTTCTTTCCCCTGTTGCTACTGGTGAC
* * * *
83122157 TTCCCTTTTTCAGTCATTGAAGATGGTTC-TTCCCCTGCTGCCACTGGTGAC
1 TCCCCTGTTTCAGTCATTGAAGATGGTTCTTTCCCCTGTTGCTACTGGTGAC
* * * *
83122208 TCCCCTGTTTCAGCCATTGAAGATGGATCTTT-CCCTGTTGCTAATGATGAC
1 TCCCCTGTTTCAGTCATTGAAGATGGTTCTTTCCCCTGTTGCTACTGGTGAC
* * *** * *
83122259 TTCCCTGTTTTAGTCATTGAAGATGGTTC-TTCCCCTGCCACTGCCGGTGAC
1 TCCCCTGTTTCAGTCATTGAAGATGGTTCTTTCCCCTGTTGCTACTGGTGAC
* * * **
83122310 TCCCCTGTTTCAG-CTATTGAAGATGGTTCTTT-CTCTTTTGCTAATAATGAC
1 TCCCCTGTTTCAGTC-ATTGAAGATGGTTCTTTCCCCTGTTGCTACTGGTGAC
** * *
83122361 TCCCCTGTTTCAGTCATTGAAGATGGTTC-TTCCCCTGCCGCTGCCGGTGAC
1 TCCCCTGTTTCAGTCATTGAAGATGGTTCTTTCCCCTGTTGCTACTGGTGAC
* * * * *
83122412 TCCCCTGTTTCAGCCATTGAAGATGGTTCTGTT--TCTTTTGCTAATGATGAC
1 TCCCCTGTTTCAGTCATTGAAGATGGTTCT-TTCCCCTGTTGCTACTGGTGAC
** * ** *
83122463 TCCCCTGTTTCA-TCAATTGAAGATGGTTC-TTCCCCTGAAGCTGCCAGTGAA
1 TCCCCTGTTTCAGTC-ATTGAAGATGGTTCTTTCCCCTGTTGCTACTGGTGAC
*
83122514 TCCCCTGTTTCAGCCATTGAAGATGGTTC-TTCCCCTG
1 TCCCCTGTTTCAGTCATTGAAGATGGTTCTTTCCCCTG
83122551 ACGCTTTCTT
Statistics
Matches: 312, Mismatches: 69, Indels: 26
0.77 0.17 0.06
Matches are distributed among these distances:
49 2 0.01
50 12 0.04
51 290 0.93
52 6 0.02
53 2 0.01
ACGTcount: A:0.16, C:0.27, G:0.20, T:0.37
Consensus pattern (52 bp):
TCCCCTGTTTCAGTCATTGAAGATGGTTCTTTCCCCTGTTGCTACTGGTGAC
Found at i:83122239 original size:102 final size:102
Alignment explanation
Indices: 83122106--83122549 Score: 595
Period size: 102 Copynumber: 4.4 Consensus size: 102
83122096 TGATGATGAA
* * ** * * *
83122106 TCCCCTGTTTCAGCCATTGAAGATTGTTCTTTCCCGTTTGCTGCTGGTGACTTCCCTTTTTCAGT
1 TCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCCCTTTTGCTAATGATGACTCCCCTGTTTCAGT
* *
83122171 CATTGAAGATGGTTCTTCCCCTGCTGCCACTGGTGAC
66 CATTGAAGATGGTTCTTCCCCTGCCGCCACCGGTGAC
* * * *
83122208 TCCCCTGTTTCAGCCATTGAAGATGGATCTTTCCCTGTTGCTAATGATGACTTCCCTGTTTTAGT
1 TCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCCCTTTTGCTAATGATGACTCCCCTGTTTCAGT
* **
83122273 CATTGAAGATGGTTCTTCCCCTGCCACTGCCGGTGAC
66 CATTGAAGATGGTTCTTCCCCTGCCGCCACCGGTGAC
* * *
83122310 TCCCCTGTTTCAGCTATTGAAGATGGTTCTTTCTCTTTTGCTAATAATGACTCCCCTGTTTCAGT
1 TCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCCCTTTTGCTAATGATGACTCCCCTGTTTCAGT
**
83122375 CATTGAAGATGGTTCTTCCCCTGCCGCTGCCGGTGAC
66 CATTGAAGATGGTTCTTCCCCTGCCGCCACCGGTGAC
*
83122412 TCCCCTGTTTCAGCCATTGAAGATGGTTCTGTT-TCTTTTGCTAATGATGACTCCCCTGTTTCA-
1 TCCCCTGTTTCAGCCATTGAAGATGGTTCT-TTCCCTTTTGCTAATGATGACTCCCCTGTTTCAG
** ** * *
83122475 TCAATTGAAGATGGTTCTTCCCCTGAAGCTGCCAGTGAA
65 TC-ATTGAAGATGGTTCTTCCCCTGCCGCCACCGGTGAC
*
83122514 TCCCCTGTTTCAGCCATTGAAGATGGTTCTTCCCCT
1 TCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCCCT
83122550 GACGCTTTCT
Statistics
Matches: 309, Mismatches: 30, Indels: 6
0.90 0.09 0.02
Matches are distributed among these distances:
101 3 0.01
102 304 0.98
103 2 0.01
ACGTcount: A:0.16, C:0.27, G:0.20, T:0.37
Consensus pattern (102 bp):
TCCCCTGTTTCAGCCATTGAAGATGGTTCTTTCCCTTTTGCTAATGATGACTCCCCTGTTTCAGT
CATTGAAGATGGTTCTTCCCCTGCCGCCACCGGTGAC
Found at i:83124231 original size:12 final size:12
Alignment explanation
Indices: 83124214--83124239 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
83124204 AGTCCAGGTA
83124214 AACCATTCCATG
1 AACCATTCCATG
83124226 AACCATTCCATG
1 AACCATTCCATG
83124238 AA
1 AA
83124240 TTCCATATTT
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:0.38, C:0.31, G:0.08, T:0.23
Consensus pattern (12 bp):
AACCATTCCATG
Found at i:83127704 original size:46 final size:45
Alignment explanation
Indices: 83127653--83127962 Score: 415
Period size: 46 Copynumber: 6.8 Consensus size: 45
83127643 AGTGTGCTCT
83127653 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
83127698 TCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
1 -CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
*
83127744 CCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 -CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA-A
**
83127791 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAA
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
*** ** * *
83127836 CATGACGGGAAATGAATAAGATCATGGTTGAAAGATACCATGGCAG
1 C-TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
* *
83127882 CGTGACATGAAATGTGTAAGACCATGGTTGAAAAATACCATGGCAA
1 C-TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
* * *
83127928 CATGACA-GAAAATGAGTAAGACCATAGTTGAAAGA
1 C-TGATATG-AAATGTGTAAGACCATGGTTGAAAGA
83127963 CACTATGACA
Statistics
Matches: 239, Mismatches: 22, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
45 2 0.01
46 237 0.99
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.22
Consensus pattern (45 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
Found at i:83128278 original size:16 final size:17
Alignment explanation
Indices: 83128257--83128289 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
83128247 ATGATGGTGC
83128257 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
83128273 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
83128290 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:83135376 original size:13 final size:13
Alignment explanation
Indices: 83135358--83135382 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
83135348 ATTCTAATTT
83135358 TTTTAATTTAAAC
1 TTTTAATTTAAAC
83135371 TTTTAATTTAAA
1 TTTTAATTTAAA
83135383 ATAATTCTCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTTAATTTAAAC
Found at i:83137252 original size:70 final size:71
Alignment explanation
Indices: 83137124--83137256 Score: 191
Period size: 70 Copynumber: 1.9 Consensus size: 71
83137114 CTGTATGAAC
* * * *
83137124 TAATTAGACCACGATCCGGGATATGGGACGGGGGTTATGGATGTTAGGATCTGAGCTTAAACTGC
1 TAATTAGACCAAGATCCGGGATATGGGACAGGGGTTACGGATGTTAGGATCTAAGCTTAAACTGC
83137189 AGGAAT
66 AGGAAT
83137195 TAATTAGACCATAG-TCCGGGATATGGGA-AGGGGTTACGGATGTTAGGAT-TCAAGCTTAAACT
1 TAATTAGACCA-AGATCCGGGATATGGGACAGGGGTTACGGATGTTAGGATCT-AAGCTTAAACT
83137257 TGTCAGATGC
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
69 1 0.02
70 29 0.52
71 25 0.45
72 1 0.02
ACGTcount: A:0.29, C:0.14, G:0.31, T:0.26
Consensus pattern (71 bp):
TAATTAGACCAAGATCCGGGATATGGGACAGGGGTTACGGATGTTAGGATCTAAGCTTAAACTGC
AGGAAT
Found at i:83141825 original size:31 final size:31
Alignment explanation
Indices: 83141782--83141858 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 31
83141772 TTAAAAAGAA
* **
83141782 TTAAA-AGTTTAATGACTTAAATAAAATTTT
1 TTAAATAGTTTAATGACTTAAACAAAAAATT
*
83141812 TTAAATAGTTTAATGACTTCAACAAAAAATT
1 TTAAATAGTTTAATGACTTAAACAAAAAATT
* *
83141843 TCAAATAATTTAATGA
1 TTAAATAGTTTAATGA
83141859 TAATTTTATA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
30 5 0.12
31 35 0.88
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (31 bp):
TTAAATAGTTTAATGACTTAAACAAAAAATT
Found at i:83146911 original size:42 final size:43
Alignment explanation
Indices: 83146816--83146930 Score: 135
Period size: 42 Copynumber: 2.7 Consensus size: 43
83146806 TTTTGTTTTC
* ** * *
83146816 TCGATGCCATAGTTCAATTATGGTCTTACACATTTTCACATAA
1 TCGATGCCATAGTCCAGCTATGATCTTACACATATTCACATAA
*
83146859 T-GATGCCATAGTCCAGCTATGATCTTACACATATTCAGAT-A
1 TCGATGCCATAGTCCAGCTATGATCTTACACATATTCACATAA
* * *
83146900 TCGATGTCATAGCCCAGCTATGTTCTTACAC
1 TCGATGCCATAGTCCAGCTATGATCTTACAC
83146931 GAATCACATA
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
41 2 0.03
42 59 0.95
43 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (43 bp):
TCGATGCCATAGTCCAGCTATGATCTTACACATATTCACATAA
Found at i:83147092 original size:31 final size:31
Alignment explanation
Indices: 83147057--83147228 Score: 209
Period size: 31 Copynumber: 5.5 Consensus size: 31
83147047 TTGTAGCCGA
* * *
83147057 AGCTACCACTATTCACTGATCAGATGGCTGG
1 AGCTACCACTTTTCACTGATCAGGTAGCTGG
* *
83147088 AGCTACCATTTTTCACTGATCAGGTAGCCGG
1 AGCTACCACTTTTCACTGATCAGGTAGCTGG
* * *
83147119 ACCTATCACTTTTCATTGATCAGGTAGCTGG
1 AGCTACCACTTTTCACTGATCAGGTAGCTGG
* * *
83147150 AACTACCACTTTTCACTGATCAGGTAGCAGA
1 AGCTACCACTTTTCACTGATCAGGTAGCTGG
* * *
83147181 AGCTATCACTTTTCACTGATCAAGTAGCTGA
1 AGCTACCACTTTTCACTGATCAGGTAGCTGG
*
83147212 AGCTATCACTTTTCACT
1 AGCTACCACTTTTCACT
83147229 TGTCATTTGT
Statistics
Matches: 122, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 122 1.00
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (31 bp):
AGCTACCACTTTTCACTGATCAGGTAGCTGG
Found at i:83147149 original size:62 final size:62
Alignment explanation
Indices: 83147049--83147228 Score: 243
Period size: 62 Copynumber: 2.9 Consensus size: 62
83147039 CTTGTCACTT
* * * * *
83147049 GTAGCCGAAGCTACCACTATTCACTGATCAGATGGCTGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTATCACTTTTCACTGATCAGGTAGCTGGAGCTACCACTTTTCACTGATCAG
* * * *
83147111 GTAGCCGGACCTATCACTTTTCATTGATCAGGTAGCTGGAACTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTATCACTTTTCACTGATCAGGTAGCTGGAGCTACCACTTTTCACTGATCAG
* * * *
83147173 GTAGCAGAAGCTATCACTTTTCACTGATCAAGTAGCTGAAGCTATCACTTTTCACT
1 GTAGCCGAAGCTATCACTTTTCACTGATCAGGTAGCTGGAGCTACCACTTTTCACT
83147229 TGTCATTTGT
Statistics
Matches: 101, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
62 101 1.00
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (62 bp):
GTAGCCGAAGCTATCACTTTTCACTGATCAGGTAGCTGGAGCTACCACTTTTCACTGATCAG
Found at i:83147309 original size:50 final size:51
Alignment explanation
Indices: 83147204--83147332 Score: 172
Period size: 50 Copynumber: 2.5 Consensus size: 51
83147194 CACTGATCAA
* *
83147204 GTAGCTGAAGCTATCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
* * *
83147255 GTAGCCGAAGCTATCACTTATCGCTT-TCACTTT-TCCTTGATTAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGT
* *
83147305 GTAGCCGAAGTTATAACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
83147333 TGTCATGGTT
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
50 41 0.60
51 27 0.40
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Found at i:83147467 original size:14 final size:15
Alignment explanation
Indices: 83147448--83147476 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
83147438 TTTTATCATC
83147448 AACACAT-ATGAAAT
1 AACACATCATGAAAT
83147462 AACACATCATGAAAT
1 AACACATCATGAAAT
83147477 TCATAAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.55, C:0.17, G:0.07, T:0.21
Consensus pattern (15 bp):
AACACATCATGAAAT
Found at i:83154602 original size:18 final size:20
Alignment explanation
Indices: 83154560--83154606 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 20
83154550 AGGTATAATA
*
83154560 ATAAATTTAGTTTTTGTTTT
1 ATAATTTTAGTTTTTGTTTT
*
83154580 GTAATTTTAG-TTTT-TTTT
1 ATAATTTTAGTTTTTGTTTT
83154598 ATAATTTTA
1 ATAATTTTA
83154607 TTATTATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 12 0.50
19 4 0.17
20 8 0.33
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.66
Consensus pattern (20 bp):
ATAATTTTAGTTTTTGTTTT
Found at i:83157154 original size:22 final size:24
Alignment explanation
Indices: 83157129--83157174 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
83157119 TAGTTGGAAG
83157129 TTTAGT-ATTGT-TTTTATTAAGA
1 TTTAGTCATTGTATTTTATTAAGA
* *
83157151 TTTAGTCTTTTTATTTTATTAAGA
1 TTTAGTCATTGTATTTTATTAAGA
83157175 CTTCTAGCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 6 0.30
23 3 0.15
24 11 0.55
ACGTcount: A:0.26, C:0.02, G:0.11, T:0.61
Consensus pattern (24 bp):
TTTAGTCATTGTATTTTATTAAGA
Found at i:83158517 original size:16 final size:17
Alignment explanation
Indices: 83158498--83158531 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
83158488 AACTTCTTTT
83158498 ATTTAA-TATTTTATAA
1 ATTTAATTATTTTATAA
*
83158514 ATTTAATTATTTTTTAA
1 ATTTAATTATTTTATAA
83158531 A
1 A
83158532 AAATAATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTAATTATTTTATAA
Found at i:83159082 original size:29 final size:32
Alignment explanation
Indices: 83159015--83159084 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 32
83159005 AAAACTAATG
* *
83159015 TTATATATATACATATAACTCATAATTCAAGT
1 TTATATATATACATATAACTCATAATTAAAAT
83159047 TTCATATATATA-AT-TGAA-TCA-AATTAAAAT
1 TT-ATATATATACATAT-AACTCATAATTAAAAT
83159077 TTATATAT
1 TTATATAT
83159085 CAAATTACAC
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
29 6 0.18
30 9 0.26
31 4 0.12
32 6 0.18
33 9 0.26
ACGTcount: A:0.46, C:0.09, G:0.03, T:0.43
Consensus pattern (32 bp):
TTATATATATACATATAACTCATAATTAAAAT
Found at i:83160056 original size:57 final size:55
Alignment explanation
Indices: 83159986--83160180 Score: 203
Period size: 57 Copynumber: 3.4 Consensus size: 55
83159976 CCTCAAATCC
* * * *
83159986 AACAATCGAGCTTGATTTTCCCTTTTTTGCCATTTTCCCCGGATCCTCAAATCCATT
1 AACAACCGAACTTGA-TTTCCCTTTTTTGCCATTTT-CCCGGATCCTCAAACCCGTT
* ** * *
83160043 AACAACCGAGCTTGATTTTCCCTTTTTAACCCATTTTCCTGGATCCTCCAACCCGTT
1 AACAACCGAACTTGA-TTTCCCTTTTT-TGCCATTTTCCCGGATCCTCAAACCCGTT
* * *
83160100 AACAACCGAACTTGATTTCGCC-TTTTTGACCCATTTTCCTGAATCCTCCAACCCGTT
1 AACAACCGAACTTGATTTC-CCTTTTTTG--CCATTTTCCCGGATCCTCAAACCCGTT
*
83160157 AACAACCGAACTTGACTTCCCTTT
1 AACAACCGAACTTGATTTCCCTTT
83160181 GTTAGTATTA
Statistics
Matches: 121, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
56 10 0.08
57 104 0.86
58 7 0.06
ACGTcount: A:0.23, C:0.32, G:0.10, T:0.35
Consensus pattern (55 bp):
AACAACCGAACTTGATTTCCCTTTTTTGCCATTTTCCCGGATCCTCAAACCCGTT
Found at i:83166599 original size:27 final size:27
Alignment explanation
Indices: 83166566--83166617 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
83166556 TTAAAAATAT
83166566 ATTTTTAATAA-CTTTTATACATTTTAA
1 ATTTTT-ATAATCTTTTATACATTTTAA
* *
83166593 ATTTTTATAATTTTTTATATATTTT
1 ATTTTTATAATCTTTTATACATTTT
83166618 TTTGAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (27 bp):
ATTTTTATAATCTTTTATACATTTTAA
Found at i:83166604 original size:9 final size:9
Alignment explanation
Indices: 83166566--83166636 Score: 58
Period size: 10 Copynumber: 7.7 Consensus size: 9
83166556 TTAAAAATAT
83166566 ATTTTTAATA
1 ATTTTT-ATA
*
83166576 ACTTTTATA
1 ATTTTTATA
83166585 CA-TTTTA-A
1 -ATTTTTATA
83166593 ATTTTTATA
1 ATTTTTATA
83166602 ATTTTTTATA
1 A-TTTTTATA
*
83166612 TATTTTTTTGA
1 -ATTTTTAT-A
83166623 ATTTTTA-A
1 ATTTTTATA
83166631 ATTTTT
1 ATTTTT
83166637 TAAAAAATAA
Statistics
Matches: 52, Mismatches: 3, Indels: 14
0.75 0.04 0.20
Matches are distributed among these distances:
7 1 0.02
8 13 0.25
9 10 0.19
10 26 0.50
11 2 0.04
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (9 bp):
ATTTTTATA
Found at i:83166618 original size:12 final size:10
Alignment explanation
Indices: 83166594--83166638 Score: 51
Period size: 9 Copynumber: 4.6 Consensus size: 10
83166584 ACATTTTAAA
83166594 TTTTTATAAT
1 TTTTTATAAT
83166604 TTTTTATATAT
1 TTTTTATA-AT
83166615 TTTTT-TGAA-
1 TTTTTAT-AAT
83166624 TTTTTA-AAT
1 TTTTTATAAT
83166633 TTTTTA
1 TTTTTA
83166639 AAAAATAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
8 2 0.06
9 11 0.35
10 10 0.32
11 8 0.26
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:83178822 original size:3 final size:3
Alignment explanation
Indices: 83178816--83178841 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
83178806 AAACACAAGG
83178816 AGC AGC AGC AGC AGC AGC AGC AGC AG
1 AGC AGC AGC AGC AGC AGC AGC AGC AG
83178842 TTAAAAGGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.31, G:0.35, T:0.00
Consensus pattern (3 bp):
AGC
Found at i:83180217 original size:17 final size:18
Alignment explanation
Indices: 83180187--83180221 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
83180177 TGATTTAAAA
*
83180187 TAAATAAATTTAAAAATT
1 TAAATAAATATAAAAATT
83180205 TAAA-AAATATAAAAATT
1 TAAATAAATATAAAAATT
83180222 AATTCAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
TAAATAAATATAAAAATT
Found at i:83191678 original size:23 final size:23
Alignment explanation
Indices: 83191646--83191690 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
83191636 AAAAATAAAA
*
83191646 TAAAAAATT-ATTATTTTTAATT
1 TAAAAAATTAAGTATTTTTAATT
83191668 TAAAAATATTAAGTATTTTTAAT
1 TAAAAA-ATTAAGTATTTTTAAT
83191691 AATATTCGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 6 0.30
23 3 0.15
24 11 0.55
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
TAAAAAATTAAGTATTTTTAATT
Found at i:83191737 original size:136 final size:138
Alignment explanation
Indices: 83191527--83191778 Score: 346
Period size: 136 Copynumber: 1.8 Consensus size: 138
83191517 TTATGTTCCC
* * * * * *
83191527 AATTTAAAAATCTTAAGTATTATTAATATTTTTTTATTAAAATTTTGCATCAACACACTCATACA
1 AATTTAAAAATATTAAGTATTATTAATATATATTCATTAAAAATTTACATCAACACACTCATACA
* * * * *
83191592 ATCTTAATAAATCATTATGAATTTAGTAATCATACATAATTGTAA-AAAATAAAATAAAAAATTA
66 ATCGTAATAAATCATTATGAATTCAGCAATCAAACATAATTATAAGAAAATAAAATAAAAAATTA
83191656 TTATTTTT
131 TTATTTTT
* * * *
83191664 AATTTAAAAATATTAAGTATTTTTAATA-ATATTCGTTAAAAATTTACATCATCACACTCATACC
1 AATTTAAAAATATTAAGTATTATTAATATATATTCATTAAAAATTTACATCAACACACTCATACA
*
83191728 ATCGTAATAAATCATTATGAATTCAGCAATCAAACATGATTATAAGAAAAT
66 ATCGTAATAAATCATTATGAATTCAGCAATCAAACATAATTATAAGAAAAT
83191779 TTATTTGAAT
Statistics
Matches: 98, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
136 67 0.68
137 31 0.32
ACGTcount: A:0.46, C:0.11, G:0.05, T:0.38
Consensus pattern (138 bp):
AATTTAAAAATATTAAGTATTATTAATATATATTCATTAAAAATTTACATCAACACACTCATACA
ATCGTAATAAATCATTATGAATTCAGCAATCAAACATAATTATAAGAAAATAAAATAAAAAATTA
TTATTTTT
Found at i:83195699 original size:189 final size:185
Alignment explanation
Indices: 83195374--83195750 Score: 513
Period size: 189 Copynumber: 2.0 Consensus size: 185
83195364 TACATGCATG
* * *
83195374 TATGTATTTAGTTATAATAATCACTGAAATTTCATGGAATTATTATTGCAGTGAATAGATAGCCA
1 TATGTATATAGTTATAATAAGCACTGAAATTTCATGGAATTACTATTGCAGTGAATAGATAGCCA
** * * * * * *
83195439 TGTTTCTCTCTTATATGTCTTCAATTGAATACATTCAAGCAAAGACTTGTTAAATGGTCTAATTA
66 TGTTTAGCTATTACATGCCTTCAATTCAATACATTCAAGCAAAGACTAGTTAAATGGTCCAATTA
* * *
83195504 CACTTTTAG-CATCTCCTAAACGTTAATAATTCAATTTAATCCGTTTTAGCTCCTT
131 CACTTTTAGCCA-CTCCTAAACCTTAATAATTCAATTCAATCCCTTTTAGCTCCTT
* * * *
83195559 TATGTATATGGTTATAATAAGCCCTGAAATTTCTTGGAAAGTATTACTATTGCAGTGAATGGATA
1 TATGTATATAGTTATAATAAGCACTGAAATTTCATGG--A--ATTACTATTGCAGTGAATAGATA
*
83195624 GCCATGTTTAGCTATTACATGCCTTCAATTCAATACATTCAAGCAAAGACTAGTTAGATGGTCCA
62 GCCATGTTTAGCTATTACATGCCTTCAATTCAATACATTCAAGCAAAGACTAGTTAAATGGTCCA
* *
83195689 ATTCCACTTTTAGCCACTCCTAAACCTTAATAATTCAATTCGATCCCTTTTAGCTCCTT
127 ATTACACTTTTAGCCACTCCTAAACCTTAATAATTCAATTCAATCCCTTTTAGCTCCTT
83195748 TAT
1 TAT
83195751 TAAATGGAAA
Statistics
Matches: 166, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
185 32 0.19
187 1 0.01
189 131 0.79
190 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (185 bp):
TATGTATATAGTTATAATAAGCACTGAAATTTCATGGAATTACTATTGCAGTGAATAGATAGCCA
TGTTTAGCTATTACATGCCTTCAATTCAATACATTCAAGCAAAGACTAGTTAAATGGTCCAATTA
CACTTTTAGCCACTCCTAAACCTTAATAATTCAATTCAATCCCTTTTAGCTCCTT
Found at i:83209771 original size:6 final size:6
Alignment explanation
Indices: 83209760--83209809 Score: 54
Period size: 6 Copynumber: 9.0 Consensus size: 6
83209750 TCAATTCCAA
* *
83209760 AAAATT AAAATT AAAATT --AATT -AAATT AAAA-T AATATT AAATTT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
83209804 AAAATT
1 AAAATT
83209810 TACATAAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
4 4 0.11
5 8 0.22
6 25 0.68
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (6 bp):
AAAATT
Found at i:83209781 original size:16 final size:16
Alignment explanation
Indices: 83209762--83209809 Score: 62
Period size: 15 Copynumber: 3.0 Consensus size: 16
83209752 AATTCCAAAA
83209762 AATTAAAATTAAAATT
1 AATTAAAATTAAAATT
*
83209778 AATT-AAATTAAAATA
1 AATTAAAATTAAAATT
*
83209793 ATATTAAATTTAAAATT
1 A-ATTAAAATTAAAATT
83209810 TACATAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 11 0.41
16 7 0.26
17 9 0.33
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AATTAAAATTAAAATT
Found at i:83212144 original size:50 final size:50
Alignment explanation
Indices: 83212069--83212245 Score: 282
Period size: 50 Copynumber: 3.5 Consensus size: 50
83212059 CCATGGCAAC
83212069 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * * *
83212119 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTAATTAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
83212169 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
83212219 CAAGTGAAAAGTGGTAGTTTCGGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
83212246 CTGATCAGTG
Statistics
Matches: 115, Mismatches: 11, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
50 92 0.80
51 23 0.20
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:83212259 original size:31 final size:31
Alignment explanation
Indices: 83212221--83212369 Score: 226
Period size: 31 Copynumber: 4.8 Consensus size: 31
83212211 ACAAATGACA
*
83212221 AGTGAAAAGTGGTAGTTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
83212252 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
83212283 AGTGAAAAGTGGTAGCTCCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
83212314 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
83212345 AGTGAATAGTGGTAGCTTCGACTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
83212370 AAGTGACAAG
Statistics
Matches: 108, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 108 1.00
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:83212457 original size:47 final size:46
Alignment explanation
Indices: 83212387--83212550 Score: 158
Period size: 47 Copynumber: 3.6 Consensus size: 46
83212377 AAGTGATTTC
* *
83212387 CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTA
1 CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * *
83212433 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATT
1 C-GTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * * *
83212480 CGTGTAAGACTATAGCTGGGCTATGGCATC-----GATATATGAATA
1 CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATG-ATA
* * * *
83212522 TGTGTAAGACCATAGCTGGGCTATGGCAT
1 CGTATAAGACCATATCTGGGATATGGCAT
83212551 AATTATGTGA
Statistics
Matches: 103, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
41 7 0.07
42 29 0.28
46 26 0.25
47 41 0.40
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.30
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
Found at i:83212537 original size:42 final size:43
Alignment explanation
Indices: 83212481--83212595 Score: 153
Period size: 42 Copynumber: 2.7 Consensus size: 43
83212471 TATGTGATTC
* *
83212481 GTGTAAGACTATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* *
83212523 GTGTAAGACCATAGCTGGGCTATGGCAT-AATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* **
83212565 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
83212596 GAAAATGAAG
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
41 1 0.02
42 61 0.97
43 1 0.02
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
Found at i:83220953 original size:2 final size:2
Alignment explanation
Indices: 83220946--83220979 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
83220936 ACGAGTTATA
83220946 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
83220980 GAGGGTCTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:83225272 original size:6 final size:6
Alignment explanation
Indices: 83225253--83225302 Score: 55
Period size: 6 Copynumber: 8.3 Consensus size: 6
83225243 TCCGCCAAAA
* ** * *
83225253 CCACCT CCAGCT CCACCT CCACCT CCAAAT CCACCA CCAGCT CCACCT
1 CCACCT CCACCT CCACCT CCACCT CCACCT CCACCT CCACCT CCACCT
83225301 CC
1 CC
83225303 GAATCCTCCA
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.22, C:0.60, G:0.04, T:0.14
Consensus pattern (6 bp):
CCACCT
Found at i:83225285 original size:24 final size:24
Alignment explanation
Indices: 83225265--83225317 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
83225255 ACCTCCAGCT
83225265 CCACCTCCACCTCCAAATCCACCA
1 CCACCTCCACCTCCAAATCCACCA
* * *
83225289 CCAGCTCCACCTCCGAATCCTCCA
1 CCACCTCCACCTCCAAATCCACCA
83225313 CCACC
1 CCACC
83225318 ACCGGCACCA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.25, C:0.58, G:0.04, T:0.13
Consensus pattern (24 bp):
CCACCTCCACCTCCAAATCCACCA
Found at i:83225317 original size:30 final size:29
Alignment explanation
Indices: 83225252--83225357 Score: 108
Period size: 30 Copynumber: 3.6 Consensus size: 29
83225242 CTCCGCCAAA
*
83225252 ACCACCTCCAGCTCCACCTCC-A-CCTCC
1 ACCACCACCAGCTCCACCTCCAATCCTCC
83225279 AAATCCACCACCAGCTCCACCTCCGAATCCTCC
1 --A-CCACCACCAGCTCCACCTCC-AATCCTCC
* *
83225312 ACCACCACCGGCACCACCTCCAAATCCTCC
1 ACCACCACCAGCTCCACCTCC-AATCCTCC
* *
83225342 ACCAGCACCACCTCCA
1 ACCACCACCAGCTCCA
83225358 GCACCGCCAC
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
29 1 0.02
30 57 0.88
31 1 0.02
32 1 0.02
33 5 0.08
ACGTcount: A:0.25, C:0.57, G:0.06, T:0.12
Consensus pattern (29 bp):
ACCACCACCAGCTCCACCTCCAATCCTCC
Found at i:83225349 original size:24 final size:24
Alignment explanation
Indices: 83225271--83225357 Score: 93
Period size: 24 Copynumber: 3.4 Consensus size: 24
83225261 AGCTCCACCT
* *
83225271 CCACCTCCAAATCCACCACCAGCT
1 CCACCTCCAAATCCTCCACCAGCA
*
83225295 CCACCTCCGAATCCTCCACCACCACCGGCA
1 CCACCTCCAAATCCT---CCACCA---GCA
83225325 CCACCTCCAAATCCTCCACCAGCA
1 CCACCTCCAAATCCTCCACCAGCA
83225349 CCACCTCCA
1 CCACCTCCA
83225358 GCACCGCCAC
Statistics
Matches: 53, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
24 25 0.47
27 12 0.23
30 16 0.30
ACGTcount: A:0.26, C:0.56, G:0.06, T:0.11
Consensus pattern (24 bp):
CCACCTCCAAATCCTCCACCAGCA
Found at i:83225367 original size:24 final size:23
Alignment explanation
Indices: 83225311--83225368 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 23
83225301 CCGAATCCTC
*
83225311 CACCACCACCGGCACCACCTCCA
1 CACCACCACCAGCACCACCTCCA
* *
83225334 AATCCTCCACCAGCACCACCTCCA
1 CA-CCACCACCAGCACCACCTCCA
*
83225358 GCACCGCCACC
1 -CACCACCACC
83225369 GAAACCACCA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
23 1 0.04
24 26 0.93
25 1 0.04
ACGTcount: A:0.26, C:0.59, G:0.09, T:0.07
Consensus pattern (23 bp):
CACCACCACCAGCACCACCTCCA
Found at i:83225445 original size:30 final size:30
Alignment explanation
Indices: 83225397--83225728 Score: 248
Period size: 30 Copynumber: 11.5 Consensus size: 30
83225387 AAAGCCGCCG
83225397 CCACCTCCAA-TGCCACCACCCTTTCCAATT
1 CCACCTCCAAGT-CCACCACCCTTTCCAATT
* *
83225427 CCTCCACCAAGTCCACCACCCTTTCCAATT
1 CCACCTCCAAGTCCACCACCCTTTCCAATT
* * * *
83225457 CCACCTCCAAGGCCTCC-TCCTTTGCCAATA
1 CCACCTCCAAGTCCACCACCCTTT-CCAATT
* * * *
83225487 CCACCTCCAAGGCCTCC-TCCTTTGCCAATA
1 CCACCTCCAAGTCCACCACCCTTT-CCAATT
* *
83225517 CCACCTCCAAGTCCACCACCATGTCC---T
1 CCACCTCCAAGTCCACCACCCTTTCCAATT
83225544 ---CCTCCAAGTCCACCACCCTTTCCAATT
1 CCACCTCCAAGTCCACCACCCTTTCCAATT
* * * **
83225571 CCACCTCCAAGGCCTCC-TCCTTTGCCAACA
1 CCACCTCCAAGTCCACCACCCTTT-CCAATT
* *
83225601 CCACCTCCAAGTCCACCACCATGTCC---T
1 CCACCTCCAAGTCCACCACCCTTTCCAATT
83225628 ---CCTCCAAGTCCACCACCCTTTCCAATT
1 CCACCTCCAAGTCCACCACCCTTTCCAATT
* * * *
83225655 CCACCTCCGAGGCCTCC-TCCTTTGCCAATT
1 CCACCTCCAAGTCCACCACCCTTT-CCAATT
* * *
83225685 CCACCTCCAAGTCCACCTCCTTTTCCTATT
1 CCACCTCCAAGTCCACCACCCTTTCCAATT
* *
83225715 CCACCACCATGTCC
1 CCACCTCCAAGTCC
83225729 TCCTCCAAGT
Statistics
Matches: 242, Mismatches: 41, Indels: 38
0.75 0.13 0.12
Matches are distributed among these distances:
24 42 0.17
27 2 0.01
29 15 0.06
30 172 0.71
31 11 0.05
ACGTcount: A:0.20, C:0.49, G:0.07, T:0.23
Consensus pattern (30 bp):
CCACCTCCAAGTCCACCACCCTTTCCAATT
Found at i:83225496 original size:42 final size:42
Alignment explanation
Indices: 83225487--83225704 Score: 192
Period size: 42 Copynumber: 5.2 Consensus size: 42
83225477 TTTGCCAATA
*
83225487 CCACCTCCAAGGCCTCCTCCTTTGCCAATACCACCTCCAAGT
1 CCACCTCCAAGGCCTCCTCCTTTGCCAACACCACCTCCAAGT
* * * ** * * *
83225529 CCACCACCATGTCCTCCTCC-AAGTCCACCACC-CTTTCCAATT
1 CCACCTCCAAGGCCTCCTCCTTTG-CCAACACCAC-CTCCAAGT
83225571 CCACCTCCAAGGCCTCCTCCTTTGCCAACACCACCTCCAAGT
1 CCACCTCCAAGGCCTCCTCCTTTGCCAACACCACCTCCAAGT
* * * ** * * *
83225613 CCACCACCATGTCCTCCTCC-AAGTCCACCACC-CTTTCCAATT
1 CCACCTCCAAGGCCTCCTCCTTTG-CCAACACCAC-CTCCAAGT
* **
83225655 CCACCTCCGAGGCCTCCTCCTTTGCCAATTCCACCTCCAAGT
1 CCACCTCCAAGGCCTCCTCCTTTGCCAACACCACCTCCAAGT
83225697 CCACCTCC
1 CCACCTCC
83225705 TTTTCCTATT
Statistics
Matches: 132, Mismatches: 36, Indels: 16
0.72 0.20 0.09
Matches are distributed among these distances:
41 4 0.03
42 124 0.94
43 4 0.03
ACGTcount: A:0.20, C:0.50, G:0.08, T:0.22
Consensus pattern (42 bp):
CCACCTCCAAGGCCTCCTCCTTTGCCAACACCACCTCCAAGT
Found at i:83225532 original size:12 final size:12
Alignment explanation
Indices: 83225517--83225557 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
83225507 TTTGCCAATA
83225517 CCACCTCCAAGT
1 CCACCTCCAAGT
* *
83225529 CCACCACCATGT
1 CCACCTCCAAGT
*
83225541 CCTCCTCCAAGT
1 CCACCTCCAAGT
83225553 CCACC
1 CCACC
83225558 ACCCTTTCCA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.22, C:0.54, G:0.07, T:0.17
Consensus pattern (12 bp):
CCACCTCCAAGT
Found at i:83225586 original size:84 final size:84
Alignment explanation
Indices: 83225475--83225701 Score: 409
Period size: 84 Copynumber: 2.7 Consensus size: 84
83225465 AAGGCCTCCT
*
83225475 CCTTTGCCAATACCACCTCCAAGGCCTCCTCCTTTGCCAATACCACCTCCAAGTCCACCACCATG
1 CCTTT-CCAATTCCACCTCCAAGGCCTCCTCCTTTGCCAATACCACCTCCAAGTCCACCACCATG
83225540 TCCTCCTCCAAGTCCACCAC
65 TCCTCCTCCAAGTCCACCAC
*
83225560 CCTTTCCAATTCCACCTCCAAGGCCTCCTCCTTTGCCAACACCACCTCCAAGTCCACCACCATGT
1 CCTTTCCAATTCCACCTCCAAGGCCTCCTCCTTTGCCAATACCACCTCCAAGTCCACCACCATGT
83225625 CCTCCTCCAAGTCCACCAC
66 CCTCCTCCAAGTCCACCAC
* *
83225644 CCTTTCCAATTCCACCTCCGAGGCCTCCTCCTTTGCCAATTCCACCTCCAAGTCCACC
1 CCTTTCCAATTCCACCTCCAAGGCCTCCTCCTTTGCCAATACCACCTCCAAGTCCACC
83225702 TCCTTTTCCT
Statistics
Matches: 137, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
84 132 0.96
85 5 0.04
ACGTcount: A:0.21, C:0.49, G:0.08, T:0.22
Consensus pattern (84 bp):
CCTTTCCAATTCCACCTCCAAGGCCTCCTCCTTTGCCAATACCACCTCCAAGTCCACCACCATGT
CCTCCTCCAAGTCCACCAC
Found at i:83225616 original size:12 final size:12
Alignment explanation
Indices: 83225601--83225641 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
83225591 TTTGCCAACA
83225601 CCACCTCCAAGT
1 CCACCTCCAAGT
* *
83225613 CCACCACCATGT
1 CCACCTCCAAGT
*
83225625 CCTCCTCCAAGT
1 CCACCTCCAAGT
83225637 CCACC
1 CCACC
83225642 ACCCTTTCCA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.22, C:0.54, G:0.07, T:0.17
Consensus pattern (12 bp):
CCACCTCCAAGT
Found at i:83225734 original size:42 final size:42
Alignment explanation
Indices: 83225688--83225878 Score: 186
Period size: 42 Copynumber: 4.4 Consensus size: 42
83225678 GCCAATTCCA
83225688 CCTCCAAGTCCACCTCCTTTTCCTATTCCACCACCATGTCCT
1 CCTCCAAGTCCACCTCCTTTTCCTATTCCACCACCATGTCCT
* * *
83225730 CCTCCAAGTCCACCTCCCTTTCCTATTCCACCACCAAGGCCT
1 CCTCCAAGTCCACCTCCTTTTCCTATTCCACCACCATGTCCT
*** * *** * * * *
83225772 CCTCCTTTTCCA-ATACCACCTCCAAGTCCACCACCCTTTCCAATT
1 CCTCCAAGTCCACCT-CCTTTTCCTATTCCACCACCATGTCC---T
83225817 CCGCCTCCAAGTCCACCTCCTTTTCCTATTCCACCACCATGTCCT
1 ---CCTCCAAGTCCACCTCCTTTTCCTATTCCACCACCATGTCCT
83225862 CCTCCAAGTCCACCTCC
1 CCTCCAAGTCCACCTCC
83225879 CTGGCCAATC
Statistics
Matches: 114, Mismatches: 27, Indels: 16
0.73 0.17 0.10
Matches are distributed among these distances:
41 1 0.01
42 82 0.72
45 2 0.02
48 28 0.25
49 1 0.01
ACGTcount: A:0.18, C:0.49, G:0.05, T:0.27
Consensus pattern (42 bp):
CCTCCAAGTCCACCTCCTTTTCCTATTCCACCACCATGTCCT
Found at i:83225776 original size:30 final size:30
Alignment explanation
Indices: 83225733--83225866 Score: 151
Period size: 30 Copynumber: 4.5 Consensus size: 30
83225723 ATGTCCTCCT
*
83225733 CCAAGTCCACCTCCCTTTCCTATTCCACCA
1 CCAAGTCCACCTCCCTTTCCAATTCCACCA
* * * * *
83225763 CCAAGGCCTCCTCCTTTTCCAATACCACCT
1 CCAAGTCCACCTCCCTTTCCAATTCCACCA
* * *
83225793 CCAAGTCCACCACCCTTTCCAATTCCGCCT
1 CCAAGTCCACCTCCCTTTCCAATTCCACCA
* *
83225823 CCAAGTCCACCTCCTTTTCCTATTCCACCA
1 CCAAGTCCACCTCCCTTTCCAATTCCACCA
* *
83225853 CCATGTCCTCCTCC
1 CCAAGTCCACCTCC
83225867 AAGTCCACCT
Statistics
Matches: 85, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 85 1.00
ACGTcount: A:0.19, C:0.49, G:0.05, T:0.27
Consensus pattern (30 bp):
CCAAGTCCACCTCCCTTTCCAATTCCACCA
Found at i:83225812 original size:102 final size:102
Alignment explanation
Indices: 83225606--83225836 Score: 336
Period size: 102 Copynumber: 2.3 Consensus size: 102
83225596 CAACACCACC
* * *
83225606 TCCAAGTCCACCACCATGTCCTCCTCCAAGTCCACCACCCTTTCCAATTCCACCTCCGAGGCCTC
1 TCCAATTCCACCACCATGTCCTCCTCCAAGTCCACCACCCTTTCCAATTCCACCACCAAGGCCTC
* * *
83225671 CTCCTTTGCCAATTCCACCTCCAAGTCCACCTCCTTT
66 CTCCTTTGCCAATACCACCTCCAAGTCCACCACCCTT
* * *
83225708 TCCTATTCCACCACCATGTCCTCCTCCAAGTCCACCTCCCTTTCCTATTCCACCACCAAGGCCTC
1 TCCAATTCCACCACCATGTCCTCCTCCAAGTCCACCACCCTTTCCAATTCCACCACCAAGGCCTC
*
83225773 CTCCTTTTCCAATACCACCTCCAAGTCCACCACCCTT
66 CTCCTTTGCCAATACCACCTCCAAGTCCACCACCCTT
* * * *
83225810 TCCAATTCCGCCTCCAAGTCCACCTCC
1 TCCAATTCCACCACCATGTCCTCCTCC
83225837 TTTTCCTATT
Statistics
Matches: 114, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
102 114 1.00
ACGTcount: A:0.19, C:0.49, G:0.06, T:0.26
Consensus pattern (102 bp):
TCCAATTCCACCACCATGTCCTCCTCCAAGTCCACCACCCTTTCCAATTCCACCACCAAGGCCTC
CTCCTTTGCCAATACCACCTCCAAGTCCACCACCCTT
Found at i:83225824 original size:132 final size:132
Alignment explanation
Indices: 83225631--83225959 Score: 471
Period size: 132 Copynumber: 2.5 Consensus size: 132
83225621 ATGTCCTCCT
* * * * * *
83225631 CCAAGTCCACCACCCTTTCCAATTCCACCTCCGAGGCCTCC-TCCTTTGCCAATTCCACCTCCAA
1 CCAAGGCCTCCACCTTTTCCAATACCACCTCCAAGGCCTCCACCCTTT-CCAATTCCACCTCCAA
** * *
83225695 GTCCACCTCCTTTTCCTATTCCACCACCATGTCCTCCTCCAAGTCCACCTCCCTTTCCTATTCCA
65 GTCCACCTCCTTTTCCTATTCCACCACCATGTCCTCCTCCAAGTCCACCTCCCTGGCCAATCCCA
83225760 CCA
130 CCA
* * * *
83225763 CCAAGGCCTCCTCCTTTTCCAATACCACCTCCAAGTCCACCACCCTTTCCAATTCCGCCTCCAAG
1 CCAAGGCCTCCACCTTTTCCAATACCACCTCCAAGGCCTCCACCCTTTCCAATTCCACCTCCAAG
83225828 TCCACCTCCTTTTCCTATTCCACCACCATGTCCTCCTCCAAGTCCACCTCCCTGGCCAATCCCAC
66 TCCACCTCCTTTTCCTATTCCACCACCATGTCCTCCTCCAAGTCCACCTCCCTGGCCAATCCCAC
83225893 CA
131 CA
* * * * *
83225895 CCAAGGCCTCCACCTTTTCCAATCCCACCGCCAAGGCCTCCACCCTTGCCAATCCCACCACCAAG
1 CCAAGGCCTCCACCTTTTCCAATACCACCTCCAAGGCCTCCACCCTTTCCAATTCCACCTCCAAG
83225960 ACCCCACCCT
Statistics
Matches: 173, Mismatches: 23, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
132 168 0.97
133 5 0.03
ACGTcount: A:0.20, C:0.49, G:0.07, T:0.24
Consensus pattern (132 bp):
CCAAGGCCTCCACCTTTTCCAATACCACCTCCAAGGCCTCCACCCTTTCCAATTCCACCTCCAAG
TCCACCTCCTTTTCCTATTCCACCACCATGTCCTCCTCCAAGTCCACCTCCCTGGCCAATCCCAC
CA
Found at i:83225905 original size:42 final size:42
Alignment explanation
Indices: 83225820--83225905 Score: 109
Period size: 42 Copynumber: 2.0 Consensus size: 42
83225810 TCCAATTCCG
* ** * * * *
83225820 CCTCCAAGTCCACCTCCTTTTCCTATTCCACCACCATGTCCT
1 CCTCCAAGTCCACCTCCCTGGCCAATCCCACCACCAAGGCCT
83225862 CCTCCAAGTCCACCTCCCTGGCCAATCCCACCACCAAGGCCT
1 CCTCCAAGTCCACCTCCCTGGCCAATCCCACCACCAAGGCCT
83225904 CC
1 CC
83225906 ACCTTTTCCA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.19, C:0.51, G:0.08, T:0.22
Consensus pattern (42 bp):
CCTCCAAGTCCACCTCCCTGGCCAATCCCACCACCAAGGCCT
Found at i:83225917 original size:30 final size:30
Alignment explanation
Indices: 83225883--83226087 Score: 202
Period size: 30 Copynumber: 6.9 Consensus size: 30
83225873 ACCTCCCTGG
* *
83225883 CCAATCCCACCACCAAGGCCTCCACCTTTT
1 CCAATCCCACCACCAAGCCCTCCACCCTTT
* * *
83225913 CCAATCCCACCGCCAAGGCCTCCACCCTTG
1 CCAATCCCACCACCAAGCCCTCCACCCTTT
* *
83225943 CCAATCCCACCACCAAGACC-CCACCCTTG
1 CCAATCCCACCACCAAGCCCTCCACCCTTT
* * *
83225972 CCAATGCCACCACCAAGTCCACCACCCTTT
1 CCAATCCCACCACCAAGCCCTCCACCCTTT
* * *
83226002 CCAATGCCACCACCAAGTCCACCA-CCTTT
1 CCAATCCCACCACCAAGCCCTCCACCCTTT
* * *
83226031 ACCAATTCCACCACCAAACCCTCC-CCCTGCT
1 -CCAATCCCACCACCAAGCCCTCCACCCT-TT
*
83226062 CC-ACCTCCACCACCAAGCCCTCCACC
1 CCAATC-CCACCACCAAGCCCTCCACC
83226088 AGCTCCACCT
Statistics
Matches: 153, Mismatches: 16, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
29 33 0.22
30 117 0.76
31 3 0.02
ACGTcount: A:0.25, C:0.54, G:0.07, T:0.15
Consensus pattern (30 bp):
CCAATCCCACCACCAAGCCCTCCACCCTTT
Found at i:83225935 original size:72 final size:72
Alignment explanation
Indices: 83225790--83225935 Score: 166
Period size: 72 Copynumber: 2.0 Consensus size: 72
83225780 TCCAATACCA
** * * * * * * *
83225790 CCTCCAAGTCCACCACCCTTTCCAATTCCGCCTCCAAGTCCACCTCCTTTTCCTATTCCACCACC
1 CCTCCAAGTCCACCACCCTGGCCAATCCCACCACCAAGGCCACCACCTTTTCCAATCCCACCACC
* *
83225855 ATGTCCT
66 AAGGCCT
* * *
83225862 CCTCCAAGTCCACCTCCCTGGCCAATCCCACCACCAAGGCCTCCACCTTTTCCAATCCCACCGCC
1 CCTCCAAGTCCACCACCCTGGCCAATCCCACCACCAAGGCCACCACCTTTTCCAATCCCACCACC
83225927 AAGGCCT
66 AAGGCCT
83225934 CC
1 CC
83225936 ACCCTTGCCA
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
72 60 1.00
ACGTcount: A:0.19, C:0.51, G:0.08, T:0.22
Consensus pattern (72 bp):
CCTCCAAGTCCACCACCCTGGCCAATCCCACCACCAAGGCCACCACCTTTTCCAATCCCACCACC
AAGGCCT
Found at i:83225986 original size:89 final size:88
Alignment explanation
Indices: 83225877--83226051 Score: 233
Period size: 89 Copynumber: 2.0 Consensus size: 88
83225867 AAGTCCACCT
* * * *
83225877 CCCTGGCCAATCCCACCACCAAGGCCTCCACCTTTTCCAATCCCACCGCCAAGGCCTCCACCCTT
1 CCCTGGCCAATCCCACCACCAAGGCCACCACCCTTTCCAATCCCACCACCAAGGCCACCACCCTT
*
83225942 GCCAATCCCACCACCAAGACCCCA
66 ACCAATCCCACCACCAA-ACCCCA
* * * * * *
83225966 CCCTTGCCAATGCCACCACCAAGTCCACCACCCTTTCCAATGCCACCACCAAGTCCACCACCTTT
1 CCCTGGCCAATCCCACCACCAAGGCCACCACCCTTTCCAATCCCACCACCAAGGCCACCACCCTT
*
83226031 ACCAATTCCACCACCAAACCC
66 ACCAATCCCACCACCAAACCC
83226052 TCCCCCTGCT
Statistics
Matches: 74, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
88 4 0.05
89 70 0.95
ACGTcount: A:0.26, C:0.51, G:0.08, T:0.15
Consensus pattern (88 bp):
CCCTGGCCAATCCCACCACCAAGGCCACCACCCTTTCCAATCCCACCACCAAGGCCACCACCCTT
ACCAATCCCACCACCAAACCCCA
Found at i:83226072 original size:119 final size:120
Alignment explanation
Indices: 83225865--83226087 Score: 281
Period size: 119 Copynumber: 1.9 Consensus size: 120
83225855 ATGTCCTCCT
* * * * *
83225865 CCAAGTCCACCTCCCTGGCCAATCCCACCACCAAGGCCTCCACCTTTTCCAATCCCACCGCCAAG
1 CCAAGTCCACCACCCTGGCCAATCCCACCACCAAGGCCACCACCTTTACCAATCCCACCACCAAA
* *
83225930 GCCTCCACCCTTGCCAATCCCACCACCAAGACC-CCACCCTTGCCAATGCCACCA
66 CCCTCCACCCTTGCCAACCCCACCACCAAGACCTCCACCCTTGCCAATGCCACCA
** * * *
83225984 CCAAGTCCACCACCCTTTCCAATGCCACCACCAAGTCCACCACCTTTACCAATTCCACCACCAAA
1 CCAAGTCCACCACCCTGGCCAATCCCACCACCAAGGCCACCACCTTTACCAATCCCACCACCAAA
* *
83226049 CCCTCC-CCC-TGCTCCACCTCCACCACCAAGCCCTCCACC
66 CCCTCCACCCTTGC-CAACC-CCACCACCAAGACCTCCACC
83226088 AGCTCCACCT
Statistics
Matches: 87, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
117 3 0.03
118 6 0.07
119 73 0.84
120 5 0.06
ACGTcount: A:0.24, C:0.53, G:0.08, T:0.15
Consensus pattern (120 bp):
CCAAGTCCACCACCCTGGCCAATCCCACCACCAAGGCCACCACCTTTACCAATCCCACCACCAAA
CCCTCCACCCTTGCCAACCCCACCACCAAGACCTCCACCCTTGCCAATGCCACCA
Found at i:83226093 original size:30 final size:30
Alignment explanation
Indices: 83226037--83226137 Score: 112
Period size: 30 Copynumber: 3.4 Consensus size: 30
83226027 CTTTACCAAT
* * *
83226037 TCCACCACCAAACCCTCCCCCTGCTCCACC
1 TCCACCACCAAGCCCTCCACCAGCTCCACC
83226067 TCCACCACCAAGCCCTCCACCAGCTCCACC
1 TCCACCACCAAGCCCTCCACCAGCTCCACC
* * * * * *
83226097 TCCACCTCCAAGTCCACCACCACCCCCAGC
1 TCCACCACCAAGCCCTCCACCAGCTCCACC
*
83226127 TCCACCTCCAA
1 TCCACCACCAA
83226138 AACCAGCTCC
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 62 1.00
ACGTcount: A:0.23, C:0.60, G:0.05, T:0.12
Consensus pattern (30 bp):
TCCACCACCAAGCCCTCCACCAGCTCCACC
Found at i:83226101 original size:6 final size:6
Alignment explanation
Indices: 83226090--83226201 Score: 62
Period size: 6 Copynumber: 18.2 Consensus size: 6
83226080 CCTCCACCAG
* * * * * *
83226090 CTCCAC CTCCAC CTCCAA GTCCAC CACCAC CCCCAG CTCCAC CTCCAA
1 CTCCAC CTCCAC CTCCAC CTCCAC CTCCAC CTCCAC CTCCAC CTCCAC
** * * * * * **
83226138 AACCAG CTCCAC CTCCAG CACCAC CACCAA AACCAC CTCCAAGAC CTCCAC
1 CTCCAC CTCCAC CTCCAC CTCCAC CTCCAC CTCCAC CTCC---AC CTCCAC
83226189 CTCCAC CTCCAC C
1 CTCCAC CTCCAC C
83226202 AAAACCACCC
Statistics
Matches: 79, Mismatches: 24, Indels: 6
0.72 0.22 0.06
Matches are distributed among these distances:
6 73 0.92
9 6 0.08
ACGTcount: A:0.27, C:0.58, G:0.04, T:0.11
Consensus pattern (6 bp):
CTCCAC
Found at i:83226150 original size:30 final size:30
Alignment explanation
Indices: 83226096--83226178 Score: 103
Period size: 30 Copynumber: 2.8 Consensus size: 30
83226086 CCAGCTCCAC
** *
83226096 CTCCACCTCCAAGTCCACCACCACCCCCAG
1 CTCCACCTCCAAAACCACCTCCACCCCCAG
* *
83226126 CTCCACCTCCAAAACCAGCTCCACCTCCAG
1 CTCCACCTCCAAAACCACCTCCACCCCCAG
* *
83226156 CACCACCACCAAAACCACCTCCA
1 CTCCACCTCCAAAACCACCTCCA
83226179 AGACCTCCAC
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.29, C:0.57, G:0.05, T:0.10
Consensus pattern (30 bp):
CTCCACCTCCAAAACCACCTCCACCCCCAG
Found at i:83226160 original size:18 final size:18
Alignment explanation
Indices: 83226083--83226160 Score: 86
Period size: 18 Copynumber: 4.3 Consensus size: 18
83226073 ACCAAGCCCT
83226083 CCACCAGCTCCACCTCCA
1 CCACCAGCTCCACCTCCA
* *
83226101 CCTCCAAG-TCCACCACCA
1 CCACC-AGCTCCACCTCCA
*
83226119 CCCCCAGCTCCACCTCCA
1 CCACCAGCTCCACCTCCA
**
83226137 AAACCAGCTCCACCTCCA
1 CCACCAGCTCCACCTCCA
*
83226155 GCACCA
1 CCACCA
83226161 CCACCAAAAC
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
17 2 0.04
18 45 0.92
19 2 0.04
ACGTcount: A:0.26, C:0.58, G:0.06, T:0.10
Consensus pattern (18 bp):
CCACCAGCTCCACCTCCA
Found at i:83228368 original size:20 final size:20
Alignment explanation
Indices: 83228345--83228384 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
83228335 ATTTGTGAGG
83228345 TCTAATTAA-AATTTTCAAAA
1 TCTAA-TAAGAATTTTCAAAA
83228365 TCTAATAAGAATTTTCAAAA
1 TCTAATAAGAATTTTCAAAA
83228385 ATTTTAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.50, C:0.10, G:0.03, T:0.38
Consensus pattern (20 bp):
TCTAATAAGAATTTTCAAAA
Found at i:83235769 original size:13 final size:13
Alignment explanation
Indices: 83235735--83235769 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
83235725 TTAAATTTAT
83235735 TTGATAAAATTAA
1 TTGATAAAATTAA
* *
83235748 TTAAAAAAATTAA
1 TTGATAAAATTAA
83235761 TTGATAAAA
1 TTGATAAAA
83235770 AAAAAATTAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (13 bp):
TTGATAAAATTAA
Found at i:83238332 original size:6 final size:6
Alignment explanation
Indices: 83238321--83238348 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
83238311 GTACGAGAAT
83238321 GGGAAG GGGAAG GGGAAG GGGAAG GGGA
1 GGGAAG GGGAAG GGGAAG GGGAAG GGGA
83238349 TCTGTTATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (6 bp):
GGGAAG
Found at i:83246451 original size:17 final size:17
Alignment explanation
Indices: 83246413--83246455 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
83246403 CAAAGTCAGA
*
83246413 AATATAATT-TTATTTT
1 AATATATTTATTATTTT
83246429 ATATATATTTATTATTTT
1 A-ATATATTTATTATTTT
83246447 AATAT-TTTA
1 AATATATTTA
83246456 AAAAGATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 5 0.21
17 11 0.46
18 8 0.33
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
AATATATTTATTATTTT
Found at i:83246829 original size:19 final size:18
Alignment explanation
Indices: 83246790--83246832 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
83246780 AGCTATATAT
**
83246790 ATATATATTAATAATTTA
1 ATATATATTAATAATAAA
83246808 ATATATACTTAATAATAAA
1 ATATATA-TTAATAATAAA
83246827 ATATAT
1 ATATAT
83246833 TTTATGTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (18 bp):
ATATATATTAATAATAAA
Found at i:83247708 original size:28 final size:29
Alignment explanation
Indices: 83247673--83247730 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 29
83247663 TAATAGTTTT
* *
83247673 AGGTGTCAAAATGAGA-AAAAGAAAGTTC
1 AGGTGTCAAAATGAAACAAAAAAAAGTTC
*
83247701 AGGTGTCAAATTGAAACAAAAAAAAGTTC
1 AGGTGTCAAAATGAAACAAAAAAAAGTTC
83247730 A
1 A
83247731 AGGGCCAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 14 0.54
29 12 0.46
ACGTcount: A:0.52, C:0.09, G:0.21, T:0.19
Consensus pattern (29 bp):
AGGTGTCAAAATGAAACAAAAAAAAGTTC
Found at i:83251404 original size:20 final size:20
Alignment explanation
Indices: 83251379--83251416 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
83251369 TAAAAAATAT
*
83251379 ATTTTATAATTAAGTTTAAA
1 ATTTTAAAATTAAGTTTAAA
*
83251399 ATTTTAAAATTAATTTTA
1 ATTTTAAAATTAAGTTTA
83251417 TTATCATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (20 bp):
ATTTTAAAATTAAGTTTAAA
Found at i:83256515 original size:30 final size:31
Alignment explanation
Indices: 83256481--83256545 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
83256471 AACAACTCTG
*
83256481 TGACTT-AATAAAAACTTTTGAATAGTTCAA
1 TGACTTGAATAAAAACTTTTGAATAATTCAA
** * *
83256511 TGACTTGAATGGAAATTTTTGAATAATTTAA
1 TGACTTGAATAAAAACTTTTGAATAATTCAA
83256542 TGAC
1 TGAC
83256546 CAAATTGTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 6 0.21
31 23 0.79
ACGTcount: A:0.40, C:0.08, G:0.14, T:0.38
Consensus pattern (31 bp):
TGACTTGAATAAAAACTTTTGAATAATTCAA
Found at i:83258025 original size:32 final size:31
Alignment explanation
Indices: 83257989--83258059 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 31
83257979 TATTGAGAAT
*
83257989 TTATAAATATATAAATTAAAACTTTATAAA-AA
1 TTATAAATATATAAA-GAAAA-TTTATAAATAA
* *
83258021 TTATACAATATATATAGGAAATTTATAAATAA
1 TTATA-AATATATAAAGAAAATTTATAAATAA
83258053 TTATAAA
1 TTATAAA
83258060 AATCTATAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
31 10 0.29
32 15 0.44
33 9 0.26
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (31 bp):
TTATAAATATATAAAGAAAATTTATAAATAA
Found at i:83258067 original size:20 final size:18
Alignment explanation
Indices: 83257989--83258069 Score: 55
Period size: 20 Copynumber: 4.4 Consensus size: 18
83257979 TATTGAGAAT
83257989 TTATAAATA-TAT--AAA
1 TTATAAATATTATAAAAA
83258004 TTA-AAACT-TTATAAAAA
1 TTATAAA-TATTATAAAAA
*
83258021 TTATACAATATATATAGGAAAT
1 TTATA-AATAT-TATA--AAAA
83258043 TTATAAATAATTATAAAAA
1 TTATAAAT-ATTATAAAAA
83258062 TCTATAAA
1 T-TATAAA
83258070 CAAAAAAGGT
Statistics
Matches: 52, Mismatches: 2, Indels: 19
0.71 0.03 0.26
Matches are distributed among these distances:
14 3 0.06
15 7 0.13
17 6 0.12
18 2 0.04
19 7 0.13
20 10 0.19
21 7 0.13
22 10 0.19
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (18 bp):
TTATAAATATTATAAAAA
Found at i:83258334 original size:19 final size:20
Alignment explanation
Indices: 83258312--83258361 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
83258302 TTTTCACGTG
83258312 AATTTTTAT-TTTTAT-TTAT
1 AATTTTTATATTTT-TGTTAT
*
83258331 AATTTTTATATTTTTGTTGT
1 AATTTTTATATTTTTGTTAT
83258351 AATTTTT-TATT
1 AATTTTTATATT
83258362 CTATATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (20 bp):
AATTTTTATATTTTTGTTAT
Found at i:83258344 original size:21 final size:19
Alignment explanation
Indices: 83258314--83258361 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
83258304 TTCACGTGAA
*
83258314 TTTTTATTTTTATTTATAAT
1 TTTTTATTTTT-GTTATAAT
*
83258334 TTTTATATTTTTGTTGTAAT
1 TTTT-TATTTTTGTTATAAT
83258354 TTTTTATT
1 TTTTTATT
83258362 CTATATAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 4 0.16
20 14 0.56
21 7 0.28
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.75
Consensus pattern (19 bp):
TTTTTATTTTTGTTATAAT
Found at i:83259102 original size:23 final size:24
Alignment explanation
Indices: 83259076--83259123 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
83259066 TAGAATTTAG
*
83259076 ATATGAC-TTATCATTTTAAAATT
1 ATATGACTTTATCACTTTAAAATT
* *
83259099 ATATTACTTTATCACTTTGAAATT
1 ATATGACTTTATCACTTTAAAATT
83259123 A
1 A
83259124 AAATTTTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.38, C:0.10, G:0.04, T:0.48
Consensus pattern (24 bp):
ATATGACTTTATCACTTTAAAATT
Found at i:83266148 original size:13 final size:12
Alignment explanation
Indices: 83266124--83266149 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
83266114 ATGGAAATTT
83266124 ATCTTTTTAAAA
1 ATCTTTTTAAAA
83266136 ATCTTTTTAAAA
1 ATCTTTTTAAAA
83266148 AT
1 AT
83266150 GCCGAAATTA
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:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (12 bp):
ATCTTTTTAAAA
Found at i:83267411 original size:13 final size:13
Alignment explanation
Indices: 83267393--83267417 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
83267383 CCAAGCTCTG
83267393 GTTTTTTGTTTTT
1 GTTTTTTGTTTTT
83267406 GTTTTTTGTTTT
1 GTTTTTTGTTTT
83267418 GATATTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (13 bp):
GTTTTTTGTTTTT
Found at i:83278797 original size:17 final size:16
Alignment explanation
Indices: 83278775--83278810 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
83278765 GTTTGATTCG
83278775 AATCATATTAAATTTCA
1 AATCATATTAAATTT-A
*
83278792 AATCATTTTAAATTTA
1 AATCATATTAAATTTA
83278808 AAT
1 AAT
83278811 TATTTTAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.44
Consensus pattern (16 bp):
AATCATATTAAATTTA
Found at i:83278815 original size:16 final size:17
Alignment explanation
Indices: 83278775--83278831 Score: 64
Period size: 16 Copynumber: 3.5 Consensus size: 17
83278765 GTTTGATTCG
*
83278775 AATCATATTAAATTTCA
1 AATCATTTTAAATTTCA
83278792 AATCATTTTAAATTT-A
1 AATCATTTTAAATTTCA
* * *
83278808 AATTATTTT-AAGTTCG
1 AATCATTTTAAATTTCA
83278824 AATCATTT
1 AATCATTT
83278832 CAATTTAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
15 4 0.12
16 16 0.47
17 14 0.41
ACGTcount: A:0.40, C:0.09, G:0.04, T:0.47
Consensus pattern (17 bp):
AATCATTTTAAATTTCA
Found at i:83278922 original size:17 final size:16
Alignment explanation
Indices: 83278879--83278910 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
83278869 AAATTACGAT
*
83278879 AAATTAAAATTTTAAA
1 AAATTCAAATTTTAAA
83278895 AAATTCAAATTTTAAA
1 AAATTCAAATTTTAAA
83278911 TCATTTCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATTCAAATTTTAAA
Found at i:83280436 original size:21 final size:21
Alignment explanation
Indices: 83280395--83280437 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
83280385 AAGTTTGAAC
* *
83280395 AAAATTATCATTTATTATTTA
1 AAAAATATCATTTAATATTTA
*
83280416 AAAAATATCATTTAATGTTTA
1 AAAAATATCATTTAATATTTA
83280437 A
1 A
83280438 TAGAGTTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (21 bp):
AAAAATATCATTTAATATTTA
Found at i:83280625 original size:28 final size:29
Alignment explanation
Indices: 83280576--83280632 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
83280566 TGTAAATATT
83280576 TTTAATAATAAAAAACTAAA-TTAATTTA
1 TTTAATAATAAAAAACTAAATTTAATTTA
**
83280604 TTTAATAATAAACATTCT-AATTTAATTTA
1 TTTAATAATAAA-AAACTAAATTTAATTTA
83280633 ATTTTCATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 14 0.56
29 11 0.44
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (29 bp):
TTTAATAATAAAAAACTAAATTTAATTTA
Found at i:83281355 original size:2 final size:2
Alignment explanation
Indices: 83281348--83281384 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
83281338 ACTAGACTTA
83281348 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
83281385 AAATAGCCCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:83282683 original size:19 final size:20
Alignment explanation
Indices: 83282645--83282721 Score: 61
Period size: 19 Copynumber: 3.8 Consensus size: 20
83282635 TTACATTATT
83282645 TATAATATAATTAT-TAATTA
1 TATAATA-AATTATATAATTA
*
83282665 TTTAATAAATTATAT-ATTA
1 TATAATAAATTATATAATTA
*
83282684 TAT-ATAAATATATCACAATTA
1 TATAATAAAT-TAT-ATAATTA
*
83282705 CATTAATATAATTATAT
1 TA-TAATA-AATTATAT
83282722 GTAAATATAT
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
18 6 0.13
19 15 0.33
20 8 0.18
21 5 0.11
22 2 0.04
23 6 0.13
24 3 0.07
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (20 bp):
TATAATAAATTATATAATTA
Found at i:83283876 original size:3 final size:3
Alignment explanation
Indices: 83283868--83283898 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
83283858 AGTAATCTTC
83283868 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
83283899 ATTTGGTGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:83289157 original size:32 final size:32
Alignment explanation
Indices: 83289116--83289180 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
83289106 ATGTGCAAGA
83289116 TTATGACATAAAAATTTAATTTTTATATTTTT
1 TTATGACATAAAAATTTAATTTTTATATTTTT
83289148 TTATGACATAAAAATTTAATTTTTATATTTTT
1 TTATGACATAAAAATTTAATTTTTATATTTTT
83289180 T
1 T
83289181 ACTTTTAAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (32 bp):
TTATGACATAAAAATTTAATTTTTATATTTTT
Found at i:83289204 original size:33 final size:33
Alignment explanation
Indices: 83289167--83289229 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
83289157 AAAAATTTAA
* *
83289167 TTTTTATATTTTTTA-CTTTTAAGAATTTAGTTT
1 TTTTTAAATTTTTTATATTTTAA-AATTTAGTTT
83289200 TTTTTAAATTTTTTATATTTTAAAATTTAG
1 TTTTTAAATTTTTTATATTTTAAAATTTAG
83289230 ATTCAACTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
33 21 0.78
34 6 0.22
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.65
Consensus pattern (33 bp):
TTTTTAAATTTTTTATATTTTAAAATTTAGTTT
Found at i:83291304 original size:44 final size:44
Alignment explanation
Indices: 83291241--83291330 Score: 171
Period size: 44 Copynumber: 2.0 Consensus size: 44
83291231 CAAAATTTGA
83291241 ATAGTATAGATTCTTAGAATGATCCGAATTGGAGAATATGGACT
1 ATAGTATAGATTCTTAGAATGATCCGAATTGGAGAATATGGACT
*
83291285 ATAGTATAGATTCTTAGAATGATCTGAATTGGAGAATATGGACT
1 ATAGTATAGATTCTTAGAATGATCCGAATTGGAGAATATGGACT
83291329 AT
1 AT
83291331 CTCTACAACT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.37, C:0.08, G:0.22, T:0.33
Consensus pattern (44 bp):
ATAGTATAGATTCTTAGAATGATCCGAATTGGAGAATATGGACT
Found at i:83296122 original size:21 final size:23
Alignment explanation
Indices: 83296080--83296122 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
83296070 TATAATATAA
*
83296080 ATATGATAAAATAATTTATTAAT
1 ATATGATAAAATAAATTATTAAT
*
83296103 ATATGA-AATATAAATT-TTAA
1 ATATGATAAAATAAATTATTAA
83296123 ATGCTTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 4 0.22
22 8 0.44
23 6 0.33
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (23 bp):
ATATGATAAAATAAATTATTAAT
Found at i:83304306 original size:5 final size:5
Alignment explanation
Indices: 83304296--83304329 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
83304286 AAAATACATC
83304296 ATATA ATATA ATATA ATATA ATATA ATATA ATAT
1 ATATA ATATA ATATA ATATA ATATA ATATA ATAT
83304330 TATTTAAACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:83304806 original size:2 final size:2
Alignment explanation
Indices: 83304799--83304832 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
83304789 CAAAAAGTCC
83304799 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
83304833 AGTTTATGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:83306609 original size:21 final size:21
Alignment explanation
Indices: 83306581--83306636 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
83306571 AATAGCGGTG
*
83306581 ACGGTGAGATTAGTTACTGTA
1 ACGGTGAGATTAGATACTGTA
* *
83306602 ATGGTGAGATTAAATACTGTA
1 ACGGTGAGATTAGATACTGTA
*
83306623 GCGGTGAGATTAGA
1 ACGGTGAGATTAGA
83306637 AACAATGGTA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.32, C:0.07, G:0.30, T:0.30
Consensus pattern (21 bp):
ACGGTGAGATTAGATACTGTA
Found at i:83307871 original size:16 final size:17
Alignment explanation
Indices: 83307852--83307884 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
83307842 GCTTCCTCAT
83307852 TTTAAATTT-ATTTTTA
1 TTTAAATTTAATTTTTA
83307868 TTTAAATTTAATTTTTA
1 TTTAAATTTAATTTTTA
83307885 GAAAAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTAAATTTAATTTTTA
Found at i:83310935 original size:24 final size:24
Alignment explanation
Indices: 83310908--83310954 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
83310898 ACGGAGCAAT
*
83310908 TAACCTTATTCACAAAGGAGTTCA
1 TAACCTCATTCACAAAGGAGTTCA
*
83310932 TAACCTCATTCACGAAGGAGTTC
1 TAACCTCATTCACAAAGGAGTTC
83310955 GTAAATGTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (24 bp):
TAACCTCATTCACAAAGGAGTTCA
Found at i:83313089 original size:99 final size:101
Alignment explanation
Indices: 83312968--83313164 Score: 254
Period size: 101 Copynumber: 2.0 Consensus size: 101
83312958 AATATATTTA
* * * *
83312968 AACTAAGTTAATAAACACATTTAATAATATTGATT-AAAAA-AATTGTCGAATTTTGACTTTCTT
1 AACTAAATTAATAAACACATTTAATAATAGTGATTAAAAAATAATTGTCAAAATTTGACTTTCTT
* *
83313031 TTCAAAACAAACCCACTAAACATTTTTCATCTGCAC
66 TCCAAAACAAACCCACAAAACATTTTTCATCTGCAC
* * * *
83313067 AACTAAATTGATAAATATATTTAATAATAGTGATTAAAAAATAATTGTTAAAATTTGACTTTCTT
1 AACTAAATTAATAAACACATTTAATAATAGTGATTAAAAAATAATTGTCAAAATTTGACTTTCTT
* * * *
83313132 TCCAAAACAAGCTCACAAAATATTTTTTATCTG
66 TCCAAAACAAACCCACAAAACATTTTTCATCTG
83313165 TATCAAACAA
Statistics
Matches: 82, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
99 30 0.37
100 5 0.06
101 47 0.57
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.37
Consensus pattern (101 bp):
AACTAAATTAATAAACACATTTAATAATAGTGATTAAAAAATAATTGTCAAAATTTGACTTTCTT
TCCAAAACAAACCCACAAAACATTTTTCATCTGCAC
Found at i:83320975 original size:2 final size:2
Alignment explanation
Indices: 83320968--83321011 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
83320958 CTTATAAGAG
83320968 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
83321010 AT
1 AT
83321012 TTTAAGTTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:83322685 original size:2 final size:2
Alignment explanation
Indices: 83322678--83322711 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
83322668 TTACCCTTAC
83322678 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
83322712 AGGGTTAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:83325258 original size:7 final size:7
Alignment explanation
Indices: 83325246--83325272 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
83325236 CCATTTTCGT
83325246 TGCAAGG
1 TGCAAGG
83325253 TGCAAGG
1 TGCAAGG
83325260 TGCAAGG
1 TGCAAGG
83325267 TGCAAG
1 TGCAAG
83325273 TTCGATTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.15, G:0.41, T:0.15
Consensus pattern (7 bp):
TGCAAGG
Found at i:83329318 original size:2 final size:2
Alignment explanation
Indices: 83329311--83329337 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
83329301 TCAATTTCTA
83329311 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
83329338 ATAGCTTCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:83333148 original size:16 final size:16
Alignment explanation
Indices: 83333127--83333157 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
83333117 TAACATTACT
83333127 TTTATTTTTATTTTTG
1 TTTATTTTTATTTTTG
*
83333143 TTTATTTTTGTTTTT
1 TTTATTTTTATTTTT
83333158 TTCTGCCATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.00, G:0.06, T:0.84
Consensus pattern (16 bp):
TTTATTTTTATTTTTG
Found at i:83334886 original size:17 final size:16
Alignment explanation
Indices: 83334835--83334878 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 16
83334825 TTGAATATTT
*
83334835 TTTTTTAAAATTCATAGA
1 TTTTTTAAAA-TAATA-A
83334853 TATTTTTAAAATAATAA
1 T-TTTTTAAAATAATAA
83334870 TTTTTTAAA
1 TTTTTTAAA
83334879 GTAAATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 8 0.33
17 2 0.08
18 5 0.21
19 9 0.38
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (16 bp):
TTTTTTAAAATAATAA
Found at i:83337833 original size:13 final size:13
Alignment explanation
Indices: 83337815--83337843 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
83337805 TTTAATTAAT
83337815 TCAAATTTAAAAC
1 TCAAATTTAAAAC
83337828 TCAAATTTAAAAC
1 TCAAATTTAAAAC
83337841 TCA
1 TCA
83337844 TAACCTTTTG
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:0.52, C:0.17, G:0.00, T:0.31
Consensus pattern (13 bp):
TCAAATTTAAAAC
Found at i:83342615 original size:11 final size:11
Alignment explanation
Indices: 83342601--83342655 Score: 51
Period size: 11 Copynumber: 5.0 Consensus size: 11
83342591 ATAATTAATT
83342601 AATTAATTAAA
1 AATTAATTAAA
*
83342612 AATTCATTAAA
1 AATTAATTAAA
83342623 AATT--TTAAA
1 AATTAATTAAA
*
83342632 AATAAATATAAA
1 AATTAAT-TAAA
*
83342644 CAATTTATTAAA
1 -AATTAATTAAA
83342656 TCGGTTCAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
9 8 0.22
11 15 0.42
12 8 0.22
13 5 0.14
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (11 bp):
AATTAATTAAA
Found at i:83344003 original size:45 final size:45
Alignment explanation
Indices: 83343939--83344030 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
83343929 AAAATGAATG
83343939 AAATTTTAAACAAAAGGACCACTGGACCAGTTTGCTTTTTGATCT
1 AAATTTTAAACAAAAGGACCACTGGACCAGTTTGCTTTTTGATCT
83343984 AAATTTTAAACAAAAGGACCACTGGACCAGTTTGCTTTTTGATCT
1 AAATTTTAAACAAAAGGACCACTGGACCAGTTTGCTTTTTGATCT
83344029 AA
1 AA
83344031 CGTACAAGGA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (45 bp):
AAATTTTAAACAAAAGGACCACTGGACCAGTTTGCTTTTTGATCT
Found at i:83350954 original size:105 final size:104
Alignment explanation
Indices: 83350763--83351207 Score: 488
Period size: 105 Copynumber: 4.2 Consensus size: 104
83350753 ATTATACGTG
* * *
83350763 AGGCTCGATGCCTTGCTTTCTCA-TCGTGTCAACAATAACTTCAGG-TTTAGAAACCA-T-CCTG
1 AGGCTCAATGCCTTGCTTTCTCATTC-TGCCAACAATATCTTC-GGCTTTAGAAACCATTCCCT-
* *
83350824 TCCTTGC-AGAGCACATCAATCAATGTATTATATGTGACAACATT
63 T-CTTGCAAGAG--CATCAATCAATATACTATATGTGACAACATT
* *
83350868 AGGCTCAATGCCTTGCTTTGTCATTCTGCCAACAATACCTTCGGCTTTAGAAACCATTCCCTTCT
1 AGGCTCAATGCCTTGCTTTCTCATTCTGCCAACAATATCTTCGGCTTTAGAAACCATTCCCTTCT
* * * *
83350933 TGCAGAGAGCATCGATGAATGTACTATATGTGACAACATC
66 TGCA-AGAGCATCAATCAATATACTATATGTGACAACATT
* * * * * *
83350973 AAGCTTAATGCCTTGCTTTGTCATTGTGCCAACGATATCTTCAGCTTTAGAAACCATTCCCTTCT
1 AGGCTCAATGCCTTGCTTTCTCATTCTGCCAACAATATCTTCGGCTTTAGAAACCATTCCCTTCT
83351038 TGCAA-AGCAGGTCAATCAATATACTATATGTGACAACATT
66 TGCAAGAGCA--TCAATCAATATACTATATGTGACAACATT
* * * ** * *
83351078 AGGCTCAACGCCTTGCTTTTTCATTGTGCCAAGGATATCTTTGGCTTTAGAAACCACTCCCTTCT
1 AGGCTCAATGCCTTGCTTTCTCATTCTGCCAACAATATCTTCGGCTTTAGAAACCATTCCCTTCT
* * * **
83351143 TGCAAAATGCATCGATCAATATAGTATATGTGATGACATT
66 TGCAAGA-GCATCAATCAATATACTATATGTGACAACATT
*
83351183 AGGCTTAATGCCTTGCTTTCTCATT
1 AGGCTCAATGCCTTGCTTTCTCATT
83351208 TCGAAGAAGA
Statistics
Matches: 297, Mismatches: 33, Indels: 20
0.85 0.09 0.06
Matches are distributed among these distances:
103 4 0.01
104 3 0.01
105 275 0.93
106 5 0.02
107 10 0.03
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (104 bp):
AGGCTCAATGCCTTGCTTTCTCATTCTGCCAACAATATCTTCGGCTTTAGAAACCATTCCCTTCT
TGCAAGAGCATCAATCAATATACTATATGTGACAACATT
Found at i:83351068 original size:210 final size:210
Alignment explanation
Indices: 83350770--83351207 Score: 585
Period size: 210 Copynumber: 2.1 Consensus size: 210
83350760 GTGAGGCTCG
* * * *
83350770 ATGCCTTGCTTTCTCATCGTGTCAACAATAACTTCAGGTTTAGAAACCATCCTGTCCTTGCAGAG
1 ATGCCTTGCTTTCTCATTGTGCCAACAATAACTTCAGCTTTAGAAACCATCCTGTCCTTGCAAAG
* * *
83350835 CACATCAATCAATGTATTATATGTGACAACATTAGGCTCAATGCCTTGCTTTGTCATTCTGCCAA
66 CACATCAATCAATATACTATATGTGACAACATTAGGCTCAACGCCTTGCTTTGTCATTCTGCCAA
* * * *
83350900 CAATACCTTCGGCTTTAGAAACCATTCCCTTCTTGCAGAGA-GCATCGATGAATGTACTATATGT
131 CAATACCTTCGGCTTTAGAAACCACTCCCTTCTTGCA-AAATGCATCGATCAATATACTATATGT
83350964 GACAACATCAAGCTTA
195 GACAACATCAAGCTTA
* * *
83350980 ATGCCTTGCTTTGTCATTGTGCCAACGATATCTTCAGCTTTAGAAACCATTCCCT-T-CTTGCAA
1 ATGCCTTGCTTTCTCATTGTGCCAACAATAACTTCAGCTTTAGAAACCA-T-CCTGTCCTTGCAA
** * *
83351043 AGCAGGTCAATCAATATACTATATGTGACAACATTAGGCTCAACGCCTTGCTTTTTCATTGTGCC
64 AGCACATCAATCAATATACTATATGTGACAACATTAGGCTCAACGCCTTGCTTTGTCATTCTGCC
** * * *
83351108 AAGGATATCTTTGGCTTTAGAAACCACTCCCTTCTTGCAAAATGCATCGATCAATATAGTATATG
129 AACAATACCTTCGGCTTTAGAAACCACTCCCTTCTTGCAAAATGCATCGATCAATATACTATATG
** * *
83351173 TGATGACATTAGGCTTA
194 TGACAACATCAAGCTTA
83351190 ATGCCTTGCTTTCTCATT
1 ATGCCTTGCTTTCTCATT
83351208 TCGAAGAAGA
Statistics
Matches: 197, Mismatches: 28, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
209 2 0.01
210 190 0.96
211 2 0.01
212 3 0.02
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (210 bp):
ATGCCTTGCTTTCTCATTGTGCCAACAATAACTTCAGCTTTAGAAACCATCCTGTCCTTGCAAAG
CACATCAATCAATATACTATATGTGACAACATTAGGCTCAACGCCTTGCTTTGTCATTCTGCCAA
CAATACCTTCGGCTTTAGAAACCACTCCCTTCTTGCAAAATGCATCGATCAATATACTATATGTG
ACAACATCAAGCTTA
Found at i:83358789 original size:46 final size:48
Alignment explanation
Indices: 83358716--83358835 Score: 136
Period size: 48 Copynumber: 2.5 Consensus size: 48
83358706 GACAGGATAG
* * * * *
83358716 GACAGAAATGAGCCATGTAAGTTCATATCA-GT-TATATGGCTTTGGA
1 GACAGGAATGAGTCATGTAAGTCCATATCATATATATATGGCATTGGA
* *
83358762 GACAGGAATGAGTCATGTAAGCCCATATTATATATATATGGCATTGGA
1 GACAGGAATGAGTCATGTAAGTCCATATCATATATATATGGCATTGGA
* * *
83358810 GACATGAATAATTCATGTAAGTCCAT
1 GACAGGAATGAGTCATGTAAGTCCAT
83358836 GTCGAAGACA
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
46 25 0.41
47 1 0.02
48 35 0.57
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (48 bp):
GACAGGAATGAGTCATGTAAGTCCATATCATATATATATGGCATTGGA
Found at i:83392973 original size:6 final size:6
Alignment explanation
Indices: 83392962--83392989 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
83392952 TTTTATTGCA
83392962 TCATTT TCATTT TCATTT TCATTT TCAT
1 TCATTT TCATTT TCATTT TCATTT TCAT
83392990 ATTTATATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.64
Consensus pattern (6 bp):
TCATTT
Found at i:83395695 original size:17 final size:17
Alignment explanation
Indices: 83395673--83395709 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
83395663 ATGCATACCT
*
83395673 TAAAATTTTTAAGTGTA
1 TAAAATTTTTAAGTATA
83395690 TAAAATTTTTAAGTATA
1 TAAAATTTTTAAGTATA
83395707 TAA
1 TAA
83395710 TTACACCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (17 bp):
TAAAATTTTTAAGTATA
Found at i:83398200 original size:14 final size:14
Alignment explanation
Indices: 83398181--83398208 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
83398171 TAGTGTAACT
83398181 TTTGTTGATGTACA
1 TTTGTTGATGTACA
83398195 TTTGTTGATGTACA
1 TTTGTTGATGTACA
83398209 AAGACAGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.21, T:0.50
Consensus pattern (14 bp):
TTTGTTGATGTACA
Found at i:83409928 original size:16 final size:16
Alignment explanation
Indices: 83409907--83409938 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
83409897 ATTAAAATAA
*
83409907 AATTAAAATATTAAAT
1 AATTAAAATAATAAAT
83409923 AATTAAAATAATAAAT
1 AATTAAAATAATAAAT
83409939 TATATTTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AATTAAAATAATAAAT
Found at i:83410002 original size:14 final size:14
Alignment explanation
Indices: 83409964--83410002 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
83409954 AATAAATTAT
83409964 TATATGATTAAATA
1 TATATGATTAAATA
* *
83409978 TAAATAATTAAATA
1 TATATGATTAAATA
*
83409992 TATATGTTTAA
1 TATATGATTAA
83410003 TAATATTAAA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (14 bp):
TATATGATTAAATA
Found at i:83410016 original size:26 final size:27
Alignment explanation
Indices: 83409987--83410041 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
83409977 ATAAATAATT
83409987 AAATAT-ATATGTTT-AATAATATTAAA
1 AAATATAATAT-TTTCAATAATATTAAA
* *
83410013 AAATATAATATTTTCAATATTTTTAAA
1 AAATATAATATTTTCAATAATATTAAA
83410040 AA
1 AA
83410042 TAAAAATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 9 0.36
27 16 0.64
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (27 bp):
AAATATAATATTTTCAATAATATTAAA
Found at i:83418062 original size:2 final size:2
Alignment explanation
Indices: 83418055--83418092 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
83418045 ATTTAAATTC
83418055 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
83418093 CCAACATTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:83419281 original size:2 final size:2
Alignment explanation
Indices: 83419274--83419306 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
83419264 CTTTTCATAA
83419274 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
83419307 AATTAAGGAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:83426046 original size:81 final size:80
Alignment explanation
Indices: 83425952--83426103 Score: 214
Period size: 81 Copynumber: 1.9 Consensus size: 80
83425942 CAAGAGCTTC
* ** *
83425952 AAATTTTGCAAGTACAAGTTAAATCATTGGGTAAAAGACTTAAATATTCAATTTAATAATTCAGT
1 AAATTTTGCAAGTACAAGTCAAATCACCGGGTAAAAGACTTAAATAGTCAATTTAATAATTCAGT
83426017 ATCTTTTTCAAATCTA
66 AT-TTTTTCAAATCTA
** * * *
83426033 AAATTTTGCAAGTACAAGTCAAATCACCGTTTAAAAGACTTCAATAGTCAATTTAATATTTTAGT
1 AAATTTTGCAAGTACAAGTCAAATCACCGGGTAAAAGACTTAAATAGTCAATTTAATAATTCAGT
83426098 ATTTTT
66 ATTTTT
83426104 CCCAAATTTA
Statistics
Matches: 62, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
80 4 0.06
81 58 0.94
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (80 bp):
AAATTTTGCAAGTACAAGTCAAATCACCGGGTAAAAGACTTAAATAGTCAATTTAATAATTCAGT
ATTTTTTCAAATCTA
Found at i:83431536 original size:46 final size:46
Alignment explanation
Indices: 83431478--83431605 Score: 184
Period size: 46 Copynumber: 2.8 Consensus size: 46
83431468 ATTTGGGCAT
* * * *
83431478 CCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGT
1 CCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
83431524 TCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* **
83431570 CCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGG
83431606 GCGGGTTACA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 73 1.00
ACGTcount: A:0.20, C:0.19, G:0.29, T:0.32
Consensus pattern (46 bp):
CCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:83436177 original size:35 final size:35
Alignment explanation
Indices: 83436135--83436206 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
83436125 ATAATGAAAG
83436135 ATGAACGTTATGAAGTTTATAGTATTGCAAATTCA
1 ATGAACGTTATGAAGTTTATAGTATTGCAAATTCA
83436170 ATGAACGTTATGAAGTTTATAGTATTGCAAATTCA
1 ATGAACGTTATGAAGTTTATAGTATTGCAAATTCA
83436205 AT
1 AT
83436207 CTTTTTTGGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.38
Consensus pattern (35 bp):
ATGAACGTTATGAAGTTTATAGTATTGCAAATTCA
Found at i:83445919 original size:15 final size:16
Alignment explanation
Indices: 83445894--83445927 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
83445884 AAAATGTAAT
83445894 TTTATTATTTTAATAA
1 TTTATTATTTTAATAA
*
83445910 TTTA-TATTTTTATAA
1 TTTATTATTTTAATAA
83445925 TTT
1 TTT
83445928 TTAAAAGGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTATTATTTTAATAA
Found at i:83454448 original size:59 final size:58
Alignment explanation
Indices: 83454378--83454554 Score: 327
Period size: 59 Copynumber: 3.0 Consensus size: 58
83454368 GCCAAATGGA
83454378 AAAGCAAGAGATGAGCTTGAAATGGAACTTACAAATGGTGGCGGCACTACCAGAACAAC
1 AAAGCAAGAGATGAGCTT-AAATGGAACTTACAAATGGTGGCGGCACTACCAGAACAAC
83454437 AAAGCAAGAGATGAGCTTATAATGGAACTTACAAATGGTGGCGGCACTACCAGAACAAC
1 AAAGCAAGAGATGAGCTTA-AATGGAACTTACAAATGGTGGCGGCACTACCAGAACAAC
83454496 AAAGCAAGAGATGAGCTTAAAATGGAACTTACAAATGGTGGCGGCACTACCAGAACAAC
1 AAAGCAAGAGATGAGCTT-AAATGGAACTTACAAATGGTGGCGGCACTACCAGAACAAC
83454555 TTAATTTATA
Statistics
Matches: 116, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
58 1 0.01
59 114 0.98
60 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.24, T:0.16
Consensus pattern (58 bp):
AAAGCAAGAGATGAGCTTAAATGGAACTTACAAATGGTGGCGGCACTACCAGAACAAC
Found at i:83454598 original size:42 final size:42
Alignment explanation
Indices: 83454551--83454635 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
83454541 ACTACCAGAA
*
83454551 CAACTTAATTTATATATAATTTGTGTAAATAAGCAATATCAC
1 CAACTTAATTTACATATAATTTGTGTAAATAAGCAATATCAC
*
83454593 CAACTTAATTTACGTATAATTTGTGTAAATAAGCAATATCAC
1 CAACTTAATTTACATATAATTTGTGTAAATAAGCAATATCAC
83454635 C
1 C
83454636 TGTATTGGCT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.41, C:0.14, G:0.08, T:0.36
Consensus pattern (42 bp):
CAACTTAATTTACATATAATTTGTGTAAATAAGCAATATCAC
Found at i:83454939 original size:26 final size:26
Alignment explanation
Indices: 83454910--83454962 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
83454900 TAAATAAAAG
83454910 TGATATAGATTAAAATATTTGAGTGC
1 TGATATAGATTAAAATATTTGAGTGC
83454936 TGATATAGATTAAAATATTTGAGTGC
1 TGATATAGATTAAAATATTTGAGTGC
83454962 T
1 T
83454963 TAAATTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.38, C:0.04, G:0.19, T:0.40
Consensus pattern (26 bp):
TGATATAGATTAAAATATTTGAGTGC
Found at i:83456486 original size:25 final size:26
Alignment explanation
Indices: 83456458--83456513 Score: 60
Period size: 27 Copynumber: 2.2 Consensus size: 26
83456448 TGAATTTATT
*
83456458 TTGTATAAAT-TTTACATGCTTGAAG
1 TTGTATAAATGTATACATGCTTGAAG
* * *
83456483 TTGTTTCAATGGTATGCATGCTTGAAG
1 TTGTATAAAT-GTATACATGCTTGAAG
83456510 TTGT
1 TTGT
83456514 TTCAATGGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 8 0.32
27 17 0.68
ACGTcount: A:0.25, C:0.09, G:0.21, T:0.45
Consensus pattern (26 bp):
TTGTATAAATGTATACATGCTTGAAG
Found at i:83456502 original size:27 final size:27
Alignment explanation
Indices: 83456472--83456527 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
83456462 ATAAATTTTA
83456472 CATGCTTGAAGTTGTTTCAATGGTATG
1 CATGCTTGAAGTTGTTTCAATGGTATG
83456499 CATGCTTGAAGTTGTTTCAATGGTATG
1 CATGCTTGAAGTTGTTTCAATGGTATG
83456526 CA
1 CA
83456528 CAAATTAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.23, C:0.12, G:0.25, T:0.39
Consensus pattern (27 bp):
CATGCTTGAAGTTGTTTCAATGGTATG
Done.