Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 324 of 325
Found at i:104717450 original size:13 final size:13
Alignment explanation
Indices: 104717432--104717461 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
104717422 ATAAAAGGAA
*
104717432 AAATTTAGATACC
1 AAATTTAAATACC
104717445 AAATTTAAATACC
1 AAATTTAAATACC
104717458 AAAT
1 AAAT
104717462 GATATAGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.53, C:0.13, G:0.03, T:0.30
Consensus pattern (13 bp):
AAATTTAAATACC
Found at i:104721326 original size:11 final size:11
Alignment explanation
Indices: 104721312--104721337 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
104721302 TATTTTATTA
104721312 TTAATGCGCTT
1 TTAATGCGCTT
104721323 TTAATGCGCTT
1 TTAATGCGCTT
104721334 TTAA
1 TTAA
104721338 GACATTCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.46
Consensus pattern (11 bp):
TTAATGCGCTT
Found at i:104726659 original size:23 final size:23
Alignment explanation
Indices: 104726632--104726679 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
104726622 GGACGAATAC
104726632 ATTAAATTCTTGAAAATAAAAAT
1 ATTAAATTCTTGAAAATAAAAAT
104726655 ATTAAATTCTTGAAAATAAAAAT
1 ATTAAATTCTTGAAAATAAAAAT
104726678 AT
1 AT
104726680 AAAAATTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.35
Consensus pattern (23 bp):
ATTAAATTCTTGAAAATAAAAAT
Found at i:104734410 original size:4 final size:4
Alignment explanation
Indices: 104734403--104734442 Score: 53
Period size: 4 Copynumber: 10.0 Consensus size: 4
104734393 CAGTCAGTCA
* * *
104734403 GTAT GTAT GTAT GTAT GTAT ATAT GCAT GTAC GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
104734443 TACCTTGTTG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.28, C:0.05, G:0.23, T:0.45
Consensus pattern (4 bp):
GTAT
Found at i:104738642 original size:15 final size:15
Alignment explanation
Indices: 104738624--104738667 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
104738614 CATCAAAATA
*
104738624 ATCATCATCATCTCC
1 ATCATCATCACCTCC
104738639 ATCATCATCACCTCC
1 ATCATCATCACCTCC
104738654 ATC-TC--CACCTCC
1 ATCATCATCACCTCC
104738666 AT
1 AT
104738668 GATTAATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 9 0.32
14 2 0.07
15 17 0.61
ACGTcount: A:0.25, C:0.45, G:0.00, T:0.30
Consensus pattern (15 bp):
ATCATCATCACCTCC
Found at i:104741224 original size:21 final size:21
Alignment explanation
Indices: 104741200--104741241 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
104741190 CCATTTAAAA
104741200 AACTGCAATTTCACTAAATTT
1 AACTGCAATTTCACTAAATTT
104741221 AACTGCAATTTCACTAAATTT
1 AACTGCAATTTCACTAAATTT
104741242 TGGAAATTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (21 bp):
AACTGCAATTTCACTAAATTT
Found at i:104743487 original size:30 final size:28
Alignment explanation
Indices: 104743421--104743488 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 28
104743411 TTTAAAATTT
* *
104743421 AAAAAGTAAAAAGATTAAATTTCTACAA
1 AAAAAGTAAAAAGACTAAATTCCTACAA
*
104743449 ATAAAAGTAAAAAGACTAAATTCCAATACAC
1 A-AAAAGTAAAAAGACTAAATTCC--TACAA
104743480 AAAAAGTAA
1 AAAAAGTAA
104743489 CCATAAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
28 1 0.03
29 20 0.59
30 8 0.24
31 5 0.15
ACGTcount: A:0.62, C:0.10, G:0.07, T:0.21
Consensus pattern (28 bp):
AAAAAGTAAAAAGACTAAATTCCTACAA
Found at i:104748818 original size:30 final size:29
Alignment explanation
Indices: 104748782--104748841 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 29
104748772 AATACATTAA
* *
104748782 ACTATTTAAAATTTTTATTTAAGTCAATAG
1 ACTATTTAAAATTTGTATATAAGTC-ATAG
*
104748812 ACTATTTGAAATTTGTATATAAGTCATAG
1 ACTATTTAAAATTTGTATATAAGTCATAG
104748841 A
1 A
104748842 GTTGTTAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 5 0.19
30 22 0.81
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (29 bp):
ACTATTTAAAATTTGTATATAAGTCATAG
Found at i:104749482 original size:25 final size:24
Alignment explanation
Indices: 104749438--104749493 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 24
104749428 ATTTAATTCT
*
104749438 AATTATAATTAATGGTGTAATTATA
1 AATTATAATTAATGGAGTAATT-TA
**
104749463 AATTATAATTCTTGGAGTAATTTA
1 AATTATAATTAATGGAGTAATTTA
*
104749487 TATTATA
1 AATTATA
104749494 CACATCCAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
24 8 0.30
25 19 0.70
ACGTcount: A:0.41, C:0.02, G:0.11, T:0.46
Consensus pattern (24 bp):
AATTATAATTAATGGAGTAATTTA
Found at i:104752584 original size:243 final size:243
Alignment explanation
Indices: 104752156--104752642 Score: 974
Period size: 243 Copynumber: 2.0 Consensus size: 243
104752146 ACAGCTTTTG
104752156 TCAAAAGACTCTGTGAAGCCGAAGCTTGCAGATAAAACATAATGATAACAGCAGTGATTCTTGCT
1 TCAAAAGACTCTGTGAAGCCGAAGCTTGCAGATAAAACATAATGATAACAGCAGTGATTCTTGCT
104752221 TTTGCTCAACATCAAATCAAATTAATAACAGTGACTGTATGAACTTTCAACAATTTCCCTCTTTA
66 TTTGCTCAACATCAAATCAAATTAATAACAGTGACTGTATGAACTTTCAACAATTTCCCTCTTTA
104752286 GTAAAGTTGGACCGTTAAGCCTATGCTAAATATATGTTTTGGTTGTCACTATCGAGGCGCTGTTA
131 GTAAAGTTGGACCGTTAAGCCTATGCTAAATATATGTTTTGGTTGTCACTATCGAGGCGCTGTTA
104752351 ATCCAGCCATTTTCACATCTTAGGGGGATTCTATCTTACTTTATTTAT
196 ATCCAGCCATTTTCACATCTTAGGGGGATTCTATCTTACTTTATTTAT
104752399 TCAAAAGACTCTGTGAAGCCGAAGCTTGCAGATAAAACATAATGATAACAGCAGTGATTCTTGCT
1 TCAAAAGACTCTGTGAAGCCGAAGCTTGCAGATAAAACATAATGATAACAGCAGTGATTCTTGCT
104752464 TTTGCTCAACATCAAATCAAATTAATAACAGTGACTGTATGAACTTTCAACAATTTCCCTCTTTA
66 TTTGCTCAACATCAAATCAAATTAATAACAGTGACTGTATGAACTTTCAACAATTTCCCTCTTTA
104752529 GTAAAGTTGGACCGTTAAGCCTATGCTAAATATATGTTTTGGTTGTCACTATCGAGGCGCTGTTA
131 GTAAAGTTGGACCGTTAAGCCTATGCTAAATATATGTTTTGGTTGTCACTATCGAGGCGCTGTTA
104752594 ATCCAGCCATTTTCACATCTTAGGGGGATTCTATCTTACTTTATTTAT
196 ATCCAGCCATTTTCACATCTTAGGGGGATTCTATCTTACTTTATTTAT
104752642 T
1 T
104752643 AAAGATAATA
Statistics
Matches: 244, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
243 244 1.00
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.34
Consensus pattern (243 bp):
TCAAAAGACTCTGTGAAGCCGAAGCTTGCAGATAAAACATAATGATAACAGCAGTGATTCTTGCT
TTTGCTCAACATCAAATCAAATTAATAACAGTGACTGTATGAACTTTCAACAATTTCCCTCTTTA
GTAAAGTTGGACCGTTAAGCCTATGCTAAATATATGTTTTGGTTGTCACTATCGAGGCGCTGTTA
ATCCAGCCATTTTCACATCTTAGGGGGATTCTATCTTACTTTATTTAT
Found at i:104756843 original size:109 final size:109
Alignment explanation
Indices: 104756707--104756969 Score: 456
Period size: 109 Copynumber: 2.4 Consensus size: 109
104756697 GGAATTAGTG
*
104756707 GCCGACCAATATGCATGGATTAATGACTTGAATTATTTATTATGTTTTATGGCATTATGGTATAC
1 GCCGACCAATATGCATGGATTAATGACTTGAATTATTTATTATATTTTATGGCATTATGGTATAC
* *
104756772 TTTAATATATGTTAATATATTATATTTAATAAAAGATGAAAGTA
66 TTTAATATATATTAATATATTATAATTAATAAAAGATGAAAGTA
*
104756816 GCCGACCAATATGCATAGATTAATGACTTGAATTATTTATTATATTTTATGGCATTATGGTATAC
1 GCCGACCAATATGCATGGATTAATGACTTGAATTATTTATTATATTTTATGGCATTATGGTATAC
104756881 TTTAATATATATTAATATATTATAATTAATAAAAGATGAAAGTA
66 TTTAATATATATTAATATATTATAATTAATAAAAGATGAAAGTA
* *
104756925 GCCGA-GAATATGCATGGATTAATGACTTGAATTGTTTATTTATAT
1 GCCGACCAATATGCATGGATTAATGACTTGAATTATTTA-TTATAT
104756970 ATGTTAATAT
Statistics
Matches: 146, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
108 30 0.21
109 116 0.79
ACGTcount: A:0.37, C:0.08, G:0.14, T:0.41
Consensus pattern (109 bp):
GCCGACCAATATGCATGGATTAATGACTTGAATTATTTATTATATTTTATGGCATTATGGTATAC
TTTAATATATATTAATATATTATAATTAATAAAAGATGAAAGTA
Found at i:104762329 original size:31 final size:31
Alignment explanation
Indices: 104762286--104762345 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
104762276 GGTCTGGCAT
* *
104762286 ATGGTCGTGTGTCTAAGTCCGTGTGGCTCAC
1 ATGGCCGTGTGTCTAAGCCCGTGTGGCTCAC
104762317 ATGGCCGTGTGTCTAAGCCCGTGTGGCTC
1 ATGGCCGTGTGTCTAAGCCCGTGTGGCTC
104762346 CAAAATGCTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.12, C:0.25, G:0.33, T:0.30
Consensus pattern (31 bp):
ATGGCCGTGTGTCTAAGCCCGTGTGGCTCAC
Found at i:104764655 original size:165 final size:165
Alignment explanation
Indices: 104764383--104764707 Score: 641
Period size: 165 Copynumber: 2.0 Consensus size: 165
104764373 TCAACGTCTA
104764383 GCACAATACAACGTCCCAAATATCTGCTGAAACCAAGAATCCACCCTTCATTTCGATTGCACACT
1 GCACAATACAACGTCCCAAATATCTGCTGAAACCAAGAATCCACCCTTCATTTCGATTGCACACT
104764448 AACTGCCCAAGCTGCAACAAAAAAACTATTTTTTCTAACATATAAATACTAATTTATTTATTTTT
66 AACTGCCCAAGCTGCAACAAAAAAACTATTTTTTCTAACATATAAATACTAATTTATTTATTTTT
104764513 TAAATAAAAATATAAAATATAATTCAATTTCGATT
131 TAAATAAAAATATAAAATATAATTCAATTTCGATT
*
104764548 GCACAATACAACGTTCCAAATATCTGCTGAAACCAAGAATCCACCCTTCATTTCGATTGCACACT
1 GCACAATACAACGTCCCAAATATCTGCTGAAACCAAGAATCCACCCTTCATTTCGATTGCACACT
104764613 AACTGCCCAAGCTGCAACAAAAAAACTATTTTTTCTAACATATAAATACTAATTTATTTATTTTT
66 AACTGCCCAAGCTGCAACAAAAAAACTATTTTTTCTAACATATAAATACTAATTTATTTATTTTT
104764678 TAAATAAAAATATAAAATATAATTCAATTT
131 TAAATAAAAATATAAAATATAATTCAATTT
104764708 ATAATACAAA
Statistics
Matches: 159, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
165 159 1.00
ACGTcount: A:0.41, C:0.20, G:0.06, T:0.32
Consensus pattern (165 bp):
GCACAATACAACGTCCCAAATATCTGCTGAAACCAAGAATCCACCCTTCATTTCGATTGCACACT
AACTGCCCAAGCTGCAACAAAAAAACTATTTTTTCTAACATATAAATACTAATTTATTTATTTTT
TAAATAAAAATATAAAATATAATTCAATTTCGATT
Found at i:104765019 original size:30 final size:27
Alignment explanation
Indices: 104764985--104765044 Score: 75
Period size: 30 Copynumber: 2.1 Consensus size: 27
104764975 TATGAATTAT
*
104764985 AATTAAAATTTAATGTATATAATTATATCA
1 AATTAAAA-TTAATGT-TATAATT-TATAA
*
104765015 AATTAAAATTATTGTTATAATTTATAA
1 AATTAAAATTAATGTTATAATTTATAA
104765042 AAT
1 AAT
104765045 GAAGGTTGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 7 0.25
28 7 0.25
29 6 0.21
30 8 0.29
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (27 bp):
AATTAAAATTAATGTTATAATTTATAA
Found at i:104773075 original size:42 final size:42
Alignment explanation
Indices: 104773012--104773175 Score: 195
Period size: 42 Copynumber: 3.7 Consensus size: 42
104773002 CTCCGTTTTC
** *
104773012 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACAT-A
* *
104773055 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATA
104773096 TCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC---AT--C-T-TCACATA
*
104773145 TCGATGCCATAGCCCAGCTATGGTCATACAC
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC
104773176 GAATCACATA
Statistics
Matches: 105, Mismatches: 8, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
41 2 0.02
42 63 0.60
43 1 0.01
45 2 0.02
48 1 0.01
49 36 0.34
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATA
Found at i:104773155 original size:49 final size:49
Alignment explanation
Indices: 104773082--104773265 Score: 191
Period size: 49 Copynumber: 3.8 Consensus size: 49
104773072 TATGGTCTTA
* *
104773082 CACATATTCATATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
1 CACATA-TCACATATCGATGCCATAGCCCAGATATGGTCTTACACGTAAT
* *
104773132 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCATACACG-AAT
1 CACATATCACATATCGATGCCATAGCCCAGATATGGTCTTACACGTAAT
* * * * *
104773180 CACATATCTCAT-T-GATGTCATATCCCAGATATGGTCTTATACAGT-AG
1 CACATATCACATATCGATGCCATAGCCCAGATATGGTCTTACAC-GTAAT
* * * *
104773227 CATATATCAC--ACCGATGCCATATCCCAAATATGGTCTTA
1 CACATATCACATATCGATGCCATAGCCCAGATATGGTCTTA
104773266 TACGGAAATC
Statistics
Matches: 116, Mismatches: 14, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
46 24 0.21
47 35 0.30
48 14 0.12
49 37 0.32
50 6 0.05
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.29
Consensus pattern (49 bp):
CACATATCACATATCGATGCCATAGCCCAGATATGGTCTTACACGTAAT
Found at i:104773251 original size:47 final size:47
Alignment explanation
Indices: 104773095--104773268 Score: 174
Period size: 47 Copynumber: 3.7 Consensus size: 47
104773085 ATATTCATAT
* *
104773095 ATCGATGCCATAGCCCAGCTATGGTCTTACAC-GTAATCACATATCAC
1 ATCGATGCCATAGCCCAGATATGGTCTTATACAGT-ATCACATATCAC
* * *
104773142 ATATCGATGCCATAGCCCAGCTATGGTC--ATACACGAATCACATATCTC
1 --ATCGATGCCATAGCCCAGATATGGTCTTATACA-GTATCACATATCAC
* * * * *
104773190 ATTGATGTCATATCCCAGATATGGTCTTATACAGTAGCATATATCAC
1 ATCGATGCCATAGCCCAGATATGGTCTTATACAGTATCACATATCAC
* * *
104773237 ACCGATGCCATATCCCAAATATGGTCTTATAC
1 ATCGATGCCATAGCCCAGATATGGTCTTATAC
104773269 GGAAATCACT
Statistics
Matches: 106, Mismatches: 15, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
46 22 0.21
47 41 0.39
48 16 0.15
49 27 0.25
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.28
Consensus pattern (47 bp):
ATCGATGCCATAGCCCAGATATGGTCTTATACAGTATCACATATCAC
Found at i:104773322 original size:31 final size:31
Alignment explanation
Indices: 104773287--104773466 Score: 297
Period size: 31 Copynumber: 5.8 Consensus size: 31
104773277 CTTGTCACTT
*
104773287 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
104773318 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
104773349 GTAACCGGAGCTACCACTTTTCACTGATCAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
104773380 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
104773411 GTAGCCGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
104773442 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
104773467 TGTCATTTGT
Statistics
Matches: 138, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 138 1.00
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:104773548 original size:50 final size:51
Alignment explanation
Indices: 104773434--104773570 Score: 206
Period size: 50 Copynumber: 2.7 Consensus size: 51
104773424 CCACTTTTCA
* * * *
104773434 CTGATCAG-GTAGCCGAAGCTACCACTTTTCACTTGTCATTTGTCCTTGAT
1 CTGATAAGTGTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGAT
* *
104773484 CAGATAAGTGTAGCCGAAGCTATCACTTATCACTT-TCACTTGTCTTTGAT
1 CTGATAAGTGTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGAT
104773534 CTGATAAGTGTAGCCGAAGCTATCACTTATCACTTGT
1 CTGATAAGTGTAGCCGAAGCTATCACTTATCACTTGT
104773571 GCCATGGTCC
Statistics
Matches: 78, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
50 53 0.68
51 25 0.32
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (51 bp):
CTGATAAGTGTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGAT
Found at i:104778705 original size:20 final size:20
Alignment explanation
Indices: 104778680--104778719 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
104778670 GTACAAAACA
* *
104778680 TATTTTCAATTTAATCCATG
1 TATTTTAAATATAATCCATG
*
104778700 TATTTTAAATATAATTCATG
1 TATTTTAAATATAATCCATG
104778720 CTAGATTTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.35, C:0.10, G:0.05, T:0.50
Consensus pattern (20 bp):
TATTTTAAATATAATCCATG
Found at i:104785800 original size:12 final size:12
Alignment explanation
Indices: 104785779--104785824 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
104785769 TTGCTGTATA
*
104785779 TACATACATAGG
1 TACATACATACG
*
104785791 TACGTACATACG
1 TACATACATACG
*
104785803 TACATACATACA
1 TACATACATACG
*
104785815 TATATACATA
1 TACATACATA
104785825 TGTGTCTTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.43, C:0.20, G:0.09, T:0.28
Consensus pattern (12 bp):
TACATACATACG
Found at i:104795858 original size:20 final size:20
Alignment explanation
Indices: 104795809--104795860 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
104795799 TTATGCCACA
* *
104795809 TCAGTATTCTTTTCCTGAATT
1 TCAGTATT-TTATCCTCAATT
**
104795830 TCAAAATTTTATCCTCAATT
1 TCAGTATTTTATCCTCAATT
104795850 TCAGTATTTTA
1 TCAGTATTTTA
104795861 ATTTAGATTT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
20 19 0.76
21 6 0.24
ACGTcount: A:0.27, C:0.17, G:0.06, T:0.50
Consensus pattern (20 bp):
TCAGTATTTTATCCTCAATT
Found at i:104803450 original size:32 final size:32
Alignment explanation
Indices: 104803414--104803478 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
104803404 ATACAACATA
104803414 AAAAAAAAGTGTTTTAATTCAAAGATTTGTAC
1 AAAAAAAAGTGTTTTAATTCAAAGATTTGTAC
*
104803446 AAAAAAAAGTGTTTTAATTCAAAGATTTTTAC
1 AAAAAAAAGTGTTTTAATTCAAAGATTTGTAC
104803478 A
1 A
104803479 TCTTTATTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.48, C:0.06, G:0.11, T:0.35
Consensus pattern (32 bp):
AAAAAAAAGTGTTTTAATTCAAAGATTTGTAC
Found at i:104824966 original size:357 final size:357
Alignment explanation
Indices: 104824311--104825032 Score: 1417
Period size: 357 Copynumber: 2.0 Consensus size: 357
104824301 TGCGGTGGAG
104824311 TTTTCTTTCATTGTCTTACTCATCACTTTAGCAACCTGCATCATCATGAACAGACATTAGAAAAA
1 TTTTCTTTCATTGTCTTACTCATCACTTTAGCAACCTGCATCATCATGAACAGACATTAGAAAAA
*
104824376 CCAGAAAGATATATTACATAACAAACAAAGGATATAACTTTACAAACAAGCTACCTTTTGAATGT
66 CCAGAAAGATATATTACACAACAAACAAAGGATATAACTTTACAAACAAGCTACCTTTTGAATGT
104824441 TTTTATGAGTCTCATTCGTCAACTTGCCCGTGTCACAATCCAATTTTCTACAATAAATTTTGGTG
131 TTTTATGAGTCTCATTCGTCAACTTGCCCGTGTCACAATCCAATTTTCTACAATAAATTTTGGTG
104824506 CAAATTCAACGGTAAATGCAAGTGAATAATAAATAAACAAAAGTATGAACAAACATGTCATGAAT
196 CAAATTCAACGGTAAATGCAAGTGAATAATAAATAAACAAAAGTATGAACAAACATGTCATGAAT
104824571 TCCATACCTGTTTTCATCAGAAGCTGCATAATTTTCCTTGTTATTGTCAATTTCCATGACTTTGC
261 TCCATACCTGTTTTCATCAGAAGCTGCATAATTTTCCTTGTTATTGTCAATTTCCATGACTTTGC
104824636 TTTCACTTACTCTGATATTAGATGCCATAGCA
326 TTTCACTTACTCTGATATTAGATGCCATAGCA
104824668 TTTTCTTTCATTGTCTTACTCATCACTTTAGCAACCTGCATCATCATGAACAGACATTAGAAAAA
1 TTTTCTTTCATTGTCTTACTCATCACTTTAGCAACCTGCATCATCATGAACAGACATTAGAAAAA
* *
104824733 CCAGAAAGATATATTACACAACAAACGAAGGATATAACTTTATAAACAAGCTACCTTTTGAATGT
66 CCAGAAAGATATATTACACAACAAACAAAGGATATAACTTTACAAACAAGCTACCTTTTGAATGT
104824798 TTTTATGAGTCTCATTCGTCAACTTGCCCGTGTCACAATCCAATTTTCTACAATAAATTTTGGTG
131 TTTTATGAGTCTCATTCGTCAACTTGCCCGTGTCACAATCCAATTTTCTACAATAAATTTTGGTG
104824863 CAAATTCAACGGTAAATGCAAGTGAATAATAAATAAACAAAAGTATGAACAAACATGTCATGAAT
196 CAAATTCAACGGTAAATGCAAGTGAATAATAAATAAACAAAAGTATGAACAAACATGTCATGAAT
104824928 TCCATACCTGTTTTCATCAGAAGCTGCATAATTTTCCTTGTTATTGTCAATTTCCATGACTTTGC
261 TCCATACCTGTTTTCATCAGAAGCTGCATAATTTTCCTTGTTATTGTCAATTTCCATGACTTTGC
104824993 TTTCACTTACTCTGATATTAGATGCCATAGCA
326 TTTCACTTACTCTGATATTAGATGCCATAGCA
104825025 TTTTCTTT
1 TTTTCTTT
104825033 GTCGTCGTCG
Statistics
Matches: 362, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
357 362 1.00
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (357 bp):
TTTTCTTTCATTGTCTTACTCATCACTTTAGCAACCTGCATCATCATGAACAGACATTAGAAAAA
CCAGAAAGATATATTACACAACAAACAAAGGATATAACTTTACAAACAAGCTACCTTTTGAATGT
TTTTATGAGTCTCATTCGTCAACTTGCCCGTGTCACAATCCAATTTTCTACAATAAATTTTGGTG
CAAATTCAACGGTAAATGCAAGTGAATAATAAATAAACAAAAGTATGAACAAACATGTCATGAAT
TCCATACCTGTTTTCATCAGAAGCTGCATAATTTTCCTTGTTATTGTCAATTTCCATGACTTTGC
TTTCACTTACTCTGATATTAGATGCCATAGCA
Found at i:104827351 original size:30 final size:30
Alignment explanation
Indices: 104827298--104827362 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
104827288 ATATTAATAC
*
104827298 TTTAAGGACTTAATTAAAATTTTAAA-AAA
1 TTTAAGAACTTAATTAAAATTTTAAACAAA
* * *
104827327 TTTAAGAATCTTACTTAAACTTTTAAACATA
1 TTTAAGAA-CTTAATTAAAATTTTAAACAAA
104827358 TTTAA
1 TTTAA
104827363 AGTAAGACAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 7 0.23
30 16 0.53
31 7 0.23
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.42
Consensus pattern (30 bp):
TTTAAGAACTTAATTAAAATTTTAAACAAA
Found at i:104828683 original size:23 final size:23
Alignment explanation
Indices: 104828657--104828702 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
104828647 CCATGGTTTA
104828657 CATAGTTTAATAATTTAATAATC
1 CATAGTTTAATAATTTAATAATC
104828680 CATAGTTTAATAATTTAATAATC
1 CATAGTTTAATAATTTAATAATC
104828703 TTGATTAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.43
Consensus pattern (23 bp):
CATAGTTTAATAATTTAATAATC
Found at i:104842714 original size:19 final size:20
Alignment explanation
Indices: 104842683--104842720 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
104842673 TGGTGATTTA
104842683 TTTAAATTTAAATAGAATTG
1 TTTAAATTTAAATAGAATTG
*
104842703 TTTAAA-TTAAATTGAATT
1 TTTAAATTTAAATAGAATT
104842721 AATCAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (20 bp):
TTTAAATTTAAATAGAATTG
Found at i:104842764 original size:20 final size:20
Alignment explanation
Indices: 104842740--104842779 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
104842730 ATCAATTCAA
*
104842740 TTTTTATTAAGTTTTTAATAT
1 TTTTTA-TAAATTTTTAATAT
104842761 TTTTTATAAATTTTTAATA
1 TTTTTATAAATTTTTAATA
104842780 ATTATTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (20 bp):
TTTTTATAAATTTTTAATAT
Found at i:104842780 original size:11 final size:11
Alignment explanation
Indices: 104842738--104842795 Score: 50
Period size: 11 Copynumber: 5.4 Consensus size: 11
104842728 AAATCAATTC
*
104842738 AATTTTTATTA
1 AATTTTTAATA
*
104842749 AGTTTTTAAT-
1 AATTTTTAATA
*
104842759 -ATTTTTTATA
1 AATTTTTAATA
104842769 AATTTTTAAT-
1 AATTTTTAATA
104842779 AATTATTTAATTA
1 AATT-TTTAA-TA
104842792 AATT
1 AATT
104842796 AGATAAACCG
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
9 7 0.19
10 4 0.11
11 21 0.57
12 1 0.03
13 4 0.11
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (11 bp):
AATTTTTAATA
Found at i:104846683 original size:99 final size:99
Alignment explanation
Indices: 104846512--104846702 Score: 373
Period size: 99 Copynumber: 1.9 Consensus size: 99
104846502 TCGTGTTATG
*
104846512 TGTTGGGATCTTCGGCCATTGTTATTACGTCCATAAGATCCTTGCCCCAAGGGGCAATGAGGCCC
1 TGTTGGGATCTTCGGCCATTGTTATTACGTCCATAAGATCCTTGCCCCAAGGGACAATGAGGCCC
104846577 ATGCACTAACAAACCTTTGAGTTTTTTAACACGA
66 ATGCACTAACAAACCTTTGAGTTTTTTAACACGA
104846611 TGTTGGGATCTTCGGCCATTGTTATTACGTCCATAAGATCCTTGCCCCAAGGGACAATGAGGCCC
1 TGTTGGGATCTTCGGCCATTGTTATTACGTCCATAAGATCCTTGCCCCAAGGGACAATGAGGCCC
104846676 ATGCACTAACAAACCTTTGAGTTTTTT
66 ATGCACTAACAAACCTTTGAGTTTTTT
104846703 TTTATAGCTT
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
99 91 1.00
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (99 bp):
TGTTGGGATCTTCGGCCATTGTTATTACGTCCATAAGATCCTTGCCCCAAGGGACAATGAGGCCC
ATGCACTAACAAACCTTTGAGTTTTTTAACACGA
Found at i:104851371 original size:33 final size:33
Alignment explanation
Indices: 104851261--104851380 Score: 116
Period size: 33 Copynumber: 3.6 Consensus size: 33
104851251 TAAGAGGCAA
* * * *
104851261 GAAGCAGAGGAGCATGAAGGAGCAA-TAAAACAC
1 GAAGAAGAGGAGCAGGAAGAAGGAAGT-AAACAC
* * * * * *
104851294 GTAGAAGAGGAACGGGTAGAAGGAAGCAAACAT
1 GAAGAAGAGGAGCAGGAAGAAGGAAGTAAACAC
104851327 GAAGAAGAGGAGCAGGAAGAAGGAAGTAAACAC
1 GAAGAAGAGGAGCAGGAAGAAGGAAGTAAACAC
* *
104851360 GAAGAAGAGGAGGAAGAAGAA
1 GAAGAAGAGGAGCAGGAAGAA
104851381 ACAAACAAAC
Statistics
Matches: 68, Mismatches: 18, Indels: 2
0.77 0.20 0.02
Matches are distributed among these distances:
33 68 1.00
ACGTcount: A:0.50, C:0.09, G:0.36, T:0.05
Consensus pattern (33 bp):
GAAGAAGAGGAGCAGGAAGAAGGAAGTAAACAC
Found at i:104851391 original size:33 final size:33
Alignment explanation
Indices: 104851320--104851400 Score: 99
Period size: 33 Copynumber: 2.5 Consensus size: 33
104851310 TAGAAGGAAG
* ** *
104851320 CAAACATGAAGAAGAGGAGCAGGAAGAAGGAAG
1 CAAACATGAAGAAGAGGAGCAAGAAGAAACAAA
* * *
104851353 TAAACACGAAGAAGAGGAGGAAGAAGAAACAAA
1 CAAACATGAAGAAGAGGAGCAAGAAGAAACAAA
104851386 CAAACATGAAGAAGA
1 CAAACATGAAGAAGA
104851401 TGAAGAGGCT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.57, C:0.10, G:0.30, T:0.04
Consensus pattern (33 bp):
CAAACATGAAGAAGAGGAGCAAGAAGAAACAAA
Found at i:104856784 original size:18 final size:18
Alignment explanation
Indices: 104856738--104856787 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
104856728 AACCCGAAAT
* *
104856738 CTGATCCTGATCCGGATC
1 CTGATCCTGACCCGGAAC
* *
104856756 CTGGTCTTGACCCGGAAC
1 CTGATCCTGACCCGGAAC
*
104856774 GTGATCCTGACCCG
1 CTGATCCTGACCCG
104856788 AAATCACCAC
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.16, C:0.34, G:0.26, T:0.24
Consensus pattern (18 bp):
CTGATCCTGACCCGGAAC
Found at i:104859782 original size:49 final size:49
Alignment explanation
Indices: 104859729--104859826 Score: 142
Period size: 49 Copynumber: 2.0 Consensus size: 49
104859719 CTTATTCCTC
* *
104859729 TGTTTTATTCCCTTCTCCATAATTTTTAATTAGTTTTTCTATGTTTTCT
1 TGTTTTATTCCCTTCTCCATAACTTTTAATTAGTTTTTCTATATTTTCT
* * * *
104859778 TGTTTTCTTCCTTTCTCCGTCACTTTTAATTAGTTTTTCTATATTTTCT
1 TGTTTTATTCCCTTCTCCATAACTTTTAATTAGTTTTTCTATATTTTCT
104859827 ATTTGTTAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.14, C:0.18, G:0.06, T:0.61
Consensus pattern (49 bp):
TGTTTTATTCCCTTCTCCATAACTTTTAATTAGTTTTTCTATATTTTCT
Found at i:104866806 original size:16 final size:15
Alignment explanation
Indices: 104866773--104866802 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
104866763 TATAGATCAC
*
104866773 ATTTTTATTGGTTAG
1 ATTTTTATTAGTTAG
104866788 ATTTTTATTAGTTAG
1 ATTTTTATTAGTTAG
104866803 GATTGTGTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.17, T:0.60
Consensus pattern (15 bp):
ATTTTTATTAGTTAG
Found at i:104867065 original size:22 final size:23
Alignment explanation
Indices: 104867033--104867081 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
104867023 TATACAGATA
104867033 TATATTATTAAAATAGTAA-AAT
1 TATATTATTAAAATAGTAATAAT
* * *
104867055 TATATTTTTAATATCGTAATAAT
1 TATATTATTAAAATAGTAATAAT
104867078 TATA
1 TATA
104867082 ATTTAATTCG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 16 0.70
23 7 0.30
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (23 bp):
TATATTATTAAAATAGTAATAAT
Found at i:104871041 original size:31 final size:31
Alignment explanation
Indices: 104871006--104871067 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
104870996 TTAACATAAT
*
104871006 ATGCAAATTAATCCTTTTATATTTGATAAAA
1 ATGCAAATCAATCCTTTTATATTTGATAAAA
104871037 ATGCAAATCAATCCTTTTATATTTGATAAAA
1 ATGCAAATCAATCCTTTTATATTTGATAAAA
104871068 TTTTCATTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.42, C:0.11, G:0.06, T:0.40
Consensus pattern (31 bp):
ATGCAAATCAATCCTTTTATATTTGATAAAA
Found at i:104875590 original size:40 final size:41
Alignment explanation
Indices: 104875537--104875618 Score: 94
Period size: 41 Copynumber: 2.0 Consensus size: 41
104875527 AACAAATTTT
** * *
104875537 AAAAAATCAATT-AAACCTTTTTAAAATTTAAAATTTATAA
1 AAAAAATCAATTAAAAAATTATAAAAATTTAAAATTTATAA
** *
104875577 AAAAAATTTATTAAAAAATTATAAAAATTTTAAATTTATAA
1 AAAAAATCAATTAAAAAATTATAAAAATTTAAAATTTATAA
104875618 A
1 A
104875619 TTTTTTATTA
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
40 10 0.29
41 24 0.71
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.38
Consensus pattern (41 bp):
AAAAAATCAATTAAAAAATTATAAAAATTTAAAATTTATAA
Found at i:104875591 original size:14 final size:13
Alignment explanation
Indices: 104875566--104875603 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
104875556 TTTAAAATTT
104875566 AAAATTTATAAAA
1 AAAATTTATAAAA
*
104875579 AAAATTTAT-TAA
1 AAAATTTATAAAA
104875591 AAAA-TTATAAAA
1 AAAATTTATAAAA
104875603 A
1 A
104875604 TTTTAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
11 4 0.18
12 9 0.41
13 9 0.41
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AAAATTTATAAAA
Found at i:104877513 original size:2 final size:2
Alignment explanation
Indices: 104877506--104877530 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
104877496 GAATGAGATA
104877506 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 A
104877531 ATGCTAGAAG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:104878746 original size:25 final size:26
Alignment explanation
Indices: 104878727--104878776 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
104878717 AAAAATTAAG
104878727 TTCAAGTA-TCAAATTAAAAAAAAAGA
1 TTCAAGTACT-AAATTAAAAAAAAAGA
*
104878753 TTTAAGTACTAAATTAAAAAAAAA
1 TTCAAGTACTAAATTAAAAAAAAA
104878777 TCAAATCTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 21 0.95
27 1 0.05
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.26
Consensus pattern (26 bp):
TTCAAGTACTAAATTAAAAAAAAAGA
Found at i:104879415 original size:20 final size:21
Alignment explanation
Indices: 104879390--104879429 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
104879380 TTACACTTAT
104879390 TAAAGA-AAAATTAATTTTTA
1 TAAAGAGAAAATTAATTTTTA
* *
104879410 TAAAGAGTAAATTAGTTTTT
1 TAAAGAGAAAATTAATTTTT
104879430 TTTGTTAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.42
Consensus pattern (21 bp):
TAAAGAGAAAATTAATTTTTA
Found at i:104888293 original size:21 final size:20
Alignment explanation
Indices: 104888263--104888302 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
104888253 GAAATGATAT
*
104888263 ATTAAATATTTTTTATCGAA
1 ATTAAATATTTATTATCGAA
104888283 ATTAAGATATTTATTATCGA
1 ATTAA-ATATTTATTATCGA
104888303 TAATAATGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.47
Consensus pattern (20 bp):
ATTAAATATTTATTATCGAA
Found at i:104890478 original size:23 final size:21
Alignment explanation
Indices: 104890438--104890481 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
104890428 TATATAATAA
104890438 ATATTTTTATAATATATTATT
1 ATATTTTTATAATATATTATT
*
104890459 ATATTTTTTTAATAAGTATTATT
1 ATATTTTTATAAT-A-TATTATT
104890482 TTGTGATTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 12 0.60
22 1 0.05
23 7 0.35
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (21 bp):
ATATTTTTATAATATATTATT
Found at i:104898642 original size:12 final size:12
Alignment explanation
Indices: 104898625--104898677 Score: 54
Period size: 12 Copynumber: 4.5 Consensus size: 12
104898615 CTTAGGGTTC
104898625 TTTTTAATTTTG
1 TTTTTAATTTTG
***
104898637 TTTTTAATAAAG
1 TTTTTAATTTTG
104898649 -TTTTAATTTTG
1 TTTTTAATTTTG
**
104898660 TTTTTGTTTTTG
1 TTTTTAATTTTG
104898672 TTTTTA
1 TTTTTA
104898678 GCCTGCTTTG
Statistics
Matches: 31, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
11 8 0.26
12 23 0.74
ACGTcount: A:0.19, C:0.00, G:0.09, T:0.72
Consensus pattern (12 bp):
TTTTTAATTTTG
Found at i:104905064 original size:37 final size:37
Alignment explanation
Indices: 104905023--104905097 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
104905013 ACACATTCTT
*
104905023 TATTCTCGTCAGATCAATCTCACATAAATAATATATA
1 TATTCTCGTCAGATAAATCTCACATAAATAATATATA
104905060 TATTCTCGTCAGATAAATCTCACATAAATAATATATA
1 TATTCTCGTCAGATAAATCTCACATAAATAATATATA
104905097 T
1 T
104905098 CACATACCTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (37 bp):
TATTCTCGTCAGATAAATCTCACATAAATAATATATA
Found at i:104909504 original size:79 final size:79
Alignment explanation
Indices: 104909411--104909563 Score: 243
Period size: 79 Copynumber: 1.9 Consensus size: 79
104909401 GCAGTTGAAC
* * * *
104909411 TTTTTTTAAACATATTTTTATGTTAGAAAAATTATATTTTCCCCAAAGAGCTGAGTTAGGAATGA
1 TTTTTTTAAACATATTTTTATGTTAGAAAAATTACATTTTCCCAAAAGAGCTGAATTAAGAATGA
104909476 ATTTAATTGTTGAG
66 ATTTAATTGTTGAG
* * *
104909490 TTTTTTTTAACATATTTTTATGTTAGAAAAATTACATTTTCCCAAAAGAGGTTAATTAAGAATGA
1 TTTTTTTAAACATATTTTTATGTTAGAAAAATTACATTTTCCCAAAAGAGCTGAATTAAGAATGA
104909555 ATTTAATTG
66 ATTTAATTG
104909564 CGTTCAAGTA
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
79 67 1.00
ACGTcount: A:0.36, C:0.07, G:0.13, T:0.44
Consensus pattern (79 bp):
TTTTTTTAAACATATTTTTATGTTAGAAAAATTACATTTTCCCAAAAGAGCTGAATTAAGAATGA
ATTTAATTGTTGAG
Found at i:104910004 original size:19 final size:19
Alignment explanation
Indices: 104909960--104910005 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
104909950 TTAGGTTCAT
* *
104909960 ATATAAATTATTTTTTGTT
1 ATATAAATTATTTTGTGTG
104909979 A-ACTAAATTATTTTGTGTG
1 ATA-TAAATTATTTTGTGTG
104909998 ATATAAAT
1 ATATAAAT
104910006 ATAAAAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 1 0.04
19 21 0.91
20 1 0.04
ACGTcount: A:0.37, C:0.02, G:0.09, T:0.52
Consensus pattern (19 bp):
ATATAAATTATTTTGTGTG
Found at i:104914067 original size:21 final size:21
Alignment explanation
Indices: 104914041--104914081 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
104914031 ATCTGCTCAA
* *
104914041 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
104914062 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
104914082 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:104918293 original size:200 final size:200
Alignment explanation
Indices: 104917736--104919596 Score: 3120
Period size: 200 Copynumber: 9.4 Consensus size: 200
104917726 GAGAAGTAGG
* * * *
104917736 AGAAGAAGATTGGCGAGGTTGAAAGCGGAGATGGAAGAGATAAGGAAAGAGCAAAAATGCATAAA
1 AGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAGCAAAAAAGCATAAA
* *
104917801 AGAAGGGCAAAGGCAAGTTAGAAAAAGAATGGAAGCCATAGGCAAAGAATGCGAACAACTCAGCA
66 AGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATAGGCGAAGAATGCGAACAACTCAGCA
* *
104917866 AAGTAATCCGGCAAAGGGCTGTGACTTAAATCCGGTTGGCTATCATGTTCAACATCGTCAAGGCT
131 AAGTAATCCGGCAAAGGGCTGTTACTCAAATCCGGTTGGCTATCATGTTCAACATCGTCAAGGCT
104917931 CGAGA
196 CGAGA
*
104917936 AGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAGAAAAAAAAGCATAA
1 AGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAG-CAAAAAAGCATAA
104918001 AAGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATAGGCGAAGAATGCGAACAACTCAGC
65 AAGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATAGGCGAAGAATGCGAACAACTCAGC
* *
104918066 AAAGTAATCCGGCAAAGGGCCGTTACTCAAATCTGGTTGGCTATCATGTTCAACATCGTCAAGGC
130 AAAGTAATCCGGCAAAGGGCTGTTACTCAAATCCGGTTGGCTATCATGTTCAACATCGTCAAGGC
104918131 TCGAGA
195 TCGAGA
*
104918137 AGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAGCACAAAAGCATAAA
1 AGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAGCAAAAAAGCATAAA
*
104918202 AGAAGGGAAAAGGCAAGTTCGAAAAAGAATGGAAGCCATAGGCGAAGAATGCGAACAACTCAGCA
66 AGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATAGGCGAAGAATGCGAACAACTCAGCA
104918267 AAGTAATCCGGCAAAGGGCTGTTACTCAAATCCGGTTGGCTATCATGTTCAACATCGTCAAGGCT
131 AAGTAATCCGGCAAAGGGCTGTTACTCAAATCCGGTTGGCTATCATGTTCAACATCGTCAAGGCT
104918332 CGAGA
196 CGAGA
* *
104918337 AGAAGAAGTTTGGCAAGGTTGAATGCAGAGATGGAAAAGATAAGGAAAGAGCAAAAAAGCATAAA
1 AGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAGCAAAAAAGCATAAA
104918402 AGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATAGGCGAAGAATGCGAACAACTCAGCA
66 AGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATAGGCGAAGAATGCGAACAACTCAGCA
* *
104918467 AAGTTATCTGGCAAAGGGCTGTTACTCAAATCCGGTTGGCTATCATGTTCAACATCGTCAAGGCT
131 AAGTAATCCGGCAAAGGGCTGTTACTCAAATCCGGTTGGCTATCATGTTCAACATCGTCAAGGCT
104918532 CGAGA
196 CGAGA
104918537 AGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAGCAAAAAAGCATAAA
1 AGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAGCAAAAAAGCATAAA
*
104918602 AGAAGGGCAAAGGCAAGTTCAAAAAAGAATGGAAGCCATAGGCGAAGAATGCGAACAACTCAGCA
66 AGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATAGGCGAAGAATGCGAACAACTCAGCA
* *
104918667 AAGTAATCCGGCAAACGGCTGTTACTCAAATTCGGTTGGCTATCATGTTCAACATCGTCAAGGCT
131 AAGTAATCCGGCAAAGGGCTGTTACTCAAATCCGGTTGGCTATCATGTTCAACATCGTCAAGGCT
104918732 CGAGA
196 CGAGA
104918737 AGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAGCAAAAAAGCATAAA
1 AGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAGCAAAAAAGCATAAA
104918802 AGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATAGGCGAAGAATGCGAACAACTCAGCA
66 AGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATAGGCGAAGAATGCGAACAACTCAGCA
* * * * *
104918867 AAATAATCCGGCAAACGGCTGTTACTCAAATCCGGTTGGCTTTCATGTTCAACATTGTCAAGTCT
131 AAGTAATCCGGCAAAGGGCTGTTACTCAAATCCGGTTGGCTATCATGTTCAACATCGTCAAGGCT
104918932 CGAGA
196 CGAGA
104918937 AGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAGCAAAAAAGCATAAA
1 AGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAGCAAAAAAGCATAAA
*
104919002 AGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATA---G--G--T--GAAGAA-T-----
66 AGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATAGGCGAAGAATGCGAACAACTCAGCA
*
104919052 -AGTAATCCGGCAAAGGGCTGTGACTCAAATCCGGTTGGCTATCATGTTCAACATCGTCAAGGCT
131 AAGTAATCCGGCAAAGGGCTGTTACTCAAATCCGGTTGGCTATCATGTTCAACATCGTCAAGGCT
104919116 CGAGA
196 CGAGA
*
104919121 AGAAGAAGTTTGGCGAGGTTGAATGCAGAAATGGAAGAGATAAGGAAAGAGCAAAAAAGCATAAA
1 AGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAGCAAAAAAGCATAAA
104919186 AGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATAGGCGAAGAATGCGAACAACTCAGCA
66 AGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATAGGCGAAGAATGCGAACAACTCAGCA
* * * *
104919251 AAGTAATCCGGCAAACGGCTATTACTCAAATCCGGTTGGCTTTCATGTTCAACATCGTCAAGTCT
131 AAGTAATCCGGCAAAGGGCTGTTACTCAAATCCGGTTGGCTATCATGTTCAACATCGTCAAGGCT
104919316 CGAGA
196 CGAGA
104919321 AGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAGCAAAAAAGCATAAA
1 AGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAGCAAAAAAGCATAAA
*
104919386 AGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATA---G--G--T--GAAGAA-T-----
66 AGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATAGGCGAAGAATGCGAACAACTCAGCA
* *
104919436 -AGTAATCCGGCAAAGGGCTGTGACTCAAATCCGGTTGGCTATCATGTTCAACATCCTCAAGGCT
131 AAGTAATCCGGCAAAGGGCTGTTACTCAAATCCGGTTGGCTATCATGTTCAACATCGTCAAGGCT
*
104919500 TGAGA
196 CGAGA
* * *
104919505 AGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAACAGATAAAGAAAGAGCAAAAAAGCATAGA
1 AGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAGCAAAAAAGCATAAA
104919570 AGAAGGGCAAAGGCAAGATTCAGAAAA
66 AGAAGGGCAAAGGCAAG-TTC-GAAAA
104919597 TATCGAACCT
Statistics
Matches: 1581, Mismatches: 61, Indels: 52
0.93 0.04 0.03
Matches are distributed among these distances:
184 308 0.19
185 3 0.00
186 5 0.00
187 1 0.00
189 1 0.00
190 2 0.00
191 11 0.01
193 7 0.00
194 1 0.00
195 2 0.00
197 2 0.00
200 1046 0.66
201 192 0.12
ACGTcount: A:0.41, C:0.15, G:0.28, T:0.16
Consensus pattern (200 bp):
AGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAGCAAAAAAGCATAAA
AGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATAGGCGAAGAATGCGAACAACTCAGCA
AAGTAATCCGGCAAAGGGCTGTTACTCAAATCCGGTTGGCTATCATGTTCAACATCGTCAAGGCT
CGAGA
Found at i:104919179 original size:184 final size:184
Alignment explanation
Indices: 104918870--104919596 Score: 1139
Period size: 184 Copynumber: 3.9 Consensus size: 184
104918860 CTCAGCAAAA
* * * *
104918870 TAATCCGGCAAACGGCTGTTACTCAAATCCGGTTGGCTTTCATGTTCAACATTGTCAAGTCTCGA
1 TAATCCGGCAAACGGCTGTGACTCAAATCCGGTTGGCTATCATGTTCAACATCGTCAAGGCTCGA
104918935 GAAGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAGCAAAAAAGCATA
66 GAAGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAGCAAAAAAGCATA
104919000 AAAGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATAGGTGAAGAATAG
131 AAAGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATAGGTGAAGAATAG
*
104919054 TAATCCGGCAAAGGGCTGTGACTCAAATCCGGTTGGCTATCATGTTCAACATCGTCAAGGCTCGA
1 TAATCCGGCAAACGGCTGTGACTCAAATCCGGTTGGCTATCATGTTCAACATCGTCAAGGCTCGA
*
104919119 GAAGAAGAAGTTTGGCGAGGTTGAATGCAGAAATGGAAGAGATAAGGAAAGAGCAAAAAAGCATA
66 GAAGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAGCAAAAAAGCATA
*
104919184 AAAGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATAGGCGAAGAATGCGAACAACTCAG
131 AAAGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATA---G--G--T--GAAGAA-T---
104919249 CAAAG
183 ---AG
* * * *
104919254 TAATCCGGCAAACGGCTATTACTCAAATCCGGTTGGCTTTCATGTTCAACATCGTCAAGTCTCGA
1 TAATCCGGCAAACGGCTGTGACTCAAATCCGGTTGGCTATCATGTTCAACATCGTCAAGGCTCGA
104919319 GAAGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAGCAAAAAAGCATA
66 GAAGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAGCAAAAAAGCATA
104919384 AAAGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATAGGTGAAGAATAG
131 AAAGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATAGGTGAAGAATAG
* * *
104919438 TAATCCGGCAAAGGGCTGTGACTCAAATCCGGTTGGCTATCATGTTCAACATCCTCAAGGCTTGA
1 TAATCCGGCAAACGGCTGTGACTCAAATCCGGTTGGCTATCATGTTCAACATCGTCAAGGCTCGA
* *
104919503 GAAGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAACAGATAAAGAAAGAGCAAAAAAGCATA
66 GAAGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAGCAAAAAAGCATA
*
104919568 GAAGAAGGGCAAAGGCAAGATTCAGAAAA
131 AAAGAAGGGCAAAGGCAAG-TTC-GAAAA
104919597 TATCGAACCT
Statistics
Matches: 501, Mismatches: 24, Indels: 34
0.90 0.04 0.06
Matches are distributed among these distances:
184 307 0.61
185 3 0.01
186 5 0.01
187 1 0.00
189 1 0.00
190 1 0.00
191 6 0.01
193 6 0.01
194 1 0.00
195 1 0.00
197 1 0.00
200 168 0.34
ACGTcount: A:0.40, C:0.15, G:0.28, T:0.18
Consensus pattern (184 bp):
TAATCCGGCAAACGGCTGTGACTCAAATCCGGTTGGCTATCATGTTCAACATCGTCAAGGCTCGA
GAAGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAGCAAAAAAGCATA
AAAGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATAGGTGAAGAATAG
Found at i:104919377 original size:384 final size:384
Alignment explanation
Indices: 104918668--104919596 Score: 1732
Period size: 384 Copynumber: 2.4 Consensus size: 384
104918658 AACTCAGCAA
* * *
104918668 AGTAATCCGGCAAACGGCTGTTACTCAAATTCGGTTGGCTATCATGTTCAACATCGTCAAGGCTC
1 AGTAATCCGGCAAAGGGCTGTGACTCAAATCCGGTTGGCTATCATGTTCAACATCGTCAAGGCTC
104918733 GAGAAGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAGCAAAAAAGCA
66 GAGAAGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAGCAAAAAAGCA
104918798 TAAAAGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATAGGCGAAGAATGCGAACAACTC
131 TAAAAGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATAGGCGAAGAATGCGAACAACTC
* *
104918863 AGCAAAATAATCCGGCAAACGGCTGTTACTCAAATCCGGTTGGCTTTCATGTTCAACATTGTCAA
196 AGCAAAATAATCCGGCAAACGGCTATTACTCAAATCCGGTTGGCTTTCATGTTCAACATCGTCAA
104918928 GTCTCGAGAAGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAGCAAAA
261 GTCTCGAGAAGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAGCAAAA
104918993 AAGCATAAAAGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATAGGTGAAGAAT
326 AAGCATAAAAGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATAGGTGAAGAAT
104919052 AGTAATCCGGCAAAGGGCTGTGACTCAAATCCGGTTGGCTATCATGTTCAACATCGTCAAGGCTC
1 AGTAATCCGGCAAAGGGCTGTGACTCAAATCCGGTTGGCTATCATGTTCAACATCGTCAAGGCTC
*
104919117 GAGAAGAAGAAGTTTGGCGAGGTTGAATGCAGAAATGGAAGAGATAAGGAAAGAGCAAAAAAGCA
66 GAGAAGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAGCAAAAAAGCA
104919182 TAAAAGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATAGGCGAAGAATGCGAACAACTC
131 TAAAAGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATAGGCGAAGAATGCGAACAACTC
*
104919247 AGCAAAGTAATCCGGCAAACGGCTATTACTCAAATCCGGTTGGCTTTCATGTTCAACATCGTCAA
196 AGCAAAATAATCCGGCAAACGGCTATTACTCAAATCCGGTTGGCTTTCATGTTCAACATCGTCAA
104919312 GTCTCGAGAAGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAGCAAAA
261 GTCTCGAGAAGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAGCAAAA
104919377 AAGCATAAAAGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATAGGTGAAGAAT
326 AAGCATAAAAGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATAGGTGAAGAAT
* *
104919436 AGTAATCCGGCAAAGGGCTGTGACTCAAATCCGGTTGGCTATCATGTTCAACATCCTCAAGGCTT
1 AGTAATCCGGCAAAGGGCTGTGACTCAAATCCGGTTGGCTATCATGTTCAACATCGTCAAGGCTC
* *
104919501 GAGAAGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAACAGATAAAGAAAGAGCAAAAAAGCA
66 GAGAAGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAGCAAAAAAGCA
*
104919566 TAGAAGAAGGGCAAAGGCAAGATTCAGAAAA
131 TAAAAGAAGGGCAAAGGCAAG-TTC-GAAAA
104919597 TATCGAACCT
Statistics
Matches: 530, Mismatches: 13, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
384 522 0.98
385 3 0.01
386 5 0.01
ACGTcount: A:0.40, C:0.15, G:0.28, T:0.17
Consensus pattern (384 bp):
AGTAATCCGGCAAAGGGCTGTGACTCAAATCCGGTTGGCTATCATGTTCAACATCGTCAAGGCTC
GAGAAGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAGCAAAAAAGCA
TAAAAGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATAGGCGAAGAATGCGAACAACTC
AGCAAAATAATCCGGCAAACGGCTATTACTCAAATCCGGTTGGCTTTCATGTTCAACATCGTCAA
GTCTCGAGAAGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAGCAAAA
AAGCATAAAAGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATAGGTGAAGAAT
Found at i:104927629 original size:20 final size:20
Alignment explanation
Indices: 104927604--104927653 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
104927594 TGGCTTAAAA
104927604 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
104927624 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
104927641 GTGGTAGTGGATT
1 TTGGTAGTGGATT
104927654 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:104932256 original size:20 final size:20
Alignment explanation
Indices: 104932231--104932280 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
104932221 TGGCTTAAAA
104932231 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
104932251 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
104932268 GTGGTAGTGGATT
1 TTGGTAGTGGATT
104932281 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:104954777 original size:2 final size:2
Alignment explanation
Indices: 104954770--104954804 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
104954760 AATAGATCTT
104954770 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
104954805 GTAAAGTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:104960242 original size:27 final size:27
Alignment explanation
Indices: 104960201--104960252 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
104960191 CCCTAAACGG
* *
104960201 ATCGAGCCTGTCAGGTAAGCACAACTA
1 ATCGAGCCTGACAGGCAAGCACAACTA
* *
104960228 ATCGTGCCTGACAGGCAGGCACAAC
1 ATCGAGCCTGACAGGCAAGCACAAC
104960253 ACCCTGCACA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.25, T:0.15
Consensus pattern (27 bp):
ATCGAGCCTGACAGGCAAGCACAACTA
Found at i:104960575 original size:107 final size:107
Alignment explanation
Indices: 104960463--104960676 Score: 403
Period size: 107 Copynumber: 2.0 Consensus size: 107
104960453 TTAAACAAAA
104960463 TATTAGTTTAACAAAACAATGATATGTTAAGTTAGAATAAGTTTTAAATAATAAAATTTCTAACA
1 TATTAGTTTAACAAAACAATGATATGTTAAGTTAGAATAAGTTTTAAATAATAAAATTTCTAACA
104960528 AAATTGTATTAAAATTTTTGTTAATTACTCT-ATAAAATTTTT
66 AAATTGTATTAAAATTTTT-TTAATTACTCTGATAAAATTTTT
*
104960570 TATTAGTTTAACAAAACAATGATATGTTAAGTTGGAATAAGTTTTAAATAATAAAATTTCTAACA
1 TATTAGTTTAACAAAACAATGATATGTTAAGTTAGAATAAGTTTTAAATAATAAAATTTCTAACA
104960635 AAATTGTATTAAAATTTTTTTAATTACTCTGATAAAATTTTT
66 AAATTGTATTAAAATTTTTTTAATTACTCTGATAAAATTTTT
104960677 GACGTGTTTT
Statistics
Matches: 105, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
106 11 0.10
107 94 0.90
ACGTcount: A:0.43, C:0.06, G:0.08, T:0.43
Consensus pattern (107 bp):
TATTAGTTTAACAAAACAATGATATGTTAAGTTAGAATAAGTTTTAAATAATAAAATTTCTAACA
AAATTGTATTAAAATTTTTTTAATTACTCTGATAAAATTTTT
Found at i:104967375 original size:21 final size:23
Alignment explanation
Indices: 104967350--104967395 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
104967340 ATGAAAATTG
104967350 TCTCGA-TC-GGTGTGCATAATA
1 TCTCGATTCTGGTGTGCATAATA
104967371 TCTCGATTCTTGGTGTGCATAATA
1 TCTCGATTC-TGGTGTGCATAATA
104967395 T
1 T
104967396 TGCTCATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 6 0.27
22 2 0.09
24 14 0.64
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.39
Consensus pattern (23 bp):
TCTCGATTCTGGTGTGCATAATA
Found at i:104967891 original size:5 final size:5
Alignment explanation
Indices: 104967881--104967924 Score: 88
Period size: 5 Copynumber: 8.8 Consensus size: 5
104967871 ATATTTCTCT
104967881 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTAT
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTAT
104967925 GCATGCACTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 39 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TTATA
Found at i:104975843 original size:18 final size:18
Alignment explanation
Indices: 104975820--104975891 Score: 117
Period size: 18 Copynumber: 4.0 Consensus size: 18
104975810 CCCAACTACT
*
104975820 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
104975838 GTATACGTAAATAGTACC
1 GTATACGTGAATAGTACC
*
104975856 ATATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
104975874 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
104975892 ATAAACGGTC
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 49 1.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.26
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:104975872 original size:36 final size:36
Alignment explanation
Indices: 104975821--104975894 Score: 130
Period size: 36 Copynumber: 2.1 Consensus size: 36
104975811 CCAACTACTG
104975821 TATACGTGAACAGTACCGTATACGTAAATAGTACCA
1 TATACGTGAACAGTACCGTATACGTAAATAGTACCA
* *
104975857 TATACGTGAATAGTACCGTATACGTGAATAGTACCA
1 TATACGTGAACAGTACCGTATACGTAAATAGTACCA
104975893 TA
1 TA
104975895 AACGGTCGTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.27
Consensus pattern (36 bp):
TATACGTGAACAGTACCGTATACGTAAATAGTACCA
Found at i:104985702 original size:23 final size:22
Alignment explanation
Indices: 104985676--104985724 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
104985666 GTTTTTGGTT
104985676 TTTTGGAGAAGGATTGTTCTTTG
1 TTTTGGAGAAGG-TTGTTCTTTG
* * *
104985699 TTTTGGAGGAGGTTTTTTTTTG
1 TTTTGGAGAAGGTTGTTCTTTG
104985721 TTTT
1 TTTT
104985725 TTGGAGGTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.12, C:0.02, G:0.29, T:0.57
Consensus pattern (22 bp):
TTTTGGAGAAGGTTGTTCTTTG
Found at i:104985702 original size:24 final size:24
Alignment explanation
Indices: 104985673--104985730 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
104985663 TGGGTTTTTG
104985673 GTTTTTTGGAGAAGGATTGTTCTTT
1 GTTTTTTGGAGAAGG-TTGTTCTTT
* * *
104985698 G--TTTTGGAGGAGGTTTTTTTTT
1 GTTTTTTGGAGAAGGTTGTTCTTT
104985720 GTTTTTTGGAG
1 GTTTTTTGGAG
104985731 GTGTTTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
22 8 0.29
23 11 0.39
24 8 0.29
25 1 0.04
ACGTcount: A:0.12, C:0.02, G:0.31, T:0.55
Consensus pattern (24 bp):
GTTTTTTGGAGAAGGTTGTTCTTT
Found at i:104985725 original size:23 final size:23
Alignment explanation
Indices: 104985675--104985750 Score: 73
Period size: 24 Copynumber: 3.2 Consensus size: 23
104985665 GGTTTTTGGT
* * *
104985675 TTTTTGGAGAAGGATTGTTCTTTG
1 TTTTTGGAGGAGG-TTTTTTTTTG
104985699 -TTTTGGAGGAGGTTTTTTTTTG
1 TTTTTGGAGGAGGTTTTTTTTTG
* *
104985721 TTTTTTGGAGGTGTTTTTTTTTTTG
1 -TTTTTGGAGGAG-GTTTTTTTTTG
104985746 TTTTT
1 TTTTT
104985751 TTGGAAAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
22 8 0.18
23 11 0.25
24 15 0.34
25 10 0.23
ACGTcount: A:0.09, C:0.01, G:0.26, T:0.63
Consensus pattern (23 bp):
TTTTTGGAGGAGGTTTTTTTTTG
Found at i:104986097 original size:3 final size:3
Alignment explanation
Indices: 104986083--104986168 Score: 60
Period size: 3 Copynumber: 29.3 Consensus size: 3
104986073 GAGCTTTGTT
* *
104986083 TTA TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
104986127 TT- TCTCA TGTA TATA TTA TT- TT- TTA -TA TTA TTA TTA -TA TTA T
1 TTA T-T-A T-TA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
104986169 ATATGCCCTC
Statistics
Matches: 68, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
2 12 0.18
3 48 0.71
4 6 0.09
5 2 0.03
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:104986125 original size:18 final size:18
Alignment explanation
Indices: 104986083--104986172 Score: 83
Period size: 18 Copynumber: 4.7 Consensus size: 18
104986073 GAGCTTTGTT
*
104986083 TTATTATTTTATTATTTTTA
1 TTATTA-TTTA-TATTATTA
*
104986103 CTATTATTTATATTATTA
1 TTATTATTTATATTATTA
*
104986121 TTATTATTTCTCATGTATATA
1 TTATTATTTAT-AT-TAT-TA
*
104986142 TTATTTTTTATATTATTA
1 TTATTATTTATATTATTA
104986160 TTA-TATTATATAT
1 TTATTATT-TATAT
104986173 GCCCTCTCCA
Statistics
Matches: 59, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
17 3 0.05
18 26 0.44
19 9 0.15
20 10 0.17
21 11 0.19
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (18 bp):
TTATTATTTATATTATTA
Found at i:104986274 original size:12 final size:12
Alignment explanation
Indices: 104986246--104986280 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
104986236 TAACTACTAT
*
104986246 TATTATATATATG
1 TATTAT-TATTTG
104986259 TATTATTATTTG
1 TATTATTATTTG
104986271 TATTATTATT
1 TATTATTATT
104986281 ATTATCACCC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 15 0.71
13 6 0.29
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (12 bp):
TATTATTATTTG
Found at i:104986410 original size:18 final size:19
Alignment explanation
Indices: 104986374--104986430 Score: 66
Period size: 17 Copynumber: 3.1 Consensus size: 19
104986364 ACTATTACTA
*
104986374 TTATATATTAGTGTATATTT
1 TTATATA-TAGTATATATTT
*
104986394 TTATGTATA-TATATA-TT
1 TTATATATAGTATATATTT
104986411 TTATATATAGTAT-TATTT
1 TTATATATAGTATATATTT
104986429 TT
1 TT
104986431 TATTACTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
17 12 0.38
18 12 0.38
19 2 0.06
20 6 0.19
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (19 bp):
TTATATATAGTATATATTT
Found at i:104986530 original size:12 final size:12
Alignment explanation
Indices: 104986513--104986542 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
104986503 GTATTTCTAT
104986513 TATATACATATA
1 TATATACATATA
*
104986525 TATATACATTTA
1 TATATACATATA
104986537 TATATA
1 TATATA
104986543 GTATTATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (12 bp):
TATATACATATA
Found at i:104994050 original size:2 final size:2
Alignment explanation
Indices: 104994043--104994067 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
104994033 AATAGATCTT
104994043 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
104994068 GTAAAGTTAT
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:104998396 original size:21 final size:21
Alignment explanation
Indices: 104998370--104998410 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
104998360 AGACGAGCAA
* *
104998370 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
104998391 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
104998411 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:105003996 original size:27 final size:27
Alignment explanation
Indices: 105003955--105004006 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
105003945 CCCTAAACGG
* *
105003955 ATCGAGCCTGTCAGGTAAGCACAACTA
1 ATCGAGCCTGACAGGCAAGCACAACTA
* *
105003982 ATCGTGCCTGACAGGCAGGCACAAC
1 ATCGAGCCTGACAGGCAAGCACAAC
105004007 ACCCTGCACA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.25, T:0.15
Consensus pattern (27 bp):
ATCGAGCCTGACAGGCAAGCACAACTA
Found at i:105004329 original size:107 final size:107
Alignment explanation
Indices: 105004217--105004430 Score: 403
Period size: 107 Copynumber: 2.0 Consensus size: 107
105004207 TTAAACAAAA
105004217 TATTAGTTTAACAAAACAATGATATGTTAAGTTAGAATAAGTTTTAAATAATAAAATTTCTAACA
1 TATTAGTTTAACAAAACAATGATATGTTAAGTTAGAATAAGTTTTAAATAATAAAATTTCTAACA
105004282 AAATTGTATTAAAATTTTTGTTAATTACTCT-ATAAAATTTTT
66 AAATTGTATTAAAATTTTT-TTAATTACTCTGATAAAATTTTT
*
105004324 TATTAGTTTAACAAAACAATGATATGTTAAGTTGGAATAAGTTTTAAATAATAAAATTTCTAACA
1 TATTAGTTTAACAAAACAATGATATGTTAAGTTAGAATAAGTTTTAAATAATAAAATTTCTAACA
105004389 AAATTGTATTAAAATTTTTTTAATTACTCTGATAAAATTTTT
66 AAATTGTATTAAAATTTTTTTAATTACTCTGATAAAATTTTT
105004431 GACGTGTTTT
Statistics
Matches: 105, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
106 11 0.10
107 94 0.90
ACGTcount: A:0.43, C:0.06, G:0.08, T:0.43
Consensus pattern (107 bp):
TATTAGTTTAACAAAACAATGATATGTTAAGTTAGAATAAGTTTTAAATAATAAAATTTCTAACA
AAATTGTATTAAAATTTTTTTAATTACTCTGATAAAATTTTT
Found at i:105006949 original size:17 final size:17
Alignment explanation
Indices: 105006927--105006960 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
105006917 ATCCACTAAT
*
105006927 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
105006944 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
105006961 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:105011588 original size:17 final size:17
Alignment explanation
Indices: 105011566--105011599 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
105011556 ATCCACTAAT
*
105011566 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
105011583 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
105011600 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:105016234 original size:21 final size:23
Alignment explanation
Indices: 105016209--105016254 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
105016199 ATGAAAATTG
105016209 TCTCGA-TC-GGTGTGCATAATA
1 TCTCGATTCTGGTGTGCATAATA
105016230 TCTCGATTCTTGGTGTGCATAATA
1 TCTCGATTC-TGGTGTGCATAATA
105016254 T
1 T
105016255 TGCTCATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 6 0.27
22 2 0.09
24 14 0.64
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.39
Consensus pattern (23 bp):
TCTCGATTCTGGTGTGCATAATA
Found at i:105016750 original size:5 final size:5
Alignment explanation
Indices: 105016740--105016773 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
105016730 ATATTTCTCT
105016740 TTATA TTATA TTATA TTATA TTATA TTATA TTAT
1 TTATA TTATA TTATA TTATA TTATA TTATA TTAT
105016774 GCATGCACTA
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:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TTATA
Found at i:105032027 original size:21 final size:21
Alignment explanation
Indices: 105032001--105032041 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
105031991 AGACGAGCAA
* *
105032001 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
105032022 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
105032042 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:105043585 original size:13 final size:13
Alignment explanation
Indices: 105043567--105043596 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
105043557 TTAAAGATGA
105043567 TAAAATTTTCGTC
1 TAAAATTTTCGTC
*
105043580 TAAAATTTTCGTT
1 TAAAATTTTCGTC
105043593 TAAA
1 TAAA
105043597 TTCTTTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.47
Consensus pattern (13 bp):
TAAAATTTTCGTC
Found at i:105053863 original size:21 final size:21
Alignment explanation
Indices: 105053837--105053877 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
105053827 ATCTGCTCAA
* *
105053837 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
105053858 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
105053878 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:105057024 original size:21 final size:21
Alignment explanation
Indices: 105056985--105057025 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
105056975 ATAATTGTTT
105056985 TAAATTTTTATTATATAAAAG
1 TAAATTTTTATTATATAAAAG
*
105057006 TAAATATTTTA-TATTTAAAA
1 TAAAT-TTTTATTATATAAAA
105057026 TAATGAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
TAAATTTTTATTATATAAAAG
Found at i:105057980 original size:13 final size:13
Alignment explanation
Indices: 105057962--105057987 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
105057952 ATATAAAGAA
105057962 ATATGTATTTATT
1 ATATGTATTTATT
105057975 ATATGTATTTATT
1 ATATGTATTTATT
105057988 TAATTATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
ATATGTATTTATT
Found at i:105060110 original size:3 final size:3
Alignment explanation
Indices: 105060102--105060137 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
105060092 TAATGTATAT
105060102 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
105060138 CTACTACTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:105063129 original size:16 final size:17
Alignment explanation
Indices: 105063108--105063139 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
105063098 CTTTTTATAT
105063108 ATTTTTTT-AAATTTTA
1 ATTTTTTTAAAATTTTA
105063124 ATTTTTTTAAAATTTT
1 ATTTTTTTAAAATTTT
105063140 TATAAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTTAAAATTTTA
Found at i:105063138 original size:27 final size:28
Alignment explanation
Indices: 105063099--105063151 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
105063089 TTTTATAAAC
* * *
105063099 TTTTTATATATTTTTTTAAATTTTAATT
1 TTTTTATAAATTTTTATAAAATTTAATT
105063127 TTTTTA-AAATTTTTATAAAATTTAA
1 TTTTTATAAATTTTTATAAAATTTAA
105063152 ATTATTTGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 16 0.73
28 6 0.27
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (28 bp):
TTTTTATAAATTTTTATAAAATTTAATT
Found at i:105067317 original size:14 final size:17
Alignment explanation
Indices: 105067279--105067314 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
105067269 TAAAATTATT
*
105067279 TTATAAAAAAAAATGAA
1 TTATAGAAAAAAATGAA
105067296 TTATAGAAAAAAA-GAA
1 TTATAGAAAAAAATGAA
105067312 TTA
1 TTA
105067315 GAAGTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.25
Consensus pattern (17 bp):
TTATAGAAAAAAATGAA
Found at i:105067914 original size:41 final size:39
Alignment explanation
Indices: 105067867--105067946 Score: 97
Period size: 39 Copynumber: 2.0 Consensus size: 39
105067857 ACTAATATTT
* *
105067867 TACAAAAATGATCAATTTATTTTTTTATCTAAAAATACTAA
1 TACAAAAATGATC-A-TAATATTTTTATCTAAAAATACTAA
** *
105067908 TACAAAAATTTTCATAATATTTTTATCTAAAAATTCTAA
1 TACAAAAATGATCATAATATTTTTATCTAAAAATACTAA
105067947 ATAAAACCCA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
39 22 0.65
40 1 0.03
41 11 0.32
ACGTcount: A:0.46, C:0.10, G:0.01, T:0.42
Consensus pattern (39 bp):
TACAAAAATGATCATAATATTTTTATCTAAAAATACTAA
Found at i:105085734 original size:39 final size:40
Alignment explanation
Indices: 105085680--105085759 Score: 144
Period size: 39 Copynumber: 2.0 Consensus size: 40
105085670 TCAAAAAACA
105085680 TGAGAATTCATATTATACACGTAAATGGC-TCAGAGAGGT
1 TGAGAATTCATATTATACACGTAAATGGCATCAGAGAGGT
*
105085719 TGAGAATTCATATTATACATGTAAATGGCATCAGAGAGGT
1 TGAGAATTCATATTATACACGTAAATGGCATCAGAGAGGT
105085759 T
1 T
105085760 TAAATATGTA
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
39 28 0.72
40 11 0.28
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (40 bp):
TGAGAATTCATATTATACACGTAAATGGCATCAGAGAGGT
Found at i:105088489 original size:39 final size:40
Alignment explanation
Indices: 105088435--105088512 Score: 115
Period size: 41 Copynumber: 1.9 Consensus size: 40
105088425 GAGAAACACG
*
105088435 TAACATTCAGAAAAAC-AGATTACACAA-CTACAATCAACA
1 TAACATTCAGAAAAACAAGACTACACAATC-ACAATCAACA
105088474 TAACATTCAGAAAAACAAAGACTACACAATCACAATCAA
1 TAACATTCAGAAAAAC-AAGACTACACAATCACAATCAA
105088513 TCCAGGTCAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
39 16 0.46
41 18 0.51
42 1 0.03
ACGTcount: A:0.55, C:0.23, G:0.05, T:0.17
Consensus pattern (40 bp):
TAACATTCAGAAAAACAAGACTACACAATCACAATCAACA
Found at i:105089340 original size:20 final size:21
Alignment explanation
Indices: 105089312--105089350 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
105089302 TCATGAATAA
105089312 AAAGCAAAAGAT-TCTTTTCT
1 AAAGCAAAAGATATCTTTTCT
*
105089332 AAAGTAAAAGATATCTTTT
1 AAAGCAAAAGATATCTTTT
105089351 TTTATTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.36
Consensus pattern (21 bp):
AAAGCAAAAGATATCTTTTCT
Found at i:105090780 original size:21 final size:21
Alignment explanation
Indices: 105090756--105090795 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
105090746 CCAATTTTCA
105090756 TTTTCTTCTTTT-ATTTTTTGC
1 TTTTCTT-TTTTGATTTTTTGC
*
105090777 TTTTGTTTTTTGATTTTTT
1 TTTTCTTTTTTGATTTTTT
105090796 TTAAAGTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.05, C:0.07, G:0.07, T:0.80
Consensus pattern (21 bp):
TTTTCTTTTTTGATTTTTTGC
Found at i:105099314 original size:17 final size:18
Alignment explanation
Indices: 105099283--105099318 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
105099273 TTAATCATCG
105099283 ATTTTTTATTGAATTTTA
1 ATTTTTTATTGAATTTTA
105099301 ATTTTTTATT-AATTTTA
1 ATTTTTTATTGAATTTTA
105099318 A
1 A
105099319 ACAATTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (18 bp):
ATTTTTTATTGAATTTTA
Found at i:105103954 original size:61 final size:62
Alignment explanation
Indices: 105103841--105103959 Score: 177
Period size: 61 Copynumber: 1.9 Consensus size: 62
105103831 AAAAATCACT
* * * *
105103841 ACCACCACCATCGCGAAGCATCAGTTTCAAGAGCACAGAAACCAGTCCTTTCTAATTAGATC
1 ACCACCACCATCGCAAAGCACCAGTTTCAAGAGCACAAAAACCAGTCATTTCTAATTAGATC
* *
105103903 ACCACCACCATTGCAAAGCACCAG-TTCATGAGCACAAAAACCAGTCATTTCTAATTA
1 ACCACCACCATCGCAAAGCACCAGTTTCAAGAGCACAAAAACCAGTCATTTCTAATTA
105103960 TAATCTGGAT
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
61 30 0.59
62 21 0.41
ACGTcount: A:0.36, C:0.30, G:0.13, T:0.21
Consensus pattern (62 bp):
ACCACCACCATCGCAAAGCACCAGTTTCAAGAGCACAAAAACCAGTCATTTCTAATTAGATC
Found at i:105104824 original size:22 final size:23
Alignment explanation
Indices: 105104796--105104849 Score: 74
Period size: 22 Copynumber: 2.4 Consensus size: 23
105104786 TGGAATAGAG
105104796 TTAACATTTACTATTTAA-AAAA
1 TTAACATTTACTATTTAACAAAA
* *
105104818 TTAACATTTATTATTTAACAAAC
1 TTAACATTTACTATTTAACAAAA
*
105104841 TTAATATTT
1 TTAACATTT
105104850 TTAAAGTCCT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 17 0.61
23 11 0.39
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.46
Consensus pattern (23 bp):
TTAACATTTACTATTTAACAAAA
Found at i:105108649 original size:4 final size:4
Alignment explanation
Indices: 105108634--105108720 Score: 133
Period size: 4 Copynumber: 22.0 Consensus size: 4
105108624 TGCCATCACA
* *
105108634 ACAT ATAT ACAT ACAT -CAA ACAT CACA- ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT -ACAT ACAT ACAT ACAT ACAT ACAT
105108681 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
105108721 CAAACACCAG
Statistics
Matches: 76, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
3 5 0.07
4 68 0.89
5 3 0.04
ACGTcount: A:0.51, C:0.25, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:105120435 original size:25 final size:25
Alignment explanation
Indices: 105120401--105120451 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
105120391 ATCTTAGGTC
105120401 ATATGTCTTATATAAATATATAATA
1 ATATGTCTTATATAAATATATAATA
105120426 ATATGTCTTATATAAATATATAATA
1 ATATGTCTTATATAAATATATAATA
105120451 A
1 A
105120452 AAAAAGCACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (25 bp):
ATATGTCTTATATAAATATATAATA
Found at i:105122140 original size:16 final size:16
Alignment explanation
Indices: 105122118--105122174 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
105122108 AAGAGAATAT
105122118 ATTTTCTTTCTTTCTA
1 ATTTTCTTTCTTTCTA
* * *
105122134 TTTTTCTACTCATTC-A
1 ATTTTCT-TTCTTTCTA
*
105122150 ATTTTCTATCTTTCTA
1 ATTTTCTTTCTTTCTA
105122166 ATTTTCTTT
1 ATTTTCTTT
105122175 AATGTAAAAC
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
15 5 0.16
16 22 0.69
17 5 0.16
ACGTcount: A:0.16, C:0.19, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTTTCTTTCTTTCTA
Found at i:105127332 original size:28 final size:29
Alignment explanation
Indices: 105127287--105127344 Score: 91
Period size: 28 Copynumber: 2.0 Consensus size: 29
105127277 GATTGAATAA
105127287 GTAAAACTTGGGATCCCATTAATTTAGTT
1 GTAAAACTTGGGATCCCATTAATTTAGTT
* *
105127316 GTAAAA-TTGGTATCCCATTAGTTTAGTT
1 GTAAAACTTGGGATCCCATTAATTTAGTT
105127344 G
1 G
105127345 CTATGGAGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 21 0.78
29 6 0.22
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (29 bp):
GTAAAACTTGGGATCCCATTAATTTAGTT
Found at i:105127656 original size:57 final size:57
Alignment explanation
Indices: 105127568--105127682 Score: 203
Period size: 57 Copynumber: 2.0 Consensus size: 57
105127558 TCGCTTTGAA
* * *
105127568 ATGAGAAAAATGATTCGTTGTTTATACTATAATTGCTGTTACGATCAATGCTAGGAT
1 ATGAGAAAAATGATTCGTTGTTTATACTATAATGGCTGTTACGATCAACGCAAGGAT
105127625 ATGAGAAAAATGATTCGTTGTTTATACTATAATGGCTGTTACGATCAACGCAAGGAT
1 ATGAGAAAAATGATTCGTTGTTTATACTATAATGGCTGTTACGATCAACGCAAGGAT
105127682 A
1 A
105127683 GGTCTTTAAC
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.34
Consensus pattern (57 bp):
ATGAGAAAAATGATTCGTTGTTTATACTATAATGGCTGTTACGATCAACGCAAGGAT
Found at i:105131804 original size:12 final size:12
Alignment explanation
Indices: 105131787--105131821 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
105131777 CAAACGATCA
* *
105131787 AAGAAATGTGAG
1 AAGAAATATAAG
105131799 AAGAAATATAAG
1 AAGAAATATAAG
105131811 AAGAAATATAA
1 AAGAAATATAA
105131822 TAATTGCTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.63, C:0.00, G:0.20, T:0.17
Consensus pattern (12 bp):
AAGAAATATAAG
Found at i:105132415 original size:28 final size:28
Alignment explanation
Indices: 105132379--105132432 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
105132369 TTTATGTATA
*
105132379 TTTAGAATTTAGTCTTA-ATATTTTTATT
1 TTTAAAATTTAGT-TTATATATTTTTATT
*
105132407 TTTAAAATTTAGTTTATTTATTTTTA
1 TTTAAAATTTAGTTTATATATTTTTA
105132433 AAATTTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 3 0.13
28 20 0.87
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.63
Consensus pattern (28 bp):
TTTAAAATTTAGTTTATATATTTTTATT
Found at i:105132701 original size:25 final size:27
Alignment explanation
Indices: 105132647--105132702 Score: 71
Period size: 25 Copynumber: 2.1 Consensus size: 27
105132637 TAAACTAATT
* * *
105132647 AATTATATTATAAATATTGAAGTATCA
1 AATTATATTATAAATATTAAAATATAA
105132674 AATTATATTA-AAA-ATTAAAATATAA
1 AATTATATTATAAATATTAAAATATAA
105132699 AATT
1 AATT
105132703 TAAATCTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 13 0.50
26 3 0.12
27 10 0.38
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.39
Consensus pattern (27 bp):
AATTATATTATAAATATTAAAATATAA
Found at i:105146271 original size:15 final size:15
Alignment explanation
Indices: 105146235--105146271 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
105146225 AGATTTAATA
105146235 ATTATATTTTAATTT
1 ATTATATTTTAATTT
105146250 ATT-TATTTTAAATTT
1 ATTATATTTT-AATTT
105146265 -TTATATT
1 ATTATATT
105146272 CTTCTAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
ATTATATTTTAATTT
Found at i:105158875 original size:2 final size:2
Alignment explanation
Indices: 105158870--105158898 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
105158860 GTGTGTGTGT
105158870 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
105158899 GGCAAAATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:105162010 original size:4 final size:4
Alignment explanation
Indices: 105162001--105162032 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
105161991 GAAATTGGAT
105162001 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
105162033 ATAATAACAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:105185031 original size:32 final size:32
Alignment explanation
Indices: 105184995--105185055 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
105184985 CAAAATATTT
*
105184995 ATTAAATTATTCAAAAGTTTTTATTTAAGTTA
1 ATTAAATTATTCAAAAGCTTTTATTTAAGTTA
**
105185027 ATTAAATTATTTGAAAGCTTTTATTTAAG
1 ATTAAATTATTCAAAAGCTTTTATTTAAG
105185056 ATACAGAGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.39, C:0.03, G:0.08, T:0.49
Consensus pattern (32 bp):
ATTAAATTATTCAAAAGCTTTTATTTAAGTTA
Found at i:105189399 original size:15 final size:14
Alignment explanation
Indices: 105189376--105189405 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
105189366 TTACACACAC
105189376 AAAAAAAAAAAAGA
1 AAAAAAAAAAAAGA
105189390 AAAAAGAAAAAAAGA
1 AAAAA-AAAAAAAGA
105189405 A
1 A
105189406 TACAAGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAAGA
Found at i:105190790 original size:17 final size:17
Alignment explanation
Indices: 105190768--105190801 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
105190758 ATCCACTAAT
*
105190768 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
105190785 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
105190802 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:105195427 original size:17 final size:17
Alignment explanation
Indices: 105195405--105195438 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
105195395 ATCCACTAAT
*
105195405 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
105195422 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
105195439 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:105198254 original size:13 final size:13
Alignment explanation
Indices: 105198232--105198269 Score: 60
Period size: 12 Copynumber: 3.0 Consensus size: 13
105198222 ATTTGTATTT
105198232 TAAAATTATAAAA
1 TAAAATTATAAAA
*
105198245 TAAGATTAT-AAA
1 TAAAATTATAAAA
105198257 TAAAATTATAAAA
1 TAAAATTATAAAA
105198270 CTATTTGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (13 bp):
TAAAATTATAAAA
Found at i:105198510 original size:104 final size:104
Alignment explanation
Indices: 105198330--105198520 Score: 294
Period size: 104 Copynumber: 1.8 Consensus size: 104
105198320 AAATTCTTTT
* *
105198330 GAAGATACTTTAATTTCATCAAAAAATCATACCATCATTTGATATAACAATAAATTAATTGCTTG
1 GAAGATACGTTAATTTCATCAAAAAATCATACCACCATTTGATATAACAATAAATTAATTGCTTG
*
105198395 ATTTGTAAGAAATATTTAGTAATAGGGACAAACTCTATG
66 ATTAGTAAGAAATATTTAGTAATAGGGACAAACTCTATG
* * *
105198434 GAAGATACGTTAATTTCATCAAAAAATCATACGACCATTTGAT-TCAATAATAAATTCATTGCTT
1 GAAGATACGTTAATTTCATCAAAAAATCATACCACCATTTGATAT-AACAATAAATTAATTGCTT
* *
105198498 GATTAGTAAGAAATCTTTCGTAA
65 GATTAGTAAGAAATATTTAGTAA
105198521 CAAGGCAGGT
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
103 1 0.01
104 77 0.99
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.35
Consensus pattern (104 bp):
GAAGATACGTTAATTTCATCAAAAAATCATACCACCATTTGATATAACAATAAATTAATTGCTTG
ATTAGTAAGAAATATTTAGTAATAGGGACAAACTCTATG
Found at i:105204335 original size:24 final size:24
Alignment explanation
Indices: 105204303--105204351 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
105204293 TAACACAACT
105204303 CTCTCTTAAACTGTTACGTTATTA
1 CTCTCTTAAACTGTTACGTTATTA
105204327 CTCTCTTAAACTGTTACGTTATTA
1 CTCTCTTAAACTGTTACGTTATTA
105204351 C
1 C
105204352 ATAATTTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.22, G:0.08, T:0.45
Consensus pattern (24 bp):
CTCTCTTAAACTGTTACGTTATTA
Found at i:105220532 original size:114 final size:115
Alignment explanation
Indices: 105220330--105220557 Score: 332
Period size: 114 Copynumber: 2.0 Consensus size: 115
105220320 AAGTTTTCAT
* ** * *
105220330 GTGACTATTGTGAGAATACTTTTAAGTAGAAAATCGTGCAACAATTATATTTATGTAGCGCGACG
1 GTGACTATTGTGACAATACTTTTAAGTAGAAAATCACGCAACAATTACATTCATGTAGCGCGACG
*
105220395 ATTCTATTGTTCACATCTCTCTTGCTATTTATTTATTTGGTTAAGAAAAG
66 ATTCTATTATTCACATCTCTCTTGCTATTTATTTATTTGGTTAAGAAAAG
* *
105220445 GTGACTATTGTGACAATAC-TTTAAGTAGAAAATCACGCGACAATTACATTCATGTAGTGCGACG
1 GTGACTATTGTGACAATACTTTTAAGTAGAAAATCACGCAACAATTACATTCATGTAGCGCGACG
* * * * *
105220509 ATTTTATTATTCACATTTTTCTTGTTGTTTATTTATTTGGTTAAGAAAA
66 ATTCTATTATTCACATCTCTCTTGCTATTTATTTATTTGGTTAAGAAAA
105220558 AGGTAAAGCA
Statistics
Matches: 100, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
114 82 0.82
115 18 0.18
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.40
Consensus pattern (115 bp):
GTGACTATTGTGACAATACTTTTAAGTAGAAAATCACGCAACAATTACATTCATGTAGCGCGACG
ATTCTATTATTCACATCTCTCTTGCTATTTATTTATTTGGTTAAGAAAAG
Found at i:105224207 original size:23 final size:23
Alignment explanation
Indices: 105224181--105224274 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
105224171 AAGTTAGAAG
105224181 AGTGAAGAGACTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* * *
105224204 AGTGAAAAAACTTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAA
*
105224227 AGTGAAGAGACTTGAAGATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* *
105224250 AGTTAAGAGGCTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
105224273 AG
1 AG
105224275 ATACACACAT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.48, C:0.04, G:0.26, T:0.22
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAA
Found at i:105224600 original size:58 final size:58
Alignment explanation
Indices: 105224508--105224621 Score: 201
Period size: 58 Copynumber: 2.0 Consensus size: 58
105224498 CAACTACAAA
*
105224508 TTGGTATTAGAGCCTTGTTCGATCGAAATAAACAATTCTATTCCTCTTTCTTCCGTCT
1 TTGGTATCAGAGCCTTGTTCGATCGAAATAAACAATTCTATTCCTCTTTCTTCCGTCT
* *
105224566 TTGGTATCAGAGTCTTGTTCGATCGAAATGAACAATTCTATTCCTCTTTCTTCCGT
1 TTGGTATCAGAGCCTTGTTCGATCGAAATAAACAATTCTATTCCTCTTTCTTCCGT
105224622 TCCCCAATTA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 53 1.00
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.41
Consensus pattern (58 bp):
TTGGTATCAGAGCCTTGTTCGATCGAAATAAACAATTCTATTCCTCTTTCTTCCGTCT
Found at i:105228771 original size:23 final size:23
Alignment explanation
Indices: 105228745--105228838 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
105228735 AAGTTAGAAG
105228745 AGTGAAGAGACTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* * *
105228768 AGTGAAAAAACTTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAA
*
105228791 AGTGAAGAGACTTGAAGATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* *
105228814 AGTTAAGAGGCTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
105228837 AG
1 AG
105228839 ATACACACAT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.48, C:0.04, G:0.26, T:0.22
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAA
Found at i:105239348 original size:20 final size:20
Alignment explanation
Indices: 105239307--105239344 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
105239297 GGTTTAAAAA
*
105239307 TTTTAAATAATTATTTTCAT
1 TTTTAAATAATTATTCTCAT
*
105239327 TTTTTAATAATT-TTCTCA
1 TTTTAAATAATTATTCTCA
105239345 ATTTGATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTAAATAATTATTCTCAT
Found at i:105239436 original size:27 final size:27
Alignment explanation
Indices: 105239406--105239481 Score: 66
Period size: 27 Copynumber: 2.7 Consensus size: 27
105239396 TTTAATAACA
*
105239406 ATTTTAATATTTTTAATAATTAAATAT
1 ATTTTAATATTTTTAATAATTAAAAAT
* *
105239433 ATTTTACA-A-TTTTATGTATTTAAAAAT
1 ATTTTA-ATATTTTTA-ATAATTAAAAAT
*
105239460 ATTTTTTATGATTTTTAATAAT
1 A-TTTTAAT-ATTTTTAATAAT
105239482 ATTTTCATAA
Statistics
Matches: 37, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
26 5 0.14
27 18 0.49
28 5 0.14
29 4 0.11
30 5 0.14
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (27 bp):
ATTTTAATATTTTTAATAATTAAAAAT
Found at i:105239467 original size:21 final size:22
Alignment explanation
Indices: 105239442--105239486 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
105239432 TATTTTACAA
105239442 TTTTATG-TATTTAAAAATATT
1 TTTTATGATATTTAAAAATATT
* *
105239463 TTTTATGATTTTTAATAATATT
1 TTTTATGATATTTAAAAATATT
105239485 TT
1 TT
105239487 CATAATTGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (22 bp):
TTTTATGATATTTAAAAATATT
Found at i:105239473 original size:10 final size:10
Alignment explanation
Indices: 105239460--105239509 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
105239450 ATTTAAAAAT
*
105239460 ATTTTTTATG
1 ATTTTTTATA
*
105239470 ATTTTTAATA
1 ATTTTTTATA
*
105239480 ATATTTTCATA
1 AT-TTTTTATA
*
105239491 ATTGTTTATA
1 ATTTTTTATA
105239501 ATTTTTTAT
1 ATTTTTTAT
105239510 TTTGTCAACA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
10 24 0.73
11 9 0.27
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (10 bp):
ATTTTTTATA
Done.