Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 34 of 199
Found at i:13770545 original size:41 final size:41
Alignment explanation
Indices: 13770488--13770672 Score: 159
Period size: 41 Copynumber: 4.5 Consensus size: 41
13770478 AAACTATAAT
13770488 ATTACAATATTCATACAAAAAATTTATAATATTCATAC-AAA
1 ATTACAATATTCATACAAAAAA-TTATAATATTCATACAAAA
* * * * *
13770529 ATTACAATATTCATACAAAAAGTTACTAAT-CTAAAACTATAA
1 ATTACAATATTCATACAAAAAATTA-TAATATTCATAC-AAAA
* * * *
13770571 A-TACAA-ATTTAATTATAAAATAATTACAATATTCATAC-AAC
1 ATTACAATA-TTCA-TACAAAA-AATTATAATATTCATACAAAA
13770612 ATTACAATATTCAT--AAAAAATTATAATATTCATACAAAAA
1 ATTACAATATTCATACAAAAAATTATAATATTCATAC-AAAA
*
13770652 ATTTAAAATATTCATACAAAA
1 A-TTACAATATTCATACAAAA
13770673 TTCTAATCTA
Statistics
Matches: 112, Mismatches: 18, Indels: 26
0.72 0.12 0.17
Matches are distributed among these distances:
38 16 0.14
39 4 0.04
40 11 0.10
41 48 0.43
42 20 0.18
43 13 0.12
ACGTcount: A:0.55, C:0.12, G:0.01, T:0.33
Consensus pattern (41 bp):
ATTACAATATTCATACAAAAAATTATAATATTCATACAAAA
Found at i:13770714 original size:7 final size:7
Alignment explanation
Indices: 13770704--13770735 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
13770694 CTAAATATAG
*
13770704 ATAATTT
1 ATAATTA
13770711 ATAATTA
1 ATAATTA
13770718 ATAATTA
1 ATAATTA
13770725 ATAATTA
1 ATAATTA
13770732 ATAA
1 ATAA
13770736 CAAAAAATTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
ATAATTA
Found at i:13770874 original size:14 final size:14
Alignment explanation
Indices: 13770850--13770886 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 14
13770840 TTTTTTCTTT
13770850 CTTCTTCTTCTTCTC
1 CTTC-TCTTCTTCTC
13770865 CTTCTCTTCTTCTC
1 CTTCTCTTCTTCTC
13770879 CTTTCTCT
1 C-TTCTCT
13770887 CTTTTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (14 bp):
CTTCTCTTCTTCTC
Found at i:13771142 original size:10 final size:8
Alignment explanation
Indices: 13771113--13771145 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
13771103 ATTTTTTAAA
13771113 AAAATATT
1 AAAATATT
13771121 AAAATATT
1 AAAATATT
13771129 AAAATATT
1 AAAATATT
*
13771137 AAAAAATT
1 AAAATATT
13771145 A
1 A
13771146 TATTTTATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
AAAATATT
Found at i:13771167 original size:18 final size:19
Alignment explanation
Indices: 13771133--13771173 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
13771123 AATATTAAAA
*
13771133 TATTAAAAAATTATATT-T
1 TATTAAAAAAATATATTAT
13771151 TATTAAAAAAA-ATTATTAT
1 TATTAAAAAAATA-TATTAT
13771170 TATT
1 TATT
13771174 TTATTCATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 1 0.05
18 14 0.70
19 5 0.25
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TATTAAAAAAATATATTAT
Found at i:13771584 original size:2 final size:2
Alignment explanation
Indices: 13771577--13771627 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
13771567 TGTAAATATT
13771577 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
13771619 CA CA CA CA C
1 CA CA CA CA C
13771628 TACCAATCAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.51, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:13774081 original size:113 final size:114
Alignment explanation
Indices: 13773883--13774101 Score: 413
Period size: 113 Copynumber: 1.9 Consensus size: 114
13773873 CCATCAAGAA
*
13773883 ATCTATATTATAAGCTAAAATATTATAGAGGAGTATTTAAAGTCATGTCCCGAGTGCCTACCTGA
1 ATCTATATTATAAGCTAAAATATTATAGAGGAGTATTTAAAGTCATGACCCGAGTGCCTACCTGA
13773948 ATGTGCTTAAAAAGAACATTGACTCTCAGAGGCT-GTCATTAGAGGAGT
66 ATGTGCTTAAAAAGAACATTGACTCTCAGAGGCTCGTCATTAGAGGAGT
*
13773996 ATCTATATTATAAGCTAAAATATTATAGAGGAGTATTTCAAGTCATGACCCGAGTGCCTACCTGA
1 ATCTATATTATAAGCTAAAATATTATAGAGGAGTATTTAAAGTCATGACCCGAGTGCCTACCTGA
13774061 ATGTGCTTAAAAAGAACATTGACTCTCAGAGGCTCGTCATT
66 ATGTGCTTAAAAAGAACATTGACTCTCAGAGGCTCGTCATT
13774102 CCCATGCTTC
Statistics
Matches: 103, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
113 97 0.94
114 6 0.06
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.30
Consensus pattern (114 bp):
ATCTATATTATAAGCTAAAATATTATAGAGGAGTATTTAAAGTCATGACCCGAGTGCCTACCTGA
ATGTGCTTAAAAAGAACATTGACTCTCAGAGGCTCGTCATTAGAGGAGT
Found at i:13777273 original size:28 final size:29
Alignment explanation
Indices: 13777250--13777313 Score: 85
Period size: 28 Copynumber: 2.1 Consensus size: 29
13777240 ATATAATTAT
13777250 ATTATCTAAATTCAAAT-TAAATAATAAA
1 ATTATCTAAATTCAAATATAAATAATAAA
*
13777278 ATTATCTAAATTTAAATATAAAATATATAAA
1 ATTATCTAAATTCAAATAT-AAATA-ATAAA
13777309 TATTA
1 -ATTA
13777314 ATATAAAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 16 0.52
29 1 0.03
30 5 0.16
31 5 0.16
32 4 0.13
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (29 bp):
ATTATCTAAATTCAAATATAAATAATAAA
Found at i:13777293 original size:23 final size:23
Alignment explanation
Indices: 13777265--13777322 Score: 77
Period size: 21 Copynumber: 2.6 Consensus size: 23
13777255 CTAAATTCAA
*
13777265 ATTAAATAATAAAATTATCTAAAT
1 ATTAAAT-ATAAAATTATATAAAT
13777289 -TTAAATATAAAA-TATATAAAT
1 ATTAAATATAAAATTATATAAAT
13777310 ATT-AATATAAAAT
1 ATTAAATATAAAAT
13777323 ATTTTTAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
21 17 0.55
22 8 0.26
23 6 0.19
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (23 bp):
ATTAAATATAAAATTATATAAAT
Found at i:13782324 original size:21 final size:21
Alignment explanation
Indices: 13782300--13782348 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
13782290 CATTGTTTCT
* *
13782300 AATCTCACTGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
13782321 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
13782342 AATCTCA
1 AATCTCA
13782349 TCACCACCGC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.33, C:0.33, G:0.08, T:0.27
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:13782795 original size:25 final size:24
Alignment explanation
Indices: 13782761--13782808 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
13782751 ATGTATTAAA
* *
13782761 ATATTTTAATAGTTATATAATAAC
1 ATATTTTAATAATTAAATAATAAC
13782785 ATATATTTAATAATTAAATAATAA
1 ATAT-TTTAATAATTAAATAATAA
13782809 TTTGAATCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (24 bp):
ATATTTTAATAATTAAATAATAAC
Found at i:13785457 original size:20 final size:18
Alignment explanation
Indices: 13785434--13785472 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
13785424 CATAAAAAAT
13785434 ATTTCAATTAAAAAATGTAA
1 ATTTC-ATTAAAAAAT-TAA
*
13785454 ATTTCCTTAAAAAATTAA
1 ATTTCATTAAAAAATTAA
13785472 A
1 A
13785473 AAATGTAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 9 0.50
20 5 0.28
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.36
Consensus pattern (18 bp):
ATTTCATTAAAAAATTAA
Found at i:13788473 original size:5 final size:5
Alignment explanation
Indices: 13788465--13788527 Score: 54
Period size: 5 Copynumber: 12.6 Consensus size: 5
13788455 TTAAGTATAA
* * * * * * * *
13788465 ATATT ATATA ATATA ATATT AGATT AGATT ATAAT ATAAT ATAAT ATAAT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
13788515 ATATT ATATT ATA
1 ATATT ATATT ATA
13788528 AAATATAGAA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 52 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (5 bp):
ATATT
Found at i:13788483 original size:10 final size:10
Alignment explanation
Indices: 13788464--13788528 Score: 60
Period size: 10 Copynumber: 6.2 Consensus size: 10
13788454 GTTAAGTATA
*
13788464 AATATTATAT
1 AATATAATAT
13788474 AATATAATATT
1 AATATAATA-T
13788485 AGAT-TAGATTAT
1 A-ATATA-A-TAT
13788497 AATATAATAT
1 AATATAATAT
13788507 AATATAATAT
1 AATATAATAT
* *
13788517 ATTATATTAT
1 AATATAATAT
13788527 AA
1 AA
13788529 AATATAGAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
10 30 0.65
11 7 0.15
12 7 0.15
13 2 0.04
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (10 bp):
AATATAATAT
Found at i:13788533 original size:15 final size:15
Alignment explanation
Indices: 13788460--13788533 Score: 60
Period size: 15 Copynumber: 4.7 Consensus size: 15
13788450 AAAAGTTAAG
13788460 TATAA-ATATTATAT
1 TATAATATATTATAT
*
13788474 AATATAATATTAGATTAGAT
1 --TATAATA-T--ATTATAT
* *
13788494 TATAATATAATATAA
1 TATAATATATTATAT
13788509 TATAATATATTATAT
1 TATAATATATTATAT
*
13788524 TATAAAATAT
1 TATAATATAT
13788534 AGAAAAAGAG
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
15 26 0.55
16 5 0.11
17 2 0.04
18 8 0.17
20 6 0.13
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (15 bp):
TATAATATATTATAT
Found at i:13794738 original size:25 final size:26
Alignment explanation
Indices: 13794705--13794761 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
13794695 TATATATATT
* * *
13794705 ATAATAATAAATTAATGTATAATAAA
1 ATAATAATAAATAAATGAATAAAAAA
*
13794731 ATAA-AATAAGTAAATGAATAAAAAA
1 ATAATAATAAATAAATGAATAAAAAA
13794756 ATAATA
1 ATAATA
13794762 GAAAGCCAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 21 0.81
26 5 0.19
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (26 bp):
ATAATAATAAATAAATGAATAAAAAA
Found at i:13795219 original size:19 final size:20
Alignment explanation
Indices: 13795195--13795235 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
13795185 GAATTTAGGA
*
13795195 AAATATTGAATA-AAAATTG
1 AAATATTCAATATAAAATTG
*
13795214 AAATATTCAATATGAAATTG
1 AAATATTCAATATAAAATTG
13795234 AA
1 AA
13795236 TTGTGTTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.32
Consensus pattern (20 bp):
AAATATTCAATATAAAATTG
Found at i:13800269 original size:26 final size:27
Alignment explanation
Indices: 13800240--13800293 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 27
13800230 TGGTATCTAA
13800240 ACTTACATTTTTTTT-TCTAA-TTTGGT
1 ACTTACATTTTTTTTGTC-AATTTTGGT
*
13800266 ACTTAGATTTTTTTTGTCAATTTTGGT
1 ACTTACATTTTTTTTGTCAATTTTGGT
13800293 A
1 A
13800294 TTTAAACTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 16 0.64
27 9 0.36
ACGTcount: A:0.20, C:0.09, G:0.11, T:0.59
Consensus pattern (27 bp):
ACTTACATTTTTTTTGTCAATTTTGGT
Found at i:13812997 original size:30 final size:31
Alignment explanation
Indices: 13812963--13813033 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 31
13812953 TATAATTTGA
** *
13812963 TCATTGAACTATTTGAAAG-TTTTCCTTAAG
1 TCATTGAACTATTCAAAAGTTTTTACTTAAG
*
13812993 TCATTGAACTATTCAAAAGTTTTTATTTAAG
1 TCATTGAACTATTCAAAAGTTTTTACTTAAG
13813024 TCATTGAACT
1 TCATTGAACT
13813034 TTTTTTTTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 17 0.47
31 19 0.53
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.44
Consensus pattern (31 bp):
TCATTGAACTATTCAAAAGTTTTTACTTAAG
Found at i:13813397 original size:30 final size:30
Alignment explanation
Indices: 13813326--13813397 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 30
13813316 CCAATGACTT
* *
13813326 AAATAAAAACTTTTGAATAGTTTAGTGACC
1 AAATAAAAACTTTTGAATAGTTAAGTGACA
* * **
13813356 AAATTATAACTTTT-TTTAGTTAAGTGATCA
1 AAATAAAAACTTTTGAATAGTTAAGTGA-CA
13813386 AAATAAAAACTT
1 AAATAAAAACTT
13813398 ACCCATAGTT
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
29 10 0.30
30 23 0.70
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (30 bp):
AAATAAAAACTTTTGAATAGTTAAGTGACA
Found at i:13815180 original size:3 final size:3
Alignment explanation
Indices: 13815172--13815213 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
13815162 AAATAAACCC
13815172 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
13815214 TGAATGGAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:13823740 original size:41 final size:41
Alignment explanation
Indices: 13823683--13823773 Score: 155
Period size: 41 Copynumber: 2.2 Consensus size: 41
13823673 GCATAGTGCT
*
13823683 TAGCAGGCTTATTGCCGGTGAAACACTTCAGACTATATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTATATGTC
* *
13823724 TAGCAGGCTTAATGCCGGTGAAATATTTCAGACTATATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTATATGTC
13823765 TAGCAGGCT
1 TAGCAGGCT
13823774 AAGTGCTAGT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (41 bp):
TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTATATGTC
Found at i:13829522 original size:22 final size:22
Alignment explanation
Indices: 13829497--13829539 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
13829487 GCCTGCAGTG
13829497 CAAC-AAGCAACCAGCAGCAACT
1 CAACTAAG-AACCAGCAGCAACT
* *
13829519 CAACTCAGAAGCAGCAGCAAC
1 CAACTAAGAACCAGCAGCAAC
13829540 ACTGCTTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.44, C:0.35, G:0.16, T:0.05
Consensus pattern (22 bp):
CAACTAAGAACCAGCAGCAACT
Found at i:13832940 original size:12 final size:12
Alignment explanation
Indices: 13832923--13832962 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
13832913 ATTAACCATC
*
13832923 ATATATACATGT
1 ATATATACATAT
*
13832935 ATATATAAATAT
1 ATATATACATAT
13832947 ATATATACATAT
1 ATATATACATAT
13832959 ATAT
1 ATAT
13832963 TCTTAATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (12 bp):
ATATATACATAT
Found at i:13847517 original size:26 final size:26
Alignment explanation
Indices: 13847482--13847542 Score: 97
Period size: 26 Copynumber: 2.3 Consensus size: 26
13847472 TATAATTTTT
*
13847482 TTTTTATAAATAAATATATTATAACA-
1 TTTTTATAAACAAATATATTATAA-AG
13847508 TTTTTATAAACAAATATATTATAAAG
1 TTTTTATAAACAAATATATTATAAAG
13847534 TTTTTATAA
1 TTTTTATAA
13847543 TATGTTAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
25 1 0.03
26 32 0.97
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.48
Consensus pattern (26 bp):
TTTTTATAAACAAATATATTATAAAG
Found at i:13850621 original size:34 final size:34
Alignment explanation
Indices: 13850583--13850654 Score: 110
Period size: 34 Copynumber: 2.1 Consensus size: 34
13850573 ATCCTGGTAA
* *
13850583 ATTTTTT-TTAATGATTTTTTGTTTCTTCTTTTAG
1 ATTTTTTCTGAATGA-TTTTTGTTTCTTATTTTAG
13850617 ATTTTTTCTGAATGATTTTTGTTTCTTATTTTAG
1 ATTTTTTCTGAATGATTTTTGTTTCTTATTTTAG
13850651 ATTT
1 ATTT
13850655 ATGATCTTGA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
34 29 0.83
35 6 0.17
ACGTcount: A:0.17, C:0.06, G:0.10, T:0.68
Consensus pattern (34 bp):
ATTTTTTCTGAATGATTTTTGTTTCTTATTTTAG
Found at i:13873325 original size:3 final size:3
Alignment explanation
Indices: 13873317--13873341 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
13873307 CTTTCTCCAA
13873317 CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT C
13873342 CTTTGTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:13882722 original size:17 final size:16
Alignment explanation
Indices: 13882676--13882724 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
13882666 GAATTTATAA
*
13882676 GAATTTTTGAATTAAT
1 GAATTTTTGATTTAAT
* *
13882692 GAATTTTTTTATTTATT
1 GAA-TTTTTGATTTAAT
13882709 GAATTTTGTGATTTAA
1 GAATTTT-TGATTTAA
13882725 AAAGAATTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
16 7 0.27
17 19 0.73
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.57
Consensus pattern (16 bp):
GAATTTTTGATTTAAT
Found at i:13885827 original size:14 final size:15
Alignment explanation
Indices: 13885803--13885837 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
13885793 TACTTTAATC
13885803 ATGGATTAGTATTT-T
1 ATGG-TTAGTATTTAT
13885818 ATGGTTAGTATTTAT
1 ATGGTTAGTATTTAT
13885833 ATGGT
1 ATGGT
13885838 AATGTATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (15 bp):
ATGGTTAGTATTTAT
Found at i:13886103 original size:23 final size:23
Alignment explanation
Indices: 13886077--13886242 Score: 103
Period size: 23 Copynumber: 7.1 Consensus size: 23
13886067 ATAGAGTAAA
13886077 TGATTGTATATGCTGTCAAATTT
1 TGATTGTATATGCTGTCAAATTT
* * * *
13886100 TGA-TGTACAAATGCAGTCCAATTA
1 TGATTGT--ATATGCTGTCAAATTT
13886124 T-ATATGTATATGCTGTCAAATTT
1 TGAT-TGTATATGCTGTCAAATTT
* *
13886147 TGA-TGTATAAATG-TAGTCCAATTA
1 TGATTGTAT--ATGCT-GTCAAATTT
13886171 T-ATATGTATATGCTGTCAAATTT
1 TGAT-TGTATATGCTGTCAAATTT
* * * *
13886194 TGA-TGTACAAATGCAGTCCAATTA
1 TGATTGT--ATATGCTGTCAAATTT
13886218 T-ATATGTATATGCTGTCAAATTT
1 TGAT-TGTATATGCTGTCAAATTT
13886241 TG
1 TG
13886243 GTGTGAAAAA
Statistics
Matches: 106, Mismatches: 20, Indels: 33
0.67 0.13 0.21
Matches are distributed among these distances:
22 11 0.10
23 44 0.42
24 40 0.38
25 11 0.10
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.41
Consensus pattern (23 bp):
TGATTGTATATGCTGTCAAATTT
Found at i:13886150 original size:47 final size:47
Alignment explanation
Indices: 13886081--13886242 Score: 306
Period size: 47 Copynumber: 3.4 Consensus size: 47
13886071 AGTAAATGAT
13886081 TGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATATA
1 TGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATATA
* *
13886128 TGTATATGCTGTCAAATTTTGATGTATAAATGTAGTCCAATTATATA
1 TGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATATA
13886175 TGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATATA
1 TGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATATA
13886222 TGTATATGCTGTCAAATTTTG
1 TGTATATGCTGTCAAATTTTG
13886243 GTGTGAAAAA
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 111 1.00
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (47 bp):
TGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATATA
Found at i:13886291 original size:94 final size:93
Alignment explanation
Indices: 13886086--13886294 Score: 280
Period size: 94 Copynumber: 2.2 Consensus size: 93
13886076 ATGATTGTAT
13886086 ATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATATATGTATATGCTGTCAAATTTTGAT
1 ATGCTGTCAAA-TTTGATGTACAAATGCAGTCCAATTATATATGTATATGCTGTCAAATTTTGAT
* * *
13886151 GTATAAATGTAGTCCAATTATATATGTAT
65 GTAAAAATGTAGTCCAATTATATATATAA
*
13886180 ATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATATATGTATATGCTGTCAAATTTTGGT
1 ATGCTGTCAAA-TTTGATGTACAAATGCAGTCCAATTATATATGTATATGCTGTCAAATTTTGAT
* * *
13886245 GTGAAAAATGCTA-TCTAGTT-TGGTATATAA
65 GT-AAAAATG-TAGTCCAATTAT-ATATATAA
13886275 ATGCTGTTCAAA-TTGATGTA
1 ATGCTG-TCAAATTTGATGTA
13886295 TAATAATTGT
Statistics
Matches: 104, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
94 75 0.72
95 22 0.21
96 7 0.07
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.40
Consensus pattern (93 bp):
ATGCTGTCAAATTTGATGTACAAATGCAGTCCAATTATATATGTATATGCTGTCAAATTTTGATG
TAAAAATGTAGTCCAATTATATATATAA
Found at i:13886993 original size:46 final size:46
Alignment explanation
Indices: 13886856--13886994 Score: 217
Period size: 46 Copynumber: 3.0 Consensus size: 46
13886846 CATGGCAAAG
* *
13886856 TGTGAAACGTAGGTATGGTA-TTCCAGTGAAGAAAACCATACTGAGC
1 TGTGAAAAGTAGGTATGGTATTTCC-GTGAAGAAAACCATACTGAGT
* * *
13886902 TGTGAAAAGTAGGTATGGTATTTCGGTAAAGAAAACCATATTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCCGTGAAGAAAACCATACTGAGT
13886948 TGTGAAAAGTAGGTATGGTATTTCCGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCCGTGAAGAAAACCATACTGAGT
13886994 T
1 T
13886995 ATAGCCTTGT
Statistics
Matches: 84, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
46 81 0.96
47 3 0.04
ACGTcount: A:0.35, C:0.11, G:0.26, T:0.28
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTATTTCCGTGAAGAAAACCATACTGAGT
Found at i:13899760 original size:25 final size:24
Alignment explanation
Indices: 13899731--13899783 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 24
13899721 AATAATAAAA
*
13899731 TTTTAACAGTAGAAATAGTTTATAT
1 TTTTAACAGAAGAAATAGTTTAT-T
* * *
13899756 TTTTAATAGAAGAACTGGTTTATT
1 TTTTAACAGAAGAAATAGTTTATT
13899780 TTTT
1 TTTT
13899784 GATCTAATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.34, C:0.04, G:0.13, T:0.49
Consensus pattern (24 bp):
TTTTAACAGAAGAAATAGTTTATT
Found at i:13905627 original size:51 final size:50
Alignment explanation
Indices: 13905500--13905684 Score: 176
Period size: 51 Copynumber: 3.7 Consensus size: 50
13905490 AAAGTAATGG
* *
13905500 TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAATGATAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGAATGATAGA
* * * * * *
13905550 TCGCATGTGTAGTACTATGTGCAGGCTATTATGCGTACTGG-ATAGTTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGAAT-G-ATAGA
* * * * * *
13905601 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCAG-ATGGTAATGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGAATGAT-A-GA
* *
13905652 TCACATGTGTAGTACTATATGCAGGCTACTATG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATG
13905685 TGAACTGAAC
Statistics
Matches: 109, Mismatches: 22, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
49 3 0.03
50 38 0.35
51 68 0.62
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (50 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGAATGATAGA
Found at i:13905628 original size:101 final size:102
Alignment explanation
Indices: 13905500--13905684 Score: 284
Period size: 101 Copynumber: 1.8 Consensus size: 102
13905490 AAAGTAATGG
* * *
13905500 TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAATGAT-A-GGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAG-ATGATAATGGTCACATGTGTAGT
* *
13905563 ACTATGTGCAGGCTATTATGCGTACTGGATAGTTTCGA
65 ACTATATGCAGGCTACTATGCGTACTGGATAGTTTCGA
* *
13905601 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATGGTAATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATGATAATGGTCACATGTGTAGTA
13905666 CTATATGCAGGCTACTATG
66 CTATATGCAGGCTACTATG
13905685 TGAACTGAAC
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
100 4 0.05
101 39 0.52
102 32 0.43
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATGATAATGGTCACATGTGTAGTA
CTATATGCAGGCTACTATGCGTACTGGATAGTTTCGA
Found at i:13905744 original size:45 final size:45
Alignment explanation
Indices: 13905693--13905781 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
13905683 TGTGAACTGA
* * *
13905693 ACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCCACCGG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTAAATCCACCGG
13905738 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTAAATCCACCG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTAAATCCACCG
13905782 AGTATCTGTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.33
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGTGGTTGCTATGTGCTAAATCCACCGG
Found at i:13907746 original size:45 final size:45
Alignment explanation
Indices: 13907681--13907817 Score: 179
Period size: 45 Copynumber: 3.1 Consensus size: 45
13907671 GGGTGTTACA
* *
13907681 GATTCCACCGGGTATCATTGATTATAAAGGTGGTTGTTGTATGCT
1 GATTCCACCGGGTATCATTGATTATAAAGGTGGTTGCTATATGCT
* *
13907726 GATTCCACCGGGTA-CTATTGATTATGAAGGTGGTTGCTATGTGCT
1 GATTCCACCGGGTATC-ATTGATTATAAAGGTGGTTGCTATATGCT
* * * *
13907771 GATTCCACCGAGTATCATTGACTATAAGGGTGG-TGCTATGTGCT
1 GATTCCACCGGGTATCATTGATTATAAAGGTGGTTGCTATATGCT
13907815 GAT
1 GAT
13907818 CTACCGTGTA
Statistics
Matches: 82, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
44 15 0.18
45 66 0.80
46 1 0.01
ACGTcount: A:0.22, C:0.15, G:0.28, T:0.35
Consensus pattern (45 bp):
GATTCCACCGGGTATCATTGATTATAAAGGTGGTTGCTATATGCT
Found at i:13911342 original size:5 final size:5
Alignment explanation
Indices: 13911332--13911385 Score: 108
Period size: 5 Copynumber: 10.8 Consensus size: 5
13911322 GTATTAAGTA
13911332 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
13911382 TATA
1 TATA
13911386 ATAAAACAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 49 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:13912505 original size:40 final size:40
Alignment explanation
Indices: 13912374--13912509 Score: 118
Period size: 40 Copynumber: 3.4 Consensus size: 40
13912364 CTTCGAGTCG
* *
13912374 ATGAGACACTAGGTGTCAATTTACTATACTTCGGATTAAT-TCA
1 ATGAGACACTGGGTGCCAATTTA-T-TACTTCGGATT-ATCT-A
* * * * * *
13912417 ATAAGGCACTGGGTGTCAATTTA-T--TTCGGTTTAACTG
1 ATGAGACACTGGGTGCCAATTTATTACTTCGGATTATCTA
*
13912454 ATGAGACACTGGGTGCCAATTTATTACTTCGAATTATCTA
1 ATGAGACACTGGGTGCCAATTTATTACTTCGGATTATCTA
*
13912494 ATGAGGCACTGGGTGC
1 ATGAGACACTGGGTGC
13912510 TAAACTGGTG
Statistics
Matches: 75, Mismatches: 14, Indels: 11
0.75 0.14 0.11
Matches are distributed among these distances:
37 21 0.28
38 9 0.12
40 25 0.33
43 20 0.27
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (40 bp):
ATGAGACACTGGGTGCCAATTTATTACTTCGGATTATCTA
Found at i:13927589 original size:24 final size:25
Alignment explanation
Indices: 13927536--13927589 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
13927526 TTACTTGTTT
13927536 GAAA-TGAAAATTAAAAATTAAAAA
1 GAAATTGAAAATTAAAAATTAAAAA
* *
13927560 GCAATTGAAAA-TAAATATTAAAAA
1 GAAATTGAAAATTAAAAATTAAAAA
*
13927584 TAAATT
1 GAAATT
13927590 ATTCATTAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
24 19 0.76
25 6 0.24
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (25 bp):
GAAATTGAAAATTAAAAATTAAAAA
Found at i:13933415 original size:24 final size:24
Alignment explanation
Indices: 13933353--13933404 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
13933343 TTTCTAGAAG
* * *
13933353 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATTAATATAATAT
13933377 ATTTAGCATTTATTAATATAATAT
1 ATTTAGCATTTATTAATATAATAT
13933401 ATTT
1 ATTT
13933405 GACTTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52
Consensus pattern (24 bp):
ATTTAGCATTTATTAATATAATAT
Found at i:13936176 original size:15 final size:15
Alignment explanation
Indices: 13936156--13936210 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
13936146 AACATCTAAA
13936156 AATTCAATATTTTAC
1 AATTCAATATTTTAC
* * * *
13936171 AATTCACAACATCTAAA
1 AATT--CAATATTTTAC
13936188 AATTCAATATTTTAC
1 AATTCAATATTTTAC
13936203 AATTCAAT
1 AATTCAAT
13936211 CACTTTTTCA
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
15 19 0.63
17 11 0.37
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.38
Consensus pattern (15 bp):
AATTCAATATTTTAC
Found at i:13936185 original size:32 final size:32
Alignment explanation
Indices: 13936144--13936208 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
13936134 TTCAACATGA
13936144 ACAACATCTAAAAATTCAATATTTTACAATTC
1 ACAACATCTAAAAATTCAATATTTTACAATTC
13936176 ACAACATCTAAAAATTCAATATTTTACAATTC
1 ACAACATCTAAAAATTCAATATTTTACAATTC
13936208 A
1 A
13936209 ATCACTTTTT
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:0.48, C:0.18, G:0.00, T:0.34
Consensus pattern (32 bp):
ACAACATCTAAAAATTCAATATTTTACAATTC
Found at i:13936193 original size:17 final size:17
Alignment explanation
Indices: 13936144--13936193 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 17
13936134 TTCAACATGA
13936144 ACAACATCTAAAAATT-
1 ACAACATCTAAAAATTC
* * * *
13936160 -CAATATTTTACAATTC
1 ACAACATCTAAAAATTC
13936176 ACAACATCTAAAAATTC
1 ACAACATCTAAAAATTC
13936193 A
1 A
13936194 ATATTTTACA
Statistics
Matches: 24, Mismatches: 8, Indels: 3
0.69 0.23 0.09
Matches are distributed among these distances:
15 11 0.46
17 13 0.54
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (17 bp):
ACAACATCTAAAAATTC
Found at i:13936297 original size:19 final size:19
Alignment explanation
Indices: 13936268--13936304 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
13936258 CTAATTTCTC
13936268 CTTTCTTTCTTTCTCTTTTT
1 CTTTCTTTCTTTC-CTTTTT
13936288 CTTT-TTTCTTTCCTTTT
1 CTTTCTTTCTTTCCTTTT
13936305 CTCCCTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 8 0.47
20 4 0.24
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (19 bp):
CTTTCTTTCTTTCCTTTTT
Found at i:13936383 original size:27 final size:26
Alignment explanation
Indices: 13936339--13936398 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 26
13936329 TTCTTTTATT
* *
13936339 TATTATATTTACTTATTATA-ATATAA
1 TATTATATTTAATAATTA-AGATATAA
13936365 TATATATATTTAATAATTAAGATATAA
1 TAT-TATATTTAATAATTAAGATATAA
13936392 TATTATA
1 TATTATA
13936399 ATATATATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 8 0.27
27 22 0.73
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (26 bp):
TATTATATTTAATAATTAAGATATAA
Found at i:13939470 original size:9 final size:9
Alignment explanation
Indices: 13939453--13939489 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
13939443 TAAGTTTTCG
13939453 AATTCGAAT
1 AATTCGAAT
*
13939462 AACTCGAAT
1 AATTCGAAT
13939471 AATTCGAAT
1 AATTCGAAT
13939480 AATTCGAAT
1 AATTCGAAT
13939489 A
1 A
13939490 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:13939607 original size:30 final size:30
Alignment explanation
Indices: 13939547--13939609 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
13939537 ACTTTTCCCT
* ***
13939547 CAAAACTTTTACTCCTTCCCACTTTTCTCC
1 CAAAACTTTTACTCCCTCCCACTCCCCTCC
13939577 CAAAACTTTTACTCCCCTCCC-CTCCCCTCC
1 CAAAACTTTTACT-CCCTCCCACTCCCCTCC
13939607 CAA
1 CAA
13939610 TCCCCCAATC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 22 0.79
31 6 0.21
ACGTcount: A:0.21, C:0.48, G:0.00, T:0.32
Consensus pattern (30 bp):
CAAAACTTTTACTCCCTCCCACTCCCCTCC
Found at i:13943439 original size:20 final size:20
Alignment explanation
Indices: 13943411--13943448 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
13943401 TATTTTTCAA
*
13943411 TAAATCATTTTACAGAAAAG
1 TAAAACATTTTACAGAAAAG
*
13943431 TAAAACATTTTCCAGAAA
1 TAAAACATTTTACAGAAA
13943449 TCATTTTACG
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:0.50, C:0.13, G:0.08, T:0.29
Consensus pattern (20 bp):
TAAAACATTTTACAGAAAAG
Found at i:13944488 original size:2 final size:2
Alignment explanation
Indices: 13944481--13944516 Score: 56
Period size: 2 Copynumber: 18.0 Consensus size: 2
13944471 AAGAAAAAGC
13944481 CT CT CT CT CT CT CT CT CT CT CT CT CT -T CT CT ACT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT -CT CT
13944517 TTGGAACCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.03
2 29 0.91
3 2 0.06
ACGTcount: A:0.03, C:0.47, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:13963581 original size:21 final size:19
Alignment explanation
Indices: 13963555--13963596 Score: 57
Period size: 21 Copynumber: 2.1 Consensus size: 19
13963545 TAAAAAATCC
13963555 AAAAATATCATAAAATTATTT
1 AAAAATATCAT-AAATT-TTT
*
13963576 AAAAATTTCATAAATTTTT
1 AAAAATATCATAAATTTTT
13963595 AA
1 AA
13963597 GATTGTCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 5 0.25
20 5 0.25
21 10 0.50
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (19 bp):
AAAAATATCATAAATTTTT
Found at i:13967793 original size:34 final size:38
Alignment explanation
Indices: 13967750--13967819 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 38
13967740 TAAAATGTAA
13967750 TAAAAATAAAATC-C-TAA-ATG-CATT-AACTCAATT
1 TAAAAATAAAATCGCATAAGATGCCATTAAACTCAATT
13967783 TAAATAATAAAATCGCATAAGATGCCATTAAACTCAA
1 TAAA-AATAAAATCGCATAAGATGCCATTAAACTCAA
13967820 GCAAAAACAC
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
33 4 0.13
34 9 0.29
35 1 0.03
36 3 0.10
37 3 0.10
38 4 0.13
39 7 0.23
ACGTcount: A:0.51, C:0.16, G:0.06, T:0.27
Consensus pattern (38 bp):
TAAAAATAAAATCGCATAAGATGCCATTAAACTCAATT
Found at i:13969809 original size:20 final size:20
Alignment explanation
Indices: 13969766--13969803 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
13969756 AATTTTCACC
13969766 ATTTATATGGTAAAATATTA
1 ATTTATATGGTAAAATATTA
13969786 ATTTATATGGTAAAATAT
1 ATTTATATGGTAAAATAT
13969804 ATATTTTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.45
Consensus pattern (20 bp):
ATTTATATGGTAAAATATTA
Found at i:13972283 original size:17 final size:17
Alignment explanation
Indices: 13972261--13972296 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
13972251 AAAGATATTA
13972261 TTCTTTAATTTGCACTT
1 TTCTTTAATTTGCACTT
**
13972278 TTCTTTTGTTTGCACTT
1 TTCTTTAATTTGCACTT
13972295 TT
1 TT
13972297 ATAAATCTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.11, C:0.17, G:0.08, T:0.64
Consensus pattern (17 bp):
TTCTTTAATTTGCACTT
Found at i:14008867 original size:21 final size:21
Alignment explanation
Indices: 14008841--14008881 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
14008831 ATCTGCTCAA
* *
14008841 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
14008862 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
14008882 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:14028141 original size:1 final size:1
Alignment explanation
Indices: 14028097--14028123 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
14028087 ATATGTTAAC
14028097 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
14028124 GCTTCTAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:14030394 original size:21 final size:21
Alignment explanation
Indices: 14030368--14030434 Score: 107
Period size: 21 Copynumber: 3.2 Consensus size: 21
14030358 TTTTACTTTT
*
14030368 TGTTCAGCTCTTATGAGTTTC
1 TGTTCAGCTCTTATGAGCTTC
14030389 TGTTCAGCTCTTATGAGCTTC
1 TGTTCAGCTCTTATGAGCTTC
**
14030410 TGTTCAGCTCTTACAAGCTTC
1 TGTTCAGCTCTTATGAGCTTC
14030431 TGTT
1 TGTT
14030435 GGTGTATTCA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.45
Consensus pattern (21 bp):
TGTTCAGCTCTTATGAGCTTC
Found at i:14030654 original size:20 final size:21
Alignment explanation
Indices: 14030611--14030656 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
14030601 GAATTTATGG
*
14030611 ATGATAGGAAATTGTCAGTGA
1 ATGATAGGAAATTGACAGTGA
*
14030632 ATGATAGGGAATTGACA-TGA
1 ATGATAGGAAATTGACAGTGA
14030652 ATGAT
1 ATGAT
14030657 TTTATTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.39, C:0.04, G:0.28, T:0.28
Consensus pattern (21 bp):
ATGATAGGAAATTGACAGTGA
Found at i:14032305 original size:34 final size:35
Alignment explanation
Indices: 14032247--14032313 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
14032237 CAAACACCAG
14032247 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
14032282 AAAATATTTTCCCG-AAATCATTTTACGGAAAA
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAA
14032314 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:14035697 original size:16 final size:16
Alignment explanation
Indices: 14035684--14035735 Score: 95
Period size: 16 Copynumber: 3.2 Consensus size: 16
14035674 ATTAGAGGCA
14035684 TAATGGAATAGAGGTG
1 TAATGGAATAGAGGTG
*
14035700 TAATGGATTAGAGGTG
1 TAATGGAATAGAGGTG
14035716 TAATGGAATAGAGGTG
1 TAATGGAATAGAGGTG
14035732 TAAT
1 TAAT
14035736 AGCAAATCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.37, C:0.00, G:0.35, T:0.29
Consensus pattern (16 bp):
TAATGGAATAGAGGTG
Found at i:14035720 original size:32 final size:32
Alignment explanation
Indices: 14035673--14035735 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
14035663 CGCTGTATTA
14035673 GATTAGAGGCATAATGGAATAGAGGTGTAATG
1 GATTAGAGGCATAATGGAATAGAGGTGTAATG
**
14035705 GATTAGAGGTGTAATGGAATAGAGGTGTAAT
1 GATTAGAGGCATAATGGAATAGAGGTGTAAT
14035736 AGCAAATCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.02, G:0.35, T:0.27
Consensus pattern (32 bp):
GATTAGAGGCATAATGGAATAGAGGTGTAATG
Found at i:14035819 original size:39 final size:43
Alignment explanation
Indices: 14035714--14035823 Score: 129
Period size: 45 Copynumber: 2.6 Consensus size: 43
14035704 GGATTAGAGG
14035714 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT--A
* * ***
14035759 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGG-T-
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
14035799 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
14035824 TAATGGAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
39 20 0.35
40 2 0.04
43 1 0.02
44 11 0.19
45 23 0.40
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (43 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
Found at i:14035986 original size:16 final size:16
Alignment explanation
Indices: 14035949--14035990 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
14035939 TTAATCATAT
*
14035949 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
14035965 TT-AAATATATTATAA
1 TTAAAATATATTATAA
14035980 TTAAAATATAT
1 TTAAAATATAT
14035991 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:14035997 original size:14 final size:15
Alignment explanation
Indices: 14035958--14035999 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
14035948 TTTAAACATA
*
14035958 ATTATTATTAAATAT
1 ATTATAATTAAATAT
14035973 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
14035987 A-TATAATTTAATA
1 ATTATAATTAAATA
14036000 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:14036066 original size:33 final size:33
Alignment explanation
Indices: 14036029--14036097 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
14036019 TTCTTATATG
* * *
14036029 AATTTACTCAAATCATAATATATGATACTATAA
1 AATTTACTAAAATCATAATACATAATACTATAA
14036062 AATTTACTAAAATCATAATACATAATACTATAA
1 AATTTACTAAAATCATAATACATAATACTATAA
14036095 AAT
1 AAT
14036098 ATAATTTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.52, C:0.12, G:0.01, T:0.35
Consensus pattern (33 bp):
AATTTACTAAAATCATAATACATAATACTATAA
Found at i:14038362 original size:16 final size:16
Alignment explanation
Indices: 14038341--14038373 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
14038331 GATACAATAT
*
14038341 AACAAAGGATAAGCAA
1 AACAAAGGATAACCAA
14038357 AACAAAGGATAACCAA
1 AACAAAGGATAACCAA
14038373 A
1 A
14038374 GTAACATGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.64, C:0.15, G:0.15, T:0.06
Consensus pattern (16 bp):
AACAAAGGATAACCAA
Found at i:14041739 original size:50 final size:50
Alignment explanation
Indices: 14041555--14041740 Score: 264
Period size: 50 Copynumber: 3.7 Consensus size: 50
14041545 ACATGTTAAA
* ** * * *
14041555 GCCATGTCCCAAACATGGTCTTACATGGGATGTTCTTATATCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCAAT
* ** *
14041606 GCCATGTCCTAGACATGGTCTTACGGGGGACCTTTCATCTCGGTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAT
*
14041656 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAT
14041706 GCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCT
14041741 TTACCCAAAT
Statistics
Matches: 120, Mismatches: 15, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
50 94 0.78
51 26 0.22
ACGTcount: A:0.20, C:0.30, G:0.23, T:0.27
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAT
Found at i:14044601 original size:51 final size:50
Alignment explanation
Indices: 14044547--14044642 Score: 131
Period size: 50 Copynumber: 1.9 Consensus size: 50
14044537 TATTTTTTAT
* **
14044547 TTTTTAAAATTA-GAATAAATTTGATATTATTCGTAAATTTTGAGAGTTAA
1 TTTTTAAAATTATGAATAAA-TTGATATAATTCGTAAAAATTGAGAGTTAA
* *
14044597 TTTTTAAAATTATGACTAAATTGATATAATTTGTAAAAATTGAGAG
1 TTTTTAAAATTATGAATAAATTGATATAATTCGTAAAAATTGAGAG
14044643 CTAAAATTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
50 34 0.85
51 6 0.15
ACGTcount: A:0.42, C:0.02, G:0.12, T:0.44
Consensus pattern (50 bp):
TTTTTAAAATTATGAATAAATTGATATAATTCGTAAAAATTGAGAGTTAA
Found at i:14044898 original size:23 final size:23
Alignment explanation
Indices: 14044871--14044918 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
14044861 ATAGAAGAAG
14044871 AAACACATAAACAAAATAGATGC
1 AAACACATAAACAAAATAGATGC
*
14044894 AAACACATAAATAAAATAGATGC
1 AAACACATAAACAAAATAGATGC
14044917 AA
1 AA
14044919 TTTTTGGTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.62, C:0.15, G:0.08, T:0.15
Consensus pattern (23 bp):
AAACACATAAACAAAATAGATGC
Found at i:14048121 original size:26 final size:26
Alignment explanation
Indices: 14048085--14048153 Score: 138
Period size: 26 Copynumber: 2.7 Consensus size: 26
14048075 CGAGCAGTAA
14048085 CGGGAAGCTCACAAAGAACCTTTAAT
1 CGGGAAGCTCACAAAGAACCTTTAAT
14048111 CGGGAAGCTCACAAAGAACCTTTAAT
1 CGGGAAGCTCACAAAGAACCTTTAAT
14048137 CGGGAAGCTCACAAAGA
1 CGGGAAGCTCACAAAGA
14048154 GCCATATAAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.39, C:0.23, G:0.22, T:0.16
Consensus pattern (26 bp):
CGGGAAGCTCACAAAGAACCTTTAAT
Found at i:14054639 original size:25 final size:25
Alignment explanation
Indices: 14054611--14054674 Score: 60
Period size: 24 Copynumber: 2.6 Consensus size: 25
14054601 CAGCTCTTAT
*
14054611 GAGCATCCCGATAT-TTGGCTCTCAC
1 GAGC-TCCCGATATAATGGCTCTCAC
* * *
14054636 GAGCTTCCGAT-TAATGGCTCTTAT
1 GAGCTCCCGATATAATGGCTCTCAC
14054660 GAGCTTCCCGATATA
1 GAGC-TCCCGATATA
14054675 CAGCTCGATT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
23 1 0.03
24 18 0.58
25 10 0.32
26 2 0.06
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (25 bp):
GAGCTCCCGATATAATGGCTCTCAC
Found at i:14054680 original size:25 final size:25
Alignment explanation
Indices: 14054600--14054716 Score: 80
Period size: 25 Copynumber: 4.7 Consensus size: 25
14054590 CGGACACACC
* *
14054600 ACAGCTCTTATGAGCATCCCGATAT
1 ACAGCTCTCATGAGCTTCCCGATAT
*** *
14054625 TTGGCTCTCACGAGCTT-CCGAT-T
1 ACAGCTCTCATGAGCTTCCCGATAT
*
14054648 A-ATGGCTCTTATGAGCTTCCCGATAT
1 ACA--GCTCTCATGAGCTTCCCGATAT
* * *
14054674 ACAGCTC-GATTGAGCTTCCTGTTAT
1 ACAGCTCTCA-TGAGCTTCCCGATAT
*
14054699 ACAGCTCACATGAGCTTC
1 ACAGCTCTCATGAGCTTC
14054717 TCGTTACATG
Statistics
Matches: 71, Mismatches: 14, Indels: 14
0.72 0.14 0.14
Matches are distributed among these distances:
23 1 0.01
24 18 0.25
25 48 0.68
26 3 0.04
27 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.19, T:0.32
Consensus pattern (25 bp):
ACAGCTCTCATGAGCTTCCCGATAT
Found at i:14062368 original size:16 final size:16
Alignment explanation
Indices: 14062347--14062380 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
14062337 AATGTGCTTG
14062347 TTTCTTTTATCTTTCT
1 TTTCTTTTATCTTTCT
* *
14062363 TTTCTTTTTTTTTTCT
1 TTTCTTTTATCTTTCT
14062379 TT
1 TT
14062381 ATTTCACTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTCTTTTATCTTTCT
Found at i:14068219 original size:3 final size:3
Alignment explanation
Indices: 14068211--14068242 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
14068201 TTTCAGTTTT
*
14068211 TTC TTC TTC CTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
14068243 GTCACTCACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:14068825 original size:40 final size:40
Alignment explanation
Indices: 14068770--14068845 Score: 143
Period size: 40 Copynumber: 1.9 Consensus size: 40
14068760 CCAAAAATAC
14068770 ATAGCATATTGACATGTGATTTTGCAATTTCTAAATGTAT
1 ATAGCATATTGACATGTGATTTTGCAATTTCTAAATGTAT
*
14068810 ATAGCATATTGACATGTTATTTTGCAATTTCTAAAT
1 ATAGCATATTGACATGTGATTTTGCAATTTCTAAAT
14068846 TGTAGGATTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.43
Consensus pattern (40 bp):
ATAGCATATTGACATGTGATTTTGCAATTTCTAAATGTAT
Found at i:14073274 original size:3 final size:3
Alignment explanation
Indices: 14073266--14073291 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
14073256 TTTTATAGAA
14073266 GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GA
14073292 AAAGGGGCTT
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:0.00, G:0.35, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:14073810 original size:47 final size:47
Alignment explanation
Indices: 14073741--14073837 Score: 185
Period size: 47 Copynumber: 2.1 Consensus size: 47
14073731 GTTGAAGTTT
*
14073741 CGGATTTTAATGTTTGAGTTTAAGTTCTACCATGTATAATTGCAATA
1 CGGATTTTAATGTTTGAGTTTAAGTTCTACCATCTATAATTGCAATA
14073788 CGGATTTTAATGTTTGAGTTTAAGTTCTACCATCTATAATTGCAATA
1 CGGATTTTAATGTTTGAGTTTAAGTTCTACCATCTATAATTGCAATA
14073835 CGG
1 CGG
14073838 GTCTCTCTTA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (47 bp):
CGGATTTTAATGTTTGAGTTTAAGTTCTACCATCTATAATTGCAATA
Found at i:14075765 original size:9 final size:9
Alignment explanation
Indices: 14075751--14075803 Score: 56
Period size: 9 Copynumber: 5.9 Consensus size: 9
14075741 GTATAATTAA
14075751 AATATTTTT
1 AATATTTTT
14075760 AATATTTTT
1 AATATTTTT
14075769 AATATTATTTT
1 AATA-T-TTTT
*
14075780 TATATTTTT
1 AATATTTTT
*
14075789 GA-ATTTTT
1 AATATTTTT
14075797 AA-ATTTT
1 AATATTTT
14075804 AAAAAATTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
8 12 0.31
9 18 0.46
10 2 0.05
11 7 0.18
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (9 bp):
AATATTTTT
Found at i:14076018 original size:16 final size:16
Alignment explanation
Indices: 14075982--14076018 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
14075972 CAAATAAATT
14075982 ATTATTTTATTTAAAA
1 ATTATTTTATTTAAAA
14075998 A-TATTTT-TTTAATAA
1 ATTATTTTATTTAA-AA
14076013 ATTATT
1 ATTATT
14076019 AATTTAGTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 5 0.26
15 9 0.47
16 5 0.26
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
ATTATTTTATTTAAAA
Found at i:14093855 original size:7 final size:7
Alignment explanation
Indices: 14093843--14093867 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
14093833 ACGAAAGGCG
14093843 CCTGTAA
1 CCTGTAA
14093850 CCTGTAA
1 CCTGTAA
14093857 CCTGTAA
1 CCTGTAA
14093864 CCTG
1 CCTG
14093868 AAAGGTGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.32, G:0.16, T:0.28
Consensus pattern (7 bp):
CCTGTAA
Found at i:14095502 original size:15 final size:16
Alignment explanation
Indices: 14095484--14095521 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
14095474 ATTCCCAGCC
14095484 ATCATATTCCAT-CGA
1 ATCATATTCCATACGA
* *
14095499 ATCACATTCCATAGGA
1 ATCATATTCCATACGA
14095515 ATCATAT
1 ATCATAT
14095522 CATGGAAAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.37, C:0.24, G:0.08, T:0.32
Consensus pattern (16 bp):
ATCATATTCCATACGA
Found at i:14098861 original size:16 final size:16
Alignment explanation
Indices: 14098840--14098908 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
14098830 TTTGGTTCGC
14098840 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
14098856 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
14098872 TGTATTGAGATTAGAGG
1 TGTATTG-GATTAGAGG
14098889 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
14098905 TGTA
1 TGTA
14098909 ATAGCTAATC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.26, C:0.00, G:0.36, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:14098886 original size:33 final size:32
Alignment explanation
Indices: 14098840--14098908 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
14098830 TTTGGTTCGC
14098840 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
14098872 TGTATTGAGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTG-GATTAGAGGTGTATTGGATTAGAGG
14098905 TGTA
1 TGTA
14098909 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 7 0.19
33 29 0.81
ACGTcount: A:0.26, C:0.00, G:0.36, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:14098973 original size:44 final size:45
Alignment explanation
Indices: 14098889--14098979 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
14098879 AGATTAGAGG
* * *
14098889 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
14098934 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
14098978 TG
1 TG
14098980 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:14099161 original size:16 final size:16
Alignment explanation
Indices: 14099124--14099178 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
14099114 TTAATCATAT
*
14099124 TTAAACATA-ATTATAA
1 TTAAA-ATATATTTTAA
14099140 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
14099155 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
14099173 -TAAAAT
1 TTAAAAT
14099179 TCTTATAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:14099171 original size:18 final size:18
Alignment explanation
Indices: 14099130--14099178 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 18
14099120 ATATTTAAAC
14099130 ATAATTATAATT-AAATAT
1 ATAATT-TAATTAAAATAT
14099148 AT--TTTAATTAAAATAT
1 ATAATTTAATTAAAATAT
14099164 ATAATTTAA-TAAAAT
1 ATAATTTAATTAAAAT
14099179 TCTTATAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 5 0.18
16 10 0.36
17 6 0.21
18 7 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATAATTTAATTAAAATAT
Found at i:14099297 original size:67 final size:67
Alignment explanation
Indices: 14099226--14099438 Score: 168
Period size: 67 Copynumber: 3.1 Consensus size: 67
14099216 ATTGTTAATG
*
14099226 TTATTTAAATTTTAATAAGATTATTATTATCAGTAATAAATATTTTAATCATATTTAAACATAAT
1 TTATTTAAATTTTAATAAGATTATTATTATCAATAATAAATATTTTAATCATATTTAAACATAAT
14099291 TA
66 TA
* * * * * * ***
14099293 TTATTAAATATATTTTAATTAAAATATATAATT-T-AATAA-AATTCTTATAAT--TAGCAGAAA
1 TTATT---TAAATTTTAA-TAAGAT-TATTATTATCAATAATAAATATTTTAATCATA-TTTAAA
** * *
14099353 TTTGTTATTG
60 --CATAATTA
* *
14099363 TTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAAT
1 TTATTTAAATTTTAATAAGATTATTATTATCAATAATAAATATTTTAATCATATTTAAACATAAT
14099428 TA
66 TA
14099430 TTA-TTAAAT
1 TTATTTAAAT
14099439 ACATTATAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 27
0.65 0.18 0.17
Matches are distributed among these distances:
65 5 0.05
66 12 0.12
67 28 0.27
68 11 0.11
69 12 0.12
70 24 0.23
71 6 0.06
72 6 0.06
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (67 bp):
TTATTTAAATTTTAATAAGATTATTATTATCAATAATAAATATTTTAATCATATTTAAACATAAT
TA
Found at i:14099315 original size:156 final size:156
Alignment explanation
Indices: 14099031--14099358 Score: 620
Period size: 156 Copynumber: 2.1 Consensus size: 156
14099021 TAGAATACCC
* *
14099031 TTAGCATAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
14099096 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
66 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
14099161 TATATAATTTAATAAAATTCTTATAA
131 TATATAATTTAATAAAATTCTTATAA
14099187 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
*
14099252 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
14099317 TATATAATTTAATAAAATTCTTATAA
131 TATATAATTTAATAAAATTCTTATAA
*
14099343 TTAGCAGAAATTTGTT
1 TTAGCAGAAAATTGTT
14099359 ATTGTTATTT
Statistics
Matches: 168, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
156 168 1.00
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (156 bp):
TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
TATATAATTTAATAAAATTCTTATAA
Found at i:14099321 original size:18 final size:17
Alignment explanation
Indices: 14099300--14099334 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
14099290 TTATTATTAA
*
14099300 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
14099318 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
14099335 TCTTATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:14099325 original size:137 final size:137
Alignment explanation
Indices: 14099036--14099476 Score: 315
Period size: 156 Copynumber: 3.1 Consensus size: 137
14099026 TACCCTTAGC
*
14099036 ATAAAATTGTT-TTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTAT
1 ATAAAATTCTTATTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTAT
*
14099100 CAGTAATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAATATA
66 CAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATA
14099165 TAATTTA
131 TAATTTA
* * * * * *
14099172 ATAAAATTCTTATAATTAGCAGAAAATTG-TT-TTGGTAAATGATTATTGTTAATGTTATTTAA-
1 ATAAAATTC-T-T-ATT-G--GTAAA-TGATTATT-GTTATTG-TTATT-TAAATTTTA-ATAAG
* * * * ** *
14099234 ATT-TTA--ATAAGATTATTATTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTA
55 ATTATTATTATCAG-TAATAAATAT-TTTAAT-CATA---T--T--T----AAACATAATTATTA
14099296 TTAAATATATTTTAATTAAAATATATAATTTA
106 TTAAATATATTTTAATTAAAATATATAATTTA
*** * * *
14099328 ATAAAATTCTTATAATTAGCA-GA-AATTTGTTATTGTTATTTAAATTTTAATAAGATTATTAAT
1 ATAAAATTCTTATTGGTA-AATGATTA-TTGTTATTGTTATTTAAATTTTAATAAGATTATTATT
* * * * ****
14099391 ATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATACATTATAATTTTGGTA
64 ATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATA
14099456 TATAATTTA
129 TATAATTTA
14099465 ATAAAATTCTTA
1 ATAAAATTCTTA
14099477 ATAATTCATA
Statistics
Matches: 230, Mismatches: 41, Indels: 67
0.68 0.12 0.20
Matches are distributed among these distances:
136 8 0.03
137 53 0.23
138 1 0.00
140 2 0.01
141 2 0.01
142 6 0.03
143 19 0.08
144 14 0.06
145 14 0.06
146 3 0.01
147 3 0.01
148 14 0.06
149 13 0.06
150 13 0.06
151 6 0.03
152 1 0.00
153 2 0.01
154 1 0.00
155 1 0.00
156 54 0.23
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (137 bp):
ATAAAATTCTTATTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTAT
CAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATA
TAATTTA
Found at i:14099516 original size:137 final size:135
Alignment explanation
Indices: 14099238--14099516 Score: 339
Period size: 137 Copynumber: 2.0 Consensus size: 135
14099228 ATTTAAATTT
* * *
14099238 TAATAAGATTATTATTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATA
1 TAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATA
* * * *
14099303 TATTTTAATTAAAATATATAATTTAATAAAATTCTTATAATTAGCAGAAATTTGTTATTGTTATT
66 CATTATAATTAAAATATATAATTTAATAAAATTCTTATAATTA-CA-AAATTTCTTATTGTTACT
* **
14099368 TAAATTT
129 CAAATCA
14099375 TAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATA
1 TAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATA
**** *
14099440 CATTATAATTTTGGTATATAATTTAATAAAATTCTTAATAATT-C-ATA-TTCTTATATGAATTT
66 CATTATAATTAAAATATATAATTTAATAAAATTCTT-ATAATTACAAAATTTCTTAT-TG---TT
14099502 ACTCAAATCA
126 ACTCAAATCA
14099512 TAATA
1 TAATA
14099517 TATGATACTA
Statistics
Matches: 122, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
133 6 0.05
134 4 0.03
136 1 0.01
137 105 0.86
138 6 0.05
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.46
Consensus pattern (135 bp):
TAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATA
CATTATAATTAAAATATATAATTTAATAAAATTCTTATAATTACAAAATTTCTTATTGTTACTCA
AATCA
Found at i:14099611 original size:26 final size:26
Alignment explanation
Indices: 14099533--14099617 Score: 91
Period size: 26 Copynumber: 3.2 Consensus size: 26
14099523 ACTAAATGAA
* *
14099533 AATTTGAAATAATTAATATTAAATAT
1 AATTTAAAATAATTATTATTAAATAT
* * *
14099559 ATTTTAATTAA-AATATATGATTTAATAT
1 AATTTAA--AATAAT-TATTATTAAATAT
14099587 AATTTAAAATAATTATTATTAAATAT
1 AATTTAAAATAATTATTATTAAATAT
14099613 AATTT
1 AATTT
14099618 CATAAAATGT
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
26 23 0.49
27 6 0.13
28 18 0.38
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (26 bp):
AATTTAAAATAATTATTATTAAATAT
Found at i:14100517 original size:8 final size:9
Alignment explanation
Indices: 14100497--14100531 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
14100487 ATATTACAAC
14100497 AAAAATTTA
1 AAAAATTTA
14100506 AAAAATTTA
1 AAAAATTTA
14100515 AAAAATTT-
1 AAAAATTTA
14100523 AAAAATTTA
1 AAAAATTTA
14100532 GAAGAGTGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 8 0.32
9 17 0.68
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (9 bp):
AAAAATTTA
Found at i:14100520 original size:18 final size:17
Alignment explanation
Indices: 14100497--14100531 Score: 61
Period size: 17 Copynumber: 2.0 Consensus size: 17
14100487 ATATTACAAC
14100497 AAAAATTTAAAAAATTTA
1 AAAAATTT-AAAAATTTA
14100515 AAAAATTTAAAAATTTA
1 AAAAATTTAAAAATTTA
14100532 GAAGAGTGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAAATTTAAAAATTTA
Found at i:14108976 original size:24 final size:24
Alignment explanation
Indices: 14108944--14108994 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
14108934 GTGAGTTTTA
14108944 AATTCTGACCTAAATTAATCTGCC
1 AATTCTGACCTAAATTAATCTGCC
14108968 AATTCTGACCTAAATTAATCTGCC
1 AATTCTGACCTAAATTAATCTGCC
14108992 AAT
1 AAT
14108995 GTTTTTCCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.33
Consensus pattern (24 bp):
AATTCTGACCTAAATTAATCTGCC
Found at i:14111695 original size:90 final size:92
Alignment explanation
Indices: 14111517--14111708 Score: 284
Period size: 90 Copynumber: 2.1 Consensus size: 92
14111507 TTGATTTTAG
* *
14111517 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATATAATTAT
1 TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATATAATTAT
* *
14111582 ATTTAATATTAATTATTTTAAATTGTA
66 ATGTAATATTAATTATTTTAAATTATA
*
14111609 TAAATTCATATAAGAAAATTTTTATTATCAAGAATTTTATGAAATTATATATTA-T-TA-AATTA
1 TAAATTCATATAAGAAAA-TTTTATTATCAAGAATTTTATGAAATTATATATCACTATATAATTA
14111671 TATGTAATAATT-ATTATTTTAAATTATA
65 TATGTAAT-ATTAATTATTTTAAATTATA
*
14111699 CAAATTCATA
1 TAAATTCATA
14111709 AACTATAATC
Statistics
Matches: 92, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
90 36 0.39
91 5 0.05
92 18 0.20
93 33 0.36
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (92 bp):
TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATATAATTAT
ATGTAATATTAATTATTTTAAATTATA
Found at i:14111766 original size:17 final size:17
Alignment explanation
Indices: 14111741--14111774 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
14111731 ATAATTTTAA
*
14111741 ATTTTATTAAATCATAT
1 ATTTAATTAAATCATAT
14111758 ATTTAATTAAATCATAT
1 ATTTAATTAAATCATAT
14111775 TTAATATTAA
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:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAATCATAT
Found at i:14111776 original size:15 final size:16
Alignment explanation
Indices: 14111741--14111779 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
14111731 ATAATTTTAA
*
14111741 ATTTTATTAAATCATAT
1 ATTTAATTAAATCA-AT
14111758 ATTTAATTAAATC-AT
1 ATTTAATTAAATCAAT
14111773 ATTTAAT
1 ATTTAAT
14111780 ATTAATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.43
17 12 0.57
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (16 bp):
ATTTAATTAAATCAAT
Found at i:14111783 original size:17 final size:18
Alignment explanation
Indices: 14111745--14111784 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
14111735 TTTTAAATTT
*
14111745 TATTAAATCATATATTTA
1 TATTAAATCATATATTAA
14111763 -ATTAAATCATAT-TTAA
1 TATTAAATCATATATTAA
14111779 TATTAA
1 TATTAA
14111785 TTATTTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTAAATCATATATTAA
Found at i:14111899 original size:15 final size:15
Alignment explanation
Indices: 14111864--14111915 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
14111854 TTAAGAATTT
*
14111864 TATTAAATTAT-ATA
1 TATTTAATTATAATA
14111878 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
14111892 TATTTAATAATAAT-
1 TATTTAATTATAATA
14111906 TATGTTAATT
1 TAT-TTAATT
14111916 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:14111906 original size:120 final size:120
Alignment explanation
Indices: 14111740--14112031 Score: 457
Period size: 120 Copynumber: 2.4 Consensus size: 120
14111730 AATAATTTTA
* * *
14111740 AATTTTATTAAATCATATA-TTTAATTA-AATCATATTTAATATTAATTAT-TTGAAATTT-TCT
1 AATTTTATTAAATTATATATTTTAATTATAAT-ATATTTAATAATAATTATGTT--AATTTATAT
* * *
14111801 TTTATAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATTTTACTTATTAAG
63 TTTACAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATATTAATTATTAAG
14111859 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
* *
14111924 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTTTTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATATTAATTATTAAG
14111979 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
14112032 TAAATATGAT
Statistics
Matches: 161, Mismatches: 8, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
119 23 0.14
120 133 0.83
121 5 0.03
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATATTAATTATTAAG
Found at i:14111996 original size:59 final size:59
Alignment explanation
Indices: 14111813--14111996 Score: 130
Period size: 59 Copynumber: 3.1 Consensus size: 59
14111803 TATAGTATCA
* * * *
14111813 TATATTATGATTTGAGTAAATTCATAGAAGAATTTTACTTATTAAGAATTTTATTAAAT
1 TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTTTTAAGAATTTTATTAAAT
* * * * * * * *
14111872 TATA-TAT--TTTAATTATAATAT-ATTTAATAATAATT-ATGTTAATTTA-TATTTTA-CAGTA
1 TATATTATGATTTGAGTA-AAT-TCATATAAGAAT-ATTAAT-TT--TTAAGAATTTTATTA-AA
14111930 T
59 T
14111931 CATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTTTTAAGAATTTTATTAAAT
1 --TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTTTTAAGAATTTTATTAAAT
14111992 TATAT
1 TATAT
14111997 ATTTTAATTA
Statistics
Matches: 89, Mismatches: 20, Indels: 32
0.63 0.14 0.23
Matches are distributed among these distances:
56 6 0.07
57 11 0.12
58 8 0.09
59 17 0.19
60 6 0.07
61 12 0.13
62 10 0.11
63 13 0.15
64 6 0.07
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.49
Consensus pattern (59 bp):
TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTTTTAAGAATTTTATTAAAT
Found at i:14112014 original size:16 final size:16
Alignment explanation
Indices: 14111993--14112034 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
14111983 TTATTAAATT
*
14111993 ATATATTTTAATTATA
1 ATATATTTTAATAATA
14112009 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
14112024 AT-TATGTTTAA
1 ATATAT-TTTAA
14112035 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:14112019 original size:15 final size:15
Alignment explanation
Indices: 14111984--14112025 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
14111974 TTAAGAATTT
*
14111984 TATTAAATTAT-ATA
1 TATTTAATTATAATA
14111998 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
14112012 TATTTAATAATAAT
1 TATTTAATTATAAT
14112026 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:14112142 original size:160 final size:162
Alignment explanation
Indices: 14111968--14112260 Score: 545
Period size: 160 Copynumber: 1.8 Consensus size: 162
14111958 ATAAGAATAT
* *
14111968 TAATTTTTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
14112033 AAATATGATTAAATTATTTATTATTGAT-AT-TAATCTTATTAAAATTTAAATAACAATAACAAT
66 AAATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAACAAT
14112096 AACAATAATAATTTACCAAAAAAAATTTATGC
131 AACAATAATAATTTACCAAAAAAAATTTATGC
14112128 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
14112193 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAAT-ATAATCTTATTAAAATTTAAATAACAATAACAA
14112258 TAA
130 TAA
14112261 TCATTTACCA
Statistics
Matches: 128, Mismatches: 2, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
160 91 0.71
161 2 0.02
163 35 0.27
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (162 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAACAAT
AACAATAATAATTTACCAAAAAAAATTTATGC
Found at i:14112168 original size:18 final size:17
Alignment explanation
Indices: 14112140--14112174 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
14112130 ATTATTAAGA
*
14112140 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
14112157 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
14112175 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:14112208 original size:75 final size:75
Alignment explanation
Indices: 14111969--14112210 Score: 200
Period size: 79 Copynumber: 3.1 Consensus size: 75
14111959 TAAGAATATT
* *
14111969 AATTTTTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
14112034 AATATGATTA
66 AATATGATTA
* ** * * * * * ** * *
14112044 AATTATTTATTATTGATATTAATCTTATTAAAATTTAAATAACAATA-ACAATAACAATAATAAT
1 AATTATTAAGAATT-TTATTAA-ATTA-TATATTTTAATTAA-AATATA-TTTAATAATAATTAT
* * **
14112108 -TTACCAAAAAAAATTTA
61 GTT--TAAATATGA-TTA
14112125 TGCTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG
1 ----AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG
14112190 TTTAAATATGATTA
62 TTTAAATATGATTA
14112204 AATTATT
1 AATTATT
14112211 TATTATTGAT
Statistics
Matches: 119, Mismatches: 34, Indels: 28
0.66 0.19 0.15
Matches are distributed among these distances:
75 17 0.14
76 6 0.05
77 3 0.03
78 13 0.11
79 18 0.15
80 10 0.08
81 18 0.15
82 14 0.12
83 3 0.03
84 6 0.05
85 11 0.09
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (75 bp):
AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
AATATGATTA
Found at i:14112428 original size:16 final size:16
Alignment explanation
Indices: 14112409--14112449 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
14112399 ACACAGCTTT
*
14112409 TCCATTACACCTCTAA
1 TCCAATACACCTCTAA
14112425 TCCAATACACCTCTAA
1 TCCAATACACCTCTAA
14112441 TCCAATACA
1 TCCAATACA
14112450 GCGAACCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.37, C:0.37, G:0.00, T:0.27
Consensus pattern (16 bp):
TCCAATACACCTCTAA
Found at i:14112674 original size:21 final size:21
Alignment explanation
Indices: 14112648--14112690 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
14112638 GGTTCGCTGT
*
14112648 ATTGGATTAGAGGTGTATTGG
1 ATTGGATTAGAGGTGTAATGG
14112669 ATTGGATTAGAGGTGTAATGG
1 ATTGGATTAGAGGTGTAATGG
14112690 A
1 A
14112691 ATAGAGGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (21 bp):
ATTGGATTAGAGGTGTAATGG
Found at i:14112690 original size:16 final size:16
Alignment explanation
Indices: 14112671--14112703 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
14112661 TGTATTGGAT
*
14112671 TGGATTAGAGGTGTAA
1 TGGAATAGAGGTGTAA
14112687 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
14112703 T
1 T
14112704 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.30
Consensus pattern (16 bp):
TGGAATAGAGGTGTAA
Found at i:14112748 original size:45 final size:44
Alignment explanation
Indices: 14112682--14112776 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
14112672 GGATTAGAGG
* *
14112682 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
14112727 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
14112771 TGTAAT
1 TGTAAT
14112777 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:14112959 original size:18 final size:17
Alignment explanation
Indices: 14112938--14112972 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
14112928 TTATTATTTA
*
14112938 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
14112956 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
14112973 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:14112966 original size:28 final size:27
Alignment explanation
Indices: 14112896--14112968 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
14112886 TTTATTATCA
*
14112896 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
14112924 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
14112951 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
14112969 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:14113085 original size:144 final size:147
Alignment explanation
Indices: 14112857--14113128 Score: 487
Period size: 144 Copynumber: 1.9 Consensus size: 147
14112847 ATGATTATTG
14112857 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTA--TATTATCAAAAATAAATAATTTAATCATATTTAA
*
14112922 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
64 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
14112987 AGAAATTTGTTTTGGTAAA
129 AGAAATTTGTTTTGGTAAA
*
14113006 TTATT-TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAAC
1 TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
14113068 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
14113129 ATATTCTTAT
Statistics
Matches: 121, Mismatches: 2, Indels: 5
0.95 0.02 0.04
Matches are distributed among these distances:
144 92 0.76
145 1 0.01
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAG
AAATTTGTTTTGGTAAA
Found at i:14113103 original size:18 final size:17
Alignment explanation
Indices: 14113082--14113116 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
14113072 TTATTATTAA
*
14113082 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
14113100 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
14113117 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:14113160 original size:54 final size:54
Alignment explanation
Indices: 14113102--14113280 Score: 128
Period size: 55 Copynumber: 3.1 Consensus size: 54
14113092 ATTAAAATAT
*
14113102 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
** * * * * *
14113156 ATAATATATGATACTGTAAAATAT-AAAATAACATAATTATTATTAAATAT-AATATAATTAAAA
1 ATAAT-T-T-A-A---TAAAAT-TCTTAATAA-TTAA-TATTCTT--ATATGAAT-TTACTCAAA
*
14113219 TAT
53 -AC
*
14113222 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
14113276 ATAAT
1 ATAAT
14113281 ATATGATTAT
Statistics
Matches: 91, Mismatches: 18, Indels: 32
0.65 0.13 0.23
Matches are distributed among these distances:
54 10 0.11
55 11 0.12
56 4 0.04
57 7 0.08
58 5 0.05
59 11 0.12
61 11 0.12
62 5 0.05
63 7 0.08
64 4 0.04
65 11 0.12
66 5 0.05
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (54 bp):
ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
Found at i:14113162 original size:61 final size:61
Alignment explanation
Indices: 14113097--14113284 Score: 190
Period size: 61 Copynumber: 3.1 Consensus size: 61
14113087 TTTTAATTAA
*
14113097 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * * * *
14113158 AATATATGATACT-GTAAAA-T-ATAA-AATAACATAATTATTAT-TAAATATAAT-ATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAATAATTA-AT-ATTCTTATATGAATTTACTCA-AATCAT
14113217 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
14113278 AATATAT
1 AATATAT
14113285 GATTATAACT
Statistics
Matches: 94, Mismatches: 23, Indels: 20
0.69 0.17 0.15
Matches are distributed among these distances:
58 6 0.06
59 29 0.31
60 16 0.17
61 37 0.39
62 6 0.06
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
Found at i:14113195 original size:120 final size:120
Alignment explanation
Indices: 14113065--14113287 Score: 419
Period size: 120 Copynumber: 1.9 Consensus size: 120
14113055 ATCATATTTA
* *
14113065 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
14113130 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
14113185 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
14113250 TATTCTTATATGAATTTACTCAAATCATAATATATGAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGAT
14113288 TATAACTAAT
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 100 1.00
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
Found at i:14113223 original size:18 final size:17
Alignment explanation
Indices: 14113202--14113236 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
14113192 TTATTATTAA
14113202 ATATAATATAATTAAAAT
1 ATATAATATAA-TAAAAT
*
14113220 ATATAATTTAATAAAAT
1 ATATAATATAATAAAAT
14113237 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAATATAATAAAAT
Done.