Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 54 of 199
Found at i:15737428 original size:10 final size:10
Alignment explanation
Indices: 15737414--15737465 Score: 61
Period size: 11 Copynumber: 5.1 Consensus size: 10
15737404 ATTTTAAAAA
15737414 ATAAAAAATT
1 ATAAAAAATT
*
15737424 CTAAAAAA-T
1 ATAAAAAATT
*
15737433 AAAAAAAATT
1 ATAAAAAATT
15737443 ATATAAAAATT
1 ATA-AAAAATT
15737454 ATATAAAAATT
1 ATA-AAAAATT
15737465 A
1 A
15737466 GAAACAATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
9 7 0.19
10 10 0.28
11 19 0.53
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (10 bp):
ATAAAAAATT
Found at i:15737428 original size:17 final size:17
Alignment explanation
Indices: 15737402--15737438 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
15737392 ATAATTCAAC
*
15737402 AAATTTTAAAAAATAAA
1 AAATTCTAAAAAATAAA
15737419 AAATTCTAAAAAATAAA
1 AAATTCTAAAAAATAAA
15737436 AAA
1 AAA
15737439 AATTATATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (17 bp):
AAATTCTAAAAAATAAA
Found at i:15739918 original size:25 final size:24
Alignment explanation
Indices: 15739876--15739927 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
15739866 AGTTCAAGAA
15739876 AGCCATATCAGGAAGCTCACAAAG
1 AGCCATATCAGGAAGCTCACAAAG
* * *
15739900 AGCCTATATCGGGACGCTCATAAAG
1 AGCC-ATATCAGGAAGCTCACAAAG
15739925 AGC
1 AGC
15739928 TGCGGTATGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 4 0.17
25 20 0.83
ACGTcount: A:0.37, C:0.25, G:0.23, T:0.15
Consensus pattern (24 bp):
AGCCATATCAGGAAGCTCACAAAG
Found at i:15740013 original size:64 final size:64
Alignment explanation
Indices: 15739911--15740095 Score: 246
Period size: 64 Copynumber: 2.9 Consensus size: 64
15739901 GCCTATATCG
* * * *
15739911 GGACGCTCATAAAGAGCTGCGGTATGTCCGCAATACATGCAGGATTAATACCGATCATATAACA
1 GGACGCTCACAAAGAGCTGCGGTATGTCCTCAACACATGCAGGATAAATACCGATCATATAACA
* *
15739975 GGACGCTCACAAAGAGTTGCGGTATGTCCTCAACACATGCAGGATAAATACTGATCATATAACA
1 GGACGCTCACAAAGAGCTGCGGTATGTCCTCAACACATGCAGGATAAATACCGATCATATAACA
* ** * * *
15740039 GGACGTTCACAAAGAGCAACGGTATATCCAT-AACACATGTAGGATAAATACCTATCA
1 GGACGCTCACAAAGAGCTGCGGTATGTCC-TCAACACATGCAGGATAAATACCGATCA
15740096 GGATGCTCGC
Statistics
Matches: 106, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
64 105 0.99
65 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.22
Consensus pattern (64 bp):
GGACGCTCACAAAGAGCTGCGGTATGTCCTCAACACATGCAGGATAAATACCGATCATATAACA
Found at i:15745070 original size:3 final size:3
Alignment explanation
Indices: 15745062--15745097 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
15745052 GTTACTTTCT
15745062 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
15745098 TGCTTTTTTT
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:15751187 original size:13 final size:13
Alignment explanation
Indices: 15751149--15751188 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
15751139 TTAAATAAAT
*
15751149 AATTAATAGAATT
1 AATTAATAGAATC
15751162 AATTAATCA-AATC
1 AATTAAT-AGAATC
15751175 AATTAATAGAATC
1 AATTAATAGAATC
15751188 A
1 A
15751189 GTCGATCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
12 1 0.04
13 22 0.92
14 1 0.04
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.33
Consensus pattern (13 bp):
AATTAATAGAATC
Found at i:15751196 original size:26 final size:25
Alignment explanation
Indices: 15751145--15751198 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
15751135 ACTTTTAAAT
* *
15751145 AAATAATTAATAGAATTAATTAATC
1 AAATAATTAATAGAATCAATCAATC
* *
15751170 AAATCAATTAATAGAATCAGTCGATC
1 AAAT-AATTAATAGAATCAATCAATC
15751196 AAA
1 AAA
15751199 CTAGCTATCA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 4 0.17
26 20 0.83
ACGTcount: A:0.54, C:0.09, G:0.07, T:0.30
Consensus pattern (25 bp):
AAATAATTAATAGAATCAATCAATC
Found at i:15759783 original size:25 final size:25
Alignment explanation
Indices: 15759750--15759806 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
15759740 CTGTAAATGG
15759750 TAAGCTCCTCCCAGCTGAATAACGA
1 TAAGCTCCTCCCAGCTGAATAACGA
* *
15759775 TAAGTTCCTCCGAGCTGAATAACGA
1 TAAGCTCCTCCCAGCTGAATAACGA
15759800 TAAGCTC
1 TAAGCTC
15759807 ATACGAGCTG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.23
Consensus pattern (25 bp):
TAAGCTCCTCCCAGCTGAATAACGA
Found at i:15759813 original size:25 final size:25
Alignment explanation
Indices: 15759729--15759843 Score: 90
Period size: 25 Copynumber: 4.6 Consensus size: 25
15759719 TTACATGTAT
* * *
15759729 GCTCATACGAGCTGTA-AATGGTAA
1 GCTCATACGAGCTGAATAACGATAA
* * *
15759753 GCTCCTCCCAGCTGAATAACGATAA
1 GCTCATACGAGCTGAATAACGATAA
* * *
15759778 GTTCCTCCGAGCTGAATAACGATAA
1 GCTCATACGAGCTGAATAACGATAA
* *
15759803 GCTCATACGAGCTGAGTATA-GGTAA
1 GCTCATACGAGCTGAATA-ACGATAA
**
15759828 GCTCATAAAAGCTGAA
1 GCTCATACGAGCTGAA
15759844 ATCGGTAACC
Statistics
Matches: 73, Mismatches: 16, Indels: 3
0.79 0.17 0.03
Matches are distributed among these distances:
24 12 0.16
25 60 0.82
26 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.23
Consensus pattern (25 bp):
GCTCATACGAGCTGAATAACGATAA
Found at i:15761352 original size:30 final size:31
Alignment explanation
Indices: 15761317--15761374 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
15761307 GTAGATACTC
* **
15761317 AAAATTTGAGGGATTAA-AGTGTAAATACAA
1 AAAATTTGAAGGACCAATAGTGTAAATACAA
15761347 AAAATTTGAAGGACCAATAGTGTAAATA
1 AAAATTTGAAGGACCAATAGTGTAAATA
15761375 TTTTAATGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 14 0.58
31 10 0.42
ACGTcount: A:0.50, C:0.05, G:0.19, T:0.26
Consensus pattern (31 bp):
AAAATTTGAAGGACCAATAGTGTAAATACAA
Found at i:15765296 original size:16 final size:17
Alignment explanation
Indices: 15765275--15765317 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
15765265 AAATAAATCT
*
15765275 TTAAAAATTTATAA-AA
1 TTAAAAATTTAAAATAA
15765291 TTAAAAATATTAAAATAA
1 TTAAAAAT-TTAAAATAA
15765309 TTAAAAATT
1 TTAAAAATT
15765318 GGTATAACCG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 8 0.33
17 6 0.25
18 10 0.42
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
TTAAAAATTTAAAATAA
Found at i:15765579 original size:15 final size:16
Alignment explanation
Indices: 15765559--15765595 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
15765549 ATTTGGTTAA
15765559 TTCAAA-ATCTTAATT
1 TTCAAATATCTTAATT
15765574 TTCAAATATCTTAATT
1 TTCAAATATCTTAATT
15765590 TTCAAA
1 TTCAAA
15765596 CAAAGAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.29
16 15 0.71
ACGTcount: A:0.41, C:0.14, G:0.00, T:0.46
Consensus pattern (16 bp):
TTCAAATATCTTAATT
Found at i:15765626 original size:7 final size:7
Alignment explanation
Indices: 15765616--15765640 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
15765606 AGAAATAATA
15765616 AAATCAT
1 AAATCAT
15765623 AAATCAT
1 AAATCAT
15765630 AAATCAT
1 AAATCAT
15765637 AAAT
1 AAAT
15765641 TTCAAAGCTA
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:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AAATCAT
Found at i:15772198 original size:14 final size:14
Alignment explanation
Indices: 15772179--15772214 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
15772169 TTGATTGCCA
*
15772179 GTAAAATGTTTTCT
1 GTAAAATGATTTCT
15772193 GTAAAATGATTTCT
1 GTAAAATGATTTCT
*
15772207 GGAAAATG
1 GTAAAATG
15772215 CTTTACTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.36, C:0.06, G:0.19, T:0.39
Consensus pattern (14 bp):
GTAAAATGATTTCT
Found at i:15772933 original size:108 final size:108
Alignment explanation
Indices: 15772744--15772961 Score: 436
Period size: 108 Copynumber: 2.0 Consensus size: 108
15772734 GATGAAGTAT
15772744 TGTTGTCTAAGAGAGAGAGTAGTGATATATGTATACCATATAAACATACACTACTTTTTCTAAAT
1 TGTTGTCTAAGAGAGAGAGTAGTGATATATGTATACCATATAAACATACACTACTTTTTCTAAAT
15772809 GTCTGTACATATTAACAAACTTTAATACAACAATACAACTACA
66 GTCTGTACATATTAACAAACTTTAATACAACAATACAACTACA
15772852 TGTTGTCTAAGAGAGAGAGTAGTGATATATGTATACCATATAAACATACACTACTTTTTCTAAAT
1 TGTTGTCTAAGAGAGAGAGTAGTGATATATGTATACCATATAAACATACACTACTTTTTCTAAAT
15772917 GTCTGTACATATTAACAAACTTTAATACAACAATACAACTACA
66 GTCTGTACATATTAACAAACTTTAATACAACAATACAACTACA
15772960 TG
1 TG
15772962 CATGGTATTG
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
108 110 1.00
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.33
Consensus pattern (108 bp):
TGTTGTCTAAGAGAGAGAGTAGTGATATATGTATACCATATAAACATACACTACTTTTTCTAAAT
GTCTGTACATATTAACAAACTTTAATACAACAATACAACTACA
Found at i:15773943 original size:2 final size:2
Alignment explanation
Indices: 15773903--15773934 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
15773893 CCATGTATCA
15773903 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
15773935 CCAGAGAGAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:15777306 original size:33 final size:31
Alignment explanation
Indices: 15777253--15777322 Score: 79
Period size: 33 Copynumber: 2.2 Consensus size: 31
15777243 TTTTTAGAGT
*
15777253 TTTAAATTTTTTTAAAAAA-TTTAGATTATGATA
1 TTTAAACTTTTTTAAAAAATTTTA-A-TAT-ATA
**
15777286 TTTAAACTTTTTTATTAAATTTTAATATATA
1 TTTAAACTTTTTTAAAAAATTTTAATATATA
15777317 TTTAAA
1 TTTAAA
15777323 ATTATGACAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
31 9 0.27
32 3 0.09
33 17 0.52
34 4 0.12
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.54
Consensus pattern (31 bp):
TTTAAACTTTTTTAAAAAATTTTAATATATA
Found at i:15778688 original size:9 final size:9
Alignment explanation
Indices: 15778674--15778701 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
15778664 TATAGTTTGA
15778674 TATTCGAAT
1 TATTCGAAT
15778683 TATTCGAAT
1 TATTCGAAT
15778692 TATTCGAAT
1 TATTCGAAT
15778701 T
1 T
15778702 CAAAAACTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:15781416 original size:107 final size:107
Alignment explanation
Indices: 15781227--15781624 Score: 618
Period size: 107 Copynumber: 3.7 Consensus size: 107
15781217 TTTCTAATTG
* * *
15781227 AGGCAATGTTTTACATTTGGAAATTCGAGGGACGTGCCCTAAGGTGCTGGGTTTCGATTTCTCGT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTTCGATTTCTCGT
* *
15781292 TCAACCAAATGGGTTAATATCCTTTTCAAAAATTACAAAATA
66 TCAACCAAATGGCTTAATATCCTTTTCAAAAATTTCAAAATA
* *
15781334 AGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTAGGTTTTGATTTCTCGT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTTCGATTTCTCGT
* *
15781399 TCGACCAAATGGCTTAATACCCTTTTCAAAAATTTCAAAATA
66 TCAACCAAATGGCTTAATATCCTTTTCAAAAATTTCAAAATA
* * *
15781441 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAAGGTGCTGGGTTTCGA--TTTCT
* *
15781506 CGTTCAACCAAATAGCTAAATATCC-TTTCAAAAATTTCAAAATA
63 CGTTCAACCAAATGGCTTAATATCCTTTTCAAAAATTTCAAAATA
*
15781550 AGGCAATGTTTTGCGTTTGGAAATTCGGGGAACGTGCCCTAAGGTGCTGGGTTTCGATTTCTCGT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTTCGATTTCTCGT
*
15781615 TTAACCAAAT
66 TCAACCAAAT
15781625 TGCCAAATAT
Statistics
Matches: 265, Mismatches: 23, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
106 17 0.06
107 127 0.48
108 48 0.18
109 47 0.18
110 26 0.10
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.33
Consensus pattern (107 bp):
AGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTTCGATTTCTCGT
TCAACCAAATGGCTTAATATCCTTTTCAAAAATTTCAAAATA
Found at i:15781611 original size:216 final size:214
Alignment explanation
Indices: 15781227--15781624 Score: 627
Period size: 216 Copynumber: 1.9 Consensus size: 214
15781217 TTTCTAATTG
** * *
15781227 AGGCAATGTTTTACATTTGGAAATTCGAGGGACGTGCCCTAAGGTGCTGGGTTTCGATTTCTCGT
1 AGGCAATGTTTTACATTTGGAAATTCGAGAAACATGCCCTAAGGTGCTGGGTGTCGATTTCTCGT
* * *
15781292 TCAACCAAATGGGTTAATATCCTTTTCAAAAATTACAAAATAAGGCAATGTTTTGCGTTTGGAAA
66 TCAACCAAATAGCTAAATATCCTTTTCAAAAATTACAAAATAAGGCAATGTTTTGCGTTTGGAAA
* *
15781357 TTCGAGGAACGTGCCCTAAGGTGCTAGGTTTTGATTTCTCGTTCGACCAAATGGCTTAATACCCT
131 TTCGAGGAACGTGCCCTAAGGTGCTAGGTTTCGATTTCTCGTTCAACCAAATGGCTTAATACCCT
15781422 TTTCAAAAATTTCAAAATA
196 TTTCAAAAATTTCAAAATA
* *
15781441 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
1 AGGCAATGTTTTACATTTGGAAATTCGAG-AAACATGCCCTAAGGTGCTGGGTGTCGA--TTTCT
*
15781506 CGTTCAACCAAATAGCTAAATATCC-TTTCAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGG
63 CGTTCAACCAAATAGCTAAATATCCTTTTCAAAAATTACAAAATAAGGCAATGTTTTGCGTTTGG
* * *
15781570 AAATTCGGGGAACGTGCCCTAAGGTGCTGGGTTTCGATTTCTCGTTTAACCAAAT
128 AAATTCGAGGAACGTGCCCTAAGGTGCTAGGTTTCGATTTCTCGTTCAACCAAAT
15781625 TGCCAAATAT
Statistics
Matches: 166, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
214 27 0.16
215 24 0.14
216 88 0.53
217 27 0.16
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.33
Consensus pattern (214 bp):
AGGCAATGTTTTACATTTGGAAATTCGAGAAACATGCCCTAAGGTGCTGGGTGTCGATTTCTCGT
TCAACCAAATAGCTAAATATCCTTTTCAAAAATTACAAAATAAGGCAATGTTTTGCGTTTGGAAA
TTCGAGGAACGTGCCCTAAGGTGCTAGGTTTCGATTTCTCGTTCAACCAAATGGCTTAATACCCT
TTTCAAAAATTTCAAAATA
Found at i:15786645 original size:9 final size:9
Alignment explanation
Indices: 15786628--15786664 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
15786618 TGAGTTTTCG
15786628 AATTCGAAT
1 AATTCGAAT
*
15786637 AACTCGAAT
1 AATTCGAAT
15786646 AATTCGAAT
1 AATTCGAAT
15786655 AATTCGAAT
1 AATTCGAAT
15786664 A
1 A
15786665 TCAGACTATA
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:15789317 original size:29 final size:30
Alignment explanation
Indices: 15789280--15789347 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 30
15789270 AAAAAAATTA
* *
15789280 TATTTAATT-ACATTGAATCAAAGTTCATG
1 TATTAAATTCACATTGAATCAAAATTCATG
* *
15789309 TATTAAATTGCACATTGGATCAAAATTTATG
1 TATTAAATT-CACATTGAATCAAAATTCATG
15789340 TA-TAAATT
1 TATTAAATT
15789348 TGAAATTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.24
30 6 0.18
31 19 0.58
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.41
Consensus pattern (30 bp):
TATTAAATTCACATTGAATCAAAATTCATG
Found at i:15789331 original size:31 final size:30
Alignment explanation
Indices: 15789289--15789347 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
15789279 ATATTTAATT
*
15789289 ACATTGAATCAAAGTTCATGTATTAAATTGC
1 ACATTGAATCAAAATTCATGTA-TAAATTGC
* *
15789320 ACATTGGATCAAAATTTATGTATAAATT
1 ACATTGAATCAAAATTCATGTATAAATT
15789348 TGAAATTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 6 0.24
31 19 0.76
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (30 bp):
ACATTGAATCAAAATTCATGTATAAATTGC
Found at i:15789779 original size:21 final size:21
Alignment explanation
Indices: 15789753--15789805 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
15789743 CATTGTTTCT
*
15789753 AATCTCAGC-GCTACAGTATCC
1 AATCTCA-CTGCTACAGTAACC
*
15789774 AATCTCACTGCTACAGTAACT
1 AATCTCACTGCTACAGTAACC
15789795 AATCTCACTGC
1 AATCTCACTGC
15789806 CACCGCTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 1 0.03
21 28 0.97
ACGTcount: A:0.30, C:0.32, G:0.11, T:0.26
Consensus pattern (21 bp):
AATCTCACTGCTACAGTAACC
Found at i:15796927 original size:16 final size:16
Alignment explanation
Indices: 15796880--15796917 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
15796870 TATATATAAC
* *
15796880 ATATTTAATATAAGTA
1 ATATTTAAAATAAATA
15796896 ATATTTAAAATAAATA
1 ATATTTAAAATAAATA
15796912 ATATTT
1 ATATTT
15796918 TACAAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (16 bp):
ATATTTAAAATAAATA
Found at i:15798776 original size:22 final size:21
Alignment explanation
Indices: 15798733--15798785 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
15798723 TGTACCTTAG
15798733 TCACACGGCCGTGTGCCCCCTT
1 TCACACGGCCGTGTGCCCCC-T
* *
15798755 TCACACAGG-CGTGTGTCTCCT
1 TCACAC-GGCCGTGTGCCCCCT
*
15798776 TCACATGGCC
1 TCACACGGCC
15798786 ATGTTGATCC
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
20 2 0.08
21 7 0.27
22 15 0.58
23 2 0.08
ACGTcount: A:0.13, C:0.40, G:0.23, T:0.25
Consensus pattern (21 bp):
TCACACGGCCGTGTGCCCCCT
Found at i:15801681 original size:21 final size:21
Alignment explanation
Indices: 15801613--15801681 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
15801603 CATAGAAGCA
* * *
15801613 CATAAGTGCTAAACAGAAACC
1 CATAAGAGCTGAACGGAAACC
* * *
15801634 CATAAGGGTTGAA-GGAAAGCT
1 CATAAGAGCTGAACGGAAA-CC
*
15801655 CGTAAGAGCTGAACGGAAACC
1 CATAAGAGCTGAACGGAAACC
15801676 CATAAG
1 CATAAG
15801682 GGTTAAATTG
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
20 4 0.11
21 27 0.75
22 5 0.14
ACGTcount: A:0.42, C:0.19, G:0.25, T:0.14
Consensus pattern (21 bp):
CATAAGAGCTGAACGGAAACC
Found at i:15801704 original size:42 final size:42
Alignment explanation
Indices: 15801658--15801752 Score: 140
Period size: 42 Copynumber: 2.3 Consensus size: 42
15801648 GAAAGCTCGT
* *
15801658 AAGAGCTGAACGGA-AACCCATAAGGGTTAAATTGAAGTTCAA
1 AAGAGCTAAAC-GATAACCCATAAGGGTTAAACTGAAGTTCAA
15801700 AAGAGCTAAACGATAACCCATAAGGGTTAAACTGAAGTTCAA
1 AAGAGCTAAACGATAACCCATAAGGGTTAAACTGAAGTTCAA
15801742 AA-ATGCTAAAC
1 AAGA-GCTAAAC
15801753 CTCGGTTTAC
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
41 3 0.06
42 46 0.94
ACGTcount: A:0.45, C:0.16, G:0.20, T:0.19
Consensus pattern (42 bp):
AAGAGCTAAACGATAACCCATAAGGGTTAAACTGAAGTTCAA
Found at i:15805267 original size:5 final size:5
Alignment explanation
Indices: 15805254--15805285 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
15805244 TCAGGATTAT
*
15805254 TTTTG TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT
15805286 CTTTTCAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:15808111 original size:14 final size:14
Alignment explanation
Indices: 15808092--15808131 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
15808082 TTGATTGCCA
15808092 GTAAAATGTTTTCT
1 GTAAAATGTTTTCT
*
15808106 GTAAAATGATTTCT
1 GTAAAATGTTTTCT
*
15808120 GGAAAATGTTTT
1 GTAAAATGTTTT
15808132 ATTTTTCTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.33, C:0.05, G:0.17, T:0.45
Consensus pattern (14 bp):
GTAAAATGTTTTCT
Found at i:15808140 original size:20 final size:20
Alignment explanation
Indices: 15808115--15808152 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
15808105 TGTAAAATGA
*
15808115 TTTCTGGAAAATGTTTTATT
1 TTTCTGGAAAATGATTTATT
*
15808135 TTTCTGTAAAATGATTTA
1 TTTCTGGAAAATGATTTA
15808153 CTGGAAAATA
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:0.29, C:0.05, G:0.13, T:0.53
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTATT
Found at i:15808143 original size:34 final size:35
Alignment explanation
Indices: 15808100--15808166 Score: 118
Period size: 34 Copynumber: 1.9 Consensus size: 35
15808090 CAGTAAAATG
*
15808100 TTTTCTGTAAAATGATTT-CTGGAAAATGTTTTAT
1 TTTTCTGTAAAATGATTTACTGGAAAATATTTTAT
15808134 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
15808167 CTGATGTTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 18 0.58
35 13 0.42
ACGTcount: A:0.31, C:0.06, G:0.13, T:0.49
Consensus pattern (35 bp):
TTTTCTGTAAAATGATTTACTGGAAAATATTTTAT
Found at i:15808232 original size:32 final size:32
Alignment explanation
Indices: 15808147--15808232 Score: 84
Period size: 33 Copynumber: 2.6 Consensus size: 32
15808137 TCTGTAAAAT
* **
15808147 GATTTACTGGAAAATATTTTCTGATGTTTGATT
1 GATTT-CTTGAAAATATTTTCTGATGTTTGACA
* * *
15808180 GA-ATCTGTGTCAAATATTTTCTGCTGTTTGACA
1 GATTTCT-TG-AAAATATTTTCTGATGTTTGACA
15808213 GATTTCTTGAAAATATTTTC
1 GATTTCTTGAAAATATTTTC
15808233 CGGAAAAGTT
Statistics
Matches: 42, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
31 2 0.05
32 12 0.29
33 25 0.60
34 3 0.07
ACGTcount: A:0.27, C:0.10, G:0.16, T:0.47
Consensus pattern (32 bp):
GATTTCTTGAAAATATTTTCTGATGTTTGACA
Found at i:15808658 original size:41 final size:41
Alignment explanation
Indices: 15808613--15808696 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
15808603 ATGGTAATCG
15808613 AACATCTCTCTTAAGATCATCAAATGTTTTGTCAGAGTCAA
1 AACATCTCTCTTAAGATCATCAAATGTTTTGTCAGAGTCAA
*
15808654 AACATCTCTCTTAAGATCATCAAATGTTTTGTGAGAGTCAA
1 AACATCTCTCTTAAGATCATCAAATGTTTTGTCAGAGTCAA
15808695 AA
1 AA
15808697 TTTCTAATGG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (41 bp):
AACATCTCTCTTAAGATCATCAAATGTTTTGTCAGAGTCAA
Found at i:15808926 original size:111 final size:111
Alignment explanation
Indices: 15808732--15808953 Score: 435
Period size: 111 Copynumber: 2.0 Consensus size: 111
15808722 TGATGAAGTA
15808732 TTGTTGTCTAAGAGAGAGAGTAGTGATATATGTATACCAAATAAACATACACTACTTTTTCTAAA
1 TTGTTGTCTAAGAGAGAGAGTAGTGATATATGTATACCAAATAAACATACACTACTTTTTCTAAA
15808797 TGTCTGTACATATTAACAAACTTTAATACAACAATACAACTACATG
66 TGTCTGTACATATTAACAAACTTTAATACAACAATACAACTACATG
*
15808843 TTGTTGTCTAAGAGAGAGAGTAGTGATATATGTATACCATATAAACATACACTACTTTTTCTAAA
1 TTGTTGTCTAAGAGAGAGAGTAGTGATATATGTATACCAAATAAACATACACTACTTTTTCTAAA
15808908 TGTCTGTACATATTAACAAACTTTAATACAACAATACAACTACATG
66 TGTCTGTACATATTAACAAACTTTAATACAACAATACAACTACATG
15808954 CATGGTATTG
Statistics
Matches: 110, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
111 110 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (111 bp):
TTGTTGTCTAAGAGAGAGAGTAGTGATATATGTATACCAAATAAACATACACTACTTTTTCTAAA
TGTCTGTACATATTAACAAACTTTAATACAACAATACAACTACATG
Found at i:15809928 original size:2 final size:2
Alignment explanation
Indices: 15809921--15809951 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
15809911 CCATGTATCA
15809921 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
15809952 CAGCCAGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:15817416 original size:18 final size:19
Alignment explanation
Indices: 15817395--15817430 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
15817385 CTATTTTTCT
15817395 GAATTTT-CATAATATTTA
1 GAATTTTACATAATATTTA
*
15817413 GAATTTTATATAATATTT
1 GAATTTTACATAATATTT
15817431 TTATTATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.53
Consensus pattern (19 bp):
GAATTTTACATAATATTTA
Found at i:15818705 original size:14 final size:15
Alignment explanation
Indices: 15818686--15818716 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
15818676 AACACAAAGG
15818686 TTAATACTC-AATAC
1 TTAATACTCAAATAC
15818700 TTAATACTCAAATAC
1 TTAATACTCAAATAC
15818715 TT
1 TT
15818717 TCTATCTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.56
15 7 0.44
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.39
Consensus pattern (15 bp):
TTAATACTCAAATAC
Found at i:15831463 original size:32 final size:32
Alignment explanation
Indices: 15831394--15831468 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 32
15831384 AAAAAGTGAC
*
15831394 TTGTCATTTAACCAGCCACGTTGGAGTCCTTA
1 TTGTCATTTAACCAGCCACGTTGGAGGCCTTA
* * * ** *
15831426 CTGTCATTTAATCGGCCACGTTGGAGGGTTTG
1 TTGTCATTTAACCAGCCACGTTGGAGGCCTTA
15831458 TTGTCATTTAA
1 TTGTCATTTAA
15831469 ACAATAGTAG
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (32 bp):
TTGTCATTTAACCAGCCACGTTGGAGGCCTTA
Found at i:15833892 original size:20 final size:21
Alignment explanation
Indices: 15833869--15833914 Score: 51
Period size: 20 Copynumber: 2.2 Consensus size: 21
15833859 AAATTTTAAA
*
15833869 TTTTTATAAA-TATTTT-TATT
1 TTTTTA-AAATTATTTTGAATT
*
15833889 TTTTGAAAATTATTTTGAATT
1 TTTTTAAAATTATTTTGAATT
15833910 TTTTT
1 TTTTT
15833915 TGTAATTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.14
20 11 0.52
21 7 0.33
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (21 bp):
TTTTTAAAATTATTTTGAATT
Found at i:15835110 original size:311 final size:305
Alignment explanation
Indices: 15834397--15835270 Score: 765
Period size: 311 Copynumber: 2.8 Consensus size: 305
15834387 TTTAAGTTAC
* * * * *
15834397 TGACTGAGTTGGTG-ACATGAGTTAATTGGACACTAACTTGGTTAGAAAAATTACAAAAATGTTC
1 TGACTGAGTTGGTGTA-ATGAGTCAATTGG-CACCAACTTGGTTAGAGAAATTATAAAAATGTCC
* *
15834461 TTCTGTATTTAAAATAAGTTATATTATTTGAGGCTACTTTAGTTATTTT-TTTTAATTTAACGA-
64 TCCTG--TTTAAAATAAGTTATATTATTTGAGGC-AC-TTAGTT-TTTTATTTTAA--CAACGAC
** * * *
15834524 -AA-ACCAATAAAAATTTGTATGCATATGGTGGAATTTAAACCCACGTCAATTGAATTGATAAAA
122 CAATAAAAATAAAAATATGTATACATATGGTGAAATTTAAACCCACGTCAATTGAATTGATAAAA
* * * *
15834587 TCTCAAATTCACTACTCAATCAAGATTCATTTTGATGTGTTTTATACATTTTTTGTTTTAATATG
187 TCTCAAATTCAC-ACTCAA-CAAGATTCATTTTAATGTATTTTATACAGTTTTTATTTTAATATG
* * * * *
15834652 CACATTTTATTATCTCCGTCTGTATATCTATACTTATATATTATTATTAAAGCCCT
250 CACAATTCAGTATCTCCATCTGTATATCTATACTTATATATTATTATTAAAGCCCA
* ** * *
15834708 TGACTGAATTGGTGTAATGAGTCAACCGCGCACCAACTT-GATAGAGAAATTATGAAAATG-CCA
1 TGACTGAGTTGGTGTAATGAGTCAATTG-GCACCAACTTGGTTAGAGAAATTATAAAAATGTCC-
* * *
15834771 TTTCATATTTAAAATAAGTTATATTATTTGATGGCACTTAGTCTTTTTATTTTAACAACCACCAA
64 --TCCTGTTTAAAATAAGTTATATTATTTGA-GGCACTTAGT-TTTTTATTTTAACAACGACCAA
* * *
15834836 TAAAAATAAAAATATGTATACATATGGTGAAATTTGAACTCATCG-CAATT-AGCTTGATAAAA-
125 TAAAAATAAAAATATGTATACATATGGTGAAATTTAAACCCA-CGTCAATTGA-ATTGATAAAAT
* *
15834898 CTTCACCATTCA-AC-C-A-AAGCTTCATTTTAATGTATTTTATAC-GTTTTTATTTTAATATGC
188 C-TCA-AATTCACACTCAACAAGATTCATTTTAATGTATTTTATACAGTTTTTATTTTAATATGC
* * *
15834958 ATAATTCAGTATCTCCATCAGTTGTATATCTATACTTCTATACTATATTATTTAAGCCCA
251 ACAATTCAGTATCTCCATC---TGTATATCTATACTTATATA-T-TATTATTAAAGCCCA
* *
15835018 TGATTGAGTTGGTGTAACGAGTCAATTGAGCACCAACTTGGTTAGAGAAATTATAAAAATGTCCT
1 TGACTGAGTTGGTGTAATGAGTCAATTG-GCACCAACTTGGTTAGAGAAATTATAAAAATGTCCT
* * *
15835083 CCTGTGCTTAAAATAAGTTATATTATTTGAAGGTCACTTAATTTTTTTTTATTTTAGCAATGACC
65 CCTGT--TTAAAATAAGTTATATTATTTG-AGG-CACTT-A--GTTTTTTATTTTAACAACGACC
* * * * * ** *
15835148 AATAAAAATAGAAATATGTACATATATGTTCG-GATTTAAACCCACACCAATT-AGATTGGTAAA
123 AATAAAAATAAAAATATGTATACATATGGT-GAAATTTAAACCCACGTCAATTGA-ATTGATAAA
* * * ** * *
15835211 ATCTCAAATTTATCACTCAATCAAAACTTCATCTTGTTGTATTTTAAACATTTTTTATTT
186 ATCTCAAATTCA-CACTCAA-CAAGA-TTCATTTTAATGTATTTTATACAGTTTTTATTT
15835271 ATGCACAATC
Statistics
Matches: 453, Mismatches: 70, Indels: 70
0.76 0.12 0.12
Matches are distributed among these distances:
305 30 0.07
306 23 0.05
308 24 0.05
309 16 0.04
310 102 0.23
311 127 0.28
312 19 0.04
313 6 0.01
314 70 0.15
315 5 0.01
316 1 0.00
317 1 0.00
319 2 0.00
320 18 0.04
321 9 0.02
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (305 bp):
TGACTGAGTTGGTGTAATGAGTCAATTGGCACCAACTTGGTTAGAGAAATTATAAAAATGTCCTC
CTGTTTAAAATAAGTTATATTATTTGAGGCACTTAGTTTTTTATTTTAACAACGACCAATAAAAA
TAAAAATATGTATACATATGGTGAAATTTAAACCCACGTCAATTGAATTGATAAAATCTCAAATT
CACACTCAACAAGATTCATTTTAATGTATTTTATACAGTTTTTATTTTAATATGCACAATTCAGT
ATCTCCATCTGTATATCTATACTTATATATTATTATTAAAGCCCA
Found at i:15836105 original size:28 final size:28
Alignment explanation
Indices: 15836074--15836130 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
15836064 ATATTTTTCT
* *
15836074 AATAATATTTTT-TTTATTTTTTAAATGA
1 AATAA-ATTTTTAGTTATTTCTTAAATGA
*
15836102 AATAAATTTTTAGTTATTTCTTAATTGA
1 AATAAATTTTTAGTTATTTCTTAAATGA
15836130 A
1 A
15836131 TTAGAGTACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 6 0.24
28 19 0.76
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (28 bp):
AATAAATTTTTAGTTATTTCTTAAATGA
Found at i:15846367 original size:35 final size:35
Alignment explanation
Indices: 15846328--15846395 Score: 95
Period size: 35 Copynumber: 1.9 Consensus size: 35
15846318 AATTCTTTTT
15846328 TTTTAACTATTATTCATA-AT-TTTATCATTTTAGGA
1 TTTT-ACTATTATT-ATATATATTTATCATTTTAGGA
*
15846363 TTTTATTATTATTATATATATTTATCATTTTAG
1 TTTTACTATTATTATATATATTTATCATTTTAG
15846396 AGAGAGAACT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 3 0.10
34 10 0.33
35 17 0.57
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.59
Consensus pattern (35 bp):
TTTTACTATTATTATATATATTTATCATTTTAGGA
Found at i:15850132 original size:25 final size:25
Alignment explanation
Indices: 15850100--15850149 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
15850090 TGATCATAGA
15850100 TGTGTTGATGTGTTCAAGATCTCTT
1 TGTGTTGATGTGTTCAAGATCTCTT
15850125 TGTGTTGATGTGTTCAAGATCTCTT
1 TGTGTTGATGTGTTCAAGATCTCTT
15850150 GCTTGCGTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.16, C:0.12, G:0.24, T:0.48
Consensus pattern (25 bp):
TGTGTTGATGTGTTCAAGATCTCTT
Found at i:15855508 original size:10 final size:10
Alignment explanation
Indices: 15855490--15855518 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
15855480 AAACTAACGT
15855490 GTGGGAAAAA
1 GTGGGAAAAA
15855500 GT-GGAAAAA
1 GTGGGAAAAA
15855509 GTGGGAAAAA
1 GTGGGAAAAA
15855519 TGAGGAAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.52, C:0.00, G:0.38, T:0.10
Consensus pattern (10 bp):
GTGGGAAAAA
Found at i:15857321 original size:30 final size:31
Alignment explanation
Indices: 15857279--15857339 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
15857269 GGGTTGGGAG
* * *
15857279 GGGAAGGGAGTAAAGGTTTTGGGGGGAAAGT
1 GGGAAGGGAGTAAAAGTTTTGAGGGAAAAGT
15857310 GGGAA-GGAGTAAAAGTTTTGAGGGAAAAGT
1 GGGAAGGGAGTAAAAGTTTTGAGGGAAAAGT
15857340 AAAAAGGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.34, C:0.00, G:0.46, T:0.20
Consensus pattern (31 bp):
GGGAAGGGAGTAAAAGTTTTGAGGGAAAAGT
Found at i:15858813 original size:34 final size:34
Alignment explanation
Indices: 15858770--15858950 Score: 254
Period size: 34 Copynumber: 5.3 Consensus size: 34
15858760 GTAAACCCCA
*
15858770 TATGACATAGTATGCGAACCCTCATGTTATGTAG
1 TATGACATAGTATGCGAACCCTCATGTTATATAG
* *
15858804 TATGACATAGTATGCAAACCTTCATGTTATATAG
1 TATGACATAGTATGCGAACCCTCATGTTATATAG
* *
15858838 TATGACATAATATGCGAACCCTCACGTTATATAG
1 TATGACATAGTATGCGAACCCTCATGTTATATAG
* * *
15858872 TAAGACATAGTATGGGAACCCTTATGTTATATAG
1 TATGACATAGTATGCGAACCCTCATGTTATATAG
* * * *
15858906 TAAGACTTAGTATGTGAACCCTCATGTTATATGG
1 TATGACATAGTATGCGAACCCTCATGTTATATAG
15858940 TATGACATAGT
1 TATGACATAGT
15858951 GAACTGTTAG
Statistics
Matches: 129, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 129 1.00
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.33
Consensus pattern (34 bp):
TATGACATAGTATGCGAACCCTCATGTTATATAG
Found at i:15859132 original size:15 final size:15
Alignment explanation
Indices: 15859108--15859150 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
15859098 GTGAATTAGC
* *
15859108 ATGTGTGAACCTTAT
1 ATGTGCGAACCCTAT
15859123 ATGTGCGAACCCTAT
1 ATGTGCGAACCCTAT
**
15859138 ACATGCGAACCCT
1 ATGTGCGAACCCT
15859151 GTATACAATC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.28
Consensus pattern (15 bp):
ATGTGCGAACCCTAT
Found at i:15866054 original size:3 final size:3
Alignment explanation
Indices: 15866048--15866096 Score: 55
Period size: 3 Copynumber: 16.3 Consensus size: 3
15866038 AGAAATAGTA
* * *
15866048 GAT GAT GAT GAT GAT GAT GGT GAT GAT GAT GGA- GAT GAA GAT GAA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT -GAT GAT GAT GAT GAT
15866093 GAT G
1 GAT G
15866097 GCTTGAGCCA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
2 2 0.05
3 34 0.89
4 2 0.05
ACGTcount: A:0.35, C:0.00, G:0.39, T:0.27
Consensus pattern (3 bp):
GAT
Found at i:15867686 original size:10 final size:10
Alignment explanation
Indices: 15867647--15867696 Score: 52
Period size: 9 Copynumber: 5.2 Consensus size: 10
15867637 ATATAATTAT
15867647 AAATTT-TAA
1 AAATTTATAA
*
15867656 AAAGTTA-AA
1 AAATTTATAA
*
15867665 ATAATATATAA
1 A-AATTTATAA
15867676 AAATTTAT-A
1 AAATTTATAA
15867685 AAATTTATAA
1 AAATTTATAA
15867695 AA
1 AA
15867697 TAAAAAATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
9 17 0.52
10 13 0.39
11 3 0.09
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (10 bp):
AAATTTATAA
Found at i:15867689 original size:9 final size:9
Alignment explanation
Indices: 15867619--15867697 Score: 51
Period size: 9 Copynumber: 9.1 Consensus size: 9
15867609 TATATATTTT
15867619 TTTATAAAA
1 TTTATAAAA
*
15867628 CTT-TAAAA
1 TTTATAAAA
*
15867636 --TATATAA
1 TTTATAAAA
*
15867643 -TTATAAAT
1 TTTATAAAA
15867651 TTTA-AAAA
1 TTTATAAAA
* *
15867659 GTTAAAATAA
1 TTTATAA-AA
*
15867669 TATATAAAAA
1 TTTAT-AAAA
15867679 TTTATAAAA
1 TTTATAAAA
15867688 TTTATAAAA
1 TTTATAAAA
15867697 T
1 T
15867698 AAAAAATATA
Statistics
Matches: 54, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
6 1 0.02
7 4 0.07
8 16 0.30
9 21 0.39
10 10 0.19
11 2 0.04
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (9 bp):
TTTATAAAA
Found at i:15867696 original size:31 final size:32
Alignment explanation
Indices: 15867619--15867699 Score: 89
Period size: 30 Copynumber: 2.6 Consensus size: 32
15867609 TATATATTTT
* *
15867619 TTTATAAAACTTTAAAAT-ATATAATTATAAA
1 TTTATAAAAATTTAAAATAATATAATTAAAAA
*
15867650 TTT-TAAAAAGTTAAAATAATAT-A-TAAAAA
1 TTTATAAAAATTTAAAATAATATAATTAAAAA
*
15867679 TTTATAAAATTTATAAAATAA
1 TTTATAAAAATT-TAAAATAA
15867700 AAAATATATT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
29 8 0.19
30 19 0.45
31 15 0.36
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (32 bp):
TTTATAAAAATTTAAAATAATATAATTAAAAA
Found at i:15867897 original size:20 final size:21
Alignment explanation
Indices: 15867874--15867917 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
15867864 TTTTTCTAGG
15867874 TTTTATATA-TATTTGAATTT
1 TTTTATATATTATTTGAATTT
15867894 TTTTATATATTTATTTGAATTT
1 TTTTATATA-TTATTTGAATTT
15867916 TT
1 TT
15867918 ATATTTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 9 0.41
22 13 0.59
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (21 bp):
TTTTATATATTATTTGAATTT
Found at i:15867918 original size:20 final size:21
Alignment explanation
Indices: 15867874--15867926 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
15867864 TTTTTCTAGG
15867874 TTTTATATA--TATTTGAATTT
1 TTTTATATATTTATTTGAA-TT
15867894 TTTTATATATTTATTTGAA-T
1 TTTTATATATTTATTTGAATT
*
15867914 TTTTATATTTTTA
1 TTTTATATATTTA
15867927 ATGTGTATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 22 0.73
22 8 0.27
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (21 bp):
TTTTATATATTTATTTGAATT
Found at i:15867922 original size:18 final size:19
Alignment explanation
Indices: 15867874--15867923 Score: 57
Period size: 22 Copynumber: 2.5 Consensus size: 19
15867864 TTTTTCTAGG
*
15867874 TTTTATATATATTTGAATTTT
1 TTTTATATTTATTTGAA--TT
15867895 TTTATATATTTATTTGAA-T
1 TTT-TATATTTATTTGAATT
15867914 TTTTATATTT
1 TTTTATATTT
15867924 TTAATGTGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 7 0.26
19 4 0.15
21 3 0.11
22 13 0.48
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (19 bp):
TTTTATATTTATTTGAATT
Found at i:15868729 original size:18 final size:16
Alignment explanation
Indices: 15868700--15868753 Score: 54
Period size: 19 Copynumber: 3.1 Consensus size: 16
15868690 AGTTTTATTC
*
15868700 TAAAAATCCAAAAATAT
1 TAAAAATTCAAAAA-AT
15868717 TAAAAATTACAAAAAAAAT
1 TAAAAATT-C--AAAAAAT
*
15868736 AAAAAATTCAAAAAAT
1 TAAAAATTCAAAAAAT
15868752 TA
1 TA
15868754 TAATATATTC
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
16 8 0.26
17 7 0.23
18 2 0.06
19 9 0.29
20 5 0.16
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.22
Consensus pattern (16 bp):
TAAAAATTCAAAAAAT
Found at i:15868731 original size:19 final size:18
Alignment explanation
Indices: 15868709--15868766 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 18
15868699 CTAAAAATCC
*
15868709 AAAAATATTAAAAATTACA
1 AAAAATATAAAAAATT-CA
*
15868728 AAAAAAATAAAAAATTCA
1 AAAAATATAAAAAATTCA
* *
15868746 AAAAATTATAATATATTCA
1 AAAAA-TATAAAAAATTCA
15868765 AA
1 AA
15868767 TTAATATTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
18 7 0.21
19 26 0.79
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAAATATAAAAAATTCA
Found at i:15871641 original size:34 final size:34
Alignment explanation
Indices: 15871587--15871713 Score: 148
Period size: 34 Copynumber: 3.7 Consensus size: 34
15871577 ACATGTCTTT
* * *
15871587 TGCTACTAAATTGAAT-TGTTATAAGCATAATAAT
1 TGCTACTATATT-AATCTGTTATAAGCATATTAAA
*
15871621 TGCTACTATATTAATCTGTTATGAGCATATTAAA
1 TGCTACTATATTAATCTGTTATAAGCATATTAAA
* *
15871655 TGCTACCATATTGATCTGTTATAAGCATATTAAA
1 TGCTACTATATTAATCTGTTATAAGCATATTAAA
* * * *
15871689 TGTTATTGTATTGATCTGTTATAAG
1 TGCTACTATATTAATCTGTTATAAG
15871714 TATGTCACAT
Statistics
Matches: 81, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
33 3 0.04
34 78 0.96
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.42
Consensus pattern (34 bp):
TGCTACTATATTAATCTGTTATAAGCATATTAAA
Found at i:15874546 original size:21 final size:22
Alignment explanation
Indices: 15874522--15874573 Score: 56
Period size: 24 Copynumber: 2.4 Consensus size: 22
15874512 TTCCTCTATG
15874522 TCTTTTGGAGT-TT-TT-TTTT
1 TCTTTTGGAGTGTTCTTCTTTT
*
15874541 TCTCTTCTTGAGTGTTCTTCTTTT
1 TCT-TT-TGGAGTGTTCTTCTTTT
15874565 TCTTTTGGA
1 TCTTTTGGA
15874574 TCGACTTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
19 3 0.12
20 2 0.08
21 5 0.19
22 5 0.19
23 4 0.15
24 7 0.27
ACGTcount: A:0.06, C:0.13, G:0.15, T:0.65
Consensus pattern (22 bp):
TCTTTTGGAGTGTTCTTCTTTT
Found at i:15875464 original size:26 final size:26
Alignment explanation
Indices: 15875420--15875547 Score: 159
Period size: 26 Copynumber: 4.9 Consensus size: 26
15875410 CACGGTGTTG
* *
15875420 ATCGAAATACACTCAATGGGTAAATT
1 ATCGAAATACCCTCGATGGGTAAATT
15875446 ATCGAAATACCCTCGATGGGTAAATT
1 ATCGAAATACCCTCGATGGGTAAATT
* * *
15875472 ACCAAAATACCTTCGATGGGTAAATT
1 ATCGAAATACCCTCGATGGGTAAATT
* * *
15875498 ACCAAAATATCCTCGATGGGTAAATT
1 ATCGAAATACCCTCGATGGGTAAATT
*
15875524 ATTGAAATACCCTCG-TAGGGTAAA
1 ATCGAAATACCCTCGAT-GGGTAAA
15875548 ATTACTGAAA
Statistics
Matches: 90, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
25 1 0.01
26 89 0.99
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (26 bp):
ATCGAAATACCCTCGATGGGTAAATT
Found at i:15882963 original size:52 final size:52
Alignment explanation
Indices: 15882878--15882992 Score: 137
Period size: 52 Copynumber: 2.2 Consensus size: 52
15882868 GTGGTGACCA
* * *
15882878 AAATACCCTCAATGGGTAAATTACCAAGCTA-CCCTCGAT-GGATAAATTATTG
1 AAATACCCTCGATGGGTAAATTACCAAGATACCCCT-GATAGG-TAAATTATCG
* *
15882930 AAATCCCCTCGATGGGTAAATTATCGAA-ATACCCCTGATAGGTAAATTATCG
1 AAATACCCTCGATGGGTAAATTA-CCAAGATACCCCTGATAGGTAAATTATCG
15882982 AAATACCCTCG
1 AAATACCCTCG
15882993 TAGGGCAAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
52 45 0.83
53 9 0.17
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.26
Consensus pattern (52 bp):
AAATACCCTCGATGGGTAAATTACCAAGATACCCCTGATAGGTAAATTATCG
Found at i:15882996 original size:25 final size:26
Alignment explanation
Indices: 15882878--15882996 Score: 120
Period size: 26 Copynumber: 4.6 Consensus size: 26
15882868 GTGGTGACCA
* * *
15882878 AAATACCCTCAATGGGTAAATTA-CC
1 AAATACCCTCGATAGGTAAATTATCG
* *
15882903 AAGCTACCCTCGAT-GGATAAATTATTG
1 AA-ATACCCTCGATAGG-TAAATTATCG
* *
15882930 AAATCCCCTCGATGGGTAAATTATCG
1 AAATACCCTCGATAGGTAAATTATCG
15882956 AAATACCC-CTGATAGGTAAATTATCG
1 AAATACCCTC-GATAGGTAAATTATCG
15882982 AAATACCCTCG-TAGG
1 AAATACCCTCGATAGG
15882997 GCAAAATTAC
Statistics
Matches: 79, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
25 9 0.11
26 65 0.82
27 5 0.06
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (26 bp):
AAATACCCTCGATAGGTAAATTATCG
Found at i:15883030 original size:27 final size:27
Alignment explanation
Indices: 15882909--15883046 Score: 115
Period size: 26 Copynumber: 5.1 Consensus size: 27
15882899 TACCAAGCTA
* * *
15882909 CCCTCGATGGATAAATTATTGAAAT-C
1 CCCTCGAAGGGTAAATTATCGAAATAC
*
15882935 CCCTCGATGGGTAAATTATCGAAATAC
1 CCCTCGAAGGGTAAATTATCGAAATAC
15882962 CCCT-GATA-GGTAAATTATCGAAATA-
1 CCCTCGA-AGGGTAAATTATCGAAATAC
* *
15882987 CCCTCGTAGGGCAAAATTA-CTGAAATAC
1 CCCTCGAAGGG-TAAATTATC-GAAATAC
* * * *
15883015 TCCTAGAAGGGTAAATTGACCGATATAC
1 CCCTCGAAGGGTAAATT-ATCGAAATAC
15883043 CCCT
1 CCCT
15883047 ATTAGATGAA
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
25 5 0.05
26 46 0.50
27 22 0.24
28 18 0.20
29 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (27 bp):
CCCTCGAAGGGTAAATTATCGAAATAC
Found at i:15885755 original size:21 final size:21
Alignment explanation
Indices: 15885709--15885756 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
15885699 ACTTAAAGTG
*
15885709 GAGGCAGCAGTAAGGGAAACA
1 GAGGCAGCAGCAAGGGAAACA
* * *
15885730 AAGGCAGCAGCAAGGGCAGCA
1 GAGGCAGCAGCAAGGGAAACA
15885751 GAGGCA
1 GAGGCA
15885757 ACAAGAAAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.19, G:0.40, T:0.02
Consensus pattern (21 bp):
GAGGCAGCAGCAAGGGAAACA
Found at i:15887068 original size:32 final size:32
Alignment explanation
Indices: 15887003--15887061 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
15886993 TTTTTTAGAA
*
15887003 ATTTTAATAAATTTTGATTTGTTTTTATATAT
1 ATTTTAATAAATTTTGAATTGTTTTTATATAT
*
15887035 ATTTTTAT-AATTTTGAATT-TTTTTATA
1 ATTTTAATAAATTTTGAATTGTTTTTATA
15887062 AGTATATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 8 0.32
31 10 0.40
32 7 0.28
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (32 bp):
ATTTTAATAAATTTTGAATTGTTTTTATATAT
Found at i:15890209 original size:27 final size:27
Alignment explanation
Indices: 15890179--15890233 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
15890169 ATTTGTGTTA
*
15890179 ATAAACTATAAGATAACAGAGTAATTT
1 ATAAACTATAAGATAACAAAGTAATTT
*
15890206 ATAAACTATAAGATGACAAAGTAATTT
1 ATAAACTATAAGATAACAAAGTAATTT
15890233 A
1 A
15890234 ATCTTTTTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.53, C:0.07, G:0.11, T:0.29
Consensus pattern (27 bp):
ATAAACTATAAGATAACAAAGTAATTT
Found at i:15914880 original size:130 final size:130
Alignment explanation
Indices: 15914587--15915035 Score: 590
Period size: 130 Copynumber: 3.5 Consensus size: 130
15914577 TAAATTTACA
*
15914587 ATTTACGATCACAACCTAAGTTCATTGATTTATGATCATGAACAATTTCTTCTGAGTTAGCTAAT
1 ATTTACGATCACAGCCTAAGTTCATTGATTTATGATCATGAACAATTTCTTCTGAGTTAGCTAAT
15914652 TTACGATCGCAACTCCAAACAGCTC-TTGATTTATGATCAC-GATTGATATTATTAAGGCTCATT
66 TTACGATCGCAACTCCAAACAGCTCGTTGATTTATGATCACAG-TTGATATTATTAAGGCTCATT
15914715 G
130 G
* *
15914716 ATTTAC-AGTCACAGCCTAAGTTCATTAATTTATGATCATGAACCATTTCTTCTGAGTTAGCTGA
1 ATTTACGA-TCACAGCCTAAGTTCATTGATTTATGATCATGAACAATTTCTTCTGAGTTAGCT-A
* * * *
15914780 A-TTACGATCGTAACTCCAAATAGCTCGTTGGTTTACGATCACAGTTGATATTATT-AGTGCTCA
64 ATTTACGATCGCAACTCCAAACAGCTCGTTGATTTATGATCACAGTTGATATTATTAAG-GCTCA
*
15914843 CTG
128 TTG
* *
15914846 ATTTACGATCACAGCCTAAGTTCATTGATTTATGATCATGAATAATTTCTTCTTAGTTAGCTAAT
1 ATTTACGATCACAGCCTAAGTTCATTGATTTATGATCATGAACAATTTCTTCTGAGTTAGCTAAT
* * **
15914911 TTACGA-CTGCAACTCTAAACAACTCG-TGTATTTATGATCACAACTGATATTATTAAGGCT-AG
66 TTACGATC-GCAACTCCAAACAGCTCGTTG-ATTTATGATCACAGTTGATATTATTAAGGCTCA-
*
15914973 TTA
128 TTG
* * * * * *
15914976 ATTTATGATCATAGTCGAAGTTCATTGATTTACGATCATGAACAATTTCTTCTAAGTTAG
1 ATTTACGATCACAGCCTAAGTTCATTGATTTATGATCATGAACAATTTCTTCTGAGTTAG
15915036 TTGATTTGTT
Statistics
Matches: 280, Mismatches: 29, Indels: 21
0.85 0.09 0.06
Matches are distributed among these distances:
128 1 0.00
129 88 0.31
130 187 0.67
131 4 0.01
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (130 bp):
ATTTACGATCACAGCCTAAGTTCATTGATTTATGATCATGAACAATTTCTTCTGAGTTAGCTAAT
TTACGATCGCAACTCCAAACAGCTCGTTGATTTATGATCACAGTTGATATTATTAAGGCTCATTG
Found at i:15915048 original size:8 final size:8
Alignment explanation
Indices: 15915035--15915060 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
15915025 TTCTAAGTTA
15915035 GTTGATTT
1 GTTGATTT
15915043 GTTGATTT
1 GTTGATTT
15915051 GTTGATTT
1 GTTGATTT
15915059 GT
1 GT
15915061 GATAACAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.27, T:0.62
Consensus pattern (8 bp):
GTTGATTT
Found at i:15916216 original size:24 final size:24
Alignment explanation
Indices: 15916188--15916236 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
15916178 CAGTAGACAT
*
15916188 AAACTTCAATGAACCCTCAATAGG
1 AAACTTCAATGAACCCCCAATAGG
15916212 AAACTTCAATGAACCCCCAATAGG
1 AAACTTCAATGAACCCCCAATAGG
15916236 A
1 A
15916237 CCATGTTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.43, C:0.27, G:0.12, T:0.18
Consensus pattern (24 bp):
AAACTTCAATGAACCCCCAATAGG
Found at i:15916883 original size:39 final size:39
Alignment explanation
Indices: 15916829--15916908 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
15916819 AAAACTAACA
15916829 TAATGTCCACACCATTCTTGTCATCAATTGGCCGCCACC
1 TAATGTCCACACCATTCTTGTCATCAATTGGCCGCCACC
15916868 TAATGTCCACACCATTCTTGTCATCAATTGGCCGCCACC
1 TAATGTCCACACCATTCTTGTCATCAATTGGCCGCCACC
15916907 TA
1 TA
15916909 TTAGGGCTCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.24, C:0.35, G:0.12, T:0.29
Consensus pattern (39 bp):
TAATGTCCACACCATTCTTGTCATCAATTGGCCGCCACC
Found at i:15920644 original size:15 final size:13
Alignment explanation
Indices: 15920615--15920662 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
15920605 TTTAATTATC
15920615 TATAAAAATAAAAA
1 TATAAAAA-AAAAA
15920629 TTATAAAAAAATAAA
1 -TATAAAAAAA-AAA
*
15920644 TAGAAAAAAAAAA
1 TATAAAAAAAAAA
*
15920657 CATAAA
1 TATAAA
15920663 TGCTCTAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 7 0.24
14 11 0.38
15 11 0.38
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (13 bp):
TATAAAAAAAAAA
Found at i:15929144 original size:39 final size:40
Alignment explanation
Indices: 15929090--15929167 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 40
15929080 ATTATTTAAT
15929090 ATAATTAAGAATATAAAAT-TATGTTTTGTACTAAACTAA
1 ATAATTAAGAATATAAAATATATGTTTTGTACTAAACTAA
15929129 ATAATTAAGAATATAAAATATATGTTTTGTACTAAACTA
1 ATAATTAAGAATATAAAATATATGTTTTGTACTAAACTA
15929168 GCATTGGCCA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
39 19 0.50
40 19 0.50
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.38
Consensus pattern (40 bp):
ATAATTAAGAATATAAAATATATGTTTTGTACTAAACTAA
Found at i:15929336 original size:21 final size:22
Alignment explanation
Indices: 15929283--15929325 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
15929273 TGGTGGTTGT
*
15929283 TGTTTGTGGTTTACGGGTTTAA
1 TGTTTATGGTTTACGGGTTTAA
15929305 TGTTTATGGTTTA-GGGTTTAA
1 TGTTTATGGTTTACGGGTTTAA
15929326 GATTTTCGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.16, C:0.02, G:0.30, T:0.51
Consensus pattern (22 bp):
TGTTTATGGTTTACGGGTTTAA
Found at i:15929480 original size:15 final size:15
Alignment explanation
Indices: 15929460--15929489 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15929450 GATATTTTAG
*
15929460 AATATAAATGTAAAT
1 AATATAAATATAAAT
15929475 AATATAAATATAAAT
1 AATATAAATATAAAT
15929490 TATTATTTAA
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:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (15 bp):
AATATAAATATAAAT
Found at i:15929735 original size:21 final size:20
Alignment explanation
Indices: 15929695--15929732 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
15929685 AATATATTGA
*
15929695 TGTATTTATTTTTTAAAATG
1 TGTAATTATTTTTTAAAATG
15929715 TGTAATTATTTTTTAAAA
1 TGTAATTATTTTTTAAAA
15929733 ATGCATTACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (20 bp):
TGTAATTATTTTTTAAAATG
Found at i:15932329 original size:30 final size:30
Alignment explanation
Indices: 15932295--15932480 Score: 162
Period size: 30 Copynumber: 6.1 Consensus size: 30
15932285 ATTAAGATAA
15932295 AATTTCTAATTACATAACTTATATAATATT
1 AATTTCTAATTACATAACTTATATAATATT
* * * * *
15932325 AATTTCTAATTTC-TAAGTACACATCAATTTCT
1 AATTTCTAATTACATAACT-TATAT-AATAT-T
* * * * * *
15932357 AATTT-TATATAACTTATGC-AATATTAAGATAA
1 AATTTCTA-ATTACATA-ACTTATA-TAATAT-T
*
15932389 AATTTCGAATTACATAACTTATATAATATT
1 AATTTCTAATTACATAACTTATATAATATT
*
15932419 AATTTCTAATAACATAACTTATATAATATT
1 AATTTCTAATTACATAACTTATATAATATT
*
15932449 AATTTCTCATTACATAACTTATATAATATT
1 AATTTCTAATTACATAACTTATATAATATT
15932479 AA
1 AA
15932481 GATAAAATTT
Statistics
Matches: 121, Mismatches: 26, Indels: 18
0.73 0.16 0.11
Matches are distributed among these distances:
29 4 0.03
30 73 0.60
31 12 0.10
32 28 0.23
33 4 0.03
ACGTcount: A:0.43, C:0.11, G:0.02, T:0.44
Consensus pattern (30 bp):
AATTTCTAATTACATAACTTATATAATATT
Found at i:15932336 original size:37 final size:37
Alignment explanation
Indices: 15932247--15932345 Score: 108
Period size: 37 Copynumber: 2.6 Consensus size: 37
15932237 ATCACACATC
*
15932247 AATTTCTAATTTCATAAAATTAAGATAACTTATATAATATT
1 AATTTCTAATTTC-T--AATT-ACATAACTTATATAATATT
** **
15932288 AAGATAAAATTTCTAATTACATAACTTATATAATATT
1 AATTTCTAATTTCTAATTACATAACTTATATAATATT
*
15932325 AATTTCTAATTTCTAAGTACA
1 AATTTCTAATTTCTAATTACA
15932346 CATCAATTTC
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
37 34 0.71
38 4 0.08
40 1 0.02
41 9 0.19
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.42
Consensus pattern (37 bp):
AATTTCTAATTTCTAATTACATAACTTATATAATATT
Found at i:15932675 original size:16 final size:16
Alignment explanation
Indices: 15932574--15932903 Score: 125
Period size: 16 Copynumber: 20.1 Consensus size: 16
15932564 AATTAATATT
15932574 ATACATAACTTACAT-
1 ATACATAACTTACATA
*
15932589 AT--ATAACTCACATA
1 ATACATAACTTACATA
* *
15932603 ACTTACATAGCTTACATT
1 A--TACATAACTTACATA
* *
15932621 CTACACAACTTACATAA
1 ATACATAACTTACAT-A
15932638 CATACATAA--TACATA
1 -ATACATAACTTACATA
*
15932653 ACTTACATAACTAACATA
1 A--TACATAACTTACATA
*
15932671 ATACATAGCTTACATA
1 ATACATAACTTACATA
*
15932687 ATACACAACTTACATA
1 ATACATAACTTACATA
* *
15932703 GCTTACATGA--TACATA
1 --ATACATAACTTACATA
* *
15932719 ACTTACGTAGCTTACATA
1 A--TACATAACTTACATA
* *
15932737 GTAAATAACTTACATA
1 ATACATAACTTACATA
* * *
15932753 AAATACAACTTACATA
1 ATACATAACTTACATA
15932769 A-A-A-AAGTCTATGACATA
1 ATACATAA--CT-T-ACATA
*
15932786 GCTTACATAA--TACATA
1 --ATACATAACTTACATA
*
15932802 ACTTACATAGCTTACATA
1 A--TACATAACTTACATA
*
15932820 ATAAATAACTTACATAAA
1 ATACATAACTTACAT--A
15932838 ATACA-AA-TTACATA
1 ATACATAACTTACATA
* *
15932852 GCTTACATAA--TACGTA
1 --ATACATAACTTACATA
*
15932868 ACTTACATAACTTATATA
1 A--TACATAACTTACATA
15932886 ATACATAACTTACATA
1 ATACATAACTTACATA
15932902 AT
1 AT
15932904 TTACTTAATA
Statistics
Matches: 234, Mismatches: 42, Indels: 77
0.66 0.12 0.22
Matches are distributed among these distances:
13 12 0.05
14 4 0.02
15 6 0.03
16 149 0.64
17 10 0.04
18 49 0.21
20 1 0.00
21 1 0.00
22 2 0.01
ACGTcount: A:0.47, C:0.19, G:0.04, T:0.30
Consensus pattern (16 bp):
ATACATAACTTACATA
Found at i:15932676 original size:25 final size:25
Alignment explanation
Indices: 15932493--15932907 Score: 145
Period size: 25 Copynumber: 16.6 Consensus size: 25
15932483 TAAAATTTCG
* *
15932493 TAATACATAACTTAAATAACTTACA
1 TAATACATAACTTACATAACTAACA
* *
15932518 TAATACATAACTTTCATAACTTACA
1 TAATACATAACTTACATAACTAACA
* * * * * *
15932543 TTATTCACAACTTGGCCGATTAATTAATA
1 TAATACATAACTT--AC-A-TAACTAACA
*
15932572 TTATACATAACTTACATATA-TAAC-
1 TAATACATAACTTACATA-ACTAACA
* * *
15932596 T--CACATAACTTACATAGCTTACA
1 TAATACATAACTTACATAACTAACA
** *
15932619 TTCTACACAACTTACATAAC-ATACA
1 TAATACATAACTTACATAACTA-ACA
15932644 TAATACATAACTTACATAACTAACA
1 TAATACATAACTTACATAACTAACA
*
15932669 TAATACATAGCTTACATAA-TACACA
1 TAATACATAACTTACATAACTA-ACA
* * *
15932694 -ACTTACATAGCTTACATGA-T-ACA
1 TA-ATACATAACTTACATAACTAACA
* * *
15932717 TAACTTACGTAGCTTACAT-AGTAA-A
1 TAA--TACATAACTTACATAACTAACA
** *
15932742 TAACTTACATAAAATAC--AACTTACA
1 TAA--TACATAACTTACATAACTAACA
* *
15932767 TAA-A-A-AAGTCTATGACATAGCTTACA
1 TAATACATAA--CT-T-ACATAACTAACA
* *
15932793 TAATACATAACTTACATAGCTTACA
1 TAATACATAACTTACATAACTAACA
* *
15932818 TAATAAATAACTTACATAA-AATACA
1 TAATACATAACTTACATAACTA-ACA
* *
15932843 -AATTACATAGCTTACATAA-T-ACG
1 TAA-TACATAACTTACATAACTAACA
*
15932866 TAACTTACATAACTTATATAA-T-ACA
1 TAA--TACATAACTTACATAACTAACA
*
15932891 TAACTTACATAATTTAC
1 TAA--TACATAACTTAC
15932908 TTAATACAGA
Statistics
Matches: 307, Mismatches: 50, Indels: 66
0.73 0.12 0.16
Matches are distributed among these distances:
20 2 0.01
21 1 0.00
22 18 0.06
23 7 0.02
24 15 0.05
25 223 0.73
26 15 0.05
27 5 0.02
28 2 0.01
29 19 0.06
ACGTcount: A:0.46, C:0.19, G:0.04, T:0.32
Consensus pattern (25 bp):
TAATACATAACTTACATAACTAACA
Found at i:15932724 original size:41 final size:41
Alignment explanation
Indices: 15932631--15932903 Score: 135
Period size: 41 Copynumber: 6.4 Consensus size: 41
15932621 CTACACAACT
* *
15932631 TACATAACATACATAATACATAACTTACATAACTAACATAA
1 TACATAACTTACATAATACACAACTTACATAACTAACATAA
* * * *
15932672 TACATAGCTTACATAATACACAACTTACATAGCTTACATGA
1 TACATAACTTACATAATACACAACTTACATAACTAACATAA
* * * * * *
15932713 TACATAACTTACGTAGCTTACA-TA-GTAAATAACTTACATAA
1 TACATAACTTACATA--ATACACAACTTACATAACTAACATAA
* * * *
15932754 AATACAACTTACATAAAAAAGTCTATGACATAGCTTACATAA-T-ACATAA
1 TACATAACTTACAT----AA---TA-CACA-A-CTTACATAACTAACATAA
* * * *
15932803 CTTACATAGCTTACATAATAAATAACTTACATAA-AATACA-AA
1 --TACATAACTTACATAATACACAACTTACATAACTA-ACATAA
* ** * *
15932845 TTACATAGCTTACATAATACGTAACTTACATAACTTATATAA
1 -TACATAACTTACATAATACACAACTTACATAACTAACATAA
15932887 TACATAACTTACATAAT
1 TACATAACTTACATAAT
15932904 TTACTTAATA
Statistics
Matches: 176, Mismatches: 36, Indels: 40
0.70 0.14 0.16
Matches are distributed among these distances:
41 129 0.73
42 6 0.03
43 9 0.05
44 2 0.01
45 1 0.01
46 2 0.01
47 3 0.02
49 7 0.04
50 1 0.01
51 16 0.09
ACGTcount: A:0.48, C:0.18, G:0.04, T:0.30
Consensus pattern (41 bp):
TACATAACTTACATAATACACAACTTACATAACTAACATAA
Found at i:15932802 original size:83 final size:83
Alignment explanation
Indices: 15932698--15932851 Score: 272
Period size: 83 Copynumber: 1.9 Consensus size: 83
15932688 TACACAACTT
* * * *
15932698 ACATAGCTTACATGATACATAACTTACGTAGCTTACATAGTAAATAACTTACATAAAATACAACT
1 ACATAGCTTACATAATACATAACTTACATAGCTTACATAATAAATAACTTACATAAAATACAAAT
15932763 TACATAAAAAAGTCTATG
66 TACATAAAAAAGTCTATG
15932781 ACATAGCTTACATAATACATAACTTACATAGCTTACATAATAAATAACTTACATAAAATACAAAT
1 ACATAGCTTACATAATACATAACTTACATAGCTTACATAATAAATAACTTACATAAAATACAAAT
15932846 TACATA
66 TACATA
15932852 GCTTACATAA
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
83 67 1.00
ACGTcount: A:0.48, C:0.17, G:0.06, T:0.29
Consensus pattern (83 bp):
ACATAGCTTACATAATACATAACTTACATAGCTTACATAATAAATAACTTACATAAAATACAAAT
TACATAAAAAAGTCTATG
Found at i:15932857 original size:108 final size:107
Alignment explanation
Indices: 15932673--15932877 Score: 277
Period size: 108 Copynumber: 1.9 Consensus size: 107
15932663 CTAACATAAT
* * * *** *
15932673 ACATAGCTTACATAATACACAACTTACATAGCTTACATGATACATAACTTACGTAGCTTACATAG
1 ACATAGCTTACATAATACACAACTTACATAGCTTACATAATAAATAACTTACATAAAATACAAAG
15932738 TAAATAACTTACATAAAATAC-AACTTACATAAAAAAGTCTATG
66 TAAATAACTTACAT--AATACGAACTTACATAAAAAAGTCTATG
* *
15932781 ACATAGCTTACATAATACATAACTTACATAGCTTACATAATAAATAACTTACATAAAATACAAAT
1 ACATAGCTTACATAATACACAACTTACATAGCTTACATAATAAATAACTTACATAAAATACAAAG
* *
15932846 TACATAGCTTACATAATACGTAACTTACATAA
66 TAAATAACTTACATAATACG-AACTTACATAA
15932878 CTTATATAAT
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
106 5 0.06
108 79 0.94
ACGTcount: A:0.47, C:0.18, G:0.06, T:0.29
Consensus pattern (107 bp):
ACATAGCTTACATAATACACAACTTACATAGCTTACATAATAAATAACTTACATAAAATACAAAG
TAAATAACTTACATAATACGAACTTACATAAAAAAGTCTATG
Found at i:15932870 original size:66 final size:66
Alignment explanation
Indices: 15932494--15932902 Score: 294
Period size: 66 Copynumber: 6.0 Consensus size: 66
15932484 AAAATTTCGT
* * * * * *
15932494 AATACATAACTTAAATAACTTACATAATACATAACTTTCATAACTTACATTATTCACAACTTGGC
1 AATACATAA--TACATAACTTACATAATACATAACTTACATAGCTTACATAATACACAACTT--A
*
15932559 CGATTA
62 C-ATAA
* **
15932565 ATTA-ATATTATACATAACTTACATATATAACTCACATAACTTACATAGCTTACATTCTACACAA
1 AATACATA--ATACATAACTTAC----ATAA-T-ACATAACTTACATAGCTTACATAATACACAA
15932629 CTTACATAA
58 CTTACATAA
*
15932638 CATACATAATACATAACTTACATAACTAACATAA--TACATAGCTTACATAATACACAACTTACA
1 AATACATAATACATAACTTACATAA-T-ACATAACTTACATAGCTTACATAATACACAACTTACA
*
15932701 TAG
64 TAA
** * * * * * * * *
15932704 CTTACATGATACATAACTTACGTAGCTTACAT-A-GTAAATAACTTACATAAAATACAACTTACA
1 AATACATAATACATAACTTACATA--ATACATAACTTACATAGCTTACATAATACACAACTTACA
15932767 TAA
64 TAA
* * * *
15932770 AA-A-AGTCTATGACATAGCTTACATAATACATAACTTACATAGCTTACATAATAAATAACTTAC
1 AATACA-T-AAT-ACATAACTTACATAATACATAACTTACATAGCTTACATAATACACAACTTAC
15932833 ATAA
63 ATAA
* * * * *
15932837 AATACA-AATTACATAGCTTACATAATACGTAACTTACATAACTTATATAATACATAACTTACAT
1 AATACATAA-TACATAACTTACATAATACATAACTTACATAGCTTACATAATACACAACTTACAT
15932901 AA
65 AA
15932903 TTTACTTAAT
Statistics
Matches: 278, Mismatches: 40, Indels: 45
0.77 0.11 0.12
Matches are distributed among these distances:
64 1 0.00
65 8 0.03
66 137 0.49
67 43 0.15
68 13 0.05
69 1 0.00
70 14 0.05
71 3 0.01
72 14 0.05
73 5 0.02
74 8 0.03
75 1 0.00
76 30 0.11
ACGTcount: A:0.46, C:0.19, G:0.04, T:0.31
Consensus pattern (66 bp):
AATACATAATACATAACTTACATAATACATAACTTACATAGCTTACATAATACACAACTTACATA
A
Found at i:15932912 original size:25 final size:25
Alignment explanation
Indices: 15932837--15932915 Score: 92
Period size: 25 Copynumber: 3.2 Consensus size: 25
15932827 ACTTACATAA
* *
15932837 AATACA-AA-TTACATAGCTTACAT
1 AATACATAACTTACATAACTTACTT
*
15932860 AATACGTAACTTACATAACTTA-TAT
1 AATACATAACTTACATAACTTACT-T
*
15932885 AATACATAACTTACATAATTTACTT
1 AATACATAACTTACATAACTTACTT
15932910 AATACA
1 AATACA
15932916 GAAATATATA
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
23 5 0.11
24 2 0.04
25 39 0.83
26 1 0.02
ACGTcount: A:0.47, C:0.16, G:0.03, T:0.34
Consensus pattern (25 bp):
AATACATAACTTACATAACTTACTT
Found at i:15938934 original size:43 final size:43
Alignment explanation
Indices: 15938816--15939039 Score: 236
Period size: 43 Copynumber: 5.2 Consensus size: 43
15938806 TTTTTGGAAA
* * * *
15938816 AAGCACCGATAAAGAACATGACCTTTAGCGGCGCTTGCGGGAA
1 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGCTTGTGGGAT
* * * *
15938859 AAGCGCCGCT--AGAATTCAAGATCTATAGCGGCGATTGTGGGAT
1 AAGCGCCGCTAAAGAA--CATGACCTTTAGCGGCGCTTGTGGGAT
* * * * *
15938902 AAGCGCTGCTAAAGAACATGACCTTTAACGGCGTTTTTGAGAT
1 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGCTTGTGGGAT
* * * *
15938945 AAGCGCTGCTAAAGAACATGACCTTTATCGACGCTTGTGGAAT
1 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGCTTGTGGGAT
* * *
15938988 AAGCGCCGCTAAAGAGCATGACCTTTAGTGGCGTTTGTGGGAT
1 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGCTTGTGGGAT
15939031 AAGCGCCGC
1 AAGCGCCGC
15939040 CAAACTTAGC
Statistics
Matches: 148, Mismatches: 29, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
41 4 0.03
43 140 0.95
45 4 0.03
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.23
Consensus pattern (43 bp):
AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGCTTGTGGGAT
Found at i:15941629 original size:28 final size:27
Alignment explanation
Indices: 15941581--15941640 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 27
15941571 TCACTATAAG
* * *
15941581 TCTTTTTTTTTGATATGATTTCCACTT
1 TCTTTCTTTTTGACATAATTTCCACTT
**
15941608 TCTTTCTTTTTGAACATAATTTTTACTT
1 TCTTTCTTTTTG-ACATAATTTCCACTT
15941636 TCTTT
1 TCTTT
15941641 ATATGATGGA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 11 0.41
28 16 0.59
ACGTcount: A:0.17, C:0.15, G:0.05, T:0.63
Consensus pattern (27 bp):
TCTTTCTTTTTGACATAATTTCCACTT
Found at i:15942660 original size:32 final size:32
Alignment explanation
Indices: 15942624--15942688 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
15942614 AGTTGAATTG
15942624 AAGTTAACATTACTTTCTTTATGTAGATATAT
1 AAGTTAACATTACTTTCTTTATGTAGATATAT
15942656 AAGTTAACATTACTTTCTTTATGTAGATATAT
1 AAGTTAACATTACTTTCTTTATGTAGATATAT
15942688 A
1 A
15942689 TACATATATA
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:0.35, C:0.09, G:0.09, T:0.46
Consensus pattern (32 bp):
AAGTTAACATTACTTTCTTTATGTAGATATAT
Found at i:15947363 original size:709 final size:709
Alignment explanation
Indices: 15942656--15951856 Score: 14760
Period size: 708 Copynumber: 13.0 Consensus size: 709
15942646 GTAGATATAT
* *
15942656 AAGTTAACATTACTTTCTTTATGTAGATATATATACATATATATATCTTTATTCCATTTTCTAAT
1 AAGTTCACATTACTTTCTTTATGTAGATATATATAC--ATATATATCTTTATTCCATTTTGTAAT
15942721 TTGAATTTTAAATTTTATCTGTTAAGGCAGGATATATATTCTTATTTGATAATAAAGCTGTAGAT
64 TTGAATTTTAAATTTTATCTGTTAAGGCAGGATATATATTCTTATTTGATAATAAAGCTGTAGAT
* * * *
15942786 GACTATCCGCATGCATGCGT-G--TA-AAAAAAATTATAAAATAATTTTAAAGCAAGGTTTTAAT
129 GACTGTCTGCACGCATGCGTAGAAAACAAAAAAATTATAAAATAATTTTAAAGCAAGGTTTTAAT
*
15942847 TACAAGTGTACAATGTCGAGATGTAATATTTATAGTGTTACAAGGGAACATGGAGTATTCCAAGG
194 TGCAAGTGTACAATGTCGAGATGTAATATTTATAGTGTTACAAGGGAACATGGAGTATTCCAAGG
15942912 ATCAAGGCCAAGGAATTGCTAAATTGGTAAATGTGATTATCAAGTCAAATATTAATTAAGCAATT
259 ATCAAGGCCAAGGAATTGCTAAATTGGTAAATGTGATTATCAAGTCAAATATTAATTAAGCAATT
* * * *
15942977 ACTAATCTAATTAGTTCAAGAATTATTACTGCAACCGAATAATAATAATGAAGAAATTGAATTTA
324 ACTAATCTAATCAGTTCGAGAATTATTAGTGCAACCGAATAATAATAATGAAGAAATTAAATTTA
*
15943042 AGTTATCAACAAAACTAAATAACCTAATCACTTCCCCCTTGCCTTAAAACTATGCAAATTATCAA
389 AGTTATCAACAAAACTAAATAACCTAATCACTTCCCCCTTGCCTTAGAACTATGCAAATTATCAA
* *
15943107 AGCAATGGTCAATTAATCTATTAATTCCTCACTGAGTTAATAAACATGCTTCGAAGATATCACTC
454 AGCAATGGTCAATTGATCTATTAATTGCTCACTGAGTTAATAAACATGCTTCGAAGATATCACTC
* * * *
15943172 ACCACTCGTAACTCGGAATCACGTCTTAGTCTCATCCTAACTAGAAATTACCACCTAAGATCTCC
519 ACCACTCGTAACTCGGAATCTCCTCTCAGTCTCATCCTAGCTAGAAATTACCACCTAAGATCTCC
* * * *
15943237 TCTCGATCTCACCTAGGCATATAGATCTCTTTTTGGTCTCACTACTTAACACGTTCATAATAAAG
584 TCTCGATCTCACTTAGGCACATAGATCTCTTTTTGGTCTCACTACTTAACGCATTCATAATAAAG
*
15943302 TTATGCATGATAGGATATCCTTTCGGTCTCACCTATCTCACATAGGTGAATAGTTGAATTG
649 TTATGCACGATAGGATATCCTTTCGGTCTCACCTATCTCACATAGGTGAATAGTTGAATTG
* * *
15943363 AAGTTGACATTACTTTCTTTATGTAGATTTATATACATATATATCTTTATTCCATTTTGTACTTT
1 AAGTTCACATTACTTTCTTTATGTAGATATATATACATATATATCTTTATTCCATTTTGTAATTT
* *
15943428 GAATTTTAAATTTTATCTGTTAAGGAAGGATATATATTCTTATTTGATAATAAAGATGTAGATGA
66 GAATTTTAAATTTTATCTGTTAAGGCAGGATATATATTCTTATTTGATAATAAAGCTGTAGATGA
* *
15943493 CTGTCT-CGACGCATGTGTAG--AA-AAAAAAATTATAAAATAATTTTAAAGCAAGGTTTTAGTT
131 CTGTCTGC-ACGCATGCGTAGAAAACAAAAAAATTATAAAATAATTTTAAAGCAAGGTTTTAATT
* * *
15943554 GCAAGTGTACAATGTCGAGATGTAATATTTATAGTATTACAAGGGAAGATGGAGTATTCCAAAGA
195 GCAAGTGTACAATGTCGAGATGTAATATTTATAGTGTTACAAGGGAACATGGAGTATTCCAAGGA
* * *
15943619 TCAAGGACAAGGAATTGCTAAATTAGTAAATGTGATTATTAAGTCAAATATTAATTAAGCAATTA
260 TCAAGGCCAAGGAATTGCTAAATTGGTAAATGTGATTATCAAGTCAAATATTAATTAAGCAATTA
* *
15943684 CTAATCTAATCAATTCGAGAATTATTAGTGCAACCGAATAATATTAATGAAGAAATTAAATTTAA
325 CTAATCTAATCAGTTCGAGAATTATTAGTGCAACCGAATAATAATAATGAAGAAATTAAATTTAA
* * *
15943749 GTTATCAACAAAACTAAATAACCTAATAACTTCCCCC-TGCCTTAGAACTATGCAGATTATCGAA
390 GTTATCAACAAAACTAAATAACCTAATCACTTCCCCCTTGCCTTAGAACTATGCAAATTATCAAA
* * *
15943813 GTAATGGTTAATTGATTTATTAATTGCTCACTGAGTTAATAAACATGCTTCGAAGATATCACTCA
455 GCAATGGTCAATTGATCTATTAATTGCTCACTGAGTTAATAAACATGCTTCGAAGATATCACTCA
*
15943878 CCACTCGTAACTCGGAATCTCCTCTCAGTCTCATCCTAGCAAGAAATTACCACCTAAGATCTCCT
520 CCACTCGTAACTCGGAATCTCCTCTCAGTCTCATCCTAGCTAGAAATTACCACCTAAGATCTCCT
*
15943943 CACGATCTCACTTAGGCACATAGATCTCTTTTTGGTCTCACTACTTAACGCATTCATAATAAAGT
585 CTCGATCTCACTTAGGCACATAGATCTCTTTTTGGTCTCACTACTTAACGCATTCATAATAAAGT
15944008 TATGCACGATAGGATATCCTTTCGGTCTCACCTATCTCACATAGGTGAATAGTTGAATTG
650 TATGCACGATAGGATATCCTTTCGGTCTCACCTATCTCACATAGGTGAATAGTTGAATTG
*
15944068 AAGTTCACATTACTTTCTTTATGTAGATATATATACATATATATCATTATTCCATTTTGTAATTT
1 AAGTTCACATTACTTTCTTTATGTAGATATATATACATATATATCTTTATTCCATTTTGTAATTT
15944133 GAATTTTAAATTTTATCTGTTAAGGCAGGATATATATTCTTATTTGATAATAAAGCTGTAGATGA
66 GAATTTTAAATTTTATCTGTTAAGGCAGGATATATATTCTTATTTGATAATAAAGCTGTAGATGA
* *
15944198 CTGTCTGCACGCATGCGTAGAAAACAAAAAAATTATAAAATAATTTTAAAGTAAGGTTTTAATTA
131 CTGTCTGCACGCATGCGTAGAAAACAAAAAAATTATAAAATAATTTTAAAGCAAGGTTTTAATTG
15944263 CAAGTGTACAATGTCGAGATGTAATATTTATAGTGTTACAAGGGAACATGGAGTATTCCAAGGAT
196 CAAGTGTACAATGTCGAGATGTAATATTTATAGTGTTACAAGGGAACATGGAGTATTCCAAGGAT
*
15944328 CAAGGCCAAGGAATTGCTAAATTGGTAAATGTGATTACCAAGTCAAATATTAATTAAGCAATTAC
261 CAAGGCCAAGGAATTGCTAAATTGGTAAATGTGATTATCAAGTCAAATATTAATTAAGCAATTAC
* * *
15944393 TAATCTAATCAGTTCGAGAATTAATAGTGCAACCGAATAATAATAATCAAGAAATTGAATTTAAG
326 TAATCTAATCAGTTCGAGAATTATTAGTGCAACCGAATAATAATAATGAAGAAATTAAATTTAAG
* * * *
15944458 TTATCAACAAAACTAAGTAACCTAATCACTTCCCCCTTGCCTTAAAACTGTGCAAATTACCAAAG
391 TTATCAACAAAACTAAATAACCTAATCACTTCCCCCTTGCCTTAGAACTATGCAAATTATCAAAG
* * * * *
15944523 AAATGGTCAAATAATCTATTAATTGCTCACTGAGTTAATAAACATGCATCGAAGGTATCACTCAC
456 CAATGGTCAATTGATCTATTAATTGCTCACTGAGTTAATAAACATGCTTCGAAGATATCACTCAC
*
15944588 CACTCGTAACTCGGAATCACCTCTCAGTCTCATCCTAGCTAGAAATTACCACCTAAGATCTCCTC
521 CACTCGTAACTCGGAATCTCCTCTCAGTCTCATCCTAGCTAGAAATTACCACCTAAGATCTCCTC
* * * * *
15944653 TCGATCTCACTTCGACACATAGATCTC-TTTTAGTCTCACTACTTAACGCGTTCATAATAATGTT
586 TCGATCTCACTTAGGCACATAGATCTCTTTTTGGTCTCACTACTTAACGCATTCATAATAAAGTT
*
15944717 ATGCACGATAAGATATCCTTTCGGTCTCACCTATCTCACATAGGTGAATAGTTGAATTG
651 ATGCACGATAGGATATCCTTTCGGTCTCACCTATCTCACATAGGTGAATAGTTGAATTG
* * *
15944776 AAGTTGACATTACTTTCTTTATGTAGATTTATATACATATATATCTTTATTCCATTTTGTACTTT
1 AAGTTCACATTACTTTCTTTATGTAGATATATATACATATATATCTTTATTCCATTTTGTAATTT
* *
15944841 GAATTTTAAATTTTATCTGTTAAGGAAGGATATATATTCTTATTTGATAATAAAGATGTAGATGA
66 GAATTTTAAATTTTATCTGTTAAGGCAGGATATATATTCTTATTTGATAATAAAGCTGTAGATGA
* *
15944906 CTGTCT-CGACGCATGTGTAG--AA-AAAAAAATTATAAAATAATTTTAAAGCAAGGTTTTAGTT
131 CTGTCTGC-ACGCATGCGTAGAAAACAAAAAAATTATAAAATAATTTTAAAGCAAGGTTTTAATT
* * *
15944967 GCAAGTGTACAATGTCGAGATGTAATATTTATAGTATTACAAGGGAAGATGGAGTATTCCAAAGA
195 GCAAGTGTACAATGTCGAGATGTAATATTTATAGTGTTACAAGGGAACATGGAGTATTCCAAGGA
* * *
15945032 TCAAGGACAAGGAATTGCTAAATTAGTAAATGTGATTATTAAGTCAAATATTAATTAAGCAATTA
260 TCAAGGCCAAGGAATTGCTAAATTGGTAAATGTGATTATCAAGTCAAATATTAATTAAGCAATTA
* *
15945097 CTAATCTAATCAATTCGAGAATTATTAGTGCAACCGAATAATATTAATGAAGAAATTAAATTTAA
325 CTAATCTAATCAGTTCGAGAATTATTAGTGCAACCGAATAATAATAATGAAGAAATTAAATTTAA
* * *
15945162 GTTATCAACAAAACTAAATAACCTAATAACTTCCCCC-TGCCTTAGAACTATGCAGATTATCGAA
390 GTTATCAACAAAACTAAATAACCTAATCACTTCCCCCTTGCCTTAGAACTATGCAAATTATCAAA
* * *
15945226 GTAATGGTTAATTGATTTATTAATTGCTCACTGAGTTAATAAACATGCTTCGAAGATATCACTCA
455 GCAATGGTCAATTGATCTATTAATTGCTCACTGAGTTAATAAACATGCTTCGAAGATATCACTCA
*
15945291 CCACTCGTAACTCGGAATCTCCTCTCAGTCTCATCCTAGCAAGAAATTACCACCTAAGATCTCCT
520 CCACTCGTAACTCGGAATCTCCTCTCAGTCTCATCCTAGCTAGAAATTACCACCTAAGATCTCCT
*
15945356 CACGATCTCACTTAGGCACATAGATCTCTTTTTGGTCTCACTACTTAACGCATTCATAATAAAGT
585 CTCGATCTCACTTAGGCACATAGATCTCTTTTTGGTCTCACTACTTAACGCATTCATAATAAAGT
15945421 TATGCACGATAGGATATCCTTTCGGTCTCACCTATCTCACATAGGTGAATAGTTGAATTG
650 TATGCACGATAGGATATCCTTTCGGTCTCACCTATCTCACATAGGTGAATAGTTGAATTG
*
15945481 AAGTTCACATTACTTTCTTTATGTAGATATATATACATATATATCATTATTCCATTTTGTAATTT
1 AAGTTCACATTACTTTCTTTATGTAGATATATATACATATATATCTTTATTCCATTTTGTAATTT
*
15945546 GAATTTTAAATTTTATCTGTTAAGGCAGGATATATATTCTCATTTGATAATAAAGCTGTAGATGA
66 GAATTTTAAATTTTATCTGTTAAGGCAGGATATATATTCTTATTTGATAATAAAGCTGTAGATGA
* *
15945611 CTGTCTGCACGCATGCGTAGAAAACAAAAAAATTATAAAATAATTTTAAAGTAAGGTTTTAATTA
131 CTGTCTGCACGCATGCGTAGAAAACAAAAAAATTATAAAATAATTTTAAAGCAAGGTTTTAATTG
15945676 CAAGTGTACAATGTCGAGATGTAATATTTATAGTGTTACAAGGGAACATGGAGTATTCCAAGGAT
196 CAAGTGTACAATGTCGAGATGTAATATTTATAGTGTTACAAGGGAACATGGAGTATTCCAAGGAT
*
15945741 CAAGGCCAAGGAATTGCTAAATTGGTAAATGTGATTACCAAGTCAAATATTAATTAAGCAATTAC
261 CAAGGCCAAGGAATTGCTAAATTGGTAAATGTGATTATCAAGTCAAATATTAATTAAGCAATTAC
* * *
15945806 TAATCTAATCAGTTCGAGAATTAATAGTGCAACCGAATAATAATAATCAAGAAATTGAATTTAAG
326 TAATCTAATCAGTTCGAGAATTATTAGTGCAACCGAATAATAATAATGAAGAAATTAAATTTAAG
* * * *
15945871 TTATCAACAAAACTAAGTAACCTAATCACTTCCCCCTTGCCTTAAAACTGTGCAAATTACCAAAG
391 TTATCAACAAAACTAAATAACCTAATCACTTCCCCCTTGCCTTAGAACTATGCAAATTATCAAAG
* * * * *
15945936 AAATGGTCAAATAATCTATTAATTGCTCACTGAGTTAATAAACATGCATCGAAGGTATCACTCAC
456 CAATGGTCAATTGATCTATTAATTGCTCACTGAGTTAATAAACATGCTTCGAAGATATCACTCAC
*
15946001 CACTCGTAACTCGGAATCACCTCTCAGTCTCATCCTAGCTAGAAATTACCACCTAAGATCTCCTC
521 CACTCGTAACTCGGAATCTCCTCTCAGTCTCATCCTAGCTAGAAATTACCACCTAAGATCTCCTC
* * * * *
15946066 TCGATCTCACTTCGACACATAGATCTC-TTTTAGTCTCACTACTTAACGCGTTCATAATAATGTT
586 TCGATCTCACTTAGGCACATAGATCTCTTTTTGGTCTCACTACTTAACGCATTCATAATAAAGTT
*
15946130 ATGCACGATAAGATATCCTTTCGGTCTCACCTATCTCACATAGGTGAATAGTTGAATTG
651 ATGCACGATAGGATATCCTTTCGGTCTCACCTATCTCACATAGGTGAATAGTTGAATTG
*
15946189 AAGTTCACATTACTTTCTTTATGTAGATTTATATACATATATATCTTTATTCCATTTTGTAATTT
1 AAGTTCACATTACTTTCTTTATGTAGATATATATACATATATATCTTTATTCCATTTTGTAATTT
* * * *
15946254 GAATTTTAAATTTTATCTGTTAAGGCGGGATATATATTCTTACTTGATAATAAAGATGTAGATCA
66 GAATTTTAAATTTTATCTGTTAAGGCAGGATATATATTCTTATTTGATAATAAAGCTGTAGATGA
* * *
15946319 CTGTCTGGACGCATACGTAGAAAAC---AAAATTATAAAATAATTATAAAGCAAGGTTTTAATTG
131 CTGTCTGCACGCATGCGTAGAAAACAAAAAAATTATAAAATAATTTTAAAGCAAGGTTTTAATTG
* *
15946381 CAAGTGTACAATGTCGAGATGTAATATTTATAGTATTAAAAGGGAACATGGAGTA-T-------T
196 CAAGTGTACAATGTCGAGATGTAATATTTATAGTGTTACAAGGGAACATGGAGTATTCCAAGGAT
* *
15946438 -----CCAAGGAATTGCTAAATTGGTAAATGTGATTCTCAAGTCAAATGTTAATTAAGCAATTAC
261 CAAGGCCAAGGAATTGCTAAATTGGTAAATGTGATTATCAAGTCAAATATTAATTAAGCAATTAC
* * ** *
15946498 TAATCTAATCACTTCAAGAATTATTAGTGCAATTGAATAATAATAATGAAGAAATTACATTTAAG
326 TAATCTAATCAGTTCGAGAATTATTAGTGCAACCGAATAATAATAATGAAGAAATTAAATTTAAG
* * *
15946563 TTATCAACAAAACTAAATAACCTTATCACTTCCCCCGTGCCTTAGAACTGTGCAAATTATCAAAG
391 TTATCAACAAAACTAAATAACCTAATCACTTCCCCCTTGCCTTAGAACTATGCAAATTATCAAAG
**
15946628 CAATGGTCAATTGATCTATTAATTGCTCTTTGAGTTAATAAACATGCTTCGAAGATATCACTCAC
456 CAATGGTCAATTGATCTATTAATTGCTCACTGAGTTAATAAACATGCTTCGAAGATATCACTCAC
* * * *
15946693 CACTCGTAACTCGGAGTCTTCTCTTAGTCTCATCCTAGCTATAAATTACCACCTAAGATCTCCTC
521 CACTCGTAACTCGGAATCTCCTCTCAGTCTCATCCTAGCTAGAAATTACCACCTAAGATCTCCTC
*
15946758 TCGATCTCACTTAGGCACATAGATCTCTTGTTGGTCTCACTACTTAACGCATTCATAATAAAGTT
586 TCGATCTCACTTAGGCACATAGATCTCTTTTTGGTCTCACTACTTAACGCATTCATAATAAAGTT
* *
15946823 ATGGAGGATAGGATATCCTTTCGGTCTCACCTATCTCACATAGGTGAATAGTTGAATTG
651 ATGCACGATAGGATATCCTTTCGGTCTCACCTATCTCACATAGGTGAATAGTTGAATTG
*
15946882 ATGTTCACATTACTTTCTTTATGTAGATATATATACATATATATCTTTATTCCATTTTGTAATTT
1 AAGTTCACATTACTTTCTTTATGTAGATATATATACATATATATCTTTATTCCATTTTGTAATTT
* * * *
15946947 GAATTTTAAATTTTATCTGTTAAGGTAAGATATATATTCTTATTTGTTAATAAAGCTGTAGTTGA
66 GAATTTTAAATTTTATCTGTTAAGGCAGGATATATATTCTTATTTGATAATAAAGCTGTAGATGA
* * * *
15947012 CTGTCCGAACGCATGCGTAAAAAACAAAAAAATTATAAAATAAATTTAAAGCAAGGTTTTAATTG
131 CTGTCTGCACGCATGCGTAGAAAACAAAAAAATTATAAAATAATTTTAAAGCAAGGTTTTAATTG
* * *
15947077 CAAGTGTACAATGTCGAGATGTAATGTTTATAGTGTTACAAGGGAACATGGACTATTCTAAGGAT
196 CAAGTGTACAATGTCGAGATGTAATATTTATAGTGTTACAAGGGAACATGGAGTATTCCAAGGAT
15947142 CAAGGCCAAGGAATTGCTAAATTGGTAAATGTGATTATCAAGTCAAATATTAATTAAGCAATTAC
261 CAAGGCCAAGGAATTGCTAAATTGGTAAATGTGATTATCAAGTCAAATATTAATTAAGCAATTAC
* *
15947207 TAATCTAATCAATTCGGGAATTATTAGTGCAACCGAATAATAATAATGAAGAAATTAAATTTAAG
326 TAATCTAATCAGTTCGAGAATTATTAGTGCAACCGAATAATAATAATGAAGAAATTAAATTTAAG
* *
15947272 TAATCAACAAAACTAAATAACCTAATAACTTCCCCCTTGCCTTAGAACTATGCAAATTATCAAAG
391 TTATCAACAAAACTAAATAACCTAATCACTTCCCCCTTGCCTTAGAACTATGCAAATTATCAAAG
* ** *
15947337 TAATGGTCAATTGATCTAAAAATTGCTCACTGAGTTAATAAACATGCATCGAAGATATCACTCAC
456 CAATGGTCAATTGATCTATTAATTGCTCACTGAGTTAATAAACATGCTTCGAAGATATCACTCAC
* * * * * *
15947402 TACTCATAACTCGGAATCTCCTTTCAGTCTCATCCTAGCAAAAAATTACCACCTCAGATCTCCTC
521 CACTCGTAACTCGGAATCTCCTCTCAGTCTCATCCTAGCTAGAAATTACCACCTAAGATCTCCTC
* * * *
15947467 TCGATCTCACTTAAGCACGTAGATCTCTTTTTGGTCTCACTACTTAATGCATTCATAATAATGTT
586 TCGATCTCACTTAGGCACATAGATCTCTTTTTGGTCTCACTACTTAACGCATTCATAATAAAGTT
*
15947532 ATGGACGATAGGATATCCTTTCGGTCTCACCTATCTCACATAGGTGAATAGTTGAATTG
651 ATGCACGATAGGATATCCTTTCGGTCTCACCTATCTCACATAGGTGAATAGTTGAATTG
* *
15947591 AAGTTTACATTACTTTCTTTATGTAGATATATACACATATATATCTTTATTCCATTTTGTAATTT
1 AAGTTCACATTACTTTCTTTATGTAGATATATATACATATATATCTTTATTCCATTTTGTAATTT
15947656 GAATTTTAAATTTTATCTGTTAAGGCAGGATATATATTCTTATTTGATAATAAAGCTGTAGATGA
66 GAATTTTAAATTTTATCTGTTAAGGCAGGATATATATTCTTATTTGATAATAAAGCTGTAGATGA
* *
15947721 CTGTCTGCACGCATGCATAGAAAACAAAAAAATTATAAAATAATTTTTAAAGAAAGGTTTTAATT
131 CTGTCTGCACGCATGCGTAGAAAACAAAAAAATTATAAAATAA-TTTTAAAGCAAGGTTTTAATT
* *
15947786 GCAAGTGGACAATGTCGAGATGTAATATTTATAGTGTTACAAGGGAACATGGAGTATTCTAAGGA
195 GCAAGTGTACAATGTCGAGATGTAATATTTATAGTGTTACAAGGGAACATGGAGTATTCCAAGGA
* * *
15947851 TCAAGGCCAAGGAATTGCTAAATTGGTAAATGTGATTGTCAAGTCAAATATTAATTAAGTAATTG
260 TCAAGGCCAAGGAATTGCTAAATTGGTAAATGTGATTATCAAGTCAAATATTAATTAAGCAATTA
15947916 CTAATCTAATCAGTTCGAGAATTATTAGTGCAACCGAATAATAATAATGAAGAAATTAAATTTAA
325 CTAATCTAATCAGTTCGAGAATTATTAGTGCAACCGAATAATAATAATGAAGAAATTAAATTTAA
15947981 GTTATCAACAAAACTAAATAACCTAATCACTTCCCCCTTGCCTTAGAACTATGCAAATTATCAAA
390 GTTATCAACAAAACTAAATAACCTAATCACTTCCCCCTTGCCTTAGAACTATGCAAATTATCAAA
* *
15948046 GCAATGGTCAATTGATCTATTAATTGCTCTCTGTGTTAATAAACATGCTTCGAAGATATCACTCA
455 GCAATGGTCAATTGATCTATTAATTGCTCACTGAGTTAATAAACATGCTTCGAAGATATCACTCA
* * * *
15948111 CCACTCGTAACTCGGAGTCTTCTCTTAGTCTCATCCTAGCTATAAATTACCACCTAAGATCTCCT
520 CCACTCGTAACTCGGAATCTCCTCTCAGTCTCATCCTAGCTAGAAATTACCACCTAAGATCTCCT
* * *
15948176 CTCAATCTCACTTAGGCACATAGATATCTTTTTGTTCTCACTACTTAACGCATTCATAATAAAGT
585 CTCGATCTCACTTAGGCACATAGATCTCTTTTTGGTCTCACTACTTAACGCATTCATAATAAAGT
* *
15948241 TATGCAGGATAGGATATCCTTTCGGTCTCACCTATCTCTCATAGGTGAATAGTTGAATTG
650 TATGCACGATAGGATATCCTTTCGGTCTCACCTATCTCACATAGGTGAATAGTTGAATTG
*
15948301 AAGTTCACATTACTTTCTTTATGTAAATATATATACATATATATCTTTATTCCATTTTGTAATTT
1 AAGTTCACATTACTTTCTTTATGTAGATATATATACATATATATCTTTATTCCATTTTGTAATTT
* * * *
15948366 GAATTTTAAATTTTATCCGTTAAGGTAGGATATATATTCTTATTTGTTAATAAAGCTGTAGTTGA
66 GAATTTTAAATTTTATCTGTTAAGGCAGGATATATATTCTTATTTGATAATAAAGCTGTAGATGA
* * * * * *
15948431 TTGTCCG-ATCGCATGCGTAAAAAACCAAAATATTATAAAATAAATTTAAAGCAAGGTTTTAATT
131 CTGTCTGCA-CGCATGCGTAGAAAACAAAAAAATTATAAAATAATTTTAAAGCAAGGTTTTAATT
* * *
15948495 GCAAGTGTACAATGTCGAGATGTAATGTTTATAGTGTTACAAGGGAACATGGACTATTCTAAGGA
195 GCAAGTGTACAATGTCGAGATGTAATATTTATAGTGTTACAAGGGAACATGGAGTATTCCAAGGA
*
15948560 TCAAGGCCAATGAATTGCTAAATTGGTAAATGTGATTATCAAGTCAAATATTAATTAAGCAATTA
260 TCAAGGCCAAGGAATTGCTAAATTGGTAAATGTGATTATCAAGTCAAATATTAATTAAGCAATTA
* * *
15948625 CTAATCTAATCAATTCGGGAATTATTAGTGCAACCAAATAATAATAATGAAGAAATTAAATTTAA
325 CTAATCTAATCAGTTCGAGAATTATTAGTGCAACCGAATAATAATAATGAAGAAATTAAATTTAA
*
15948690 GTAATCAACAAAACTAAATAACCTAATCACTTCCCCCTTGCCTTAGAACTATGCAAATTATCAAA
390 GTTATCAACAAAACTAAATAACCTAATCACTTCCCCCTTGCCTTAGAACTATGCAAATTATCAAA
* **
15948755 GCAATGGTCAATTAATCTATTAATTGCTCACTGAGTTAATAAACATGCTTCGAAGATAAAACTCA
455 GCAATGGTCAATTGATCTATTAATTGCTCACTGAGTTAATAAACATGCTTCGAAGATATCACTCA
* * *
15948820 CCACTCGTAACTCGGAATCTCCACTCAGTCTTATCCTAGCTAAAAATTACCACCTAAGATCTCCT
520 CCACTCGTAACTCGGAATCTCCTCTCAGTCTCATCCTAGCTAGAAATTACCACCTAAGATCTCCT
* * * *
15948885 CTTGATCTCACTTACGCACATAGATCTCTTTTTGGTCTCACTACTTAATGCGTTCATAATAAAGT
585 CTCGATCTCACTTAGGCACATAGATCTCTTTTTGGTCTCACTACTTAACGCATTCATAATAAAGT
15948950 TATGCACGATAGGATATCCTTTCGGTCTCACCTATCTCACATAGGTGAATAGTTGAATTG
650 TATGCACGATAGGATATCCTTTCGGTCTCACCTATCTCACATAGGTGAATAGTTGAATTG
*
15949010 AAGTTCACATTACTTTCTTTATGTAGATATATATACATATATATCTTTATTCCATTTTGTAATTG
1 AAGTTCACATTACTTTCTTTATGTAGATATATATACATATATATCTTTATTCCATTTTGTAATTT
** * **
15949075 GAATTTTAAATTTTATCTGTTTTGGCAGGATATAAATTCTTATTTGATAATAAATATGTAGATGA
66 GAATTTTAAATTTTATCTGTTAAGGCAGGATATATATTCTTATTTGATAATAAAGCTGTAGATGA
* *
15949140 C--TCTGCACGCATGCGTAGAAAACAAAAAAAATTGTAAAATAATTTTAAAGCAATGTTTTAATT
131 CTGTCTGCACGCATGCGTAGAAAAC-AAAAAAATTATAAAATAATTTTAAAGCAAGGTTTTAATT
** * **
15949203 GCAAGTGTACAATGTCGAGATGTAATATTTATAGCATTACAAGGGAACAAGGAGTATTAAAAGGA
195 GCAAGTGTACAATGTCGAGATGTAATATTTATAGTGTTACAAGGGAACATGGAGTATTCCAAGGA
* * *
15949268 TCAAGTCGAAGGAATTGCTAAATTGGTAAATGTGATTATCAAGTCAAATGTTAATTAAGCAATTA
260 TCAAGGCCAAGGAATTGCTAAATTGGTAAATGTGATTATCAAGTCAAATATTAATTAAGCAATTA
* *
15949333 CTAATCTAATCAATTCGAGAATTATTAGTGCAACCGAATAATAATAATGAAGAAATTACATTTAA
325 CTAATCTAATCAGTTCGAGAATTATTAGTGCAACCGAATAATAATAATGAAGAAATTAAATTTAA
* *
15949398 GTTATCAACAAAACTAAATAACCTAATAACTTCCCCC-TGCCTTAGAACTATGCAGATTATCAAA
390 GTTATCAACAAAACTAAATAACCTAATCACTTCCCCCTTGCCTTAGAACTATGCAAATTATCAAA
*
15949462 GTAATGGTCAATTGATCTATTAATTGCTCACTGAGTTAATAAACATGCTTCGAAGATATCACTCA
455 GCAATGGTCAATTGATCTATTAATTGCTCACTGAGTTAATAAACATGCTTCGAAGATATCACTCA
** *
15949527 CCACTCGTAACTTAGAATCTCCTCTCAGTCTCATCCTAGCAAGAAATTACCACCTAAGATCTCCT
520 CCACTCGTAACTCGGAATCTCCTCTCAGTCTCATCCTAGCTAGAAATTACCACCTAAGATCTCCT
15949592 CAT-GATCTCACTTAGGCACATAGATCTCTTTTTGGTCTCACTACTTAACGCATTCATAATAAAG
585 C-TCGATCTCACTTAGGCACATAGATCTCTTTTTGGTCTCACTACTTAACGCATTCATAATAAAG
*
15949656 TTATGCACGATAGGATATCAC-TTCAGTCTCACCTATCTCACATAGGTGAATAGTTGAATTG
649 TTATGCACGATAGGATATC-CTTTCGGTCTCACCTATCTCACATAGGTGAATAGTTGAATTG
*
15949717 AAGTTCACATTACTTTCTTTATGTAGATATATATACATATATATCTTTATTCCATTTTTTAATTT
1 AAGTTCACATTACTTTCTTTATGTAGATATATATACATATATATCTTTATTCCATTTTGTAATTT
*
15949782 GAATTTTAAATTTTATCTCTTAAGGCAGGATATATATTCTTATTTGATAATAAAGCTGTAGATGA
66 GAATTTTAAATTTTATCTGTTAAGGCAGGATATATATTCTTATTTGATAATAAAGCTGTAGATGA
* * *
15949847 CTGTCTGCATGCATGCGTAGAAAACAAAAAAATTATAAAATAATTTTAAAGTAAGGTTTTAATTA
131 CTGTCTGCACGCATGCGTAGAAAACAAAAAAATTATAAAATAATTTTAAAGCAAGGTTTTAATTG
*
15949912 CAAGTGTACAATGTTGAGATGTAATATTTATAGTGTTACAAGGGAACATGGAGTATTCCAAGGAT
196 CAAGTGTACAATGTCGAGATGTAATATTTATAGTGTTACAAGGGAACATGGAGTATTCCAAGGAT
*
15949977 CAAGGCCAAGGAATTGCTAAATTGGTAAATGTGATTACCAAGTCAAATATTAATTAAGCAATTAC
261 CAAGGCCAAGGAATTGCTAAATTGGTAAATGTGATTATCAAGTCAAATATTAATTAAGCAATTAC
* * * *
15950042 TAATCTAATCAGTTTGAGAGTTAATAGTGCAACCGAATAATAATAATGAAGAAATTGAATTTAAG
326 TAATCTAATCAGTTCGAGAATTATTAGTGCAACCGAATAATAATAATGAAGAAATTAAATTTAAG
* * * *
15950107 TTATCAACAAAACTAAATAACCTAATCATTTCCCCCTTGCCTTAAAACTGTGCAAATTACCAAAG
391 TTATCAACAAAACTAAATAACCTAATCACTTCCCCCTTGCCTTAGAACTATGCAAATTATCAAAG
* * * *
15950172 CAATGGTCAAATAATCTATTAATTGCTCACTGAGTTAATAAACATGCATCGAAGGTATCACTCAC
456 CAATGGTCAATTGATCTATTAATTGCTCACTGAGTTAATAAACATGCTTCGAAGATATCACTCAC
*
15950237 CACTCGTAACTCGGAATCACCTCTCAGTCTCATCCTAGCTAGAAATTACCACCTAAGATCTCCTC
521 CACTCGTAACTCGGAATCTCCTCTCAGTCTCATCCTAGCTAGAAATTACCACCTAAGATCTCCTC
* * * * *
15950302 TCGATCTCACTTCGACACATAGATCTC-TTTTAGTCTCACTACTTAACGCGTTCATAATAATGTT
586 TCGATCTCACTTAGGCACATAGATCTCTTTTTGGTCTCACTACTTAACGCATTCATAATAAAGTT
*
15950366 ATGCACGATAAGATATCCTTTCGGTCTCACCTATCTCACATAGGTGAATAGTTGAATTG
651 ATGCACGATAGGATATCCTTTCGGTCTCACCTATCTCACATAGGTGAATAGTTGAATTG
*
15950425 AAGTTCACATTACTTTCTTTATGTAGATTTATATACATATATATCTTTATTCCATTTTGTAATTT
1 AAGTTCACATTACTTTCTTTATGTAGATATATATACATATATATCTTTATTCCATTTTGTAATTT
* * *
15950490 GAATTTCAAATTTTATCTATTAAGGCAGGATATATATTCTTATTTGATAATGAAGCTGTAGATGA
66 GAATTTTAAATTTTATCTGTTAAGGCAGGATATATATTCTTATTTGATAATAAAGCTGTAGATGA
* *
15950555 CTGTCTGCACGCATGCGTAGAAAACAAAAAAATTTTAAAATAATTTTAAAGAAAGGTTTTAATTG
131 CTGTCTGCACGCATGCGTAGAAAACAAAAAAATTATAAAATAATTTTAAAGCAAGGTTTTAATTG
* * *
15950620 CAAGTGTACAATGTCGAGATGTAATAGTTATAGTGTTACAAGGGAACAAGGAGTATTCTAAGGAT
196 CAAGTGTACAATGTCGAGATGTAATATTTATAGTGTTACAAGGGAACATGGAGTATTCCAAGGAT
15950685 CAAGGCCAAGGAATTGCTAAATTGGTAAATGTGATT-TCCAAGTCAAATATTAATTAAGCAATTA
261 CAAGGCCAAGGAATTGCTAAATTGGTAAATGTGATTAT-CAAGTCAAATATTAATTAAGCAATTA
*
15950749 CTAATCTAATCAGTTCGAGAATTATTAGTGCAACCCAATAATAATAATGAAGAAATTAAATTTAA
325 CTAATCTAATCAGTTCGAGAATTATTAGTGCAACCGAATAATAATAATGAAGAAATTAAATTTAA
**
15950814 GTTATCAACAAAACTAAATATTCTAATCACTTCCCCCTTGCCTTAG-ACTATGCAAATTATCAAA
390 GTTATCAACAAAACTAAATAACCTAATCACTTCCCCCTTGCCTTAGAACTATGCAAATTATCAAA
* * * * *
15950878 GCAATGGTCAATTAATCTAGTAATTACTCACTGTGTTAATAAACATGCTTCGAAGCTATCACTCA
455 GCAATGGTCAATTGATCTATTAATTGCTCACTGAGTTAATAAACATGCTTCGAAGATATCACTCA
* * * *
15950943 CCACTCATAACTCGTAATCTTCTCTTAGTCTCATCCTAGCTAGAAATTACCACCTAAGATCTCCT
520 CCACTCGTAACTCGGAATCTCCTCTCAGTCTCATCCTAGCTAGAAATTACCACCTAAGATCTCCT
* * *
15951008 CTCGATCTCACCTAGGCACATAGATCTCTTTTTGGTCTCACTACTTAACGCGTTCATAATAAAGG
585 CTCGATCTCACTTAGGCACATAGATCTCTTTTTGGTCTCACTACTTAACGCATTCATAATAAAGT
* *
15951073 TATGTAC-ACTAGGATATCCTTTCGGTCTCACCTATCTGACATAGGTGAATAGTTGAATTG
650 TATGCACGA-TAGGATATCCTTTCGGTCTCACCTATCTCACATAGGTGAATAGTTGAATTG
15951133 AAGTTCACATTACTTTCTTTTTATTGATATATATAAGTTAACATTACTTTGTTTGTGTAGATATA
1 AAGTTCACATTACTTTC---------------------T----TTA---------TGTAGATATA
15951198 TATACATATATATATATCTTTATTCCATTTTGTAATTTGAATTTTAAATTTTATCTGTTAAGGCA
32 TATAC----ATATATATCTTTATTCCATTTTGTAATTTGAATTTTAAATTTTATCTGTTAAGGCA
* *
15951263 GGATATATATTCTTATTTTATAATAAAGATGTAGATGACTGTCTGCACGCATGCGTAGAAAACAA
93 GGATATATATTCTTATTTGATAATAAAGCTGTAGATGACTGTCTGCACGCATGCGTAGAAAACAA
* *
15951328 AAAAATTATAAAATAATTTTAAACCAAGGTTTTAATTGCAAGTGTACAATGTCGAAATGTAATAT
158 AAAAATTATAAAATAATTTTAAAGCAAGGTTTTAATTGCAAGTGTACAATGTCGAGATGTAATAT
* *
15951393 TTATAGTATTACAAGGGAACATTGAGTATTCCAAGGATCAAGGCCAAGGAATTGCTAAATTGGTA
223 TTATAGTGTTACAAGGGAACATGGAGTATTCCAAGGATCAAGGCCAAGGAATTGCTAAATTGGTA
* *
15951458 AATGTGGTTATCAAGTCAAATATTAATTAAGCAATTACTAATCTAATCATTTCGAGAATTATTAG
288 AATGTGATTATCAAGTCAAATATTAATTAAGCAATTACTAATCTAATCAGTTCGAGAATTATTAG
* *
15951523 TGCAACCAAATAATAATAATGAAGAAATTAAATTTAAGTTATCAACAAAACAAAATAACCTAATC
353 TGCAACCGAATAATAATAATGAAGAAATTAAATTTAAGTTATCAACAAAACTAAATAACCTAATC
* * *
15951588 ACTTCCCCCTTGCCTTAGAACTATGCAAATTATTAAAGCAATGGTCAATTGGTCTATTAATTTCT
418 ACTTCCCCCTTGCCTTAGAACTATGCAAATTATCAAAGCAATGGTCAATTGATCTATTAATTGCT
* * * * *
15951653 CACTGAGTGAATAAACATGCTTTGAAGATAACACTCACCACTTGTAACTCGAAATCTCCTCTCAG
483 CACTGAGTTAATAAACATGCTTCGAAGATATCACTCACCACTCGTAACTCGGAATCTCCTCTCAG
*
15951718 TCTCATCCTAGCTAGAAATTAACACCTAAGATCTCCTCTCGATCTCACTTAGGCACATAGATCTC
548 TCTCATCCTAGCTAGAAATTACCACCTAAGATCTCCTCTCGATCTCACTTAGGCACATAGATCTC
*
15951783 TTTTTGGTCTCACTACTTAACGCATTCATAATAAATTTATGCACGATAGGATATCCTTTCGGTCT
613 TTTTTGGTCTCACTACTTAACGCATTCATAATAAAGTTATGCACGATAGGATATCCTTTCGGTCT
*
15951848 CACCGATCT
678 CACCTATCT
15951857 TGATTTTCCA
Statistics
Matches: 7839, Mismatches: 569, Indels: 132
0.92 0.07 0.02
Matches are distributed among these distances:
692 317 0.04
693 230 0.03
696 86 0.01
697 2 0.00
704 171 0.02
705 1079 0.14
706 262 0.03
707 605 0.08
708 2087 0.27
709 1720 0.22
710 657 0.08
729 1 0.00
733 3 0.00
742 14 0.00
746 377 0.05
747 227 0.03
748 1 0.00
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (709 bp):
AAGTTCACATTACTTTCTTTATGTAGATATATATACATATATATCTTTATTCCATTTTGTAATTT
GAATTTTAAATTTTATCTGTTAAGGCAGGATATATATTCTTATTTGATAATAAAGCTGTAGATGA
CTGTCTGCACGCATGCGTAGAAAACAAAAAAATTATAAAATAATTTTAAAGCAAGGTTTTAATTG
CAAGTGTACAATGTCGAGATGTAATATTTATAGTGTTACAAGGGAACATGGAGTATTCCAAGGAT
CAAGGCCAAGGAATTGCTAAATTGGTAAATGTGATTATCAAGTCAAATATTAATTAAGCAATTAC
TAATCTAATCAGTTCGAGAATTATTAGTGCAACCGAATAATAATAATGAAGAAATTAAATTTAAG
TTATCAACAAAACTAAATAACCTAATCACTTCCCCCTTGCCTTAGAACTATGCAAATTATCAAAG
CAATGGTCAATTGATCTATTAATTGCTCACTGAGTTAATAAACATGCTTCGAAGATATCACTCAC
CACTCGTAACTCGGAATCTCCTCTCAGTCTCATCCTAGCTAGAAATTACCACCTAAGATCTCCTC
TCGATCTCACTTAGGCACATAGATCTCTTTTTGGTCTCACTACTTAACGCATTCATAATAAAGTT
ATGCACGATAGGATATCCTTTCGGTCTCACCTATCTCACATAGGTGAATAGTTGAATTG
Found at i:15951177 original size:34 final size:34
Alignment explanation
Indices: 15951133--15951201 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
15951123 AGTTGAATTG
* * *
15951133 AAGTTCACATTACTTTCTTTTTATTGATATATAT
1 AAGTTAACATTACTTTCTTTGTATAGATATATAT
* *
15951167 AAGTTAACATTACTTTGTTTGTGTAGATATATAT
1 AAGTTAACATTACTTTCTTTGTATAGATATATAT
15951201 A
1 A
15951202 CATATATATA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.32, C:0.09, G:0.10, T:0.49
Consensus pattern (34 bp):
AAGTTAACATTACTTTCTTTGTATAGATATATAT
Found at i:15960233 original size:13 final size:13
Alignment explanation
Indices: 15960215--15960277 Score: 58
Period size: 13 Copynumber: 4.8 Consensus size: 13
15960205 GGGAAAGCAT
15960215 AAAAGAAAAAGGA
1 AAAAGAAAAAGGA
15960228 AAAAGAAAAA--A
1 AAAAGAAAAAGGA
*
15960239 AAACAGAAAAAAAGA
1 AAA-AG-AAAAAGGA
*
15960254 AATAGAAAAAGTGA
1 AAAAGAAAAAG-GA
*
15960268 AATAGAAAAA
1 AAAAGAAAAA
15960278 TAAATTATCA
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
11 4 0.09
12 2 0.05
13 20 0.47
14 14 0.33
15 3 0.07
ACGTcount: A:0.78, C:0.02, G:0.16, T:0.05
Consensus pattern (13 bp):
AAAAGAAAAAGGA
Found at i:15960238 original size:14 final size:14
Alignment explanation
Indices: 15960215--15960277 Score: 53
Period size: 14 Copynumber: 4.7 Consensus size: 14
15960205 GGGAAAGCAT
15960215 AAAAG-AAAAAGGA
1 AAAAGAAAAAAGGA
15960228 AAAAGAAAAAA--A
1 AAAAGAAAAAAGGA
* *
15960240 AACAGAAAAAAAGA
1 AAAAGAAAAAAGGA
*
15960254 AATAG-AAAAAGTGA
1 AAAAGAAAAAAG-GA
*
15960268 AATAGAAAAA
1 AAAAGAAAAA
15960278 TAAATTATCA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
12 11 0.26
13 10 0.24
14 17 0.40
15 4 0.10
ACGTcount: A:0.78, C:0.02, G:0.16, T:0.05
Consensus pattern (14 bp):
AAAAGAAAAAAGGA
Found at i:15964478 original size:50 final size:50
Alignment explanation
Indices: 15963517--15964466 Score: 453
Period size: 50 Copynumber: 19.0 Consensus size: 50
15963507 TACAATGTCG
* * *
15963517 GGGAAGCAAGATTTGTC-GTTGTGGCTTTAATCTATTCCACTGCACCGCCT
1 GGGAAGTAAGATTCG-CAGTTGTGGCTTTAATCTATTCCACTGCATCGCCT
* * * * * ** * * *
15963567 GGGAAGTAAGATTCATC-GTTGTAGCTTCAGTCTTTTTAATTGCAAT-GTCG
1 GGGAAGTAAGATTC-GCAGTTGTGGCTTTAATCTATTCCACTGC-ATCGCCT
* * * * * *
15963617 GGGAAGCATGATTCGCTA-TTGTGGCTTCAATCTGTTCCACTACACCGCCT
1 GGGAAGTAAGATTCGC-AGTTGTGGCTTTAATCTATTCCACTGCATCGCCT
* * * * * ** *
15963667 GGGAAATAAGATTCACTGTTGTAGCTTTAATCTTTTTAACTGCAAT-GTC-
1 GGGAAGTAAGATTCGCAGTTGTGGCTTTAATCTATTCCACTGC-ATCGCCT
* * * * *
15963716 GGGAAAGTAAGATTTGCCGTTGTGGCTTTAATCTGTTCCACTACACCGCCT
1 GGG-AAGTAAGATTCGCAGTTGTGGCTTTAATCTATTCCACTGCATCGCCT
** * * ** * *
15963767 GGGAAGTAAGATTCGTTGTTGTAGCTTTAATCTTTTTAACTGCAAT-GTCG
1 GGGAAGTAAGATTCGCAGTTGTGGCTTTAATCTATTCCACTGC-ATCGCCT
* * * * * * * **
15963817 GGGAAGCATGATTCACCGTTGTGGCTTTAATCTGTTCCACTACACCATCT
1 GGGAAGTAAGATTCGCAGTTGTGGCTTTAATCTATTCCACTGCATCGCCT
* * * * ** * *
15963867 GGGAAGGAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAAT-GTCG
1 GGGAAGTAAGATTCGCAGTTGTGGCTTTAATCTATTCCACTGC-ATCGCCT
* * * * *
15963917 GGGAAGCATGATTCGCCA-TTGTGGCTTTAATCTGTTCCACTACACCGCCT
1 GGGAAGTAAGATTCG-CAGTTGTGGCTTTAATCTATTCCACTGCATCGCCT
* * * * ** * *
15963967 GGGAAGTAAGATTCTCTGTTGTAGCTTTAATCTTTTTAACTGCAAT-GTCA
1 GGGAAGTAAGATTCGCAGTTGTGGCTTTAATCTATTCCACTGC-ATCGCCT
* * * * * *
15964017 GGGAAGAAAGATTCGTC-GTTATGGCTTTAATCTGTTCCACTACACCACCT
1 GGGAAGTAAGATTCG-CAGTTGTGGCTTTAATCTATTCCACTGCATCGCCT
* * ** * *
15964067 GGGAAGTAAGATTCGCTGTTGTAGCTTTAATC-ATTTTAACTGCAAT-GTCG
1 GGGAAGTAAGATTCGCAGTTGTGGCTTTAATCTA-TTCCACTGC-ATCGCCT
* * * * * *
15964117 GGGAAGCATGATTTGTC-GTTGTGGCTTTAATCTGTTCCACTACACCGCCT
1 GGGAAGTAAGATTCG-CAGTTGTGGCTTTAATCTATTCCACTGCATCGCCT
* * * * * ** * *
15964167 GGGAAGTAAGCTTCACTGTTGTAGCTTTAATCTTTTTAACTGCAAT-GTCG
1 GGGAAGTAAGATTCGCAGTTGTGGCTTTAATCTATTCCACTGC-ATCGCCT
* * * * * * *
15964217 GGGAAGCATGATTCACCGTTGTGGCTTTAATCTGTTCCACTACACCGCCT
1 GGGAAGTAAGATTCGCAGTTGTGGCTTTAATCTATTCCACTGCATCGCCT
* * * * ** * *
15964267 GAGAAGTAAGATTCACTGTTGTAGCTTTAATCCT-TTTAACTGCAAT-GTCG
1 GGGAAGTAAGATTCGCAGTTGTGGCTTTAAT-CTATTCCACTGC-ATCGCCT
* * * * * * *
15964317 GGGAAGCATGATTCGCCGTTGTGGCTTTAATCTGTTCCACTACACCGCTT
1 GGGAAGTAAGATTCGCAGTTGTGGCTTTAATCTATTCCACTGCATCGCCT
* * * * ** *
15964367 GGGAAGTAAGATTCGCTGTTATAGCTTTAATCTTTTTAACTGCAAT-GTC-
1 GGGAAGTAAGATTCGCAGTTGTGGCTTTAATCTATTCCACTGC-ATCGCCT
*
15964416 GGGAAAGCAAGATTCGCAGTTGTGGCTTTAATCTATTCCACTGCATCGCCT
1 GGG-AAGTAAGATTCGCAGTTGTGGCTTTAATCTATTCCACTGCATCGCCT
15964467 AGGAGATAAG
Statistics
Matches: 652, Mismatches: 212, Indels: 71
0.70 0.23 0.08
Matches are distributed among these distances:
49 22 0.03
50 613 0.94
51 17 0.03
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.34
Consensus pattern (50 bp):
GGGAAGTAAGATTCGCAGTTGTGGCTTTAATCTATTCCACTGCATCGCCT
Found at i:15964478 original size:100 final size:100
Alignment explanation
Indices: 15963470--15964466 Score: 1510
Period size: 100 Copynumber: 10.0 Consensus size: 100
15963460 AACTTTTGGA
** * * * * *
15963470 AAGTAAGATTCGCCATTGTAGCTTCAATCTTTTTAACTACAATGTCGGGGAAGCAAGATTTGTCG
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCATGATTCGCCG
* *
15963535 TTGTGGCTTTAATCTATTCCACTGCACCGCCTGGG
66 TTGTGGCTTTAATCTGTTCCACTACACCGCCTGGG
* * * * *
15963570 AAGTAAGATTC-ATCGTTGTAGCTTCAGTCTTTTTAATTGCAATGTCGGGGAAGCATGATTCGCT
1 AAGTAAGATTCGCT-GTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCATGATTCGCC
* *
15963634 ATTGTGGCTTCAATCTGTTCCACTACACCGCCTGGG
65 GTTGTGGCTTTAATCTGTTCCACTACACCGCCTGGG
* * * * * *
15963670 AAATAAGATTCACTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGAAAGTAAGATTTGCCG
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCATGATTCGCCG
15963735 TTGTGGCTTTAATCTGTTCCACTACACCGCCTGGG
66 TTGTGGCTTTAATCTGTTCCACTACACCGCCTGGG
* *
15963770 AAGTAAGATTCGTTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCATGATTCACCG
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCATGATTCGCCG
**
15963835 TTGTGGCTTTAATCTGTTCCACTACACCATCTGGG
66 TTGTGGCTTTAATCTGTTCCACTACACCGCCTGGG
* *
15963870 AAGGAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCATGATTCGCCA
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCATGATTCGCCG
15963935 TTGTGGCTTTAATCTGTTCCACTACACCGCCTGGG
66 TTGTGGCTTTAATCTGTTCCACTACACCGCCTGGG
* * * * *
15963970 AAGTAAGATTCTCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCAGGGAAGAAAGATTCGTCG
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCATGATTCGCCG
* *
15964035 TTATGGCTTTAATCTGTTCCACTACACCACCTGGG
66 TTGTGGCTTTAATCTGTTCCACTACACCGCCTGGG
* * *
15964070 AAGTAAGATTCGCTGTTGTAGCTTTAATCATTTTAACTGCAATGTCGGGGAAGCATGATTTGTCG
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCATGATTCGCCG
15964135 TTGTGGCTTTAATCTGTTCCACTACACCGCCTGGG
66 TTGTGGCTTTAATCTGTTCCACTACACCGCCTGGG
* * *
15964170 AAGTAAGCTTCACTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCATGATTCACCG
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCATGATTCGCCG
*
15964235 TTGTGGCTTTAATCTGTTCCACTACACCGCCTGAG
66 TTGTGGCTTTAATCTGTTCCACTACACCGCCTGGG
* *
15964270 AAGTAAGATTCACTGTTGTAGCTTTAATCCTTTTAACTGCAATGTCGGGGAAGCATGATTCGCCG
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCATGATTCGCCG
*
15964335 TTGTGGCTTTAATCTGTTCCACTACACCGCTTGGG
66 TTGTGGCTTTAATCTGTTCCACTACACCGCCTGGG
* * * *
15964370 AAGTAAGATTCGCTGTTATAGCTTTAATCTTTTTAACTGCAATGTCGGGAAAGCAAGATTCGCAG
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCATGATTCGCCG
* * *
15964435 TTGTGGCTTTAATCTATTCCACTGCATCGCCT
66 TTGTGGCTTTAATCTGTTCCACTACACCGCCT
15964467 AGGAGATAAG
Statistics
Matches: 814, Mismatches: 81, Indels: 4
0.91 0.09 0.00
Matches are distributed among these distances:
100 813 1.00
101 1 0.00
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.34
Consensus pattern (100 bp):
AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCATGATTCGCCG
TTGTGGCTTTAATCTGTTCCACTACACCGCCTGGG
Found at i:15964709 original size:44 final size:44
Alignment explanation
Indices: 15964618--15964827 Score: 251
Period size: 44 Copynumber: 4.8 Consensus size: 44
15964608 ATCTATGATT
* * *
15964618 TTCAATCTATTCCACTACT-CCCAGGGAGATAGAATTCACCATT
1 TTCAATCTATTCCACTACTGCCCAGGGAGATAGAACTCACAATC
* * * * *
15964661 TTCAACCTATTCCACTATTGACCAGGGAAATAGGACTCACAATC
1 TTCAATCTATTCCACTACTGCCCAGGGAGATAGAACTCACAATC
* * * * *
15964705 TTCAATCTATTCCGCTACTGCCCAAGGAGATATAATTCACCATC
1 TTCAATCTATTCCACTACTGCCCAGGGAGATAGAACTCACAATC
* * * *
15964749 TTCAACCTATTCCACTACTGACCAGGGAAATAGGACTCACAATC
1 TTCAATCTATTCCACTACTGCCCAGGGAGATAGAACTCACAATC
*
15964793 TTCAATATATTCCACTACTGCCCAGGGAGATAGAA
1 TTCAATCTATTCCACTACTGCCCAGGGAGATAGAA
15964828 TTGGTATCTG
Statistics
Matches: 134, Mismatches: 32, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
43 17 0.13
44 117 0.87
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.27
Consensus pattern (44 bp):
TTCAATCTATTCCACTACTGCCCAGGGAGATAGAACTCACAATC
Found at i:15964761 original size:88 final size:88
Alignment explanation
Indices: 15964618--15964829 Score: 363
Period size: 88 Copynumber: 2.4 Consensus size: 88
15964608 ATCTATGATT
* *
15964618 TTCAATCTATTCCACTACT-CCCAGGGAGATAGAATTCACCATTTTCAACCTATTCCACTATTGA
1 TTCAATCTATTCCACTACTGCCCAGGGAGATAGAATTCACCATCTTCAACCTATTCCACTACTGA
15964682 CCAGGGAAATAGGACTCACAATC
66 CCAGGGAAATAGGACTCACAATC
* * *
15964705 TTCAATCTATTCCGCTACTGCCCAAGGAGATATAATTCACCATCTTCAACCTATTCCACTACTGA
1 TTCAATCTATTCCACTACTGCCCAGGGAGATAGAATTCACCATCTTCAACCTATTCCACTACTGA
15964770 CCAGGGAAATAGGACTCACAATC
66 CCAGGGAAATAGGACTCACAATC
*
15964793 TTCAATATATTCCACTACTGCCCAGGGAGATAGAATT
1 TTCAATCTATTCCACTACTGCCCAGGGAGATAGAATT
15964830 GGTATCTGCG
Statistics
Matches: 115, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
87 18 0.16
88 97 0.84
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.27
Consensus pattern (88 bp):
TTCAATCTATTCCACTACTGCCCAGGGAGATAGAATTCACCATCTTCAACCTATTCCACTACTGA
CCAGGGAAATAGGACTCACAATC
Found at i:15966252 original size:45 final size:45
Alignment explanation
Indices: 15966202--15966290 Score: 135
Period size: 46 Copynumber: 2.0 Consensus size: 45
15966192 TTTATTTTTA
*
15966202 TTTTTT-GAACTCAAAGCGCCCTTTGCGGGTTTTCACCTTGGTCTT
1 TTTTTTAGAA-TCAAAGCGCCCTTTGCGGGTTTCCACCTTGGTCTT
*
15966247 TTTTTTAGGAATCAAATCGCCCTTTGCGGGTTTCCACCTTGGTC
1 TTTTTTA-GAATCAAAGCGCCCTTTGCGGGTTTCCACCTTGGTC
15966291 CCTTCTCCTT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
45 6 0.15
46 31 0.77
47 3 0.08
ACGTcount: A:0.15, C:0.25, G:0.20, T:0.40
Consensus pattern (45 bp):
TTTTTTAGAATCAAAGCGCCCTTTGCGGGTTTCCACCTTGGTCTT
Found at i:15967184 original size:15 final size:15
Alignment explanation
Indices: 15967166--15967278 Score: 54
Period size: 15 Copynumber: 7.3 Consensus size: 15
15967156 TTCATTTTGA
15967166 TTTTGATTTTGATTT
1 TTTTGATTTTGATTT
** **
15967181 TTTTTCTTTTTTTCTT
1 TTTTGATTTTGAT-TT
15967197 TTTTG-TTTT--TTT
1 TTTTGATTTTGATTT
** *
15967209 TATTTTTTTTTCATTTT
1 T-TTTGATTTTGA-TTT
*
15967226 TTTTGATTTTGTTTT
1 TTTTGATTTTGATTT
15967241 TTTTGATTGATTGATCTT
1 TTTTGATT--TTGAT-TT
15967259 TTTT-ATATTTCGATTT
1 TTTTGAT-TTT-GATTT
15967275 TTTT
1 TTTT
15967279 ATTGAATCTG
Statistics
Matches: 76, Mismatches: 11, Indels: 21
0.70 0.10 0.19
Matches are distributed among these distances:
12 3 0.04
13 4 0.05
14 4 0.05
15 24 0.32
16 21 0.28
17 13 0.17
18 7 0.09
ACGTcount: A:0.10, C:0.04, G:0.08, T:0.78
Consensus pattern (15 bp):
TTTTGATTTTGATTT
Found at i:15967186 original size:36 final size:33
Alignment explanation
Indices: 15967146--15967248 Score: 118
Period size: 36 Copynumber: 2.9 Consensus size: 33
15967136 TTTCTTTTCA
15967146 TTTTCTTTTTTTCATTTTGATTTTGATTTTGATTTT
1 TTTTCTTTTTTTCATTTTG-TTTT--TTTTGATTTT
*
15967182 TTTTCTTTTTTTCTTTTTTGTTTTTTTT-ATTTTT
1 TTTTCTTTTTTTC-ATTTTGTTTTTTTTGA-TTTT
*
15967216 TTTTCATTTTTTTTGATTTTGTTTTTTTTGATT
1 TTTTC--TTTTTTTCATTTTGTTTTTTTTGATT
15967249 GATTGATCTT
Statistics
Matches: 59, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
33 1 0.02
34 13 0.22
35 15 0.25
36 25 0.42
37 5 0.08
ACGTcount: A:0.08, C:0.05, G:0.07, T:0.81
Consensus pattern (33 bp):
TTTTCTTTTTTTCATTTTGTTTTTTTTGATTTT
Found at i:15967193 original size:24 final size:24
Alignment explanation
Indices: 15967140--15967217 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 24
15967130 TCTCCTTTTC
* *
15967140 TTTTC-ATTTTCTTTTTTTCATTT
1 TTTTCGATTTTGTTTTTTTTATTT
* *
15967163 TGATTTTGATTTTGATTTTTTTTCTTT
1 T--TTTCGATTTTG-TTTTTTTTATTT
**
15967190 TTTTCTTTTTTGTTTTTTTTATTT
1 TTTTCGATTTTGTTTTTTTTATTT
15967214 TTTT
1 TTTT
15967218 TTCATTTTTT
Statistics
Matches: 43, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
23 1 0.02
24 15 0.35
25 11 0.26
26 5 0.12
27 11 0.26
ACGTcount: A:0.08, C:0.06, G:0.05, T:0.81
Consensus pattern (24 bp):
TTTTCGATTTTGTTTTTTTTATTT
Found at i:15967217 original size:35 final size:35
Alignment explanation
Indices: 15967151--15967244 Score: 104
Period size: 35 Copynumber: 2.6 Consensus size: 35
15967141 TTTCATTTTC
*
15967151 TTTTTTTCATTTTGATTTTGATTTTGA-TTTTTTTTC-T
1 TTTTTTTGATTTTG-TTTT--TTTT-ATTTTTTTTTCAT
*
15967188 TTTTTTCT-TTTTTGTTTTTTTTATTTTTTTTTCAT
1 TTTTTT-TGATTTTGTTTTTTTTATTTTTTTTTCAT
15967223 TTTTTTTGATTTTGTTTTTTTT
1 TTTTTTTGATTTTGTTTTTTTT
15967245 GATTGATTGA
Statistics
Matches: 51, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
33 1 0.02
34 14 0.27
35 20 0.39
36 4 0.08
37 11 0.22
38 1 0.02
ACGTcount: A:0.07, C:0.04, G:0.06, T:0.82
Consensus pattern (35 bp):
TTTTTTTGATTTTGTTTTTTTTATTTTTTTTTCAT
Found at i:15967262 original size:1 final size:1
Alignment explanation
Indices: 15967178--15967244 Score: 53
Period size: 1 Copynumber: 67.0 Consensus size: 1
15967168 TTGATTTTGA
* * * * ** ** *
15967178 TTTTTTTTCTTTTTTTCTTTTTTGTTTTTTTTATTTTTTTTTCATTTTTTTTGATTTTGTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
15967243 TT
1 TT
15967245 GATTGATTGA
Statistics
Matches: 50, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 50 1.00
ACGTcount: A:0.04, C:0.04, G:0.04, T:0.87
Consensus pattern (1 bp):
T
Found at i:15967262 original size:19 final size:15
Alignment explanation
Indices: 15967166--15967248 Score: 66
Period size: 15 Copynumber: 5.5 Consensus size: 15
15967156 TTCATTTTGA
15967166 TTTTGATTTTGATTTT
1 TTTTGATTTTG-TTTT
* *
15967182 TTTT-CTTTTTTTCTT
1 TTTTGATTTTGTT-TT
15967197 TTTTG-TTTT-TTTT
1 TTTTGATTTTGTTTT
* *
15967210 ATTTT-TTTTTCATTTT
1 -TTTTGATTTT-GTTTT
15967226 TTTTGATTTTGTTTT
1 TTTTGATTTTGTTTT
15967241 TTTTGATT
1 TTTTGATT
15967249 GATTGATCTT
Statistics
Matches: 56, Mismatches: 4, Indels: 15
0.75 0.05 0.20
Matches are distributed among these distances:
13 2 0.04
14 12 0.21
15 30 0.54
16 12 0.21
ACGTcount: A:0.07, C:0.04, G:0.07, T:0.82
Consensus pattern (15 bp):
TTTTGATTTTGTTTT
Found at i:15968061 original size:25 final size:25
Alignment explanation
Indices: 15968011--15968069 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
15968001 AAGAAAATCC
* *
15968011 AAAAGAATGAAAGAATAATTATTCA
1 AAAAGAATAAAAGAATAATTACTCA
*
15968036 AAAAGAATAAAAGAAT-ATTGGCTCA
1 AAAAGAATAAAAGAATAATT-ACTCA
15968061 AAAATGAAT
1 AAAA-GAAT
15968070 GCAAAGATGC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 3 0.10
25 22 0.76
26 4 0.14
ACGTcount: A:0.59, C:0.05, G:0.14, T:0.22
Consensus pattern (25 bp):
AAAAGAATAAAAGAATAATTACTCA
Found at i:15969400 original size:21 final size:21
Alignment explanation
Indices: 15969361--15969400 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
15969351 ATTGCCCTAA
* *
15969361 ATTTCTCTTCAATCCATTTCC
1 ATTTCTCCTCAAACCATTTCC
*
15969382 ATTTCTCCTCAAACTATTT
1 ATTTCTCCTCAAACCATTT
15969401 TGGCAATTCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.23, C:0.30, G:0.00, T:0.47
Consensus pattern (21 bp):
ATTTCTCCTCAAACCATTTCC
Found at i:15971731 original size:43 final size:42
Alignment explanation
Indices: 15971674--15971836 Score: 136
Period size: 43 Copynumber: 3.9 Consensus size: 42
15971664 TTTCGATCTG
* * * *
15971674 TGTTTTCGTATAAGACCACATCTGGGACATTAGCATCGAATTT
1 TGTTTACGTGTAAGACCACGTCTGGGACATTGGCATCG-ATTT
* * *
15971717 TGTTTACGTGTAAGACTATGTATGGGACATTGGCATCG-TATT
1 TGTTTACGTGTAAGACCACGTCTGGGACATTGGCATCGAT-TT
* * *
15971759 TGATTT--GTGTAAGACC-CTGTCTGGGACAATGGCATTGATATG
1 TG-TTTACGTGTAAGACCAC-GTCTGGGACATTGGCATCGAT-TT
* * *
15971801 TGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTTTACGTGTAAGACCACGTCTGGGACATTGGCAT
15971837 TGTACGAGTC
Statistics
Matches: 96, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
41 28 0.29
42 9 0.09
43 58 0.60
44 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (42 bp):
TGTTTACGTGTAAGACCACGTCTGGGACATTGGCATCGATTT
Found at i:15972026 original size:16 final size:17
Alignment explanation
Indices: 15971997--15972028 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
15971987 TGAATTGATG
15971997 ATATGAAGTTATGTGAA
1 ATATGAAGTTATGTGAA
15972014 ATATGAA-TTATGTGA
1 ATATGAAGTTATGTGA
15972029 TTGTATATTT
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:0.41, C:0.00, G:0.22, T:0.38
Consensus pattern (17 bp):
ATATGAAGTTATGTGAA
Found at i:15977936 original size:18 final size:18
Alignment explanation
Indices: 15977901--15977935 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
15977891 TAAACTGGAC
*
15977901 ATTTATTTGGTTTATTTT
1 ATTTATTTGATTTATTTT
15977919 ATTTATTTGATTT-TTTT
1 ATTTATTTGATTTATTTT
15977936 TTTTTCATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.17, C:0.00, G:0.09, T:0.74
Consensus pattern (18 bp):
ATTTATTTGATTTATTTT
Found at i:15981121 original size:26 final size:26
Alignment explanation
Indices: 15981085--15981137 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
15981075 CATACTATTC
15981085 TAGGAATGTTACTATTTTTTAGTTTA
1 TAGGAATGTTACTATTTTTTAGTTTA
15981111 TAGGAATGTTACTATTTTTTAGTTTA
1 TAGGAATGTTACTATTTTTTAGTTTA
15981137 T
1 T
15981138 TTAATACACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.26, C:0.04, G:0.15, T:0.55
Consensus pattern (26 bp):
TAGGAATGTTACTATTTTTTAGTTTA
Found at i:15983229 original size:27 final size:27
Alignment explanation
Indices: 15983209--15983260 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
15983199 GACTTCTCCG
15983209 CATTTAATGTCTTAGCAGACTACCCTA
1 CATTTAATGTCTTAGCAGACTACCCTA
*
15983236 CATTTAATGTCTTGGCAGACTACCC
1 CATTTAATGTCTTAGCAGACTACCC
15983261 CATGTCTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.33
Consensus pattern (27 bp):
CATTTAATGTCTTAGCAGACTACCCTA
Found at i:15983408 original size:68 final size:68
Alignment explanation
Indices: 15983317--15983450 Score: 171
Period size: 68 Copynumber: 2.0 Consensus size: 68
15983307 ATAGTCTTGA
* * *** * *
15983317 TTTATCCTCATGATTAACGTCTTGTTGGATTCTTTATGTTGCCATAG-CTGAGCTATAGTCTTAC
1 TTTATCCCCATGATTAACATCTTGGCAGACTCTCTATGTTGCCATAGTC-GAGCTATAGTCTTAC
15983381 ACAT
65 ACAT
* *
15983385 TTTATCCCCATGATTAACATCTTGGCAGACTCTCTATGTTTCCATAGTCGAGCTATGGTCTTACA
1 TTTATCCCCATGATTAACATCTTGGCAGACTCTCTATGTTGCCATAGTCGAGCTATAGTCTTACA
15983450 C
66 C
15983451 CTTAAATTTC
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
68 55 0.98
69 1 0.02
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.40
Consensus pattern (68 bp):
TTTATCCCCATGATTAACATCTTGGCAGACTCTCTATGTTGCCATAGTCGAGCTATAGTCTTACA
CAT
Found at i:15985306 original size:70 final size:70
Alignment explanation
Indices: 15985227--15985369 Score: 277
Period size: 70 Copynumber: 2.0 Consensus size: 70
15985217 CATCAAAATC
15985227 AATCAACCATCAATTTTCATTTATTTGTTAATTTCGTTACTTTGCATGTTTTATGATTTATTCCT
1 AATCAACCATCAATTTTCATTTATTTGTTAATTTCGTTACTTTGCATGTTTTATGATTTATTCCT
15985292 TTTGT
66 TTTGT
*
15985297 AATCAACCATCAATTTTCATTTATTTGTTAATTTCGTTACTTTTCATGTTTTATGATTTATTCCT
1 AATCAACCATCAATTTTCATTTATTTGTTAATTTCGTTACTTTGCATGTTTTATGATTTATTCCT
15985362 TTTGT
66 TTTGT
15985367 AAT
1 AAT
15985370 TAGTTCGTAA
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 72 1.00
ACGTcount: A:0.24, C:0.14, G:0.08, T:0.55
Consensus pattern (70 bp):
AATCAACCATCAATTTTCATTTATTTGTTAATTTCGTTACTTTGCATGTTTTATGATTTATTCCT
TTTGT
Found at i:15986926 original size:28 final size:30
Alignment explanation
Indices: 15986861--15986929 Score: 97
Period size: 28 Copynumber: 2.3 Consensus size: 30
15986851 TCTTTTTAAT
*
15986861 ATATTTATTTAATTATTTTTTAAGTAAATAG
1 ATATTTA-TTAATTATTTATTAAGTAAATAG
*
15986892 ATATTTATTATTTA-TTATTAAGTAAA-AG
1 ATATTTATTAATTATTTATTAAGTAAATAG
15986920 ATATTTATTA
1 ATATTTATTA
15986930 GTTAAATAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
28 12 0.33
29 11 0.31
30 6 0.17
31 7 0.19
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.54
Consensus pattern (30 bp):
ATATTTATTAATTATTTATTAAGTAAATAG
Found at i:15987910 original size:23 final size:23
Alignment explanation
Indices: 15987879--15987977 Score: 112
Period size: 23 Copynumber: 4.4 Consensus size: 23
15987869 AGCTTTGCCG
*
15987879 ATCAAGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
15987902 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
** *
15987925 ATTTGGCACTTTATGTGTTGTAT
1 ATCAGGCACTTTATGTGTCGTAT
* * * *
15987948 TTCAAGCACCTCATGTGTCG--T
1 ATCAGGCACTTTATGTGTCGTAT
15987969 ATCAGGCAC
1 ATCAGGCAC
15987978 CTCGCGTGAA
Statistics
Matches: 63, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
21 8 0.13
23 55 0.87
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.38
Consensus pattern (23 bp):
ATCAGGCACTTTATGTGTCGTAT
Found at i:15992602 original size:24 final size:25
Alignment explanation
Indices: 15992556--15992608 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 25
15992546 ATAATGGGAA
* * *
15992556 GCTCGTGAGAGCCAAATATCAGGAT
1 GCTCATGAGAGCCAAATAACAGGAC
*
15992581 GCTCATGAGAG-CTAATAACAGGAC
1 GCTCATGAGAGCCAAATAACAGGAC
15992605 GCTC
1 GCTC
15992609 TTTCGAGCCA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 14 0.58
25 10 0.42
ACGTcount: A:0.32, C:0.23, G:0.26, T:0.19
Consensus pattern (25 bp):
GCTCATGAGAGCCAAATAACAGGAC
Found at i:15994613 original size:61 final size:61
Alignment explanation
Indices: 15994514--15994659 Score: 238
Period size: 61 Copynumber: 2.4 Consensus size: 61
15994504 AATTAATCTA
* *
15994514 ATTAATATTAAATTAATAAAATATTATCTAGATCAATATTAAATTTAATTTAATATCTCAT
1 ATTAATATTAAATTAATAAAATACTATCTAGATAAATATTAAATTTAATTTAATATCTCAT
* *
15994575 ATTAATAATAAATTAATAAAATACTATCTATATAAATATTAAATTTAATTTAATATCTCAT
1 ATTAATATTAAATTAATAAAATACTATCTAGATAAATATTAAATTTAATTTAATATCTCAT
*
15994636 ATTAATATTAAATTCATTAAAATA
1 ATTAATATTAAATT-AATAAAATA
15994660 ATATTATTTT
Statistics
Matches: 78, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
61 70 0.90
62 8 0.10
ACGTcount: A:0.50, C:0.06, G:0.01, T:0.43
Consensus pattern (61 bp):
ATTAATATTAAATTAATAAAATACTATCTAGATAAATATTAAATTTAATTTAATATCTCAT
Found at i:15994644 original size:30 final size:30
Alignment explanation
Indices: 15994548--15994649 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
15994538 TATCTAGATC
15994548 AATATTAAATTTAATTTAATATCTCATATT
1 AATATTAAATTTAATTTAATATCTCATATT
* ** * *
15994578 AATAATAAA-TTAATAAAATACTATCTATATA
1 AATATTAAATTTAATTTAATA-TCTC-ATATT
15994609 AATATTAAATTTAATTTAATATCTCATATT
1 AATATTAAATTTAATTTAATATCTCATATT
15994639 AATATTAAATT
1 AATATTAAATT
15994650 CATTAAAATA
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
29 9 0.15
30 26 0.44
31 15 0.25
32 9 0.15
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (30 bp):
AATATTAAATTTAATTTAATATCTCATATT
Found at i:15997396 original size:26 final size:25
Alignment explanation
Indices: 15997362--15997467 Score: 115
Period size: 25 Copynumber: 4.2 Consensus size: 25
15997352 GAGAGTAAAT
*
15997362 TTGTCAAAATTTTACTAGGGGTTA-AA
1 TTGTTAAAATTTTACT-GGGG-TACAA
* * *
15997388 TCGTTAAAATTTTATTGGGGGTATAA
1 TTGTTAAAATTTTACT-GGGGTACAA
* *
15997414 TTGGTAAAGTTTTACTGGGGTACAA
1 TTGTTAAAATTTTACTGGGGTACAA
*
15997439 TTGTTAAAATTTTACTCGGGTACAA
1 TTGTTAAAATTTTACTGGGGTACAA
15997464 TTGT
1 TTGT
15997468 GGTGAGAAAA
Statistics
Matches: 67, Mismatches: 12, Indels: 3
0.82 0.15 0.04
Matches are distributed among these distances:
25 36 0.54
26 31 0.46
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.41
Consensus pattern (25 bp):
TTGTTAAAATTTTACTGGGGTACAA
Found at i:16002558 original size:16 final size:16
Alignment explanation
Indices: 16002532--16002585 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
16002522 TTTGGTTCGC
*
16002532 TGTATTGGAATAGAGG
1 TGTAATGGAATAGAGG
*
16002548 CGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
*
16002564 TGTAATAGAATAGAGG
1 TGTAATGGAATAGAGG
16002580 TGTAAT
1 TGTAAT
16002586 AGCAAATCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.37, C:0.02, G:0.33, T:0.28
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:16002620 original size:45 final size:44
Alignment explanation
Indices: 16002564--16002661 Score: 135
Period size: 44 Copynumber: 2.2 Consensus size: 44
16002554 GGAATAGAGG
16002564 TGTAATAGAATAGAGGTGTAATAGCAAATCAAT-TGTTTGGTTGAA
1 TGTAATAGAATAGAGGTGTAATAG-AAATC-ATGTGTTTGGTTGAA
* * * *
16002609 TGTAATGGAATAGAGGTGTAATAGTATTCTTGTGTTTGGTTGAA
1 TGTAATAGAATAGAGGTGTAATAGAAATCATGTGTTTGGTTGAA
16002653 TGTAATAGA
1 TGTAATAGA
16002662 GGTGTAATAG
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
43 1 0.02
44 23 0.49
45 23 0.49
ACGTcount: A:0.34, C:0.03, G:0.27, T:0.37
Consensus pattern (44 bp):
TGTAATAGAATAGAGGTGTAATAGAAATCATGTGTTTGGTTGAA
Found at i:16002837 original size:16 final size:16
Alignment explanation
Indices: 16002796--16002838 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
16002786 ATTTAATCAT
*
16002796 ATTAAACATA-ATTATT
1 ATTAAA-ATATATTATA
16002812 ATT-AAATATATTATA
1 ATTAAAATATATTATA
16002827 ATTAAAATATAT
1 ATTAAAATATAT
16002839 AATTTAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 3 0.12
15 10 0.42
16 11 0.46
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
ATTAAAATATATTATA
Done.