Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 309 of 343
Found at i:100372357 original size:10 final size:9
Alignment explanation
Indices: 100372342--100372420 Score: 52
Period size: 9 Copynumber: 8.3 Consensus size: 9
100372332 TTTTCTCCTT
100372342 AAAAATCATA
1 AAAAAT-ATA
*
100372352 AAAAATACA
1 AAAAATATA
*
100372361 AAAAATATT
1 AAAAATATA
100372370 AAAAATGATA
1 AAAAAT-ATA
**
100372380 TAAACTTATA
1 -AAAAATATA
* *
100372390 AATATTAT-
1 AAAAATATA
100372398 AAAAATATA
1 AAAAATATA
100372407 ATAAAATAATA
1 A-AAAAT-ATA
100372418 AAA
1 AAA
100372421 TTATTTAAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
8 6 0.11
9 22 0.41
10 18 0.33
11 8 0.15
ACGTcount: A:0.68, C:0.04, G:0.01, T:0.27
Consensus pattern (9 bp):
AAAAATATA
Found at i:100372420 original size:19 final size:18
Alignment explanation
Indices: 100372341--100372420 Score: 56
Period size: 19 Copynumber: 4.3 Consensus size: 18
100372331 ATTTTCTCCT
100372341 TAAAAATCATAAAAAATACA
1 TAAAAAT-ATAAAAAATA-A
* *
100372361 -AAAAATATTAAAAATGA
1 TAAAAATATAAAAAATAA
* * *
100372378 TATAAACT-TATAAATATTA
1 TA-AAAATATA-AAAAATAA
100372397 TAAAAATATAATAAAATAA
1 TAAAAATATAA-AAAATAA
100372416 TAAAA
1 TAAAA
100372421 TTATTTAAAA
Statistics
Matches: 46, Mismatches: 9, Indels: 11
0.70 0.14 0.17
Matches are distributed among these distances:
17 1 0.02
18 15 0.33
19 30 0.65
ACGTcount: A:0.68, C:0.04, G:0.01, T:0.28
Consensus pattern (18 bp):
TAAAAATATAAAAAATAA
Found at i:100372430 original size:28 final size:28
Alignment explanation
Indices: 100372340--100372442 Score: 88
Period size: 28 Copynumber: 3.7 Consensus size: 28
100372330 TATTTTCTCC
* *
100372340 TTAAAAATCATAAAAAATACA-AAAAATA
1 TTAAAAATCATATAAAATA-ATAAAATTA
* * *
100372368 TTAAAAATGATATAAACTTATAAATATTA
1 TTAAAAATCATATAAAATAATAAA-ATTA
100372397 -TAAAAAT-ATAATAAAATAATAAAATTA
1 TTAAAAATCAT-ATAAAATAATAAAATTA
* *
100372424 TTTAAAAT-ATTTAAAATAA
1 TTAAAAATCATATAAAATAA
100372443 AAATATATTA
Statistics
Matches: 62, Mismatches: 9, Indels: 9
0.77 0.11 0.11
Matches are distributed among these distances:
27 15 0.24
28 44 0.71
29 3 0.05
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (28 bp):
TTAAAAATCATATAAAATAATAAAATTA
Found at i:100372440 original size:37 final size:38
Alignment explanation
Indices: 100372389--100372484 Score: 99
Period size: 37 Copynumber: 2.5 Consensus size: 38
100372379 ATAAACTTAT
100372389 AAATATTATAAAAATATAATAAAATAATA-AAATTATTT-A
1 AAATATT-T-AAAATATAA-AAAATAATAGAAATTATTTAA
* * * *
100372428 AAATATTTAAAATA-AAAATATATTAGAATTTTTTTAA
1 AAATATTTAAAATATAAAAAATAATAGAAATTATTTAA
*
100372465 AAATATTTAAAATATTAAAA
1 AAATATTTAAAATATAAAAA
100372485 TTGATATCAA
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
35 7 0.15
36 9 0.19
37 21 0.44
38 4 0.08
39 7 0.15
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (38 bp):
AAATATTTAAAATATAAAAAATAATAGAAATTATTTAA
Found at i:100372484 original size:8 final size:9
Alignment explanation
Indices: 100372389--100372485 Score: 51
Period size: 9 Copynumber: 10.4 Consensus size: 9
100372379 ATAAACTTAT
100372389 AAATATTATAA
1 AAATATT-T-A
*
100372400 AAATATAATA
1 AAATAT-TTA
*
100372410 AAATA-ATA
1 AAATATTTA
100372418 AAATTATTTA
1 AAA-TATTTA
100372428 AAATATTTA
1 AAATATTTA
100372437 AAATA---A
1 AAATATTTA
100372443 AAATATATTA
1 AAATAT-TTA
* *
100372453 GAATTTTTTTAA
1 -AA-ATATTT-A
100372465 AAATATTTA
1 AAATATTTA
100372474 AAATA-TTA
1 AAATATTTA
100372482 AAAT
1 AAAT
100372486 TGATATCAAC
Statistics
Matches: 70, Mismatches: 6, Indels: 23
0.71 0.06 0.23
Matches are distributed among these distances:
6 6 0.09
8 13 0.19
9 19 0.27
10 16 0.23
11 13 0.19
12 3 0.04
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (9 bp):
AAATATTTA
Found at i:100373005 original size:17 final size:18
Alignment explanation
Indices: 100372983--100373031 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 18
100372973 CGGCCACCGT
100372983 GGGCGGTGGCCGGCGA-C
1 GGGCGGTGGCCGGCGATC
* *
100373000 GGGCGGCGGCCGACGATC
1 GGGCGGTGGCCGGCGATC
* *
100373018 GGCCGGTGACCGGC
1 GGGCGGTGGCCGGC
100373032 CCCCCCTTGG
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
17 14 0.56
18 11 0.44
ACGTcount: A:0.08, C:0.33, G:0.53, T:0.06
Consensus pattern (18 bp):
GGGCGGTGGCCGGCGATC
Found at i:100373451 original size:20 final size:20
Alignment explanation
Indices: 100373413--100373453 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
100373403 CTAATACATA
*
100373413 TATATATATTATATGTATTT
1 TATATATATTATATATATTT
*
100373433 TATATATATTATGTATATTT
1 TATATATATTATATATATTT
100373453 T
1 T
100373454 TTAATGCAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (20 bp):
TATATATATTATATATATTT
Found at i:100375245 original size:20 final size:20
Alignment explanation
Indices: 100375172--100375253 Score: 73
Period size: 20 Copynumber: 4.2 Consensus size: 20
100375162 TTTTTATAGT
*
100375172 ATTTTAATACATTTTATAA-A
1 ATTTT-ATATATTTTATAACA
* **
100375192 ACTTTTAAATATGTTT-TATTA
1 A-TTTTATATAT-TTTATAACA
100375213 ATTTTATA-A-TTTATAACA
1 ATTTTATATATTTTATAACA
100375231 ATTTTATATATTTTATAACA
1 ATTTTATATATTTTATAACA
100375251 ATT
1 ATT
100375254 AATAATATTT
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
17 3 0.06
18 11 0.22
19 2 0.04
20 25 0.50
21 9 0.18
ACGTcount: A:0.40, C:0.05, G:0.01, T:0.54
Consensus pattern (20 bp):
ATTTTATATATTTTATAACA
Found at i:100375266 original size:19 final size:19
Alignment explanation
Indices: 100375212--100375266 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
100375202 ATGTTTTATT
*
100375212 AATTTTATA-ATTTATAAC
1 AATTATATATATTTATAAC
*
100375230 AATTTTATATATTTTATAAC
1 AATTATATATA-TTTATAAC
100375250 AATTA-ATAATATTTATA
1 AATTATAT-ATATTTATA
100375267 TCTTTTGATA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
18 9 0.27
19 9 0.27
20 15 0.45
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (19 bp):
AATTATATATATTTATAAC
Found at i:100384712 original size:22 final size:21
Alignment explanation
Indices: 100384684--100384748 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 21
100384674 CTTATCGTTC
100384684 TGCACTTCAGTGCCTACTGTTT
1 TGCACTTC-GTGCCTACTGTTT
* * *
100384706 TGCACTTCGATGCTTAGTGATT
1 TGCACTTCG-TGCCTACTGTTT
* *
100384728 TGCGCTTTGGTGCCTACTGTT
1 TGCAC-TTCGTGCCTACTGTT
100384749 CTATTAGTGC
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
21 1 0.03
22 29 0.88
23 3 0.09
ACGTcount: A:0.12, C:0.23, G:0.23, T:0.42
Consensus pattern (21 bp):
TGCACTTCGTGCCTACTGTTT
Found at i:100386847 original size:26 final size:26
Alignment explanation
Indices: 100386810--100386893 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
100386800 TGATACAAAT
* *
100386810 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
100386836 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
100386862 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
100386888 TGATAA
1 TGATAA
100386894 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:100392490 original size:26 final size:26
Alignment explanation
Indices: 100392410--100392493 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
100392400 CATGAAATTC
100392410 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
100392436 ATATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
100392462 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
100392488 TTATCA
1 TTATCA
100392494 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.38, C:0.25, G:0.05, T:0.32
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:100400458 original size:104 final size:104
Alignment explanation
Indices: 100400323--100400546 Score: 387
Period size: 104 Copynumber: 2.2 Consensus size: 104
100400313 TTGTATATAA
** *
100400323 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
100400387 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
100400427 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
*
100400492 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCTCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
100400531 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
100400547 GATATCCATT
Statistics
Matches: 114, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
104 113 0.99
105 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.31, T:0.32
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:100400566 original size:72 final size:70
Alignment explanation
Indices: 100400465--100400615 Score: 239
Period size: 72 Copynumber: 2.1 Consensus size: 70
100400455 TCATTGGTGG
* *
100400465 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCTCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCC-CC
100400530 GAGGGGT
64 GAGGGGT
***
100400537 TGCTAAGTGCGATATCCATTGTATATTTGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCGA
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCGA
100400602 GGGGT
66 GGGGT
100400607 TGCTAAGTG
1 TGCTAAGTG
100400616 ATGATTCCCC
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 18 0.24
71 26 0.35
72 30 0.41
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.31
Consensus pattern (70 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCGA
GGGGT
Found at i:100400611 original size:26 final size:26
Alignment explanation
Indices: 100400576--100400627 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
100400566 AAATGAAAAG
* *
100400576 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGATGATTCCCCGA
100400602 GGGGTTGCTAAGTGATGATTCCCCGA
1 GGGGTTGCTAAGTGATGATTCCCCGA
100400628 TTCAGTGGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.15, C:0.21, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGATGATTCCCCGA
Found at i:100407986 original size:26 final size:26
Alignment explanation
Indices: 100407951--100408001 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
100407941 AATGTGAAAG
*
100407951 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
100407977 GGGGTTGCTAAGTGCTGATTCCCCG
1 GGGGTTGCTAAGTGCTGATTCCCCG
100408002 GTTCATTGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.12, C:0.24, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:100408052 original size:103 final size:103
Alignment explanation
Indices: 100407874--100408095 Score: 376
Period size: 103 Copynumber: 2.2 Consensus size: 103
100407864 TGTATATAAA
** *
100407874 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATGGTGGTGCTATGTGCGTGATCCACCATATCTTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGTGGTGCTAAGTGCGTGATCCACCATATCTTT
100407939 GAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCCG
66 GAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
100407976 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCA-TGGTGGTGCTAAGTGCG-TGATCCACCATATCT
100408040 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
64 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
100408080 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
100408096 GATATCCATT
Statistics
Matches: 113, Mismatches: 4, Indels: 4
0.93 0.03 0.03
Matches are distributed among these distances:
102 28 0.25
103 63 0.56
104 22 0.19
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGTGGTGCTAAGTGCGTGATCCACCATATCTTT
GAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:100408147 original size:71 final size:72
Alignment explanation
Indices: 100408014--100408165 Score: 252
Period size: 71 Copynumber: 2.1 Consensus size: 72
100408004 TCATTGGTGG
* *
100408014 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
100408079 GAGGGGT
66 GAGGGGT
***
100408086 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
100408150 GAGGGGT
66 GAGGGGT
100408157 TGCTAAGTG
1 TGCTAAGTG
100408166 ATGATTCCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 45 0.60
72 30 0.40
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:100412253 original size:16 final size:16
Alignment explanation
Indices: 100412234--100412295 Score: 51
Period size: 16 Copynumber: 3.9 Consensus size: 16
100412224 AACAACATAA
100412234 ACAATAAAATAAAATG
1 ACAATAAAATAAAATG
*
100412250 ACAATAATATAAAGA-G
1 ACAATAAAATAAA-ATG
100412266 TACAAATAAAA-AATAATG
1 -AC-AATAAAATAA-AATG
100412284 A-AAT-AAATAAAA
1 ACAATAAAATAAAA
100412296 AATTCAATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
14 5 0.13
15 5 0.13
16 13 0.34
17 7 0.18
18 8 0.21
ACGTcount: A:0.69, C:0.05, G:0.06, T:0.19
Consensus pattern (16 bp):
ACAATAAAATAAAATG
Found at i:100415726 original size:14 final size:13
Alignment explanation
Indices: 100415703--100415732 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
100415693 AACAGAAGGC
100415703 AAAAGAAAGAAAG
1 AAAAGAAAGAAAG
100415716 AAAAGACAAGAAAG
1 AAAAGA-AAGAAAG
100415730 AAA
1 AAA
100415733 CATAACGTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.77, C:0.03, G:0.20, T:0.00
Consensus pattern (13 bp):
AAAAGAAAGAAAG
Found at i:100416168 original size:25 final size:25
Alignment explanation
Indices: 100416117--100416173 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
100416107 TTTTTAAAGC
*
100416117 TTTTTTAATGTTTATAATTAATAAA
1 TTTTTTAATGTTTATAATCAATAAA
* * *
100416142 TTTTTTAAGTTTTTCTAATCAATAAT
1 TTTTTTAA-TGTTTATAATCAATAAA
100416168 TTTTTT
1 TTTTTT
100416174 TGCTTATAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
25 8 0.30
26 19 0.70
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.61
Consensus pattern (25 bp):
TTTTTTAATGTTTATAATCAATAAA
Found at i:100438596 original size:29 final size:29
Alignment explanation
Indices: 100438563--100438621 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
100438553 ATGGTTTAAC
* * *
100438563 GTGCAATTGTGTACATGAACTTTTGTTTT
1 GTGCAATTGTATACATGAAATTTTGATTT
*
100438592 GTGCAATTTTATACATGAAATTTTGATTT
1 GTGCAATTGTATACATGAAATTTTGATTT
100438621 G
1 G
100438622 ATTCAATTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.25, C:0.08, G:0.19, T:0.47
Consensus pattern (29 bp):
GTGCAATTGTATACATGAAATTTTGATTT
Found at i:100442513 original size:20 final size:20
Alignment explanation
Indices: 100442484--100442524 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
100442474 TTACATTCTC
* * *
100442484 TTCTCTTTCTCTATTTGTTT
1 TTCTCCTTCTCCATTTCTTT
100442504 TTCTCCTTCTCCATTTCTTT
1 TTCTCCTTCTCCATTTCTTT
100442524 T
1 T
100442525 GACGTAGTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.05, C:0.27, G:0.02, T:0.66
Consensus pattern (20 bp):
TTCTCCTTCTCCATTTCTTT
Found at i:100463828 original size:26 final size:25
Alignment explanation
Indices: 100463783--100463842 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
100463773 ACCAAACACC
100463783 TTAAAAA-ATAATAGAAAATACAAAT
1 TTAAAAATATAATAGAAAATA-AAAT
* *
100463808 TTAAAAATATAATATATAATAAAAT
1 TTAAAAATATAATAGAAAATAAAAT
*
100463833 TATACAAATA
1 T-TAAAAATA
100463843 ATTTAATATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
25 12 0.40
26 18 0.60
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.30
Consensus pattern (25 bp):
TTAAAAATATAATAGAAAATAAAAT
Found at i:100466934 original size:52 final size:52
Alignment explanation
Indices: 100466875--100467028 Score: 166
Period size: 52 Copynumber: 2.9 Consensus size: 52
100466865 GAAGGAAAAG
*
100466875 ATGTGATATGTGATTCCGTGTAAGACCATAACTGGGCTATGGCATCGGTGCA
1 ATGTGATATGTGATTCCGTATAAGACCATAACTGGGCTATGGCATCGGTGCA
*** * * ** **
100466927 ATGTGATA-CACATTCCCGTATAAGACCATAGCTGGGCTATGGCTTTAGTGTG
1 ATGTGATATGTGATT-CCGTATAAGACCATAACTGGGCTATGGCATCGGTGCA
* * *
100466979 ATGTGATAATGTGATTCTGTATAAGACCATATCTGGGATATGGCATCGGT
1 ATGTGAT-ATGTGATTCCGTATAAGACCATAACTGGGCTATGGCATCGGT
100467029 ATGATATGTA
Statistics
Matches: 80, Mismatches: 19, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
51 3 0.04
52 45 0.56
53 29 0.36
54 3 0.04
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (52 bp):
ATGTGATATGTGATTCCGTATAAGACCATAACTGGGCTATGGCATCGGTGCA
Found at i:100474327 original size:52 final size:52
Alignment explanation
Indices: 100474271--100474445 Score: 145
Period size: 52 Copynumber: 3.5 Consensus size: 52
100474261 TGTGTTTCCA
100474271 TATAAGACCATAGCTGGGCTATGGTATCGGTGCAATGTGATACATG--TTCTCG
1 TATAAGACCATAGCTGGGCTATGGTATCGGTGCAATGTGATA-ATGTATTCT-G
* * * **
100474323 TATAAGACCATAGTTGGGCTATAGCT-TCAGTGTGATGTGATAATGTGATTCTG
1 TATAAGACCATAGCTGGGCTAT-GGTATCGGTGCAATGTGATAATGT-ATTCTG
* * *
100474376 TATAAGACCATATCTGGGATATGGCATCGGT---A--TGAT-ATGTGA-TCTG
1 TATAAGACCATAGCTGGGCTATGGTATCGGTGCAATGTGATAATGT-ATTCTG
* *
100474422 TGTAAGACCATAGCAGGGCTATGG
1 TATAAGACCATAGCTGGGCTATGG
100474446 CTTTGGTGTA
Statistics
Matches: 103, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
46 24 0.23
47 6 0.06
48 4 0.04
50 1 0.01
51 3 0.03
52 35 0.34
53 26 0.25
54 4 0.04
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (52 bp):
TATAAGACCATAGCTGGGCTATGGTATCGGTGCAATGTGATAATGTATTCTG
Found at i:100474429 original size:46 final size:49
Alignment explanation
Indices: 100474360--100474465 Score: 128
Period size: 46 Copynumber: 2.2 Consensus size: 49
100474350 CAGTGTGATG
* *
100474360 TGATAATGTGATTCTGTATAAGACCATATCTGGGATATGGC-ATCG-GTA
1 TGAT-ATGTGATTCTGTATAAGACCATAGCAGGGATATGGCTATCGTGTA
* * * *
100474408 TGATATGTGA-TCTGTGTAAGACCATAGCAGGGCTATGGCTTTGGTGTA
1 TGATATGTGATTCTGTATAAGACCATAGCAGGGATATGGCTATCGTGTA
100474456 TGATATGTGA
1 TGATATGTGA
100474466 CAATGTGCAA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
46 25 0.50
47 8 0.16
48 17 0.34
ACGTcount: A:0.26, C:0.11, G:0.28, T:0.34
Consensus pattern (49 bp):
TGATATGTGATTCTGTATAAGACCATAGCAGGGATATGGCTATCGTGTA
Found at i:100484111 original size:46 final size:46
Alignment explanation
Indices: 100484044--100484172 Score: 213
Period size: 46 Copynumber: 2.8 Consensus size: 46
100484034 TGTAACCCGC
* * * * *
100484044 CCATAAGCGAACTTAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
100484090 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
100484136 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
100484173 TGCTCAACCA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 78 1.00
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:100484191 original size:46 final size:45
Alignment explanation
Indices: 100484052--100484191 Score: 131
Period size: 46 Copynumber: 3.0 Consensus size: 45
100484042 GCCCATAAGC
* * ** * *
100484052 GAACTTAGACTCAACTCAACGAGCTCGGGCGTTC-GCATCCATAAGT
1 GAACTCAGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T-AGT
*** *
100484098 GAACTCAGACTCAACTCAACGAGTTCGGACATTC-GCATCCATAAGT
1 GAACTCAGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T-AGT
100484144 GAACTCAGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCAGACTCAACTCAACGAGTTCGGATGCTC-ACCATCCTAGT
100484190 GA
1 GA
100484192 CATGTCACTT
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
46 78 0.93
47 1 0.01
48 5 0.06
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (45 bp):
GAACTCAGACTCAACTCAACGAGTTCGGATGCTCACCATCCTAGT
Found at i:100486691 original size:27 final size:27
Alignment explanation
Indices: 100486661--100486742 Score: 164
Period size: 27 Copynumber: 3.0 Consensus size: 27
100486651 GCATAACATG
100486661 TAAGAGTATTGTCAAATATAATATTTT
1 TAAGAGTATTGTCAAATATAATATTTT
100486688 TAAGAGTATTGTCAAATATAATATTTT
1 TAAGAGTATTGTCAAATATAATATTTT
100486715 TAAGAGTATTGTCAAATATAATATTTT
1 TAAGAGTATTGTCAAATATAATATTTT
100486742 T
1 T
100486743 TATTCACATG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.40, C:0.04, G:0.11, T:0.45
Consensus pattern (27 bp):
TAAGAGTATTGTCAAATATAATATTTT
Found at i:100487587 original size:33 final size:33
Alignment explanation
Indices: 100487542--100487664 Score: 99
Period size: 33 Copynumber: 3.5 Consensus size: 33
100487532 AATGATTTAC
100487542 TTTTCTAGTGTTTGGATGAATCTGTGTAAAATA
1 TTTTCTAGTGTTTGGATGAATCTGTGTAAAATA
*
100487575 TTTTCT-GTTGTTTGGCA--AATTACCTGCTGGAAAATGATTTA
1 TTTTCTAG-TGTTTGG-ATGAA-T--CTG-T-GTAAA--A--TA
100487616 CTTTTCTAGTGTTTGGATGAATCTGTGTAAAATA
1 -TTTTCTAGTGTTTGGATGAATCTGTGTAAAATA
*
100487650 TTTTCTATTGTTTGG
1 TTTTCTAGTGTTTGG
100487665 CAAATTACCT
Statistics
Matches: 72, Mismatches: 3, Indels: 30
0.69 0.03 0.29
Matches are distributed among these distances:
32 3 0.04
33 28 0.39
34 3 0.04
35 3 0.04
36 2 0.03
37 4 0.06
38 4 0.06
39 2 0.03
40 3 0.04
41 3 0.04
42 14 0.19
43 3 0.04
ACGTcount: A:0.24, C:0.09, G:0.20, T:0.47
Consensus pattern (33 bp):
TTTTCTAGTGTTTGGATGAATCTGTGTAAAATA
Found at i:100487614 original size:75 final size:75
Alignment explanation
Indices: 100487526--100487675 Score: 291
Period size: 75 Copynumber: 2.0 Consensus size: 75
100487516 AAAATATTTT
*
100487526 CTGGAAAATGATTTACTTTTCTAGTGTTTGGATGAATCTGTGTAAAATATTTTCTGTTGTTTGGC
1 CTGGAAAATGATTTACTTTTCTAGTGTTTGGATGAATCTGTGTAAAATATTTTCTATTGTTTGGC
100487591 AAATTACCTG
66 AAATTACCTG
100487601 CTGGAAAATGATTTACTTTTCTAGTGTTTGGATGAATCTGTGTAAAATATTTTCTATTGTTTGGC
1 CTGGAAAATGATTTACTTTTCTAGTGTTTGGATGAATCTGTGTAAAATATTTTCTATTGTTTGGC
100487666 AAATTACCTG
66 AAATTACCTG
100487676 AAAATATTTT
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.26, C:0.11, G:0.19, T:0.44
Consensus pattern (75 bp):
CTGGAAAATGATTTACTTTTCTAGTGTTTGGATGAATCTGTGTAAAATATTTTCTATTGTTTGGC
AAATTACCTG
Found at i:100490140 original size:21 final size:21
Alignment explanation
Indices: 100490111--100490171 Score: 113
Period size: 21 Copynumber: 2.9 Consensus size: 21
100490101 TAAGATAAGC
*
100490111 CAACTTTGAAAATGGCTTCTT
1 CAACATTGAAAATGGCTTCTT
100490132 CAACATTGAAAATGGCTTCTT
1 CAACATTGAAAATGGCTTCTT
100490153 CAACATTGAAAATGGCTTC
1 CAACATTGAAAATGGCTTC
100490172 GGTTCTCCTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.33
Consensus pattern (21 bp):
CAACATTGAAAATGGCTTCTT
Found at i:100490364 original size:19 final size:20
Alignment explanation
Indices: 100490329--100490374 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 20
100490319 TGAAAAATGA
100490329 TTTCTGGAAAATAATTTACT
1 TTTCTGGAAAATAATTTACT
*
100490349 TTTCTGG-AAATGATTTACT
1 TTTCTGGAAAATAATTTACT
100490368 TTTCTGG
1 TTTCTGG
100490375 TGTTTAGATG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.26, C:0.11, G:0.15, T:0.48
Consensus pattern (20 bp):
TTTCTGGAAAATAATTTACT
Found at i:100492927 original size:25 final size:25
Alignment explanation
Indices: 100492899--100492948 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
100492889 AGGAGAGAAT
100492899 ATGAAGAACGAAAGAAGGAAAAGGA
1 ATGAAGAACGAAAGAAGGAAAAGGA
*
100492924 ATGAAGAACGAAAGAAGGAGAAGGA
1 ATGAAGAACGAAAGAAGGAAAAGGA
100492949 GCCTTACCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.58, C:0.04, G:0.34, T:0.04
Consensus pattern (25 bp):
ATGAAGAACGAAAGAAGGAAAAGGA
Found at i:100499857 original size:26 final size:25
Alignment explanation
Indices: 100499825--100499911 Score: 84
Period size: 26 Copynumber: 3.3 Consensus size: 25
100499815 ATGTTTTTAA
100499825 TATACTTAAATTTGAGATTTAATTTT
1 TATACTTAAATTTGA-ATTTAATTTT
** * *
100499851 TATACTTCTATTTCAATTTTAATCTTAA
1 TATACTTAAATTTGAA-TTTAAT-TT-T
*
100499879 TATATTTAAATTTGACATTTAATTTT
1 TATACTTAAATTTGA-ATTTAATTTT
100499905 TATACTT
1 TATACTT
100499912 TAATCTTTTA
Statistics
Matches: 47, Mismatches: 10, Indels: 8
0.72 0.15 0.12
Matches are distributed among these distances:
25 1 0.02
26 24 0.51
27 4 0.09
28 17 0.36
29 1 0.02
ACGTcount: A:0.33, C:0.08, G:0.03, T:0.55
Consensus pattern (25 bp):
TATACTTAAATTTGAATTTAATTTT
Found at i:100500289 original size:26 final size:27
Alignment explanation
Indices: 100500236--100500289 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
100500226 ATTGATAAAG
*
100500236 ATTATTTTTATATAAATTTAATTCTAC
1 ATTATTTTTATATAAATTTAATTATAC
*
100500263 ATTATTTTTTTA-AAATATTAA-TATAC
1 ATTATTTTTATATAAAT-TTAATTATAC
100500289 A
1 A
100500290 AAGTTATGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.54
Consensus pattern (27 bp):
ATTATTTTTATATAAATTTAATTATAC
Found at i:100500666 original size:6 final size:6
Alignment explanation
Indices: 100500655--100500694 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
100500645 TCATTTTGCA
100500655 ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAA
1 ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAA
100500695 ATGTGAAACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (6 bp):
ATAATT
Found at i:100509442 original size:26 final size:26
Alignment explanation
Indices: 100509411--100509518 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
100509401 TGAAATGCCC
100509411 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
100509437 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
100509463 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
100509489 ATCATGGAACATTTACCT-AACCTATT
1 ATCATGGAACATTTACCTAAACC-ATT
100509515 ATCA
1 ATCA
100509519 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
25 3 0.04
26 73 0.96
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:100521866 original size:10 final size:10
Alignment explanation
Indices: 100521838--100521920 Score: 61
Period size: 10 Copynumber: 8.8 Consensus size: 10
100521828 ATTTTCCCTT
*
100521838 AAAAATCATA
1 AAAAATTATA
100521848 AAAAA--ATA
1 AAAAATTATA
100521856 AAAAATTATA
1 AAAAATTATA
*
100521866 AAAAGA-TATT
1 AAAA-ATTATA
*
100521876 AAAATTTATA
1 AAAAATTATA
* *
100521886 TAAACTTAT-
1 AAAAATTATA
*
100521895 AAATATTAT-
1 AAAAATTATA
100521904 AAAAA-TATA
1 AAAAATTATA
100521913 AAAAATTA
1 AAAAATTA
100521921 ATGAAACCTA
Statistics
Matches: 58, Mismatches: 9, Indels: 12
0.73 0.11 0.15
Matches are distributed among these distances:
8 11 0.19
9 15 0.26
10 31 0.53
11 1 0.02
ACGTcount: A:0.66, C:0.02, G:0.01, T:0.30
Consensus pattern (10 bp):
AAAAATTATA
Found at i:100521879 original size:19 final size:18
Alignment explanation
Indices: 100521839--100521920 Score: 65
Period size: 19 Copynumber: 4.4 Consensus size: 18
100521829 TTTTCCCTTA
* *
100521839 AAAATCATAAAAAAATAA
1 AAAATTATAAAAAAATAT
*
100521857 AAAATTATAAAAAGATATT
1 AAAATTATAAAAAAATA-T
* **
100521876 AAAATTTATATAAACTTAT
1 AAAA-TTATAAAAAAATAT
* *
100521895 AAATATTATAAAAATATAA
1 AAA-ATTATAAAAAAATAT
100521914 AAAATTA
1 AAAATTA
100521921 ATGAAACCTA
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
18 19 0.37
19 21 0.41
20 11 0.22
ACGTcount: A:0.66, C:0.02, G:0.01, T:0.30
Consensus pattern (18 bp):
AAAATTATAAAAAAATAT
Found at i:100521906 original size:49 final size:48
Alignment explanation
Indices: 100521853--100522014 Score: 129
Period size: 49 Copynumber: 3.4 Consensus size: 48
100521843 TCATAAAAAA
100521853 ATAAAAAATTATAAAAAGA-TATTAAAATTTATATAAACTTATAAATATT
1 ATAAAAAATTATAAAAA-ATTATTAAAA-TTATATAAACTTATAAATATT
* ** *
100521902 AT-AAAAA-TATAAAAAATTAATGAAACCTATTTAAAAC--A-AAATATAT
1 ATAAAAAATTATAAAAAATT-ATTAAAATTATAT-AAACTTATAAATAT-T
* * * * *
100521948 ATTAGAATTCTTTAAAAAATTATTAAAATTATATAAACTTATAAAAATT
1 ATAAAAAAT-TATAAAAAATTATTAAAATTATATAAACTTATAAATATT
*
100521997 ATAAAACAATCATAAAAA
1 ATAAAA-AATTATAAAAA
100522015 CTTGAATTAG
Statistics
Matches: 85, Mismatches: 17, Indels: 22
0.69 0.14 0.18
Matches are distributed among these distances:
45 6 0.07
46 5 0.06
47 20 0.24
48 23 0.27
49 24 0.28
50 7 0.08
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (48 bp):
ATAAAAAATTATAAAAAATTATTAAAATTATATAAACTTATAAATATT
Found at i:100521984 original size:10 final size:10
Alignment explanation
Indices: 100521963--100521999 Score: 51
Period size: 9 Copynumber: 3.9 Consensus size: 10
100521953 AATTCTTTAA
100521963 AAAATTAT-T
1 AAAATTATAT
100521972 AAAATTATAT
1 AAAATTATAT
*
100521982 AAACTTATA-
1 AAAATTATAT
100521991 AAAATTATA
1 AAAATTATA
100522000 AAACAATCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 16 0.64
10 9 0.36
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (10 bp):
AAAATTATAT
Found at i:100521994 original size:19 final size:18
Alignment explanation
Indices: 100521962--100522003 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
100521952 GAATTCTTTA
* *
100521962 AAAAATTATTAAAATTAT
1 AAAACTTATAAAAATTAT
100521980 ATAAACTTATAAAAATTAT
1 A-AAACTTATAAAAATTAT
100521999 AAAAC
1 AAAAC
100522004 AATCATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAACTTATAAAAATTAT
Found at i:100524037 original size:113 final size:112
Alignment explanation
Indices: 100523827--100524034 Score: 323
Period size: 113 Copynumber: 1.9 Consensus size: 112
100523817 AATAAATGAT
*
100523827 TTATCTTAGATAAAAAGAAGTAATTTATCTCCTATTATATGAATATCCACAATAATTTATTATTT
1 TTATCTTAGATAAAAAGAAATAATTTATCTCCTATTATATGAATATCCACAATAATTTATTATTT
100523892 ATAAATATTTATAAATATTAAATTAAAAATAATGTAAATATATATATA
66 ATAAATA-TTATAAATATTAAATTAAAAATAATGTAAATATATATATA
* * **
100523940 TTATCTTAGATAGAAAGAAATAATTTATCTCCTATTATATGGATATTTACAATAATTTATTATTT
1 TTATCTTAGATAAAAAGAAATAATTTATCTCCTATTATATGAATATCCACAATAATTTATTATTT
*
100524005 ATAACA-A-T-TAAATGTTAAATTAAAAATAAT
66 ATAA-ATATTATAAATATTAAATTAAAAATAAT
100524035 AATATGGCGG
Statistics
Matches: 88, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
110 21 0.24
111 1 0.01
113 65 0.74
114 1 0.01
ACGTcount: A:0.47, C:0.06, G:0.05, T:0.42
Consensus pattern (112 bp):
TTATCTTAGATAAAAAGAAATAATTTATCTCCTATTATATGAATATCCACAATAATTTATTATTT
ATAAATATTATAAATATTAAATTAAAAATAATGTAAATATATATATA
Found at i:100526316 original size:21 final size:22
Alignment explanation
Indices: 100526259--100526316 Score: 55
Period size: 21 Copynumber: 2.7 Consensus size: 22
100526249 AATATAATAG
* * *
100526259 CAAAATGGCAGCAAAGTAACAT
1 CAAAATAGCAGCAAAGCAACAA
* * *
100526281 CAAAATTGTAACAAA-CAACAA
1 CAAAATAGCAGCAAAGCAACAA
100526302 CAAAATAGCAGCAAA
1 CAAAATAGCAGCAAA
100526317 ACAATAGTGA
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
21 16 0.57
22 12 0.43
ACGTcount: A:0.57, C:0.19, G:0.12, T:0.12
Consensus pattern (22 bp):
CAAAATAGCAGCAAAGCAACAA
Found at i:100526671 original size:53 final size:53
Alignment explanation
Indices: 100526588--100526689 Score: 141
Period size: 53 Copynumber: 1.9 Consensus size: 53
100526578 GAGGCCTGAA
* * * *
100526588 CTTTTTTTTGTCCAAATTAGGTCATGAACTTGGCAATTGTTCCCACATTAAAT
1 CTTTTATTTGTCCAAATTAGGGCATAAACTTGACAATTGTTCCCACATTAAAT
* * *
100526641 CTTTTATTTGTCCAAGTTAGGGCTTAAACTTGACAATTGTTTCCACATT
1 CTTTTATTTGTCCAAATTAGGGCATAAACTTGACAATTGTTCCCACATT
100526690 GGGGCCTGAA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
53 42 1.00
ACGTcount: A:0.25, C:0.19, G:0.14, T:0.42
Consensus pattern (53 bp):
CTTTTATTTGTCCAAATTAGGGCATAAACTTGACAATTGTTCCCACATTAAAT
Found at i:100526748 original size:60 final size:59
Alignment explanation
Indices: 100526637--100526786 Score: 144
Period size: 60 Copynumber: 2.5 Consensus size: 59
100526627 TTCCCACATT
* * **
100526637 AAATCTTTTATTTGTCCAAGTTAGGGCTTAAACTTGACAATTGTTTCCACATTGGGGCCTG
1 AAAT-TTTT-TTTGTCCAAGTTAGGCCTTAAACTTGACAATTGTTTCCACATTAGAACCTG
* * * *
100526698 AAATTTTTTTTGGTCCAAGTTTGGCCTTGAGCTTGGCAATTG-TTCTCACATTAGAACCTG
1 AAATTTTTTTT-GTCCAAGTTAGGCCTTAAACTTGACAATTGTTTC-CACATTAGAACCTG
* *
100526758 AACTTTTTTTAT-T-CAAGTTAGTCCTTAAA
1 AAATTTTTTT-TGTCCAAGTTAGGCCTTAAA
100526787 AACCCTAAAG
Statistics
Matches: 73, Mismatches: 13, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
58 12 0.16
59 7 0.10
60 49 0.67
61 5 0.07
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.41
Consensus pattern (59 bp):
AAATTTTTTTTGTCCAAGTTAGGCCTTAAACTTGACAATTGTTTCCACATTAGAACCTG
Found at i:100526914 original size:31 final size:31
Alignment explanation
Indices: 100526853--100526921 Score: 88
Period size: 31 Copynumber: 2.2 Consensus size: 31
100526843 GGACTAAAAA
100526853 AAATTCAAACCACAATATGAAAAAAGTTGTC
1 AAATTCAAACCACAATATGAAAAAAGTTGTC
* *
100526884 AAGTTCAAACCCCAATAT-AAGAATAA-TTGTC
1 AAATTCAAACCACAATATGAA-AA-AAGTTGTC
100526915 AAATTCA
1 AAATTCA
100526922 GGACTTAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 2 0.06
31 29 0.88
32 2 0.06
ACGTcount: A:0.49, C:0.17, G:0.09, T:0.25
Consensus pattern (31 bp):
AAATTCAAACCACAATATGAAAAAAGTTGTC
Found at i:100530155 original size:22 final size:23
Alignment explanation
Indices: 100530130--100530173 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
100530120 GTTAGTTTTC
100530130 TTTAAAGAAATAATT-TTTAATT
1 TTTAAAGAAATAATTATTTAATT
* *
100530152 TTTAAGGAAATTATTATTTAAT
1 TTTAAAGAAATAATTATTTAAT
100530174 AAGAATAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (23 bp):
TTTAAAGAAATAATTATTTAATT
Found at i:100530462 original size:13 final size:14
Alignment explanation
Indices: 100530423--100530467 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
100530413 TTATAAACTT
*
100530423 TAAATCTTAAATCC
1 TAAATCTCAAATCC
*
100530437 TAGATCTCAAATCC
1 TAAATCTCAAATCC
*
100530451 TAAATC-CAAATCT
1 TAAATCTCAAATCC
100530464 TAAA
1 TAAA
100530468 CTTAAATTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
13 10 0.37
14 17 0.63
ACGTcount: A:0.44, C:0.22, G:0.02, T:0.31
Consensus pattern (14 bp):
TAAATCTCAAATCC
Found at i:100537422 original size:22 final size:22
Alignment explanation
Indices: 100537397--100537440 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
100537387 GCTCTATGTG
*
100537397 TTCATCCATTCACCATGTCATT
1 TTCATCCACTCACCATGTCATT
100537419 TTCATCCACTCACCATGTCATT
1 TTCATCCACTCACCATGTCATT
100537441 CTGCATCAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.34, G:0.05, T:0.39
Consensus pattern (22 bp):
TTCATCCACTCACCATGTCATT
Found at i:100543296 original size:22 final size:21
Alignment explanation
Indices: 100543271--100543320 Score: 50
Period size: 22 Copynumber: 2.3 Consensus size: 21
100543261 CGTGCATAAA
100543271 TTAAATTT-TTAGTTTTTATATT
1 TTAAATTTATTA-TTTTTA-ATT
100543293 TT-AATTTAGTTATTTTTAATT
1 TTAAATTTA-TTATTTTTAATT
*
100543314 TAAAATT
1 TTAAATT
100543321 CTAAAAATTG
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
21 9 0.38
22 12 0.50
23 3 0.12
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (21 bp):
TTAAATTTATTATTTTTAATT
Found at i:100543309 original size:15 final size:16
Alignment explanation
Indices: 100543286--100543315 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
100543276 TTTTTAGTTT
100543286 TTATATTTTAATTTAG
1 TTATATTTTAATTTAG
100543302 TTAT-TTTTAATTTA
1 TTATATTTTAATTTA
100543316 AAATTCTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (16 bp):
TTATATTTTAATTTAG
Found at i:100543746 original size:10 final size:9
Alignment explanation
Indices: 100543733--100543784 Score: 52
Period size: 10 Copynumber: 5.4 Consensus size: 9
100543723 GTTAAAAAAT
100543733 AATTTTCAAA
1 AATTTT-AAA
*
100543743 AATTTAAAA
1 AATTTTAAA
100543752 TAATTTT-AA
1 -AATTTTAAA
100543761 AATTTTAAA
1 AATTTTAAA
100543770 ATATTTATAAA
1 A-ATTT-TAAA
100543781 AATT
1 AATT
100543785 CCAGAAATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
8 6 0.17
9 8 0.22
10 17 0.47
11 5 0.14
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (9 bp):
AATTTTAAA
Found at i:100543767 original size:19 final size:19
Alignment explanation
Indices: 100543728--100543784 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 19
100543718 AAAATGTTAA
100543728 AAAATAATTTTCAAAAATTT
1 AAAATAATTTT-AAAAATTT
*
100543748 AAAATAATTTTAAAATTTT
1 AAAATAATTTTAAAAATTT
100543767 AAAAT-ATTTATAAAAATT
1 AAAATAATTT-TAAAAATT
100543785 CCAGAAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
18 4 0.12
19 19 0.56
20 11 0.32
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (19 bp):
AAAATAATTTTAAAAATTT
Found at i:100543827 original size:11 final size:11
Alignment explanation
Indices: 100543803--100543835 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
100543793 TTATATTTTC
*
100543803 AAAAAA-TTAT
1 AAAAAATTTAA
100543813 AAAAAATTTAA
1 AAAAAATTTAA
100543824 AAAAAATTTAA
1 AAAAAATTTAA
100543835 A
1 A
100543836 GAATATATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 6 0.29
11 15 0.71
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
AAAAAATTTAA
Found at i:100548112 original size:41 final size:41
Alignment explanation
Indices: 100548041--100548121 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 41
100548031 ATATGGTCAG
*
100548041 GGACACGAGCGTGTACCCAGGCCGTATGAGTCACACAGGCAA
1 GGACACGAGCATGTACCCAGGCCGTATGAGTCACA-AGGCAA
** *
100548083 GGACACGAGCATGTGTCCA-GCCGTGTGAGTCACAAGGCA
1 GGACACGAGCATGTACCCAGGCCGTATGAGTCACAAGGCA
100548122 TGTGTCCAGG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 5 0.14
41 14 0.40
42 16 0.46
ACGTcount: A:0.27, C:0.27, G:0.32, T:0.14
Consensus pattern (41 bp):
GGACACGAGCATGTACCCAGGCCGTATGAGTCACAAGGCAA
Found at i:100564113 original size:42 final size:42
Alignment explanation
Indices: 100564067--100564213 Score: 188
Period size: 42 Copynumber: 3.3 Consensus size: 42
100564057 CATAGTTTAA
100564067 CTATGGTCTTACACATCTTCACATAAT-GATGCCATAGCCCAG
1 CTATGGTCTTACACATCTTCACAT-ATCGATGCCATAGCCCAG
* * *
100564109 CTATGGTCTTACACATATTCATATATCGATGCCATAGCCCAA
1 CTATGGTCTTACACATCTTCACATATCGATGCCATAGCCCAG
100564151 CTATGGTCTTACACGTAATCACATATCACATATCGATGCCATAGCCCAG
1 CTATGGTCTTACAC---AT--C-T-TCACATATCGATGCCATAGCCCAG
100564200 CTATGGTCTTACAC
1 CTATGGTCTTACAC
100564214 GAATCACATA
Statistics
Matches: 91, Mismatches: 6, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
41 2 0.02
42 50 0.55
45 2 0.02
48 1 0.01
49 36 0.40
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (42 bp):
CTATGGTCTTACACATCTTCACATATCGATGCCATAGCCCAG
Found at i:100564193 original size:49 final size:48
Alignment explanation
Indices: 100564120--100564256 Score: 181
Period size: 49 Copynumber: 2.9 Consensus size: 48
100564110 TATGGTCTTA
*
100564120 CACATATTCATATATCGATGCCATAGCCCAACTATGGTCTTACACGTAAT
1 CACATA-TCACATATCGATGCCATAGCCCAACTATGGTCTTACACG-AAT
*
100564170 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT
1 CACATATCACATATCGATGCCATAGCCCAACTATGGTCTTACACGAAT
* * *
100564218 CACATATCTCA-CT-GATGCCATATCCCAGA-TATGGTCTTA
1 CACATATCACATATCGATGCCATAGCCCA-ACTATGGTCTTA
100564257 TACAGTAGCA
Statistics
Matches: 80, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
46 23 0.29
47 1 0.01
48 13 0.16
49 37 0.46
50 6 0.08
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.28
Consensus pattern (48 bp):
CACATATCACATATCGATGCCATAGCCCAACTATGGTCTTACACGAAT
Found at i:100564367 original size:31 final size:31
Alignment explanation
Indices: 100564332--100564418 Score: 129
Period size: 31 Copynumber: 2.8 Consensus size: 31
100564322 CTTGTCACTT
* *
100564332 GTAGCCGAAGCTATCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
100564363 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
100564394 GTAGCAGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
100564419 TGTCATTTGT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 49 1.00
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:100564491 original size:50 final size:50
Alignment explanation
Indices: 100564394--100564570 Score: 255
Period size: 50 Copynumber: 3.5 Consensus size: 50
100564384 CACTGATCAG
* * * * *
100564394 GTAGCAGAAGCTACCACTTTTCACTTGTCATTTGTCCTTAATCAGATAGGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
* * * *
100564445 GTAGCTGAAGTTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAAT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
*
100564495 GTAGCCGAAGCTATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
100564545 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
100564571 GTTGCCATGG
Statistics
Matches: 112, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
50 90 0.80
51 22 0.20
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:100568346 original size:24 final size:24
Alignment explanation
Indices: 100568301--100568346 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
100568291 TTTATTTTTA
*
100568301 TTTTTTTCCTTTTTTTTAATATGT
1 TTTTTTTCCTTTTTTATAATATGT
*
100568325 TTTTTTTTC-TTTTTATACATAT
1 TTTTTTTCCTTTTTTATA-ATAT
100568347 ACGTATATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.15, C:0.09, G:0.02, T:0.74
Consensus pattern (24 bp):
TTTTTTTCCTTTTTTATAATATGT
Found at i:100573505 original size:22 final size:22
Alignment explanation
Indices: 100573477--100573529 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
100573467 TGGGCGTGAT
100573477 AATTATCCTTTAAAAAAATTAA
1 AATTATCCTTTAAAAAAATTAA
* *
100573499 AATTATCCTTTAAAAAATTTCA
1 AATTATCCTTTAAAAAAATTAA
100573521 AATTATCCT
1 AATTATCCT
100573530 ATTTAACTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (22 bp):
AATTATCCTTTAAAAAAATTAA
Found at i:100575920 original size:46 final size:46
Alignment explanation
Indices: 100575853--100576027 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
100575843 TGTAACCCGC
100575853 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
100575899 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * * *
100575949 -C-TTA-CGAACTCGGACTCAACTCAACGAGTTCGAGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
100575992 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
100576028 ATGCTCAACC
Statistics
Matches: 110, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 3 0.03
46 63 0.57
47 26 0.24
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:100575973 original size:93 final size:93
Alignment explanation
Indices: 100575861--100576031 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
100575851 GCCCATAAGT
* *
100575861 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
100575926 CGAGCTCGGATGCCTAGTTACATCTTAC
66 CGAGCTCGGATGCCTAGTTACATCTTAC
*
100575954 GAACTCGGACTCAACTCAACGAGTTCGAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
100576019 CGAGTTCGGATGC
66 CGAGCTCGGATGC
100576032 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTTAC
Found at i:100576047 original size:46 final size:46
Alignment explanation
Indices: 100575858--100576047 Score: 151
Period size: 46 Copynumber: 4.1 Consensus size: 46
100575848 CCCGCCCATA
** * *
100575858 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCC-T
*
100575903 AAGTGAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAGTTA-CATCTT
1 -AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTC-A---ACCATCCT
* * * * * *
100575952 A-CGAACTCGGACTCAACTCAACGAGTTCGAGCATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGCTCG-G-ATGCTCAACCATCCT
*
100575997 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCT
100576043 AGTGA
1 AGTGA
100576048 CATGTCACTT
Statistics
Matches: 117, Mismatches: 14, Indels: 26
0.75 0.09 0.17
Matches are distributed among these distances:
44 9 0.08
45 3 0.03
46 64 0.55
47 29 0.25
48 2 0.02
49 5 0.04
50 5 0.04
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCT
Found at i:100583752 original size:28 final size:28
Alignment explanation
Indices: 100583691--100583752 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
100583681 TCAGTGTACG
* * **
100583691 AAATATTGAGAATGGCACTTTGTGTGTG
1 AAATATTGAGAATGACACTTAGTGTGCA
* *
100583719 AGATATTTAGAATGACACTTAGTGTGCA
1 AAATATTGAGAATGACACTTAGTGTGCA
100583747 AAATAT
1 AAATAT
100583753 CGAATGATTC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.35, C:0.08, G:0.23, T:0.34
Consensus pattern (28 bp):
AAATATTGAGAATGACACTTAGTGTGCA
Found at i:100585522 original size:46 final size:45
Alignment explanation
Indices: 100585429--100585514 Score: 120
Period size: 46 Copynumber: 1.9 Consensus size: 45
100585419 TACATCTCAC
* *
100585429 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTC-AACATGCGCAACCATAAGT
* *
100585475 GAACTCGGACTCAACTCAACGAGTTC-AGATGCTCAACCAT
1 GAACTCGGACTCAACTCAACGAGTTCAACATGCGCAACCAT
100585515 CCTAGTGACA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
44 10 0.28
46 26 0.72
ACGTcount: A:0.33, C:0.29, G:0.17, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCAACATGCGCAACCATAAGT
Found at i:100588128 original size:49 final size:50
Alignment explanation
Indices: 100588050--100588282 Score: 290
Period size: 49 Copynumber: 4.7 Consensus size: 50
100588040 ATCTATTGTG
*
100588050 AGGTCACATGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * *
100588100 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT
* * * * * **
100588150 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
** * *
100588200 AGGTCATGTGTGTAGTACTAAGTGAAGGCTACTACGTGTACTGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* *
100588250 -GGTCGCATGTGTAGTACTTAGTGCAGGCTACTA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
100588283 TGCATATCAG
Statistics
Matches: 155, Mismatches: 26, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
49 71 0.46
50 45 0.29
51 39 0.25
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.30
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:100588240 original size:101 final size:98
Alignment explanation
Indices: 100588053--100588282 Score: 289
Period size: 100 Copynumber: 2.3 Consensus size: 98
100588043 TATTGTGAGG
* * *
100588053 TCACATGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACT
* *
100588118 AAGTGCAGGCTACTATGTGTACCCGATAACTTCGA
66 AAGTGAAGGCTACTACGTGTACCCGATAA-TT-GA
* * ** **
100588153 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCATGTGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACATGTGTAGTAC
** *
100588218 TAAGTGAAGGCTACTACGTGTACTGGATAATTGG
65 TAAGTGAAGGCTACTACGTGTACCCGATAATTGA
* *
100588252 TCGCATGTGTAGTACTTAGTGCAGGCTACTA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTA
100588283 TGCATATCAG
Statistics
Matches: 112, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
99 29 0.26
100 43 0.38
101 40 0.36
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (98 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACT
AAGTGAAGGCTACTACGTGTACCCGATAATTGA
Found at i:100596521 original size:18 final size:19
Alignment explanation
Indices: 100596495--100596531 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
100596485 CATAACTGGA
100596495 AAATCTAAAAA-AGGTTTT
1 AAATCTAAAAATAGGTTTT
*
100596513 AAATGTAAAAATAGGTTTT
1 AAATCTAAAAATAGGTTTT
100596532 CATAGTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.49, C:0.03, G:0.14, T:0.35
Consensus pattern (19 bp):
AAATCTAAAAATAGGTTTT
Found at i:100599147 original size:12 final size:12
Alignment explanation
Indices: 100599132--100599184 Score: 54
Period size: 12 Copynumber: 4.4 Consensus size: 12
100599122 TTCAGTTTCC
*
100599132 GGTTTGGTCTCT
1 GGTTTGGCCTCT
100599144 GGTTTGGCCTCCT
1 GGTTTGGCCT-CT
*
100599157 -CTTTGGCCTCT
1 GGTTTGGCCTCT
* *
100599168 TGTTTGGTCTCT
1 GGTTTGGCCTCT
100599180 GGTTT
1 GGTTT
100599185 AGGAATTGTC
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
11 2 0.06
12 30 0.88
13 2 0.06
ACGTcount: A:0.00, C:0.23, G:0.28, T:0.49
Consensus pattern (12 bp):
GGTTTGGCCTCT
Found at i:100600438 original size:25 final size:25
Alignment explanation
Indices: 100600407--100600497 Score: 73
Period size: 25 Copynumber: 3.6 Consensus size: 25
100600397 TTTATTTAGA
100600407 TTTTATAATTTTTTTAAATTAAATT
1 TTTTATAATTTTTTTAAATTAAATT
100600432 TTTTAT-ATATTTTTTAAA--AAATT
1 TTTTATAAT-TTTTTTAAATTAAATT
** * *
100600455 AATTATATATTTTTTAAAATATATAAAT
1 TTTTATA-ATTTTTTTAAAT-TA-AATT
100600483 TTTTA-AATTTATTTT
1 TTTTATAATTT-TTTT
100600498 GATTTTTTTA
Statistics
Matches: 51, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
23 9 0.18
24 10 0.20
25 17 0.33
26 4 0.08
27 5 0.10
28 6 0.12
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (25 bp):
TTTTATAATTTTTTTAAATTAAATT
Found at i:100600453 original size:23 final size:23
Alignment explanation
Indices: 100600407--100600473 Score: 82
Period size: 23 Copynumber: 2.8 Consensus size: 23
100600397 TTTATTTAGA
100600407 TTTTATA-ATTTTTTTAAATTAAATT
1 TTTTATATA-TTTTTTAAA--AAATT
100600432 TTTTATATATTTTTTAAAAAATT
1 TTTTATATATTTTTTAAAAAATT
**
100600455 AATTATATATTTTTTAAAA
1 TTTTATATATTTTTTAAAA
100600474 TATATAAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
23 22 0.56
25 16 0.41
26 1 0.03
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
TTTTATATATTTTTTAAAAAATT
Found at i:100603591 original size:33 final size:32
Alignment explanation
Indices: 100603545--100603607 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 32
100603535 GCATCAACAG
* *
100603545 AGTAAGTCTGTCGGGATAGTAAACACAGAAAAA
1 AGTAAGTCCGTCGGGACAGTAAACAC-GAAAAA
100603578 AGTAAGTCCGTCGGGACAGTAAACACGAAA
1 AGTAAGTCCGTCGGGACAGTAAACACGAAA
100603608 CAGAGATGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 4 0.14
33 24 0.86
ACGTcount: A:0.43, C:0.16, G:0.25, T:0.16
Consensus pattern (32 bp):
AGTAAGTCCGTCGGGACAGTAAACACGAAAAA
Found at i:100606552 original size:20 final size:19
Alignment explanation
Indices: 100606503--100606555 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
100606493 TAATCTCTAA
100606503 ATTTTAATAA-AAA-TATT
1 ATTTTAATAATAAATTATT
* *
100606520 ATTTTATTTATAAATTATT
1 ATTTTAATAATAAATTATT
100606539 ATTTTAATAAATAAATT
1 ATTTTAAT-AATAAATT
100606556 TCATATTAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
17 8 0.28
18 3 0.10
19 11 0.38
20 7 0.24
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTTTAATAATAAATTATT
Found at i:100609269 original size:34 final size:33
Alignment explanation
Indices: 100609226--100609289 Score: 101
Period size: 34 Copynumber: 1.9 Consensus size: 33
100609216 ACAACTCACT
*
100609226 TTGCAAGTTTTCAAACTCAAGAAATCAGTATCTA
1 TTGCAAGTTTTCAAACT-AAAAAATCAGTATCTA
*
100609260 TTGCAAGTTTTCAAACTAAAAAATTAGTAT
1 TTGCAAGTTTTCAAACTAAAAAATCAGTAT
100609290 GTAAAAATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 11 0.39
34 17 0.61
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.34
Consensus pattern (33 bp):
TTGCAAGTTTTCAAACTAAAAAATCAGTATCTA
Found at i:100613543 original size:22 final size:21
Alignment explanation
Indices: 100613491--100613547 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
100613481 TTAAATTGAT
*
100613491 CATATTGAAATAAAAGAAACA
1 CATATTGAAATAAAAAAAACA
*
100613512 CATATTGAAATAATAGAAAAACT
1 CATATTGAAATAA-A-AAAAACA
100613535 CA-ATTGAAATAAA
1 CATATTGAAATAAA
100613548 CCAAACTTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 14 0.44
22 11 0.34
23 7 0.22
ACGTcount: A:0.60, C:0.09, G:0.09, T:0.23
Consensus pattern (21 bp):
CATATTGAAATAAAAAAAACA
Found at i:100615570 original size:15 final size:16
Alignment explanation
Indices: 100615550--100615587 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
100615540 TAATTTCATG
100615550 TTGAAACACATA-A-AT
1 TTGAAAC-CATATATAT
100615565 TTGAAACCATATATAT
1 TTGAAACCATATATAT
100615581 TTGAAAC
1 TTGAAAC
100615588 TTTTTCAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 4 0.19
15 8 0.38
16 9 0.43
ACGTcount: A:0.47, C:0.13, G:0.08, T:0.32
Consensus pattern (16 bp):
TTGAAACCATATATAT
Found at i:100615722 original size:30 final size:29
Alignment explanation
Indices: 100615687--100615752 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 29
100615677 TTTGTAGAAT
*
100615687 TTTTTTTTA-TTTTTT-AACTTTCTTTATATA
1 TTTTTTTGATTTTTTTGAA-TTT-TTTATA-A
*
100615717 TTTTTTAGATTTTTTTGAATTTTTTATAA
1 TTTTTTTGATTTTTTTGAATTTTTTATAA
100615746 TTTTTTT
1 TTTTTTT
100615753 AAAAATATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
29 7 0.23
30 13 0.42
31 9 0.29
32 2 0.06
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.74
Consensus pattern (29 bp):
TTTTTTTGATTTTTTTGAATTTTTTATAA
Found at i:100617353 original size:42 final size:42
Alignment explanation
Indices: 100617275--100617371 Score: 124
Period size: 42 Copynumber: 2.3 Consensus size: 42
100617265 ATAGTTCAAA
* ** *
100617275 TATGGTCTTACACATCTTCACATAATAATGTTATAGCCTAGC
1 TATGGTCTTACACATATTCACATAATAATGCCATAGCCCAGC
* *
100617317 TATGGTCTTACACATATTCATAT-ATCGATGCCATAGCCCAGC
1 TATGGTCTTACACATATTCACATAAT-AATGCCATAGCCCAGC
100617359 TATGGTCTTACAC
1 TATGGTCTTACAC
100617372 GAATCACATA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
41 2 0.04
42 46 0.96
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (42 bp):
TATGGTCTTACACATATTCACATAATAATGCCATAGCCCAGC
Found at i:100617413 original size:46 final size:47
Alignment explanation
Indices: 100617343--100617461 Score: 136
Period size: 46 Copynumber: 2.6 Consensus size: 47
100617333 TTCATATATC
* * *
100617343 GATGCCATAGCCCAGCTATGGTCTTACACGAATCA-CATATCTCAC-T-
1 GATGCCATATCCCAGATATGGTCTTACAC-AAT-AGCATATATCACATA
* * *
100617389 GATGTCATATCCCAGATATGGTCTTATACAGTAGCATATATCACATA
1 GATGCCATATCCCAGATATGGTCTTACACAATAGCATATATCACATA
*
100617436 GATGCCATATCCCAGATATGATCTTA
1 GATGCCATATCCCAGATATGGTCTTA
100617462 TACGGAAATC
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
44 1 0.02
45 11 0.18
46 26 0.42
47 24 0.39
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.29
Consensus pattern (47 bp):
GATGCCATATCCCAGATATGGTCTTACACAATAGCATATATCACATA
Found at i:100617448 original size:47 final size:46
Alignment explanation
Indices: 100617343--100617465 Score: 142
Period size: 47 Copynumber: 2.7 Consensus size: 46
100617333 TTCATATATC
* * * *
100617343 GATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCACT
1 GATGCCATATCCCAGATATGGTCTTATACGAATCACATATATCACT
* *
100617389 GATGTCATATCCCAGATATGGTCTTATAC-AGT-AGCATATATCACAT
1 GATGCCATATCCCAGATATGGTCTTATACGAATCA-CATATATCAC-T
*
100617435 AGATGCCATATCCCAGATATGATCTTATACG
1 -GATGCCATATCCCAGATATGGTCTTATACG
100617466 GAAATCACTT
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
44 1 0.02
45 11 0.17
46 26 0.40
47 27 0.42
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.29
Consensus pattern (46 bp):
GATGCCATATCCCAGATATGGTCTTATACGAATCACATATATCACT
Found at i:100617532 original size:31 final size:31
Alignment explanation
Indices: 100617497--100617638 Score: 232
Period size: 31 Copynumber: 4.6 Consensus size: 31
100617487 CTTGTAGCCA
* *
100617497 AAGCTACCATTTTTCACTGATCAGGTAGCTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCAG
*
100617528 AAGCTACCACTTTTCACCGATCAGGTAGCCAG
1 AAGCTACCACTTTTCACTGATCAGGTAG-CAG
100617560 AA-CTACCACTTTTCACTGATCAGGTAGCAG
1 AAGCTACCACTTTTCACTGATCAGGTAGCAG
*
100617590 AAGCTACCACTTTTCACTGATCAGGTAGCTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCAG
100617621 AAGCTACCACTTTTCACT
1 AAGCTACCACTTTTCACT
100617639 TGTCATTTGT
Statistics
Matches: 104, Mismatches: 5, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
30 5 0.05
31 95 0.91
32 4 0.04
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.28
Consensus pattern (31 bp):
AAGCTACCACTTTTCACTGATCAGGTAGCAG
Found at i:100617720 original size:50 final size:51
Alignment explanation
Indices: 100617614--100617742 Score: 199
Period size: 50 Copynumber: 2.5 Consensus size: 51
100617604 CACTGATCAG
* * *
100617614 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
*
100617665 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGT
100617715 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
100617743 TGCCATGGTC
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
50 45 0.62
51 27 0.38
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Found at i:100620674 original size:17 final size:17
Alignment explanation
Indices: 100620654--100620702 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
100620644 AGCTATCCTC
100620654 AAAAAATAGTTGTTCTA
1 AAAAAATAGTTGTTCTA
* * *
100620671 AAAATATAATTATTCTA
1 AAAAAATAGTTGTTCTA
*
100620688 AACAAA-AGTTGTTCT
1 AAAAAATAGTTGTTCT
100620703 TTCAGAAGAG
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
16 7 0.28
17 18 0.72
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.37
Consensus pattern (17 bp):
AAAAAATAGTTGTTCTA
Found at i:100622838 original size:3 final size:3
Alignment explanation
Indices: 100622825--100622870 Score: 58
Period size: 3 Copynumber: 15.3 Consensus size: 3
100622815 ATATTTATGA
* *
100622825 ATT AAT ATT ATT A-T ATT ATT ATT ATGT ATT ATT ATT AAT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT
100622870 A
1 A
100622871 ACTAATATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
2 2 0.05
3 32 0.86
4 3 0.08
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:100622866 original size:19 final size:18
Alignment explanation
Indices: 100622833--100622868 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
100622823 GAATTAATAT
*
100622833 TATTATATTATTATTATG
1 TATTATATTAATATTATG
100622851 TATTATTATTAATATTAT
1 TATTA-TATTAATATTAT
100622869 TAACTAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (18 bp):
TATTATATTAATATTATG
Found at i:100623947 original size:23 final size:23
Alignment explanation
Indices: 100623921--100624010 Score: 126
Period size: 23 Copynumber: 3.9 Consensus size: 23
100623911 CTTAGTGTCG
* *
100623921 TTCTGGTGTATTTGGGTGGATTA
1 TTCTGGTGTGTTTGGTTGGATTA
* *
100623944 TTCTGGTGTGTTTGGATGGATCA
1 TTCTGGTGTGTTTGGTTGGATTA
*
100623967 TTCTGGCGTGTTTGGTTGGATTA
1 TTCTGGTGTGTTTGGTTGGATTA
*
100623990 TTTTGGTGTGTTTGGTTGGAT
1 TTCTGGTGTGTTTGGTTGGAT
100624011 CCGTGTATCC
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 59 1.00
ACGTcount: A:0.10, C:0.06, G:0.36, T:0.49
Consensus pattern (23 bp):
TTCTGGTGTGTTTGGTTGGATTA
Found at i:100624684 original size:36 final size:36
Alignment explanation
Indices: 100624637--100624709 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
100624627 ATAGTATCAT
*
100624637 GAATGTTGTTGATCAATTTGATAAGTCAATGTTTTA
1 GAATGTTGTTGATCAATTTGACAAGTCAATGTTTTA
100624673 GAATGTTGTTGATCAATTTGACAAGTCAATGTTTTA
1 GAATGTTGTTGATCAATTTGACAAGTCAATGTTTTA
100624709 G
1 G
100624710 GCATGATTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.42
Consensus pattern (36 bp):
GAATGTTGTTGATCAATTTGACAAGTCAATGTTTTA
Found at i:100628060 original size:24 final size:24
Alignment explanation
Indices: 100628033--100628099 Score: 82
Period size: 24 Copynumber: 2.8 Consensus size: 24
100628023 GGCTCTTCGA
*
100628033 AGCTACCTGTTATTGGCTCGCATG
1 AGCTTCCTGTTATTGGCTCGCATG
**
100628057 AGCTTCCTGATTA-TGGCTCTTATG
1 AGCTTCCTG-TTATTGGCTCGCATG
100628081 AGCTTCCTGTTATATGGCT
1 AGCTTCCTGTTAT-TGGCT
100628100 TGAGAGAGGG
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
23 3 0.08
24 26 0.70
25 8 0.22
ACGTcount: A:0.16, C:0.22, G:0.22, T:0.39
Consensus pattern (24 bp):
AGCTTCCTGTTATTGGCTCGCATG
Found at i:100630281 original size:15 final size:15
Alignment explanation
Indices: 100630261--100630292 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
100630251 AATTTCACTA
*
100630261 TTATATCTTTTGTAT
1 TTATATCTTTTATAT
100630276 TTATATCTTTTATAT
1 TTATATCTTTTATAT
100630291 TT
1 TT
100630293 TTCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.06, G:0.03, T:0.69
Consensus pattern (15 bp):
TTATATCTTTTATAT
Found at i:100632005 original size:68 final size:67
Alignment explanation
Indices: 100631908--100632105 Score: 182
Period size: 68 Copynumber: 3.0 Consensus size: 67
100631898 ATTTTAATAG
* * *
100631908 TTTAATATTAAATTTAATTTAGTACTTATCTTAATACTATTTTATTAATTTAATATTAAAGTGAT
1 TTTAATATTAAATTTAATTTAATATTTATCTTAATACTATTATATTAATTTAATATTAAAGTGAT
100631973 TA
66 TA
* * *
100631975 TCTTAATATTAAATTTAATTTAATGTTTATCTTGTAAATAAAC-ATTCTATT-ATTT--TAAT-A
1 T-TTAATATTAAATTTAATTTAATATTTATC-T-T-AAT--ACTATTATATTAATTTAATATTAA
100632035 A--GA-T-
60 AGTGATTA
* * *
100632039 TTT-ATATTAAATTTAATCTAATATTTATCTTGATATTTATTATATTAATTTAATATTAAAGTGA
1 TTTAATATTAAATTTAATTTAATATTTATCTTAATA-CTATTATATTAATTTAATATTAAAGTGA
100632103 TTA
65 TTA
100632106 ATTTTAATCA
Statistics
Matches: 104, Mismatches: 11, Indels: 32
0.71 0.07 0.22
Matches are distributed among these distances:
57 1 0.01
59 9 0.09
60 5 0.05
61 1 0.01
62 27 0.26
63 4 0.04
64 1 0.01
65 3 0.03
66 3 0.03
67 1 0.01
68 28 0.27
69 4 0.04
70 1 0.01
71 7 0.07
72 7 0.07
73 2 0.02
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.52
Consensus pattern (67 bp):
TTTAATATTAAATTTAATTTAATATTTATCTTAATACTATTATATTAATTTAATATTAAAGTGAT
TA
Found at i:100635995 original size:24 final size:25
Alignment explanation
Indices: 100635968--100636014 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
100635958 AGAAGAGAGA
*
100635968 AAAATAAAG-GAGAAAAAGAAAAGG
1 AAAATAAAGAAAGAAAAAGAAAAGG
*
100635992 AAAATAAAGAAATAAAAAGAAAA
1 AAAATAAAGAAAGAAAAAGAAAA
100636015 AATTAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.06
Consensus pattern (25 bp):
AAAATAAAGAAAGAAAAAGAAAAGG
Found at i:100637621 original size:31 final size:31
Alignment explanation
Indices: 100637581--100637648 Score: 118
Period size: 31 Copynumber: 2.2 Consensus size: 31
100637571 TTAACAACCT
100637581 AGTGACTTAAATAAAAACTTTTGAATAGTTC
1 AGTGACTTAAATAAAAACTTTTGAATAGTTC
* *
100637612 AGTGGCTTAAATGAAAACTTTTGAATAGTTC
1 AGTGACTTAAATAAAAACTTTTGAATAGTTC
100637643 AGTGAC
1 AGTGAC
100637649 CATTTTGTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.34
Consensus pattern (31 bp):
AGTGACTTAAATAAAAACTTTTGAATAGTTC
Found at i:100638815 original size:17 final size:17
Alignment explanation
Indices: 100638793--100638835 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
100638783 GGCTAAATTG
*
100638793 GGGCGTGTGGGCTACAT
1 GGGCGTGTGGGCCACAT
100638810 GGGCGTGTGGGCCACAT
1 GGGCGTGTGGGCCACAT
*
100638827 GGGTGTGTG
1 GGGCGTGTG
100638836 AGCCCATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.09, C:0.16, G:0.51, T:0.23
Consensus pattern (17 bp):
GGGCGTGTGGGCCACAT
Found at i:100642721 original size:26 final size:29
Alignment explanation
Indices: 100642685--100642744 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 29
100642675 TATATTATAT
* *
100642685 TATATTATTTTA-ATATTTAATATTTTTA
1 TATATTATTTTATATATTGAAAATTTTTA
*
100642713 TATATT-TTTTATTTATTGAAAATTTTTA
1 TATATTATTTTATATATTGAAAATTTTTA
100642741 TATA
1 TATA
100642745 GTCATCTTAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 5 0.18
28 23 0.82
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (29 bp):
TATATTATTTTATATATTGAAAATTTTTA
Found at i:100646797 original size:21 final size:20
Alignment explanation
Indices: 100646772--100646848 Score: 91
Period size: 21 Copynumber: 3.6 Consensus size: 20
100646762 TCATGGTTTG
100646772 GGTTTAGAGTTCAGTGTTCGA
1 GGTTTA-AGTTCAGTGTTCGA
*
100646793 GGTTTAAGATTTAGTGTTCGA
1 GGTTTAAG-TTCAGTGTTCGA
* *
100646814 GGTTTAATGTTCAATGTTCAA
1 GGTTTAA-GTTCAGTGTTCGA
100646835 GGTTTCAAGTTCAG
1 GGTTT-AAGTTCAG
100646849 GGTCTTGGGT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
20 2 0.04
21 43 0.90
22 3 0.06
ACGTcount: A:0.23, C:0.09, G:0.27, T:0.40
Consensus pattern (20 bp):
GGTTTAAGTTCAGTGTTCGA
Found at i:100648299 original size:6 final size:6
Alignment explanation
Indices: 100648288--100648320 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
100648278 AAGAAATTAA
100648288 AAATAT AAATAT AAATAT AAATAT AAATAT AAA
1 AAATAT AAATAT AAATAT AAATAT AAATAT AAA
100648321 AGAGGTACCG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (6 bp):
AAATAT
Found at i:100656390 original size:23 final size:24
Alignment explanation
Indices: 100656360--100656405 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
100656350 ATAAAGAAAC
100656360 ATGACAAATAATTA-ACATGCCAA
1 ATGACAAATAATTAGACATGCCAA
**
100656383 ATGACAAATTCTTAGACATGCCA
1 ATGACAAATAATTAGACATGCCA
100656406 CATAAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.46, C:0.20, G:0.11, T:0.24
Consensus pattern (24 bp):
ATGACAAATAATTAGACATGCCAA
Found at i:100661805 original size:22 final size:22
Alignment explanation
Indices: 100661780--100661845 Score: 53
Period size: 23 Copynumber: 2.9 Consensus size: 22
100661770 TTTTTGGAAT
100661780 TAAATTATAATTTTTATAATAA
1 TAAATTATAATTTTTATAATAA
* * **
100661802 TAAAAATGTAATTTTATCATTTTAA
1 T-AAATTATAATTTT-T-ATAATAA
*
100661827 TAATTTAT-ATTTTTATAAT
1 TAAATTATAATTTTTATAAT
100661846 TTTTAAAATA
Statistics
Matches: 32, Mismatches: 9, Indels: 7
0.67 0.19 0.15
Matches are distributed among these distances:
21 3 0.09
22 2 0.06
23 16 0.50
24 5 0.16
25 6 0.19
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (22 bp):
TAAATTATAATTTTTATAATAA
Found at i:100661844 original size:15 final size:16
Alignment explanation
Indices: 100661814--100661847 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
100661804 AAAATGTAAT
100661814 TTTATCATTTTAATAA
1 TTTATCATTTTAATAA
*
100661830 TTTAT-ATTTTTATAA
1 TTTATCATTTTAATAA
100661845 TTT
1 TTT
100661848 TTAAAATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTATCATTTTAATAA
Found at i:100668381 original size:36 final size:36
Alignment explanation
Indices: 100668310--100668381 Score: 103
Period size: 36 Copynumber: 2.0 Consensus size: 36
100668300 TCAGAAAAGC
*
100668310 TATTTTTACATATATTAATAAATTTATATTTTAAAT
1 TATTTTTACATATATTAATAAATTTATATTATAAAT
100668346 TATTTTTACATATATTGCAAT-AATTTAT-TTATAAAT
1 TATTTTTACATATATT--AATAAATTTATATTATAAAT
100668382 AAATAAATCA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
36 23 0.70
37 7 0.21
38 3 0.09
ACGTcount: A:0.40, C:0.04, G:0.01, T:0.54
Consensus pattern (36 bp):
TATTTTTACATATATTAATAAATTTATATTATAAAT
Found at i:100677446 original size:34 final size:34
Alignment explanation
Indices: 100677406--100677513 Score: 123
Period size: 40 Copynumber: 3.1 Consensus size: 34
100677396 GACCTTGCGA
100677406 AGAGGAATGAGATTTGCCTGAGAAAGAGAGAAAG
1 AGAGGAATGAGATTTGCCTGAGAAAGAGAGAAAG
100677440 AGAGGAATGAGATTAGCCTTTGCCTGAGAAAGAGAGAAAG
1 AGAGGAATGAG---A---TTTGCCTGAGAAAGAGAGAAAG
* *
100677480 GGAGGAATGAGATTTG-C--AGAAAGAGAGAGAG
1 AGAGGAATGAGATTTGCCTGAGAAAGAGAGAAAG
100677511 AGA
1 AGA
100677514 AAGAAGATGA
Statistics
Matches: 65, Mismatches: 3, Indels: 15
0.78 0.04 0.18
Matches are distributed among these distances:
31 15 0.23
33 1 0.02
34 15 0.23
37 2 0.03
40 32 0.49
ACGTcount: A:0.43, C:0.06, G:0.36, T:0.15
Consensus pattern (34 bp):
AGAGGAATGAGATTTGCCTGAGAAAGAGAGAAAG
Found at i:100677473 original size:40 final size:40
Alignment explanation
Indices: 100677418--100677493 Score: 143
Period size: 40 Copynumber: 1.9 Consensus size: 40
100677408 AGGAATGAGA
100677418 TTTGCCTGAGAAAGAGAGAAAGAGAGGAATGAGATTAGCC
1 TTTGCCTGAGAAAGAGAGAAAGAGAGGAATGAGATTAGCC
*
100677458 TTTGCCTGAGAAAGAGAGAAAGGGAGGAATGAGATT
1 TTTGCCTGAGAAAGAGAGAAAGAGAGGAATGAGATT
100677494 TGCAGAAAGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.39, C:0.08, G:0.34, T:0.18
Consensus pattern (40 bp):
TTTGCCTGAGAAAGAGAGAAAGAGAGGAATGAGATTAGCC
Found at i:100678949 original size:52 final size:52
Alignment explanation
Indices: 100678889--100678994 Score: 203
Period size: 52 Copynumber: 2.0 Consensus size: 52
100678879 TATTATTGAA
100678889 AATAATTTTTAATGTTTTTTTTAAAAGTTGAATTGCAAGTGGTAAATCTTTT
1 AATAATTTTTAATGTTTTTTTTAAAAGTTGAATTGCAAGTGGTAAATCTTTT
*
100678941 AATAATTTTTAATGTTTTTTTTAAAAGTTGAATTGCAAGTGGTAAATTTTTT
1 AATAATTTTTAATGTTTTTTTTAAAAGTTGAATTGCAAGTGGTAAATCTTTT
100678993 AA
1 AA
100678995 GGGATATAAA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.34, C:0.03, G:0.13, T:0.50
Consensus pattern (52 bp):
AATAATTTTTAATGTTTTTTTTAAAAGTTGAATTGCAAGTGGTAAATCTTTT
Found at i:100681764 original size:18 final size:19
Alignment explanation
Indices: 100681736--100681795 Score: 63
Period size: 18 Copynumber: 3.3 Consensus size: 19
100681726 AATTATATAT
*
100681736 ATATT-TAAATTTTAAAAG
1 ATATTATAAATTTTAAAAA
100681754 A-ATTATAAATTTGTAAAAA
1 ATATTATAAATTT-TAAAAA
*
100681773 ATATTA-AAATTTTTAAAA
1 ATATTATAAATTTTAAAAA
*
100681791 TTATT
1 ATATT
100681796 GAATAAAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
17 3 0.08
18 17 0.47
19 12 0.33
20 4 0.11
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (19 bp):
ATATTATAAATTTTAAAAA
Found at i:100681819 original size:24 final size:22
Alignment explanation
Indices: 100681788--100681832 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
100681778 AAAATTTTTA
*
100681788 AAATTATTGAATAAAATTCAAAAT
1 AAATTATT-AAAAAAATT-AAAAT
100681812 AAATTATTAAAAAAATTAAAA
1 AAATTATTAAAAAAATTAAAA
100681833 GTTTAAGCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 4 0.20
23 8 0.40
24 8 0.40
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (22 bp):
AAATTATTAAAAAAATTAAAAT
Found at i:100694052 original size:4 final size:4
Alignment explanation
Indices: 100694043--100694075 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
100694033 CAGAGGTATC
100694043 CATA CATA CATA CATA CATA CATA CATA CATA C
1 CATA CATA CATA CATA CATA CATA CATA CATA C
100694076 TTTCTGATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.24
Consensus pattern (4 bp):
CATA
Found at i:100699367 original size:38 final size:38
Alignment explanation
Indices: 100699316--100699391 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
100699306 ACTCACCACC
*
100699316 ATCCTCACTTGTTCCATATTTTGTAAGGATCATAACAT
1 ATCCTCACTTGTTCCATATTTTATAAGGATCATAACAT
100699354 ATCCTCACTTGTTCCATATTTTATAAGGATCATAACAT
1 ATCCTCACTTGTTCCATATTTTATAAGGATCATAACAT
100699392 GAAAAATACA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.39
Consensus pattern (38 bp):
ATCCTCACTTGTTCCATATTTTATAAGGATCATAACAT
Found at i:100707243 original size:24 final size:25
Alignment explanation
Indices: 100707208--100707256 Score: 59
Period size: 24 Copynumber: 2.0 Consensus size: 25
100707198 AGGATTAGGG
100707208 TTTAGTGGTTTAAG-A-TTTTTAAGA
1 TTTAGTGGTTT-AGTATTTTTTAAGA
100707232 TTTAG-GGTTTTAGTATTTTTTAAGA
1 TTTAGTGG-TTTAGTATTTTTTAAGA
100707257 GAAAAATTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
23 4 0.18
24 9 0.41
25 9 0.41
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.53
Consensus pattern (25 bp):
TTTAGTGGTTTAGTATTTTTTAAGA
Found at i:100707453 original size:153 final size:158
Alignment explanation
Indices: 100707245--100707591 Score: 438
Period size: 153 Copynumber: 2.2 Consensus size: 158
100707235 AGGGTTTTAG
* * *
100707245 TATTTTTTAAGAGAAAAATTAGTTTAATTAGAGTTAAGGGTTAATTAATTAAATTAACTATGAAA
1 TATTTTTTAAGGGAAAAATTAATTTAATTAGAGTTAAGAGTTAATTAATTAAATTAACTATGAAA
* *
100707310 TTAAAAAAAT-AATT-AA-A-G-TAGGGTTTAGGGTTTTTTAAGGTTA-GGTTTTTGATTATTTT
66 TTAAAAAAATCAATTAAATAGGTTAGGGTTTAAGGTTTTTTAAGGTTAGGGTTTTT-ATTATTTC
* *
100707369 AGGATTAGGG-TTTAGTGGGTTAGGATTT
130 AGGATTAGGGTTTTAATAGGTTAGGATTT
* *
100707397 TATTATTTTAAGGGAAAAGTTAATTTAATTAGAGTTGAGAGTTAATTAATTAAATTAACTATGAA
1 TATT-TTTTAAGGGAAAAATTAATTTAATTAGAGTTAAGAGTTAATTAATTAAATTAACTATGAA
* *
100707462 ATTAAAAAAATCAATTAAATTAGGATTTAGGGTTTAATGTTTTTTAAGGTTAGGGTTTTTATTGT
65 ATTAAAAAAATCAATTAAA-TAGG--TTAGGGTTTAAGGTTTTTTAAGGTTAGGGTTTTTATTAT
* * *
100707527 TTCGGGATTAGGGTTTTAATAGTTTAGGGTTTT
127 TTCAGGATTAGGGTTTTAATAGGTTA-GGATTT
*
100707560 AGTATTTTTTAAGGGAAAATTTAATTTAATTA
1 --TATTTTTTAAGGGAAAAATTAATTTAATTA
100707592 AAAGCTCTAA
Statistics
Matches: 166, Mismatches: 15, Indels: 16
0.84 0.08 0.08
Matches are distributed among these distances:
152 4 0.02
153 66 0.40
154 4 0.02
155 2 0.01
157 1 0.01
158 1 0.01
161 38 0.23
162 16 0.10
163 5 0.03
164 25 0.15
165 4 0.02
ACGTcount: A:0.35, C:0.01, G:0.20, T:0.44
Consensus pattern (158 bp):
TATTTTTTAAGGGAAAAATTAATTTAATTAGAGTTAAGAGTTAATTAATTAAATTAACTATGAAA
TTAAAAAAATCAATTAAATAGGTTAGGGTTTAAGGTTTTTTAAGGTTAGGGTTTTTATTATTTCA
GGATTAGGGTTTTAATAGGTTAGGATTT
Found at i:100709561 original size:31 final size:31
Alignment explanation
Indices: 100709486--100709569 Score: 95
Period size: 31 Copynumber: 2.8 Consensus size: 31
100709476 AAAGTTATGA
100709486 TTTAGTCCATATAC--TTT-AATTTGATCAAT
1 TTTAGTCCATATACTTTTTGAA-TTGATCAAT
*
100709515 TTTAGT-CATTGTACTTTTTGAATTGATCAAT
1 TTTAGTCCA-TATACTTTTTGAATTGATCAAT
* *
100709546 TTTAGTCCCTATACTTTTCGAATT
1 TTTAGTCCATATACTTTTTGAATT
100709570 CTAAAATTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
28 2 0.04
29 10 0.22
31 31 0.67
32 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.10, T:0.50
Consensus pattern (31 bp):
TTTAGTCCATATACTTTTTGAATTGATCAAT
Found at i:100709862 original size:62 final size:62
Alignment explanation
Indices: 100709791--100709922 Score: 169
Period size: 62 Copynumber: 2.1 Consensus size: 62
100709781 AAAGTTTGAA
* * *
100709791 GAAAGTTTTC-AAAAATTTGAGGGGGCCTAATTAAATTTTTCTAAAAACTTCAA-GAGAGAAAT
1 GAAAATTTTCGAAAAATTTGA-CGGGCCTAATTAAAATTTTCTAAAAACTTCAATG-GAGAAAT
* * *
100709853 GAAAATTTTCGAAAATTTTGACGGGCTTAATTAAAATTTTCTAAAAATTTCAATGGAGAAAT
1 GAAAATTTTCGAAAAATTTGACGGGCCTAATTAAAATTTTCTAAAAACTTCAATGGAGAAAT
*
100709915 CAAAATTT
1 GAAAATTT
100709923 CCCAATTTTT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
62 51 0.84
63 10 0.16
ACGTcount: A:0.42, C:0.09, G:0.15, T:0.33
Consensus pattern (62 bp):
GAAAATTTTCGAAAAATTTGACGGGCCTAATTAAAATTTTCTAAAAACTTCAATGGAGAAAT
Found at i:100709920 original size:31 final size:30
Alignment explanation
Indices: 100709827--100709922 Score: 77
Period size: 31 Copynumber: 3.1 Consensus size: 30
100709817 CTAATTAAAT
* *
100709827 TTTTCTAAAAACTTCAAGAGAGAAATGAAAA
1 TTTTCTAAAAATTTCAAG-GAGAAATCAAAA
* * * * * *
100709858 TTTTCGAAAATTTTGACGG-GCTTAATTAAAA
1 TTTTCTAAAAATTTCAAGGAG--AAATCAAAA
100709889 TTTTCTAAAAATTTCAATGGAGAAATCAAAA
1 TTTTCTAAAAATTTCAA-GGAGAAATCAAAA
100709920 TTT
1 TTT
100709923 CCCAATTTTT
Statistics
Matches: 48, Mismatches: 13, Indels: 8
0.70 0.19 0.12
Matches are distributed among these distances:
29 1 0.02
30 1 0.02
31 43 0.90
32 2 0.04
33 1 0.02
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.34
Consensus pattern (30 bp):
TTTTCTAAAAATTTCAAGGAGAAATCAAAA
Found at i:100711324 original size:18 final size:17
Alignment explanation
Indices: 100711301--100711359 Score: 65
Period size: 14 Copynumber: 3.7 Consensus size: 17
100711291 CAATATGTTC
100711301 ATTTAATTAATTTATAAA
1 ATTTAATTAA-TTATAAA
100711319 ATTTAATTAA-T-T-AA
1 ATTTAATTAATTATAAA
*
100711333 ATTTATTTAATTA-AAA
1 ATTTAATTAATTATAAA
100711349 A-TTAATTAATT
1 ATTTAATTAATT
100711360 TACTTGGTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
14 11 0.31
15 11 0.31
16 4 0.11
18 10 0.28
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTTAATTAATTATAAA
Found at i:100711330 original size:9 final size:9
Alignment explanation
Indices: 100711301--100711361 Score: 52
Period size: 9 Copynumber: 6.6 Consensus size: 9
100711291 CAATATGTTC
100711301 ATTTAATTA
1 ATTTAATTA
*
100711310 ATTT-ATAAA
1 ATTTAAT-TA
100711319 ATTTAATTA
1 ATTTAATTA
* *
100711328 ATTAAATTT
1 ATTTAATTA
100711337 ATTTAATTAAA
1 ATTTAATT--A
*
100711348 AATTAATTA
1 ATTTAATTA
100711357 ATTTA
1 ATTTA
100711362 CTTGGTTGGA
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
8 2 0.05
9 29 0.73
10 2 0.05
11 7 0.17
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (9 bp):
ATTTAATTA
Found at i:100711786 original size:15 final size:15
Alignment explanation
Indices: 100711766--100711795 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
100711756 AAATTTTAAT
*
100711766 TTTTTATATTTTATA
1 TTTTTATAATTTATA
100711781 TTTTTATAATTTATA
1 TTTTTATAATTTATA
100711796 AAGGATTAAA
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:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTTATAATTTATA
Found at i:100712966 original size:3 final size:3
Alignment explanation
Indices: 100712958--100712982 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
100712948 TGTTTGTTCT
100712958 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
100712983 GACATATTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Done.