Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 35 of 211
Found at i:10224029 original size:40 final size:40
Alignment explanation
Indices: 10223971--10224053 Score: 121
Period size: 40 Copynumber: 2.1 Consensus size: 40
10223961 AAGATAATGT
* *
10223971 TTAAACTTCAAACGTTAAAATTTTACACTGAAATCTCACA
1 TTAAACTTCAAACATTAAAATTTTACACTGAAATCCCACA
* * *
10224011 TTAAACTTCATACATTAAAATTTTACATTGAAGTCCCACA
1 TTAAACTTCAAACATTAAAATTTTACACTGAAATCCCACA
10224051 TTA
1 TTA
10224054 CCCGAGAATG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.41, C:0.19, G:0.05, T:0.35
Consensus pattern (40 bp):
TTAAACTTCAAACATTAAAATTTTACACTGAAATCCCACA
Found at i:10246055 original size:26 final size:26
Alignment explanation
Indices: 10246024--10246073 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
10246014 AATAAAGTGC
10246024 AGAAAATCAGAA-AGGATGAGAGAAAA
1 AGAAAAT-AGAAGAGGATGAGAGAAAA
*
10246050 AGAAAATAGAAGGGGATGAGAGAA
1 AGAAAATAGAAGAGGATGAGAGAA
10246074 TTGAAAGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.58, C:0.02, G:0.32, T:0.08
Consensus pattern (26 bp):
AGAAAATAGAAGAGGATGAGAGAAAA
Found at i:10251632 original size:18 final size:19
Alignment explanation
Indices: 10251604--10251667 Score: 59
Period size: 18 Copynumber: 3.6 Consensus size: 19
10251594 TAATTTAGCC
10251604 ATTTTTA-TTTTTA-TTAT
1 ATTTTTAGTTTTTAGTTAT
*
10251621 ATTTTTAG-TTTTAGTTTT
1 ATTTTTAGTTTTTAGTTAT
*
10251639 AGTTTTAG-TTTTAGTT-T
1 ATTTTTAGTTTTTAGTTAT
10251656 AATTTTT-GTTTT
1 -ATTTTTAGTTTT
10251668 CTAAGTTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
17 14 0.35
18 26 0.65
ACGTcount: A:0.19, C:0.00, G:0.09, T:0.72
Consensus pattern (19 bp):
ATTTTTAGTTTTTAGTTAT
Found at i:10251667 original size:6 final size:6
Alignment explanation
Indices: 10251623--10251655 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
10251613 TTTATTATAT
10251623 TTTTAG TTTTAG TTTTAG TTTTAG TTTTAG TTT
1 TTTTAG TTTTAG TTTTAG TTTTAG TTTTAG TTT
10251656 AATTTTTGTT
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:0.15, C:0.00, G:0.15, T:0.70
Consensus pattern (6 bp):
TTTTAG
Found at i:10253130 original size:31 final size:30
Alignment explanation
Indices: 10253103--10253440 Score: 212
Period size: 32 Copynumber: 10.6 Consensus size: 30
10253093 TAAATTTAAA
10253103 TGTATATGTTTTATATATTGCCGAATTTG-AT
1 TGTATATG-TTTATATATTGCCGAA-TTGAAT
* * *
10253134 TCATATACGGTTATATATTGCCGAATTGAAT
1 T-GTATATGTTTATATATTGCCGAATTGAAT
* *
10253165 TGTATATATATACTTATATTGCCGAATTGAAT
1 TGTATATGTTTA--TATATTGCCGAATTGAAT
* * * *
10253197 TGTATAGGTATACACCTATTGTCGAATTGAAT
1 TGTATATGTTTATA--TATTGCCGAATTGAAT
* * *
10253229 TGTATATATATACTTATATTACCGAATTGAAT
1 TGTATATGTTTA--TATATTGCCGAATTGAAT
* * *
10253261 TGTATAGGTATACACCTATTGCCGAATTGAAT
1 TGTATATGTTTATA--TATTGCCGAATTGAAT
* * *
10253293 TGTATAGGTGTACACCTATTGCCGAATTGAAT
1 TGTATATGTTTATA--TATTGCCGAATTGAAT
* * *
10253325 TGTATAGGTATACACCTATTGCCGAATTGAAT
1 TGTATATGTTTATA--TATTGCCGAATTGAAT
* * * *
10253357 TGTATATATATACTTATATTGTCGAATTAAAT
1 TGTATATGTTTA--TATATTGCCGAATTGAAT
* * * *
10253389 TGTAT-GGTATACACCTATTGCCGAAATGAAT
1 TGTATATGTTTATA--TATTGCCGAATTGAAT
10253420 TGTATATGTATTTATATATTG
1 TGTATATG--TTTATATATTG
10253441 TTGATTTGAT
Statistics
Matches: 253, Mismatches: 37, Indels: 33
0.78 0.11 0.10
Matches are distributed among these distances:
29 1 0.00
30 11 0.04
31 41 0.16
32 194 0.77
34 6 0.02
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.41
Consensus pattern (30 bp):
TGTATATGTTTATATATTGCCGAATTGAAT
Found at i:10253183 original size:32 final size:32
Alignment explanation
Indices: 10253149--10253426 Score: 324
Period size: 32 Copynumber: 8.7 Consensus size: 32
10253139 TACGGTTATA
***
10253149 TATTGCCGAATTGAATTGTATATATATACTTA
1 TATTGCCGAATTGAATTGTATATATATACACC
**
10253181 TATTGCCGAATTGAATTGTATAGGTATACACC
1 TATTGCCGAATTGAATTGTATATATATACACC
* ***
10253213 TATTGTCGAATTGAATTGTATATATATACTTA
1 TATTGCCGAATTGAATTGTATATATATACACC
* **
10253245 TATTACCGAATTGAATTGTATAGGTATACACC
1 TATTGCCGAATTGAATTGTATATATATACACC
** *
10253277 TATTGCCGAATTGAATTGTATAGGTGTACACC
1 TATTGCCGAATTGAATTGTATATATATACACC
**
10253309 TATTGCCGAATTGAATTGTATAGGTATACACC
1 TATTGCCGAATTGAATTGTATATATATACACC
***
10253341 TATTGCCGAATTGAATTGTATATATATACTTA
1 TATTGCCGAATTGAATTGTATATATATACACC
* * **
10253373 TATTGTCGAATTAAATTGTAT-GGTATACACC
1 TATTGCCGAATTGAATTGTATATATATACACC
*
10253404 TATTGCCGAAATGAATTGTATAT
1 TATTGCCGAATTGAATTGTATAT
10253427 GTATTTATAT
Statistics
Matches: 208, Mismatches: 37, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
31 23 0.11
32 185 0.89
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (32 bp):
TATTGCCGAATTGAATTGTATATATATACACC
Found at i:10253223 original size:64 final size:64
Alignment explanation
Indices: 10253149--10253426 Score: 450
Period size: 64 Copynumber: 4.4 Consensus size: 64
10253139 TACGGTTATA
10253149 TATTGCCGAATTGAATTGTATATATATACTTATATTGCCGAATTGAATTGTATAGGTATACACC
1 TATTGCCGAATTGAATTGTATATATATACTTATATTGCCGAATTGAATTGTATAGGTATACACC
* *
10253213 TATTGTCGAATTGAATTGTATATATATACTTATATTACCGAATTGAATTGTATAGGTATACACC
1 TATTGCCGAATTGAATTGTATATATATACTTATATTGCCGAATTGAATTGTATAGGTATACACC
** * ***
10253277 TATTGCCGAATTGAATTGTATAGGTGTACACCTATTGCCGAATTGAATTGTATAGGTATACACC
1 TATTGCCGAATTGAATTGTATATATATACTTATATTGCCGAATTGAATTGTATAGGTATACACC
* *
10253341 TATTGCCGAATTGAATTGTATATATATACTTATATTGTCGAATTAAATTGTAT-GGTATACACC
1 TATTGCCGAATTGAATTGTATATATATACTTATATTGCCGAATTGAATTGTATAGGTATACACC
*
10253404 TATTGCCGAAATGAATTGTATAT
1 TATTGCCGAATTGAATTGTATAT
10253427 GTATTTATAT
Statistics
Matches: 195, Mismatches: 19, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
63 32 0.16
64 163 0.84
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (64 bp):
TATTGCCGAATTGAATTGTATATATATACTTATATTGCCGAATTGAATTGTATAGGTATACACC
Found at i:10253248 original size:96 final size:96
Alignment explanation
Indices: 10253146--10253440 Score: 412
Period size: 96 Copynumber: 3.1 Consensus size: 96
10253136 ATATACGGTT
10253146 ATATATTGCCGAATTGAATTGTATATATATACTTATATTGCCGAATTGAATTGTATAGGTATACA
1 ATATATTGCCGAATTGAATTGTATATATATACTTATATTGCCGAATTGAATTGTATAGGTATACA
*
10253211 CCTATTGTCGAATTGAATTGTATATATATAC
66 CCTATTGCCGAATTGAATTGTATATATATAC
* * ** *** *
10253242 TTATATTACCGAATTGAATTGTATAGGTATACACCTATTGCCGAATTGAATTGTATAGGTGTACA
1 ATATATTGCCGAATTGAATTGTATATATATACTTATATTGCCGAATTGAATTGTATAGGTATACA
**
10253307 CCTATTGCCGAATTGAATTGTATAGGTATAC
66 CCTATTGCCGAATTGAATTGTATATATATAC
** * *
10253338 ACCTATTGCCGAATTGAATTGTATATATATACTTATATTGTCGAATTAAATTGTAT-GGTATACA
1 ATATATTGCCGAATTGAATTGTATATATATACTTATATTGCCGAATTGAATTGTATAGGTATACA
* * **
10253402 CCTATTGCCGAAATGAATTGTATATGTATTT
66 CCTATTGCCGAATTGAATTGTATATATATAC
10253433 ATATATTG
1 ATATATTG
10253441 TTGATTTGAT
Statistics
Matches: 170, Mismatches: 29, Indels: 1
0.85 0.14 0.00
Matches are distributed among these distances:
95 40 0.24
96 130 0.76
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.40
Consensus pattern (96 bp):
ATATATTGCCGAATTGAATTGTATATATATACTTATATTGCCGAATTGAATTGTATAGGTATACA
CCTATTGCCGAATTGAATTGTATATATATAC
Found at i:10256099 original size:15 final size:15
Alignment explanation
Indices: 10256074--10256108 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
10256064 AAAGGAAAAT
10256074 AATTT-AAAACTTAA
1 AATTTGAAAACTTAA
*
10256088 ATTTTGAAAACTTAA
1 AATTTGAAAACTTAA
10256103 AATTTG
1 AATTTG
10256109 GAGAAACTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.40
Consensus pattern (15 bp):
AATTTGAAAACTTAA
Found at i:10256105 original size:16 final size:15
Alignment explanation
Indices: 10256079--10256117 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
10256069 AAAATAATTT
*
10256079 AAAACTTAAATTTTG
1 AAAACTTAAATTTGG
10256094 AAAACTTAAAATTTGG
1 AAAACTT-AAATTTGG
10256110 AGAAACTT
1 A-AAACTT
10256118 TGGAACCCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.33
16 8 0.38
17 6 0.29
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.33
Consensus pattern (15 bp):
AAAACTTAAATTTGG
Found at i:10256427 original size:57 final size:57
Alignment explanation
Indices: 10256350--10256470 Score: 215
Period size: 57 Copynumber: 2.1 Consensus size: 57
10256340 TTTATGCGTC
* *
10256350 TTTCTTGCAGGGAATATTTACTGTTTACGCCAGAGAATATTTCCTATTCACTTGTCT
1 TTTCTTGCAAGGAATATTTACTATTTACGCCAGAGAATATTTCCTATTCACTTGTCT
*
10256407 TTTCTTGCAAGGAATGTTTACTATTTACGCCAGAGAATATTTCCTATTCACTTGTCT
1 TTTCTTGCAAGGAATATTTACTATTTACGCCAGAGAATATTTCCTATTCACTTGTCT
10256464 TTTCTTG
1 TTTCTTG
10256471 TATCATCTTT
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 61 1.00
ACGTcount: A:0.22, C:0.19, G:0.15, T:0.44
Consensus pattern (57 bp):
TTTCTTGCAAGGAATATTTACTATTTACGCCAGAGAATATTTCCTATTCACTTGTCT
Found at i:10257133 original size:13 final size:13
Alignment explanation
Indices: 10257117--10257144 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
10257107 ACATTGTACC
10257117 ATGCCATTTGGTA
1 ATGCCATTTGGTA
10257130 ATGCCATTTGGTA
1 ATGCCATTTGGTA
10257143 AT
1 AT
10257145 CCCAATATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.14, G:0.21, T:0.39
Consensus pattern (13 bp):
ATGCCATTTGGTA
Found at i:10266442 original size:3 final size:3
Alignment explanation
Indices: 10266436--10266485 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
10266426 CCTAACAGAG
10266436 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10266484 AA
1 AA
10266486 GAGACTGTAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:10275846 original size:49 final size:49
Alignment explanation
Indices: 10275774--10275881 Score: 198
Period size: 49 Copynumber: 2.2 Consensus size: 49
10275764 GATTGGTGTT
* *
10275774 CCTTTCCAGTATACGTTGAGCAAGTGAGTGAAATCGAATCGTTTAATTA
1 CCTTTCCAGTATACGTTGAGCAAGTGAGTGAAATCAAATCATTTAATTA
10275823 CCTTTCCAGTATACGTTGAGCAAGTGAGTGAAATCAAATCATTTAATTA
1 CCTTTCCAGTATACGTTGAGCAAGTGAGTGAAATCAAATCATTTAATTA
10275872 CCTTTCCAGT
1 CCTTTCCAGT
10275882 TTCCATTTTG
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 57 1.00
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.33
Consensus pattern (49 bp):
CCTTTCCAGTATACGTTGAGCAAGTGAGTGAAATCAAATCATTTAATTA
Found at i:10279936 original size:19 final size:19
Alignment explanation
Indices: 10279912--10279950 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
10279902 TTTCCTACGA
10279912 GAAAGGTAAAAAGAAGAAT
1 GAAAGGTAAAAAGAAGAAT
10279931 GAAAGGTAAAAAGAAGAAT
1 GAAAGGTAAAAAGAAGAAT
10279950 G
1 G
10279951 GAAAATATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.28, T:0.10
Consensus pattern (19 bp):
GAAAGGTAAAAAGAAGAAT
Found at i:10283556 original size:10 final size:10
Alignment explanation
Indices: 10283537--10283568 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
10283527 ATTCTAAATT
10283537 TTTTAAATAA
1 TTTTAAATAA
*
10283547 TTTTATATAA
1 TTTTAAATAA
10283557 TTTTAAATAA
1 TTTTAAATAA
10283567 TT
1 TT
10283569 AAATAAAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
TTTTAAATAA
Found at i:10285561 original size:16 final size:17
Alignment explanation
Indices: 10285542--10285579 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
10285532 TGTTATAAAA
*
10285542 ATATTACAT-TAATTAT
1 ATATTAAATATAATTAT
10285558 ATATTAAATAATAATTAT
1 ATATTAAAT-ATAATTAT
10285576 ATAT
1 ATAT
10285580 ATTTATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
18 11 0.58
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATTAAATATAATTAT
Found at i:10285742 original size:39 final size:37
Alignment explanation
Indices: 10285697--10285775 Score: 104
Period size: 38 Copynumber: 2.1 Consensus size: 37
10285687 AAAAATTATA
* *
10285697 TTTAATACAATAAAAATATTTATTATATTTATTTGTGTT
1 TTTAATACAAT-AAAACATTTATTATATTTA-TGGTGTT
* *
10285736 TTTAATATAATAAGACATTTATTATATTTATGGTGTT
1 TTTAATACAATAAAACATTTATTATATTTATGGTGTT
10285773 TTT
1 TTT
10285776 TTAATGTGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
37 9 0.25
38 17 0.47
39 10 0.28
ACGTcount: A:0.35, C:0.03, G:0.08, T:0.54
Consensus pattern (37 bp):
TTTAATACAATAAAACATTTATTATATTTATGGTGTT
Found at i:10288377 original size:20 final size:19
Alignment explanation
Indices: 10288332--10288396 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 19
10288322 TATGTTTTAA
10288332 ATATATATAAATATATTATT
1 ATAT-TATAAATATATTATT
10288352 -TAATTATAAAGTATATTATT
1 AT-ATTATAAA-TATATTATT
10288372 ATATTAT---TATATTAATT
1 ATATTATAAATATATT-ATT
10288389 ATATTATA
1 ATATTATA
10288397 TTTTTATATT
Statistics
Matches: 40, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
16 6 0.15
17 10 0.25
19 7 0.17
20 16 0.40
21 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (19 bp):
ATATTATAAATATATTATT
Found at i:10288408 original size:8 final size:8
Alignment explanation
Indices: 10288363--10288406 Score: 58
Period size: 8 Copynumber: 5.8 Consensus size: 8
10288353 AATTATAAAG
10288363 TATATTAT
1 TATATTAT
10288371 TATATTAT
1 TATATTAT
10288379 TATATTAAT
1 TATATT-AT
10288388 TATATTA-
1 TATATTAT
10288395 TAT-TT-T
1 TATATTAT
10288401 TATATT
1 TATATT
10288407 TTAAATAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
6 5 0.15
7 5 0.15
8 15 0.45
9 8 0.24
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
TATATTAT
Found at i:10291486 original size:6 final size:6
Alignment explanation
Indices: 10291477--10291504 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
10291467 AAATAAAATT
10291477 CTAAAA CTAAAA CTAAAA CTAAAA CTAA
1 CTAAAA CTAAAA CTAAAA CTAAAA CTAA
10291505 GGTCTAAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.64, C:0.18, G:0.00, T:0.18
Consensus pattern (6 bp):
CTAAAA
Found at i:10291559 original size:9 final size:9
Alignment explanation
Indices: 10291545--10291593 Score: 71
Period size: 9 Copynumber: 5.4 Consensus size: 9
10291535 GTAGTGATTC
10291545 AATTCGGTT
1 AATTCGGTT
*
10291554 AATTCGGGT
1 AATTCGGTT
*
10291563 AATTCGGGT
1 AATTCGGTT
*
10291572 AAGTCGGTT
1 AATTCGGTT
10291581 AATTCGGTT
1 AATTCGGTT
10291590 AATT
1 AATT
10291594 TTTAACCAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.24, C:0.10, G:0.27, T:0.39
Consensus pattern (9 bp):
AATTCGGTT
Found at i:10296112 original size:46 final size:46
Alignment explanation
Indices: 10296060--10296397 Score: 509
Period size: 46 Copynumber: 7.6 Consensus size: 46
10296050 TTTGAGTACT
* *
10296060 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
10296106 TCTGATCAAGTGACAAAGTGAT-A-----AG---T-GCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
10296142 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
10296188 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTGCACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
10296234 TCTGATCAAGTGACAAAGTGATAAGCGTTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
10296280 TCTAATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
10296326 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
10296372 TCTGATCAAGTGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
10296398 ATCATACGTA
Statistics
Matches: 269, Mismatches: 13, Indels: 21
0.89 0.04 0.07
Matches are distributed among these distances:
36 31 0.12
37 2 0.01
40 2 0.01
42 2 0.01
45 14 0.05
46 218 0.81
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
Found at i:10296137 original size:36 final size:36
Alignment explanation
Indices: 10296096--10296214 Score: 139
Period size: 36 Copynumber: 3.0 Consensus size: 36
10296086 GGTAGCTTTA
10296096 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
*
10296132 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTT
1 GCTACACTTATCTGATCAAGTGACAAAGTGAT-A-----AG---T
10296177 AGCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
10296214 G
1 G
10296215 TTAGCTTTAG
Statistics
Matches: 71, Mismatches: 2, Indels: 20
0.76 0.02 0.22
Matches are distributed among these distances:
36 32 0.45
37 2 0.03
40 2 0.03
42 2 0.03
45 2 0.03
46 31 0.44
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
Found at i:10298491 original size:17 final size:17
Alignment explanation
Indices: 10298469--10298502 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
10298459 CCTTAGAAGA
10298469 ATGTATTTAAGATCAAT
1 ATGTATTTAAGATCAAT
10298486 ATGTATTTAAGATCAAT
1 ATGTATTTAAGATCAAT
10298503 TTTGAAATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.06, G:0.12, T:0.41
Consensus pattern (17 bp):
ATGTATTTAAGATCAAT
Found at i:10300177 original size:22 final size:22
Alignment explanation
Indices: 10300152--10300194 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
10300142 AGATAATGAG
10300152 TGTTTGAAGTGCTAATTACGAA
1 TGTTTGAAGTGCTAATTACGAA
10300174 TGTTTGAAGTGCTAATTACGA
1 TGTTTGAAGTGCTAATTACGA
10300195 GTTTTACTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.37
Consensus pattern (22 bp):
TGTTTGAAGTGCTAATTACGAA
Found at i:10300902 original size:23 final size:23
Alignment explanation
Indices: 10300875--10300996 Score: 174
Period size: 23 Copynumber: 5.3 Consensus size: 23
10300865 AGTGTTATTG
*
10300875 ATCAGTGGTAGCTTCGACTACA-
1 ATCAGTGGTAGCTTCGGCTACAT
*
10300897 ATTCAGTGGTAGCTACGGCTACAT
1 A-TCAGTGGTAGCTTCGGCTACAT
10300921 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
10300944 TTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
10300967 ATCAGTTGTAGCTTCGACTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
10300990 ATCAGTG
1 ATCAGTG
10300997 TGGCACTTAT
Statistics
Matches: 88, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
22 1 0.01
23 86 0.98
24 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:10300942 original size:46 final size:46
Alignment explanation
Indices: 10300875--10300996 Score: 201
Period size: 46 Copynumber: 2.7 Consensus size: 46
10300865 AGTGTTATTG
10300875 ATCAGTGGTAGCTTCGACTACAATTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGACTACAATTCAGTGGTAGCTACGGCTACAT
* *
10300921 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGACTACAATTCAGTGGTAGCTACGGCTACAT
*
10300967 ATCAGTTGTAGCTTCGACTAC-ATATCAGTG
1 ATCAGTGGTAGCTTCGACTACAAT-TCAGTG
10300997 TGGCACTTAT
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
45 1 0.01
46 69 0.99
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (46 bp):
ATCAGTGGTAGCTTCGACTACAATTCAGTGGTAGCTACGGCTACAT
Found at i:10305159 original size:7 final size:7
Alignment explanation
Indices: 10305139--10305182 Score: 67
Period size: 7 Copynumber: 6.7 Consensus size: 7
10305129 GCGCATGAAT
10305139 ATAA-AA
1 ATAATAA
10305145 ATAA-AA
1 ATAATAA
10305151 ATAATAA
1 ATAATAA
10305158 ATAATAA
1 ATAATAA
10305165 ATAATAA
1 ATAATAA
10305172 ATAAT-A
1 ATAATAA
10305178 ATAAT
1 ATAAT
10305183 GATACAAGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
6 16 0.43
7 21 0.57
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
ATAATAA
Found at i:10305691 original size:19 final size:19
Alignment explanation
Indices: 10305663--10305712 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
10305653 ATATCTTCTG
10305663 AGATTGCATATCATATCTA
1 AGATTGCATATCATATCTA
*
10305682 AGATTACATATCATATCTA
1 AGATTGCATATCATATCTA
10305701 AGATTGCATATC
1 AGATTGCATATC
10305713 CTTGAAGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (19 bp):
AGATTGCATATCATATCTA
Found at i:10305712 original size:38 final size:40
Alignment explanation
Indices: 10305636--10305712 Score: 104
Period size: 38 Copynumber: 1.9 Consensus size: 40
10305626 AAATTAAATC
*
10305636 TCTAAGATTACAAAATCATATCTTCTGAGATTGCATATCATA
1 TCTAAGATTACAAAATCATA--TTCTAAGATTGCATATCATA
*
10305678 TCTAAGATTAC-ATATCATA-TCTAAGATTGCATATC
1 TCTAAGATTACAAAATCATATTCTAAGATTGCATATC
10305713 CTTGAAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
38 15 0.45
41 7 0.21
42 11 0.33
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.36
Consensus pattern (40 bp):
TCTAAGATTACAAAATCATATTCTAAGATTGCATATCATA
Found at i:10306322 original size:45 final size:45
Alignment explanation
Indices: 10306258--10306515 Score: 178
Period size: 45 Copynumber: 5.9 Consensus size: 45
10306248 ATGGGATTTG
* * * * *
10306258 TTTATTTAGTCTGCCCCACTGTAATTTCAGGG-GAATAAGACTTGA
1 TTTATTGAGTCTGCTCCACTGCAACTTCAGGGAG-ATAAGACTCGA
* *
10306303 TTTCTTGAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGC
1 TTTATTGAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGA
* * *
10306348 TTTATTGGGTTTGCTCCACTGCAACTTCAGGGAGATAAGACTAGA
1 TTTATTGAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGA
** * * * *
10306393 --T-GCGA-TCTGCT-CTCTGCAACTTTAGAGAGATAAGATCTGTGA
1 TTTATTGAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-CGA
* * * * *
10306435 -TT-TT-AATCCGCTCCACTGCGACTTCAGGGAGAT-AGAAT-TA
1 TTTATTGAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGA
** * *
10306475 TTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
1 TT-TATTGAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
10306516 TTCGCAATCT
Statistics
Matches: 170, Mismatches: 32, Indels: 22
0.76 0.14 0.10
Matches are distributed among these distances:
40 22 0.13
41 8 0.05
42 5 0.03
43 12 0.07
44 43 0.25
45 79 0.46
46 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (45 bp):
TTTATTGAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGA
Found at i:10306928 original size:43 final size:44
Alignment explanation
Indices: 10306880--10306975 Score: 142
Period size: 43 Copynumber: 2.2 Consensus size: 44
10306870 TATCTGCTAT
* *
10306880 TTCAACCTACTCCACTGTTG-CTCAGGGAGATAGGA-TTACAATC
1 TTCAACCTACTCCACTGCTGAC-CAAGGAGATAGGACTTACAATC
*
10306923 TTCAACCTATTCCACTGCTGACCAAGGAGATAGGACTTACAATC
1 TTCAACCTACTCCACTGCTGACCAAGGAGATAGGACTTACAATC
10306967 TTCAACCTA
1 TTCAACCTA
10306976 TTCTACCGCT
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
43 30 0.62
44 18 0.38
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (44 bp):
TTCAACCTACTCCACTGCTGACCAAGGAGATAGGACTTACAATC
Found at i:10306975 original size:44 final size:43
Alignment explanation
Indices: 10306880--10307000 Score: 147
Period size: 44 Copynumber: 2.8 Consensus size: 43
10306870 TATCTGCTAT
* * *
10306880 TTCAACCTACTCCACTGTTGCTCAGGGAGATAGGATTACAATC
1 TTCAACCTATTCCACTGCTGCTCAAGGAGATAGGATTACAATC
10306923 TTCAACCTATTCCACTGCTGAC-CAAGGAGATAGGACTTACAATC
1 TTCAACCTATTCCACTGCTG-CTCAAGGAGATAGGA-TTACAATC
* * *
10306967 TTCAACCTATTCTACCGCTG-TCACGGGAGATAGG
1 TTCAACCTATTCCACTGCTGCTCA-AGGAGATAGG
10307001 GCTGGGGTCA
Statistics
Matches: 68, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
43 32 0.47
44 36 0.53
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (43 bp):
TTCAACCTATTCCACTGCTGCTCAAGGAGATAGGATTACAATC
Found at i:10307110 original size:43 final size:43
Alignment explanation
Indices: 10307061--10307198 Score: 141
Period size: 43 Copynumber: 3.2 Consensus size: 43
10307051 TATTTTTAAC
10307061 CTGCTTCACTGCAACCCAGGGAGGAAAGGCTGGTGTCTTCGAT
1 CTGCTTCACTGCAACCCAGGGAGGAAAGGCTGGTGTCTTCGAT
* *** * * * * * * ** *
10307104 CTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATTTTTAAC
1 CTGCTTCACTG-CAACCCAGGGAGGAAAG-GCTGGTGTCTTCGAT
10307149 CTGCTTCACTGCAACCCAGGGAGGAAAGGCTGGTGTCTTCGAT
1 CTGCTTCACTGCAACCCAGGGAGGAAAGGCTGGTGTCTTCGAT
10307192 CTGCTTC
1 CTGCTTC
10307199 GCTGTCGGTG
Statistics
Matches: 67, Mismatches: 26, Indels: 4
0.69 0.27 0.04
Matches are distributed among these distances:
43 25 0.37
44 24 0.36
45 18 0.27
ACGTcount: A:0.20, C:0.25, G:0.28, T:0.27
Consensus pattern (43 bp):
CTGCTTCACTGCAACCCAGGGAGGAAAGGCTGGTGTCTTCGAT
Found at i:10307123 original size:88 final size:88
Alignment explanation
Indices: 10307000--10307662 Score: 967
Period size: 88 Copynumber: 7.6 Consensus size: 88
10306990 CGGGAGATAG
* * * *
10307000 GGCTGGGGTCATCGATCTGCTTCGCTGTTGATGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* * *
10307065 TTCACTGCAACCCAGGGAGGAAA
66 TCCGCTGCAACCCAGGGAGGCAA
*
10307088 GGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* * *
10307153 TTCACTGCAACCCAGGGAGGAAA
66 TCCGCTGCAACCCAGGGAGGCAA
10307176 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAA-C--C
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
*
10307238 TACGCTGCAACCCAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
** * *
10307261 AACTGGTGTCTTTGATCTTCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* *
10307326 TCTGCTACAACCCAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* *
10307349 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTACAATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* *
10307414 TCCGTTGCAACCCAAGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
*
10307437 GGCTGGTGTCTTCGATCT-CTTCGCTGTCGGTGCAGGAAGGCAAGATCTG-TAATTTTTAACCTA
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCT-ATTTTTAACCTG
*
10307500 CTCCGCTGCAACCTAGGGAGGCAA
65 CTCCGCTGCAACCCAGGGAGGCAA
* * * * * * *
10307524 GGCTAGTGTCTTTGAACTGCTTCGCTGTCGGTGCAAGAAGACAAAGATATGCTATTTTTAACCTA
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGC-AAGATCTGCTATTTTTAACCTG
*
10307589 CTCCGCTACAACCCAGGGAGGCAA
65 CTCCGCTGCAACCCAGGGAGGCAA
* *
10307613 GGTTGGTGTCTTCGATTTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
10307663 TTATCTTCAC
Statistics
Matches: 520, Mismatches: 48, Indels: 14
0.89 0.08 0.02
Matches are distributed among these distances:
85 77 0.15
86 1 0.00
87 78 0.15
88 287 0.55
89 76 0.15
90 1 0.00
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.27
Consensus pattern (88 bp):
GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
TCCGCTGCAACCCAGGGAGGCAA
Found at i:10307244 original size:42 final size:42
Alignment explanation
Indices: 10307198--10307323 Score: 112
Period size: 41 Copynumber: 3.0 Consensus size: 42
10307188 CGATCTGCTT
10307198 CGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTA
1 CGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTA
**** * * * * * * *
10307240 CGCTG-CAACCCAGGGAGGCAA-AACTGGTGTCTTTGATCTTCTT
1 CGCTGTCGGTGCAGGAAGGCAAGATCTGCTAT-TTTTAAC--CTA
10307283 CGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCT
1 CGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCT
10307324 GCTCTGCTAC
Statistics
Matches: 58, Mismatches: 21, Indels: 10
0.65 0.24 0.11
Matches are distributed among these distances:
40 6 0.10
41 16 0.28
42 7 0.12
43 7 0.12
44 16 0.28
45 6 0.10
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.29
Consensus pattern (42 bp):
CGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTA
Found at i:10307303 original size:173 final size:175
Alignment explanation
Indices: 10307000--10307662 Score: 908
Period size: 173 Copynumber: 3.8 Consensus size: 175
10306990 CGGGAGATAG
* * * *
10307000 GGCTGGGGTCATCGATCTGCTTCGCTGTTGATGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACC-GC
* * * *
10307065 TTCACTGCAACCCAGGGAGG-AAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGG
65 TACGCTGCAACCCAGGGAGGCAAA-GCTGGTGTCTTCGATCTTCTTCGCTGTCGGTGCAGGAAGG
* *
10307129 CAAGATCTGCTATTTTTAACCTGCTTCACTGCAACCCAGGGAGGAAA
129 CAAGATCTGCTATTTTTAACCTGCTTCGCTGCAACCCAGGGAGGCAA
10307176 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAA-C-CT
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCGCT
* *
10307239 ACGCTGCAACCCAGGGAGGCAAAACTGGTGTCTTTGATCTTCTTCGCTGTCGGTGCAGGAAGGCA
66 ACGCTGCAACCCAGGGAGGCAAAGCTGGTGTCTTCGATCTTCTTCGCTGTCGGTGCAGGAAGGCA
*
10307304 AGATCTGCTATTTTTAACCTGC-TCTGCTACAACCCAGGGAGGCAA
131 AGATCTGCTATTTTTAACCTGCTTC-GCTGCAACCCAGGGAGGCAA
* *
10307349 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTACAATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACC-GC
* * * *
10307414 TCCGTTGCAACCCAAGGAGGCAAGGCTGGTGTCTTCGATC-TCTTCGCTGTCGGTGCAGGAAGGC
65 TACGCTGCAACCCAGGGAGGCAAAGCTGGTGTCTTCGATCTTCTTCGCTGTCGGTGCAGGAAGGC
* * *
10307478 AAGATCTG-TAATTTTTAACCTACTCCGCTGCAACCTAGGGAGGCAA
130 AAGATCTGCT-ATTTTTAACCTGCTTCGCTGCAACCCAGGGAGGCAA
* * * * * * *
10307524 GGCTAGTGTCTTTGAACTGCTTCGCTGTCGGTGCAAGAAGACAAAGATATGCTATTTTTAACCTA
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGC-AAGATCTGCTATTTTTAACC-G
* * * *
10307589 CTCCGCTACAACCCAGGGAGGCAAGGTTGGTGTCTTCGAT-TTGCTTCGCTGTCGGTGCAGGAAG
64 CTACGCTGCAACCCAGGGAGGCAAAGCTGGTGTCTTCGATCTT-CTTCGCTGTCGGTGCAGGAAG
10307653 GCAAGATCTG
128 GCAAGATCTG
10307663 TTATCTTCAC
Statistics
Matches: 439, Mismatches: 38, Indels: 19
0.89 0.08 0.04
Matches are distributed among these distances:
172 2 0.00
173 154 0.35
174 5 0.01
175 100 0.23
176 147 0.33
177 31 0.07
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.27
Consensus pattern (175 bp):
GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCGCT
ACGCTGCAACCCAGGGAGGCAAAGCTGGTGTCTTCGATCTTCTTCGCTGTCGGTGCAGGAAGGCA
AGATCTGCTATTTTTAACCTGCTTCGCTGCAACCCAGGGAGGCAA
Found at i:10307321 original size:261 final size:261
Alignment explanation
Indices: 10307013--10307662 Score: 991
Period size: 261 Copynumber: 2.5 Consensus size: 261
10307003 TGGGGTCATC
* * * *
10307013 GATCTGCTTCGCTGTTGATGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTTCACTGCAACCC
1 GATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTTCGCTACAACCC
* * *
10307078 AGGGAGGAAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATT
66 AGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCAATT
* *
10307143 TTTAACCTGCTTCACTGCAACCCAGGGAGGAAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGT
131 TTTAACCTGCTCCACTGCAACCCAAGGAGGAAAGGCTGGTGTCTTCGATCT-CTTCGCTGTCGGT
*
10307208 GCAGGAAGGCAAGATCTGCT-ATTTTTAACCTA-CGCTGCAACCCAGGGAGGCAAAACTGGTGTC
195 GCAGGAAGGCAAGATCTG-TAATTTTTAACCTACCGCTGCAACCCAGGGAGGCAAAACTAGTGTC
10307271 TTT
259 TTT
*
10307274 GATCTTCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC-TCTGCTACAACC
1 GATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTTC-GCTACAACC
*
10307338 CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTACAAT
65 CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCAAT
** *
10307403 TTTTAACCTGCTCCGTTGCAACCCAAGGAGGCAAGGCTGGTGTCTTCGATCTCTTCGCTGTCGGT
130 TTTTAACCTGCTCCACTGCAACCCAAGGAGGAAAGGCTGGTGTCTTCGATCTCTTCGCTGTCGGT
* **
10307468 GCAGGAAGGCAAGATCTGTAATTTTTAACCTACTCCGCTGCAACCTAGGGAGGCAAGGCTAGTGT
195 GCAGGAAGGCAAGATCTGTAATTTTTAACCTA--CCGCTGCAACCCAGGGAGGCAAAACTAGTGT
10307533 CTTT
258 CTTT
* * * * * *
10307537 GAACTGCTTCGCTGTCGGTGCAAGAAGACAAAGATATGCTATTTTTAACCTACTCCGCTACAACC
1 GATCTGCTTCGCTGTCGGTGCAGGAAGGC-AAGATCTGCTATTTTTAACCTGCTTCGCTACAACC
* *
10307602 CAGGGAGGCAAGGTTGGTGTCTTCGATTTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
65 CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
10307663 TTATCTTCAC
Statistics
Matches: 354, Mismatches: 28, Indels: 11
0.90 0.07 0.03
Matches are distributed among these distances:
259 1 0.00
260 45 0.13
261 164 0.46
263 55 0.16
264 88 0.25
265 1 0.00
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (261 bp):
GATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTTCGCTACAACCC
AGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCAATT
TTTAACCTGCTCCACTGCAACCCAAGGAGGAAAGGCTGGTGTCTTCGATCTCTTCGCTGTCGGTG
CAGGAAGGCAAGATCTGTAATTTTTAACCTACCGCTGCAACCCAGGGAGGCAAAACTAGTGTCTT
T
Found at i:10314221 original size:7 final size:7
Alignment explanation
Indices: 10314201--10314237 Score: 53
Period size: 6 Copynumber: 5.7 Consensus size: 7
10314191 GCGCATGAAT
10314201 ATAA-AA
1 ATAATAA
10314207 ATAA-AA
1 ATAATAA
10314213 ATAATAA
1 ATAATAA
10314220 ATAATAA
1 ATAATAA
10314227 ATAAT-A
1 ATAATAA
10314233 ATAAT
1 ATAAT
10314238 GATACAAGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 16 0.53
7 14 0.47
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
ATAATAA
Found at i:10314724 original size:23 final size:22
Alignment explanation
Indices: 10314694--10314738 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
10314684 AAATTAAATC
10314694 TCTAAGATTGCAAAATCATATCT
1 TCTAAGATTGC-AAATCATATCT
*
10314717 TCTAAGATTGCATATCATATCT
1 TCTAAGATTGCAAATCATATCT
10314739 AAGATTACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.38
Consensus pattern (22 bp):
TCTAAGATTGCAAATCATATCT
Found at i:10314741 original size:19 final size:19
Alignment explanation
Indices: 10314694--10314770 Score: 100
Period size: 19 Copynumber: 3.8 Consensus size: 19
10314684 AAATTAAATC
*
10314694 TCTAAGATTGCAAAATCATA
1 TCTAAGATTGC-ATATCATA
10314714 TCTTCTAAGATTGCATATCATA
1 ---TCTAAGATTGCATATCATA
*
10314736 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
10314755 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
10314771 CTGGAAGATT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 33 0.65
22 7 0.14
23 11 0.22
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:10318471 original size:45 final size:45
Alignment explanation
Indices: 10318422--10318586 Score: 165
Period size: 45 Copynumber: 3.7 Consensus size: 45
10318412 ACCAGAAATA
* *
10318422 AGTAAGACCATAACTGAAAGACGTTATGGCATCATGATTTTAAT-G
1 AGTAAGACCATAGCTGAAAGACGTTATGGCATCATGATTCT-ATCG
* *
10318467 AGTAAGACCATAGTTGAAAGACGTTATGGCATCACGATTCTATCG
1 AGTAAGACCATAGCTGAAAGACGTTATGGCATCATGATTCTATCG
* * * * * *
10318512 ATTAAGAACATAGCT-AAACGACGTTATGACATCATGAATCAAACG
1 AGTAAGACCATAGCTGAAA-GACGTTATGGCATCATGATTCTATCG
* * **
10318557 AATAAGA-CATAGTTGAAAGACACTATGGCA
1 AGTAAGACCATAGCTGAAAGACGTTATGGCA
10318587 ACACGGCAAA
Statistics
Matches: 100, Mismatches: 17, Indels: 7
0.81 0.14 0.06
Matches are distributed among these distances:
44 20 0.20
45 80 0.80
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.25
Consensus pattern (45 bp):
AGTAAGACCATAGCTGAAAGACGTTATGGCATCATGATTCTATCG
Found at i:10318535 original size:90 final size:89
Alignment explanation
Indices: 10318424--10318591 Score: 212
Period size: 90 Copynumber: 1.9 Consensus size: 89
10318414 CAGAAATAAG
* * * ** * *
10318424 TAAGACCATAACTGAAAGACGTTATGGCATCATGATTTTAATGAGTAAGACCATAGTTGAAAGAC
1 TAAGAACATAACTGAAAGACGTTATGACATCATGAATCAAACGAATAAGA-CATAGTTGAAAGAC
** *
10318489 GTTATGGCATCACGATTCTATCGAT
65 ACTATGGCAACACGATTCTATCGAT
*
10318514 TAAGAACATAGCT-AAACGACGTTATGACATCATGAATCAAACGAATAAGACATAGTTGAAAGAC
1 TAAGAACATAACTGAAA-GACGTTATGACATCATGAATCAAACGAATAAGACATAGTTGAAAGAC
10318578 ACTATGGCAACACG
65 ACTATGGCAACACG
10318592 GCAAAAAATG
Statistics
Matches: 66, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
89 28 0.42
90 38 0.58
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.24
Consensus pattern (89 bp):
TAAGAACATAACTGAAAGACGTTATGACATCATGAATCAAACGAATAAGACATAGTTGAAAGACA
CTATGGCAACACGATTCTATCGAT
Found at i:10318605 original size:45 final size:44
Alignment explanation
Indices: 10318556--10318677 Score: 127
Period size: 45 Copynumber: 2.7 Consensus size: 44
10318546 TGAATCAAAC
*
10318556 GAATAAGACATAGTTGAAAGACACTATGGCAACACGGCAAAAAAT
1 GAATAAGACATAGTTGAAAGACACTATGGCAACAAGGC-AAAAAT
* * * * *
10318601 GAATAATACCATGGTTGAAAGACACTATGGCATCAAGTCAAGAAT
1 GAATAAGA-CATAGTTGAAAGACACTATGGCAACAAGGCAAAAAT
* * * *
10318646 AAATAAGGCCACAGTTGAAAGACACCATGGCA
1 GAATAA-GACATAGTTGAAAGACACTATGGCA
10318678 CCCTCCGATC
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
45 37 0.59
46 26 0.41
ACGTcount: A:0.45, C:0.17, G:0.20, T:0.17
Consensus pattern (44 bp):
GAATAAGACATAGTTGAAAGACACTATGGCAACAAGGCAAAAAT
Found at i:10334188 original size:466 final size:466
Alignment explanation
Indices: 10333312--10334238 Score: 1737
Period size: 466 Copynumber: 2.0 Consensus size: 466
10333302 TCATTTTCTA
* *
10333312 TTTTAAGTAATTGATTAGTTAAATTAAGTTTTAAATTATGTCTTACTATAATATAAAAATTAGTG
1 TTTTAAGTAATTGATTAGTTAAATTAAGCTTTAAATTATGTCTTACCATAATATAAAAATTAGTG
10333377 AGTAGCTAGCTAAACTCCTTTCTTGCATGCTTCTTGAATAGAAATCACTAAGTTTTTGACTCCTT
66 AGTAGCTAGCTAAACTCCTTTCTTGCATGCTTCTTGAATAGAAATCACTAAGTTTTTGACTCCTT
* *
10333442 TAGATTTGACCCCTTGGAATACTTTGGTGTTCTATCGGACATTATAAAAATTACAACTAACACTA
131 TAGATTCGACCCCTTGGAATACTTTGGTGTTCCATCGGACATTATAAAAATTACAACTAACACTA
**
10333507 CCCGCTTGCAGTTAAAGCCCGCGTTTCAAAATAATTTTCCAAAATTGTTCGTTTTAATCTACATG
196 CCCGCTTGCAGTTAAAGCCCGCGTTTCAAAATAATTTTCCAAAATTGTTCACTTTAATCTACATG
* *
10333572 CGGGCAGGTGGTCACCTTCCTTGGCACACATTCCAATTTTGATTAGTCCTTGGCTGACTCTTTTT
261 CGGCCAGGTGGTCACCTTCATTGGCACACATTCCAATTTTGATTAGTCCTTGGCTGACTCTTTTT
10333637 CTTACTATAGTCCTGAAGGACTTGCTGACATTCCATCAATTGGGCTAACTATTGAGGACCCATGC
326 CTTACTATAGTCCTGAAGGACTTGCTGACATTCCATCAATTGGGCTAACTATTGAGGACCCATGC
10333702 CACTCTAGTGGACCGAATCTCATTTCACCCTACTTACAGGTTGTAAACTTGTTTGGATTGCTTCT
391 CACTCTAGTGGACCGAATCTCATTTCACCCTACTTACAGGTTGTAAACTTGTTTGGATTGCTTCT
10333767 TCATAAACTTG
456 TCATAAACTTG
* *
10333778 TTTTAAGTAATTGATTAGTTTAATTAAGCTTTAAATTATGTCTTACCATAATATAGAAATTAGTG
1 TTTTAAGTAATTGATTAGTTAAATTAAGCTTTAAATTATGTCTTACCATAATATAAAAATTAGTG
10333843 AGTAGCTAGCTAAACTCCTTTCTTGCATGCTTCTTGAATAGAAATCACTAAGTTTTTGACTCCTT
66 AGTAGCTAGCTAAACTCCTTTCTTGCATGCTTCTTGAATAGAAATCACTAAGTTTTTGACTCCTT
*
10333908 TGGATTCGACCCCTTGGAATACTTTGGTGTTCCATCGGACATTATAAAAATTACAACTAACACTA
131 TAGATTCGACCCCTTGGAATACTTTGGTGTTCCATCGGACATTATAAAAATTACAACTAACACTA
10333973 CCCGCTTGCAGTTAAAGCCCGCGTTTCAAAATAATTTTCCAAAATTGTTCACTTTAATCTACATG
196 CCCGCTTGCAGTTAAAGCCCGCGTTTCAAAATAATTTTCCAAAATTGTTCACTTTAATCTACATG
10334038 CGGCCAGGTGGTCACCTTCATTGGCACACATTCCAATTTTGATTAGTCCTTGGCTGACTCTTTTT
261 CGGCCAGGTGGTCACCTTCATTGGCACACATTCCAATTTTGATTAGTCCTTGGCTGACTCTTTTT
*
10334103 CTTACTATAGTCCTGAAGGACTTGCTGACATTCCATCAATTGGGCTAACTATTGAGGACTCATGC
326 CTTACTATAGTCCTGAAGGACTTGCTGACATTCCATCAATTGGGCTAACTATTGAGGACCCATGC
*
10334168 CACTCTAGTGGACTGAATCTCATTTCACCCTACTTACAGGTTGTAAACTTGTTTGGATTGCTTCT
391 CACTCTAGTGGACCGAATCTCATTTCACCCTACTTACAGGTTGTAAACTTGTTTGGATTGCTTCT
10334233 TCATAA
456 TCATAA
10334239 TCCGTCCTAT
Statistics
Matches: 448, Mismatches: 13, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
466 448 1.00
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.36
Consensus pattern (466 bp):
TTTTAAGTAATTGATTAGTTAAATTAAGCTTTAAATTATGTCTTACCATAATATAAAAATTAGTG
AGTAGCTAGCTAAACTCCTTTCTTGCATGCTTCTTGAATAGAAATCACTAAGTTTTTGACTCCTT
TAGATTCGACCCCTTGGAATACTTTGGTGTTCCATCGGACATTATAAAAATTACAACTAACACTA
CCCGCTTGCAGTTAAAGCCCGCGTTTCAAAATAATTTTCCAAAATTGTTCACTTTAATCTACATG
CGGCCAGGTGGTCACCTTCATTGGCACACATTCCAATTTTGATTAGTCCTTGGCTGACTCTTTTT
CTTACTATAGTCCTGAAGGACTTGCTGACATTCCATCAATTGGGCTAACTATTGAGGACCCATGC
CACTCTAGTGGACCGAATCTCATTTCACCCTACTTACAGGTTGTAAACTTGTTTGGATTGCTTCT
TCATAAACTTG
Found at i:10341996 original size:27 final size:27
Alignment explanation
Indices: 10341861--10342013 Score: 87
Period size: 27 Copynumber: 5.7 Consensus size: 27
10341851 TCCTAGCAAG
* *
10341861 CTATCCCG-TGTTTATTGTCCCGGTGGA
1 CTATCCCGCT-TTTAATGTCCCAGTGGA
* * *
10341888 CTATCTCG-TGTTTAATGTTCTAGTGGA
1 CTATCCCGCT-TTTAATGTCCCAGTGGA
** ** * **
10341915 CTATATCATTTTTAGTGTCCCAACGGA
1 CTATCCCGCTTTTAATGTCCCAGTGGA
* * *
10341942 CTACCCCACTTTTAATGTCAC-GTGGGA
1 CTATCCCGCTTTTAATGTCCCAGT-GGA
*
10341969 CTATCCCGCTTTTAATGTCCCGGTGGA
1 CTATCCCGCTTTTAATGTCCCAGTGGA
* **
10341996 CTATTCTTCTTTTAATGT
1 CTATCCCGCTTTTAATGT
10342014 TCCAATAGAC
Statistics
Matches: 97, Mismatches: 26, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
27 94 0.97
28 3 0.03
ACGTcount: A:0.18, C:0.24, G:0.19, T:0.39
Consensus pattern (27 bp):
CTATCCCGCTTTTAATGTCCCAGTGGA
Found at i:10344636 original size:7 final size:7
Alignment explanation
Indices: 10344626--10344657 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
10344616 CTAAACACTA
10344626 AATTTTG
1 AATTTTG
10344633 AATTTTG
1 AATTTTG
10344640 AATTTTG
1 AATTTTG
10344647 AATTTTG
1 AATTTTG
10344654 AATT
1 AATT
10344658 CCAAATCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (7 bp):
AATTTTG
Found at i:10344705 original size:27 final size:26
Alignment explanation
Indices: 10344650--10344707 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
10344640 AATTTTGAAT
* *
10344650 TTTGAATTCCAAATCTAAACTTAAGC
1 TTTGAATTCCAAATCTAAACTCAAAC
* *
10344676 TTTGAATTCCGAATTTTAAACTCAAAC
1 TTTGAATTCC-AAATCTAAACTCAAAC
10344703 TTTGA
1 TTTGA
10344708 GTTCAGAGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 10 0.37
27 17 0.63
ACGTcount: A:0.36, C:0.17, G:0.09, T:0.38
Consensus pattern (26 bp):
TTTGAATTCCAAATCTAAACTCAAAC
Found at i:10349885 original size:57 final size:60
Alignment explanation
Indices: 10349792--10349939 Score: 196
Period size: 57 Copynumber: 2.5 Consensus size: 60
10349782 ACCCTAATTC
* * * *
10349792 GGATTACCCGTCCGGGCTAAATCCATTTTCCACATATTCTTCGGGAGGGCTATATC-A-A
1 GGATCACCCGTCCGGGCTAGATCCTTTTTCCACATATTCTTCGAGAGGGCTATATCGATA
10349850 -GATCACCCGTCCGGGCTAGAT-CTTTTTCACACATATTCTTCGAGAGGGCTATATCAGGATA
1 GGATCACCCGTCCGGGCTAGATCCTTTTTC-CACATATTCTTCGAGAGGGCTATATC--GATA
*
10349911 GGATCACTCGTCCGGGCTAGATCCTTTTT
1 GGATCACCCGTCCGGGCTAGATCCTTTTT
10349940 ACCGTCAATT
Statistics
Matches: 78, Mismatches: 5, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
56 6 0.08
57 44 0.56
60 1 0.01
61 1 0.01
62 20 0.26
63 6 0.08
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.30
Consensus pattern (60 bp):
GGATCACCCGTCCGGGCTAGATCCTTTTTCCACATATTCTTCGAGAGGGCTATATCGATA
Found at i:10353334 original size:49 final size:48
Alignment explanation
Indices: 10353278--10353424 Score: 195
Period size: 49 Copynumber: 3.0 Consensus size: 48
10353268 TTTATTTTCT
*
10353278 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACATATCACATAC
1 CGATGCCATAG-CCAACTATGGTCTTACACGAAATCACATATCACATAC
* *
10353327 CGATGCCATAGCCCAACTATGGTCTTACACGGAATCACATATCACTTAC
1 CGATGCCATAG-CCAACTATGGTCTTACACGAAATCACATATCACATAC
** *
10353376 TAATGCCATAGCCTAGCTATGGTCTTACACGGAAATCACATAATCACAT
1 CGATGCCATAGCC-AACTATGGTCTTACAC-GAAATCACAT-ATCACAT
10353425 TTTCACATGT
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
48 2 0.02
49 70 0.80
50 9 0.10
51 6 0.07
ACGTcount: A:0.33, C:0.28, G:0.14, T:0.26
Consensus pattern (48 bp):
CGATGCCATAGCCAACTATGGTCTTACACGAAATCACATATCACATAC
Found at i:10355248 original size:57 final size:59
Alignment explanation
Indices: 10355179--10355320 Score: 209
Period size: 57 Copynumber: 2.4 Consensus size: 59
10355169 GATCTGAATT
* *
10355179 ACCCGTCTGGGCTAAATCCATTTTC-CACATATTCTTCGGGAGGGCTATATCA-AT-ATC
1 ACCCGTCCGGGCTAGATCC-TTTTCACACATATTCTTCGGGAGGGCTATATCAGATGATC
10355236 ACCCGTCCGGGCTAGATCCTTTTCACACATATTCTTCGGGAGGGCTATATCAGGATAGGATC
1 ACCCGTCCGGGCTAGATCCTTTTCACACATATTCTTCGGGAGGGCTATATCA-GAT--GATC
10355298 ACCCGTCCGGGCTAGATCCTTTT
1 ACCCGTCCGGGCTAGATCCTTTT
10355321 TACCGTCAAT
Statistics
Matches: 77, Mismatches: 2, Indels: 7
0.90 0.02 0.08
Matches are distributed among these distances:
56 5 0.06
57 44 0.57
59 2 0.03
62 26 0.34
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (59 bp):
ACCCGTCCGGGCTAGATCCTTTTCACACATATTCTTCGGGAGGGCTATATCAGATGATC
Found at i:10357618 original size:30 final size:31
Alignment explanation
Indices: 10357575--10357634 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
10357565 GGAGGTGGGA
*
10357575 TGGGAAGGAAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGAAATAAAAATTTTAGGGGAAAAG
* *
10357606 TGGG-AGGGAATAAAAATTTTGGGGGAAAA
1 TGGGAAGGAAATAAAAATTTTAGGGGAAAA
10357635 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.43, C:0.00, G:0.37, T:0.20
Consensus pattern (31 bp):
TGGGAAGGAAATAAAAATTTTAGGGGAAAAG
Found at i:10357862 original size:9 final size:9
Alignment explanation
Indices: 10357848--10357884 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
10357838 TATAGTTTGA
10357848 TATTCGAAT
1 TATTCGAAT
10357857 TATTCGAAT
1 TATTCGAAT
*
10357866 TATTCGAGT
1 TATTCGAAT
10357875 TATTCGAAT
1 TATTCGAAT
10357884 T
1 T
10357885 CGAAAACTCA
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:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:10361774 original size:7 final size:7
Alignment explanation
Indices: 10361764--10361789 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
10361754 ATAGAAAATA
10361764 TAACTGC
1 TAACTGC
10361771 TAACTGC
1 TAACTGC
10361778 TAACTGC
1 TAACTGC
10361785 TAACT
1 TAACT
10361790 AATTAACAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.31
Consensus pattern (7 bp):
TAACTGC
Found at i:10367814 original size:23 final size:23
Alignment explanation
Indices: 10367786--10367829 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
10367776 TAATACTGAT
10367786 TAATAA-TGGTAACAATAGTAAAA
1 TAATAAGTGG-AACAATAGTAAAA
*
10367809 TAATAAGTGGAACATTAGTAA
1 TAATAAGTGGAACAATAGTAA
10367830 TAACCAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.52, C:0.05, G:0.16, T:0.27
Consensus pattern (23 bp):
TAATAAGTGGAACAATAGTAAAA
Found at i:10368948 original size:31 final size:29
Alignment explanation
Indices: 10368878--10368951 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
10368868 GGCTCAGGTT
* *
10368878 ACATTTTAGTCACTTATGTTTGAAATGTT
1 ACATTTTAGTCACTTATGTTTCAAATGTA
* *
10368907 ACGTTTTAGTCACTTATGTTATCACATTGTA
1 ACATTTTAGTCACTTATGTT-TCA-AATGTA
10368938 ACATTTTAGTCACT
1 ACATTTTAGTCACT
10368952 GAGCCGTTAG
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
29 19 0.50
30 2 0.05
31 17 0.45
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.46
Consensus pattern (29 bp):
ACATTTTAGTCACTTATGTTTCAAATGTA
Found at i:10378716 original size:29 final size:30
Alignment explanation
Indices: 10378674--10378732 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
10378664 GGGGTGGGAG
*
10378674 GGGAGGGGAATAAAAGTTTTGGGGGGAAGT
1 GGGAGGGGAATAAAAGTTTTGGGGGAAAGT
*
10378704 GGGA-GGGAGTAAAAGTTTTGGGGGAAAGT
1 GGGAGGGGAATAAAAGTTTTGGGGGAAAGT
10378733 AAAGAGGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 23 0.85
30 4 0.15
ACGTcount: A:0.31, C:0.00, G:0.49, T:0.20
Consensus pattern (30 bp):
GGGAGGGGAATAAAAGTTTTGGGGGAAAGT
Found at i:10380859 original size:50 final size:50
Alignment explanation
Indices: 10380793--10380990 Score: 154
Period size: 50 Copynumber: 3.9 Consensus size: 50
10380783 TTTCTTTACC
* * *
10380793 GCCAATGCCATATCCCAGAGATGGTCTTACATAGGGG-TTCTCATATCGGT
1 GCCAATGCCATGTCCCAGAAATGGTCTTACAT-GGGGACTCTCATATCGGT
* * *
10380843 GCCCATGCCATGTCCCAGACATGGTCTTAC--GGGGAACCTCTCATCTCGGT
1 GCCAATGCCATGTCCCAGAAATGGTCTTACATGGGG-A-CTCTCATATCGGT
* * ** **
10380893 GCCAACGCCATGTCCCAAAAATGGTCTTACATGGAAACTCTCATAACCTCAATAAT
1 GCCAATGCCATGTCCCAGAAATGGTCTTACATGGGGACTCTCAT-A--TC---GGT
* *
10380949 GCCAATGCCATGTCCCAGACATGATCTTACAT-GGGA-TCTCAT
1 GCCAATGCCATGTCCCAGAAATGGTCTTACATGGGGACTCTCAT
10380991 TCCCTTAATT
Statistics
Matches: 117, Mismatches: 20, Indels: 18
0.75 0.13 0.12
Matches are distributed among these distances:
47 4 0.03
50 71 0.61
51 1 0.01
52 2 0.02
53 2 0.02
54 6 0.05
55 2 0.02
56 29 0.25
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (50 bp):
GCCAATGCCATGTCCCAGAAATGGTCTTACATGGGGACTCTCATATCGGT
Found at i:10388276 original size:16 final size:16
Alignment explanation
Indices: 10388255--10388285 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
10388245 CTTATTTTAT
10388255 TATTATAATAATATAA
1 TATTATAATAATATAA
10388271 TATTATAATAATATA
1 TATTATAATAATATA
10388286 CTATAACAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TATTATAATAATATAA
Found at i:10390326 original size:217 final size:217
Alignment explanation
Indices: 10389950--10390385 Score: 741
Period size: 217 Copynumber: 2.0 Consensus size: 217
10389940 CACCACAATA
* * * * *
10389950 CTCTATCGCCAAAAATAGAACTAGAAGAGAGATTAAACCTCTAAAGAAGTATGTCGAAGCTGATT
1 CTCTATCGCCAAAAACAAAACTAGAAGAGAGATTAAACCTCCAAAGAAGTATGTCAAAGCTGATC
10390015 TAGTTGCTTATGCTTTAAATGTGGCTGAAGATATAGATACAAACCAAGAGCCATCTAATTATTCT
66 TAGTTGCTTATGCTTTAAATGTGGCTGAAGATATAGATACAAACCAAGAGCCATCTAATTATTCT
*
10390080 AAGGCAATTAGTTGCGAAGACTTAGAAAAGTAGATATTTGCTATGCAATAGGAGATGGAATCACT
131 AAGGCAATTAGTTGCGAAGACTCAGAAAAGTAGATATTTGCTATGCAATAGGAGATGGAATCACT
10390145 CCACAAAAATC-GAACATGGGAT
196 CCACAAAAA-CAGAACATGGGAT
10390167 CTCTATCGCCAAAAACAAAACTAGAAGAGAGATTAAACCTCCAAAGAAGTATGTCAAAGCTGATC
1 CTCTATCGCCAAAAACAAAACTAGAAGAGAGATTAAACCTCCAAAGAAGTATGTCAAAGCTGATC
* *
10390232 TAGTTGCTTATGCTTTAAATGTGGCTGAAGATATATATGCAAACCAAGAGCCATCTAATTATTCT
66 TAGTTGCTTATGCTTTAAATGTGGCTGAAGATATAGATACAAACCAAGAGCCATCTAATTATTCT
* * *
10390297 AAGG-AGATTAGTTGTGAAGACTCAGAAAAGTGGATATTTGCTATGCAATAGGAGATGGAATCAT
131 AAGGCA-ATTAGTTGCGAAGACTCAGAAAAGTAGATATTTGCTATGCAATAGGAGATGGAATCAC
10390361 TCCACAAAAACAGAACATGGGAT
195 TCCACAAAAACAGAACATGGGAT
10390384 CT
1 CT
10390386 TGTGAAACTT
Statistics
Matches: 206, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
216 2 0.01
217 204 0.99
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.26
Consensus pattern (217 bp):
CTCTATCGCCAAAAACAAAACTAGAAGAGAGATTAAACCTCCAAAGAAGTATGTCAAAGCTGATC
TAGTTGCTTATGCTTTAAATGTGGCTGAAGATATAGATACAAACCAAGAGCCATCTAATTATTCT
AAGGCAATTAGTTGCGAAGACTCAGAAAAGTAGATATTTGCTATGCAATAGGAGATGGAATCACT
CCACAAAAACAGAACATGGGAT
Found at i:10402166 original size:21 final size:21
Alignment explanation
Indices: 10402136--10402176 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
10402126 GCCTAAAACC
*
10402136 TAGAACCCCAGACCCTAAATT
1 TAGAACCCCAAACCCTAAATT
*
10402157 TAGAATCCCAAACCCTAAAT
1 TAGAACCCCAAACCCTAAAT
10402177 CCAATAGATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.32, G:0.07, T:0.20
Consensus pattern (21 bp):
TAGAACCCCAAACCCTAAATT
Found at i:10403223 original size:158 final size:158
Alignment explanation
Indices: 10402935--10403255 Score: 624
Period size: 158 Copynumber: 2.0 Consensus size: 158
10402925 ATAATCTAGA
*
10402935 AATATTAAACCAAGAATTAAGCACACATGATTAAAAACAAGAAACTAAGTATTTATTGCGTAAAA
1 AATATTAAACCAAGAATTAAGCACACATGATTAAAAACAAGAAACTAAGTATTTATTGCATAAAA
10403000 TAAAAATCAAATGATAGAATCCATCATAGGGTTCATCTCCTCTAGGTATTTAGAAAATTAGTTCA
66 TAAAAATCAAATGATAGAATCCATCATAGGGTTCATCTCCTCTAGGTATTTAGAAAATTAGTTCA
10403065 TGCTTGAAAATAAAGACATCCAAGAGAC
131 TGCTTGAAAATAAAGACATCCAAGAGAC
*
10403093 AATATTAAACCAAGAATTAAGCACACATGATTAAAAACAATAAACTAAGTATTTATTGCATAAAA
1 AATATTAAACCAAGAATTAAGCACACATGATTAAAAACAAGAAACTAAGTATTTATTGCATAAAA
10403158 TAAAAATCAAATGATAGAATCCATCATAGGGTTCATCTCCTCTAGGTATTTAGAAAATTAGTTCA
66 TAAAAATCAAATGATAGAATCCATCATAGGGTTCATCTCCTCTAGGTATTTAGAAAATTAGTTCA
10403223 TGCTTGAAAATAAAGACATCCAAGAGAC
131 TGCTTGAAAATAAAGACATCCAAGAGAC
10403251 AATAT
1 AATAT
10403256 AACCGAATGA
Statistics
Matches: 161, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
158 161 1.00
ACGTcount: A:0.46, C:0.14, G:0.12, T:0.27
Consensus pattern (158 bp):
AATATTAAACCAAGAATTAAGCACACATGATTAAAAACAAGAAACTAAGTATTTATTGCATAAAA
TAAAAATCAAATGATAGAATCCATCATAGGGTTCATCTCCTCTAGGTATTTAGAAAATTAGTTCA
TGCTTGAAAATAAAGACATCCAAGAGAC
Found at i:10403348 original size:43 final size:43
Alignment explanation
Indices: 10403287--10403373 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
10403277 TCATGATAAA
10403287 TTCTTAAGAAATCAATTGGGAATCTTCAATCTTGATGAAAATC
1 TTCTTAAGAAATCAATTGGGAATCTTCAATCTTGATGAAAATC
10403330 TTCTTAAGAAATCAATTGGGAATCTTCAATCTTGATGAAAATC
1 TTCTTAAGAAATCAATTGGGAATCTTCAATCTTGATGAAAATC
10403373 T
1 T
10403374 GCTTCAAATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.36
Consensus pattern (43 bp):
TTCTTAAGAAATCAATTGGGAATCTTCAATCTTGATGAAAATC
Found at i:10406935 original size:22 final size:24
Alignment explanation
Indices: 10406909--10406952 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
10406899 CGAAAATATT
10406909 AAATAT-ATA-TTTTTTATTTTTA
1 AAATATAATAGTTTTTTATTTTTA
10406931 AAATATAATAGTTTTTTATTTT
1 AAATATAATAGTTTTTTATTTT
10406953 AAGTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.30
23 3 0.15
24 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AAATATAATAGTTTTTTATTTTTA
Found at i:10407028 original size:9 final size:9
Alignment explanation
Indices: 10407014--10407041 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
10407004 TTTTGTTACA
10407014 ACAATTAAT
1 ACAATTAAT
10407023 ACAATTAAT
1 ACAATTAAT
10407032 ACAATTAAT
1 ACAATTAAT
10407041 A
1 A
10407042 ATTTGATAAA
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:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:10407098 original size:59 final size:59
Alignment explanation
Indices: 10407023--10407162 Score: 253
Period size: 59 Copynumber: 2.4 Consensus size: 59
10407013 AACAATTAAT
10407023 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAAATTTTATTACA
1 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAAATTTTATTACA
* *
10407082 ACAATTAATACAATTAATAATTTGATAAATTTACTGATCAAATGTTAGATTTTATTACA
1 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAAATTTTATTACA
*
10407141 ACAATTAATACAATTAACAATT
1 ACAATTAATACAATTAATAATT
10407163 AATAATTTAA
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
59 78 1.00
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.39
Consensus pattern (59 bp):
ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAAATTTTATTACA
Found at i:10407194 original size:16 final size:16
Alignment explanation
Indices: 10407173--10407214 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
10407163 AATAATTTAA
*
10407173 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
10407189 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
10407205 TAGTTTTAAT
1 TAATTTTAAT
10407215 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:10407198 original size:22 final size:23
Alignment explanation
Indices: 10407188--10407249 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
10407178 TTACTAACAA
* * *
10407188 TTAATTTTAAT-AACAATTAGTT
1 TTAATTTTAATAAAAAAATAATT
*
10407210 TTAATTTTATTAAAAAAATAATT
1 TTAATTTTAATAAAAAAATAATT
*
10407233 TTAATTTTAATTAAAAA
1 TTAATTTTAATAAAAAA
10407250 TAGGCCAGGC
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.30
23 23 0.70
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TTAATTTTAATAAAAAAATAATT
Found at i:10407251 original size:22 final size:22
Alignment explanation
Indices: 10407188--10407251 Score: 69
Period size: 22 Copynumber: 2.9 Consensus size: 22
10407178 TTACTAACAA
* *
10407188 TTAATTTTAA-TAACAATTAGTT
1 TTAATTTTAATTAA-AAATAATT
10407210 TTAATTTT-ATTAAAAAAATAATT
1 TTAATTTTAATT--AAAAATAATT
10407233 TTAATTTTAATTAAAAATA
1 TTAATTTTAATTAAAAATA
10407252 GGCCAGGCCG
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
21 1 0.03
22 16 0.44
23 14 0.39
24 5 0.14
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
TTAATTTTAATTAAAAATAATT
Found at i:10407683 original size:13 final size:14
Alignment explanation
Indices: 10407656--10407684 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
10407646 TATAATTTTT
10407656 TTAAATTATTAAAA
1 TTAAATTATTAAAA
10407670 TTAAATTA-TAAAA
1 TTAAATTATTAAAA
10407683 TT
1 TT
10407685 TTGAATGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TTAAATTATTAAAA
Found at i:10417714 original size:26 final size:26
Alignment explanation
Indices: 10417649--10417757 Score: 125
Period size: 26 Copynumber: 4.3 Consensus size: 26
10417639 TGGCTATCCG
10417649 GAGC-TCCTAATTAAAGGCTCTTCGT
1 GAGCTTCCTAATTAAAGGCTCTTCGT
**
10417674 GAGCTTCCTGTTTAAAGGCTCTTCGT
1 GAGCTTCCTAATTAAAGGCTCTTCGT
* * *
10417700 GAGCTTCCTAATTAAAAGTTCTTTGT
1 GAGCTTCCTAATTAAAGGCTCTTCGT
* * *
10417726 GAACTTCCTAATT-ATGGCTCTT-AT
1 GAGCTTCCTAATTAAAGGCTCTTCGT
10417750 GAGCTTCC
1 GAGCTTCC
10417758 CGTTATATAG
Statistics
Matches: 70, Mismatches: 13, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
24 8 0.11
25 10 0.14
26 52 0.74
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.38
Consensus pattern (26 bp):
GAGCTTCCTAATTAAAGGCTCTTCGT
Found at i:10417820 original size:26 final size:26
Alignment explanation
Indices: 10417664--10417821 Score: 69
Period size: 26 Copynumber: 6.2 Consensus size: 26
10417654 CCTAATTAAA
* * *
10417664 GGCTCTTCGTGAGCTTCCTGTT-TAAA
1 GGCTCTTTGTGAGCTTCCTATTAT-AT
* *
10417690 GGCTCTTCGTGAGCTTCCTAATTA-AA
1 GGCTCTTTGTGAGCTTCCT-ATTATAT
* * * *
10417716 AGTTCTTTGTGAACTTCCTAAT-TAT
1 GGCTCTTTGTGAGCTTCCTATTATAT
* **
10417741 GGCTC-TTATGAGCTTCCCGTTATAT
1 GGCTCTTTGTGAGCTTCCTATTATAT
* ** * * *
10417766 AGC-C-CGGATAAGTTTCATGATTA-AT
1 GGCTCTTTG-TGAGCTTCCT-ATTATAT
10417791 GGCTCTTTGTGAGCTTCCTATTATAT
1 GGCTCTTTGTGAGCTTCCTATTATAT
10417817 GGCTC
1 GGCTC
10417822 AAGAGAGGAT
Statistics
Matches: 94, Mismatches: 29, Indels: 18
0.67 0.21 0.13
Matches are distributed among these distances:
24 12 0.13
25 25 0.27
26 54 0.57
27 3 0.03
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.39
Consensus pattern (26 bp):
GGCTCTTTGTGAGCTTCCTATTATAT
Found at i:10440714 original size:51 final size:50
Alignment explanation
Indices: 10440645--10440842 Score: 200
Period size: 51 Copynumber: 3.9 Consensus size: 50
10440635 ATTAATGATG
* * * *
10440645 TTCGGTTCACATAGTAGCCTGCACATAGTACTATACATGTGACCATTACCA
1 TTCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCA
* * * *
10440696 TTCGTTACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAACTA
1 TTCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCA
* * * * * * *
10440747 TCCGGTACGCATAGTAGCTTGCACATAGTACTACACATGCGACC-TATCA
1 TTCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATACCA
* **
10440796 TTCCGGTACATGTAGCGGCCTGCACATAGTACTACACACGTGACCAT
1 TT-CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
10440843 CACTTTCACT
Statistics
Matches: 116, Mismatches: 28, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
49 3 0.03
50 35 0.30
51 76 0.66
52 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (50 bp):
TTCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATACCA
Found at i:10440862 original size:101 final size:99
Alignment explanation
Indices: 10440653--10440838 Score: 248
Period size: 101 Copynumber: 1.8 Consensus size: 99
10440643 TGTTCGGTTC
* * * *
10440653 ACATAGTAGCCTGCACATAGTACTATACATGTGACCATTACCATTCGTTACACGTAGTAGCCTGC
1 ACATAGTAGCCTGCACATAGTACTACACATGCGACCA-TACCATTCGGTACACGTAGCAGCCTGC
*
10440718 ACATAGTACTACACACGTGATCGAAACTATCCGGT
65 ACATAGTACTACACACGTGATCCAAACTATCCGGT
* * * *
10440753 ACGCATAGTAGCTTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACATGTAGCGGCCT
1 A--CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATT-CGGTACACGTAGCAGCCT
10440817 GCACATAGTACTACACACGTGA
63 GCACATAGTACTACACACGTGA
10440839 CCATCACTTT
Statistics
Matches: 75, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
100 7 0.09
101 36 0.48
102 32 0.43
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (99 bp):
ACATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATTCGGTACACGTAGCAGCCTGCA
CATAGTACTACACACGTGATCCAAACTATCCGGT
Found at i:10443419 original size:45 final size:45
Alignment explanation
Indices: 10443355--10443444 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 45
10443345 GGAAACCTTG
* *
10443355 ACTCTTTGAGTGCCACGAAACTGGTAGATCAATCTCCATCGATTA
1 ACTCTTTGAGTGCCACGAAACTAGCAGATCAATCTCCATCGATTA
*
10443400 ACTCTTTGAGTGCCACGAAACTAGCAGATTAATCTCCATCGATTA
1 ACTCTTTGAGTGCCACGAAACTAGCAGATCAATCTCCATCGATTA
10443445 TCAATATTGA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (45 bp):
ACTCTTTGAGTGCCACGAAACTAGCAGATCAATCTCCATCGATTA
Found at i:10450404 original size:177 final size:175
Alignment explanation
Indices: 10450075--10450424 Score: 445
Period size: 177 Copynumber: 2.0 Consensus size: 175
10450065 AAGTTTTGAG
* * * * * * *
10450075 TCTAAACTAAAAAAAAATCTTATTTGCTTCAGAATAAAATATAAATCAATTATATTAAGTTCAGA
1 TCTAAACTAAAAAAAAATCTTATTTACTTAAAAATAAAAAATAAAACAAGTAAATTAAGTTCAGA
* * * *
10450140 TCATGTTGATGTCGTGTCTCCTATTAAATTTTACGTTCGGAATGGATTTACTTTTCTTAAGAGTC
66 TCATGTCGAAGTCGGGTCTCCTATTAAATTTTACGTTCGGAATGGATTTACTTTTCTTAAGAGTA
* * *
10450205 GGGGCCAGGTGGGGCAGATTAGTCAATCTTCAAGTTGAGCAAATA
131 GGGACCAGGTGGGGCAGATTAGTCAAGCTTCAAGTCGAGCAAATA
*
10450250 TCTAAACTAAAAAAAACAATTTTATTTACTTAAAAATAAAAAATAAAACAAGTAAATTAAGTTCA
1 TCTAAACT-AAAAAAA-AATCTTATTTACTTAAAAATAAAAAATAAAACAAGTAAATTAAGTTCA
* *
10450315 GATCATGTCGAAGTCGGGTCTCCTATTAAATTTTGA-TTTCAGG-ATGGATTTATTTTTCTTAAG
64 GATCATGTCGAAGTCGGGTCTCCTATTAAATTTT-ACGTTC-GGAATGGATTTACTTTTCTTAAG
* ** *
10450378 AGTAGGGATCATTTGGGG-AGGATTAGTCAAGCTTCGAGTCGAGCAAA
127 AGTAGGGACCAGGTGGGGCA-GATTAGTCAAGCTTCAAGTCGAGCAAA
10450425 AATCCACTCT
Statistics
Matches: 149, Mismatches: 21, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
175 8 0.05
176 8 0.05
177 130 0.87
178 3 0.02
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.34
Consensus pattern (175 bp):
TCTAAACTAAAAAAAAATCTTATTTACTTAAAAATAAAAAATAAAACAAGTAAATTAAGTTCAGA
TCATGTCGAAGTCGGGTCTCCTATTAAATTTTACGTTCGGAATGGATTTACTTTTCTTAAGAGTA
GGGACCAGGTGGGGCAGATTAGTCAAGCTTCAAGTCGAGCAAATA
Found at i:10453616 original size:3 final size:3
Alignment explanation
Indices: 10453608--10453641 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
10453598 TCCTTTCCTT
10453608 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
10453642 AGATTTAACC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:10460665 original size:29 final size:29
Alignment explanation
Indices: 10460624--10460688 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
10460614 CTGTCGACGC
* *
10460624 CACACGGCCATGTGCCAGACCGTGTGTGA
1 CACACGGCCATGTACCAGAACGTGTGTGA
* *
10460653 CACATGGCCATGTACGAGAACGTGTGTGA
1 CACACGGCCATGTACCAGAACGTGTGTGA
10460682 CACACGG
1 CACACGG
10460689 TCTAGGCCAG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.25, C:0.28, G:0.31, T:0.17
Consensus pattern (29 bp):
CACACGGCCATGTACCAGAACGTGTGTGA
Found at i:10460822 original size:15 final size:15
Alignment explanation
Indices: 10460800--10460854 Score: 101
Period size: 15 Copynumber: 3.7 Consensus size: 15
10460790 ATTTTGGGTC
10460800 GTGTGGGCCACACGG
1 GTGTGGGCCACACGG
*
10460815 GAGTGGGCCACACGG
1 GTGTGGGCCACACGG
10460830 GTGTGGGCCACACGG
1 GTGTGGGCCACACGG
10460845 GTGTGGGCCA
1 GTGTGGGCCA
10460855 AAAATTCAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 38 1.00
ACGTcount: A:0.15, C:0.25, G:0.47, T:0.13
Consensus pattern (15 bp):
GTGTGGGCCACACGG
Found at i:10467704 original size:182 final size:182
Alignment explanation
Indices: 10467397--10467756 Score: 675
Period size: 182 Copynumber: 2.0 Consensus size: 182
10467387 TTCTAATAGA
10467397 AATTGGGTAAGTCCAGTGCAATGCGTTCCTAAAAAGAGTGGCATCACTGTGGTTAGCAACTACAA
1 AATTGGGTAAGTCCAGTGCAATGCGTTCCTAAAAAGAGTGGCATCACTGTGGTTAGCAACTACAA
*
10467462 AGACGAATTAATTCCTACACGCATTCTTACGGGATGGCGAGATTGTATGGATTGTCGCAAACTTA
66 AGACGAATTAATTCCTACACACATTCTTACGGGATGGCGAGATTGTATGGATTGTCGCAAACTTA
*
10467527 ATGCTGCCACAAGGAAGGACCACTTTGCACTTCCTTTCATTGACCAAAGACG
131 ATGCTACCACAAGGAAGGACCACTTTGCACTTCCTTTCATTGACCAAAGACG
*
10467579 AATTGGGTAAGTCCAGTGCAATGCGTTCTTAAAAAGAGTGGCATCACTGTGGTTAGCAACTACAA
1 AATTGGGTAAGTCCAGTGCAATGCGTTCCTAAAAAGAGTGGCATCACTGTGGTTAGCAACTACAA
* *
10467644 AGATGAATTAATTCCTACACACATTCTTACGGGATGGCGAGTTTGTATGGATTGTCGCAAACTTA
66 AGACGAATTAATTCCTACACACATTCTTACGGGATGGCGAGATTGTATGGATTGTCGCAAACTTA
10467709 ATGCTACCACAAGGAAGGACCACTTTGCACTTCCTTTCATTGACCAAA
131 ATGCTACCACAAGGAAGGACCACTTTGCACTTCCTTTCATTGACCAAA
10467757 TATTGGACAG
Statistics
Matches: 173, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
182 173 1.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.27
Consensus pattern (182 bp):
AATTGGGTAAGTCCAGTGCAATGCGTTCCTAAAAAGAGTGGCATCACTGTGGTTAGCAACTACAA
AGACGAATTAATTCCTACACACATTCTTACGGGATGGCGAGATTGTATGGATTGTCGCAAACTTA
ATGCTACCACAAGGAAGGACCACTTTGCACTTCCTTTCATTGACCAAAGACG
Found at i:10502603 original size:41 final size:41
Alignment explanation
Indices: 10502489--10502685 Score: 184
Period size: 41 Copynumber: 4.8 Consensus size: 41
10502479 ATTTTTTAAA
* *
10502489 CCTTTAGCGGCGTTTTTATCTAAGTGACGCTAATTCTCTGG
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATTCTCTGG
* * *
10502530 CCTTTAGCGGC-ATTTTATCTAAGCGCTGCTAATGCTC-GG
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATTCTCTGG
* * *
10502569 ATCTTTAGCGGCGTTTTTATCTGAGCGCCACTAATTCTCTGG
1 -CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATTCTCTGG
* * * * * **
10502611 CCTTTAGCGGTGTTTGTAGCTAAGCACCGCTAATGCAT-TTA
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATTC-TCTGG
* * * *
10502652 CCTTTAGCGGTGTTTTTGTCGAAGCACCGCTAAT
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAAT
10502686 AGTAACAAAA
Statistics
Matches: 127, Mismatches: 25, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
39 2 0.02
40 31 0.24
41 91 0.72
42 3 0.02
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.36
Consensus pattern (41 bp):
CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATTCTCTGG
Found at i:10502685 original size:82 final size:81
Alignment explanation
Indices: 10502488--10502685 Score: 213
Period size: 81 Copynumber: 2.4 Consensus size: 81
10502478 GATTTTTTAA
* * *
10502488 ACCTTTAGCGGCGTTTTTATCTAAGTGA-CGCTAATTCTCTGGCCTTTAGCGGCATTTTATCTAA
1 ACCTTTAGCGGCGTTTTTATCGAAG-CACCGCTAATTCTCTGGCCTTTAGCGGCATTTTAGCTAA
* *
10502552 GCGCTGCTAATGCTCGG
65 GCACCGCTAATGCTCGG
* * * **
10502569 ATCTTTAGCGGCGTTTTTATCTG-AGCGCCACTAATTCTCTGGCCTTTAGCGGTGTTTGTAGCTA
1 ACCTTTAGCGGCGTTTTTATC-GAAGCACCGCTAATTCTCTGGCCTTTAGCGGCATTT-TAGCTA
**
10502633 AGCACCGCTAATGCAT-TT
64 AGCACCGCTAATGC-TCGG
* *
10502651 ACCTTTAGCGGTGTTTTTGTCGAAGCACCGCTAAT
1 ACCTTTAGCGGCGTTTTTATCGAAGCACCGCTAAT
10502686 AGTAACAAAA
Statistics
Matches: 95, Mismatches: 17, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
81 49 0.52
82 45 0.47
83 1 0.01
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (81 bp):
ACCTTTAGCGGCGTTTTTATCGAAGCACCGCTAATTCTCTGGCCTTTAGCGGCATTTTAGCTAAG
CACCGCTAATGCTCGG
Found at i:10503236 original size:14 final size:14
Alignment explanation
Indices: 10503170--10503237 Score: 52
Period size: 14 Copynumber: 4.9 Consensus size: 14
10503160 TACGGGGTAT
*
10503170 AGATTTAAGGTTTG
1 AGATTTAGGGTTTG
*
10503184 AGATTTAAGG-TT-
1 AGATTTAGGGTTTG
**
10503196 A-ATTTAGGGGTTAA
1 AGATTTA-GGGTTTG
*
10503210 AGGTTTAAGGGTTTG
1 AGATTT-AGGGTTTG
10503225 AGATTTAGGGTTT
1 AGATTTAGGGTTT
10503238 TAATGGTCAT
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
11 5 0.12
12 3 0.07
13 3 0.07
14 18 0.42
15 13 0.30
16 1 0.02
ACGTcount: A:0.28, C:0.00, G:0.31, T:0.41
Consensus pattern (14 bp):
AGATTTAGGGTTTG
Found at i:10505421 original size:12 final size:10
Alignment explanation
Indices: 10505391--10505419 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
10505381 TATATTTTTT
10505391 GATATATATG
1 GATATATATG
10505401 GATATATATG
1 GATATATATG
10505411 GATATATAT
1 GATATATAT
10505420 ATAGTTATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.17, T:0.41
Consensus pattern (10 bp):
GATATATATG
Found at i:10505517 original size:27 final size:27
Alignment explanation
Indices: 10505487--10505538 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
10505477 AATAAACAAA
* *
10505487 TAAATAAGTAAGTAATTATTTATTTGT
1 TAAATAAATAAGTAATTAATTATTTGT
**
10505514 TAAATAAATTGGTAATTAATTATTT
1 TAAATAAATAAGTAATTAATTATTT
10505539 AAATGTAAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (27 bp):
TAAATAAATAAGTAATTAATTATTTGT
Found at i:10507881 original size:21 final size:21
Alignment explanation
Indices: 10507852--10507904 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 21
10507842 ACATCTTTGA
*
10507852 TATATATATTTATATACAGTTT
1 TATATATATTTAT-TACAATTT
10507874 TA-ATATATTTATTACAATTT
1 TATATATATTTATTACAATTT
10507894 TATATATATTT
1 TATATATATTT
10507905 GAAAAATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 9 0.31
21 18 0.62
22 2 0.07
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.57
Consensus pattern (21 bp):
TATATATATTTATTACAATTT
Found at i:10507994 original size:12 final size:12
Alignment explanation
Indices: 10507977--10508001 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10507967 TACACAACAC
10507977 ATAACTTACATA
1 ATAACTTACATA
10507989 ATAACTTACATA
1 ATAACTTACATA
10508001 A
1 A
10508002 GTTATATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (12 bp):
ATAACTTACATA
Found at i:10508001 original size:21 final size:24
Alignment explanation
Indices: 10507975--10508033 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 24
10507965 CTTACACAAC
10507975 ACATAACTTACATAAT-AAC-T-T
1 ACATAACTTACATAATAAACTTAT
* *
10507996 ACATAAGTTATAT-ATAAACTTAT
1 ACATAACTTACATAATAAACTTAT
*
10508019 ATATAACTTACATAA
1 ACATAACTTACATAA
10508034 CTTAAATTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
20 2 0.07
21 14 0.48
22 1 0.03
23 11 0.38
24 1 0.03
ACGTcount: A:0.49, C:0.14, G:0.02, T:0.36
Consensus pattern (24 bp):
ACATAACTTACATAATAAACTTAT
Found at i:10508026 original size:32 final size:32
Alignment explanation
Indices: 10507979--10508063 Score: 100
Period size: 32 Copynumber: 2.6 Consensus size: 32
10507969 CACAACACAT
* * *
10507979 AACTTACATAATAACTTACATAAGTTATA-TATA
1 AACTTATAT-ATAACTTACATAACTTAAATTA-A
10508012 AACTTATATATAACTTACATAACTTAAATTAA
1 AACTTATATATAACTTACATAACTTAAATTAA
*
10508044 AATTTATATATAAACTTACA
1 AACTTATATAT-AACTTACA
10508064 CAACACATAA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
32 28 0.61
33 18 0.39
ACGTcount: A:0.49, C:0.12, G:0.01, T:0.38
Consensus pattern (32 bp):
AACTTATATATAACTTACATAACTTAAATTAA
Found at i:10508033 original size:44 final size:43
Alignment explanation
Indices: 10507977--10508061 Score: 118
Period size: 44 Copynumber: 1.9 Consensus size: 43
10507967 TACACAACAC
*
10507977 ATAACTTACATAA-TAACTTACATAAGTTATATATAAACTTATAT
1 ATAACTTACATAACTAAATTA-A-AAGTTATATATAAACTTATAT
*
10508021 ATAACTTACATAACTTAAATTAAAATTTATATATAAACTTA
1 ATAACTTACATAAC-TAAATTAAAAGTTATATATAAACTTA
10508062 CACAACACAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
44 30 0.81
45 1 0.03
46 6 0.16
ACGTcount: A:0.49, C:0.11, G:0.01, T:0.39
Consensus pattern (43 bp):
ATAACTTACATAACTAAATTAAAAGTTATATATAAACTTATAT
Found at i:10508104 original size:9 final size:9
Alignment explanation
Indices: 10508056--10508657 Score: 331
Period size: 9 Copynumber: 70.2 Consensus size: 9
10508046 TTTATATATA
*
10508056 AACTTACAC
1 AACTTACAT
10508065 AAC--ACAT
1 AACTTACAT
*
10508072 AACTTATAT
1 AACTTACAT
10508081 AA--TACAT
1 AACTTACAT
10508088 AA--TACAT
1 AACTTACAT
10508095 AACTTACATAAT
1 AACTTAC---AT
10508107 AACTTACAT
1 AACTTACAT
10508116 AATATCTTACATAAT
1 -A-A-CTTAC---AT
10508131 AACTTACAT
1 AACTTACAT
10508140 AA-TAATACAT
1 AACT--TACAT
* *
10508150 ACCCTACAT
1 AACTTACAT
* *
10508159 AAATTAAAT
1 AACTTACAT
*
10508168 AAGTTACAT
1 AACTTACAT
*
10508177 AA--TACAC
1 AACTTACAT
** *
10508184 AA-AAACAA
1 AACTTACAT
10508192 AAACTTACAT
1 AA-CTTACAT
10508202 AACTTACAT
1 AACTTACAT
10508211 AA--TACAT
1 AACTTACAT
10508218 AACTTACAT
1 AACTTACAT
* *
10508227 AACCTACTT
1 AACTTACAT
10508236 AA--TACAT
1 AACTTACAT
*
10508243 AACTTGCAT
1 AACTTACAT
10508252 AACTTACAT
1 AACTTACAT
*
10508261 AA--TACAC
1 AACTTACAT
10508268 AACTTACAT
1 AACTTACAT
* *
10508277 --GTGTAAAT
1 AACT-TACAT
*
10508285 AA--TACAC
1 AACTTACAT
10508292 AACTTACAT
1 AACTTACAT
10508301 AACTTACAT
1 AACTTACAT
*
10508310 AA--TACAC
1 AACTTACAT
10508317 AACTTACAT
1 AACTTACAT
10508326 AACTTACAT
1 AACTTACAT
10508335 AA--TACAT
1 AACTTACAT
10508342 AACTTACAT
1 AACTTACAT
* *
10508351 AACCTACTT
1 AACTTACAT
10508360 AA--TACAT
1 AACTTACAT
*
10508367 AACTTGCAT
1 AACTTACAT
10508376 AACTTACAT
1 AACTTACAT
10508385 AACTTACAT
1 AACTTACAT
*
10508394 AA--TACAC
1 AACTTACAT
10508401 AACTT--AT
1 AACTTACAT
** *
10508408 ATGTGTAAAT
1 AACT-TACAT
*
10508418 AA--TACAC
1 AACTTACAT
10508425 AACTTACAT
1 AACTTACAT
10508434 AACTTACAT
1 AACTTACAT
* *
10508443 ACCCTACAT
1 AACTTACAT
* *
10508452 AAATTAAAT
1 AACTTACAT
*
10508461 AAGTTACAT
1 AACTTACAT
*
10508470 AA--TACAC
1 AACTTACAT
** *
10508477 AA-AAACAAA
1 AACTTAC-AT
10508486 AACTTACAT
1 AACTTACAT
10508495 AACTTACAT
1 AACTTACAT
*
10508504 AA--TACAC
1 AACTTACAT
10508511 AACTTACAT
1 AACTTACAT
*
10508520 AACTTATAT
1 AACTTACAT
*
10508529 AA--TACAC
1 AACTTACAT
10508536 AACTTACAT
1 AACTTACAT
10508545 AACTTACAT
1 AACTTACAT
10508554 AA--TACAT
1 AACTTACAT
*
10508561 AATTTACAT
1 AACTTACAT
10508570 AACTTACA-
1 AACTTACAT
**
10508578 AA-AGACAT
1 AACTTACAT
10508586 AACTTACAT
1 AACTTACAT
* *
10508595 AAGTTTCAT
1 AACTTACAT
*
10508604 AA--TACAC
1 AACTTACAT
*
10508611 AACTTACAC
1 AACTTACAT
*
10508620 AACTTACAC
1 AACTTACAT
10508629 AACTTACAT
1 AACTTACAT
10508638 AACTTACAT
1 AACTTACAT
10508647 AACTTACAT
1 AACTTACAT
10508656 AA
1 AA
10508658 TGTATAACTT
Statistics
Matches: 463, Mismatches: 74, Indels: 112
0.71 0.11 0.17
Matches are distributed among these distances:
7 115 0.25
8 17 0.04
9 290 0.63
10 17 0.04
11 1 0.00
12 19 0.04
13 1 0.00
14 1 0.00
15 2 0.00
ACGTcount: A:0.49, C:0.20, G:0.02, T:0.29
Consensus pattern (9 bp):
AACTTACAT
Found at i:10508110 original size:12 final size:12
Alignment explanation
Indices: 10508070--10508144 Score: 100
Period size: 12 Copynumber: 6.3 Consensus size: 12
10508060 TACACAACAC
*
10508070 ATAACTTATATA
1 ATAACTTACATA
*
10508082 AT-ACATA-ATA
1 ATAACTTACATA
10508092 CATAACTTACATA
1 -ATAACTTACATA
10508105 ATAACTTACATA
1 ATAACTTACATA
*
10508117 ATATCTTACATA
1 ATAACTTACATA
10508129 ATAACTTACATA
1 ATAACTTACATA
10508141 ATAA
1 ATAA
10508145 TACATACCCT
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
10 3 0.05
11 6 0.11
12 44 0.79
13 3 0.05
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.35
Consensus pattern (12 bp):
ATAACTTACATA
Found at i:10508140 original size:36 final size:35
Alignment explanation
Indices: 10508070--10508658 Score: 119
Period size: 34 Copynumber: 16.1 Consensus size: 35
10508060 TACACAACAC
*
10508070 ATAACTTATATAATACATAATACATAACTTACATA
1 ATAACTTACATAATACATAATACATAACTTACATA
*
10508105 ATAACTTACATAATATCTTACATA-ATAACTTACATA
1 ATAACTTACATAATA-CATA-ATACATAACTTACATA
* * *
10508141 ATAA--TACATACCCTACATAAATTAAATAAGTTACATA
1 ATAACTTACATA--ATACAT-AA-TACATAACTTACATA
* *
10508178 AT-AC--ACA-AAAACAAAAACTTACATAACTTACATAATA
1 ATAACTTACATAATAC-ATAA--TACATAACTTAC---ATA
* *
10508215 CATAACTTACATAACCTACTTAATACATAACTTGC---
1 -ATAACTTACATAA--TACATAATACATAACTTACATA
* *
10508250 ATAACTTACATAATACACAACTTACATGTGTAA-ATA-ATA
1 ATAACTTACATAATACATAA--TACA----TAACTTACATA
* *
10508289 CACAACTTACATAACTTACATAATACACAACTTAC---
1 -ATAACTTACATAA--TACATAATACATAACTTACATA
*
10508324 ATAACTTACATAATACATAACTTACATAACCTAC-T-
1 ATAACTTACATAATACATAA--TACATAACTTACATA
*
10508359 -TAA--TACATAACTTGCATAACTTACATAACTTACATA
1 ATAACTTACATAA--TACATAA--TACATAACTTACATA
* ** * *
10508395 ATACACAACTTATATGTGTAAATAATACACAACTTAC---
1 AT----AACTTACAT-AATACATAATACATAACTTACATA
* * *
10508432 ATAACTTACATACCCTACATAAATTAAATAAGTTACATA
1 ATAACTTACATA--ATACAT-AA-TACATAACTTACATA
* *
10508471 AT-AC--ACA-AAAACAAAAACTTACATAACTTACATA
1 ATAACTTACATAATAC-ATAA--TACATAACTTACATA
* *
10508505 ATACACAACTTACATAACTTATATAATACACAACTTAC---
1 AT----AACTTACATAA--TACATAATACATAACTTACATA
*
10508543 ATAACTTACATAATACATAATTTACATAACTTACAAAAGA
1 ATAACTTACATAATACATAA--TACATAACTTAC---ATA
* *
10508583 CATAACTTACATAAGTTTCATAATACACAACTTAC---
1 -ATAACTTACATAA--TACATAATACATAACTTACATA
* *
10508618 ACAACTTACACAACTTACATAACTTACATAACTTACATA
1 ATAACTTACATAA--TACATAA--TACATAACTTACATA
10508657 AT
1 AT
10508659 GTATAACTTA
Statistics
Matches: 411, Mismatches: 59, Indels: 164
0.65 0.09 0.26
Matches are distributed among these distances:
32 25 0.06
33 16 0.04
34 140 0.34
35 22 0.05
36 53 0.13
37 25 0.06
38 9 0.02
39 7 0.02
40 27 0.07
41 54 0.13
42 15 0.04
43 15 0.04
44 3 0.01
ACGTcount: A:0.49, C:0.20, G:0.02, T:0.30
Consensus pattern (35 bp):
ATAACTTACATAATACATAATACATAACTTACATA
Found at i:10508272 original size:25 final size:25
Alignment explanation
Indices: 10508056--10508143 Score: 67
Period size: 23 Copynumber: 3.5 Consensus size: 25
10508046 TTTATATATA
* * *
10508056 AACTTACACAACACATAACTTATAT
1 AACTTACATAATACATAACTTACAT
10508081 AA--TACATAATACATAACTTACATAAT
1 AACTTACATAATACATAACTTAC---AT
* *
10508107 AACTTACATAATATC-TTACATA-AT
1 AACTTACATAATA-CATAACTTACAT
10508131 AACTTACATAATA
1 AACTTACATAATA
10508144 ATACATACCC
Statistics
Matches: 52, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
23 16 0.31
24 15 0.29
25 2 0.04
26 4 0.08
28 14 0.27
29 1 0.02
ACGTcount: A:0.50, C:0.18, G:0.00, T:0.32
Consensus pattern (25 bp):
AACTTACATAATACATAACTTACAT
Found at i:10508297 original size:74 final size:74
Alignment explanation
Indices: 10508209--10508658 Score: 271
Period size: 74 Copynumber: 5.7 Consensus size: 74
10508199 CATAACTTAC
* * * *
10508209 ATAATACATAACTTACATAACCTACTTAATACATAACTTGCATAACTTACATAATACACAACTTA
1 ATAATACACAACTTACATAACCTACATAATACACAACTTACATAACTTACATAATACACAACTTA
10508274 CATGTGTAA
66 CATGTGTAA
* *
10508283 ATAATACACAACTTACATAACTTACATAATACACAACTTACATAACTTACATAATACATAACTTA
1 ATAATACACAACTTACATAACCTACATAATACACAACTTACATAACTTACATAATACACAACTTA
* *
10508348 CATAACCTACTTAATA
66 CAT---GT--GT-A-A
* * * ** *
10508364 CATAACTTGCATAACTTACATAACTTACATAATACACAACTT--ATATGTGTAAATAATACACAA
1 -ATAA--TACACAACTTACATAACCTACATAATACACAACTTACATAACT-TACATAATACACAA
* *
10508427 CTTACATAACT-TAC
62 CTTACAT--GTGTAA
* * * * **
10508441 ATACCCTACATAAATTAAATAAGTTACATAATACACAAAAACAAAAACTTACATAACTTACATAA
1 ATA--ATACACAACTTACATAACCTACATAAT--AC----AC---AACTTACATAACTTACATAA
* *
10508506 TACACAACTTACATAACT-TAT
55 TACACAACTTACAT--GTGTAA
* * * * * *
10508527 ATAATACACAACTTACATAACTTACATAATACATAATTTACATAACTTACAAAAGACATAACTTA
1 ATAATACACAACTTACATAACCTACATAATACACAACTTACATAACTTACATAATACACAACTTA
**
10508592 CATAAGT-TTC
66 CAT--GTGTAA
* * * *
10508602 ATAATACACAACTTACACAACTTACACAACTTACATAACTTACATAACTTACATAAT
1 ATAATACACAACTTACATAACCTACATAA--TACACAACTTACATAACTTACATAAT
10508659 GTATAACTTA
Statistics
Matches: 307, Mismatches: 43, Indels: 49
0.77 0.11 0.12
Matches are distributed among these distances:
74 62 0.20
75 61 0.20
76 25 0.08
77 24 0.08
78 4 0.01
79 2 0.01
80 1 0.00
81 1 0.00
82 15 0.05
83 19 0.06
84 55 0.18
85 5 0.02
86 29 0.09
87 4 0.01
ACGTcount: A:0.48, C:0.21, G:0.02, T:0.30
Consensus pattern (74 bp):
ATAATACACAACTTACATAACCTACATAATACACAACTTACATAACTTACATAATACACAACTTA
CATGTGTAA
Found at i:10508317 original size:25 final size:25
Alignment explanation
Indices: 10508296--10508657 Score: 132
Period size: 25 Copynumber: 14.3 Consensus size: 25
10508286 ATACACAACT
*
10508296 TACATAACTTACATAA--TACACAA
1 TACATAACTTACATAACTTACATAA
10508319 CTTACATAACTTACATAA--TACATAA
1 --TACATAACTTACATAACTTACATAA
* *
10508344 CTTACATAACCTACTTAA--TACATAA
1 --TACATAACTTACATAACTTACATAA
*
10508369 CTTGCATAACTTACATAACTTACATAA
1 --TACATAACTTACATAACTTACATAA
* ** *
10508396 TACACAACTT--ATATGTGTAAATAA
1 TACATAACTTACATAACT-TACATAA
* *
10508420 TACACAACTTACATAACTTACATACCC
1 TACATAACTTACATAACTTACATA--A
* * *
10508447 TACATAAATTAAATAAGTTACATAA
1 TACATAACTTACATAACTTACATAA
* ** *
10508472 TACACAA-AAACAAAAACTTACATAA
1 TACATAACTTAC-ATAACTTACATAA
*
10508497 CTTACATAA--TACACAACTTACATAA
1 --TACATAACTTACATAACTTACATAA
* *
10508522 CTTATATAA--TACACAACTTACATAA
1 --TACATAACTTACATAACTTACATAA
*
10508547 CTTACATAA--TACATAATTTACATAA
1 --TACATAACTTACATAACTTACATAA
**
10508572 CTTACA-AA-AGACATAACTTACATAA
1 --TACATAACTTACATAACTTACATAA
* * *
10508597 GTTTCATAA--TACACAACTTACACAA
1 --TACATAACTTACATAACTTACATAA
*
10508622 CTTACACAACTTACATAACTTACATAA
1 --TACATAACTTACATAACTTACATAA
10508649 CTTACATAA
1 --TACATAA
10508658 TGTATAACTT
Statistics
Matches: 277, Mismatches: 46, Indels: 26
0.79 0.13 0.07
Matches are distributed among these distances:
23 4 0.01
24 19 0.07
25 191 0.69
26 8 0.03
27 55 0.20
ACGTcount: A:0.48, C:0.21, G:0.02, T:0.29
Consensus pattern (25 bp):
TACATAACTTACATAACTTACATAA
Found at i:10508524 original size:34 final size:35
Alignment explanation
Indices: 10508197--10508657 Score: 306
Period size: 34 Copynumber: 13.5 Consensus size: 35
10508187 AACAAAAACT
10508197 TACATAACTTACATAA--TACATAACTTACATAACC
1 TACATAACTTACATAACTTACATAACTTACATAA-C
* *
10508231 TACTTAA--TACATAACTTGCATAACTTACATAA-
1 TACATAACTTACATAACTTACATAACTTACATAAC
* * * *
10508263 TACACAACTTACAT--GTGTAAATAA--TACACAAC
1 TACATAACTTACATAACT-TACATAACTTACATAAC
*
10508295 TTACATAACTTACATAA--TACACAACTTACATAAC
1 -TACATAACTTACATAACTTACATAACTTACATAAC
* *
10508329 TTACATAA--TACATAACTTACATAACCTACTTAA-
1 -TACATAACTTACATAACTTACATAACTTACATAAC
*
10508362 TACATAACTTGCATAACTTACATAACTTACATAA-
1 TACATAACTTACATAACTTACATAACTTACATAAC
* * * *
10508396 TACACAACTTATATGTGTAAATAATACACAACTTACATAAC
1 TACATAACTTACA----TAACT--TACATAACTTACATAAC
* * * * *
10508437 TTACATACCCTACATAAATTAAATAAGTTACATAA-
1 -TACATAACTTACATAACTTACATAACTTACATAAC
* ** *
10508472 TACACAA-AAACAAAAACTTACATAACTTACATAA-
1 TACATAACTTAC-ATAACTTACATAACTTACATAAC
* * *
10508506 TACACAACTTACATAACTTATATAA--TACACAAC
1 TACATAACTTACATAACTTACATAACTTACATAAC
*
10508539 TTACATAACTTACATAA--TACATAATTTACATAAC
1 -TACATAACTTACATAACTTACATAACTTACATAAC
** * *
10508573 TTACA-AA-AGACATAACTTACATAAGTTTCATAA-
1 -TACATAACTTACATAACTTACATAACTTACATAAC
* * *
10508606 TACACAACTTACACAACTTACACAACTTACATAAC
1 TACATAACTTACATAACTTACATAACTTACATAAC
10508641 TTACATAACTTACATAA
1 -TACATAACTTACATAA
10508658 TGTATAACTT
Statistics
Matches: 334, Mismatches: 58, Indels: 68
0.73 0.13 0.15
Matches are distributed among these distances:
31 6 0.02
32 54 0.16
33 24 0.07
34 188 0.56
35 2 0.01
36 27 0.08
38 9 0.03
40 15 0.04
42 9 0.03
ACGTcount: A:0.48, C:0.21, G:0.02, T:0.30
Consensus pattern (35 bp):
TACATAACTTACATAACTTACATAACTTACATAAC
Found at i:10514151 original size:21 final size:21
Alignment explanation
Indices: 10514125--10514189 Score: 85
Period size: 21 Copynumber: 3.1 Consensus size: 21
10514115 CAACTTAAAA
* * *
10514125 CAGAGGCGGCAGCGAGGGAAG
1 CAGAGGCCGTAGCGAGAGAAG
* *
10514146 CAGAGGCTGTAGTGAGAGAAG
1 CAGAGGCCGTAGCGAGAGAAG
10514167 CAGAGGCCGTAGCGAGAGAAG
1 CAGAGGCCGTAGCGAGAGAAG
10514188 CA
1 CA
10514190 ACGAGAGAAG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.32, C:0.17, G:0.45, T:0.06
Consensus pattern (21 bp):
CAGAGGCCGTAGCGAGAGAAG
Found at i:10514813 original size:72 final size:70
Alignment explanation
Indices: 10514650--10514820 Score: 168
Period size: 72 Copynumber: 2.4 Consensus size: 70
10514640 CGTTTTACTG
* *
10514650 AAAGCGCCGC--AAAAACCAAAGACAAACGACACCGTTTCTGAGTTTTTGGGGATTTAGCGACGT
1 AAAGCGCCGCTAAAAAACCTAAGACAAACGACACCGTTTCCGAGTTTTTGGGGATTTAGCGACGT
10514713 TTTTA
66 TTTTA
* **** *** *
10514718 ATCAAGCGCCACTAATTTTCCTAAGACAAACGGTGCCGTTTCCGTAGTTTTT-GGGATTTAGCGG
1 A--AAGCGCCGCTAAAAAACCTAAGACAAACGACACCGTTTCCG-AGTTTTTGGGGATTTAGCGA
10514782 CGTTTTTGGA
63 CGTTTTT--A
*
10514792 AAAGCGCCGCTAAAAAACCTAAGCCAAAC
1 AAAGCGCCGCTAAAAAACCTAAGACAAAC
10514821 TGTGTCATTT
Statistics
Matches: 79, Mismatches: 17, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
68 1 0.01
70 8 0.10
72 61 0.77
73 7 0.09
74 2 0.03
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (70 bp):
AAAGCGCCGCTAAAAAACCTAAGACAAACGACACCGTTTCCGAGTTTTTGGGGATTTAGCGACGT
TTTTA
Found at i:10515593 original size:27 final size:27
Alignment explanation
Indices: 10515557--10515608 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
10515547 GGGTTTAAAA
*
10515557 TTTAAGATTTAAT-ATCTACTGTTTAGG
1 TTTAAGATTT-ATGATATACTGTTTAGG
*
10515584 TTTAGGATTTATGATATACTGTTTA
1 TTTAAGATTTATGATATACTGTTTA
10515609 TTAATTTGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 2 0.09
27 20 0.91
ACGTcount: A:0.29, C:0.06, G:0.15, T:0.50
Consensus pattern (27 bp):
TTTAAGATTTATGATATACTGTTTAGG
Found at i:10516462 original size:115 final size:114
Alignment explanation
Indices: 10516333--10516572 Score: 381
Period size: 115 Copynumber: 2.1 Consensus size: 114
10516323 GGCGCTTCAG
* ** * *
10516333 AAAAAACGCCGCTAAAGGTCATATATTACCGGCGTTTTGTGAAGAAACGCCGCAAATTTCCTTTA
1 AAAAAACGCCGCTAAAAGTCATATATTACCGGCGTTTTACGAAGAAACGCCACAAATTGCCTTTA
* *
10516398 ACTGTGACAAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTT
66 ACTGTGACAAAGACGGTGCCATTTTGTTGTCTTCTTTTAGTGGCGCA-TT
* *
10516448 AAAAAACGCCGCTAAAAGTGATATATTACCGGCGTTTTACGAAGAATCGCCACAAATTGCCTTTA
1 AAAAAACGCCGCTAAAAGTCATATATTACCGGCGTTTTACGAAGAAACGCCACAAATTGCCTTTA
10516513 ACTGTGACAAAGACGGTGCCATTTTGTTGTCTTCTTTTAGTGGCGCATT
66 ACTGTGACAAAGACGGTGCCATTTTGTTGTCTTCTTTTAGTGGCGCATT
10516562 ATAAAAACGCC
1 A-AAAAACGCC
10516573 ACAAATTCGC
Statistics
Matches: 115, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
114 3 0.03
115 112 0.97
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (114 bp):
AAAAAACGCCGCTAAAAGTCATATATTACCGGCGTTTTACGAAGAAACGCCACAAATTGCCTTTA
ACTGTGACAAAGACGGTGCCATTTTGTTGTCTTCTTTTAGTGGCGCATT
Found at i:10516942 original size:261 final size:261
Alignment explanation
Indices: 10516410--10517227 Score: 1239
Period size: 261 Copynumber: 3.1 Consensus size: 261
10516400 TGTGACAAAG
** * * * *
10516410 ACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTTAAAAAACGCCGCTAAAA-GTGATATAT
1 ACGGTGCCGTTTTGTCCTTGT-TATTAGTGGCGCATTTGAAAATCGCCG-TAAAAGGTGATATAT
* * * * *
10516474 TACCGGCGTTTTACGAAGAATCGCCACAAATTGCCTTTAACTGTGACAAAGACGGTGCCATTTTG
64 TACCGGCGTTTTACGAAGAAACGCCACAAATTTCCTTTAACTGTAACGAAGACGGTGCCGTTTTG
* * * *
10516539 TTGTCTTCTTTTAGTGGCGCATTATAAAAACGCCACAAAT-TCGCAAATCACGAGCTGAGGAAAC
129 TTGTTTTCTTTTAGTGGCGCATTATAAAAACGCCACAAATATTG---TTTACGAGCTGAGGAAAC
*
10516603 GGCGTCGTTTCCTATTTTTATTAGTGGCGCTTTAGCTAAAGCGCCGCAACAATGTTTAATGTTAT
191 GGCGTCGTTTCCTATTTTTATTAGTGGCGCTTTAGCTAAAGCGCCGCAAAAATGTTTAATGTTAT
10516668 CTTATA
256 CTTATA
* * *
10516674 ACGGTGCCGTTTTGTCCTTGTTATTAGCGGCGCAGTTGAAAATCACCGTAAAAGGTGATATATTA
1 ACGGTGCCGTTTTGTCCTTGTTATTAGTGGCGCATTTGAAAATCGCCGTAAAAGGTGATATATTA
* * *
10516739 CCGGCGTTTTACGAAGAAACGCCAGAAATTTCCTTTAACTGTAATGAAGATGGTGCCGTTTTGTT
66 CCGGCGTTTTACGAAGAAACGCCACAAATTTCCTTTAACTGTAACGAAGACGGTGCCGTTTTGTT
* *
10516804 GTTTTCTTTTAGTGGCGCATTTTAAAAACGCCACAAATATTGTTTACGAGTTGAGGAAACGGCGT
131 GTTTTCTTTTAGTGGCGCATTATAAAAACGCCACAAATATTGTTTACGAGCTGAGGAAACGGCGT
*
10516869 CGTTTCCTATTTTTATTAGTGGCGCTTTAGCTAAAGCGCCACAAAAATGTTTAATGTTATCTTAT
196 CGTTTCCTATTTTTATTAGTGGCGCTTTAGCTAAAGCGCCGCAAAAATGTTTAATGTTATCTTAT
10516934 A
261 A
*
10516935 ACGGTGCCGTTTTGTCCTTGATATTAGTGGCGCATTTGAAAATCGCCGTAAAAGGTGATATATTA
1 ACGGTGCCGTTTTGTCCTTGTTATTAGTGGCGCATTTGAAAATCGCCGTAAAAGGTGATATATTA
10517000 CCGGCGTTTTACGAAGAAACGCCACAAATTTCCTTTAACTGTAACGAAGACGGTGCCGTTTTGTT
66 CCGGCGTTTTACGAAGAAACGCCACAAATTTCCTTTAACTGTAACGAAGACGGTGCCGTTTTGTT
**
10517065 GTTTTCTTTTAGTGGCGCATTATAAAAACGCCACAAATATT-TATTAATAGCTGAGGAAACGGCG
131 GTTTTCTTTTAGTGGCGCATTATAAAAACGCCACAAATATTGT-TTACGAGCTGAGGAAACGGCG
* * *
10517129 CCGTTTCCTATTTTTATTAGTGGCGCTTCAGCTAAAGCGCTGCAAAAATGTTTAATGTTATCTTA
195 TCGTTTCCTATTTTTATTAGTGGCGCTTTAGCTAAAGCGCCGCAAAAATGTTTAATGTTATCTTA
*
10517194 TG
260 TA
* *
10517196 ACGATGCTGTTTTGT-CTGTGTTATTAGTGGCG
1 ACGGTGCCGTTTTGTCCT-TGTTATTAGTGGCG
10517228 TTTTTACTCT
Statistics
Matches: 506, Mismatches: 44, Indels: 11
0.90 0.08 0.02
Matches are distributed among these distances:
260 3 0.01
261 353 0.70
262 5 0.01
263 125 0.25
264 20 0.04
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.34
Consensus pattern (261 bp):
ACGGTGCCGTTTTGTCCTTGTTATTAGTGGCGCATTTGAAAATCGCCGTAAAAGGTGATATATTA
CCGGCGTTTTACGAAGAAACGCCACAAATTTCCTTTAACTGTAACGAAGACGGTGCCGTTTTGTT
GTTTTCTTTTAGTGGCGCATTATAAAAACGCCACAAATATTGTTTACGAGCTGAGGAAACGGCGT
CGTTTCCTATTTTTATTAGTGGCGCTTTAGCTAAAGCGCCGCAAAAATGTTTAATGTTATCTTAT
A
Found at i:10517723 original size:21 final size:21
Alignment explanation
Indices: 10517699--10517738 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
10517689 TAAGCTATGT
10517699 ATCCGTAAAAAATGATTTTCC
1 ATCCGTAAAAAATGATTTTCC
*
10517720 ATCCGTAAAAATTGATTTT
1 ATCCGTAAAAAATGATTTT
10517739 GCATTTAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.38
Consensus pattern (21 bp):
ATCCGTAAAAAATGATTTTCC
Found at i:10517757 original size:34 final size:34
Alignment explanation
Indices: 10517712--10517789 Score: 138
Period size: 34 Copynumber: 2.3 Consensus size: 34
10517702 CGTAAAAAAT
* *
10517712 GATTTTCCATCCGTAAAAATTGATTTTGCATTTA
1 GATTTTGCATCCATAAAAATTGATTTTGCATTTA
10517746 GATTTTGCATCCATAAAAATTGATTTTGCATTTA
1 GATTTTGCATCCATAAAAATTGATTTTGCATTTA
10517780 GATTTTGCAT
1 GATTTTGCAT
10517790 GCTGGAAGAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.45
Consensus pattern (34 bp):
GATTTTGCATCCATAAAAATTGATTTTGCATTTA
Found at i:10519297 original size:12 final size:12
Alignment explanation
Indices: 10519280--10519305 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
10519270 ATTAATTTTA
10519280 TTTACCTTAAAT
1 TTTACCTTAAAT
10519292 TTTACCTTAAAT
1 TTTACCTTAAAT
10519304 TT
1 TT
10519306 ATATAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.15, G:0.00, T:0.54
Consensus pattern (12 bp):
TTTACCTTAAAT
Found at i:10519377 original size:77 final size:77
Alignment explanation
Indices: 10519292--10519633 Score: 483
Period size: 76 Copynumber: 4.3 Consensus size: 77
10519282 TACCTTAAAT
*
10519292 TTTACCTTAAATTTATATAATTTATATAATTTTATTAATTTTATTTACATTGAATTAATATTCCG
1 TTTACCTTAAATTTATATAATTTATATAATTTTATTAATTTTATTTACCTTGAATTAATATTCCG
10519357 ATATTAATTTTATTTACCTTAAA
66 ATATT-A----A-TT---TT--A
*
10519380 TTTACCTTAAATTTATATAATTTATATAATTTTATTAATTTTATTTACCTTGAATTTATATTCCG
1 TTTACCTTAAATTTATATAATTTATATAATTTTATTAATTTTATTTACCTTGAATTAATATTCCG
10519445 ATATTAATTTTA
66 ATATTAATTTTA
* *
10519457 TTTACCTTAAA-TTATATAATTTATATAATTTTATTAATGTTATTTACCTTGAATTAATATTCTG
1 TTTACCTTAAATTTATATAATTTATATAATTTTATTAATTTTATTTACCTTGAATTAATATTCCG
10519521 ATATTAATTTTA
66 ATATTAATTTTA
* * *
10519533 TTTACTTTAAATTTATATAATTTATATAA-TTAATAAAATTTTATTTACCTTGAATTAATATTCC
1 TTTACCTTAAATTTATATAATTTATATAATTTTAT-TAATTTTATTTACCTTGAATTAATATTCC
10519597 GATATTAATTTTA
65 GATATTAATTTTA
*
10519610 TTTACCTTGAA-TTATATAATTTAT
1 TTTACCTTAAATTTATATAATTTAT
10519634 TTACCTTAAA
Statistics
Matches: 240, Mismatches: 12, Indels: 16
0.90 0.04 0.06
Matches are distributed among these distances:
76 89 0.37
77 77 0.32
79 2 0.01
82 2 0.01
83 1 0.00
87 1 0.00
88 68 0.28
ACGTcount: A:0.36, C:0.07, G:0.03, T:0.54
Consensus pattern (77 bp):
TTTACCTTAAATTTATATAATTTATATAATTTTATTAATTTTATTTACCTTGAATTAATATTCCG
ATATTAATTTTA
Found at i:10519384 original size:11 final size:11
Alignment explanation
Indices: 10519368--10519394 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
10519358 TATTAATTTT
10519368 ATTTACCTTAA
1 ATTTACCTTAA
10519379 ATTTACCTTAA
1 ATTTACCTTAA
10519390 ATTTA
1 ATTTA
10519395 TATAATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.15, G:0.00, T:0.48
Consensus pattern (11 bp):
ATTTACCTTAA
Found at i:10519437 original size:34 final size:34
Alignment explanation
Indices: 10519398--10519631 Score: 128
Period size: 34 Copynumber: 6.4 Consensus size: 34
10519388 AAATTTATAT
10519398 AATTTATATAATTTTATTAATTTTATTTACCTTG
1 AATTTATATAATTTTATTAATTTTATTTACCTTG
***** *
10519432 AATTTATATTCCGATATTAATTTTATTTACCTTAAATTATAT
1 AATTTATATAATTTTATTAATTTTATTTACC------T-T-G
*
10519474 AATTTATATAATTTTATTAATGTTATTTACCTTG
1 AATTTATATAATTTTATTAATTTTATTTACCTTG
* ** ** * *
10519508 AATTAATATTCTGATATTAATTTTATTTACTTTA
1 AATTTATATAATTTTATTAATTTTATTTACCTTG
10519542 AATTTATATAATTTATATAATTAATAAAATTTTATTTACCTTG
1 AATTTATATAA-TT-T-T-A-T--T--AATTTTATTTACCTTG
* *****
10519585 AATTAATATTCCGATATTAATTTTATTTACCTTG
1 AATTTATATAATTTTATTAATTTTATTTACCTTG
10519619 AA-TTATATAATTT
1 AATTTATATAATTT
10519632 ATTTACCTTA
Statistics
Matches: 143, Mismatches: 40, Indels: 35
0.66 0.18 0.16
Matches are distributed among these distances:
33 5 0.03
34 78 0.55
35 2 0.01
36 2 0.01
37 1 0.01
38 2 0.01
39 2 0.01
40 2 0.01
41 2 0.01
42 25 0.17
43 22 0.15
ACGTcount: A:0.36, C:0.07, G:0.03, T:0.54
Consensus pattern (34 bp):
AATTTATATAATTTTATTAATTTTATTTACCTTG
Found at i:10519631 original size:24 final size:25
Alignment explanation
Indices: 10519598--10519656 Score: 86
Period size: 23 Copynumber: 2.4 Consensus size: 25
10519588 TAATATTCCG
*
10519598 ATATTAATTTTATTTACCTTGAATT
1 ATATTAATTTTATTTACCTTAAATT
10519623 ATA-TAA-TTTATTTACCTTAAATT
1 ATATTAATTTTATTTACCTTAAATT
*
10519646 TTATTAATTTT
1 ATATTAATTTT
10519657 TTAAATTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 18 0.60
24 6 0.20
25 6 0.20
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.58
Consensus pattern (25 bp):
ATATTAATTTTATTTACCTTAAATT
Found at i:10519876 original size:9 final size:9
Alignment explanation
Indices: 10519862--10519987 Score: 162
Period size: 9 Copynumber: 14.0 Consensus size: 9
10519852 AATTAAATAT
10519862 CTTACATAA
1 CTTACATAA
10519871 CTTACATAA
1 CTTACATAA
* * *
10519880 ATTAAATAT
1 CTTACATAA
10519889 CTTACATAA
1 CTTACATAA
10519898 CTTACATAA
1 CTTACATAA
* *
10519907 ATTAAATAA
1 CTTACATAA
10519916 CTTACATAA
1 CTTACATAA
10519925 CTTACATAA
1 CTTACATAA
* *
10519934 CTTAAATAT
1 CTTACATAA
10519943 CTTACATAA
1 CTTACATAA
10519952 CTTACATAA
1 CTTACATAA
* * *
10519961 ATTAAATAT
1 CTTACATAA
10519970 CTTACATAA
1 CTTACATAA
10519979 CTTACATAA
1 CTTACATAA
10519988 ATTAAGTAAA
Statistics
Matches: 97, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 97 1.00
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.36
Consensus pattern (9 bp):
CTTACATAA
Found at i:10520008 original size:27 final size:27
Alignment explanation
Indices: 10519850--10519992 Score: 268
Period size: 27 Copynumber: 5.3 Consensus size: 27
10519840 TTATGACATT
10519850 TAAATTAAATATCTTACATAACTTACA
1 TAAATTAAATATCTTACATAACTTACA
10519877 TAAATTAAATATCTTACATAACTTACA
1 TAAATTAAATATCTTACATAACTTACA
*
10519904 TAAATTAAATAACTTACATAACTTACA
1 TAAATTAAATATCTTACATAACTTACA
*
10519931 TAACTTAAATATCTTACATAACTTACA
1 TAAATTAAATATCTTACATAACTTACA
10519958 TAAATTAAATATCTTACATAACTTACA
1 TAAATTAAATATCTTACATAACTTACA
10519985 TAAATTAA
1 TAAATTAA
10519993 GTAAATTAAA
Statistics
Matches: 112, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 112 1.00
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (27 bp):
TAAATTAAATATCTTACATAACTTACA
Found at i:10525537 original size:21 final size:21
Alignment explanation
Indices: 10525497--10525582 Score: 100
Period size: 21 Copynumber: 4.1 Consensus size: 21
10525487 AACTTAAAGT
* *
10525497 AGAGGCGGCAGCGAGGGAAGC
1 AGAGGCTGCAGCGAGAGAAGC
* * *
10525518 AGCGGCTACAACGAGAGAAGC
1 AGAGGCTGCAGCGAGAGAAGC
* *
10525539 AGAGGCCGCAGCGAGAGAAAC
1 AGAGGCTGCAGCGAGAGAAGC
*
10525560 AAAGGCTGCAGCGAGAGAAGC
1 AGAGGCTGCAGCGAGAGAAGC
10525581 AG
1 AG
10525583 CGAGAGAAAG
Statistics
Matches: 51, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 51 1.00
ACGTcount: A:0.36, C:0.21, G:0.41, T:0.02
Consensus pattern (21 bp):
AGAGGCTGCAGCGAGAGAAGC
Found at i:10525595 original size:13 final size:12
Alignment explanation
Indices: 10525567--10525607 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
10525557 AACAAAGGCT
10525567 GCAGCGAGAGAA
1 GCAGCGAGAGAA
10525579 GCAGCGAGAGAAA
1 GCAGCGAGAG-AA
* *
10525592 GCAGCAATAGAA
1 GCAGCGAGAGAA
10525604 GCAG
1 GCAG
10525608 AGGTTCAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 16 0.62
13 10 0.38
ACGTcount: A:0.44, C:0.17, G:0.37, T:0.02
Consensus pattern (12 bp):
GCAGCGAGAGAA
Found at i:10526170 original size:42 final size:42
Alignment explanation
Indices: 10526031--10526406 Score: 422
Period size: 42 Copynumber: 8.9 Consensus size: 42
10526021 TTTGTGAAAT
* *
10526031 AAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGTGTTTTTT-AA
1 AAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTTTCCA
* * * * *
10526072 TAAGCGCCACTATAGAACATTA-CTTTTAGAGGCGCTTTCTTCCA
1 -AAGCGCCGCTAAAGAACATGATC-TTTAGCGGCG-TTTTTTCCA
* *
10526116 TAGCGTCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCA
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCA
* * *
10526158 AAGCGCCGCTAAAGAACATGATCTTTAACGACGTTTTTTACAA
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT-CCA
*** *
10526201 AAATACCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCA
* *
10526243 AAGCGCCGCTAAAGAACATGATCTTTAGCAGCGTTTTTT-TA
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCA
* *
10526284 TAAGCGCCGCTAAAGAACATGATCTTTAGGGGCGTTTCTTT-CT
1 -AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT-TTTCCA
* * *
10526327 AAGCGCCGCTAAAGAGCATGATCTTTAGCGGCGTTTTTTTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCA
*
10526369 AAGCACCGCTAAAGAACATGATCTTTAGCGGCGTTTTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT
10526407 GTATGTAAGC
Statistics
Matches: 287, Mismatches: 39, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
41 4 0.01
42 212 0.74
43 69 0.24
44 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCA
Found at i:10526310 original size:84 final size:84
Alignment explanation
Indices: 10526029--10526406 Score: 439
Period size: 85 Copynumber: 4.5 Consensus size: 84
10526019 CGTTTGTGAA
* ** * *
10526029 ATAAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGTGTTTTTTAATAAGCGCCACTATAGAACAT
1 ATAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTTTCCTAAGCGCCGCTAAAGAACAT
* *
10526092 TA-CTTTTAG-AGGCGCTTTCTTCC
64 GATC-TTTAGCA-GCG-TTT-TTTC
* *
10526115 AT-AGCGTCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCAAAGCGCCGCTAAAGAACATGA
1 ATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCTAAGCGCCGCTAAAGAACATGA
*
10526179 TCTTTAAC-GACGTTTTTTAC
66 TCTTTAGCAG-CGTTTTTT-C
* ***
10526199 AAAAATACCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCTAAGCGCCGCTAAAGAACATGA
1 ATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCTAAGCGCCGCTAAAGAACATGA
*
10526264 TCTTTAGCAGCGTTTTTTT
66 TCTTTAGCAGCGTTTTTTC
* *
10526283 ATAAGCGCCGCTAAAGAACATGATCTTTAGGGGCGTTTCTTT-CTAAGCGCCGCTAAAGAGCATG
1 ATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT-TTTCCTAAGCGCCGCTAAAGAACATG
*
10526347 ATCTTTAGCGGCGTTTTTTTC
65 ATCTTTAGCAGCG-TTTTTTC
*
10526368 -TAAGCACCGCTAAAGAACATGATCTTTAGCGGCGTTTTT
1 ATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT
10526407 GTATGTAAGC
Statistics
Matches: 254, Mismatches: 28, Indels: 23
0.83 0.09 0.08
Matches are distributed among these distances:
83 4 0.02
84 108 0.43
85 137 0.54
86 5 0.02
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.32
Consensus pattern (84 bp):
ATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCTAAGCGCCGCTAAAGAACATGA
TCTTTAGCAGCGTTTTTTC
Found at i:10526813 original size:85 final size:84
Alignment explanation
Indices: 10526724--10526971 Score: 277
Period size: 85 Copynumber: 2.9 Consensus size: 84
10526714 AGATGACGCA
* * *
10526724 CCGCTAAAGAACATTACTTTTAGCGGCGTTTTTCACCAAGCGCCACTATAGAACATTACTTTTAG
1 CCGCTAAAGAACATTACTTTTAGCGGCGTTTTTC-CCAAGCGCCGCTAAAGAACATGACTTTTAG
10526789 CGGCATTTTTTTCCTAAACG
65 CGGCATTTTTTTCCTAAACG
* * *
10526809 CCGCTAAAGATCATGTTC-TTTAGCGGCGTTTTTTCCCAAGCGCCGCTAAAGAACATGA-TCATT
1 CCGCTAAAGAACAT-TACTTTTAGCGGCG-TTTTTCCCAAGCGCCGCTAAAGAACATGACT-TTT
* *
10526872 AGCGGCGTTTTTTTCCTAAGCG
63 AGCGGCATTTTTTTCCTAAACG
* * * * * * *
10526894 CTGCTAAAGAACATGA-TCATTAGCTGCGTTTTTTTCCTAAGTGCCGCTAAAGAACATGACCTTT
1 CCGCTAAAGAACATTACT-TTTAGCGGCG--TTTTTCCCAAGCGCCGCTAAAGAACATGACTTTT
10526958 AGCGGCATTTTTTT
63 AGCGGCATTTTTTT
10526972 TCTGTAAGCG
Statistics
Matches: 137, Mismatches: 19, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
84 1 0.01
85 85 0.62
86 51 0.37
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.33
Consensus pattern (84 bp):
CCGCTAAAGAACATTACTTTTAGCGGCGTTTTTCCCAAGCGCCGCTAAAGAACATGACTTTTAGC
GGCATTTTTTTCCTAAACG
Found at i:10526832 original size:43 final size:43
Alignment explanation
Indices: 10526724--10526990 Score: 272
Period size: 43 Copynumber: 6.2 Consensus size: 43
10526714 AGATGACGCA
* * **
10526724 CCGCTAAAGAACATTA-CTTTTAGCGGCGTTTTTCACC-AAGCG
1 CCGCTAAAGAACATGATC-TTTAGCGGCATTTTTTTCCTAAGCG
* * * *
10526766 CCACTATAGAACATTA-CTTTTAGCGGCATTTTTTTCCTAAACG
1 CCGCTAAAGAACATGATC-TTTAGCGGCATTTTTTTCCTAAGCG
* * * *
10526809 CCGCTAAAGATCATGTTCTTTAGCGGC-GTTTTTTCCCAAGCG
1 CCGCTAAAGAACATGATCTTTAGCGGCATTTTTTTCCTAAGCG
* *
10526851 CCGCTAAAGAACATGATCATTAGCGGCGTTTTTTTCCTAAGCG
1 CCGCTAAAGAACATGATCTTTAGCGGCATTTTTTTCCTAAGCG
* * * * *
10526894 CTGCTAAAGAACATGATCATTAGCTGCGTTTTTTTCCTAAGTG
1 CCGCTAAAGAACATGATCTTTAGCGGCATTTTTTTCCTAAGCG
* *
10526937 CCGCTAAAGAACATGACCTTTAGCGGCATTTTTTTTCTGTAAGCG
1 CCGCTAAAGAACATGATCTTTAGCGGCA-TTTTTTTC-CTAAGCG
*
10526982 CCGCAAAAG
1 CCGCTAAAG
10526991 TTAGCGACGT
Statistics
Matches: 190, Mismatches: 30, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
42 68 0.36
43 100 0.53
44 9 0.05
45 13 0.07
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (43 bp):
CCGCTAAAGAACATGATCTTTAGCGGCATTTTTTTCCTAAGCG
Found at i:10531837 original size:24 final size:23
Alignment explanation
Indices: 10531796--10531845 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 23
10531786 CAAGAACACC
* *
10531796 TCAATTCGCCTTTCATTTTTTAA
1 TCAATTCCCCTTTAATTTTTTAA
10531819 TCAATTTCCCCTTTAATTTTTTAA
1 TCAA-TTCCCCTTTAATTTTTTAA
10531843 TCA
1 TCA
10531846 TTATAGTAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 4 0.17
24 20 0.83
ACGTcount: A:0.24, C:0.22, G:0.02, T:0.52
Consensus pattern (23 bp):
TCAATTCCCCTTTAATTTTTTAA
Found at i:10538440 original size:19 final size:19
Alignment explanation
Indices: 10538400--10538440 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
10538390 TTGAACTTGA
* *
10538400 AAATTGGACCTGAGATCGT
1 AAATTGGACCTGAGAGCCT
*
10538419 AAATTGGACCTGGGAGCCT
1 AAATTGGACCTGAGAGCCT
10538438 AAA
1 AAA
10538441 ACCAATACCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.34, C:0.17, G:0.27, T:0.22
Consensus pattern (19 bp):
AAATTGGACCTGAGAGCCT
Done.