Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167915.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_18, whole genome shotgun sequence
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: 20765110
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 90000 characters in sequence are not A, C, G, or T
File 36 of 117
Found at i:9050443 original size:19 final size:19
Alignment explanation
Indices: 9050419--9050466 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
9050409 GCTTAGCGTT
*
9050419 AGGGTTTGGTTTTAGGGTTT
1 AGGGTTTGG-TTTAGGGTTC
9050439 A-GGTTTAGGTTTAGGGTTC
1 AGGGTTT-GGTTTAGGGTTC
9050458 AGGGTTTGG
1 AGGGTTTGG
9050467 ATTTGAAGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.12, C:0.02, G:0.42, T:0.44
Consensus pattern (19 bp):
AGGGTTTGGTTTAGGGTTC
Found at i:9050451 original size:12 final size:13
Alignment explanation
Indices: 9050389--9050464 Score: 59
Period size: 13 Copynumber: 5.8 Consensus size: 13
9050379 TACGATTAAA
* *
9050389 GTTTAAGGTTTTG
1 GTTTAGGGTTTAG
* *
9050402 GATTAGGGCTTAG
1 GTTTAGGGTTTAG
9050415 CG-TTAGGGTTT-G
1 -GTTTAGGGTTTAG
9050427 GTTTTAGGGTTTAG
1 G-TTTAGGGTTTAG
9050441 GTTTA-GGTTTAGG
1 GTTTAGGGTTTA-G
*
9050454 GTTCAGGGTTT
1 GTTTAGGGTTT
9050465 GGATTTGAAG
Statistics
Matches: 51, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
11 1 0.02
12 7 0.14
13 35 0.69
14 8 0.16
ACGTcount: A:0.14, C:0.04, G:0.37, T:0.45
Consensus pattern (13 bp):
GTTTAGGGTTTAG
Found at i:9052531 original size:30 final size:30
Alignment explanation
Indices: 9052495--9052560 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
9052485 TTTTTGTCAA
* * *
9052495 GTTTGACTAATTGTGACTATATTTGACTTT
1 GTTTGACCAATTGTGACTAAATTTAACTTT
*
9052525 GTTTGACCAATTTTGACTAAATTTAACTTT
1 GTTTGACCAATTGTGACTAAATTTAACTTT
9052555 GTTTGA
1 GTTTGA
9052561 TGAAGTTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.26, C:0.11, G:0.15, T:0.48
Consensus pattern (30 bp):
GTTTGACCAATTGTGACTAAATTTAACTTT
Found at i:9052584 original size:30 final size:30
Alignment explanation
Indices: 9052517--9052584 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 30
9052507 GTGACTATAT
* * *
9052517 TTGACTTTGTTTGACCAATTTTGACTAAAT
1 TTGACTTTGTTTGACCAAGTTTAACTAAAG
* ** *
9052547 TTAACTTTGTTTGATGAAGTTTAACTAGAG
1 TTGACTTTGTTTGACCAAGTTTAACTAAAG
9052577 TTGACTTT
1 TTGACTTT
9052585 AGGGCATTTG
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.26, C:0.10, G:0.16, T:0.47
Consensus pattern (30 bp):
TTGACTTTGTTTGACCAAGTTTAACTAAAG
Found at i:9053218 original size:66 final size:64
Alignment explanation
Indices: 9053027--9053230 Score: 167
Period size: 66 Copynumber: 3.1 Consensus size: 64
9053017 TTAGGCATTA
* * * * * *
9053027 TGCCTGAAGAATTTTGAAATTATGCCTAAAGGAC-TTTGATATTGTGGTTAGAGGACTTTGGGAT
1 TGCCTAAAGGATTTTGAAATTATGCCTAGAGGACTTTTG-GATTGT-G-TCGAGGACTTTGAGAT
9053091 TG
63 TG
** ** * * * * * * *
9053093 TGTTTGGAGGACTTTGAAATTATGCTTGGAAGACTTTGGGATTATGTCCAGAGATCTTTGAGATT
1 TGCCTAAAGGATTTTGAAATTATGCCTAGAGGACTTTTGGATTGTGTCGAG-GA-CTTTGAGATT
9053158 G
64 G
* *
9053159 TGCCTAAAGGATTTTGAAGTTATGCCTAGAGGACTTTTGGATTGTGCTCGGAGGACTTTGAAATT
1 TGCCTAAAGGATTTTGAAATTATGCCTAGAGGACTTTTGGATTGTG-TC-GAGGACTTTGAGATT
9053224 G
64 G
9053225 TGCCTA
1 TGCCTA
9053231 GAAGACTTTG
Statistics
Matches: 105, Mismatches: 28, Indels: 10
0.73 0.20 0.07
Matches are distributed among these distances:
64 3 0.03
65 3 0.03
66 90 0.86
67 7 0.07
68 2 0.02
ACGTcount: A:0.25, C:0.11, G:0.28, T:0.36
Consensus pattern (64 bp):
TGCCTAAAGGATTTTGAAATTATGCCTAGAGGACTTTTGGATTGTGTCGAGGACTTTGAGATTG
Found at i:9053237 original size:22 final size:22
Alignment explanation
Indices: 9053039--9053245 Score: 84
Period size: 22 Copynumber: 9.4 Consensus size: 22
9053029 CCTGAAGAAT
*
9053039 TTTGAAATTATGCCTA-AAGGAC
1 TTTGAAATTGTGCCTAGAA-GAC
* ** *
9053061 TTTGATATTGTGGTTAGAGGAC
1 TTTGAAATTGTGCCTAGAAGAC
** ** * *
9053083 TTTGGGATTGTGTTTGGAGGAC
1 TTTGAAATTGTGCCTAGAAGAC
* * *
9053105 TTTGAAATTATGCTTGGAAGAC
1 TTTGAAATTGTGCCTAGAAGAC
** *
9053127 TTTGGGATTATGTCC-AG-AGATC
1 TTTGAAATTGTG-CCTAGAAGA-C
* *
9053149 TTTGAGATTGTGCCTA-AAGGAT
1 TTTGAAATTGTGCCTAGAA-GAC
* * *
9053171 TTTGAAGTTATGCCTAGAGGAC
1 TTTGAAATTGTGCCTAGAAGAC
* * *
9053193 TTTTG-GATTGTG-CTCGGAGGAC
1 -TTTGAAATTGTGCCT-AGAAGAC
9053215 TTTGAAATTGTGCCTAGAAGAC
1 TTTGAAATTGTGCCTAGAAGAC
9053237 TTTGGAAAT
1 TTT-GAAAT
9053246 CTTTCAGAAA
Statistics
Matches: 140, Mismatches: 33, Indels: 23
0.71 0.17 0.12
Matches are distributed among these distances:
21 11 0.08
22 113 0.81
23 16 0.11
ACGTcount: A:0.26, C:0.10, G:0.28, T:0.36
Consensus pattern (22 bp):
TTTGAAATTGTGCCTAGAAGAC
Found at i:9053283 original size:41 final size:41
Alignment explanation
Indices: 9053237--9053348 Score: 145
Period size: 41 Copynumber: 2.7 Consensus size: 41
9053227 CCTAGAAGAC
*
9053237 TTTGGAAATCTTTCAGAAATTTAAGATTTTGACTAAAAGTA
1 TTTGGAAATCTTTCAAAAATTTAAGATTTTGACTAAAAGTA
* * * * *
9053278 TTTGGAAATCTTTCAAAAAGTT-AGAATTTTGCCTGAATGTC
1 TTTGGAAATCTTTCAAAAATTTAAG-ATTTTGACTAAAAGTA
*
9053319 TTTAGAAATCTTTCAAAAATTTAAGATTTT
1 TTTGGAAATCTTTCAAAAATTTAAGATTTT
9053349 CCCCAAAAGT
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
40 2 0.03
41 57 0.93
42 2 0.03
ACGTcount: A:0.37, C:0.09, G:0.13, T:0.41
Consensus pattern (41 bp):
TTTGGAAATCTTTCAAAAATTTAAGATTTTGACTAAAAGTA
Found at i:9053387 original size:82 final size:82
Alignment explanation
Indices: 9053236--9053393 Score: 199
Period size: 82 Copynumber: 1.9 Consensus size: 82
9053226 GCCTAGAAGA
* * * * * **
9053236 CTTTGGAAATCTTTCAGAAATTTAAGATTTTGACTAAAAGTATTTGGAAATCTTTCAAAAAGTTA
1 CTTTAGAAATCTTTCAAAAATTTAAGATTTTCACCAAAAGTACTTGGAAAAATTTCAAAAAGTTA
9053301 GAATTTTGCCTGAATGT
66 GAATTTTGCCTGAATGT
* * ** * *
9053318 CTTTAGAAATCTTTCAAAAATTTAAGATTTTCCCCAAAAGTCCTTGGAAAAATTTTGAAAATTTT
1 CTTTAGAAATCTTTCAAAAATTTAAGATTTTCACCAAAAGTACTTGGAAAAATTTCAAAAAGTTA
9053383 GAATTTTGCCT
66 GAATTTTGCCT
9053394 AGAGGTTTTG
Statistics
Matches: 63, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
82 63 1.00
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.39
Consensus pattern (82 bp):
CTTTAGAAATCTTTCAAAAATTTAAGATTTTCACCAAAAGTACTTGGAAAAATTTCAAAAAGTTA
GAATTTTGCCTGAATGT
Found at i:9053470 original size:40 final size:40
Alignment explanation
Indices: 9053415--9053520 Score: 131
Period size: 40 Copynumber: 2.6 Consensus size: 40
9053405 AATTTAGTAA
* *
9053415 AAAAATTTAAGATTTTGCTTGGAGGTCCTAGAAATCATTT
1 AAAAATTTAAGATTTTGCTTGGAGGTCATAGAAATCATTC
* * * *
9053455 AAAAATTTAAGATTTTGCTCGAAAGTCATGGAAATCATTC
1 AAAAATTTAAGATTTTGCTTGGAGGTCATAGAAATCATTC
* * *
9053495 AAAAATCTAAGGTTTTACTTGGAGGT
1 AAAAATTTAAGATTTTGCTTGGAGGT
9053521 ATTTGCAAAA
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (40 bp):
AAAAATTTAAGATTTTGCTTGGAGGTCATAGAAATCATTC
Found at i:9053573 original size:41 final size:40
Alignment explanation
Indices: 9053528--9053721 Score: 182
Period size: 41 Copynumber: 4.8 Consensus size: 40
9053518 GGTATTTGCA
* *
9053528 AAAAATTTCAAG-TTTTGCCCCAAGGTCTTGAAAGTTCTTTT
1 AAAAATTT-AAGATTTTGCCCAAAGGTCTTGAAA-TTCTTTC
* * *
9053569 AAAAATTTAAGATTTTGCTCGAAGGTCTTGGAATTCTTTC
1 AAAAATTTAAGATTTTGCCCAAAGGTCTTGAAATTCTTTC
* * * *
9053609 AAAAATTGAAGGTTTGGCCCTAAA-GTTTTGGAAA--CTATTC
1 AAAAATTTAAGATTTTGCCC-AAAGGTCTT-GAAATTCT-TTC
9053649 AAAAATTTAAGATTTTGCCCAAAGGTCTTTG-AATTCTTTTC
1 AAAAATTTAAGATTTTGCCCAAAGGTC-TTGAAATTC-TTTC
* * *
9053690 AAAATTTTAAGAGTTTACCCAAAGGTCTTGAA
1 AAAAATTTAAGATTTTGCCCAAAGGTCTTGAA
9053722 GTTTTGTACT
Statistics
Matches: 125, Mismatches: 18, Indels: 20
0.77 0.11 0.12
Matches are distributed among these distances:
39 7 0.06
40 55 0.44
41 62 0.50
42 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (40 bp):
AAAAATTTAAGATTTTGCCCAAAGGTCTTGAAATTCTTTC
Found at i:9053640 original size:40 final size:41
Alignment explanation
Indices: 9053544--9053718 Score: 130
Period size: 40 Copynumber: 4.3 Consensus size: 41
9053534 TTCAAGTTTT
* * * * *
9053544 GCCCCAAGGTC-TTGAAAGTTCTTTTAAAAATTTAAGATTTT
1 GCCCAAAGGTCTTTGGAA-TTCTTTCAAAAATTGAAGATTTG
* * *
9053585 GCTCGAAGGTC-TTGGAATTCTTTCAAAAATTGAAGGTTTG
1 GCCCAAAGGTCTTTGGAATTCTTTCAAAAATTGAAGATTTG
* * *
9053625 GCCCTAAA-GT-TTTGGAA-ACTATTCAAAAATTTAAGATTTT
1 GCCC-AAAGGTCTTTGGAATTCT-TTCAAAAATTGAAGATTTG
* *
9053665 GCCCAAAGGTCTTT-GAATTCTTTTCAAAATTTTAAGAGTTT-
1 GCCCAAAGGTCTTTGGAATTC-TTTCAAAAATTGAAGA-TTTG
*
9053706 ACCCAAAGGTCTT
1 GCCCAAAGGTCTT
9053719 GAAGTTTTGT
Statistics
Matches: 110, Mismatches: 16, Indels: 16
0.77 0.11 0.11
Matches are distributed among these distances:
39 5 0.05
40 55 0.50
41 46 0.42
42 4 0.04
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (41 bp):
GCCCAAAGGTCTTTGGAATTCTTTCAAAAATTGAAGATTTG
Found at i:9054581 original size:23 final size:23
Alignment explanation
Indices: 9054558--9054603 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
9054548 AAACAAATTT
9054558 CTTTCTTTCTTCTTTT-TCTTTTTC
1 CTTTCTTT-TT-TTTTATCTTTTTC
*
9054582 CTTTGTTTTTTTTTATCTTTTT
1 CTTTCTTTTTTTTTATCTTTTT
9054604 TAACAACATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 4 0.20
23 9 0.45
24 7 0.35
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.78
Consensus pattern (23 bp):
CTTTCTTTTTTTTTATCTTTTTC
Found at i:9056676 original size:19 final size:18
Alignment explanation
Indices: 9056654--9056699 Score: 65
Period size: 19 Copynumber: 2.5 Consensus size: 18
9056644 TATTCTTTTC
9056654 TTTTCTTTTTTTTTTCTCT
1 TTTTCTTTTTTTTTTC-CT
*
9056673 TTTTCTCTTTTTTTTCCT
1 TTTTCTTTTTTTTTTCCT
*
9056691 TTTTGTTTT
1 TTTTCTTTT
9056700 CATTTTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 9 0.38
19 15 0.62
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (18 bp):
TTTTCTTTTTTTTTTCCT
Found at i:9056678 original size:29 final size:31
Alignment explanation
Indices: 9056621--9056700 Score: 85
Period size: 30 Copynumber: 2.6 Consensus size: 31
9056611 CAATCATTTA
*
9056621 TTTCTTTT-TCTTTTTTTTCTTCATATTCT-
1 TTTCTTTTCTTTTTTTTTTCTTCATATTCTC
* *
9056650 TTTCTTTTCTTTTTTTTTTC-TCTTTTTCTC
1 TTTCTTTTCTTTTTTTTTTCTTCATATTCTC
* *
9056680 TTTTTTTTCCTTTTTGTTTTC
1 TTTCTTTT-CTTTTTTTTTTC
9056701 ATTTTTTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
29 15 0.35
30 17 0.40
31 11 0.26
ACGTcount: A:0.03, C:0.17, G:0.01, T:0.79
Consensus pattern (31 bp):
TTTCTTTTCTTTTTTTTTTCTTCATATTCTC
Found at i:9056700 original size:47 final size:46
Alignment explanation
Indices: 9056623--9056711 Score: 108
Period size: 47 Copynumber: 1.9 Consensus size: 46
9056613 ATCATTTATT
* *
9056623 TCTTTTTCTTTTTTTTCTTCATATTCTTTTCTTTTCTTTTTTTTTTC
1 TCTTTTTCTTTTTTTTCTCCATATTCTTTTCATTT-TTTTTTTTTTC
* * *
9056670 TCTTTTTCTCTTTTTTT-TCCTTTTTGTTTTCATTTTTTTTTT
1 TCTTTTTCT-TTTTTTTCTCCATATTCTTTTCATTTTTTTTTT
9056712 GAGTGAATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
46 7 0.19
47 22 0.61
48 7 0.19
ACGTcount: A:0.03, C:0.16, G:0.01, T:0.80
Consensus pattern (46 bp):
TCTTTTTCTTTTTTTTCTCCATATTCTTTTCATTTTTTTTTTTTTC
Found at i:9056705 original size:29 final size:28
Alignment explanation
Indices: 9056625--9056711 Score: 88
Period size: 29 Copynumber: 3.1 Consensus size: 28
9056615 CATTTATTTC
*
9056625 TTTTT-CTTTTTTTTCTTCATATTCTTTT
1 TTTTTCCTTTTTTTT-TTCATTTTCTTTT
* * *
9056653 CTTTTCTTTTTTTTTTCTCTTTTTCTCTTT
1 TTTTTCCTTTTTTTTT-TCATTTTCT-TTT
*
9056683 TTTTTCCTTTTTGTTTTCATTTT-TTTT
1 TTTTTCCTTTTTTTTTTCATTTTCTTTT
9056710 TT
1 TT
9056712 GAGTGAATTT
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
27 5 0.10
28 6 0.12
29 21 0.44
30 16 0.33
ACGTcount: A:0.03, C:0.15, G:0.01, T:0.80
Consensus pattern (28 bp):
TTTTTCCTTTTTTTTTTCATTTTCTTTT
Found at i:9056709 original size:10 final size:9
Alignment explanation
Indices: 9056625--9056709 Score: 62
Period size: 9 Copynumber: 8.6 Consensus size: 9
9056615 CATTTATTTC
9056625 TTTTTCTTT
1 TTTTTCTTT
*
9056634 TTTTTCTTC
1 TTTTTCTTT
* *
9056643 ATATTCTTT
1 TTTTTCTTT
9056652 TCTTTTCTTTTT
1 T-TTTTC--TTT
9056664 TTTTTCTCTT
1 TTTTTCT-TT
*
9056674 TTTCTCTTT
1 TTTTTCTTT
9056683 TTTTTCCTTTT
1 TTTTT-C-TTT
9056694 TGTTTTCATTT
1 T-TTTTC-TTT
9056705 TTTTT
1 TTTTT
9056710 TTGAGTGAAT
Statistics
Matches: 60, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
9 21 0.35
10 17 0.28
11 14 0.23
12 8 0.13
ACGTcount: A:0.04, C:0.15, G:0.01, T:0.80
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:9057850 original size:9 final size:9
Alignment explanation
Indices: 9057828--9057862 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
9057818 AAGACTCCTC
*
9057828 TTTTTTTCT
1 TTTTTTTGT
9057837 ATTTTTTTGT
1 -TTTTTTTGT
9057847 TTTTTTTGT
1 TTTTTTTGT
9057856 TTTTTTT
1 TTTTTTT
9057863 TTCATTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 16 0.67
10 8 0.33
ACGTcount: A:0.03, C:0.03, G:0.06, T:0.89
Consensus pattern (9 bp):
TTTTTTTGT
Found at i:9057870 original size:10 final size:10
Alignment explanation
Indices: 9057828--9057873 Score: 51
Period size: 9 Copynumber: 4.7 Consensus size: 10
9057818 AAGACTCCTC
*
9057828 TTTTTTTCTA
1 TTTTTTTGTA
9057838 TTTTTTTGT-
1 TTTTTTTGTA
9057847 TTTTTTTGT-
1 TTTTTTTGTA
*
9057856 TTTTTTTTTCA
1 TTTTTTTGT-A
9057867 TTTTTTT
1 TTTTTTT
9057874 CAAGGCACTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
9 17 0.53
10 8 0.25
11 7 0.22
ACGTcount: A:0.04, C:0.04, G:0.04, T:0.87
Consensus pattern (10 bp):
TTTTTTTGTA
Found at i:9060934 original size:18 final size:18
Alignment explanation
Indices: 9060911--9060945 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
9060901 TATTTTTTTT
9060911 AATTA-GAACAAGAAAAAA
1 AATTAGGAAC-AGAAAAAA
9060929 AATTAGGAACAGAAAAA
1 AATTAGGAACAGAAAAA
9060946 GAATCACACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.69, C:0.06, G:0.14, T:0.11
Consensus pattern (18 bp):
AATTAGGAACAGAAAAAA
Found at i:9062790 original size:144 final size:144
Alignment explanation
Indices: 9062586--9062875 Score: 508
Period size: 144 Copynumber: 2.0 Consensus size: 144
9062576 CTGAGATAAT
* * *
9062586 ACCTCTCATATATAATAATCACTAAGAGTCCTCTTATAGTTAGGCAAGATCTCAATGACTATATT
1 ACCTCTCATAAATAATAATCACCAAGAGTCCTCCTATAGTTAGGCAAGATCTCAATGACTATATT
*
9062651 TACTTGAGATGTTTTCTTATTTTAAAATATTATACTTTTAAAAACTAATTTTGAAAATGCAAATG
66 TACTTGAGATGTTTTCTTATTTTAAAATATTATACTTTTAAAAACTAATTTTGAAAAAGCAAATG
9062716 CATGAGATGCATGA
131 CATGAGATGCATGA
* *
9062730 ACCTCTCATAAATAATAATCACCAAGAGTCCTCCTATGGTTAGGCAAGATCTCGATGACTATATT
1 ACCTCTCATAAATAATAATCACCAAGAGTCCTCCTATAGTTAGGCAAGATCTCAATGACTATATT
* *
9062795 TACTTGATATGTTTTCTTATTTTAAAATATTATACTTTTAAGAACTAATTTTGAAAAAGCAAATG
66 TACTTGAGATGTTTTCTTATTTTAAAATATTATACTTTTAAAAACTAATTTTGAAAAAGCAAATG
9062860 CATGAGATGCATGA
131 CATGAGATGCATGA
9062874 AC
1 AC
9062876 ATAATAAAAT
Statistics
Matches: 138, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
144 138 1.00
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (144 bp):
ACCTCTCATAAATAATAATCACCAAGAGTCCTCCTATAGTTAGGCAAGATCTCAATGACTATATT
TACTTGAGATGTTTTCTTATTTTAAAATATTATACTTTTAAAAACTAATTTTGAAAAAGCAAATG
CATGAGATGCATGA
Found at i:9068212 original size:15 final size:15
Alignment explanation
Indices: 9068192--9068227 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
9068182 TGACTTTTGA
9068192 TTTTTGATTATCTAT
1 TTTTTGATTATCTAT
*
9068207 TTTTTGATTATTTAT
1 TTTTTGATTATCTAT
9068222 TTTTTG
1 TTTTTG
9068228 TGATAATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.17, C:0.03, G:0.08, T:0.72
Consensus pattern (15 bp):
TTTTTGATTATCTAT
Found at i:9068231 original size:17 final size:16
Alignment explanation
Indices: 9068192--9068239 Score: 62
Period size: 15 Copynumber: 3.0 Consensus size: 16
9068182 TGACTTTTGA
*
9068192 TTTTTGATTATCTA-T
1 TTTTTGATTATTTATT
9068207 TTTTTGATTATTTATT
1 TTTTTGATTATTTATT
*
9068223 TTTTGTGATAATTTATT
1 TTTT-TGATTATTTATT
9068240 AAATTAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 13 0.45
16 5 0.17
17 11 0.38
ACGTcount: A:0.21, C:0.02, G:0.08, T:0.69
Consensus pattern (16 bp):
TTTTTGATTATTTATT
Found at i:9073684 original size:17 final size:17
Alignment explanation
Indices: 9073662--9073711 Score: 59
Period size: 18 Copynumber: 3.0 Consensus size: 17
9073652 AAAATGAAAA
9073662 TATCAATAATTAATAAT
1 TATCAATAATTAATAAT
*
9073679 TATCAATAAATTAATCAT
1 TATCAAT-AATTAATAAT
*
9073697 AAT-AATAA-TAATAAT
1 TATCAATAATTAATAAT
9073712 AATTAAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 6 0.21
16 2 0.07
17 10 0.34
18 11 0.38
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (17 bp):
TATCAATAATTAATAAT
Found at i:9073851 original size:24 final size:25
Alignment explanation
Indices: 9073815--9073866 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
9073805 AATAAAATCT
9073815 TAAA-AAAATATATAATAATA-ATAA
1 TAAATAAAATATATAA-AATACATAA
9073839 TAAATAAAA-ATATAAAATACATAA
1 TAAATAAAATATATAAAATACATAA
9073863 -AAAT
1 TAAAT
9073867 GAAACATCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
23 8 0.31
24 14 0.54
25 4 0.15
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (25 bp):
TAAATAAAATATATAAAATACATAA
Found at i:9087424 original size:20 final size:20
Alignment explanation
Indices: 9087382--9087425 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
9087372 TATTATTATG
* *
9087382 TTTTAATTTTTTATTTTAGA
1 TTTTAATTTTTAATTTTAAA
9087402 TTTTAA-TTTTAATTTTATAA
1 TTTTAATTTTTAATTTTA-AA
9087422 TTTT
1 TTTT
9087426 TTTTATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.70
Consensus pattern (20 bp):
TTTTAATTTTTAATTTTAAA
Found at i:9088492 original size:12 final size:11
Alignment explanation
Indices: 9088484--9088546 Score: 81
Period size: 11 Copynumber: 5.4 Consensus size: 11
9088474 TTTTTTTTCC
9088484 TTTTATTTTTTA
1 TTTTA-TTTTTA
9088496 TTTTTATTTTTA
1 -TTTTATTTTTA
9088508 TTTTATTTTTA
1 TTTTATTTTTA
9088519 TTTTATTTTTAA
1 TTTTATTTTT-A
*
9088531 TTGTATTTTTTA
1 TTTTA-TTTTTA
9088543 TTTT
1 TTTT
9088547 TTATTTCGGT
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
11 21 0.46
12 15 0.33
13 10 0.22
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.81
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:9088494 original size:13 final size:13
Alignment explanation
Indices: 9088476--9088552 Score: 65
Period size: 11 Copynumber: 6.2 Consensus size: 13
9088466 GTTTCATCTT
*
9088476 TTTTTTCCTTTTA
1 TTTTTTACTTTTA
*
9088489 TTTTTTATTTTTA
1 TTTTTTACTTTTA
9088502 -TTTTTA-TTTTA
1 TTTTTTACTTTTA
9088513 -TTTTTA-TTTTA
1 TTTTTTACTTTTA
* *
9088524 -TTTTTAATTGTA
1 TTTTTTACTTTTA
*
9088536 TTTTTTATTTTTTA
1 TTTTTTA-CTTTTA
9088550 TTT
1 TTT
9088553 CGGTTTTTAT
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
11 22 0.39
12 10 0.18
13 17 0.30
14 7 0.12
ACGTcount: A:0.16, C:0.03, G:0.01, T:0.81
Consensus pattern (13 bp):
TTTTTTACTTTTA
Found at i:9088499 original size:5 final size:6
Alignment explanation
Indices: 9088484--9088580 Score: 81
Period size: 6 Copynumber: 15.5 Consensus size: 6
9088474 TTTTTTTTCC
*
9088484 TTTTATT TTTTAT TTTTAT TTTTA- TTTTAT TTTTA- TTTTAT TTTTAA
1 TTTTA-T TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
* ***
9088531 TTGTATT TTTTATT TTTTAT TTCGGT TTTTATT TATTTAT TTATTAT TTT
1 TTTTA-T TTTTA-T TTTTAT TTTTAT TTTTA-T T-TTTAT TT-TTAT TTT
9088581 AATTGTTAAT
Statistics
Matches: 74, Mismatches: 10, Indels: 13
0.76 0.10 0.13
Matches are distributed among these distances:
5 10 0.14
6 34 0.46
7 26 0.35
8 4 0.05
ACGTcount: A:0.18, C:0.01, G:0.03, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:9088577 original size:11 final size:11
Alignment explanation
Indices: 9088486--9088579 Score: 51
Period size: 11 Copynumber: 8.5 Consensus size: 11
9088476 TTTTTTCCTT
9088486 TTATTT-TTTA
1 TTATTTATTTA
9088496 TT-TTTATTT-
1 TTATTTATTTA
9088505 TTATTTTATTT-
1 TTA-TTTATTTA
9088516 TTATTTTATTT-
1 TTA-TTTATTTA
*
9088527 TTAATTGTATTTT
1 TT-ATT-TATTTA
9088540 TTATTT-TTTA
1 TTATTTATTTA
9088550 TT-TCGGTT-TTTA
1 TTAT---TTATTTA
9088562 TTTATTTATTTA
1 -TTATTTATTTA
9088574 TTATTT
1 TTATTT
9088580 TAATTGTTAA
Statistics
Matches: 71, Mismatches: 1, Indels: 23
0.75 0.01 0.24
Matches are distributed among these distances:
9 6 0.08
10 10 0.14
11 31 0.44
12 19 0.27
13 4 0.06
14 1 0.01
ACGTcount: A:0.18, C:0.01, G:0.03, T:0.78
Consensus pattern (11 bp):
TTATTTATTTA
Found at i:9088795 original size:16 final size:16
Alignment explanation
Indices: 9088774--9088857 Score: 89
Period size: 16 Copynumber: 5.2 Consensus size: 16
9088764 TGAGTCTAAT
9088774 TTATTTGCATAATTTA
1 TTATTTGCATAATTTA
* * *
9088790 TTATTTACATTATTAA
1 TTATTTGCATAATTTA
* *
9088806 TATATTTGCATGATTTC
1 T-TATTTGCATAATTTA
**
9088823 TTA-TTGCATTGTTTA
1 TTATTTGCATAATTTA
9088838 TTATTTGCATAATTTA
1 TTATTTGCATAATTTA
9088854 TTAT
1 TTAT
9088858 AATTTTTTGA
Statistics
Matches: 54, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
15 12 0.22
16 30 0.56
17 12 0.22
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.57
Consensus pattern (16 bp):
TTATTTGCATAATTTA
Found at i:9088816 original size:33 final size:32
Alignment explanation
Indices: 9088774--9088857 Score: 107
Period size: 31 Copynumber: 2.6 Consensus size: 32
9088764 TGAGTCTAAT
9088774 TTATTTGCATAATTTATTATTTACATTATTAA
1 TTATTTGCATAATTTATTATTTACATTATTAA
* * * * *
9088806 TATATTTGCATGATTTCTTA-TTGCATTGTTTA
1 T-TATTTGCATAATTTATTATTTACATTATTAA
9088838 TTATTTGCATAATTTATTAT
1 TTATTTGCATAATTTATTAT
9088858 AATTTTTTGA
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
31 16 0.37
32 11 0.26
33 16 0.37
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.57
Consensus pattern (32 bp):
TTATTTGCATAATTTATTATTTACATTATTAA
Found at i:9088902 original size:14 final size:15
Alignment explanation
Indices: 9088875--9088922 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 15
9088865 TGATATGATT
9088875 ATTATATATTTGCATG
1 ATTATAT-TTTGCATG
*
9088891 ATT-TGTTTTGCATG
1 ATTATATTTTGCATG
9088905 ATTATATTATTGCATG
1 ATTATATT-TTGCATG
9088921 AT
1 AT
9088923 ATTTTGATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 11 0.39
15 5 0.18
16 12 0.43
ACGTcount: A:0.27, C:0.06, G:0.15, T:0.52
Consensus pattern (15 bp):
ATTATATTTTGCATG
Found at i:9088945 original size:73 final size:74
Alignment explanation
Indices: 9088798--9088945 Score: 182
Period size: 73 Copynumber: 2.0 Consensus size: 74
9088788 TATTATTTAC
* *
9088798 ATTATTAATATATTTGCATGATTTCTTATTGCATTGTTTATTATTTGCATAATTTATTATAATTT
1 ATTATTAATATATTTGCATGATTTCTTATTGCATTGTTTATTATTTGCATAATTTATGATAAATT
9088863 TTTGATATG
66 TTTGATATG
*
9088872 ATTATT-ATATATTTGCATGATTTGTT-TTGCA-TGATTATATTA-TTGCATGATATTT-TGATA
1 ATTATTAATATATTTGCATGATTTCTTATTGCATTG-TT-TATTATTTGCAT-A-ATTTATGATA
9088932 GAATTTTTG-TATG
62 -AATTTTTGATATG
9088945 A
1 A
9088946 CAATGTGCTA
Statistics
Matches: 66, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
71 2 0.03
72 13 0.20
73 34 0.52
74 17 0.26
ACGTcount: A:0.28, C:0.05, G:0.12, T:0.55
Consensus pattern (74 bp):
ATTATTAATATATTTGCATGATTTCTTATTGCATTGTTTATTATTTGCATAATTTATGATAAATT
TTTGATATG
Found at i:9089609 original size:44 final size:44
Alignment explanation
Indices: 9089539--9089639 Score: 141
Period size: 44 Copynumber: 2.3 Consensus size: 44
9089529 GCATTAACCC
* *
9089539 ATTTGTTTAATTTTGTAGCTTATTATTCTT-TATGTGTACTAATTT
1 ATTTGTTT-ATTTTGTAGATTATTATT-TTACATGTGTACTAATTT
*
9089584 ATTTGTTTATTTTGTAGATTTTTATTTTACATGTGTACTAATTT
1 ATTTGTTTATTTTGTAGATTATTATTTTACATGTGTACTAATTT
*
9089628 ATTTGATTATTT
1 ATTTGTTTATTT
9089640 GGGTTGGCAT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
43 2 0.04
44 41 0.80
45 8 0.16
ACGTcount: A:0.23, C:0.05, G:0.11, T:0.61
Consensus pattern (44 bp):
ATTTGTTTATTTTGTAGATTATTATTTTACATGTGTACTAATTT
Found at i:9092077 original size:42 final size:43
Alignment explanation
Indices: 9091976--9092086 Score: 134
Period size: 42 Copynumber: 2.6 Consensus size: 43
9091966 TATATATCTT
** * ** * * *
9091976 TTTTATTTTTCAAAAGTTCCAAAGCCTTCGGTAGGGGAGAATA
1 TTTTATTTTTTGAAAGTTCCAAAGCCTCCAATAGGGAAAAACA
9092019 TTTTATTTTTTGAAAGTTCCAAAGCCTCCAATA-GGAAAAACA
1 TTTTATTTTTTGAAAGTTCCAAAGCCTCCAATAGGGAAAAACA
*
9092061 TTTTATTTTTTGAAAGTTTCAAAGCC
1 TTTTATTTTTTGAAAGTTCCAAAGCC
9092087 ATTATTGAAA
Statistics
Matches: 59, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
42 31 0.53
43 28 0.47
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.38
Consensus pattern (43 bp):
TTTTATTTTTTGAAAGTTCCAAAGCCTCCAATAGGGAAAAACA
Found at i:9092324 original size:3 final size:3
Alignment explanation
Indices: 9092316--9092400 Score: 152
Period size: 3 Copynumber: 28.3 Consensus size: 3
9092306 AAAAGCCCAA
*
9092316 ATT ATT ATT ATT TTT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
9092364 ATT ATT ATT ATT ATT ATT ATT ACT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
9092401 GTAGTAGTAG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 78 1.00
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:9092405 original size:3 final size:3
Alignment explanation
Indices: 9092399--9092429 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
9092389 TTATTATTAT
9092399 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG T
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG T
9092430 TTAATTTTGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.35
Consensus pattern (3 bp):
TAG
Found at i:9093066 original size:8 final size:8
Alignment explanation
Indices: 9093044--9093117 Score: 62
Period size: 8 Copynumber: 9.1 Consensus size: 8
9093034 ATTTTCTTTC
9093044 TTTA-TTT
1 TTTATTTT
9093051 TTTATTTT
1 TTTATTTT
*
9093059 TTATTTTTAT
1 TT-TATTT-T
*
9093069 TTTATTGT
1 TTTATTTT
*
9093077 TTTATTGT
1 TTTATTTT
9093085 TTTATTTT
1 TTTATTTT
9093093 TTTATTATT
1 TTTATT-TT
* *
9093102 TTT-CTTC
1 TTTATTTT
9093109 TTTATTTT
1 TTTATTTT
9093117 T
1 T
9093118 ATTTTAATTG
Statistics
Matches: 54, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
7 8 0.15
8 31 0.57
9 12 0.22
10 3 0.06
ACGTcount: A:0.14, C:0.03, G:0.03, T:0.81
Consensus pattern (8 bp):
TTTATTTT
Found at i:9093066 original size:13 final size:13
Alignment explanation
Indices: 9093044--9093122 Score: 74
Period size: 13 Copynumber: 6.1 Consensus size: 13
9093034 ATTTTCTTTC
9093044 TTTATTTTTTATTT
1 TTTA-TTTTTATTT
9093058 TTTATTTTTATTT
1 TTTATTTTTATTT
*
9093071 TATT-GTTTTATTGT
1 T-TTATTTTTATT-T
9093085 TTTA-TTTT-TTT
1 TTTATTTTTATTT
* * *
9093096 ATTATTTTTCTTC
1 TTTATTTTTATTT
9093109 TTTATTTTTATTT
1 TTTATTTTTATTT
9093122 T
1 T
9093123 AATTGTTGAT
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
11 4 0.07
12 6 0.11
13 36 0.67
14 8 0.15
ACGTcount: A:0.14, C:0.03, G:0.03, T:0.81
Consensus pattern (13 bp):
TTTATTTTTATTT
Found at i:9093378 original size:15 final size:16
Alignment explanation
Indices: 9093343--9093380 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
9093333 CACATAATTC
*
9093343 ATTTATTATTTACATG
1 ATTTATTATTTACAGG
*
9093359 ATTTATTA-TTGCAGG
1 ATTTATTATTTACAGG
9093374 ATTTATT
1 ATTTATT
9093381 TATTATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.29, C:0.05, G:0.11, T:0.55
Consensus pattern (16 bp):
ATTTATTATTTACAGG
Found at i:9093404 original size:23 final size:23
Alignment explanation
Indices: 9093378--9093447 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 23
9093368 TGCAGGATTT
9093378 ATTTATTATTTATTATTTGCATG
1 ATTTATTATTTATTATTTGCATG
* * **
9093401 ATTTATTGTGTT-TTTTTTATATG
1 ATTTATTAT-TTATTATTTGCATG
9093424 ATTTATTA--TA-TATTTGCATG
1 ATTTATTATTTATTATTTGCATG
9093444 ATTT
1 ATTT
9093448 GTTTTGCATG
Statistics
Matches: 37, Mismatches: 8, Indels: 7
0.71 0.15 0.13
Matches are distributed among these distances:
20 12 0.32
23 23 0.62
24 2 0.05
ACGTcount: A:0.24, C:0.03, G:0.10, T:0.63
Consensus pattern (23 bp):
ATTTATTATTTATTATTTGCATG
Found at i:9093406 original size:16 final size:16
Alignment explanation
Indices: 9093343--9093407 Score: 61
Period size: 16 Copynumber: 4.4 Consensus size: 16
9093333 CACATAATTC
*
9093343 ATTTATTATTTACATG
1 ATTTATTATTTGCATG
*
9093359 ATTTATTA-TTGCAGG
1 ATTTATTATTTGCATG
*
9093374 A--T-TTATTT--ATT
1 ATTTATTATTTGCATG
9093385 ATTTATTATTTGCATG
1 ATTTATTATTTGCATG
9093401 ATTTATT
1 ATTTATT
9093408 GTGTTTTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
11 2 0.05
12 3 0.08
13 4 0.11
14 6 0.16
15 6 0.16
16 17 0.45
ACGTcount: A:0.28, C:0.05, G:0.09, T:0.58
Consensus pattern (16 bp):
ATTTATTATTTGCATG
Found at i:9100343 original size:30 final size:29
Alignment explanation
Indices: 9100277--9100346 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 29
9100267 TTATAGTAAG
* *
9100277 GATTTATTTAGATATAAATTTGAAGTTAA
1 GATTTATTTGGATATAAATTTAAAGTTAA
9100306 GAGTTTATTTGGATATAAA-TTAAAGTTTAAA
1 GA-TTTATTTGGATATAAATTTAAAG-TT-AA
9100337 GATTTATTTG
1 GATTTATTTG
9100347 AGAGCAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
29 7 0.19
30 25 0.69
31 4 0.11
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.46
Consensus pattern (29 bp):
GATTTATTTGGATATAAATTTAAAGTTAA
Found at i:9106884 original size:3 final size:3
Alignment explanation
Indices: 9106869--9106900 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
9106859 TTTTATTTAT
*
9106869 TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
9106901 TATTGACTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:9106968 original size:18 final size:17
Alignment explanation
Indices: 9106932--9107005 Score: 64
Period size: 18 Copynumber: 4.3 Consensus size: 17
9106922 TTTAGTACTT
**
9106932 TTTTTATTTTAT-TCCA
1 TTTTTATTTTATCTTTA
9106948 TTTTTATCTTTATCTTTA
1 TTTTTAT-TTTATCTTTA
*
9106966 TTTTTATTTTTATTCTTATT
1 TTTTTA-TTTTA-TCTT-TA
9106986 TTTTTATTTT-T-TTTA
1 TTTTTATTTTATCTTTA
9107001 TTTTT
1 TTTTT
9107006 TTTGTCTTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
15 6 0.12
16 9 0.18
17 6 0.12
18 12 0.24
19 9 0.18
20 7 0.14
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTTATTTTATCTTTA
Found at i:9106971 original size:12 final size:11
Alignment explanation
Indices: 9106933--9107008 Score: 59
Period size: 12 Copynumber: 6.8 Consensus size: 11
9106923 TTAGTACTTT
9106933 TTTTA-TTTTA
1 TTTTATTTTTA
**
9106943 TTCCATTTTTA
1 TTTTATTTTTA
*
9106954 TCTTTATCTTTA
1 T-TTTATTTTTA
9106966 TTTTTATTTTTA
1 -TTTTATTTTTA
9106978 TTCTTATTTTT-
1 TT-TTATTTTTA
*
9106989 TTATTTTTTTTA
1 TT-TTATTTTTA
9107001 TTTT-TTTT
1 TTTTATTTT
9107009 GTCTTTTTAA
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
10 7 0.13
11 19 0.36
12 26 0.49
13 1 0.02
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:9106979 original size:6 final size:6
Alignment explanation
Indices: 9106947--9107005 Score: 68
Period size: 6 Copynumber: 10.0 Consensus size: 6
9106937 ATTTTATTCC
* * *
9106947 ATTTTT ATCTTT ATCTTT ATTTTT ATTTTT ATTCTT ATTTTT -TTATTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATT-TTT
9106995 -TTTTT ATTTTT
1 ATTTTT ATTTTT
9107006 TTTGTCTTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
5 5 0.11
6 42 0.89
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (6 bp):
ATTTTT
Found at i:9107006 original size:18 final size:18
Alignment explanation
Indices: 9106948--9107008 Score: 54
Period size: 17 Copynumber: 3.3 Consensus size: 18
9106938 TTTTATTCCA
9106948 TTTTTATCTTTATCTTTATTT
1 TTTTTAT-TTT-T-TTTATTT
* *
9106969 TTATTT-TTATTCTTA-TT
1 TT-TTTATTTTTTTTATTT
9106986 TTTTTATTTTTTTTATTT
1 TTTTTATTTTTTTTATTT
9107004 TTTTT
1 TTTTT
9107009 GTCTTTTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
16 3 0.09
17 11 0.33
18 10 0.30
19 1 0.03
20 2 0.06
21 3 0.09
22 3 0.09
ACGTcount: A:0.13, C:0.05, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTTTATTTTTTTTATTT
Found at i:9107016 original size:10 final size:9
Alignment explanation
Indices: 9106948--9107008 Score: 54
Period size: 9 Copynumber: 6.6 Consensus size: 9
9106938 TTTTATTCCA
9106948 TTTTTATCTT
1 TTTTTAT-TT
9106958 TATCTTTATTT
1 T-T-TTTATTT
*
9106969 TTATTT-TTA
1 TT-TTTATTT
*
9106978 TTCTTA-TT
1 TTTTTATTT
9106986 TTTTTATTT
1 TTTTTATTT
9106995 TTTTTATTT
1 TTTTTATTT
9107004 TTTTT
1 TTTTT
9107009 GTCTTTTTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
8 8 0.19
9 20 0.48
10 5 0.12
11 4 0.10
12 5 0.12
ACGTcount: A:0.13, C:0.05, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTTTATTT
Found at i:9107196 original size:59 final size:59
Alignment explanation
Indices: 9107017--9107481 Score: 645
Period size: 59 Copynumber: 7.9 Consensus size: 59
9107007 TTGTCTTTTT
*
9107017 AAAATAAA--TTCAGAAAAA-TATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTA
1 AAAATAAATTTTCAAAAAAAGTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTA
** *
9107072 AAAATAAATTTTCAAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTA
1 AAAATAAATTTTC-AAAAAAAGTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTA
* * *
9107132 GAAATAAATTTTCAAAAAAATTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTA
1 AAAATAAATTTTCAAAAAAAGTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTA
* * *
9107191 AAAATAAATTTCCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTA
1 AAAATAAATTTTCAAAAAAAGTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTA
* ** * *
9107250 GAAATAAATTTTCAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
1 AAAATAAATTTTCAAAAAAAGTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTA
* *
9107309 AAAATCAAAATTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTA
1 AAAAT-AAATTTTCAAAAAAAGTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTA
* ** * *
9107369 GAAATAAATTTTCAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
1 AAAATAAATTTTCAAAAAAAGTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTA
*
9107428 AAAATCGAAA-TTTCCAAAAAA-TATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
1 AAAAT--AAATTTTCAAAAAAAGTATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
9107482 TTCAAAAAAA
Statistics
Matches: 362, Mismatches: 40, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
55 8 0.02
57 3 0.01
58 6 0.02
59 239 0.66
60 103 0.28
61 3 0.01
ACGTcount: A:0.44, C:0.07, G:0.15, T:0.35
Consensus pattern (59 bp):
AAAATAAATTTTCAAAAAAAGTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTA
Found at i:9107250 original size:118 final size:118
Alignment explanation
Indices: 9107030--9107481 Score: 478
Period size: 119 Copynumber: 3.8 Consensus size: 118
9107020 ATAAATTCAG
*
9107030 AAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAAG
1 AAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC-AAAAAAAG
9107094 GGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAAT-AAATTTTCAAA
65 GGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGA-AAATCAAA-TTTCAAA
* * * * **
9107148 AAAATTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTCCAAAAAAAAT
1 AAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAAAAAAGG
* * *
9107213 ATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTT-AGAAAT-AAATTTTCAAA
66 GTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGA-AAATCAAA-TTTCAAA
*** * *
9107266 AAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCAAAATTTCAAAAAAA
1 AAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT-AAATTTTCAAAAAAA
*** *
9107330 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAAT-AAATTTTCAAA
64 GGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGA-AAATCAAA-TTTCAAA
*** * *
9107385 AAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCGAAATTTCCAAAAAA
1 AAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAATTTTCAAAAAA
*
9107449 TA---TTTTTGGGGAAAAGTTGAAAGTATCAATTTT
63 -AGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTT
9107482 TTCAAAAAAA
Statistics
Matches: 309, Mismatches: 20, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
118 140 0.45
119 156 0.50
120 12 0.04
121 1 0.00
ACGTcount: A:0.43, C:0.07, G:0.15, T:0.35
Consensus pattern (118 bp):
AAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAAAAAAGG
GTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAATTTCAAA
Found at i:9107337 original size:178 final size:177
Alignment explanation
Indices: 9107030--9107481 Score: 682
Period size: 178 Copynumber: 2.5 Consensus size: 177
9107020 ATAAATTCAG
*
9107030 AAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAAG
1 AAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC-AAAAAAAG
* *
9107094 GGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAAAAAATTATTTT
65 GGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAATTTCAAAAAAAATATTTT
*
9107159 TGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTCCAAA
130 TGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCCAAA
*
9107207 AAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAGAAATAAATTTTCAAAAAAAGG
1 AAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAAAAAAGG
9107272 GTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCAAAATTTCAAAAAAAATATTT
66 GTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT-AAAATTTCAAAAAAAATATTT
* *
9107336 TTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAA
129 TTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCCAAA
*** * *
9107385 AAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCGAAATTTCCAAAAAA
1 AAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAATTTTCAAAAAA
*
9107449 TA---TTTTTGGGGAAAAGTTGAAAGTATCAATTTT
63 -AGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTT
9107482 TTCAAAAAAA
Statistics
Matches: 254, Mismatches: 14, Indels: 13
0.90 0.05 0.05
Matches are distributed among these distances:
176 1 0.00
177 62 0.24
178 177 0.70
180 13 0.05
181 1 0.00
ACGTcount: A:0.43, C:0.07, G:0.15, T:0.35
Consensus pattern (177 bp):
AAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAAAAAAGG
GTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAATTTCAAAAAAAATATTTTT
GGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCCAAA
Found at i:9108952 original size:17 final size:16
Alignment explanation
Indices: 9108922--9108956 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
9108912 TCACTATCTC
9108922 TTTATTTTGATTATAG
1 TTTATTTTGATTATAG
*
9108938 TTTATATTTGCTTATAG
1 TTTAT-TTTGATTATAG
9108955 TT
1 TT
9108957 CATCAACTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.23, C:0.03, G:0.11, T:0.63
Consensus pattern (16 bp):
TTTATTTTGATTATAG
Found at i:9109712 original size:3 final size:3
Alignment explanation
Indices: 9109704--9109771 Score: 136
Period size: 3 Copynumber: 22.7 Consensus size: 3
9109694 TTAAAGCCAA
9109704 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
9109752 ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT AT
9109772 GGTTTTCAAA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:9116789 original size:7 final size:7
Alignment explanation
Indices: 9116779--9116805 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
9116769 TTTTTTTACG
9116779 TTGTTGA
1 TTGTTGA
9116786 TTGTTGA
1 TTGTTGA
9116793 TTGTTGA
1 TTGTTGA
9116800 TTGTTG
1 TTGTTG
9116806 TCTATTACTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.11, C:0.00, G:0.30, T:0.59
Consensus pattern (7 bp):
TTGTTGA
Found at i:9117193 original size:27 final size:26
Alignment explanation
Indices: 9117153--9117215 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 26
9117143 TATTGGATAC
* *
9117153 ATAAAATTATAATAAGA-TAAGA-TAA
1 ATAATATTATAATAAAATTAA-ATTAA
9117178 TATAATATTATGAATAAAATTAAATTAA
1 -ATAATATTAT-AATAAAATTAAATTAA
9117206 ATAATATTAT
1 ATAATATTAT
9117216 TTTATTTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
26 9 0.28
27 17 0.53
28 6 0.19
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.37
Consensus pattern (26 bp):
ATAATATTATAATAAAATTAAATTAA
Found at i:9117296 original size:17 final size:18
Alignment explanation
Indices: 9117256--9117296 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
9117246 AGAATAAAAT
9117256 AATTTATTTATTTATCAA
1 AATTTATTTATTTATCAA
* *
9117274 AA-TTATTT-TTTCTTAA
1 AATTTATTTATTTATCAA
9117290 AATTTAT
1 AATTTAT
9117297 ACAATTGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 8 0.40
17 10 0.50
18 2 0.10
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.59
Consensus pattern (18 bp):
AATTTATTTATTTATCAA
Found at i:9119794 original size:18 final size:18
Alignment explanation
Indices: 9119771--9119806 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
9119761 TAATTAATTA
9119771 TTTTTATTAATGTTTTAT
1 TTTTTATTAATGTTTTAT
*
9119789 TTTTTATTAATTTTTTAT
1 TTTTTATTAATGTTTTAT
9119807 ATATTGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (18 bp):
TTTTTATTAATGTTTTAT
Found at i:9119831 original size:28 final size:28
Alignment explanation
Indices: 9119764--9119833 Score: 74
Period size: 28 Copynumber: 2.5 Consensus size: 28
9119754 GGTCAAATAA
*
9119764 TTAATTATTTTTATTAATGTTTTATTTT
1 TTAATTATTTTTATTAATGTGTTATTTT
9119792 TT-ATTAATTTTT-TATATAT-TGTTATTTT
1 TTAATT-ATTTTTAT-TA-ATGTGTTATTTT
9119820 TATAATTATTTTTA
1 T-TAATTATTTTTA
9119834 ATTATAGTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
27 4 0.11
28 19 0.54
29 9 0.26
30 3 0.09
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (28 bp):
TTAATTATTTTTATTAATGTGTTATTTT
Found at i:9120674 original size:10 final size:11
Alignment explanation
Indices: 9120650--9120680 Score: 55
Period size: 10 Copynumber: 2.9 Consensus size: 11
9120640 TTTGTTAATC
9120650 AATTAATTATT
1 AATTAATTATT
9120661 AATTAATT-TT
1 AATTAATTATT
9120671 AATTAATTAT
1 AATTAATTAT
9120681 CAAAAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
AATTAATTATT
Found at i:9121026 original size:15 final size:15
Alignment explanation
Indices: 9120997--9121044 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
9120987 TTAAAAAATA
*
9120997 AAATAACAT-ATTTT
1 AAATAATATAATTTT
* *
9121011 AATTAATTTAATTTT
1 AAATAATATAATTTT
*
9121026 AAATAATATAATTTA
1 AAATAATATAATTTT
9121041 AAAT
1 AAAT
9121045 TAATCGAATT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
14 6 0.22
15 21 0.78
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (15 bp):
AAATAATATAATTTT
Found at i:9123294 original size:16 final size:15
Alignment explanation
Indices: 9123262--9123309 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 15
9123252 TGTGGCACCA
9123262 AAAAGAGACAAAAAG
1 AAAAGAGACAAAAAG
*
9123277 AAAAG-GACAAAAAT
1 AAAAGAGACAAAAAG
*
9123291 AGAA-A-A-AAAAAG
1 AAAAGAGACAAAAAG
9123303 AAAAGAG
1 AAAAGAG
9123310 TTGATTGAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
12 8 0.31
13 2 0.08
14 11 0.42
15 5 0.19
ACGTcount: A:0.75, C:0.04, G:0.19, T:0.02
Consensus pattern (15 bp):
AAAAGAGACAAAAAG
Found at i:9123386 original size:25 final size:26
Alignment explanation
Indices: 9123354--9123418 Score: 73
Period size: 25 Copynumber: 2.5 Consensus size: 26
9123344 AATAAATTAA
9123354 ATAATTATAAATTTAATTTTTT-TGT
1 ATAATTATAAATTTAATTTTTTATGT
* *
9123379 ATAATTAT-ATTTTTATTTTTTATGT
1 ATAATTATAAATTTAATTTTTTATGT
9123404 A-AATTTAATAAATTT
1 ATAA-TT-ATAAATTT
9123419 TTGGGAATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
24 13 0.39
25 14 0.42
26 2 0.06
27 4 0.12
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (26 bp):
ATAATTATAAATTTAATTTTTTATGT
Found at i:9130282 original size:15 final size:16
Alignment explanation
Indices: 9130262--9130294 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9130252 TGAGAATCAA
9130262 AACAAT-AAAAAAATT
1 AACAATGAAAAAAATT
*
9130277 AACAATGCAAAAAATT
1 AACAATGAAAAAAATT
9130293 AA
1 AA
9130295 ACTTACAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.70, C:0.09, G:0.03, T:0.18
Consensus pattern (16 bp):
AACAATGAAAAAAATT
Found at i:9130390 original size:33 final size:27
Alignment explanation
Indices: 9130321--9130376 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
9130311 AAACAACATA
* *
9130321 AAATGAAATATAAGTATGATTAAGATT
1 AAATAAAATATAAGTATAATTAAGATT
9130348 AAATAAAATATAAGTATAATTAAGATT
1 AAATAAAATATAAGTATAATTAAGATT
9130375 AA
1 AA
9130377 CACACATGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.32
Consensus pattern (27 bp):
AAATAAAATATAAGTATAATTAAGATT
Found at i:9134664 original size:16 final size:16
Alignment explanation
Indices: 9134577--9134665 Score: 51
Period size: 16 Copynumber: 5.4 Consensus size: 16
9134567 ATTAATCTTA
*
9134577 ATATATTTTAT-TTTTT
1 ATAT-TTTTATATTATT
*
9134593 ATA-TTTTAAATTATT
1 ATATTTTTATATTATT
9134608 A-ATTGTTATATATTACTAT
1 ATATT-TT-TATATTA-T-T
* *
9134627 AAATTTATTATAATA-T
1 ATATTT-TTATATTATT
9134643 ATTATTTTTATATTATT
1 A-TATTTTTATATTATT
9134660 ATATTT
1 ATATTT
9134666 GTCACTTGTC
Statistics
Matches: 57, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
14 6 0.11
15 6 0.11
16 19 0.33
17 12 0.21
18 1 0.02
19 9 0.16
20 4 0.07
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (16 bp):
ATATTTTTATATTATT
Found at i:9134721 original size:3 final size:3
Alignment explanation
Indices: 9134713--9134751 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
9134703 CGGTGATCTA
9134713 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
9134752 GGACGGTGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:9135293 original size:13 final size:13
Alignment explanation
Indices: 9135275--9135299 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9135265 TTTCCAAGTT
9135275 AAAAAAAGAAAAA
1 AAAAAAAGAAAAA
9135288 AAAAAAAGAAAA
1 AAAAAAAGAAAA
9135300 GAAACTATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (13 bp):
AAAAAAAGAAAAA
Found at i:9135941 original size:23 final size:21
Alignment explanation
Indices: 9135906--9135967 Score: 61
Period size: 23 Copynumber: 2.8 Consensus size: 21
9135896 TTTAAAATTA
*
9135906 AAATTTGAATCAAATTTCAAAT
1 AAATTTTAATCAAATTT-AAAT
*
9135928 AAATTTTAACTCAAATTTAATT
1 AAATTTTAA-TCAAATTTAAAT
*
9135950 ATACTTTTAATTCAAATT
1 A-AATTTTAA-TCAAATT
9135968 AAGAGATCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
22 12 0.35
23 22 0.65
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.44
Consensus pattern (21 bp):
AAATTTTAATCAAATTTAAAT
Found at i:9136128 original size:7 final size:7
Alignment explanation
Indices: 9136118--9136142 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
9136108 GTTTTTTACA
9136118 AAAAAAT
1 AAAAAAT
9136125 AAAAAAT
1 AAAAAAT
9136132 AAAAAAT
1 AAAAAAT
9136139 AAAA
1 AAAA
9136143 TGACGGACTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:9139017 original size:20 final size:20
Alignment explanation
Indices: 9138992--9139039 Score: 73
Period size: 18 Copynumber: 2.5 Consensus size: 20
9138982 ATTATAAAAT
9138992 ATATTTTTAAAATTAAATAC
1 ATATTTTTAAAATTAAATAC
*
9139012 ATA--TTTAAAATTAAATAT
1 ATATTTTTAAAATTAAATAC
9139030 ATATTTTTAA
1 ATATTTTTAA
9139040 GATTTTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 17 0.68
20 8 0.32
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (20 bp):
ATATTTTTAAAATTAAATAC
Found at i:9140505 original size:18 final size:16
Alignment explanation
Indices: 9140484--9140522 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
9140474 AAATATGAAA
9140484 AAATTTACATATTTTTAT
1 AAATTTA-A-ATTTTTAT
*
9140502 AAATTTAAATTTTTTT
1 AAATTTAAATTTTTAT
9140518 AAATT
1 AAATT
9140523 GTTTTATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 12 0.60
17 1 0.05
18 7 0.35
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (16 bp):
AAATTTAAATTTTTAT
Found at i:9140769 original size:15 final size:14
Alignment explanation
Indices: 9140749--9140779 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 14
9140739 CATTTTTTTG
9140749 AAAAAAGCAAAAAAA
1 AAAAAAG-AAAAAAA
9140764 AAAAAAGAAAAAAA
1 AAAAAAGAAAAAAA
9140778 AA
1 AA
9140780 TGAGACATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.56
15 7 0.44
ACGTcount: A:0.90, C:0.03, G:0.06, T:0.00
Consensus pattern (14 bp):
AAAAAAGAAAAAAA
Found at i:9142605 original size:10 final size:10
Alignment explanation
Indices: 9142592--9142622 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
9142582 TAAAAAAATT
9142592 AAAAAAGAAA
1 AAAAAAGAAA
*
9142602 AAAAAAGAGA
1 AAAAAAGAAA
9142612 AAAAAAGAAA
1 AAAAAAGAAA
9142622 A
1 A
9142623 TGTAGCTGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:9142731 original size:20 final size:20
Alignment explanation
Indices: 9142708--9142746 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
9142698 TAATTTTATT
9142708 AATAA-AAAAATAAAACAAAA
1 AATAATAAAAAT-AAACAAAA
*
9142728 AATAATTAAAATAAACAAA
1 AATAATAAAAATAAACAAA
9142747 TAAGACAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.15
Consensus pattern (20 bp):
AATAATAAAAATAAACAAAA
Found at i:9143995 original size:12 final size:12
Alignment explanation
Indices: 9143980--9144009 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
9143970 TTATTATAAA
9143980 ATTTATAAATCT
1 ATTTATAAATCT
*
9143992 ATTTATAAATTT
1 ATTTATAAATCT
9144004 ATTTAT
1 ATTTAT
9144010 TTTTTAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (12 bp):
ATTTATAAATCT
Found at i:9144023 original size:17 final size:17
Alignment explanation
Indices: 9143997--9144032 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
9143987 AATCTATTTA
*
9143997 TAAATTTATTTATTTTT
1 TAAATCTATTTATTTTT
9144014 TAAATCTATTTATTTTT
1 TAAATCTATTTATTTTT
9144031 TA
1 TA
9144033 TTTTTTGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (17 bp):
TAAATCTATTTATTTTT
Found at i:9144029 original size:16 final size:16
Alignment explanation
Indices: 9143991--9144030 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
9143981 TTTATAAATC
* *
9143991 TATTTATAAATTTATT
1 TATTTTTAAATCTATT
9144007 TATTTTTTAAATCTATT
1 TA-TTTTTAAATCTATT
9144024 TATTTTT
1 TATTTTT
9144031 TATTTTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (16 bp):
TATTTTTAAATCTATT
Found at i:9156088 original size:12 final size:12
Alignment explanation
Indices: 9156070--9156103 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
9156060 TGGGGTTTTG
*
9156070 AAGAAGAAGGAT
1 AAGAAGAAGAAT
*
9156082 TAGAAGAAGAAT
1 AAGAAGAAGAAT
9156094 AAGAAGAAGA
1 AAGAAGAAGA
9156104 TGATTTTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.29, T:0.09
Consensus pattern (12 bp):
AAGAAGAAGAAT
Found at i:9160536 original size:60 final size:58
Alignment explanation
Indices: 9160414--9160563 Score: 214
Period size: 60 Copynumber: 2.6 Consensus size: 58
9160404 TTGTGCAAAG
* *
9160414 AAAATTGATACTTTCAACTTTT-CCAAAAAATTGATTTTTTTGAAATTTATTTTTTAGG
1 AAAATTGATACTTTCAACTTTTCCCAAAAAA-TGATTTTTTTGAAATTTATTTTTAAGA
*
9160472 AAAATTGATACTTTCAACTTTTCCTCAAAAAA-GCCTTTTTTTGAAATTTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCC-CAAAAAATG-ATTTTTTTGAAA-TTTATTTTTAAGA
*
9160532 AAAATTGATACTTTCAACTTTTCCCCAAAAAT
1 AAAATTGATACTTTCAACTTTTCCCAAAAAAT
9160564 ATATATTTTT
Statistics
Matches: 83, Mismatches: 4, Indels: 8
0.87 0.04 0.08
Matches are distributed among these distances:
58 23 0.28
59 18 0.22
60 42 0.51
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.44
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCCAAAAAATGATTTTTTTGAAATTTATTTTTAAGA
Found at i:9160615 original size:5 final size:5
Alignment explanation
Indices: 9160599--9160674 Score: 73
Period size: 5 Copynumber: 14.4 Consensus size: 5
9160589 AAAATTGAAT
* * *
9160599 AATAA AACAA AATAAA AATAA AATAA AATAA AATAA AGA-AA AGTAA AACAAA
1 AATAA AATAA AAT-AA AATAA AATAA AATAA AATAA A-ATAA AATAA AA-TAA
9160651 AATAAA AATAA AATAA AGATAA AA
1 AAT-AA AATAA AATAA A-ATAA AA
9160675 AGAATATTAA
Statistics
Matches: 59, Mismatches: 6, Indels: 12
0.77 0.08 0.16
Matches are distributed among these distances:
5 39 0.66
6 20 0.34
ACGTcount: A:0.79, C:0.03, G:0.04, T:0.14
Consensus pattern (5 bp):
AATAA
Found at i:9160618 original size:6 final size:6
Alignment explanation
Indices: 9160607--9160675 Score: 56
Period size: 6 Copynumber: 11.7 Consensus size: 6
9160597 ATAATAAAAC
* *
9160607 AAAATA AAAAT- AAAAT- AAAAT- AAAATA AAGAAAA GTAAAACA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AA-AATA --AAAATA AAAATA
*
9160655 AAAAT- AAAATA AAGATA AAAA
1 AAAATA AAAATA AAAATA AAAA
9160676 GAATATTAAT
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
5 20 0.38
6 25 0.47
7 3 0.06
8 3 0.06
9 2 0.04
ACGTcount: A:0.80, C:0.01, G:0.04, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:9160620 original size:16 final size:15
Alignment explanation
Indices: 9160599--9160667 Score: 59
Period size: 16 Copynumber: 4.4 Consensus size: 15
9160589 AAAATTGAAT
9160599 AATAAAACAAAATAAA
1 AATAAAACAAAAT-AA
*
9160615 AATAAAATAAAATAA
1 AATAAAACAAAATAA
*
9160630 AATAAAGA-AAAGTAA
1 AATAAA-ACAAAATAA
* *
9160645 AACAAAAATAAAAATAA
1 AA-TAAAA-CAAAATAA
9160662 AATAAA
1 AATAAA
9160668 GATAAAAAGA
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
15 17 0.39
16 19 0.43
17 8 0.18
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.14
Consensus pattern (15 bp):
AATAAAACAAAATAA
Found at i:9160621 original size:11 final size:11
Alignment explanation
Indices: 9160602--9160674 Score: 80
Period size: 11 Copynumber: 6.8 Consensus size: 11
9160592 ATTGAATAAT
*
9160602 AAAACAAAATA
1 AAAATAAAATA
9160613 AAAATAAAAT-
1 AAAATAAAATA
9160623 AAAATAAAATA
1 AAAATAAAATA
* *
9160634 AAGA-AAAGTA
1 AAAATAAAATA
9160644 AAACA-AAAATA
1 AAA-ATAAAATA
9160655 AAAATAAAATA
1 AAAATAAAATA
*
9160666 AAGATAAAA
1 AAAATAAAA
9160675 AGAATATTAA
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
10 18 0.34
11 35 0.66
ACGTcount: A:0.79, C:0.03, G:0.04, T:0.14
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:9160714 original size:11 final size:11
Alignment explanation
Indices: 9160698--9160742 Score: 63
Period size: 11 Copynumber: 4.0 Consensus size: 11
9160688 AAGCTAATCT
9160698 AATAAATAAAA
1 AATAAATAAAA
9160709 AATAAATAAAA
1 AATAAATAAAA
* *
9160720 AACAAATAATA
1 AATAAATAAAA
9160731 AATAAAATAAAA
1 AAT-AAATAAAA
9160743 CAATTCAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
11 22 0.76
12 7 0.24
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.18
Consensus pattern (11 bp):
AATAAATAAAA
Found at i:9161117 original size:19 final size:20
Alignment explanation
Indices: 9161076--9161118 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
9161066 CGGTTGAATA
* *
9161076 TTCACCGGATTCTGGGATTT
1 TTCACCGAAATCTGGGATTT
9161096 TTCACCGAAATCTGGG-TTT
1 TTCACCGAAATCTGGGATTT
9161115 TTCA
1 TTCA
9161119 TCTGAAGTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.40
Consensus pattern (20 bp):
TTCACCGAAATCTGGGATTT
Found at i:9162275 original size:7 final size:8
Alignment explanation
Indices: 9162260--9162337 Score: 88
Period size: 8 Copynumber: 9.5 Consensus size: 8
9162250 TCATTTTTCA
*
9162260 TTCACTTT
1 TTCATTTT
9162268 TTC-TTTT
1 TTCATTTT
*
9162275 TTCTTTTTT
1 TTC-ATTTT
9162284 TTCATTTT
1 TTCATTTT
9162292 TTCATTTT
1 TTCATTTT
9162300 TTCATCATTT
1 TTCAT--TTT
9162310 TTCATTTTT
1 TTCA-TTTT
9162319 TTCATTTT
1 TTCATTTT
9162327 TT-ATTTT
1 TTCATTTT
9162334 TTCA
1 TTCA
9162338 AGCATAGTAT
Statistics
Matches: 62, Mismatches: 2, Indels: 12
0.82 0.03 0.16
Matches are distributed among these distances:
7 13 0.21
8 27 0.44
9 14 0.23
10 7 0.11
11 1 0.02
ACGTcount: A:0.12, C:0.14, G:0.00, T:0.74
Consensus pattern (8 bp):
TTCATTTT
Found at i:9162281 original size:24 final size:25
Alignment explanation
Indices: 9162254--9162302 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
9162244 GAGTCCTCAT
9162254 TTTTCATTCACTTTTTC-TTTTTTC
1 TTTTCATTCACTTTTTCATTTTTTC
** *
9162278 TTTTTTTTCATTTTTTCATTTTTTC
1 TTTTCATTCACTTTTTCATTTTTTC
9162303 ATCATTTTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (25 bp):
TTTTCATTCACTTTTTCATTTTTTC
Found at i:9162286 original size:16 final size:17
Alignment explanation
Indices: 9162265--9162335 Score: 83
Period size: 17 Copynumber: 4.2 Consensus size: 17
9162255 TTTCATTCAC
9162265 TTTTTC-TTTTTTCTTT
1 TTTTTCATTTTTTCTTT
*
9162281 TTTTTCATTTTTTC-AT
1 TTTTTCATTTTTTCTTT
*
9162297 TTTTTCATCATTTTTCATT
1 TTTTTCAT--TTTTTCTTT
*
9162316 TTTTTCATTTTTTATTT
1 TTTTTCATTTTTTCTTT
9162333 TTT
1 TTT
9162336 CAAGCATAGT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
16 15 0.32
17 17 0.36
18 6 0.13
19 9 0.19
ACGTcount: A:0.10, C:0.11, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTCATTTTTTCTTT
Found at i:9162311 original size:35 final size:34
Alignment explanation
Indices: 9162272--9162337 Score: 114
Period size: 35 Copynumber: 1.9 Consensus size: 34
9162262 CACTTTTTCT
*
9162272 TTTTTCTTTTTTTTCATTTTTTCATTTTTTCATCA
1 TTTTTCATTTTTTTCATTTTTT-ATTTTTTCATCA
9162307 TTTTTCATTTTTTTCATTTTTTATTTTTTCA
1 TTTTTCATTTTTTTCATTTTTTATTTTTTCA
9162338 AGCATAGTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 9 0.30
35 21 0.70
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (34 bp):
TTTTTCATTTTTTTCATTTTTTATTTTTTCATCA
Found at i:9162335 original size:9 final size:9
Alignment explanation
Indices: 9162271--9162328 Score: 75
Period size: 9 Copynumber: 6.6 Consensus size: 9
9162261 TCACTTTTTC
*
9162271 TTTTTTCTT
1 TTTTTTCAT
9162280 TTTTTTCA-
1 TTTTTTCAT
9162288 TTTTTTCA-
1 TTTTTTCAT
9162296 TTTTTTCAT
1 TTTTTTCAT
*
9162305 CATTTTTCAT
1 -TTTTTTCAT
9162315 TTTTTTCAT
1 TTTTTTCAT
9162324 TTTTT
1 TTTTT
9162329 ATTTTTTCAA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
8 16 0.36
9 20 0.45
10 8 0.18
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.78
Consensus pattern (9 bp):
TTTTTTCAT
Found at i:9171233 original size:58 final size:59
Alignment explanation
Indices: 9171170--9171734 Score: 598
Period size: 58 Copynumber: 9.7 Consensus size: 59
9171160 TCTTGTGCAG
* *
9171170 GGAAAATTAATACTTTCAA-TTTTCTC-CAAAAATTGATTTTTTGAAA-TTTAATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCTCTCAAAAA-T-ATTTTTTGAAACTTTTATTTTTAA
* * * *
9171228 AGAAAATTGATACTTTCAACTTTTC-CCCAAAAAATATTTTTTTGGAAATTTTTATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCTCTC-AAAAATA-TTTTTT-GAAACTTTTATTTTTAA
* *
9171289 GGAAAATTGATACTTTCAACTTTTC-CTCAAAAATATTTTTTGAAACTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCTCTCAAAAATATTTTTTGAAACTTTTATTTTTAA
* *
9171347 GGAAAATTGATACTTTCAACTTTTC-CTAAAAAAAATCTTTTTTGAAA-TTTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCTCT--CAAAAATATTTTTTGAAACTTTTATTTTTAA
*
9171406 GGAAAATTGATACTTTCAACTTTT-TCT-AAAAA-A------AAAACCTTTT-TTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCTCTCAAAAATATTTTTTGAAA-CTTTTATTTTTAA
* * * *
9171456 GAAAAATTGATACTTTCAACTTTTC-CTCAAAAATATTTTTGGAAACTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCTCTCAAAAATATTTTTTGAAACTTTTATTTTTAA
* * * *
9171514 GGAAAATTGATACTTTCAAATTTTC-CTCAAAAAAACCTTTTTTTTAAAATTTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCTCTCAAAAATA---TTTTTTGAAACTTTTATTTTTAA
* * * *
9171575 GAAAAATTGATACTTTCAACTTTTC-CTCAAAAATATTTTTGGAAACTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCTCTCAAAAATATTTTTTGAAACTTTTATTTTTAA
* * * *
9171633 GGAAAATTGATACTTTCAAATTTTC-CTCAAAAAAACCTTTTTTTTAAAATTTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCTCTCAAAAATA---TTTTTTGAAACTTTTATTTTTAA
*
9171694 GAAAAATTGATACTTTCAACTTTTC-CTCAAAAATATTTTTT
1 GGAAAATTGATACTTTCAACTTTTCTCTCAAAAATATTTTTT
9171735 TTATTTTTAT
Statistics
Matches: 435, Mismatches: 45, Indels: 54
0.81 0.08 0.10
Matches are distributed among these distances:
49 3 0.01
50 32 0.07
51 9 0.02
52 1 0.00
56 5 0.01
57 4 0.01
58 158 0.36
59 55 0.13
60 32 0.07
61 136 0.31
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.44
Consensus pattern (59 bp):
GGAAAATTGATACTTTCAACTTTTCTCTCAAAAATATTTTTTGAAACTTTTATTTTTAA
Found at i:9171329 original size:119 final size:118
Alignment explanation
Indices: 9171170--9171735 Score: 700
Period size: 119 Copynumber: 4.8 Consensus size: 118
9171160 TCTTGTGCAG
* * * * *
9171170 GGAAAATTAATACTTTC-AATTTT-CTCCAAAAATTGATTTTTTGAAATTTAATTTTTAA-AGAA
1 GGAAAATTGATACTTTCAAATTTTCCTCAAAAAAAT--TTTTTTAAAATTTTATTTTTAAGA-AA
* * *
9171232 AATTGATACTTTCAACTTTTCCCCAAAAAATATTTTTTTGGAAATTTTTATTTTCAA
63 AATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTTGGAAACTTTGATTTTCAA
* * * * * * *
9171289 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAACTTTGATTTTCAAGGAAAAT
1 GGAAAATTGATACTTTCAAATTTTCCTCAAAAAAATTTTTTTAAAATTTTATTTTTAAGAAAAAT
* * * *
9171354 TGATACTTTCAACTTTTCCTAAAAAAAATCTTTTTT-GAAA-TTTTATTTTTAA
66 TGATACTTTCAACTTTTCCTCAAAAATAT-TTTTTTGGAAACTTTGATTTTCAA
* * *
9171406 GGAAAATTGATACTTTCAACTTTTTCT-AAAAAAA-------AAACCTTTT-TTTTTAAGAAAAA
1 GGAAAATTGATACTTTCAAATTTTCCTCAAAAAAATTTTTTTAAA-ATTTTATTTTTAAGAAAAA
9171462 TTGATACTTTCAACTTTTCCTCAAAAATA--TTTTTGGAAACTTTGATTTTCAA
65 TTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGGAAACTTTGATTTTCAA
9171514 GGAAAATTGATACTTTCAAATTTTCCTCAAAAAAACCTTTTTTTTAAAATTTTATTTTTAAGAAA
1 GGAAAATTGATACTTTCAAATTTTCCTCAAAAAAA---TTTTTTTAAAATTTTATTTTTAAGAAA
9171579 AATTGATACTTTCAACTTTTCCTCAAAAATA--TTTTTGGAAACTTTGATTTTCAA
63 AATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGGAAACTTTGATTTTCAA
9171633 GGAAAATTGATACTTTCAAATTTTCCTCAAAAAAACCTTTTTTTTAAAATTTTATTTTTAAGAAA
1 GGAAAATTGATACTTTCAAATTTTCCTCAAAAAAA---TTTTTTTAAAATTTTATTTTTAAGAAA
9171698 AATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
63 AATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
9171736 TATTTTTATT
Statistics
Matches: 399, Mismatches: 27, Indels: 40
0.86 0.06 0.09
Matches are distributed among these distances:
106 5 0.01
107 4 0.01
108 35 0.09
109 48 0.12
110 4 0.01
116 6 0.02
117 37 0.09
118 15 0.04
119 227 0.57
120 5 0.01
121 13 0.03
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.44
Consensus pattern (118 bp):
GGAAAATTGATACTTTCAAATTTTCCTCAAAAAAATTTTTTTAAAATTTTATTTTTAAGAAAAAT
TGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGGAAACTTTGATTTTCAA
Found at i:9171583 original size:286 final size:288
Alignment explanation
Indices: 9171172--9171726 Score: 845
Period size: 286 Copynumber: 1.9 Consensus size: 288
9171162 TTGTGCAGGG
* *
9171172 AAAATTAATACTTTCAATTTTCTCCAAAAATTGATTTTTTGAAATTTAATTTTTAAAGAAAATTG
1 AAAATTAATACTTTCAATTTTCTCCAAAAATTGATTTTTGGAAATTTAATTTTCAAAGAAAATTG
* * *
9171237 ATACTTTCAACTTTTCCCCAAAAAATATTTTTTTGGAAATTTTTATTTTCAAGGAAAATTGATAC
66 ATACTTTCAAATTTTCCCCAAAAAATATTTTTTTGGAAAATTTTATTTTCAAGAAAAATTGATAC
* *
9171302 TTTCAACTTTTCCTCAAAAATATTTTTTGAAACTTTGATTTTCAAGGAAAATTGATACTTTCAAC
131 TTTCAACTTTTCCTCAAAAATATTTTTGGAAACTTTGATTTTCAAGGAAAATTGATACTTTCAAA
* *
9171367 TTTTCCT-AAAAAAA-ATCTTTTTTGAAATTTTATTTTTAAGGAAAATTGATACTTTCAACTTTT
196 TTTTCCTCAAAAAAACATCTTTTTTAAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTT
*
9171430 TCTAAAAAAAAAACCTTTTTTTTTAAGA
261 CCTAAAAAAAAAACCTTTTTTTTTAAGA
* * *
9171458 AAAATTGATACTTTCAACTTTTC-CTCAAAAA-T-ATTTTTGGAAACTTTGATTTTCAAGGAAAA
1 AAAATTAATACTTTCAA-TTTTCTC-CAAAAATTGATTTTTGGAAA-TTTAATTTTCAAAGAAAA
* * *
9171520 TTGATACTTTCAAATTTTCCTCAAAAAA-ACCTTTTTTT-TAAAATTTTATTTTTAAGAAAAATT
63 TTGATACTTTCAAATTTTCCCCAAAAAATA--TTTTTTTGGAAAATTTTATTTTCAAGAAAAATT
9171583 GATACTTTCAACTTTTCCTCAAAAATATTTTTGGAAACTTTGATTTTCAAGGAAAATTGATACTT
126 GATACTTTCAACTTTTCCTCAAAAATATTTTTGGAAACTTTGATTTTCAAGGAAAATTGATACTT
* *
9171648 TCAAATTTTCCTCAAAAAAACCTTTTTTTTAAAATTTTATTTTTAAGAAAAATTGATACTTTCAA
191 TCAAATTTTCCTCAAAAAAACATCTTTTTTAAAATTTTATTTTTAAGAAAAATTGATACTTTCAA
*
9171713 CTTTTCCTCAAAAA
256 CTTTTCCTAAAAAA
9171727 TATTTTTTTT
Statistics
Matches: 243, Mismatches: 19, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
285 11 0.05
286 155 0.64
287 25 0.10
288 52 0.21
ACGTcount: A:0.37, C:0.12, G:0.06, T:0.44
Consensus pattern (288 bp):
AAAATTAATACTTTCAATTTTCTCCAAAAATTGATTTTTGGAAATTTAATTTTCAAAGAAAATTG
ATACTTTCAAATTTTCCCCAAAAAATATTTTTTTGGAAAATTTTATTTTCAAGAAAAATTGATAC
TTTCAACTTTTCCTCAAAAATATTTTTGGAAACTTTGATTTTCAAGGAAAATTGATACTTTCAAA
TTTTCCTCAAAAAAACATCTTTTTTAAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTT
CCTAAAAAAAAAACCTTTTTTTTTAAGA
Found at i:9171736 original size:61 final size:59
Alignment explanation
Indices: 9171445--9171734 Score: 379
Period size: 61 Copynumber: 4.9 Consensus size: 59
9171435 AAAAAAAACC
*
9171445 TTTT-TTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTGGAAAC
1 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAAA
* * * * * **
9171502 TTTGATTTTCAAGGAAAATTGATACTTTCAAATTTTCCTCAAAAAAACCTTTTTTTTAAAA
1 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATA--TTTTTTGGAAAA
*
9171563 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTGGAAAC
1 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAAA
* * * * * **
9171621 TTTGATTTTCAAGGAAAATTGATACTTTCAAATTTTCCTCAAAAAAACCTTTTTTTTAAAA
1 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATA--TTTTTTGGAAAA
9171682 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT
1 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT
9171735 TTATTTTTAT
Statistics
Matches: 197, Mismatches: 29, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
57 3 0.02
58 88 0.45
59 6 0.03
61 100 0.51
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.45
Consensus pattern (59 bp):
TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAAA
Found at i:9171784 original size:6 final size:5
Alignment explanation
Indices: 9171761--9171840 Score: 58
Period size: 5 Copynumber: 15.4 Consensus size: 5
9171751 AAAATTGAAT
*
9171761 AATAA AACAA AATAAA AATGAA AAT-A AA-AA AATAA AATAA AGA-AA
1 AATAA AATAA AAT-AA AAT-AA AATAA AATAA AATAA AATAA A-ATAA
* *
9171806 AGTAA AACAAA AATAAA AATAA AATAA AGATAA AA
1 AATAA AA-TAA AAT-AA AATAA AATAA A-ATAA AA
9171841 AGAATATTAA
Statistics
Matches: 60, Mismatches: 7, Indels: 16
0.72 0.08 0.19
Matches are distributed among these distances:
4 6 0.10
5 29 0.48
6 25 0.42
ACGTcount: A:0.79, C:0.03, G:0.05, T:0.14
Consensus pattern (5 bp):
AATAA
Found at i:9171784 original size:17 final size:15
Alignment explanation
Indices: 9171761--9171841 Score: 65
Period size: 17 Copynumber: 5.1 Consensus size: 15
9171751 AAAATTGAAT
9171761 AATAAAACAAAATAAA
1 AATAAAA-AAAATAAA
* *
9171777 AATGAAAATAA-AAA
1 AATAAAAAAAATAAA
* *
9171791 AATAAAATAAAGAAA
1 AATAAAAAAAATAAA
*
9171806 AGTAAAACAAAAATAAA
1 AAT-AAA-AAAAATAAA
9171823 AATAAAATAAAGATAAA
1 AATAAAA-AAA-ATAAA
9171840 AA
1 AA
9171842 GAATATTAAA
Statistics
Matches: 51, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
14 11 0.22
15 9 0.18
16 15 0.29
17 16 0.31
ACGTcount: A:0.79, C:0.02, G:0.05, T:0.14
Consensus pattern (15 bp):
AATAAAAAAAATAAA
Found at i:9171838 original size:11 final size:11
Alignment explanation
Indices: 9171764--9171908 Score: 75
Period size: 11 Copynumber: 12.8 Consensus size: 11
9171754 ATTGAATAAT
*
9171764 AAAACAAAATA
1 AAAATAAAATA
9171775 AAAATGAAAATAAA
1 AAAAT-AAAAT--A
9171789 AAAATAAAATA
1 AAAATAAAATA
* *
9171800 AAGA-AAAGTA
1 AAAATAAAATA
9171810 AAACA-AAAATA
1 AAA-ATAAAATA
9171821 AAAATAAAATA
1 AAAATAAAATA
*
9171832 AAGATAAAA-A
1 AAAATAAAATA
* *
9171842 GAATATTAAATA
1 -AAAATAAAATA
** **
9171854 AACCTAATCTA
1 AAAATAAAATA
9171865 ATAAATAAAA-A
1 A-AAATAAAATA
*
9171876 ATAAATAAAAAA
1 A-AAATAAAATA
9171888 ACAAATAATAA-A
1 A-AAATAA-AATA
9171900 AAAATAAAA
1 AAAATAAAA
9171909 AAATTCAAAA
Statistics
Matches: 106, Mismatches: 18, Indels: 21
0.73 0.12 0.14
Matches are distributed among these distances:
10 11 0.10
11 62 0.58
12 20 0.19
13 7 0.07
14 6 0.06
ACGTcount: A:0.76, C:0.04, G:0.03, T:0.17
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:9171843 original size:40 final size:40
Alignment explanation
Indices: 9171769--9171844 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
9171759 ATAATAAAAC
* * *
9171769 AAAATAAAAATGAAAATAAAAAAATAAAATAAAGAAAAGT
1 AAAACAAAAATAAAAATAAAAAAAGAAAATAAAGAAAAGT
*
9171809 AAAACAAAAATAAAAATAAAATAAAGATAA-AAAGAA
1 AAAACAAAAATAAAAATAAAA-AAAGAAAATAAAGAA
9171845 TATTAAATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 25 0.81
41 6 0.19
ACGTcount: A:0.79, C:0.01, G:0.07, T:0.13
Consensus pattern (40 bp):
AAAACAAAAATAAAAATAAAAAAAGAAAATAAAGAAAAGT
Found at i:9171904 original size:23 final size:23
Alignment explanation
Indices: 9171867--9171911 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
9171857 CTAATCTAAT
9171867 AAATAAAAAATAAATAAAAAAAC
1 AAATAAAAAATAAATAAAAAAAC
9171890 AAATAATAAAA-AAATAAAAAAA
1 AAATAA-AAAATAAATAAAAAAA
9171912 TTCAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.84, C:0.02, G:0.00, T:0.13
Consensus pattern (23 bp):
AAATAAAAAATAAATAAAAAAAC
Found at i:9171918 original size:10 final size:8
Alignment explanation
Indices: 9171867--9171925 Score: 50
Period size: 9 Copynumber: 7.1 Consensus size: 8
9171857 CTAATCTAAT
9171867 AAAT-AAA
1 AAATAAAA
9171874 AAATAAATA
1 AAATAAA-A
*
9171883 AAAAAACAA
1 AAATAA-AA
9171892 ATAATAAAA
1 A-AATAAAA
9171901 AAATAAAA
1 AAATAAAA
*
9171909 AAATTCAAA
1 AAA-TAAAA
9171918 AAA-AAAA
1 AAATAAAA
9171925 A
1 A
9171926 CCTGGAGTGG
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
7 8 0.19
8 12 0.28
9 18 0.42
10 5 0.12
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.14
Consensus pattern (8 bp):
AAATAAAA
Found at i:9182285 original size:16 final size:14
Alignment explanation
Indices: 9182253--9182279 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9182243 TTTTTCCCAA
9182253 AAATTGATTTTTTG
1 AAATTGATTTTTTG
9182267 AAATTGATTTTTT
1 AAATTGATTTTTT
9182280 AAGAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (14 bp):
AAATTGATTTTTTG
Found at i:9182375 original size:60 final size:60
Alignment explanation
Indices: 9182224--9182487 Score: 276
Period size: 59 Copynumber: 4.4 Consensus size: 60
9182214 CTTGTGCAGG
* * *
9182224 AAAAATTGATACTTTCAACTTTTTCC-CAAAAATTGA-TTTTTTGAAATTGATT-TTTT-AAG
1 AAAAATTGATACTTTCAAC-TTTTCCTCAAAAAAT-ATTTTTTTGAAATT-TTTATTTTCAAA
* *
9182283 AAAAATTGATACTTTCAACTTTTCCCCAAAAAATATTTTTTTGAAAATTTTTATTTTCAAG
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTTG-AAATTTTTATTTTCAAA
* * * *
9182344 GAAAATTGATACTTTCAACTTTTCCTCAAAAAAAACCTTTTTTGAAA-TTTTATTTTTAAA
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAAATA-TTTTTTTGAAATTTTTATTTTCAAA
* * ** *
9182404 GAAAATTGATACTTT-AATATTTTTTTC-AAAAATA--TTTTTGAAAATTTTGATTTTCAAA
1 AAAAATTGATACTTTCAA-CTTTTCCTCAAAAAATATTTTTTTG-AAATTTTTATTTTCAAA
9182462 AAAAATTGATACTTTCAACTTTTCCT
1 AAAAATTGATACTTTCAACTTTTCCT
9182488 TTATTAGGCA
Statistics
Matches: 177, Mismatches: 18, Indels: 21
0.82 0.08 0.10
Matches are distributed among these distances:
56 6 0.03
57 3 0.02
58 37 0.21
59 45 0.25
60 41 0.23
61 38 0.21
62 7 0.04
ACGTcount: A:0.38, C:0.11, G:0.06, T:0.45
Consensus pattern (60 bp):
AAAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTTGAAATTTTTATTTTCAAA
Found at i:9183654 original size:18 final size:19
Alignment explanation
Indices: 9183633--9183680 Score: 73
Period size: 18 Copynumber: 2.6 Consensus size: 19
9183623 AAAATCTTAA
9183633 AAATATATATTTAA-TTTT
1 AAATATATATTTAATTTTT
*
9183651 AAATATGTATTTAATTTTT
1 AAATATATATTTAATTTTT
9183670 AAA-ATATATTT
1 AAATATATATTT
9183681 TATAATAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 20 0.74
19 7 0.26
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (19 bp):
AAATATATATTTAATTTTT
Found at i:9184139 original size:14 final size:14
Alignment explanation
Indices: 9184120--9184146 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9184110 TATTTTTTTG
9184120 GTATTTTGTATTTC
1 GTATTTTGTATTTC
9184134 GTATTTTGTATTT
1 GTATTTTGTATTT
9184147 AATAATATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.04, G:0.15, T:0.67
Consensus pattern (14 bp):
GTATTTTGTATTTC
Found at i:9184396 original size:48 final size:47
Alignment explanation
Indices: 9184298--9185174 Score: 707
Period size: 48 Copynumber: 18.4 Consensus size: 47
9184288 CCTCTCACTT
* * *
9184298 GAGGCTCGACAACTTT-AAAATC-TCTTTTGGAAAAGCTTCTCTCAGCA
1 GAGGCTCAACAACTTTAAAAATCATC--TTGAAAAAGCTCCTCTCAGCA
* * * **
9184345 GAGGCTCAACAACTTTAAAAATCATCTTAAAAAAAACTCATCTCAATA
1 GAGGCTCAACAACTTTAAAAATCATCTT-GAAAAAGCTCCTCTCAGCA
* * *
9184393 GAGGCTTAACAACTTTAAAAATTCTCACCTTGAAAAAGCTCCTCTTAGCA
1 GAGGCTCAACAACTTTAAAAA---TCATCTTGAAAAAGCTCCTCTCAGCA
* * *
9184443 GAGACTTAACAATTTTTAAAAATTCTCATCTTGAAAAATGCTCCTCTCAGCA
1 GAGGCTCAACAA-CTTTAAAAA---TCATCTTGAAAAA-GCTCCTCTCAGCA
* ** * * *
9184495 GAGGCTGAATGACTTT-AAAATC-TCTTTTGGAAAAGCTCCTTTCAGTA
1 GAGGCTCAACAACTTTAAAAATCATC--TTGAAAAAGCTCCTCTCAGCA
* *
9184542 GAGGCTCAATAACTTTAAAAATC-TCATCTGAAAAAGCTCCTCTCAACA
1 GAGGCTCAACAACTTTAAAAATCATC-T-TGAAAAAGCTCCTCTCAGCA
* * *
9184590 GAGGCTTAACAACTTT--CAA--ATCTTGTAAAAGCTCCTCTCAGCA
1 GAGGCTCAACAACTTTAAAAATCATCTTGAAAAAGCTCCTCTCAGCA
* * *
9184633 GAGGCTTAACAACTTT--CAA--ATCTTGTAAAAGCTCCTCTCAGCA
1 GAGGCTCAACAACTTTAAAAATCATCTTGAAAAAGCTCCTCTCAGCA
* ** **
9184676 AAGGCTCAACAACTTTAAAAACTCATCTTGGAAAGGGCTCCTCTCAATA
1 GAGGCTCAACAACTTTAAAAA-TCATCTT-GAAAAAGCTCCTCTCAGCA
* * *
9184725 GAGGCTCAACAACTTTAAAAATC-TCATCT-AAACAAACTTCTCTCAACA
1 GAGGCTCAACAACTTTAAAAATCATC-T-TGAAA-AAGCTCCTCTCAGCA
* * * * * **
9184773 GAGGTTTAACAACTTTAAAATTCATCTTGAAAAGGGCTTCTCTCAATA
1 GAGGCTCAACAACTTTAAAAATCATCTTGAAAA-AGCTCCTCTCAGCA
* **
9184821 GAGGCTCAACAACTTTAAAAATC-TCATCTGAAAAAGCTCATCTCAATA
1 GAGGCTCAACAACTTTAAAAATCATC-T-TGAAAAAGCTCCTCTCAGCA
** * * * *
9184869 GAGATTTAATAACTTT-AAAATCCATCTTGAAAAGGGCTTCTCTCAGCA
1 GAGGCTCAACAACTTTAAAAAT-CATCTTGAAAA-AGCTCCTCTCAGCA
* *
9184917 GAGGCTCAACAACTTTAAAAATCATCTTGAAAAGGGCTCTTCTCAGCA
1 GAGGCTCAACAACTTTAAAAATCATCTTGAAAA-AGCTCCTCTCAGCA
* * *
9184965 GAGGCTCAACAACTTTAAAACTTTTAT-TTGAAAAAGCTCCTCCCAGCA
1 GAGGCTCAACAACTTTAAAA--ATCATCTTGAAAAAGCTCCTCTCAGCA
* * * * *
9185013 AAGGCTTAACAACTTT-AAAAT-ATCATGAAAAAGCTTCTCTTAGCA
1 GAGGCTCAACAACTTTAAAAATCATCTTGAAAAAGCTCCTCTCAGCA
* *
9185058 GAAGCTTAACAACTTTAAAAATCTCATCTTGGAAAAA-CTCCTCTCAGCA
1 GAGGCTCAACAACTTTAAAAA--TCATCTT-GAAAAAGCTCCTCTCAGCA
* * *
9185107 GAGGCTCAACAACTTTAAAATTTCATCTTGAAAAAGCTCATCTTAGCA
1 GAGGCTCAACAACTTTAAAA-ATCATCTTGAAAAAGCTCCTCTCAGCA
*
9185155 AAGGCTCAACAACTTTAAAA
1 GAGGCTCAACAACTTTAAAA
9185175 TCTCATTTTT
Statistics
Matches: 685, Mismatches: 104, Indels: 81
0.79 0.12 0.09
Matches are distributed among these distances:
43 75 0.11
44 3 0.00
45 36 0.05
46 8 0.01
47 74 0.11
48 309 0.45
49 91 0.13
50 37 0.05
51 32 0.05
52 20 0.03
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.28
Consensus pattern (47 bp):
GAGGCTCAACAACTTTAAAAATCATCTTGAAAAAGCTCCTCTCAGCA
Found at i:9184887 original size:144 final size:141
Alignment explanation
Indices: 9184306--9185180 Score: 826
Period size: 144 Copynumber: 6.1 Consensus size: 141
9184296 TTGAGGCTCG
* * * * *
9184306 ACAACTTTAAAATCTCTTTTGGAAAAGCTTCTCTCAGCAGAGGCTCAACAACTTTAAAAATCATC
1 ACAACTTTAAAATCTCATCT-AAAAAGCTTCTCTCAGCAGAGGCTTAACAACTTTAAAATTCATC
* * * ** * *
9184371 TTAAAAAAAACTCATCTCAATAGAGGCTTAACAACTTTAAAAATTCTCACCTTGAAAAAGCTCCT
65 TT--GAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAA-TCTCATCTTGAAAAAGCTCCT
* * *
9184436 CTTAGCAGAGACTTA
127 CTCAACAGAGGCTTA
* * * **
9184451 ACAATTTTTAAAAATTCTCATCTTGAAAAATGCTCCTCTCAGCAGAGGCTGAATGACTTTAAAAT
1 ACAA-CTTT-AAAA-TCTCATC-T-AAAAA-GCTTCTCTCAGCAGAGGCTTAACAACTTTAAAAT
* * * *
9184516 CTC-TTTTGGAAAAGCTCCTTTCAGTAGAGGCTCAATAACTTTAAAAATCTCATC-TGAAAAAGC
60 -TCATCTT-GAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGAAAAAGC
9184579 TCCTCTCAACAGAGGCTTA
123 TCCTCTCAACAGAGGCTTA
* * * *
9184598 ACAACTTTCAAATCT--TGT-AAAAGCTCCTCTCAGCAGAGGCTTAACAACTTT-CAA---ATCT
1 ACAACTTTAAAATCTCATCTAAAAAGCTTCTCTCAGCAGAGGCTTAACAACTTTAAAATTCATCT
* **
9184656 TGTAAAAGCTCCTCTCAGCAAAGGCTCAACAACTTTAAAAA-CTCATCTTGGAAAGGGCTCCTCT
66 TG-AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTT-GAAAAAGCTCCTCT
* *
9184720 CAATAGAGGCTCA
129 CAACAGAGGCTTA
* * *
9184733 ACAACTTTAAAAATCTCATCTAAACAAACTTCTCTCAACAGAGGTTTAACAACTTTAAAATTCAT
1 ACAACTTT-AAAATCTCATCTAAA-AAGCTTCTCTCAGCAGAGGCTTAACAACTTTAAAATTCAT
* ** *
9184798 CTTGAAAAGGGCTTCTCTCAATAGAGGCTCAACAACTTTAAAAATCTCATC-TGAAAAAGCTCAT
64 CTTGAAAA--GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGAAAAAGCTCCT
* **
9184862 CTCAATAGAGATTTA
127 CTCAACAGAGGCTTA
* * * *
9184877 ATAACTTTAAAATC-CATCTTGAAAAGGGCTTCTCTCAGCAGAGGCTCAACAACTTTAAAAATCA
1 ACAACTTTAAAATCTCATC-T-AAAA-AGCTTCTCTCAGCAGAGGCTTAACAACTTTAAAATTCA
* * * *
9184941 TCTTGAAAAGGGCTCTTCTCAGCAGAGGCTCAACAACTTTAAAACTTTTAT-TTGAAAAAGCTCC
63 TCTTGAAAA--GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGAAAAAGCTCC
* * *
9185005 TCCCAGCAAAGGCTTA
126 TCTCAACAGAGGCTTA
* * * *
9185021 ACAACTTTAAAATATCAT-GAAAAAGCTTCTCTTAGCAGAAGCTTAACAACTTTAAAAATCTCAT
1 ACAACTTTAAAATCTCATCTAAAAAGCTTCTCTCAGCAGAGGCTTAACAACTTT-AAAAT-TCAT
* * *
9185085 CTTGGAAAAACTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATTTCATCTTGAAAAAGCTCATC
64 CTT-GAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGAAAAAGCTCCTC
* * * *
9185149 TTAGCAAAGGCTCA
128 TCAACAGAGGCTTA
9185163 ACAACTTTAAAATCTCAT
1 ACAACTTTAAAATCTCAT
9185181 TTTTTCTTAA
Statistics
Matches: 606, Mismatches: 93, Indels: 65
0.79 0.12 0.09
Matches are distributed among these distances:
133 7 0.01
134 38 0.06
135 31 0.05
136 6 0.01
137 2 0.00
138 28 0.05
139 6 0.01
140 27 0.04
141 37 0.06
142 82 0.14
143 19 0.03
144 154 0.25
145 41 0.07
146 12 0.02
147 33 0.05
148 11 0.02
149 38 0.06
150 32 0.05
151 2 0.00
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.28
Consensus pattern (141 bp):
ACAACTTTAAAATCTCATCTAAAAAGCTTCTCTCAGCAGAGGCTTAACAACTTTAAAATTCATCT
TGAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGAAAAAGCTCCTCTCA
ACAGAGGCTTA
Found at i:9195788 original size:18 final size:17
Alignment explanation
Indices: 9195755--9195798 Score: 63
Period size: 18 Copynumber: 2.6 Consensus size: 17
9195745 TGAAAAAAAC
*
9195755 GTTTTGT-TTTTTTTTT
1 GTTTTGTATTTTATTTT
9195771 GTTTTGATATTTTATTTT
1 GTTTTG-TATTTTATTTT
9195789 GTTTTGTATT
1 GTTTTGTATT
9195799 ACAAACAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 6 0.24
17 5 0.20
18 14 0.56
ACGTcount: A:0.09, C:0.00, G:0.14, T:0.77
Consensus pattern (17 bp):
GTTTTGTATTTTATTTT
Found at i:9196243 original size:16 final size:15
Alignment explanation
Indices: 9196222--9196251 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
9196212 ATTTTTTGCT
9196222 TTTTATTTTTGATTTG
1 TTTTATTTTT-ATTTG
9196238 TTTTATTTTTATTT
1 TTTTATTTTTATTT
9196252 TTTACCTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.13, C:0.00, G:0.07, T:0.80
Consensus pattern (15 bp):
TTTTATTTTTATTTG
Found at i:9196461 original size:10 final size:11
Alignment explanation
Indices: 9196442--9196493 Score: 50
Period size: 11 Copynumber: 4.4 Consensus size: 11
9196432 TATTAAATAC
9196442 AAAATACAAAA
1 AAAATACAAAA
*
9196453 AAAATCAAATAATA
1 AAAAT-ACA-AA-A
*
9196467 CAAAATACCAAA
1 -AAAATACAAAA
9196479 AAAATACAAAA
1 AAAATACAAAA
9196490 AAAA
1 AAAA
9196494 GAAAAAATAG
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
11 19 0.58
12 3 0.09
13 4 0.12
14 2 0.06
15 5 0.15
ACGTcount: A:0.77, C:0.12, G:0.00, T:0.12
Consensus pattern (11 bp):
AAAATACAAAA
Found at i:9196468 original size:26 final size:27
Alignment explanation
Indices: 9196437--9196488 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 27
9196427 ATTATTATTA
9196437 AATACAAAATACAAAAAAAAT-CAAAT
1 AATACAAAATACAAAAAAAATACAAAT
*
9196463 AATACAAAATACCAAAAAAATACAAA
1 AATACAAAATACAAAAAAAATACAAA
9196489 AAAAAGAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.73, C:0.13, G:0.00, T:0.13
Consensus pattern (27 bp):
AATACAAAATACAAAAAAAATACAAAT
Found at i:9196498 original size:18 final size:17
Alignment explanation
Indices: 9196442--9196502 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 17
9196432 TATTAAATAC
9196442 AAAATACAAAAAAAATCAA
1 AAAATACAAAAAAAA--AA
* **
9196461 ATAATACAAAATACCAAA
1 AAAATACAAAA-AAAAAA
9196479 AAAATACAAAAAAAAGAA
1 AAAATACAAAAAAAA-AA
9196497 AAAATA
1 AAAATA
9196503 GGGATGGCAG
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
17 2 0.06
18 20 0.59
19 10 0.29
20 2 0.06
ACGTcount: A:0.77, C:0.10, G:0.02, T:0.11
Consensus pattern (17 bp):
AAAATACAAAAAAAAAA
Found at i:9201226 original size:24 final size:24
Alignment explanation
Indices: 9201198--9201245 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
9201188 GGGGAAGGAG
*
9201198 GAAAAA-AACAAAAAAAAAAAAGA
1 GAAAAAGAAAAAAAAAAAAAAAGA
* *
9201221 GAAAAAGAAAAAGAAAAAGAAAGA
1 GAAAAAGAAAAAAAAAAAAAAAGA
9201245 G
1 G
9201246 CTTTCTTAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.81, C:0.02, G:0.17, T:0.00
Consensus pattern (24 bp):
GAAAAAGAAAAAAAAAAAAAAAGA
Found at i:9201239 original size:6 final size:6
Alignment explanation
Indices: 9201198--9201242 Score: 51
Period size: 6 Copynumber: 7.7 Consensus size: 6
9201188 GGGGAAGGAG
9201198 GAAAAA -AACAAA -AAAAA -AAAAGA GAAAAA GAAAAA GAAAAA GAAA
1 GAAAAA GAA-AAA GAAAAA GAAAA-A GAAAAA GAAAAA GAAAAA GAAA
9201243 GAGCTTTCTT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
5 9 0.25
6 23 0.64
7 4 0.11
ACGTcount: A:0.84, C:0.02, G:0.13, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:9201941 original size:90 final size:89
Alignment explanation
Indices: 9201764--9201951 Score: 270
Period size: 90 Copynumber: 2.1 Consensus size: 89
9201754 AAAAAGAAGG
* *
9201764 AAGCCATGTAAAGAAGAAAATAAAGCTTTGTGGGGCTACATGGTTGCATGACTTTTAAGATTGAA
1 AAGCCATCTAAAGAAGAAAACAAAGCTTTGTGGGGCTACATGGTTGCATGACTTTTAAGATTGAA
**
9201829 GAATATAAGGAATATTAAAAAAAGA
66 GAATATAAAAAATATTAAAAAAA-A
* *
9201854 AAGCCATCTAAAGAAGAAAACAAAGCTTTGTGGGGCTACATGGGTTGCATGATTTTTAGGATTGA
1 AAGCCATCTAAAGAAGAAAACAAAGCTTTGTGGGGCTACAT-GGTTGCATGACTTTTAAGATTGA
*
9201919 ATAATGGA-AAAAAATATTAAAAAAAA
65 AGAAT--ATAAAAAATATTAAAAAAAA
9201945 AAGCCAT
1 AAGCCAT
9201952 GGTGTGAGGA
Statistics
Matches: 88, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
90 39 0.44
91 33 0.38
92 15 0.17
93 1 0.01
ACGTcount: A:0.45, C:0.09, G:0.21, T:0.25
Consensus pattern (89 bp):
AAGCCATCTAAAGAAGAAAACAAAGCTTTGTGGGGCTACATGGTTGCATGACTTTTAAGATTGAA
GAATATAAAAAATATTAAAAAAAA
Found at i:9202343 original size:27 final size:27
Alignment explanation
Indices: 9202313--9202368 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
9202303 TTTTCATGTG
*
9202313 TTAATCTTAATTATACTTATATTTTAT
1 TTAATCTTAATCATACTTATATTTTAT
9202340 TTAATCTTAATCATACTTATATTTTAT
1 TTAATCTTAATCATACTTATATTTTAT
9202367 TT
1 TT
9202369 TATGTTGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.59
Consensus pattern (27 bp):
TTAATCTTAATCATACTTATATTTTAT
Found at i:9203327 original size:21 final size:21
Alignment explanation
Indices: 9203302--9203384 Score: 60
Period size: 21 Copynumber: 3.7 Consensus size: 21
9203292 CCAATTCGAT
9203302 TTTTATTTTGTATTATTTTTA
1 TTTTATTTTGTATTATTTTTA
* * *
9203323 TTTTATTTT-TTTTCTATTGTA
1 TTTTATTTTGTATTAT-TTTTA
*
9203344 TTTTATGTATTTTATTATTTATTTA
1 TTTTAT-T-TTGTATTA-TT-TTTA
*
9203369 TTATTATTATGTATTA
1 TT-TTATTTTGTATTA
9203385 ATATATGTAT
Statistics
Matches: 47, Mismatches: 8, Indels: 11
0.71 0.12 0.17
Matches are distributed among these distances:
20 4 0.09
21 19 0.40
22 1 0.02
23 2 0.04
24 10 0.21
25 7 0.15
26 4 0.09
ACGTcount: A:0.22, C:0.01, G:0.05, T:0.72
Consensus pattern (21 bp):
TTTTATTTTGTATTATTTTTA
Found at i:9203334 original size:14 final size:14
Alignment explanation
Indices: 9203301--9203376 Score: 53
Period size: 16 Copynumber: 4.9 Consensus size: 14
9203291 CCCAATTCGA
*
9203301 TTTTTATTTTGTATTA
1 TTTTTA-TTT-TATTT
9203317 TTTTTATTTTATTTT
1 TTTTTATTTTA-TTT
*
9203332 TTTTCTATTGTATTT
1 TTTT-TATTTTATTT
* *
9203347 TATGTATTTTATTAT
1 TTTTTATTTTATT-T
9203362 TTATTTATTATTATT
1 TT-TTTATT-TTATT
9203377 ATGTATTAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
14 10 0.21
15 16 0.33
16 17 0.35
17 5 0.10
ACGTcount: A:0.20, C:0.01, G:0.04, T:0.75
Consensus pattern (14 bp):
TTTTTATTTTATTT
Found at i:9203367 original size:4 final size:4
Alignment explanation
Indices: 9203319--9203484 Score: 51
Period size: 4 Copynumber: 40.5 Consensus size: 4
9203309 TTGTATTATT
*
9203319 TTTA TTTTA TTT- TTT- TTCTA TTGTA TTTTA TGTA TTT- TATTA TTTA
1 TTTA -TTTA TTTA TTTA TT-TA TT-TA -TTTA TTTA TTTA T-TTA TTTA
* * * * * *
9203365 TTTA -TTA -TTA -TTA TGTA TTAA TATA TGTA TATC TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * * * * *
9203410 TTTT TTTC TGTTA -ATA TTTA TATGTA TTTTA TTTA TATA GTTA TATA
1 TTTA TTTA T-TTA TTTA TTTA T-T-TA -TTTA TTTA TTTA TTTA TTTA
9203457 TTTA -TTA TTATA TTATAA TTTA TTTA TT
1 TTTA TTTA TT-TA TT-T-A TTTA TTTA TT
9203485 ATTATTATTA
Statistics
Matches: 123, Mismatches: 24, Indels: 29
0.70 0.14 0.16
Matches are distributed among these distances:
3 20 0.16
4 71 0.58
5 23 0.19
6 8 0.07
7 1 0.01
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (4 bp):
TTTA
Done.