Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032251.1 Gossypioides kirkii chromosome KI_09
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: 38743931
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2800 characters in sequence are not A, C, G, or T
File 129 of 144
Found at i:31953721 original size:15 final size:15
Alignment explanation
Indices: 31953663--31953715 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
31953653 TATTATAATT
* *
31953663 TTTTATATATTTTAA
1 TTTTATAAATTTAAA
*
31953678 TTATATATAACTTTAAA
1 TT-T-TATAAATTTAAA
*
31953695 TTTTATAAATTTATA
1 TTTTATAAATTTAAA
31953710 TTTTAT
1 TTTTAT
31953716 TTATTTTTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
15 18 0.58
16 2 0.06
17 11 0.35
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (15 bp):
TTTTATAAATTTAAA
Found at i:31961478 original size:24 final size:25
Alignment explanation
Indices: 31961451--31961505 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 25
31961441 ACTTAGTACT
* *
31961451 TTTAAAAGTCTAA-ACGCATTAAAA
1 TTTAAAAGTCAAATACCCATTAAAA
*
31961475 TTT-AAAGTCAAATACCCATTAATA
1 TTTAAAAGTCAAATACCCATTAAAA
31961499 TTTAAAA
1 TTTAAAA
31961506 CCCAAATTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 8 0.31
24 15 0.58
25 3 0.12
ACGTcount: A:0.49, C:0.13, G:0.05, T:0.33
Consensus pattern (25 bp):
TTTAAAAGTCAAATACCCATTAAAA
Found at i:31962653 original size:18 final size:18
Alignment explanation
Indices: 31962630--31962672 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
31962620 GAATAGGTTT
31962630 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
*
31962648 TTAATTAAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
31962666 TTAATTA
1 TTAATTA
31962673 CACATTGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:31964106 original size:30 final size:30
Alignment explanation
Indices: 31964070--31964138 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 30
31964060 AGACATGAAT
*
31964070 TTTAATTTGGTACAATTAGATACGT-GAAAC
1 TTTAATTTGGTACAAATAGATAC-TAGAAAC
* * *
31964100 TTTAATTGTTGTTCAAATATATACTAGAAAC
1 TTTAATT-TGGTACAAATAGATACTAGAAAC
31964131 TTTAATTT
1 TTTAATTT
31964139 TGATTTATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
30 9 0.27
31 24 0.73
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.43
Consensus pattern (30 bp):
TTTAATTTGGTACAAATAGATACTAGAAAC
Found at i:31975643 original size:173 final size:173
Alignment explanation
Indices: 31975354--31975699 Score: 665
Period size: 173 Copynumber: 2.0 Consensus size: 173
31975344 TCACCTTCTT
*
31975354 AATTTATTTGATTATTGAATATTTTATATGTTCACATGTTACTCTTATATATTCCAAGATTGTAT
1 AATTTATTTGATTATTGAATATTTTATATGTTCACATGTTACTCTTACATATTCCAAGATTGTAT
31975419 AGACCTTTTAGTTACAATCATGATGTGCACAGTAGTGCATTGATCTCTATTCTAAATTCTTTCAT
66 AGACCTTTTAGTTACAATCATGATGTGCACAGTAGTGCATTGATCTCTATTCTAAATTCTTTCAT
31975484 CTGTTTAACTTGTCCATGATGTTTTGAAACCTTCTCTGTATAG
131 CTGTTTAACTTGTCCATGATGTTTTGAAACCTTCTCTGTATAG
* *
31975527 AATTTATTTGATTATTGAATATTTTATATGTTTACATGTTACTCTTACATATTCCAAGATTGTGT
1 AATTTATTTGATTATTGAATATTTTATATGTTCACATGTTACTCTTACATATTCCAAGATTGTAT
31975592 AGACCTTTTAGTTACAATCATGATGTGCACAGTAGTGCATTGATCTCTATTCTAAATTCTTTCAT
66 AGACCTTTTAGTTACAATCATGATGTGCACAGTAGTGCATTGATCTCTATTCTAAATTCTTTCAT
31975657 CTGTTTAACTTGTCCATGATGTTTTGAAACCTTCTCTGTATAG
131 CTGTTTAACTTGTCCATGATGTTTTGAAACCTTCTCTGTATAG
31975700 GTTACTGGTT
Statistics
Matches: 170, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
173 170 1.00
ACGTcount: A:0.27, C:0.15, G:0.13, T:0.45
Consensus pattern (173 bp):
AATTTATTTGATTATTGAATATTTTATATGTTCACATGTTACTCTTACATATTCCAAGATTGTAT
AGACCTTTTAGTTACAATCATGATGTGCACAGTAGTGCATTGATCTCTATTCTAAATTCTTTCAT
CTGTTTAACTTGTCCATGATGTTTTGAAACCTTCTCTGTATAG
Found at i:31981059 original size:22 final size:21
Alignment explanation
Indices: 31981026--31981067 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
31981016 ATTTTAACAA
*
31981026 TCGAATTCAATATGAAAATTTT
1 TCGAATTCAATA-AAAAATTTT
31981048 TCGAA-TCGAATAAAAAATTT
1 TCGAATTC-AATAAAAAATTT
31981068 AACTAGTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.36
Consensus pattern (21 bp):
TCGAATTCAATAAAAAATTTT
Found at i:32000222 original size:19 final size:19
Alignment explanation
Indices: 32000194--32000235 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
32000184 TTGGAAATAA
32000194 GCCA-TTAATAAATTTTGT
1 GCCATTTAATAAATTTTGT
* *
32000212 GCCATTTAATAACTTTTTT
1 GCCATTTAATAAATTTTGT
32000231 GCCAT
1 GCCAT
32000236 AACCCCCCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.29, C:0.17, G:0.10, T:0.45
Consensus pattern (19 bp):
GCCATTTAATAAATTTTGT
Found at i:32006157 original size:22 final size:23
Alignment explanation
Indices: 32006122--32006165 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
32006112 AATACTCATA
* *
32006122 TTTATATTATTAAATATTAATAT
1 TTTATACTATTAAAAATTAATAT
32006145 TTTATACTA-TAAAAATTAATA
1 TTTATACTATTAAAAATTAATA
32006166 GCAAGAAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
TTTATACTATTAAAAATTAATAT
Found at i:32007872 original size:42 final size:43
Alignment explanation
Indices: 32007816--32007903 Score: 142
Period size: 43 Copynumber: 2.1 Consensus size: 43
32007806 TTCATAAAAG
* *
32007816 AAAAAATAGTTAGTGGGTCA-GCAAATGCACTGAAGAGTTATA
1 AAAAAATAGTTAGTGGGTCAGGCAAATGCACTAAAGAGCTATA
*
32007858 AAAAAATAGTTAGTGGGTCAGGGAAATGCACTAAAGAGCTATA
1 AAAAAATAGTTAGTGGGTCAGGCAAATGCACTAAAGAGCTATA
32007901 AAA
1 AAA
32007904 TCTGACTTTG
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
42 20 0.48
43 22 0.52
ACGTcount: A:0.45, C:0.09, G:0.24, T:0.22
Consensus pattern (43 bp):
AAAAAATAGTTAGTGGGTCAGGCAAATGCACTAAAGAGCTATA
Found at i:32008032 original size:22 final size:22
Alignment explanation
Indices: 32007988--32008032 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
32007978 TTTCTTTTAG
* * *
32007988 TTTTCAAAATATCTTAATTGAA
1 TTTTCAAAATATATGAATCGAA
*
32008010 TTTTTAAAATATATGAATCGAA
1 TTTTCAAAATATATGAATCGAA
32008032 T
1 T
32008033 ATCGCATCAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.44
Consensus pattern (22 bp):
TTTTCAAAATATATGAATCGAA
Found at i:32026472 original size:17 final size:16
Alignment explanation
Indices: 32026450--32026489 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
32026440 AGGCATAGTA
32026450 TAAATTTACAAAAAAAC
1 TAAATTTA-AAAAAAAC
* *
32026467 TAAATTGAAAAAAAAT
1 TAAATTTAAAAAAAAC
32026483 TAAATTT
1 TAAATTT
32026490 TGGGGAGGCC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (16 bp):
TAAATTTAAAAAAAAC
Found at i:32029279 original size:11 final size:12
Alignment explanation
Indices: 32029246--32029304 Score: 50
Period size: 11 Copynumber: 4.9 Consensus size: 12
32029236 ATATTAGTTA
32029246 ATAATAATAA-T
1 ATAATAATAATT
*
32029257 ATAATACTAATT
1 ATAATAATAATT
32029269 A-AATAATAATTT
1 ATAATAATAA-TT
* *
32029281 ATATTATTATATT
1 ATAATAATA-ATT
*
32029294 ATAATATTAAT
1 ATAATAATAAT
32029305 AAATTAAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
11 16 0.41
12 7 0.18
13 15 0.38
14 1 0.03
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (12 bp):
ATAATAATAATT
Found at i:32034826 original size:7 final size:7
Alignment explanation
Indices: 32034817--32034854 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
32034807 ATGAGCTGTT
*
32034817 CATGGTT
1 CATGGTC
32034824 CATGGTC
1 CATGGTC
32034831 CATGGTC
1 CATGGTC
32034838 CATGGTC
1 CATGGTC
32034845 CATGGTC
1 CATGGTC
32034852 CAT
1 CAT
32034855 TTTGTTTGGC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.16, C:0.26, G:0.26, T:0.32
Consensus pattern (7 bp):
CATGGTC
Found at i:32037415 original size:15 final size:17
Alignment explanation
Indices: 32037395--32037429 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
32037385 GTTTTAATTT
32037395 TATTAAATTA-ATA-AA
1 TATTAAATTACATATAA
32037410 TATTAAATTACATATAA
1 TATTAAATTACATATAA
32037427 TAT
1 TAT
32037430 ATTTTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 10 0.56
16 3 0.17
17 5 0.28
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (17 bp):
TATTAAATTACATATAA
Found at i:32043582 original size:63 final size:63
Alignment explanation
Indices: 32043508--32043639 Score: 210
Period size: 63 Copynumber: 2.1 Consensus size: 63
32043498 ACTAAACCCC
* * * * *
32043508 AAACTCATAACCCATAATTTCGAACCCTTGAATCATAAATTTGAATATTGAACCTTGAACTCA
1 AAACTCATAACCCATAACTCCGAACCCTTGAATCATAAACTTGAACATTGAACCTTAAACTCA
*
32043571 AAACTCATAACCTATAACTCCGAACCCTTGAATCATAAACTTGAACATTGAACCTTAAACTCA
1 AAACTCATAACCCATAACTCCGAACCCTTGAATCATAAACTTGAACATTGAACCTTAAACTCA
32043634 AAACTC
1 AAACTC
32043640 GAATCCAAAT
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.41, C:0.25, G:0.07, T:0.27
Consensus pattern (63 bp):
AAACTCATAACCCATAACTCCGAACCCTTGAATCATAAACTTGAACATTGAACCTTAAACTCA
Found at i:32043811 original size:24 final size:26
Alignment explanation
Indices: 32043780--32043831 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
32043770 TTACTATTTT
*
32043780 AAAAATTAA-TTAC-ACAAAAATAAA
1 AAAAATTAACTTACGACAAAAACAAA
*
32043804 AAAAATTAACTTACGAGAAAAACAAA
1 AAAAATTAACTTACGACAAAAACAAA
32043830 AA
1 AA
32043832 TGATTAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 9 0.38
25 4 0.17
26 11 0.46
ACGTcount: A:0.69, C:0.10, G:0.04, T:0.17
Consensus pattern (26 bp):
AAAAATTAACTTACGACAAAAACAAA
Found at i:32048346 original size:17 final size:17
Alignment explanation
Indices: 32048324--32048360 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
32048314 AATAAGAGTC
32048324 AAATTATATAAATATGT
1 AAATTATATAAATATGT
32048341 AAATTATATAAATATGT
1 AAATTATATAAATATGT
32048358 AAA
1 AAA
32048361 GATTGAGGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (17 bp):
AAATTATATAAATATGT
Found at i:32053342 original size:22 final size:22
Alignment explanation
Indices: 32053316--32053359 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
32053306 ATAATCTTAA
*
32053316 ATTTTAGA-CTATTTTATTTTTT
1 ATTTTA-ATCTATTTAATTTTTT
32053338 ATTTTAATCTATTTAATTTTTT
1 ATTTTAATCTATTTAATTTTTT
32053360 TCAAATAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 1 0.05
22 19 0.95
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.68
Consensus pattern (22 bp):
ATTTTAATCTATTTAATTTTTT
Found at i:32057846 original size:16 final size:17
Alignment explanation
Indices: 32057820--32057854 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
32057810 CCCTATTTTT
32057820 ATTTCTTTTATTTCAAA
1 ATTTCTTTTATTTCAAA
*
32057837 ATTT-TTTTATTTTAAA
1 ATTTCTTTTATTTCAAA
32057853 AT
1 AT
32057855 ACAATTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (17 bp):
ATTTCTTTTATTTCAAA
Found at i:32064809 original size:16 final size:16
Alignment explanation
Indices: 32064788--32064820 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
32064778 CTCTTAATTT
32064788 AAAGTCAAGAGGGCTC
1 AAAGTCAAGAGGGCTC
32064804 AAAGTCAAGAGGGCTC
1 AAAGTCAAGAGGGCTC
32064820 A
1 A
32064821 CACATAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.18, G:0.30, T:0.12
Consensus pattern (16 bp):
AAAGTCAAGAGGGCTC
Found at i:32068566 original size:113 final size:110
Alignment explanation
Indices: 32068359--32068609 Score: 296
Period size: 113 Copynumber: 2.3 Consensus size: 110
32068349 TTTGGTGTTA
*
32068359 GCCATTGCATGGTCGACACCACCTTTTTGTCAGATAATTTTTTTTCTGGTGTTGGCTATGCATTG
1 GCCATTACATGGTCGACACCACCTTTTTGTCAGATAATTTTTTTTCTGGTGTTGGCTATGCATTG
* * * * *
32068424 GCCGACACTATCTTTTTATCTGATAAAAAATTAATTTTTTTATTG
66 ACCGACACCACCTTTTTATCTGAGAAAAAAATAATTTTTTTATTG
32068469 GCCATTACATGGTCGACACC-CTCTTTTTGTCAGATAAAAATATTTTTTT-TGGTGTTGG-TCAT
1 GCCATTACATGGTCGACACCAC-CTTTTTGTCAGAT---AAT-TTTTTTTCTGGTGTTGGCT-AT
* * *
32068531 GCCTTGACCGACACCACCTTTTTTATCTG-GAAAAAAATAATTTTTTGTGTTA
60 GCATTGACCGACACCACC-TTTTTATCTGAGAAAAAAATAATTTTTT-TATTG
* *
32068583 GCCATTGCAT-GCCGACACCACCTTTTT
1 GCCATTACATGGTCGACACCACCTTTTT
32068610 TATTTGGTAA
Statistics
Matches: 121, Mismatches: 11, Indels: 15
0.82 0.07 0.10
Matches are distributed among these distances:
109 1 0.01
110 32 0.26
112 1 0.01
113 57 0.47
114 30 0.25
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.41
Consensus pattern (110 bp):
GCCATTACATGGTCGACACCACCTTTTTGTCAGATAATTTTTTTTCTGGTGTTGGCTATGCATTG
ACCGACACCACCTTTTTATCTGAGAAAAAAATAATTTTTTTATTG
Found at i:32068682 original size:60 final size:59
Alignment explanation
Indices: 32068397--32068887 Score: 404
Period size: 59 Copynumber: 8.3 Consensus size: 59
32068387 GTCAGATAAT
* * *
32068397 TTTTTTTCTGGTGTTGGCTA-TGCATTGGCCGACACTATCTTTTTATCTGATAAAAAATTAA
1 TTTTTTT-T-GTGTTGGCCATTGCA-TGGCCGACACCACCTTTTTATCTGATAAAAAATTAA
* * * * *
32068458 --TTTTTT-TATTGGCCATTACATGGTCGACACC-CTCTTTTTGTCAGAT-AAAAA-T-A
1 TTTTTTTTGTGTTGGCCATTGCATGGCCGACACCAC-CTTTTTATCTGATAAAAAATTAA
* * *
32068511 TTTTTTTTGGTGTTGGTCA-TGCCTTGACCGACACCACCTTTTTTATCTGGA-AAAAAA-TAA
1 TTTTTTTT-GTGTTGGCCATTG-CATGGCCGACACCACC-TTTTTATCT-GATAAAAAATTAA
* * *
32068571 --TTTTTTGTGTTAGCCATTGCAT-GCCGACACCACCTTTTTTATTTGGTAAAAAATTAA
1 TTTTTTTTGTGTTGGCCATTGCATGGCCGACACCACC-TTTTTATCTGATAAAAAATTAA
* *
32068628 TTTTTTTTGTGTTGGCCATTGCATGGCCGACACCACCTATTTATCTGATAAAAAATCAA
1 TTTTTTTTGTGTTGGCCATTGCATGGCCGACACCACCTTTTTATCTGATAAAAAATTAA
* * * * * * *
32068687 ATTTTTTGGTGTTAGCCATTACATGGCCAACACCACCTTTTTTATCTGGTAAAAAATCAAA
1 TTTTTTTTGTGTTGGCCATTGCATGGCCGACACCACC-TTTTTATCTGATAAAAAAT-TAA
* * * *
32068748 TTTTTTTTGTGTTGGCCA-TGCATTGGCTGACACTACCTATTTTATCAGAT-AAAAATCAA
1 TTTTTTTTGTGTTGGCCATTGCA-TGGCCGACACCACCT-TTTTATCTGATAAAAAATTAA
** ** * *
32068807 TTTTTTTTTGTGTTGGCCA-TGCATTGGTTGACACCATTTTTTTTATCTGTTAAAAAATCAAA
1 -TTTTTTTTGTGTTGGCCATTGCA-TGGCCGACACCA-CCTTTTTATCTGATAAAAAAT-TAA
*
32068869 TATTTTTTGTGTTGGCCAT
1 TTTTTTTTGTGTTGGCCAT
32068888 CAACGGCGGT
Statistics
Matches: 350, Mismatches: 53, Indels: 53
0.77 0.12 0.12
Matches are distributed among these distances:
53 1 0.00
54 1 0.00
55 12 0.03
56 54 0.15
57 34 0.10
58 17 0.05
59 86 0.25
60 82 0.23
61 61 0.17
62 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.42
Consensus pattern (59 bp):
TTTTTTTTGTGTTGGCCATTGCATGGCCGACACCACCTTTTTATCTGATAAAAAATTAA
Found at i:32068850 original size:121 final size:119
Alignment explanation
Indices: 32068397--32068887 Score: 465
Period size: 121 Copynumber: 4.2 Consensus size: 119
32068387 GTCAGATAAT
* * * * *
32068397 TTTTTTTCTGGTGTTGGCTATGCATTGGCCGACACTATCT-TTTTATCTGATAAAAAATTAA-TT
1 TTTTTTT-T-GTGTTGGCCATGCATTGGCCGACACCACCTATTTTATCAGAT-AAAAATCAATTT
* * * * * * *
32068460 TTTT-TATTGGCCATTACATGGTCGACA-C-CCTCTTTTTGTCAGAT-AAAAAT---A
63 TTTTGTGTTAGCCATTGCATGGCCGACACCACCT-TTTTTATCTGGTAAAAAATCAAA
* * * * * *
32068511 TTTTTTTTGGTGTTGGTCATGCCTTGACCGACACCACCTTTTTTATCTGGAAAAAAAT-AA-TTT
1 TTTTTTTT-GTGTTGGCCATGCATTGGCCGACACCACCTATTTTATC-AGATAAAAATCAATTTT
* *
32068574 TTTGTGTTAGCCATTGCAT-GCCGACACCACCTTTTTTATTTGGTAAAAAAT-TAA
64 TTTGTGTTAGCCATTGCATGGCCGACACCACCTTTTTTATCTGGTAAAAAATCAAA
*
32068628 TTTTTTTTGTGTTGGCCATTGCA-TGGCCGACACCACCTA-TTTATCTGATAAAAAATCAAATTT
1 TTTTTTTTGTGTTGGCCA-TGCATTGGCCGACACCACCTATTTTATCAGAT-AAAAATC-AATTT
* * *
32068691 TTTGGTGTTAGCCATTACATGGCCAACACCACCTTTTTTATCTGGTAAAAAATCAAA
63 TTTTGTGTTAGCCATTGCATGGCCGACACCACCTTTTTTATCTGGTAAAAAATCAAA
* *
32068748 TTTTTTTTGTGTTGGCCATGCATTGGCTGACACTACCTATTTTATCAGATAAAAATCAATTTTTT
1 TTTTTTTTGTGTTGGCCATGCATTGGCCGACACCACCTATTTTATCAGATAAAAATCAA--TTTT
* ** ** *
32068813 TTTGTGTTGGCCA-TGCATTGGTTGACACCATTTTTTTTATCTGTTAAAAAATCAAA
64 TTTGTGTTAGCCATTGCA-TGGCCGACACCACCTTTTTTATCTGGTAAAAAATCAAA
*
32068869 TATTTTTTGTGTTGGCCAT
1 TTTTTTTTGTGTTGGCCAT
32068888 CAACGGCGGT
Statistics
Matches: 317, Mismatches: 40, Indels: 33
0.81 0.10 0.08
Matches are distributed among these distances:
113 40 0.13
114 43 0.14
115 23 0.07
116 23 0.07
117 14 0.04
118 20 0.06
119 36 0.11
120 44 0.14
121 74 0.23
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.42
Consensus pattern (119 bp):
TTTTTTTTGTGTTGGCCATGCATTGGCCGACACCACCTATTTTATCAGATAAAAATCAATTTTTT
TGTGTTAGCCATTGCATGGCCGACACCACCTTTTTTATCTGGTAAAAAATCAAA
Found at i:32068993 original size:22 final size:22
Alignment explanation
Indices: 32068968--32069015 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
32068958 ATTTGGGAGA
* *
32068968 TGGTAAGATGGAATTTTGGTTT
1 TGGTAAGATGGAATTTCGATTT
* *
32068990 TGGTGAGTTGGAATTTCGATTT
1 TGGTAAGATGGAATTTCGATTT
32069012 TGGT
1 TGGT
32069016 GAGCTGAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.19, C:0.02, G:0.33, T:0.46
Consensus pattern (22 bp):
TGGTAAGATGGAATTTCGATTT
Found at i:32069016 original size:22 final size:22
Alignment explanation
Indices: 32068976--32069027 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
32068966 GATGGTAAGA
* * *
32068976 TGGAATTTTGGTTTTGGTGAGT
1 TGGAATTTCGATTTTGGTGAGC
32068998 TGGAATTTCGATTTTGGTGAGC
1 TGGAATTTCGATTTTGGTGAGC
*
32069020 TGAAATTT
1 TGGAATTT
32069028 GGGTGGTCCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.19, C:0.04, G:0.31, T:0.46
Consensus pattern (22 bp):
TGGAATTTCGATTTTGGTGAGC
Found at i:32069326 original size:48 final size:48
Alignment explanation
Indices: 32069274--32069421 Score: 128
Period size: 48 Copynumber: 3.1 Consensus size: 48
32069264 AAATTTGGTA
32069274 AATAATGTATTGTCAAATAAACACATTATTTAATAAAAATTATAATAT
1 AATAATGTATTGTCAAATAAACACATTATTTAATAAAAATTATAATAT
* * ** * **
32069322 AATAATAGT-TTTTGATTTAAATA-A--ATTTAAATATTAAAATT-TGGTA-
1 AATAAT-GTATTGTCAAATAAACACATTATTT-AATA--AAAATTATAATAT
* * *
32069368 AATAATATATTGTCAAATCAACACATTATTTGATAAAAATTATAATAT
1 AATAATGTATTGTCAAATAAACACATTATTTAATAAAAATTATAATAT
32069416 AATAAT
1 AATAAT
32069422 ATTTTTTATT
Statistics
Matches: 73, Mismatches: 17, Indels: 20
0.66 0.15 0.18
Matches are distributed among these distances:
45 5 0.07
46 24 0.33
47 8 0.11
48 30 0.41
49 6 0.08
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (48 bp):
AATAATGTATTGTCAAATAAACACATTATTTAATAAAAATTATAATAT
Found at i:32069448 original size:186 final size:183
Alignment explanation
Indices: 32069120--32069624 Score: 697
Period size: 186 Copynumber: 2.8 Consensus size: 183
32069110 TAAATTTAAA
*
32069120 ATTTGATAAAAATTGTAATATAATAATAATTTTTTTATTTAAATAAATTTAAAATTTAAAATTGA
1 ATTTGATAAAAATTGTAATATAATAAT-AGTTTTTTATTTAAATAAATTTAAAA-TTAAAATTG-
* *
32069185 TAAATAATATTTTGTGAAATCAACAC-----TTGATAAAAATTGTAATATAATAATATTTTTTAT
63 TAAATAATATATTGTCAAATCAACACATTATTTGATAAAAATTGTAATATAATAATATTTTTTAT
* * *
32069245 TTAAATAAATTTAAATTTTAAATTTGGTAAATAATGTATTGTCAAATAAACACATT
128 TTAAATAAATTTAAATTTTAAAATTGGTAAATAATATATTATCAAATAAACACATT
* * *
32069301 ATTTAATAAAAATTATAATATAATAATAGTTTTTGATTTAAATAAATTTAAATATTAAAATTTGG
1 ATTTGATAAAAATTGTAATATAATAATAGTTTTTTATTTAAATAAATTTAAA-ATTAAAA-TT-G
*
32069366 TAAATAATATATTGTCAAATCAACACATTATTTGATAAAAATTATAATATAATAATATTTTTTAT
63 TAAATAATATATTGTCAAATCAACACATTATTTGATAAAAATTGTAATATAATAATATTTTTTAT
** * *
32069431 TTGCATAAATTTAAATTTTAAAATTGGTAAATAATATATTATCAAATCAATACATT
128 TTAAATAAATTTAAATTTTAAAATTGGTAAATAATATATTATCAAATAAACACATT
*
32069487 ATTTGATAAAAATTGTAATATAATAATAGTTTTTTATTTAAATAAATTTAAAAGT--AA---TAA
1 ATTTGATAAAAATTGTAATATAATAATAGTTTTTTATTTAAATAAATTTAAAATTAAAATTGTAA
* * * *
32069547 ATAATGTATTATCAAATCAACATATTATTTGATAAAAATTGTAATATAATAATAGTTTTCTATTT
66 ATAATATATTGTCAAATCAACACATTATTTGATAAAAATTGTAATATAATAATA-TTTTTTATTT
*
32069612 AAATAATTTTAAA
130 AAATAAATTTAAA
32069625 ATAATTTTAA
Statistics
Matches: 289, Mismatches: 26, Indels: 20
0.86 0.08 0.06
Matches are distributed among these distances:
178 53 0.18
179 19 0.07
180 29 0.10
181 52 0.18
182 1 0.00
183 2 0.01
185 2 0.01
186 131 0.45
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.43
Consensus pattern (183 bp):
ATTTGATAAAAATTGTAATATAATAATAGTTTTTTATTTAAATAAATTTAAAATTAAAATTGTAA
ATAATATATTGTCAAATCAACACATTATTTGATAAAAATTGTAATATAATAATATTTTTTATTTA
AATAAATTTAAATTTTAAAATTGGTAAATAATATATTATCAAATAAACACATT
Found at i:32069492 original size:92 final size:93
Alignment explanation
Indices: 32069120--32069624 Score: 678
Period size: 92 Copynumber: 5.6 Consensus size: 93
32069110 TAAATTTAAA
* * *
32069120 ATTTGATAAAAATTGTAATATAATAATAATTTTTTTATTTAAATAAATTTAAAATTTAAAATTGA
1 ATTTGATAAAAATTGTAATATAATAAT-AGTTTTTTATTTAAATAAATTTAAATTTTAAAATTGG
* *
32069185 TAAATAATATTTTGTGAAATCAACAC---
65 TAAATAATATATTGTCAAATCAACACATT
*
32069211 --TTGATAAAAATTGTAATATAATAATA-TTTTTTATTTAAATAAATTTAAATTTTAAATTTGGT
1 ATTTGATAAAAATTGTAATATAATAATAGTTTTTTATTTAAATAAATTTAAATTTTAAAATTGGT
* *
32069273 AAATAATGTATTGTCAAATAAACACATT
66 AAATAATATATTGTCAAATCAACACATT
* * * *
32069301 ATTTAATAAAAATTATAATATAATAATAGTTTTTGATTTAAATAAATTTAAATATTAAAATTTGG
1 ATTTGATAAAAATTGTAATATAATAATAGTTTTTTATTTAAATAAATTTAAATTTTAAAA-TTGG
32069366 TAAATAATATATTGTCAAATCAACACATT
65 TAAATAATATATTGTCAAATCAACACATT
* **
32069395 ATTTGATAAAAATTATAATATAATAATA-TTTTTTATTTGCATAAATTTAAATTTTAAAATTGGT
1 ATTTGATAAAAATTGTAATATAATAATAGTTTTTTATTTAAATAAATTTAAATTTTAAAATTGGT
* *
32069459 AAATAATATATTATCAAATCAATACATT
66 AAATAATATATTGTCAAATCAACACATT
**
32069487 ATTTGATAAAAATTGTAATATAATAATAGTTTTTTATTTAAATAAATTTAAA-AGT--AA----T
1 ATTTGATAAAAATTGTAATATAATAATAGTTTTTTATTTAAATAAATTTAAATTTTAAAATTGGT
* * *
32069545 AAATAATGTATTATCAAATCAACATATT
66 AAATAATATATTGTCAAATCAACACATT
* *
32069573 ATTTGATAAAAATTGTAATATAATAATAGTTTTCTATTTAAATAATTTTAAA
1 ATTTGATAAAAATTGTAATATAATAATAGTTTTTTATTTAAATAAATTTAAA
32069625 ATAATTTTAA
Statistics
Matches: 375, Mismatches: 31, Indels: 21
0.88 0.07 0.05
Matches are distributed among these distances:
86 76 0.20
87 54 0.14
88 1 0.00
89 25 0.07
90 2 0.01
92 83 0.22
93 76 0.20
94 58 0.15
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.43
Consensus pattern (93 bp):
ATTTGATAAAAATTGTAATATAATAATAGTTTTTTATTTAAATAAATTTAAATTTTAAAATTGGT
AAATAATATATTGTCAAATCAACACATT
Found at i:32069511 original size:45 final size:45
Alignment explanation
Indices: 32069356--32069511 Score: 117
Period size: 45 Copynumber: 3.4 Consensus size: 45
32069346 ATTTAAATAT
* * *
32069356 TAAAATTTGGTAAATAATATATTGTCAAATCAACACATTATTTGA
1 TAAAAATTGGTAAATAATATATTATCAAATCAATACATTATTTGA
* * * ** *
32069401 TAAAAATT-ATAATATAATAATATTTTTTATTTGC-ATAAATTTAAATTT--
1 TAAAAATTGGTAA-ATAAT-ATA-TTATCAAAT-CAATACA-TT--ATTTGA
32069449 T-AAAATTGGTAAATAATATATTATCAAATCAATACATTATTTGA
1 TAAAAATTGGTAAATAATATATTATCAAATCAATACATTATTTGA
32069493 TAAAAATT-GTAATATAATA
1 TAAAAATTGGTAA-ATAATA
32069512 ATAGTTTTTT
Statistics
Matches: 84, Mismatches: 14, Indels: 26
0.68 0.11 0.21
Matches are distributed among these distances:
42 4 0.05
44 11 0.13
45 33 0.39
46 6 0.07
47 19 0.23
48 7 0.08
50 4 0.05
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.42
Consensus pattern (45 bp):
TAAAAATTGGTAAATAATATATTATCAAATCAATACATTATTTGA
Found at i:32069577 original size:86 final size:86
Alignment explanation
Indices: 32069120--32069626 Score: 506
Period size: 86 Copynumber: 5.6 Consensus size: 86
32069110 TAAATTTAAA
*
32069120 ATTTGATAAAAATTGTAATATAATAATAATTTTTTTATTTAAATAAATTTAAAATTTAAAATTGA
1 ATTTGATAAAAATTGTAATATAATAAT-AGTTTTTTATTTAAATAAATTTAAAA-TT---A---A
* * *
32069185 TAAATAATATTTTGTGAAATCAACAC---
58 TAAATAATATATTATCAAATCAACACATT
*
32069211 --TTGATAAAAATTGTAATATAATAATA-TTTTTTATTTAAATAAATTTAAATTTTAAATTTGGT
1 ATTTGATAAAAATTGTAATATAATAATAGTTTTTTATTTAAATAAATTTAAA-ATT-AA-----T
* * *
32069273 AAATAATGTATTGTCAAATAAACACATT
59 AAATAATATATTATCAAATCAACACATT
* * *
32069301 ATTTAATAAAAATTATAATATAATAATAGTTTTTGATTTAAATAAATTTAAATATTAAAATTTGG
1 ATTTGATAAAAATTGTAATATAATAATAGTTTTTTATTTAAATAAATTTAAA-ATT--AA-----
*
32069366 TAAATAATATATTGTCAAATCAACACATT
58 TAAATAATATATTATCAAATCAACACATT
* **
32069395 ATTTGATAAAAATTATAATATAATAATA-TTTTTTATTTGCATAAATTTAAATTTTAAAATTGGT
1 ATTTGATAAAAATTGTAATATAATAATAGTTTTTTA-TT---TAAA--TAAA-TTTAAAATTAAT
*
32069459 AAATAATATATTATCAAATCAATACATT
59 AAATAATATATTATCAAATCAACACATT
*
32069487 ATTTGATAAAAATTGTAATATAATAATAGTTTTTTATTTAAATAAATTTAAAAGTAATAAATAAT
1 ATTTGATAAAAATTGTAATATAATAATAGTTTTTTATTTAAATAAATTTAAAATTAATAAATAAT
* *
32069552 GTATTATCAAATCAACATATT
66 ATATTATCAAATCAACACATT
* *
32069573 ATTTGATAAAAATTGTAATATAATAATAGTTTTCTATTTAAATAATTTTAAAAT
1 ATTTGATAAAAATTGTAATATAATAATAGTTTTTTATTTAAATAAATTTAAAAT
32069627 AATTTTAAAT
Statistics
Matches: 368, Mismatches: 27, Indels: 47
0.83 0.06 0.11
Matches are distributed among these distances:
82 1 0.00
85 2 0.01
86 85 0.23
87 51 0.14
88 1 0.00
89 29 0.08
92 80 0.22
93 38 0.10
94 64 0.17
97 4 0.01
99 7 0.02
100 6 0.02
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.43
Consensus pattern (86 bp):
ATTTGATAAAAATTGTAATATAATAATAGTTTTTTATTTAAATAAATTTAAAATTAATAAATAAT
ATATTATCAAATCAACACATT
Found at i:32069769 original size:17 final size:16
Alignment explanation
Indices: 32069743--32069777 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
32069733 AATTTTCAAA
*
32069743 TTAATTTCAACTTAAT
1 TTAATTTCAAATTAAT
32069759 TTAATTTTCAAATTAAT
1 TTAA-TTTCAAATTAAT
32069776 TT
1 TT
32069778 TTACACAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.54
Consensus pattern (16 bp):
TTAATTTCAAATTAAT
Found at i:32073715 original size:61 final size:59
Alignment explanation
Indices: 32073583--32073718 Score: 139
Period size: 61 Copynumber: 2.2 Consensus size: 59
32073573 TAGAAAGGAG
* * * ** ** *
32073583 AAAAAGTTGGTGTCGACCAATGCATGACCAATATAAAAGGATTTATTTTTTTATCTGAC
1 AAAAAGGTGGTGTCGACCAATGCATGACCAACACAAAAAAATTTATTTTGCTATCAGAC
*
32073642 AACCAATA-GTGGTGTCGACCAATGCATGACCAACACAAAAAAATTTGAATTTTGCTATCAGAT
1 AA--AA-AGGTGGTGTCGACCAATGCATGACCAACACAAAAAAATTT--ATTTTGCTATCAGAC
32073705 AAAAAGGTGGTGTC
1 AAAAAGGTGGTGTC
32073719 AGTCATGCAA
Statistics
Matches: 62, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
59 2 0.03
60 1 0.02
61 45 0.73
62 1 0.02
63 13 0.21
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (59 bp):
AAAAAGGTGGTGTCGACCAATGCATGACCAACACAAAAAAATTTATTTTGCTATCAGAC
Found at i:32073845 original size:60 final size:57
Alignment explanation
Indices: 32073792--32074328 Score: 466
Period size: 58 Copynumber: 9.3 Consensus size: 57
32073782 AAAATTTGAT
* * *
32073792 TTTTTTATCAGATAAAAAGGTGGTGTCGGCTATACAATGGCCAACACCAAAAAAATTTGA
1 TTTTTTATCAGATAAAAAGGTGGTGTCGGCCATGCAATGGCCAACA-CAAAAAAA-AT-A
* * * *
32073852 TTTTTTATCAGATAAATAGGGGGTGTCAGCCATGCAATGGCCAAAACAAAAAAAATTGA
1 TTTTTTATCAGATAAAAAGGTGGTGTCGGCCATGCAATGGCCAACACAAAAAAAA-T-A
* * * **
32073911 TTTTTT-TCAGATAAAAAATGTGGTGTCGACCAAAGC-ATGATCAACACTAAAAAAAATA
1 TTTTTTATCAGAT-AAAAAGGTGGTGTCGGCC-ATGCAATGGCCAACAC-AAAAAAAATA
* * *
32073969 TCTTTTATCTGATAAAAAGAG-GGTGTCGGCCATGCAATGGCCTACAC-AAAAAAATAA
1 TTTTTTATCAGATAAAAAG-GTGGTGTCGGCCATGCAATGGCCAACACAAAAAAAAT-A
* * * * *
32074026 TTTTTTACCAGATAATAAAGGTGGTGCCGACCATGCAATGGCTAACACAAAAAAATTAA
1 TTTTTTATCAGATAA-AAAGGTGGTGTCGGCCATGCAATGGCCAACACAAAAAAAAT-A
** * * *
32074085 TTTTTT-T-AGATAAAAAATATGGTGTCGACCATGCAATGACCGACACCAAAAAAAATA
1 TTTTTTATCAGAT-AAAAAGGTGGTGTCGGCCATGCAATGGCCAACA-CAAAAAAAATA
* * * * *
32074142 TTTTTTATCTGACAAAAAGG-GAGTGTCGGCCATACAATGCCCAACACAAAAAATATA
1 TTTTTTATCAGATAAAAAGGTG-GTGTCGGCCATGCAATGGCCAACACAAAAAAAATA
* * * *
32074199 TATATTT-TCAAATAAAAAAGGTGGTATCGGCCAAG-ACATGGCC-A-ACAAAAAAAATA
1 T-TTTTTATCAGAT-AAAAAGGTGGTGTCGGCCATGCA-ATGGCCAACACAAAAAAAATA
* * * * *
32074255 TTTTTTATCTGACAAAAAGGAGGTGTCGGCCATGCAATAGCCAACACAAAAAAATTGA
1 TTTTTTATCAGATAAAAAGGTGGTGTCGGCCATGCAATGGCCAACACAAAAAAAAT-A
*
32074313 TTTTTTATAAGATAAA
1 TTTTTTATCAGATAAA
32074329 CCAGGAAAAA
Statistics
Matches: 382, Mismatches: 70, Indels: 52
0.76 0.14 0.10
Matches are distributed among these distances:
55 27 0.07
56 25 0.07
57 80 0.21
58 136 0.36
59 63 0.16
60 51 0.13
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.26
Consensus pattern (57 bp):
TTTTTTATCAGATAAAAAGGTGGTGTCGGCCATGCAATGGCCAACACAAAAAAAATA
Found at i:32073867 original size:101 final size:101
Alignment explanation
Indices: 32073676--32073869 Score: 284
Period size: 100 Copynumber: 1.9 Consensus size: 101
32073666 CATGACCAAC
* **
32073676 ACAAAAAAATTTGAATTTTGCTATCAGATAAAAAGGTGGTGTCAGTCATGCAATAGTTAACACCA
1 ACAAAAAAATTTGAATTTTGCTATCAGATAAAAAGGTGGTGTCAGTCATACAATAGCCAACACCA
32073741 AAAAAATTGATTTTTTATCAAATAAATACATGGCCG
66 AAAAAATTGATTTTTTATCAAATAAATACATGGCCG
** * *
32073777 ACAAAAAAATTTG-ATTTTTTTATCAGATAAAAAGGTGGTGTC-GGCTATACAATGGCCAACACC
1 ACAAAAAAATTTGAATTTTGCTATCAGATAAAAAGGTGGTGTCAGTC-ATACAATAGCCAACACC
*
32073840 AAAAAAATTTGATTTTTTATCAGATAAATA
65 AAAAAAA-TTGATTTTTTATCAAATAAATA
32073870 GGGGGTGTCA
Statistics
Matches: 83, Mismatches: 8, Indels: 4
0.87 0.08 0.04
Matches are distributed among these distances:
99 2 0.02
100 47 0.57
101 34 0.41
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.31
Consensus pattern (101 bp):
ACAAAAAAATTTGAATTTTGCTATCAGATAAAAAGGTGGTGTCAGTCATACAATAGCCAACACCA
AAAAAATTGATTTTTTATCAAATAAATACATGGCCG
Found at i:32074150 original size:173 final size:174
Alignment explanation
Indices: 32073792--32074194 Score: 519
Period size: 173 Copynumber: 2.3 Consensus size: 174
32073782 AAAATTTGAT
* * *
32073792 TTTTTTATCAGATAAAAAGGTGGTGTCGGCTATACAATGGCCAACACCAAAAAAATTTGATTTTT
1 TTTTTTATCTGATAAAAAGG-GGTGTCGGCCATACAATGGCCAACA-CAAAAAAA-TTAATTTTT
* * * *
32073857 TATCAGATAAATAGGGGGTGTCAGCCATGCAATGGCCAAAACAAAAAAAATTGATTTTTTTCAGA
63 TACCAGATAAAAAGGGGGTGCCAGCCATGCAATGGCCAAAACAAAAAAAATTAATTTTTTTCAGA
* * *
32073922 TAAAAAATGTGGTGTCGACCAAAGCATGATCAACACTAAAAAAAATA
128 TAAAAAATATGGTGTCGACCAAAGCATGACCAACACCAAAAAAAATA
* * *
32073969 TCTTTTATCTGATAAAAAGAGGGTGTCGGCCATGCAATGGCCTACACAAAAAAA-TAATTTTTTA
1 TTTTTTATCTGATAAAAAG-GGGTGTCGGCCATACAATGGCCAACACAAAAAAATTAATTTTTTA
* * *
32074033 CCAGATAATAAAGGTGGTGCC-GACCATGCAATGGCTAACAC-AAAAAAATTAATTTTTTT-AGA
65 CCAGATAA-AAAGGGGGTGCCAG-CCATGCAATGGCCAAAACAAAAAAAATTAATTTTTTTCAGA
* *
32074095 TAAAAAATATGGTGTCGACC-ATGCAATGACCGACACCAAAAAAAATA
128 TAAAAAATATGGTGTCGACCAAAGC-ATGACCAACACCAAAAAAAATA
* *
32074142 TTTTTTATCTGACAAAAAGGGAGTGTCGGCCATACAATGCCCAACACAAAAAA
1 TTTTTTATCTGATAAAAAGGG-GTGTCGGCCATACAATGGCCAACACAAAAAA
32074195 TATATATATT
Statistics
Matches: 198, Mismatches: 23, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
172 5 0.03
173 86 0.43
174 34 0.17
175 25 0.13
176 8 0.04
177 39 0.20
178 1 0.01
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.26
Consensus pattern (174 bp):
TTTTTTATCTGATAAAAAGGGGTGTCGGCCATACAATGGCCAACACAAAAAAATTAATTTTTTAC
CAGATAAAAAGGGGGTGCCAGCCATGCAATGGCCAAAACAAAAAAAATTAATTTTTTTCAGATAA
AAAATATGGTGTCGACCAAAGCATGACCAACACCAAAAAAAATA
Found at i:32076410 original size:58 final size:59
Alignment explanation
Indices: 32076333--32076706 Score: 359
Period size: 59 Copynumber: 6.4 Consensus size: 59
32076323 TTTTACTTCC
* *
32076333 GGGGGTAAAAAT-GTAATTTTTGGTGAAATCGAGGTCAAAAATGAAATTTTGGAAAGTTT
1 GGGGGT-AAAATGGTAATTTTTGGTGAAATCGGGGTCAAAAATGGAATTTTGGAAAGTTT
* * * * * *
32076392 GGGGGT-AAATGGTAATTTTTGGTGAAAACAGGATCAAAAATGGTATTTTGGAAAATTC
1 GGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTCAAAAATGGAATTTTGGAAAGTTT
* * * *
32076450 GAGGGTAAAATAGTAATTTTTGGTGAAATCGGGGGT-AAAAATGGAATTTTGGAAGGTTC
1 GGGGGTAAAATGGTAATTTTTGGTGAAATC-GGGGTCAAAAATGGAATTTTGGAAAGTTT
* * *
32076509 GGGGGTAAAATGGTAATTTTAGGTAAAATTGGGGTC--AAATGGAATTTTGGAAAGTTT
1 GGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTCAAAAATGGAATTTTGGAAAGTTT
** * * * * * * * *
32076566 TAGGGT-AAACGATGATTTTGGGAGAAATTGGGATTAAAAATGGAATTTTGGAAAGTTT
1 GGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTCAAAAATGGAATTTTGGAAAGTTT
* * * *
32076624 AGGGGGTAAAACGATAATTTTT-G-GAAGTTTCGGGGTCAAAAATAGAATTTTGGAAAGTTT
1 -GGGGGTAAAATGGTAATTTTTGGTGAA--ATCGGGGTCAAAAATGGAATTTTGGAAAGTTT
* * *
32076684 AGAGGTAAAATGATAATTTTTGG
1 GGGGGTAAAATGGTAATTTTTGG
32076707 AAGTTTTAGG
Statistics
Matches: 259, Mismatches: 45, Indels: 21
0.80 0.14 0.06
Matches are distributed among these distances:
56 21 0.08
57 27 0.10
58 73 0.28
59 95 0.37
60 43 0.17
ACGTcount: A:0.36, C:0.03, G:0.29, T:0.32
Consensus pattern (59 bp):
GGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTCAAAAATGGAATTTTGGAAAGTTT
Found at i:32076486 original size:30 final size:30
Alignment explanation
Indices: 32076332--32076489 Score: 77
Period size: 30 Copynumber: 5.4 Consensus size: 30
32076322 TTTTTACTTC
32076332 CGGGGGTAAAA-ATGTAATTTTTGGTGAAAT
1 CGGGGGTAAAATA-GTAATTTTTGGTGAAAT
* *
32076362 C-GAGGTCAAAA-A-TGAAATTTT-G-GAAAGTT
1 CGGGGGT-AAAATAGT-AATTTTTGGTGAAA--T
* * *
32076391 TGGGGGT-AAATGGTAATTTTTGGTGAAAA
1 CGGGGGTAAAATAGTAATTTTTGGTGAAAT
* * * *
32076420 C-AGGATCAAAAATGGT-A-TTTTGG-AAAATT
1 CGGGGGT--AAAATAGTAATTTTTGGTGAAA-T
*
32076449 CGAGGGTAAAATAGTAATTTTTGGTGAAAT
1 CGGGGGTAAAATAGTAATTTTTGGTGAAAT
32076479 CGGGGGTAAAA
1 CGGGGGTAAAA
32076490 ATGGAATTTT
Statistics
Matches: 95, Mismatches: 16, Indels: 34
0.66 0.11 0.23
Matches are distributed among these distances:
27 4 0.04
28 18 0.19
29 25 0.26
30 34 0.36
31 14 0.15
ACGTcount: A:0.37, C:0.04, G:0.28, T:0.30
Consensus pattern (30 bp):
CGGGGGTAAAATAGTAATTTTTGGTGAAAT
Found at i:32076510 original size:29 final size:29
Alignment explanation
Indices: 32076427--32076679 Score: 125
Period size: 29 Copynumber: 8.7 Consensus size: 29
32076417 AAACAGGATC
* *
32076427 AAAAATGGTATTTTGGAAAATTCGAGGGT
1 AAAAATGGAATTTTGGAAAATTCGGGGGT
* *
32076456 -AAAATAGTAATTTTTGGTGAAA-TCGGGGGT
1 AAAAAT-GGAA-TTTTGG-AAAATTCGGGGGT
**
32076486 AAAAATGGAATTTTGGAAGGTTCGGGGGT
1 AAAAATGGAATTTTGGAAAATTCGGGGGT
32076515 -AAAATGGTAATTTTAGGTAAAATT--GGGGT
1 AAAAATGG-AATTTT-GG-AAAATTCGGGGGT
* * ***
32076544 -CAAATGGAATTTTGGAAAGTTTTAGGGT
1 AAAAATGGAATTTTGGAAAATTCGGGGGT
* **
32076572 AAACGAT-G-ATTTTGGGAGAAATT-GGGATT
1 AAA-AATGGAATTTT-GGA-AAATTCGGGGGT
* *
32076601 AAAAATGGAATTTTGGAAAGTTTAGGGGGT
1 AAAAATGGAATTTTGGAAA-ATTCGGGGGT
**
32076631 AAAACGAT--AATTTTTGGAAGTTTC-GGGGT
1 AAAA--ATGGAA-TTTTGGAAAATTCGGGGGT
*
32076660 CAAAAATAGAATTTTGGAAA
1 -AAAAATGGAATTTTGGAAA
32076680 GTTTAGAGGT
Statistics
Matches: 173, Mismatches: 27, Indels: 48
0.70 0.11 0.19
Matches are distributed among these distances:
26 5 0.03
27 2 0.01
28 34 0.20
29 62 0.36
30 48 0.28
31 20 0.12
32 2 0.01
ACGTcount: A:0.36, C:0.03, G:0.29, T:0.32
Consensus pattern (29 bp):
AAAAATGGAATTTTGGAAAATTCGGGGGT
Found at i:32076634 original size:30 final size:29
Alignment explanation
Indices: 32076481--32076742 Score: 140
Period size: 29 Copynumber: 9.0 Consensus size: 29
32076471 GGTGAAATCG
* **
32076481 GGGGTAAAAATGGAATTTTGGAAGGTTCG
1 GGGGTAAAAATGGAATTTTGGAAAGTTTA
*
32076510 GGGGT-AAAATGGTAATTTTAGGTAAA-ATT-
1 GGGGTAAAAATGG-AATTTT-GG-AAAGTTTA
*
32076539 GGGGT-CAAATGGAATTTTGGAAAGTTTTA
1 GGGGTAAAAATGGAATTTTGGAAAG-TTTA
* *
32076568 -GGGTAAACGAT-G-ATTTTGGGAGAA-ATT-
1 GGGGTAAA-AATGGAATTTT-GGA-AAGTTTA
*
32076595 GGGATTAAAAATGGAATTTTGGAAAGTTTA
1 GGG-GTAAAAATGGAATTTTGGAAAGTTTA
*
32076625 GGGGGTAAAACGAT--AATTTTTGG-AAGTTTC
1 -GGGGTAAAA--ATGGAA-TTTTGGAAAGTTTA
*
32076655 GGGGTCAAAAATAGAATTTTGGAAAGTTTA
1 GGGGT-AAAAATGGAATTTTGGAAAGTTTA
* *
32076685 GAGGT-AAAATGATAATTTTTGG-AAGTTTTA
1 GGGGTAAAAATG-GAA-TTTTGGAAAG-TTTA
* *
32076715 -GGGTCAAAAATAGAATTTTGAAAAGTTT
1 GGGGT-AAAAATGGAATTTTGGAAAGTTT
32076743 GAGGACTAAA
Statistics
Matches: 182, Mismatches: 21, Indels: 60
0.69 0.08 0.23
Matches are distributed among these distances:
26 3 0.02
27 2 0.01
28 39 0.21
29 64 0.35
30 56 0.31
31 16 0.09
32 2 0.01
ACGTcount: A:0.36, C:0.03, G:0.29, T:0.33
Consensus pattern (29 bp):
GGGGTAAAAATGGAATTTTGGAAAGTTTA
Found at i:32076693 original size:29 final size:29
Alignment explanation
Indices: 32076600--32076746 Score: 117
Period size: 30 Copynumber: 5.0 Consensus size: 29
32076590 AAATTGGGAT
* *
32076600 TAAAAATGGAATTTTGGAAAGTTTAGGGGG
1 TAAAAATAGAATTTTGGAAAGTTTA-GAGG
* * *
32076630 TAAAACGATA-ATTTTTGG-AAGTTTCGGGG
1 TAAAA--ATAGAATTTTGGAAAGTTTAGAGG
32076659 TCAAAAATAGAATTTTGGAAAGTTTAGAGG
1 T-AAAAATAGAATTTTGGAAAGTTTAGAGG
*
32076689 TAAAATGATA-ATTTTTGG-AAGTTTTAG-GG
1 TAAAA--ATAGAATTTTGGAAAG-TTTAGAGG
*
32076718 TCAAAAATAGAATTTTGAAAAGTTT-GAGG
1 T-AAAAATAGAATTTTGGAAAGTTTAGAGG
32076747 ACTAAAAAGT
Statistics
Matches: 96, Mismatches: 9, Indels: 25
0.74 0.07 0.19
Matches are distributed among these distances:
28 7 0.07
29 33 0.34
30 44 0.46
31 10 0.10
32 2 0.02
ACGTcount: A:0.38, C:0.03, G:0.26, T:0.33
Consensus pattern (29 bp):
TAAAAATAGAATTTTGGAAAGTTTAGAGG
Found at i:32076753 original size:29 final size:27
Alignment explanation
Indices: 32076662--32076753 Score: 69
Period size: 29 Copynumber: 3.1 Consensus size: 27
32076652 TTCGGGGTCA
32076662 AAAATAGAATTTTGGAAAGTTTAGAGG-T
1 AAAATAGAATTTT-GAAAGTTT-GAGGCT
* * * *
32076690 AAAATGATAATTTTTGGAAGTTTTAGGGTCA
1 AAAAT-AGAA-TTTTGAAAGTTTGA-GG-CT
32076721 AAAATAGAATTTTGAAAAGTTTGAGGACT
1 AAAATAGAATTTTG-AAAGTTTGAGG-CT
32076750 AAAA
1 AAAA
32076754 AGTAATAAAG
Statistics
Matches: 49, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
28 6 0.12
29 24 0.49
30 14 0.29
31 5 0.10
ACGTcount: A:0.43, C:0.02, G:0.22, T:0.33
Consensus pattern (27 bp):
AAAATAGAATTTTGAAAGTTTGAGGCT
Found at i:32078617 original size:14 final size:14
Alignment explanation
Indices: 32078596--32078638 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
32078586 CATTGGGTCT
32078596 ATTTGGGCCATTGTA
1 ATTTGGGCC-TTGTA
32078611 A-TTGGGCCTT-TA
1 ATTTGGGCCTTGTA
32078623 ATTTGGGCCTTTGTA
1 ATTTGGGCC-TTGTA
32078638 A
1 A
32078639 ATGGACTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 3 0.12
13 9 0.36
14 9 0.36
15 4 0.16
ACGTcount: A:0.19, C:0.14, G:0.26, T:0.42
Consensus pattern (14 bp):
ATTTGGGCCTTGTA
Found at i:32078693 original size:17 final size:17
Alignment explanation
Indices: 32078667--32078703 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
32078657 ATATTTAATT
*
32078667 TTTATTTTAAATTTAAA
1 TTTATATTAAATTTAAA
*
32078684 TTTATATTAAGTTTAAA
1 TTTATATTAAATTTAAA
32078701 TTT
1 TTT
32078704 TAGAAAAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (17 bp):
TTTATATTAAATTTAAA
Found at i:32078740 original size:16 final size:16
Alignment explanation
Indices: 32078719--32078749 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32078709 AAACTTAAAC
*
32078719 TTAAAATAAATTTAAT
1 TTAAAACAAATTTAAT
32078735 TTAAAACAAATTTAA
1 TTAAAACAAATTTAA
32078750 ACTCTGTTGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (16 bp):
TTAAAACAAATTTAAT
Found at i:32087754 original size:54 final size:54
Alignment explanation
Indices: 32087430--32087767 Score: 191
Period size: 60 Copynumber: 6.0 Consensus size: 54
32087420 CCTTTTCTCG
* * * *
32087430 AAAAAAAACTTGTATTTTTGGGTGTTGGCCATTGCATGACCGACGCCCCCTTATTT
1 AAAAAAAA-TTGCATTTTTGGGTGTTGGCCATTGCATGGCCGACACCTCC-TATTT
* * *** * *
32087486 GAAAAAAAATT-CAAATTTTTTTGGTGTTAGCCATCAAATGGCCGACACCTCCTCTCTCA
1 -AAAAAAAATTGC--A-TTTTTGGGTGTTGGCCATTGCATGGCCGACACCTCCTAT-T-T
** ** * * *** * *
32087545 AGAAAAAAATTTTAAATTTTTTTTGTATTAGCCATCAAATGGTCGACACCTCTTATTT
1 A-AAAAAAA--TTGCA-TTTTTGGGTGTTGGCCATTGCATGGCCGACACCTCCTATTT
* *
32087603 -AAAAAAA-TGCATTTTTGGGTGTTGGCCATTGCATGACCGACACCTCCTTTTCT
1 AAAAAAAATTGCATTTTTGGGTGTTGGCCATTGCATGGCCGACACCTCCTATT-T
* ** *** *
32087656 CGAGAAAAAAATTTCAAAATTTTTTTGTGTTGGCCATCAAATGGCAGACACCTCCTATTT
1 --A-AAAAAAATTGC---ATTTTTGGGTGTTGGCCATTGCATGGCCGACACCTCCTATTT
32087716 AAAAAAAATTGCATTTTTGGGTGTTGGCCATTGCATGGCCGACA-CTCC-ATTT
1 AAAAAAAATTGCATTTTTGGGTGTTGGCCATTGCATGGCCGACACCTCCTATTT
32087768 TTTCGAAAAA
Statistics
Matches: 216, Mismatches: 47, Indels: 41
0.71 0.15 0.13
Matches are distributed among these distances:
52 33 0.15
53 7 0.03
54 26 0.12
56 9 0.04
57 28 0.13
58 33 0.15
59 8 0.04
60 37 0.17
61 35 0.16
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (54 bp):
AAAAAAAATTGCATTTTTGGGTGTTGGCCATTGCATGGCCGACACCTCCTATTT
Found at i:32087758 original size:115 final size:112
Alignment explanation
Indices: 32087523--32087819 Score: 422
Period size: 113 Copynumber: 2.6 Consensus size: 112
32087513 TAGCCATCAA
* * * * *
32087523 ATGGCCGACACCTCC-TCTCTCAAGAAAAAAATTTTAAATTTTTTTTGTATTAGCCATCAAATGG
1 ATGGCCGACACCTCCTTTTCTCGAGAAAAAAA-TTTAAAATTTTTTTGTGTTGGCCATCAAATGG
*
32087587 TCGACACCTCTTATTTAAAAAAATGCATTTTTGGGTGTTGGCCATTGC
65 TCGACACCTCCTATTTAAAAAAATGCATTTTTGGGTGTTGGCCATTGC
*
32087635 ATGACCGACACCTCCTTTTCTCGAGAAAAAAATTTCAAAATTTTTTTGTGTTGGCCATCAAATGG
1 ATGGCCGACACCTCCTTTTCTCGAGAAAAAAATTT-AAAATTTTTTTGTGTTGGCCATCAAATGG
32087700 -CAGACACCTCCTATTTAAAAAAAATTGCATTTTTGGGTGTTGGCCATTGC
65 TC-GACACCTCCTATTT-AAAAAAA-TGCATTTTTGGGTGTTGGCCATTGC
* * *
32087750 ATGGCCGACA-CTCCATTTTTTCGA-AAAAAAATTTAAAATTTTTTTGTGCTGGCCATCAAATGA
1 ATGGCCGACACCTCC-TTTTCTCGAGAAAAAAATTTAAAATTTTTTTGTGTTGGCCATCAAATGG
32087813 TCGACAC
65 TCGACAC
32087820 TCCCTTTTTT
Statistics
Matches: 167, Mismatches: 11, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
112 18 0.11
113 85 0.51
114 22 0.13
115 42 0.25
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.34
Consensus pattern (112 bp):
ATGGCCGACACCTCCTTTTCTCGAGAAAAAAATTTAAAATTTTTTTGTGTTGGCCATCAAATGGT
CGACACCTCCTATTTAAAAAAATGCATTTTTGGGTGTTGGCCATTGC
Found at i:32087777 original size:54 final size:54
Alignment explanation
Indices: 32087583--32087777 Score: 144
Period size: 54 Copynumber: 3.5 Consensus size: 54
32087573 TAGCCATCAA
* * * *
32087583 ATGGTCGACACCT-CTTATTT-AAAAAAATGCATTTTTGGGTGTTGGCCATTGC
1 ATGGCCGACACCTCCTTTTTTCGAAAAATTGCATTTTTGGGTGTTGGCCATTGC
* * * ** ***
32087635 ATGACCGACACCTCCTTTTCTCGAGAAAAAAATTTCAAAATTTTTTTGTGTTGGCCATCAA
1 ATGGCCGACACCTCCTTTTTTC--G--AAAAATTGC---ATTTTTGGGTGTTGGCCATTGC
* * ***
32087696 ATGGCAGACACCTCCTATTTAAAAAAAATTGCATTTTTGGGTGTTGGCCATTGC
1 ATGGCCGACACCTCCTTTTTTCGAAAAATTGCATTTTTGGGTGTTGGCCATTGC
32087750 ATGGCCGACA-CTCCATTTTTTCGAAAAA
1 ATGGCCGACACCTCC-TTTTTTCGAAAAA
32087778 AAATTTAAAA
Statistics
Matches: 103, Mismatches: 30, Indels: 18
0.68 0.20 0.12
Matches are distributed among these distances:
52 11 0.11
53 9 0.09
54 35 0.34
57 8 0.08
58 7 0.07
61 33 0.32
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (54 bp):
ATGGCCGACACCTCCTTTTTTCGAAAAATTGCATTTTTGGGTGTTGGCCATTGC
Found at i:32088339 original size:34 final size:34
Alignment explanation
Indices: 32088301--32088368 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 34
32088291 TAATATTATT
32088301 TCAAAA-TATTTTAATCTTTTTATTTTAATAAAAA
1 TCAAAATTATTTTAAT-TTTTTATTTTAATAAAAA
* *
32088335 TCAAAATTTTTTTTATTTTTTATTTTAATAAAAA
1 TCAAAATTATTTTAATTTTTTATTTTAATAAAAA
32088369 CTTTCGATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
34 24 0.77
35 7 0.23
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.54
Consensus pattern (34 bp):
TCAAAATTATTTTAATTTTTTATTTTAATAAAAA
Found at i:32089993 original size:7 final size:7
Alignment explanation
Indices: 32089981--32090005 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
32089971 AAATCTAGTC
32089981 TCAAAAG
1 TCAAAAG
32089988 TCAAAAG
1 TCAAAAG
32089995 TCAAAAG
1 TCAAAAG
32090002 TCAA
1 TCAA
32090006 TAACTACGGC
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:0.56, C:0.16, G:0.12, T:0.16
Consensus pattern (7 bp):
TCAAAAG
Found at i:32095025 original size:27 final size:28
Alignment explanation
Indices: 32094995--32095062 Score: 75
Period size: 31 Copynumber: 2.4 Consensus size: 28
32094985 AAAGTTTAAT
*
32094995 ATGTATAATTGCACA-AAATTAAAATTC
1 ATGTATAATTACACATAAATTAAAATTC
* *
32095022 ATGTATCAAATTACACATTGAATTAAAATTT
1 ATGTAT--AATTACACA-TAAATTAAAATTC
32095053 ATGTATAATT
1 ATGTATAATT
32095063 TTGAGATTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
27 6 0.18
29 12 0.35
31 16 0.47
ACGTcount: A:0.46, C:0.09, G:0.07, T:0.38
Consensus pattern (28 bp):
ATGTATAATTACACATAAATTAAAATTC
Found at i:32095205 original size:9 final size:9
Alignment explanation
Indices: 32095191--32095217 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
32095181 GATAATATAG
32095191 AATAAGAAA
1 AATAAGAAA
32095200 AATAAGAAA
1 AATAAGAAA
32095209 AATAAGAAA
1 AATAAGAAA
32095218 GAAAATATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (9 bp):
AATAAGAAA
Found at i:32095246 original size:15 final size:15
Alignment explanation
Indices: 32095197--32095259 Score: 51
Period size: 15 Copynumber: 4.2 Consensus size: 15
32095187 ATAGAATAAG
32095197 AAAAATAAGAA-AAAT
1 AAAAATAA-AATAAAT
*
32095212 AAGAAAGAAAAT--AT
1 AA-AAATAAAATAAAT
* *
32095226 AGAAAATGAAATAAGT
1 A-AAAATAAAATAAAT
32095242 AAAAATAAAATAAAT
1 AAAAATAAAATAAAT
32095257 AAA
1 AAA
32095260 GATATAAGTG
Statistics
Matches: 37, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
14 10 0.27
15 20 0.54
16 7 0.19
ACGTcount: A:0.75, C:0.00, G:0.10, T:0.16
Consensus pattern (15 bp):
AAAAATAAAATAAAT
Found at i:32096671 original size:19 final size:21
Alignment explanation
Indices: 32096649--32096702 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 21
32096639 TCTTCTTTTT
32096649 TCTTCTATTTTTT-CTACT-C
1 TCTTCTATTTTTTCCTACTCC
* *
32096668 TCTTTTATTTCTTTCCTTCTCC
1 TCTTCTATTT-TTTCCTACTCC
*
32096690 CCTTCTATTTTTT
1 TCTTCTATTTTTT
32096703 TCTTTTTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 9 0.32
20 3 0.11
21 7 0.25
22 9 0.32
ACGTcount: A:0.07, C:0.28, G:0.00, T:0.65
Consensus pattern (21 bp):
TCTTCTATTTTTTCCTACTCC
Found at i:32098888 original size:6 final size:7
Alignment explanation
Indices: 32098873--32098899 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
32098863 GAGAGTATTC
32098873 AAAATAA
1 AAAATAA
32098880 AAAATAA
1 AAAATAA
32098887 AAAATAA
1 AAAATAA
32098894 AAAATA
1 AAAATA
32098900 GTTGTCAGCC
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAATAA
Found at i:32111619 original size:2 final size:2
Alignment explanation
Indices: 32111612--32111659 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
32111602 GGTTTTAAGC
32111612 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32111654 AT AT AT
1 AT AT AT
32111660 GTTATACCAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32120853 original size:6 final size:6
Alignment explanation
Indices: 32120842--32120873 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
32120832 CTGACTCACT
32120842 TCTCCC TCTCCC TCTCCC TCTCCC TCTCCC TC
1 TCTCCC TCTCCC TCTCCC TCTCCC TCTCCC TC
32120874 CCAAAAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.66, G:0.00, T:0.34
Consensus pattern (6 bp):
TCTCCC
Found at i:32127292 original size:9 final size:10
Alignment explanation
Indices: 32127280--32127316 Score: 51
Period size: 9 Copynumber: 3.8 Consensus size: 10
32127270 TAATAAATTA
32127280 TAAAATTA-T
1 TAAAATTATT
32127289 TAAAACTTATT
1 TAAAA-TTATT
32127300 TAAAA-TATT
1 TAAAATTATT
32127309 TAAAATTA
1 TAAAATTA
32127317 AAAAACATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 14 0.56
10 5 0.20
11 6 0.24
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (10 bp):
TAAAATTATT
Found at i:32128777 original size:18 final size:18
Alignment explanation
Indices: 32128754--32128801 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
32128744 ACAATTCATA
32128754 TCACTTTCAATTCCAATT
1 TCACTTTCAATTCCAATT
* * *
32128772 TCACTTTCACTTTCACTT
1 TCACTTTCAATTCCAATT
*
32128790 TCACTTCCAATT
1 TCACTTTCAATT
32128802 TTGATCACAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.23, C:0.31, G:0.00, T:0.46
Consensus pattern (18 bp):
TCACTTTCAATTCCAATT
Found at i:32128779 original size:6 final size:6
Alignment explanation
Indices: 32128754--32128795 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
32128744 ACAATTCATA
* * *
32128754 TCACTT TCAATT CCAATT TCACTT TCACTT TCACTT TCACTT
1 TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT
32128796 CCAATTTTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.21, C:0.31, G:0.00, T:0.48
Consensus pattern (6 bp):
TCACTT
Found at i:32132250 original size:40 final size:38
Alignment explanation
Indices: 32132182--32132275 Score: 93
Period size: 40 Copynumber: 2.4 Consensus size: 38
32132172 ACCAGAATGG
* *
32132182 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAAAGTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAG-AATAAAGTGA
* *
32132222 CACCCAGTGTCTCATCGGCCTAGCCGAAG--TAAAGTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAATAAAGTGA
* *
32132259 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
32132276 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
37 21 0.46
40 22 0.48
41 3 0.07
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAATAAAGTGA
Found at i:32132434 original size:6 final size:6
Alignment explanation
Indices: 32132400--32132467 Score: 50
Period size: 6 Copynumber: 11.5 Consensus size: 6
32132390 TAATAGAGAT
* * * * *
32132400 TTTCAA TTTACAA -TTC-A TATCAC TTTCAA TTTCAA CTTCAC TTTCAC
1 TTTCAA TTT-CAA TTTCAA TTTCAA TTTCAA TTTCAA TTTCAA TTTCAA
* *
32132447 TTTCAC TTTCAC TTTCAA TTT
1 TTTCAA TTTCAA TTTCAA TTT
32132468 TGATCACAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
4 1 0.02
5 3 0.06
6 44 0.86
7 3 0.06
ACGTcount: A:0.26, C:0.25, G:0.00, T:0.49
Consensus pattern (6 bp):
TTTCAA
Found at i:32132442 original size:18 final size:18
Alignment explanation
Indices: 32132419--32132467 Score: 73
Period size: 18 Copynumber: 2.7 Consensus size: 18
32132409 ACAATTCATA
32132419 TCACTTTCAATTTCAAC-T
1 TCACTTTCAATTTC-ACTT
*
32132437 TCACTTTCACTTTCACTT
1 TCACTTTCAATTTCACTT
32132455 TCACTTTCAATTT
1 TCACTTTCAATTT
32132468 TGATCACAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 2 0.07
18 26 0.93
ACGTcount: A:0.22, C:0.29, G:0.00, T:0.49
Consensus pattern (18 bp):
TCACTTTCAATTTCACTT
Found at i:32132444 original size:12 final size:13
Alignment explanation
Indices: 32132421--32132463 Score: 56
Period size: 12 Copynumber: 3.5 Consensus size: 13
32132411 AATTCATATC
*
32132421 ACTTTCAATTTCA
1 ACTTTCACTTTCA
32132434 AC-TTCACTTTC-
1 ACTTTCACTTTCA
32132445 ACTTTCACTTTC-
1 ACTTTCACTTTCA
32132457 ACTTTCA
1 ACTTTCA
32132464 ATTTTGATCA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 2 0.07
12 24 0.86
13 2 0.07
ACGTcount: A:0.23, C:0.30, G:0.00, T:0.47
Consensus pattern (13 bp):
ACTTTCACTTTCA
Found at i:32132638 original size:22 final size:22
Alignment explanation
Indices: 32132612--32132657 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
32132602 TAAACACATA
*
32132612 ATATTTCATATATACATTGTTC
1 ATATTTCACATATACATTGTTC
32132634 ATATTTCACATATACATTGTTC
1 ATATTTCACATATACATTGTTC
32132656 AT
1 AT
32132658 CACATATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.15, G:0.04, T:0.48
Consensus pattern (22 bp):
ATATTTCACATATACATTGTTC
Found at i:32132668 original size:22 final size:22
Alignment explanation
Indices: 32132617--32132668 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
32132607 ACATAATATT
**
32132617 TCATATATACATTGTTCATATT
1 TCATATATACATTGTTCATACA
*
32132639 TCACATATACATTGTTCATCACA
1 TCATATATACATTGTTCAT-ACA
32132662 T-ATATAT
1 TCATATAT
32132669 CATCATATAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
22 23 0.92
23 2 0.08
ACGTcount: A:0.35, C:0.17, G:0.04, T:0.44
Consensus pattern (22 bp):
TCATATATACATTGTTCATACA
Found at i:32134247 original size:3 final size:3
Alignment explanation
Indices: 32134234--32134268 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
32134224 ATGAGGAGTG
32134234 TAA TAAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
32134269 TAAGAAGACG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:32138419 original size:23 final size:23
Alignment explanation
Indices: 32138393--32138513 Score: 156
Period size: 23 Copynumber: 5.2 Consensus size: 23
32138383 ACACTAGCGC
32138393 GCTCTCTGATTAGCACTGTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
* *
32138416 GCTCTCTGTTTAGCAC-GTCTCGT
1 GCTCTCTGATTAGCACTGTGT-GT
32138439 GCTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTG--ATTAGCACTGTGTGT
*
32138464 GCTCTCCGATTAGCACT-TCGTGT
1 GCTCTCTGATTAGCACTGT-GTGT
*
32138487 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
32138510 GCTC
1 GCTC
32138514 AGTACTTTGT
Statistics
Matches: 86, Mismatches: 6, Indels: 12
0.83 0.06 0.12
Matches are distributed among these distances:
22 4 0.05
23 62 0.72
24 1 0.01
25 16 0.19
26 3 0.03
ACGTcount: A:0.12, C:0.26, G:0.23, T:0.40
Consensus pattern (23 bp):
GCTCTCTGATTAGCACTGTGTGT
Found at i:32138462 original size:48 final size:46
Alignment explanation
Indices: 32138393--32138513 Score: 172
Period size: 48 Copynumber: 2.6 Consensus size: 46
32138383 ACACTAGCGC
* *
32138393 GCTCTCTGATTAGCACTGTGTGTGCTCTCTGTTTAGCACGTC-TCGT
1 GCTCTCTGATTAGCACTGTGTGTGCTCTCCGATTAGCACGTCGT-GT
*
32138439 GCTCTCTGTTATTAGCACTGTGTGTGCTCTCCGATTAGCACTTCGTGT
1 GCTCTCTG--ATTAGCACTGTGTGTGCTCTCCGATTAGCACGTCGTGT
*
32138487 GCTCTCTGATTAGCACTTTGTGTGCTC
1 GCTCTCTGATTAGCACTGTGTGTGCTC
32138514 AGTACTTTGT
Statistics
Matches: 68, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
46 26 0.38
48 41 0.60
49 1 0.01
ACGTcount: A:0.12, C:0.26, G:0.23, T:0.40
Consensus pattern (46 bp):
GCTCTCTGATTAGCACTGTGTGTGCTCTCCGATTAGCACGTCGTGT
Found at i:32138542 original size:39 final size:39
Alignment explanation
Indices: 32138478--32138552 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
32138468 TCCGATTAGC
*
32138478 ACTTCGTGTGCTCTCTGATTAGCACTTTGTGTGCTCAGT
1 ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTCAGT
* *
32138517 ACTTTGTGTACTCTCTGTTTAGCACTTTGTGTGCTC
1 ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTC
32138553 TCTGTTGCCC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.44
Consensus pattern (39 bp):
ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTCAGT
Found at i:32138547 original size:23 final size:23
Alignment explanation
Indices: 32138512--32138605 Score: 86
Period size: 23 Copynumber: 4.0 Consensus size: 23
32138502 CTTTGTGTGC
*
32138512 TCAGTACTTTGTGTACTCTCTGT
1 TCAGCACTTTGTGTACTCTCTGT
* *
32138535 TTAGCACTTTGTGTGCTCTCTGT
1 TCAGCACTTTGTGTACTCTCTGT
32138558 TGCCCAGCACTTATGTG--CTCTCTGT
1 T---CAGCACTT-TGTGTACTCTCTGT
* *
32138583 TCAGTACTTCG-GTACTCTCTGT
1 TCAGCACTTTGTGTACTCTCTGT
32138605 T
1 T
32138606 TGTTCCGTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 13
0.76 0.08 0.17
Matches are distributed among these distances:
20 1 0.02
21 1 0.02
22 16 0.27
23 21 0.36
25 9 0.15
26 7 0.12
27 4 0.07
ACGTcount: A:0.12, C:0.26, G:0.19, T:0.44
Consensus pattern (23 bp):
TCAGCACTTTGTGTACTCTCTGT
Found at i:32140508 original size:32 final size:30
Alignment explanation
Indices: 32140472--32140531 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 30
32140462 GCAGCCTTGT
32140472 GACTTAAAATAAAAACTTTTGAATAGTTTAAG
1 GACTT-AAAT-AAAACTTTTGAATAGTTTAAG
**
32140504 GACTTAAATAAATTTTTTGAATAGTTTA
1 GACTTAAATAAAACTTTTGAATAGTTTA
32140532 GTGACCAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 17 0.65
31 4 0.15
32 5 0.19
ACGTcount: A:0.43, C:0.05, G:0.12, T:0.40
Consensus pattern (30 bp):
GACTTAAATAAAACTTTTGAATAGTTTAAG
Found at i:32154323 original size:92 final size:93
Alignment explanation
Indices: 32154212--32154403 Score: 262
Period size: 94 Copynumber: 2.1 Consensus size: 93
32154202 TAACTTTTTC
* * * *
32154212 TTTATTCAATCAATTATTTAAGAAAAAA-ATTTACCAT-AAAATACTAAATCCAAACAATCATAT
1 TTTATTCAATCAATCATTTAA-AAAAAATATTTACCATAAAAATAATAAAACCAAACAACCATAT
* *
32154275 TTAATAAAGTTGCCTAAATTAATTTATTG
65 TTAATAAAGTTGCCTAAAATAATTTATTA
* *
32154304 TTTATTCAATCAATCATTTAAAAAAAATATTTATCATAAAAAATAATAAAACCAATCAACCATAT
1 TTTATTCAATCAATCATTTAAAAAAAATATTTACCAT-AAAAATAATAAAACCAAACAACCATAT
* *
32154369 TTAATAAAGTTGCTTAAAATGATTTATTA
65 TTAATAAAGTTGCCTAAAATAATTTATTA
32154398 TTTATT
1 TTTATT
32154404 AAATATGACA
Statistics
Matches: 87, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
91 6 0.07
92 28 0.32
94 53 0.61
ACGTcount: A:0.47, C:0.11, G:0.04, T:0.38
Consensus pattern (93 bp):
TTTATTCAATCAATCATTTAAAAAAAATATTTACCATAAAAATAATAAAACCAAACAACCATATT
TAATAAAGTTGCCTAAAATAATTTATTA
Found at i:32155708 original size:2 final size:2
Alignment explanation
Indices: 32155701--32155747 Score: 80
Period size: 2 Copynumber: 24.5 Consensus size: 2
32155691 TCAAGGTAAT
32155701 TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA T- TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
32155741 TA TA TA T
1 TA TA TA T
32155748 TATCTCTAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 41 0.95
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:32164758 original size:19 final size:19
Alignment explanation
Indices: 32164734--32164789 Score: 78
Period size: 19 Copynumber: 3.0 Consensus size: 19
32164724 GCCAACGAAT
32164734 TATTTAAAATTTATAAAAA
1 TATTTAAAATTTATAAAAA
*
32164753 TATTTAAAATATATAAAAA
1 TATTTAAAATTTATAAAAA
* *
32164772 -ATTCAAAATTCATAAAAA
1 TATTTAAAATTTATAAAAA
32164790 ATATAGAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
18 15 0.45
19 18 0.55
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.36
Consensus pattern (19 bp):
TATTTAAAATTTATAAAAA
Found at i:32164800 original size:19 final size:18
Alignment explanation
Indices: 32164739--32164791 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
32164729 CGAATTATTT
* *
32164739 AAAATTTATAAAAATATTT
1 AAAATTCATAAAAA-ATTC
32164758 AAAATAT-ATAAAAAATTC
1 AAAAT-TCATAAAAAATTC
32164776 AAAATTCATAAAAAAT
1 AAAATTCATAAAAAAT
32164792 ATAGAAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
17 1 0.03
18 17 0.55
19 12 0.39
20 1 0.03
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAATTCATAAAAAATTC
Found at i:32164975 original size:26 final size:25
Alignment explanation
Indices: 32164946--32164994 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
32164936 AATTGACGGT
32164946 TAAATTTAACTAAAAAAA-ATAATGGC
1 TAAA-TTAA-TAAAAAAATATAATGGC
*
32164972 TAAATTGATAAAAAAATATAATG
1 TAAATTAATAAAAAAATATAATG
32164995 TTGGGGGCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 8 0.38
25 9 0.43
26 4 0.19
ACGTcount: A:0.59, C:0.04, G:0.08, T:0.29
Consensus pattern (25 bp):
TAAATTAATAAAAAAATATAATGGC
Found at i:32165332 original size:31 final size:31
Alignment explanation
Indices: 32165277--32165341 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
32165267 ATTTTTTGTC
* *
32165277 AATAAAAATATTGACTAAAGTAATAGTTTTT
1 AATAAAAATATTGACTAAAATAATAATTTTT
* * *
32165308 AATAGAAATGTTGATTAAAATAATAATTTTT
1 AATAAAAATATTGACTAAAATAATAATTTTT
32165339 AAT
1 AAT
32165342 GTTATTAGCA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.49, C:0.02, G:0.09, T:0.40
Consensus pattern (31 bp):
AATAAAAATATTGACTAAAATAATAATTTTT
Found at i:32165460 original size:23 final size:22
Alignment explanation
Indices: 32165428--32165484 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
32165418 GTCAATAAGT
32165428 AATTCAAAATTTATAAAAATAAA
1 AATT-AAAATTTATAAAAATAAA
** * *
32165451 ATATTAAAATAAATCAAAATTAA
1 A-ATTAAAATTTATAAAAATAAA
32165474 AATTAAAATTT
1 AATTAAAATTT
32165485 TTTATGAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
22 8 0.30
23 16 0.59
24 3 0.11
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (22 bp):
AATTAAAATTTATAAAAATAAA
Found at i:32173101 original size:29 final size:30
Alignment explanation
Indices: 32173058--32173124 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 30
32173048 TTTAAAACTG
* * * *
32173058 AATCAAATTAGTCTCTCTATTATTA-AATA
1 AATCAAATTAATCTCTATACTATTATAAAA
*
32173087 AATCAATTTAATCTCTATACTATTATAAAA
1 AATCAAATTAATCTCTATACTATTATAAAA
32173117 AATCAAAT
1 AATCAAAT
32173125 AAATTTAAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
29 21 0.68
30 10 0.32
ACGTcount: A:0.46, C:0.13, G:0.01, T:0.39
Consensus pattern (30 bp):
AATCAAATTAATCTCTATACTATTATAAAA
Found at i:32177357 original size:3 final size:3
Alignment explanation
Indices: 32177349--32177382 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
32177339 CCATAGCAAA
32177349 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
32177383 TTGAAATTCT
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:0.35, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:32179509 original size:61 final size:60
Alignment explanation
Indices: 32179324--32179583 Score: 330
Period size: 60 Copynumber: 4.3 Consensus size: 60
32179314 AATTTTTTTT
*** * *
32179324 AATTTTTTTGAGTGTTGGCCATTGCATGGTCGACACCCTCTATTTCTCGAG----AAATTCA
1 AATTTTTTTG-GTGTTGGCCATCAAATGGCCGACACCCCCT-TTTCTCGAGAAAAAAATTCA
* * ** * * *
32179382 ATTTTTTTTTGTGTTGGCCATCGCATGACAGACACCTCCTTTTCTCGAGAAAAAAATTCA
1 AATTTTTTTGGTGTTGGCCATCAAATGGCCGACACCCCCTTTTCTCGAGAAAAAAATTCA
32179442 AATTTTTTTGGTGTTGGCCATCAAATGGCCGACACCCCCTTTTCTCGAGAAAAAAATTCA
1 AATTTTTTTGGTGTTGGCCATCAAATGGCCGACACCCCCTTTTCTCGAGAAAAAAATTCA
**
32179502 AATTTTTTTGGTGTTGGCCATCAAATGGCCGACACCCTTTTTTCTCGAGAAAAAAAATTCA
1 AATTTTTTTGGTGTTGGCCATCAAATGGCCGACACCCCCTTTTCTCGAG-AAAAAAATTCA
*
32179563 AATTTTTTTTGTGTTGGCCAT
1 AATTTTTTTGGTGTTGGCCAT
32179584 TTTCCTCGGA
Statistics
Matches: 179, Mismatches: 18, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
56 9 0.05
57 24 0.13
58 8 0.04
60 107 0.60
61 31 0.17
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (60 bp):
AATTTTTTTGGTGTTGGCCATCAAATGGCCGACACCCCCTTTTCTCGAGAAAAAAATTCA
Found at i:32180535 original size:30 final size:29
Alignment explanation
Indices: 32180475--32180565 Score: 87
Period size: 30 Copynumber: 3.1 Consensus size: 29
32180465 TAATAATTAG
* * * *
32180475 AATATACATGAAATTAGAAAGAAAAATTAA
1 AATATACAAGAAATTACAAA-TAAATTTAA
32180505 AATATACAAGAAATT-CAAAATTAAATTTAA
1 AATATACAAGAAATTAC-AAA-TAAATTTAA
*
32180535 AATA-AAAACGAAATTACAAATAAATTTAA
1 AATATACAA-GAAATTACAAATAAATTTAA
32180564 AA
1 AA
32180566 AGTAAAGGGA
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
29 14 0.27
30 37 0.71
31 1 0.02
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.25
Consensus pattern (29 bp):
AATATACAAGAAATTACAAATAAATTTAA
Found at i:32181108 original size:12 final size:12
Alignment explanation
Indices: 32181069--32181108 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
32181059 GGTAATCGGC
32181069 CTCGTCCGCGGG
1 CTCGTCCGCGGG
* *
32181081 CTCATCCGTGGG
1 CTCGTCCGCGGG
*
32181093 CTCGTCTGCGGG
1 CTCGTCCGCGGG
32181105 CTCG
1 CTCG
32181109 ACATTGGGCT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.03, C:0.38, G:0.38, T:0.23
Consensus pattern (12 bp):
CTCGTCCGCGGG
Found at i:32181734 original size:13 final size:13
Alignment explanation
Indices: 32181716--32181740 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32181706 ATTTCGAAAA
32181716 TGTAAAAAATATT
1 TGTAAAAAATATT
32181729 TGTAAAAAATAT
1 TGTAAAAAATAT
32181741 CAGATATTTA
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:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (13 bp):
TGTAAAAAATATT
Found at i:32182794 original size:20 final size:20
Alignment explanation
Indices: 32182769--32182823 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
32182759 ATGATGGATG
*
32182769 AAAGTCGATCAACGGCGGAC
1 AAAGTCGATCAACGGCAGAC
* **
32182789 AAAGTCGGTCAACAACAGAC
1 AAAGTCGATCAACGGCAGAC
32182809 AAAGTCGATCAACGG
1 AAAGTCGATCAACGG
32182824 TGGTCAACGG
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.40, C:0.24, G:0.25, T:0.11
Consensus pattern (20 bp):
AAAGTCGATCAACGGCAGAC
Found at i:32182832 original size:10 final size:10
Alignment explanation
Indices: 32182817--32182874 Score: 71
Period size: 10 Copynumber: 5.8 Consensus size: 10
32182807 ACAAAGTCGA
*
32182817 TCAACGGTGG
1 TCAACGGCGG
32182827 TCAACGGCGG
1 TCAACGGCGG
* *
32182837 TTAACGGTGG
1 TCAACGGCGG
*
32182847 TCAACGACGG
1 TCAACGGCGG
*
32182857 TTAACGGCGG
1 TCAACGGCGG
32182867 TCAACGGC
1 TCAACGGC
32182875 TGTCTTGAGA
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
10 39 1.00
ACGTcount: A:0.22, C:0.24, G:0.36, T:0.17
Consensus pattern (10 bp):
TCAACGGCGG
Found at i:32182844 original size:20 final size:20
Alignment explanation
Indices: 32182819--32182874 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
32182809 AAAGTCGATC
32182819 AACGGTGGTCAACGGCGGTT
1 AACGGTGGTCAACGGCGGTT
*
32182839 AACGGTGGTCAACGACGGTT
1 AACGGTGGTCAACGGCGGTT
*
32182859 AACGGCGGTCAACGGC
1 AACGGTGGTCAACGGC
32182875 TGTCTTGAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.23, C:0.23, G:0.38, T:0.16
Consensus pattern (20 bp):
AACGGTGGTCAACGGCGGTT
Found at i:32183176 original size:83 final size:83
Alignment explanation
Indices: 32183038--32183477 Score: 638
Period size: 83 Copynumber: 5.3 Consensus size: 83
32183028 TAAATATAAA
32183038 ATATGATAAAAATTATAATATAAT-AAAAATTTTATTTAAAGATATAAAATTAATAAATAATGTA
1 ATATGATAAAAATTATAATATAATAAAAAATTTTATTTAAAGATATAAAATTAATAAATAATGTA
32183102 TTGTCAAATCAATACATT
66 TTGTCAAATCAATACATT
*
32183120 ATATGATAAAAATTGTAATATAATAAAAAATTTTATTTAAAGATATAAAATTAATAAATAATGTA
1 ATATGATAAAAATTATAATATAATAAAAAATTTTATTTAAAGATATAAAATTAATAAATAATGTA
*
32183185 TTGTCAAATCAACACATT
66 TTGTCAAATCAATACATT
* **
32183203 ATATGATAAAAATTGTAATATAATAAAATTTTTTATTTAAAGATATAAAATTAATAAATAATGTA
1 ATATGATAAAAATTATAATATAATAAAAAATTTTATTTAAAGATATAAAATTAATAAATAATGTA
*
32183268 TTGTCAAATCAACACATT
66 TTGTCAAATCAATACATT
**** *
32183286 ATATGATAAAAATTATAATATAATAATTTTTTTTATTTAAAGATATAAAATTAATAAATATTGTA
1 ATATGATAAAAATTATAATATAATAAAAAATTTTATTTAAAGATATAAAATTAATAAATAATGTA
32183351 TTGTCAAATCAATACATT
66 TTGTCAAATCAATACATT
* * *
32183369 ATATGAT-AAAATTATATTATAAT-AATAATTTGTACTTT-AA-ATATGAAAATTTGATAAATAA
1 ATATGATAAAAATTATAATATAATAAAAAATTT-TA-TTTAAAGATAT-AAAA-TTAATAAATAA
* *
32183430 TGTATTGTCAAATTAATACAAT
62 TGTATTGTCAAATCAATACATT
* * *
32183452 ATTTGATATAAATTGTAATATAATAA
1 ATATGATAAAAATTATAATATAATAA
32183478 CTATCTTTTT
Statistics
Matches: 330, Mismatches: 21, Indels: 11
0.91 0.06 0.03
Matches are distributed among these distances:
81 9 0.03
82 46 0.14
83 261 0.79
84 13 0.04
85 1 0.00
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.40
Consensus pattern (83 bp):
ATATGATAAAAATTATAATATAATAAAAAATTTTATTTAAAGATATAAAATTAATAAATAATGTA
TTGTCAAATCAATACATT
Found at i:32183216 original size:45 final size:46
Alignment explanation
Indices: 32183161--32183309 Score: 119
Period size: 45 Copynumber: 3.5 Consensus size: 46
32183151 TTTATTTAAA
32183161 GATATAAAATTAATAAATAATGTATTGTCAAATCAACACATTATAT
1 GATATAAAATTAATAAATAATGTATTGTCAAATCAACACATTATAT
* ** * *
32183207 GATA-AAAATTGTAATATAATAA--AATT-T----T--TTA-TTTA-AA
1 GATATAAAA-T-TAATA-AATAATGTATTGTCAAATCAACACATTATAT
32183244 GATATAAAATTAATAAATAATGTATTGTCAAATCAACACATTATAT
1 GATATAAAATTAATAAATAATGTATTGTCAAATCAACACATTATAT
32183290 GATA-AAAATT-ATAATATAAT
1 GATATAAAATTAATAA-ATAAT
32183310 AATTTTTTTT
Statistics
Matches: 77, Mismatches: 10, Indels: 33
0.64 0.08 0.28
Matches are distributed among these distances:
35 5 0.06
36 5 0.06
37 9 0.12
38 8 0.10
39 1 0.01
41 1 0.01
42 1 0.01
44 5 0.06
45 19 0.25
46 13 0.17
47 5 0.06
48 5 0.06
ACGTcount: A:0.52, C:0.05, G:0.06, T:0.37
Consensus pattern (46 bp):
GATATAAAATTAATAAATAATGTATTGTCAAATCAACACATTATAT
Found at i:32183625 original size:12 final size:12
Alignment explanation
Indices: 32183608--32183655 Score: 51
Period size: 12 Copynumber: 3.7 Consensus size: 12
32183598 AAACATGTTC
32183608 ATTAATTTCCAA
1 ATTAATTTCCAA
32183620 ATTAATTTCAACTTAA
1 ATTAATTTC--C--AA
*
32183636 ATTAATTTTCAA
1 ATTAATTTCCAA
32183648 ATTAATTT
1 ATTAATTT
32183656 TTACACAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
12 19 0.61
14 2 0.06
16 10 0.32
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (12 bp):
ATTAATTTCCAA
Found at i:32183654 original size:16 final size:16
Alignment explanation
Indices: 32183618--32183652 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
32183608 ATTAATTTCC
*
32183618 AAATTAATTTCAACTT
1 AAATTAATTTCAAATT
32183634 AAATTAATTTTCAAATT
1 AAATTAA-TTTCAAATT
32183651 AA
1 AA
32183653 TTTTTACACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.43
Consensus pattern (16 bp):
AAATTAATTTCAAATT
Found at i:32183665 original size:28 final size:28
Alignment explanation
Indices: 32183608--32183665 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
32183598 AAACATGTTC
**
32183608 ATTAATTTCCAAATTAATTTCAACTTAA
1 ATTAATTTCCAAATTAATTTCAACACAA
* **
32183636 ATTAATTTTCAAATTAATTTTTACACAA
1 ATTAATTTCCAAATTAATTTCAACACAA
32183664 AT
1 AT
32183666 ATACTTCGTG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.43, C:0.12, G:0.00, T:0.45
Consensus pattern (28 bp):
ATTAATTTCCAAATTAATTTCAACACAA
Found at i:32187550 original size:59 final size:58
Alignment explanation
Indices: 32187387--32187561 Score: 242
Period size: 59 Copynumber: 2.9 Consensus size: 58
32187377 AGGAGAAGTT
* *
32187387 GGTGTCGGCCATTTGATGGCCAACACCAAAAAAATTTGAATTTTTTTCTCAAGAAAAGG
1 GGTGTCGGCCATTTGATGGCCAACA-CAAAAAAATTTAAATTTTTTTCTCGAGAAAAGG
** * *
32187446 GGTGTCGGCCATGCGATGGCCAACACCAAAAAATTTAAAAATTTTTTCTCGAGAAAAGG
1 GGTGTCGGCCATTTGATGGCCAACACAAAAAAATTT-AAATTTTTTTCTCGAGAAAAGG
* *
32187505 GGTGTTGGCCATTTGATGGCCAACACTAAAAAAATTTAAATTTTTTTTTTCGAGAAA
1 GGTGTCGGCCATTTGATGGCCAACAC-AAAAAAATTTAAA-TTTTTTTCTCGAGAAA
32187562 TAGGATGGTC
Statistics
Matches: 101, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
58 10 0.10
59 68 0.67
60 23 0.23
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (58 bp):
GGTGTCGGCCATTTGATGGCCAACACAAAAAAATTTAAATTTTTTTCTCGAGAAAAGG
Found at i:32190156 original size:2 final size:2
Alignment explanation
Indices: 32190149--32190194 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
32190139 CCATTAAGAA
32190149 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32190191 AT AT
1 AT AT
32190195 TGGTATTTGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32191751 original size:3 final size:3
Alignment explanation
Indices: 32191743--32191786 Score: 72
Period size: 3 Copynumber: 14.7 Consensus size: 3
32191733 AACTACAACC
32191743 TCT TCT TCT TCT TCT TCT TC- TCT TCT TCTT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC-T TCT TCT TCT TCT TC
32191787 ACCCGGAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 2 0.05
3 34 0.87
4 3 0.08
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:32195488 original size:25 final size:23
Alignment explanation
Indices: 32195431--32195591 Score: 166
Period size: 23 Copynumber: 6.9 Consensus size: 23
32195421 TTACCGTTCA
*
32195431 GCACTGTGTGTGCTTACTGTTTC
1 GCACTTTGTGTGCTTACTGTTTC
32195454 GCACTTTGTGTGCTTACTGTTTC
1 GCACTTTGTGTGCTTACTGTTTC
*
32195477 GCACTTTGTGTGCCTACTGTTTC
1 GCACTTTGTGTGCTTACTGTTTC
* *
32195500 GCACTTCGTGTGCCTACTGATTT-
1 GCACTTTGTGTGCTTACTG-TTTC
* * * * *
32195523 GCGCTATGTGCGCCTACTGATT-
1 GCACTTTGTGTGCTTACTGTTTC
*
32195545 GCACTGTGTGTGCTTACTGTTTCCCC
1 GCACTTTGTGTGCTTACTGTTT---C
32195571 AGCAC-TTGTGTGCTTACTGTT
1 -GCACTTTGTGTGCTTACTGTT
32195592 AAGTACTTCA
Statistics
Matches: 118, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
22 19 0.16
23 77 0.65
24 3 0.03
26 15 0.13
27 4 0.03
ACGTcount: A:0.11, C:0.25, G:0.24, T:0.41
Consensus pattern (23 bp):
GCACTTTGTGTGCTTACTGTTTC
Found at i:32196263 original size:19 final size:17
Alignment explanation
Indices: 32196239--32196277 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
32196229 GAATTATGAA
*
32196239 AATATGATTAAATAATATT
1 AATATGAAT-AATAA-ATT
32196258 AATATGAATAATAAATT
1 AATATGAATAATAAATT
32196275 AAT
1 AAT
32196278 GATAAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 5 0.26
19 8 0.42
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (17 bp):
AATATGAATAATAAATT
Found at i:32197120 original size:30 final size:32
Alignment explanation
Indices: 32197059--32197120 Score: 85
Period size: 30 Copynumber: 2.0 Consensus size: 32
32197049 TCTTTGAAAA
*
32197059 TACAATCATTTTTACTAATTTTAATATTTTTT
1 TACAATCATTTTTACTAATTTTAATAATTTTT
32197091 TACAATC-TTTTT-CT-ATTTCTAATAATTTTT
1 TACAATCATTTTTACTAATTT-TAATAATTTTT
32197121 ATAATTCTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 4 0.14
30 12 0.43
31 5 0.18
32 7 0.25
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.60
Consensus pattern (32 bp):
TACAATCATTTTTACTAATTTTAATAATTTTT
Found at i:32197126 original size:9 final size:9
Alignment explanation
Indices: 32197112--32197184 Score: 58
Period size: 9 Copynumber: 8.0 Consensus size: 9
32197102 TCTATTTCTA
32197112 ATAATTTTT
1 ATAATTTTT
*
32197121 ATAATTCTT
1 ATAATTTTT
* *
32197130 ATGATATTT
1 ATAATTTTT
*
32197139 ATAATTTCTA
1 ATAATTT-TT
*
32197149 ATATTTTTT
1 ATAATTTTT
*
32197158 TTACATTTTT
1 ATA-ATTTTT
*
32197168 TTAATTTTT
1 ATAATTTTT
32197177 AT-ATTTTT
1 ATAATTTTT
32197185 TTTGTAAAAT
Statistics
Matches: 50, Mismatches: 12, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
8 6 0.12
9 29 0.58
10 15 0.30
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.66
Consensus pattern (9 bp):
ATAATTTTT
Found at i:32197128 original size:18 final size:18
Alignment explanation
Indices: 32197105--32197156 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
32197095 ATCTTTTTCT
32197105 ATTTCTAATAATTTTTATA
1 ATTTCTAAT-ATTTTTATA
* *
32197124 A-TTCTTATGATATTTATA
1 ATTTCTAAT-ATTTTTATA
32197142 ATTTCTAATATTTTT
1 ATTTCTAATATTTTT
32197157 TTTACATTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
18 20 0.74
19 7 0.26
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.60
Consensus pattern (18 bp):
ATTTCTAATATTTTTATA
Found at i:32197712 original size:14 final size:14
Alignment explanation
Indices: 32197678--32197723 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
32197668 ATAACAAAAT
32197678 AAAATAAAATTTT-
1 AAAATAAAATTTTA
*
32197691 -ATATAAAATTTTA
1 AAAATAAAATTTTA
*
32197704 AAAATAAAATTATA
1 AAAATAAAATTTTA
32197718 AAAATA
1 AAAATA
32197724 TGAAAAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
12 11 0.39
14 17 0.61
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
AAAATAAAATTTTA
Found at i:32197740 original size:19 final size:19
Alignment explanation
Indices: 32197716--32197769 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
32197706 AATAAAATTA
32197716 TAAAAATATGAAAAATATT
1 TAAAAATATGAAAAATATT
*
32197735 TAAAAATAT-AAATTATTATT
1 TAAAAATATGAAA--AATATT
32197755 T-AAAATATGATAAAA
1 TAAAAATATGA-AAAA
32197770 CTATAGTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
18 3 0.10
19 17 0.59
20 7 0.24
21 2 0.07
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (19 bp):
TAAAAATATGAAAAATATT
Found at i:32198116 original size:10 final size:9
Alignment explanation
Indices: 32198102--32198213 Score: 67
Period size: 10 Copynumber: 12.3 Consensus size: 9
32198092 TGTTTTATGC
32198102 TTTTTATAA
1 TTTTTATAA
* *
32198111 TATTTTGTTA
1 T-TTTTATAA
*
32198121 TTTTTA-AT
1 TTTTTATAA
32198129 TTTTTATTAA
1 TTTTTA-TAA
32198139 TTTTCTAT-A
1 TTTT-TATAA
32198148 TTTTTA-AA
1 TTTTTATAA
32198156 TACTTTTCATAA
1 T--TTTT-ATAA
32198168 TTTTTAT-A
1 TTTTTATAA
32198176 TTTTTAT--
1 TTTTTATAA
*
32198183 TTTTTGTAA
1 TTTTTATAA
32198192 TTTTTAATTAA
1 TTTTT-A-TAA
32198203 -TTTTATAA
1 TTTTTATAA
32198211 TTT
1 TTT
32198214 ATATGTTTTT
Statistics
Matches: 81, Mismatches: 8, Indels: 28
0.69 0.07 0.24
Matches are distributed among these distances:
7 6 0.07
8 21 0.26
9 20 0.25
10 25 0.31
11 6 0.07
12 3 0.04
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.68
Consensus pattern (9 bp):
TTTTTATAA
Found at i:32198133 original size:17 final size:18
Alignment explanation
Indices: 32198103--32198200 Score: 55
Period size: 17 Copynumber: 5.6 Consensus size: 18
32198093 GTTTTATGCT
* *
32198103 TTTTATAATATTTTGTTA
1 TTTTATAATTTTTTATTA
32198121 TTTT-TAATTTTTTATTAA
1 TTTTATAATTTTTTATT-A
* * *
32198139 TTTTCTATATTTTTAAATA
1 TTTTATA-ATTTTTTATTA
32198158 CTTTTCATAA-TTTTTA-TA
1 -TTTT-ATAATTTTTTATTA
* *
32198176 TTTT-T-ATTTTTTGTAA
1 TTTTATAATTTTTTATTA
32198192 TTTT-TAATT
1 TTTTATAATT
32198201 AATTTTATAA
Statistics
Matches: 64, Mismatches: 8, Indels: 17
0.72 0.09 0.19
Matches are distributed among these distances:
14 1 0.02
15 6 0.09
16 6 0.09
17 17 0.27
18 11 0.17
19 8 0.12
20 13 0.20
21 2 0.03
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (18 bp):
TTTTATAATTTTTTATTA
Found at i:32198133 original size:28 final size:27
Alignment explanation
Indices: 32198102--32198187 Score: 63
Period size: 27 Copynumber: 3.1 Consensus size: 27
32198092 TGTTTTATGC
32198102 TTTTTATAATATTTTGTTATTTTTAA-T
1 TTTTTATAATATTTT-TTATTTTTAATT
* *
32198129 TTTTTATTAAT-TTTCTATATTTTTAAATAC
1 TTTTTA-TAATATTT-TTTATTTTT-AAT-T
* *
32198159 TTTTCATAAT-TTTTATATTTTT-ATT
1 TTTTTATAATATTTTTTATTTTTAATT
32198184 TTTT
1 TTTT
32198188 GTAATTTTTA
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
25 4 0.08
26 2 0.04
27 16 0.32
28 16 0.32
29 7 0.14
30 5 0.10
ACGTcount: A:0.26, C:0.03, G:0.01, T:0.70
Consensus pattern (27 bp):
TTTTTATAATATTTTTTATTTTTAATT
Found at i:32198212 original size:43 final size:46
Alignment explanation
Indices: 32198120--32198223 Score: 117
Period size: 43 Copynumber: 2.3 Consensus size: 46
32198110 ATATTTTGTT
*
32198120 ATTTTTA-ATTTTTTATTAATTTTCTATATTTTTAAATACTTTTCATA
1 ATTTTTATA-TTTTTATT-ATTTTCTATATTTTTAAATAATTTTCATA
* *
32198167 ATTTTTATATTTTTATT-TTTTGTA-ATTTTTAATTAATTTT-ATA
1 ATTTTTATATTTTTATTATTTTCTATATTTTTAAATAATTTTCATA
* *
32198210 ATTTATATGTTTTT
1 ATTTTTATATTTTT
32198224 GACATTTTTA
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
43 15 0.29
44 14 0.27
45 6 0.12
47 15 0.29
48 1 0.02
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (46 bp):
ATTTTTATATTTTTATTATTTTCTATATTTTTAAATAATTTTCATA
Found at i:32198231 original size:36 final size:35
Alignment explanation
Indices: 32198159--32198251 Score: 109
Period size: 36 Copynumber: 2.7 Consensus size: 35
32198149 TTTTAAATAC
* * *
32198159 TTTTCATAATTTTTAT-ATTTTTATTTTTTGTAAT
1 TTTTAATAAATTTTATAATTTATATTTTTTGTAAT
*
32198193 TTTTAATTAATTTTATAATTTATATGTTTTTG-ACAT
1 TTTTAATAAATTTTATAATTTATAT-TTTTTGTA-AT
*
32198229 TTTTAATAAATTTCATAATTTAT
1 TTTTAATAAATTTTATAATTTAT
32198252 TGAACTTTAT
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
34 13 0.26
35 8 0.16
36 29 0.58
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.63
Consensus pattern (35 bp):
TTTTAATAAATTTTATAATTTATATTTTTTGTAAT
Found at i:32198284 original size:18 final size:19
Alignment explanation
Indices: 32198263--32198300 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
32198253 GAACTTTATA
*
32198263 TATTTTTTAATTTTA-ATT
1 TATTTTATAATTTTATATT
*
32198281 TATTTTATGATTTTATATT
1 TATTTTATAATTTTATATT
32198300 T
1 T
32198301 TAATGATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (19 bp):
TATTTTATAATTTTATATT
Found at i:32198306 original size:16 final size:15
Alignment explanation
Indices: 32198281--32198329 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 15
32198271 AATTTTAATT
32198281 TATTTTATGATTTTA
1 TATTTTATGATTTTA
32198296 TATTTTAATGATTTTCTA
1 TATTTT-ATGA-TTT-TA
32198314 TAATATTTATGATTTT
1 T-AT-TTTATGATTTT
32198330 TAATCATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
15 6 0.21
16 4 0.14
17 4 0.14
18 6 0.21
19 6 0.21
20 3 0.10
ACGTcount: A:0.29, C:0.02, G:0.06, T:0.63
Consensus pattern (15 bp):
TATTTTATGATTTTA
Found at i:32200455 original size:2 final size:2
Alignment explanation
Indices: 32200450--32200475 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
32200440 ATTTTTTTCC
32200450 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
32200476 GGAGGTGGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32201871 original size:8 final size:8
Alignment explanation
Indices: 32201860--32201912 Score: 52
Period size: 8 Copynumber: 6.0 Consensus size: 8
32201850 TTAAATTTTA
32201860 ATAAAAAT
1 ATAAAAAT
32201868 ATAAAAAT
1 ATAAAAAT
*
32201876 ATTTAAAATTT
1 A--TAAAA-AT
32201887 ATTAAAAAT
1 A-TAAAAAT
32201896 ATAAAAATT
1 ATAAAAA-T
32201905 ATAAAAAT
1 ATAAAAAT
32201913 CGTAAAAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
8 16 0.41
9 10 0.26
10 11 0.28
11 2 0.05
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (8 bp):
ATAAAAAT
Found at i:32201871 original size:28 final size:28
Alignment explanation
Indices: 32201839--32201930 Score: 107
Period size: 28 Copynumber: 3.3 Consensus size: 28
32201829 AAAAAAATGT
*
32201839 TATAAAAATTATTAAATTTTAATAAAAA
1 TATAAAAATTATTAAAATTTAATAAAAA
*
32201867 TATAAAAA-TATTTAAAATTTATTAAAAA
1 TATAAAAATTA-TTAAAATTTAATAAAAA
* * *
32201895 TATAAAAATTATAAAAATCGTAA-AAAAT
1 TATAAAAATTATTAAAAT-TTAATAAAAA
32201923 TATAAAAA
1 TATAAAAA
32201931 AATAGAAAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
27 2 0.04
28 49 0.89
29 4 0.07
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.35
Consensus pattern (28 bp):
TATAAAAATTATTAAAATTTAATAAAAA
Found at i:32201875 original size:20 final size:20
Alignment explanation
Indices: 32201811--32201881 Score: 53
Period size: 20 Copynumber: 3.6 Consensus size: 20
32201801 GTGACATGTG
*
32201811 ATAAAAATTATAA-AAGAAA-
1 ATAAAAATTTTAATAA-AAAT
*
32201830 A-AAAAATGTT-ATAAAAAT
1 ATAAAAATTTTAATAAAAAT
*
32201848 -TATTAAATTTTAATAAAAAT
1 ATA-AAAATTTTAATAAAAAT
32201868 ATAAAAATATTTAA
1 ATAAAAAT-TTTAA
32201882 AATTTATTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
17 4 0.10
18 10 0.25
19 7 0.17
20 12 0.30
21 7 0.17
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (20 bp):
ATAAAAATTTTAATAAAAAT
Found at i:32201902 original size:19 final size:17
Alignment explanation
Indices: 32201860--32201930 Score: 72
Period size: 19 Copynumber: 3.9 Consensus size: 17
32201850 TTAAATTTTA
32201860 ATAAAAA-TATAAAAAT
1 ATAAAAATTATAAAAAT
*
32201876 ATTTAAAATTTATTAAAAAT
1 A--TAAAAATTA-TAAAAAT
32201896 ATAAAAATTATAAAAAT
1 ATAAAAATTATAAAAAT
*
32201913 CGTAAAAAATTATAAAAA
1 -AT-AAAAATTATAAAAA
32201931 AATAGAAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
16 1 0.02
17 7 0.15
18 14 0.30
19 16 0.35
20 8 0.17
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (17 bp):
ATAAAAATTATAAAAAT
Found at i:32201930 original size:11 final size:11
Alignment explanation
Indices: 32201916--32201950 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
32201906 TAAAAATCGT
32201916 AAAAAATTATA
1 AAAAAATTATA
*
32201927 AAAAAA-TAGA
1 AAAAAATTATA
32201937 AAAAAATTATA
1 AAAAAATTATA
32201948 AAA
1 AAA
32201951 TTTTATAGTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (11 bp):
AAAAAATTATA
Found at i:32201933 original size:21 final size:21
Alignment explanation
Indices: 32201898--32201950 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
32201888 TTAAAAATAT
* *
32201898 AAAAATTAT--AAAAATCGTA
1 AAAAATTATAAAAAAATAGAA
32201917 AAAAATTATAAAAAAATAGAA
1 AAAAATTATAAAAAAATAGAA
32201938 AAAAATTATAAAA
1 AAAAATTATAAAA
32201951 TTTTATAGTC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 9 0.30
21 21 0.70
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.23
Consensus pattern (21 bp):
AAAAATTATAAAAAAATAGAA
Found at i:32201939 original size:19 final size:18
Alignment explanation
Indices: 32201890--32201950 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 18
32201880 AAAATTTATT
32201890 AAAAATATAAAAATTATAA
1 AAAAATA-AAAAATTATAA
**
32201909 AAATCGTAAAAAATTATAA
1 AAA-AATAAAAAATTATAA
32201928 AAAAATAGAAAAAAATTATAA
1 AAAAAT---AAAAAATTATAA
32201949 AA
1 AA
32201951 TTTTATAGTC
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
18 1 0.03
19 17 0.50
20 2 0.06
21 14 0.41
ACGTcount: A:0.72, C:0.02, G:0.03, T:0.23
Consensus pattern (18 bp):
AAAAATAAAAAATTATAA
Found at i:32201950 original size:9 final size:9
Alignment explanation
Indices: 32201811--32201930 Score: 77
Period size: 9 Copynumber: 12.8 Consensus size: 9
32201801 GTGACATGTG
32201811 ATAAAAATT
1 ATAAAAATT
*
32201820 ATAAAAGA-A
1 ATAAAA-ATT
*
32201829 AAAAAAATGTT
1 ATAAAAA--TT
32201840 ATAAAAATT
1 ATAAAAATT
**
32201849 ATTAAATTTT
1 A-TAAAAATT
32201859 AATAAAAA-T
1 -ATAAAAATT
32201868 ATAAAAATAT
1 ATAAAAAT-T
* *
32201878 TTAAAATTT
1 ATAAAAATT
32201887 ATTAAAAA-T
1 A-TAAAAATT
32201896 ATAAAAATT
1 ATAAAAATT
32201905 ATAAAAATCGT
1 ATAAAAAT--T
32201916 A-AAAAATT
1 ATAAAAATT
32201924 ATAAAAA
1 ATAAAAA
32201931 AATAGAAAAA
Statistics
Matches: 86, Mismatches: 12, Indels: 26
0.69 0.10 0.21
Matches are distributed among these distances:
8 16 0.19
9 32 0.37
10 29 0.34
11 9 0.10
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.32
Consensus pattern (9 bp):
ATAAAAATT
Found at i:32202020 original size:9 final size:10
Alignment explanation
Indices: 32201852--32201950 Score: 64
Period size: 10 Copynumber: 10.1 Consensus size: 10
32201842 AAAAATTATT
*
32201852 AAATTTTAATA
1 AAATTATAA-A
*
32201863 AAAATATAAA
1 AAATTATAAA
32201873 AATATT-T-AA
1 AA-ATTATAAA
* *
32201882 AATTTATTAA
1 AAATTATAAA
32201892 AAA-TAT-AA
1 AAATTATAAA
32201900 AAATTAT-AA
1 AAATTATAAA
**
32201909 AAATCGTAAA
1 AAATTATAAA
32201919 AAATTATAAA
1 AAATTATAAA
* *
32201929 AAAATAGAAAA
1 AAATTA-TAAA
32201940 AAATTATAAA
1 AAATTATAAA
32201950 A
1 A
32201951 TTTTATAGTC
Statistics
Matches: 69, Mismatches: 13, Indels: 13
0.73 0.14 0.14
Matches are distributed among these distances:
8 7 0.10
9 18 0.26
10 27 0.39
11 17 0.25
ACGTcount: A:0.67, C:0.01, G:0.02, T:0.30
Consensus pattern (10 bp):
AAATTATAAA
Found at i:32202295 original size:9 final size:9
Alignment explanation
Indices: 32202236--32202296 Score: 52
Period size: 9 Copynumber: 6.4 Consensus size: 9
32202226 TTTTTAAAAA
32202236 TTATGATTTT
1 TTAT-ATTTT
32202246 TTATAATTTT
1 TTAT-ATTTT
*
32202256 TAATATTTAT
1 TTATATTT-T
32202266 ATT-TATTTT
1 -TTATATTTT
* *
32202275 TTTTATATT
1 TTATATTTT
32202284 TTATATTTT
1 TTATATTTT
32202293 TTAT
1 TTAT
32202297 CACATATCGT
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
8 2 0.05
9 21 0.50
10 18 0.43
11 1 0.02
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (9 bp):
TTATATTTT
Done.