Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 210 of 230
Found at i:62495269 original size:18 final size:18
Alignment explanation
Indices: 62495246--62495307 Score: 97
Period size: 18 Copynumber: 3.4 Consensus size: 18
62495236 TGGTTAAAAA
*
62495246 TTAACCGACTTAACTGAT
1 TTAACCGACTTAACCGAT
62495264 TTAACCGACTTAACCGAT
1 TTAACCGACTTAACCGAT
* *
62495282 TTAACCGATTTAACCGAC
1 TTAACCGACTTAACCGAT
62495300 TTAACCGA
1 TTAACCGA
62495308 GAAATTGAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 41 1.00
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (18 bp):
TTAACCGACTTAACCGAT
Found at i:62495276 original size:27 final size:27
Alignment explanation
Indices: 62495246--62495307 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
62495236 TGGTTAAAAA
*
62495246 TTAACCGACTTAACTGATTTAACCGAC
1 TTAACCGACTTAACCGATTTAACCGAC
*
62495273 TTAACCGATTTAACCGATTTAACCGAC
1 TTAACCGACTTAACCGATTTAACCGAC
62495300 TTAACCGA
1 TTAACCGA
62495308 GAAATTGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (27 bp):
TTAACCGACTTAACCGATTTAACCGAC
Found at i:62500635 original size:21 final size:22
Alignment explanation
Indices: 62500606--62500652 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
62500596 CAGAAGGAGT
*
62500606 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
62500628 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
62500649 GAGT
1 GAGT
62500653 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:62503164 original size:110 final size:109
Alignment explanation
Indices: 62502873--62503268 Score: 632
Period size: 110 Copynumber: 3.6 Consensus size: 109
62502863 AGAAATCAAA
* * * * * *
62502873 ACCCAGCACATTAGGGCACG-CTCCTCGAATTTCTAAACGCAAAACATTGCCTTATTTTGAAATT
1 ACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTAAAATT
* * * *
62502937 TTTAAAAGGATATTTAGCCATTTGGTTGGATGAAAAAAATCGAC
66 TTTAAAAGGATATTAAGCAATTTGGTTGAATGAGAAAAATCGAC
* * *
62502981 ACTCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACACAAAACATTGCCTTATTTTGAAATT
1 ACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTAAAATT
62503046 TTTAAAAGGATATTAAGCAATTTGGTTGAATGAGAAAAATCGAC
66 TTTAAAAGGATATTAAGCAATTTGGTTGAATGAGAAAAATCGAC
62503090 ACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAACGCAAAACATTGCCTTATTTTAAAAT
1 ACCCAGCACCTTAGGGCATGTTTTCTCGAATTT-CCAAACGCAAAACATTGCCTTATTTTAAAAT
*
62503155 TTTTAAAAGGATATTAAGCAATTTGGTTGAACGAGAAAAATCGAC
65 TTTTAAAAGGATATTAAGCAATTTGGTTGAATGAGAAAAATCGAC
*
62503200 ACCCAGCACCTTAGGGCATGTTTTCTCGAATTTTTCAAACGCAAAACATTGCCTTATTTTAAAAT
1 ACCCAGCACCTTAGGGCATGTTTTCTCGAA-TTTCCAAACGCAAAACATTGCCTTATTTTAAAAT
62503265 TTTT
65 TTTT
62503269 CGTCTTTGAT
Statistics
Matches: 269, Mismatches: 16, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
108 17 0.06
109 112 0.42
110 137 0.51
111 3 0.01
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (109 bp):
ACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTAAAATT
TTTAAAAGGATATTAAGCAATTTGGTTGAATGAGAAAAATCGAC
Found at i:62503910 original size:16 final size:16
Alignment explanation
Indices: 62503875--62503946 Score: 55
Period size: 16 Copynumber: 4.8 Consensus size: 16
62503865 AAAGAAAAGA
* *
62503875 TATATATATATATAAG
1 TATATATATAAACAAG
*
62503891 TATATATATAAACAAT
1 TATATATATAAACAAG
*
62503907 TATATA-ATAAAAATAG
1 TATATATATAAACA-AG
62503923 TATA-ATA-AAAC-A-
1 TATATATATAAACAAG
*
62503935 TATATATCTAAA
1 TATATATATAAA
62503947 ACTTTCATAA
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
12 4 0.09
13 3 0.07
14 3 0.07
15 10 0.22
16 25 0.56
ACGTcount: A:0.57, C:0.04, G:0.03, T:0.36
Consensus pattern (16 bp):
TATATATATAAACAAG
Found at i:62503940 original size:14 final size:13
Alignment explanation
Indices: 62503876--62504040 Score: 59
Period size: 14 Copynumber: 12.0 Consensus size: 13
62503866 AAGAAAAGAT
*
62503876 ATATATATATATAA
1 ATATATA-ATAAAA
*
62503890 GTATATATATAAACA
1 ATATATA-ATAAA-A
62503905 ATTATATAATAAAA
1 A-TATATAATAAAA
62503919 ATAGTATAATAAAA
1 ATA-TATAATAAAA
*
62503933 CATATATATCTAAAA
1 -ATATATA-ATAAAA
* * * *
62503948 CTTTCATAAGTGAAT
1 ATAT-ATAA-TAAAA
* *
62503963 ATAAATAA-AAAC
1 ATATATAATAAAA
* *
62503975 ATAACAATAATAACA
1 AT-A-TATAATAAAA
*
62503990 ATA-ATATTAATAA
1 ATATATAATAA-AA
*
62504003 ATATACTAATAACA
1 ATATA-TAATAAAA
*
62504017 ATA-ATAATAATA
1 ATATATAATAAAA
62504029 ATA-ATAATAAAA
1 ATATATAATAAAA
62504041 TTGCTAAATA
Statistics
Matches: 116, Mismatches: 22, Indels: 28
0.70 0.13 0.17
Matches are distributed among these distances:
12 28 0.24
13 8 0.07
14 44 0.38
15 30 0.26
16 6 0.05
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.32
Consensus pattern (13 bp):
ATATATAATAAAA
Found at i:62503995 original size:3 final size:3
Alignment explanation
Indices: 62503975--62504038 Score: 67
Period size: 3 Copynumber: 21.3 Consensus size: 3
62503965 AAATAAAAAC
* * * * *
62503975 ATA ACA ATA ATA ACA ATA ATA TTA ATA A-A TATA CTA ATA ACA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
62504020 ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA A
62504039 AATTGCTAAA
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
2 1 0.02
3 47 0.96
4 1 0.02
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:62508842 original size:21 final size:20
Alignment explanation
Indices: 62508797--62508840 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 20
62508787 ATTCCAATCC
62508797 AAATTTTTTTATTTAATTTAT
1 AAATTTTTTTATTT-ATTTAT
62508818 AAATTTTTTTAATTT-TTTAT
1 AAATTTTTTT-ATTTATTTAT
62508838 AAA
1 AAA
62508841 ATAAAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 8 0.36
21 10 0.45
22 4 0.18
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
AAATTTTTTTATTTATTTAT
Found at i:62511173 original size:23 final size:22
Alignment explanation
Indices: 62511147--62511192 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
62511137 TCAAAGTCTC
62511147 TAACTCGAAAAAAAATTTCATAT
1 TAACTCGAAAAAAAATTT-ATAT
* * *
62511170 TAACTTGTATAAAAATTTATAT
1 TAACTCGAAAAAAAATTTATAT
62511192 T
1 T
62511193 TCGCAGTCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.48, C:0.09, G:0.04, T:0.39
Consensus pattern (22 bp):
TAACTCGAAAAAAAATTTATAT
Found at i:62511511 original size:15 final size:17
Alignment explanation
Indices: 62511486--62511517 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
62511476 TATTTCATTG
62511486 ATGATATATCT-CTTTT
1 ATGATATATCTACTTTT
62511502 ATGA-ATATCTACTTTT
1 ATGATATATCTACTTTT
62511518 CGATTGCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.28, C:0.12, G:0.06, T:0.53
Consensus pattern (17 bp):
ATGATATATCTACTTTT
Found at i:62515230 original size:18 final size:18
Alignment explanation
Indices: 62515207--62515249 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
62515197 GTTCAAGGTG
62515207 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTATT
*
62515225 TAATTAATTAAATTTATT
1 TAATTAATTAAAATTATT
62515243 TAATTAA
1 TAATTAA
62515250 AAAACCTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:62518666 original size:24 final size:24
Alignment explanation
Indices: 62518618--62518662 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
62518608 AATACTCATA
**
62518618 TTTATATTATTAAAACGTTTATAT
1 TTTATATTATTAAAACACTTATAT
62518642 TTTATATTA-TAAAACACTTAT
1 TTTATATTATTAAAACACTTAT
62518663 TATTAAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.51
Consensus pattern (24 bp):
TTTATATTATTAAAACACTTATAT
Found at i:62519340 original size:6 final size:6
Alignment explanation
Indices: 62519329--62519360 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
62519319 TAATTTTAAA
62519329 ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT AT
1 ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT AT
62519361 ATAAATATAT
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:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
ATTTAT
Found at i:62519645 original size:23 final size:23
Alignment explanation
Indices: 62519607--62519651 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
62519597 TCAATCGGTA
* * *
62519607 AATATTATTTTTATTTTATTTAG
1 AATATTAATTTGATTTGATTTAG
62519630 AATATTAATTTGATTTGATTTA
1 AATATTAATTTGATTTGATTTA
62519652 ATTTAATTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (23 bp):
AATATTAATTTGATTTGATTTAG
Found at i:62521591 original size:25 final size:23
Alignment explanation
Indices: 62521563--62521665 Score: 100
Period size: 25 Copynumber: 4.2 Consensus size: 23
62521553 AAGCTCTTGC
*
62521563 GAGCCAGTTATCGGGAAGCTCATA
1 GAGCCA-TTAACGGGAAGCTCATA
*
62521587 TGAGCCATAAACGGGAAGCTCA-A
1 -GAGCCATTAACGGGAAGCTCATA
62521610 GAAAGCCATTAATCGGGAAGCTCATGA
1 G--AGCCATTAA-CGGGAAGCTCAT-A
*
62521637 GAGCCATATAACGGGATGCTCATAA
1 GAGCCAT-TAACGGGAAGCTCAT-A
62521662 GAGC
1 GAGC
62521666 TAAATAACGG
Statistics
Matches: 67, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
22 1 0.01
23 1 0.01
24 21 0.31
25 39 0.58
26 3 0.04
27 2 0.03
ACGTcount: A:0.35, C:0.20, G:0.27, T:0.17
Consensus pattern (23 bp):
GAGCCATTAACGGGAAGCTCATA
Found at i:62521617 original size:49 final size:50
Alignment explanation
Indices: 62521564--62521658 Score: 142
Period size: 49 Copynumber: 1.9 Consensus size: 50
62521554 AGCTCTTGCG
62521564 AGCCAGTT-ATCGGGAAGCTCAT-ATGAGCCATA-AACGGGAAGCTCAAGAA
1 AGCCA-TTAATCGGGAAGCTCATGA-GAGCCATATAACGGGAAGCTCAAGAA
*
62521613 AGCCATTAATCGGGAAGCTCATGAGAGCCATATAACGGGATGCTCA
1 AGCCATTAATCGGGAAGCTCATGAGAGCCATATAACGGGAAGCTCA
62521659 TAAGAGCTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
48 2 0.05
49 27 0.64
50 13 0.31
ACGTcount: A:0.35, C:0.21, G:0.26, T:0.18
Consensus pattern (50 bp):
AGCCATTAATCGGGAAGCTCATGAGAGCCATATAACGGGAAGCTCAAGAA
Found at i:62521672 original size:25 final size:25
Alignment explanation
Indices: 62521574--62521682 Score: 98
Period size: 25 Copynumber: 4.4 Consensus size: 25
62521564 AGCCAGTTAT
* *
62521574 CGGGAAGCTCATATGAGCCATA-AA
1 CGGGAAGCTCATAAGAGCCAAATAA
* *
62521598 CGGGAAGCTCA-AGAAAGCC-ATTAA
1 CGGGAAGCTCATA-AGAGCCAAATAA
* *
62521622 TCGGGAAGCTCATGAGAGCCATATAA
1 -CGGGAAGCTCATAAGAGCCAAATAA
* *
62521648 CGGGATGCTCATAAGAGCTAAATAA
1 CGGGAAGCTCATAAGAGCCAAATAA
*
62521673 CGGGACGCTC
1 CGGGAAGCTC
62521683 TTGCTAGCTG
Statistics
Matches: 67, Mismatches: 13, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
23 1 0.01
24 17 0.25
25 46 0.69
26 3 0.04
ACGTcount: A:0.36, C:0.21, G:0.27, T:0.17
Consensus pattern (25 bp):
CGGGAAGCTCATAAGAGCCAAATAA
Found at i:62523827 original size:48 final size:47
Alignment explanation
Indices: 62523756--62523880 Score: 135
Period size: 47 Copynumber: 2.6 Consensus size: 47
62523746 TAGGACGCCA
* * * * * *
62523756 ATGCCATATCCCAGATATGGTCTTACA-TGGGATCACATATCGGTGCCG
1 ATGCCATGTCCTAGACATGGTCTTACACTGGCA-CACATAT-GGAGACG
* * *
62523804 ATGCCATGTCCTAGACATGGTCTTACACTGGCACTCATCTTGAGACG
1 ATGCCATGTCCTAGACATGGTCTTACACTGGCACACATATGGAGACG
*
62523851 ATGTCATGTCCTAGACATGGTCTTACACTG
1 ATGCCATGTCCTAGACATGGTCTTACACTG
62523881 ACTCTCCTCT
Statistics
Matches: 66, Mismatches: 10, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
47 33 0.50
48 29 0.44
49 4 0.06
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.29
Consensus pattern (47 bp):
ATGCCATGTCCTAGACATGGTCTTACACTGGCACACATATGGAGACG
Found at i:62523924 original size:50 final size:49
Alignment explanation
Indices: 62523798--62523989 Score: 237
Period size: 50 Copynumber: 3.9 Consensus size: 49
62523788 TCACATATCG
*
62523798 GTGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCACTCATC-T-T
1 GTGCCGATGCCATGTCCTAGACATGGTCTTACACTGACACTCATCGTCT
* * * * *
62523845 GAGACGATGTCATGTCCTAGACATGGTCTTACACTGACTCTCCTCTGTCT
1 GTGCCGATGCCATGTCCTAGACATGGTCTTACACTGACACTCATC-GTCT
*
62523895 GTGCCGATGCCATGT-CTCAGACATGGTCTTACACTAACACTCATCGGTCT
1 GTGCCGATGCCATGTCCT-AGACATGGTCTTACACTGACACTCATC-GTCT
* *
62523945 GTGTCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACTCA
1 GTGCCGATGCCATGTCCTAGACATGGTCTTACACT-G-ACACTCA
62523990 CTGCCATGAT
Statistics
Matches: 122, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
47 39 0.32
49 3 0.02
50 72 0.59
51 1 0.01
52 7 0.06
ACGTcount: A:0.21, C:0.30, G:0.20, T:0.29
Consensus pattern (49 bp):
GTGCCGATGCCATGTCCTAGACATGGTCTTACACTGACACTCATCGTCT
Found at i:62524008 original size:100 final size:97
Alignment explanation
Indices: 62523798--62523994 Score: 227
Period size: 97 Copynumber: 2.0 Consensus size: 97
62523788 TCACATATCG
* ** * *
62523798 GTGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCACTCATCTTGAGACGATGTCATGTCCT
1 GTGCCGATACCATGTCCTAGACATGGTCTTACACTAACACTCATCTTGAGACGATGCCATGTCCC
* * *
62523863 AGACATGGTCTTACACTGACTCTCCTCTGTCT
66 AGACATGGTCTTACACTGACACTCCACTGCCT
* * *
62523895 GTGCCGATGCCATGT-CTCAGACATGGTCTTACACTAACACTCATCGGTCTGTGTCGATGCCATG
1 GTGCCGATACCATGTCCT-AGACATGGTCTTACACTAACACTCATC--T-TGAGACGATGCCATG
62523959 TCCCAGACATGGTCTTACACTAGCACACT-CACTGCC
62 TCCCAGACATGGTCTTACACT-G-ACACTCCACTGCC
62523995 ATGATCCAAC
Statistics
Matches: 85, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
96 2 0.02
97 40 0.47
99 1 0.01
100 32 0.38
101 6 0.07
102 4 0.05
ACGTcount: A:0.21, C:0.30, G:0.20, T:0.28
Consensus pattern (97 bp):
GTGCCGATACCATGTCCTAGACATGGTCTTACACTAACACTCATCTTGAGACGATGCCATGTCCC
AGACATGGTCTTACACTGACACTCCACTGCCT
Found at i:62524436 original size:42 final size:42
Alignment explanation
Indices: 62524387--62524483 Score: 133
Period size: 42 Copynumber: 2.3 Consensus size: 42
62524377 CTTGGTAACG
** *
62524387 CACACTTAGTGCCCGTTATTTGACATCGCCATTTTTGTTT-T
1 CACACTTAGTGCCCGTTATTCAACATCGCCATTTTAGTTTCT
* *
62524428 GTACACTTAGTGCCCGTTATTCAACATCGTCATTTTAGTTTCT
1 -CACACTTAGTGCCCGTTATTCAACATCGCCATTTTAGTTTCT
62524471 CACACTTAGTGCC
1 CACACTTAGTGCC
62524484 ATTCGTATAG
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
42 47 0.98
43 1 0.02
ACGTcount: A:0.20, C:0.26, G:0.14, T:0.40
Consensus pattern (42 bp):
CACACTTAGTGCCCGTTATTCAACATCGCCATTTTAGTTTCT
Found at i:62526746 original size:38 final size:38
Alignment explanation
Indices: 62526696--62526771 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
62526686 AATTGGAAAT
*
62526696 TAATAATTTTAATACTTTTATATTTCAAAAAAATAATA
1 TAATAATTTTAATAATTTTATATTTCAAAAAAATAATA
*
62526734 TAATAATTTTAATAATTTTATATTTCAAAAAGATAATA
1 TAATAATTTTAATAATTTTATATTTCAAAAAAATAATA
62526772 AGTTTAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.45
Consensus pattern (38 bp):
TAATAATTTTAATAATTTTATATTTCAAAAAAATAATA
Found at i:62527084 original size:7 final size:7
Alignment explanation
Indices: 62527072--62527105 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
62527062 AATAAATATA
62527072 TATTTTT
1 TATTTTT
62527079 TA-TTTT
1 TATTTTT
62527085 TATTTTT
1 TATTTTT
62527092 TATTTTT
1 TATTTTT
*
62527099 TAATTTT
1 TATTTTT
62527106 AAAATACTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (7 bp):
TATTTTT
Found at i:62527088 original size:13 final size:13
Alignment explanation
Indices: 62527072--62527098 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
62527062 AATAAATATA
62527072 TATTTTTTATTTT
1 TATTTTTTATTTT
62527085 TATTTTTTATTTT
1 TATTTTTTATTTT
62527098 T
1 T
62527099 TAATTTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TATTTTTTATTTT
Found at i:62528526 original size:28 final size:28
Alignment explanation
Indices: 62528471--62528526 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
62528461 CTATATTAAC
* *
62528471 TATTTAACTAATTAATAACATCATAAAA
1 TATTAAACTAATTAATAACATCAAAAAA
*
62528499 TATTAAACTAATTAATAACATTAAAAAA
1 TATTAAACTAATTAATAACATCAAAAAA
62528527 ATATCAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (28 bp):
TATTAAACTAATTAATAACATCAAAAAA
Found at i:62531594 original size:23 final size:22
Alignment explanation
Indices: 62531568--62531611 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
62531558 TATTATAAAA
*
62531568 TATTCAATAAATTTATTTATCTT
1 TATTCAA-AAAATTATTTATCTT
*
62531591 TATTTAAAAAATTATTTATCT
1 TATTCAAAAAATTATTTATCT
62531612 ATTTCCATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.55
Consensus pattern (22 bp):
TATTCAAAAAATTATTTATCTT
Found at i:62532232 original size:165 final size:161
Alignment explanation
Indices: 62531944--62532412 Score: 723
Period size: 160 Copynumber: 3.0 Consensus size: 161
62531934 TTTTATCTAC
* *
62531944 TAATTCATTTGTTGTGTGTTTCCTGGATTTTGATTCTTTCGTTTTGTTCGTGGTTACTGTTTC-C
1 TAATCCATTTGTT-TGTGTTTCCTGGATTTTGAATCTTTCGTTTTGTTCGTGGTTACTGTTTCTC
* *
62532008 -T-TTTTTTATTTTTATAATTTGATGTTTTAGGATCTTATTTGCATTTTTATTTTAATTTCGAAG
65 TTCTTTTTTTTTTTTATAATTTGATGTTTTAGGATTTTATTTGCATTTTTATTTTAATTTCGAAG
62532071 ATCTATATGATGTTTATTTTTTGAATTGTGATT
130 ATCTATATGATGTTTATTTTTTGAATT-TGATT
* *
62532104 TAATCCATTTGTTTGTGTTTCCTAGATTTTGAATCTTTCGTTTTGTTCGTTGTTACTGTTTCCTC
1 TAATCCATTTGTTTGTGTTTCCTGGATTTTGAATCTTTCGTTTTGTTCGTGGTTACTGTTT-CTC
62532169 TTCTTTTTTTTCTTTTTATAATTTGATGTTTTAGGATTTTATTTGCATTTTTATTTTAATTTCGA
65 TTC-TTTTTTT-TTTTTATAATTTGATGTTTTAGGATTTTATTTGCATTTTTATTTTAATTTCGA
62532234 AGATCTATATGATGTTTATTTTTT--A--TGATT
128 AGATCTATATGATGTTTATTTTTTGAATTTGATT
*
62532264 TAATCCATTTGTTTGTATTTCCTGGATTTTGAATCTTTCGTTTTGTTCGTGGTTACTGTTTC-CT
1 TAATCCATTTGTTTGTGTTTCCTGGATTTTGAATCTTTCGTTTTGTTCGTGGTTACTGTTTCTCT
*
62532328 TC-----TTTTTTT-TAATTTGATGTTTTAGGATTTTATTTGCAATTTTATTTTAATTTCGAAGA
66 TCTTTTTTTTTTTTATAATTTGATGTTTTAGGATTTTATTTGCATTTTTATTTTAATTTCGAAGA
62532387 TCTATATGATGTTTATTTTTTGAATT
131 TCTATATGATGTTTATTTTTTGAATT
62532413 ATGTAGTTCC
Statistics
Matches: 289, Mismatches: 10, Indels: 26
0.89 0.03 0.08
Matches are distributed among these distances:
150 70 0.24
151 5 0.02
152 3 0.01
158 4 0.01
159 46 0.16
160 76 0.26
161 1 0.00
162 1 0.00
163 1 0.00
164 6 0.02
165 76 0.26
ACGTcount: A:0.18, C:0.09, G:0.14, T:0.59
Consensus pattern (161 bp):
TAATCCATTTGTTTGTGTTTCCTGGATTTTGAATCTTTCGTTTTGTTCGTGGTTACTGTTTCTCT
TCTTTTTTTTTTTTATAATTTGATGTTTTAGGATTTTATTTGCATTTTTATTTTAATTTCGAAGA
TCTATATGATGTTTATTTTTTGAATTTGATT
Found at i:62532344 original size:150 final size:154
Alignment explanation
Indices: 62531944--62532412 Score: 694
Period size: 165 Copynumber: 3.0 Consensus size: 154
62531934 TTTTATCTAC
* *
62531944 TAATTCATTTGTTGTGTGTTTCCTGGATTTTGATTCTTTCGTTTTGTTCGTGGTTACTGTTTCCT
1 TAATCCATTTGTT-TGTGTTTCCTGGATTTTGAATCTTTCGTTTTGTTCGTGGTTACTGTTTCC-
* *
62532009 TTTTTTATTTTTATAATTTGATGTTTTAGGATCTTATTTGCATTTTTATTTTAATTTCGAAGATC
64 -TTCTTATTTTTATAATTTGATGTTTTAGGATTTTATTTGCATTTTTATTTTAATTTCGAAGATC
62532074 TATATGATGTTTATTTTTTGAATTGTGATT
128 TATATGATGTTTATTTTTT-AA-T-TGATT
* *
62532104 TAATCCATTTGTTTGTGTTTCCTAGATTTTGAATCTTTCGTTTTGTTCGTTGTTACTGTTTCCTC
1 TAATCCATTTGTTTGTGTTTCCTGGATTTTGAATCTTTCGTTTTGTTCGTGGTTACTGTTT-C-C
*
62532169 TTCTTTTTTTTCTTTTTATAATTTGATGTTTTAGGATTTTATTTGCATTTTTATTTTAATTTCGA
64 TTC------TTATTTTTATAATTTGATGTTTTAGGATTTTATTTGCATTTTTATTTTAATTTCGA
62532234 AGATCTATATGATGTTTATTTTTT-A-TGATT
123 AGATCTATATGATGTTTATTTTTTAATTGATT
*
62532264 TAATCCATTTGTTTGTATTTCCTGGATTTTGAATCTTTCGTTTTGTTCGTGGTTACTGTTTCCTT
1 TAATCCATTTGTTTGTGTTTCCTGGATTTTGAATCTTTCGTTTTGTTCGTGGTTACTGTTTCCTT
*
62532329 CTT-TTTTT-TAATTTGATGTTTTAGGATTTTATTTGCAATTTTATTTTAATTTCGAAGATCTAT
66 CTTATTTTTATAATTTGATGTTTTAGGATTTTATTTGCATTTTTATTTTAATTTCGAAGATCTAT
62532392 ATGATGTTTATTTTTTGAATT
131 ATGATGTTTATTTTTT-AATT
62532413 ATGTAGTTCC
Statistics
Matches: 287, Mismatches: 11, Indels: 29
0.88 0.03 0.09
Matches are distributed among these distances:
150 70 0.24
151 5 0.02
152 3 0.01
153 1 0.00
158 4 0.01
159 48 0.17
160 76 0.26
161 1 0.00
163 1 0.00
165 78 0.27
ACGTcount: A:0.18, C:0.09, G:0.14, T:0.59
Consensus pattern (154 bp):
TAATCCATTTGTTTGTGTTTCCTGGATTTTGAATCTTTCGTTTTGTTCGTGGTTACTGTTTCCTT
CTTATTTTTATAATTTGATGTTTTAGGATTTTATTTGCATTTTTATTTTAATTTCGAAGATCTAT
ATGATGTTTATTTTTTAATTGATT
Found at i:62532790 original size:13 final size:13
Alignment explanation
Indices: 62532751--62532789 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 13
62532741 CTATTTAGAG
62532751 TTTTTGTTTTTAATC
1 TTTTTGTTTTT--TC
62532766 TTTTTGTTTTTTC
1 TTTTTGTTTTTTC
62532779 TTTTT-TTTTTT
1 TTTTTGTTTTTT
62532790 TTGCATAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 6 0.25
13 7 0.29
15 11 0.46
ACGTcount: A:0.05, C:0.05, G:0.05, T:0.85
Consensus pattern (13 bp):
TTTTTGTTTTTTC
Found at i:62536551 original size:12 final size:12
Alignment explanation
Indices: 62536534--62536576 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
62536524 ATGATGATGT
62536534 AAGCAGTGACAA
1 AAGCAGTGACAA
*
62536546 AAGCAGCCGTGACAC
1 AAGCA---GTGACAA
62536561 AAGCAGTGACAA
1 AAGCAGTGACAA
62536573 AAGC
1 AAGC
62536577 GGTCATAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
12 15 0.58
15 11 0.42
ACGTcount: A:0.44, C:0.23, G:0.26, T:0.07
Consensus pattern (12 bp):
AAGCAGTGACAA
Found at i:62568959 original size:3 final size:3
Alignment explanation
Indices: 62568854--62568947 Score: 84
Period size: 3 Copynumber: 31.3 Consensus size: 3
62568844 GGGTATAAAT
* * * * * * *
62568854 ATA ATG ATA GTA ATA ATA ATA GTA GTA ATA ATA CTA ACA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
62568902 A-A GATA ATA ATA GTAA ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA
1 ATA -ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
62568947 A
1 A
62568948 ACAAAATAAT
Statistics
Matches: 73, Mismatches: 14, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
2 3 0.04
3 67 0.92
4 3 0.04
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:62571019 original size:177 final size:177
Alignment explanation
Indices: 62570711--62571417 Score: 1234
Period size: 177 Copynumber: 4.0 Consensus size: 177
62570701 GTCGATCGGC
* * * * *
62570711 TTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATATGCATCGTCGATCCACTTCCTAC
1 TTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTAC
* * * * * *
62570776 CAATATAGGAAGACAGGACCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGATACGATCT
66 CAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT
* *
62570841 GCTTTCTGCGATCTACTTTGCCACCAATATGAGAAGACAAGATCTGT
131 GCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGT
* *
62570888 TTTCTGCGATCTACTTTGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCTACTTCCTAC
1 TTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTAC
*
62570953 CAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGATAAGATCT
66 CAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT
*
62571018 GCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGT
131 GCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGT
*
62571065 TTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATTCACTTCCTAC
1 TTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTAC
62571130 CAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT
66 CAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT
*
62571195 GCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGT
131 GCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGT
*
62571242 TTTCTGCGATCTACTTCGCCACCAATATGAGAAGACAAGATCTGCATCTTCGATCCACTTCCTAC
1 TTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTAC
62571307 CAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT
66 CAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT
62571372 GCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTG
131 GCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTG
62571418 CATCTTGGAT
Statistics
Matches: 508, Mismatches: 22, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
177 508 1.00
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.29
Consensus pattern (177 bp):
TTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTAC
CAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT
GCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGT
Found at i:62571400 original size:132 final size:132
Alignment explanation
Indices: 62570704--62571698 Score: 1051
Period size: 132 Copynumber: 7.5 Consensus size: 132
62570694 TGCCATCGTC
* * * * * * *
62570704 GATCGGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATATGCATCGTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGAGAAGACAAGATCTGCATCTTCGATCCAC
* * * *
62570769 TTCCTACCAATATAGGAAGACAGGACCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGAT
66 TTCCTACCAATATAGGAAGACAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
*
62570834 AC
131 AA
* ** * *
62570836 GATCTGCTTTCTGCGATCTACTTTGCCACCAATATGAGAAGACAAGATCTGTTTTCTGCGATCTA
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGAGAAGACAAGATCTG-CATCTTCGATCCA
* * * * * *
62570901 CTTTGCC-ACCAATATGGGAAGACAAGATCTG-CATCTTCGATCTACTTC-CTACCAATATAGGA
65 C-TT-CCTACCAATATAGGAAGACAGGATCTGATATCTTCGATCTACTTCAC-GCCAATACATGA
* *
62570963 AGATAG
127 AGACAA
* * * * * * * * *
62570969 GATCTGATATCTTCGATCTACTTC-ACGCCAATA-CATGAAGATAAGATCTGCTTTCTTCGATCT
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGA-GAAGACAAGATCTGC-ATCTTCGATCC
* * * * * * * * ***
62571032 ACTTCGCCACCAATATGGGAAGACAAGATCTGTTTTCTGCGATCTACTTCGCCACCAATATGGGA
64 ACTTC-CTACCAATATAGGAAGACAGGATCTGATATCTTCGATCTACTTC-ACGCCAATACATGA
62571097 AGACAA
127 AGACAA
* * * * * *
62571103 GATCTGC-ATCTTCGAT-TCACTTC-CTACCAATAT-AGGAAGATAGGATCTGATATCTTCGATC
1 GATCTGCTTTCTGCGATCT-ACTTCGCCACCAATATGA-GAAGACAAGATCTG-CATCTTCGATC
* * * * * * * * * ***
62571164 TACTTCAC-GCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGG
63 CACTTC-CTACCAATATAGGAAGACAGGATCTGATATCTTCGATCTACTTC-ACGCCAATACATG
62571228 AAGACAA
126 AAGACAA
*
62571235 GATCTGTTTTCTGCGATCTACTTCGCCACCAATATGAGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGAGAAGACAAGATCTGCATCTTCGATCCAC
*
62571300 TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGACAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
62571365 AA
131 AA
* *
62571367 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTGGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGAGAAGACAAGATCTGCATCTTCGATCCAC
* * * *
62571432 TTCCTATCAATATAGGAAAATAGGACCT-ACTATCTTCGATCTACTTCACGCCAATACATGAAGA
66 TTCCTACCAATATAGGAAGACAGGATCTGA-TATCTTCGATCTACTTCACGCCAATACATGAAGA
62571496 CAA
130 CAA
* *
62571499 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTGGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGAGAAGACAAGATCTGCATCTTCGATCCAC
* * * *
62571564 TTCCTATCAATATAGGAAAATAGGACCT-ACTATCTTCGATCTACTTCACGCCAATACATGAAGA
66 TTCCTACCAATATAGGAAGACAGGATCTGA-TATCTTCGATCTACTTCACGCCAATACATGAAGA
62571628 CAA
130 CAA
* * *
62571631 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCGTCGTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGAGAAGACAAGATCTGCATCTTCGATCCAC
62571696 TTC
66 TTC
62571699 TGTAATCAGG
Statistics
Matches: 762, Mismatches: 81, Indels: 40
0.86 0.09 0.05
Matches are distributed among these distances:
130 1 0.00
131 5 0.01
132 502 0.66
133 184 0.24
134 66 0.09
135 4 0.01
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (132 bp):
GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGAGAAGACAAGATCTGCATCTTCGATCCAC
TTCCTACCAATATAGGAAGACAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
AA
Found at i:62571877 original size:95 final size:95
Alignment explanation
Indices: 62571770--62571963 Score: 336
Period size: 95 Copynumber: 2.0 Consensus size: 95
62571760 AAGATCTACA
*
62571770 ATCTTTAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCC-CAT
1 ATCTTTAATCTATTCCACTGCCAAATACAGAGAGATAGAGTTATCGGCTTCAATGTACTCCAC-T
62571834 GTAGTCAGGGAAGTAAAATCTGCCATCTTTG
65 GTAGTCAGGGAAGTAAAATCTGCCATCTTTG
* *
62571865 ATCTTTAATCTATTCCACTGCCAAATGCAGAGAGATAGAGTTATCGGCTTTAATGTACTCCACTG
1 ATCTTTAATCTATTCCACTGCCAAATACAGAGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
62571930 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
66 TAGTCAGGGAAGTAAAATCTGCCATCTTTG
62571960 ATCT
1 ATCT
62571964 ACTTCGCTGC
Statistics
Matches: 94, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
95 93 0.99
96 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (95 bp):
ATCTTTAATCTATTCCACTGCCAAATACAGAGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
TAGTCAGGGAAGTAAAATCTGCCATCTTTG
Found at i:62572019 original size:134 final size:134
Alignment explanation
Indices: 62571865--62572278 Score: 702
Period size: 134 Copynumber: 3.1 Consensus size: 134
62571855 GCCATCTTTG
* * * * *
62571865 ATCTTTAATCTATTCCACTGCCAAATGCAGAGAGATAGAGTTATCGGCTTTAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTG
*
62571930 TAGTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTTCGCTGCCGAATACAGGAAGGCAAGATC
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTTCGCTGCCAAATACAGGAAGGCAAGATC
62571995 TGCA
131 TGCA
62571999 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTG
* * *
62572064 TGGTCAGGGAGGTAAAATTTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTTCGCTGCCAAATACAGGAAGGCAAGATC
62572129 TGCA
131 TGCA
* *
62572133 ATTTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATTGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTG
* * *
62572198 TAGTCAGGGAGGTAAAATCCGCCATCTTCGACCTACTTCGCTGCCAAATACAGGAAGGCAAGATC
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTTCGCTGCCAAATACAGGAAGGCAAGATC
62572263 TGCA
131 TGCA
62572267 ATCTTCAATCTA
1 ATCTTCAATCTA
62572279 CTTCGCCACC
Statistics
Matches: 262, Mismatches: 18, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
134 262 1.00
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.28
Consensus pattern (134 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTG
TAGTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTTCGCTGCCAAATACAGGAAGGCAAGATC
TGCA
Found at i:62573645 original size:255 final size:255
Alignment explanation
Indices: 62572220--62573595 Score: 2608
Period size: 255 Copynumber: 5.4 Consensus size: 255
62572210 TAAAATCCGC
* * * ** ** *
62572220 CATCTTCGACCTACTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTACTTCGC
1 CATCTTCGATCTACTTCAC-GCC-AATACATGAAGATAAGATCTGCTTTCTTCGATCTACTTCGC
62572285 CACCAATATGGGAAGACAAGATCTGCATCTTCGATCCATTTCCTACCAATATAGGAAGATAGGAT
64 CACCAATATGGGAAGACAAGATCTGCATCTTCGATCCATTTCCTACCAATATAGGAAGATAGGAT
62572350 CAGCTATCTCCGATCTACTTCTTGCCCCGGGAGATAGAACTATCTTTGATCTACTTCACGCCAAT
129 CAGCTATCTCCGATCTACTTCTTGCCCCGGGAGATAGAACTATCTTTGATCTACTTCACGCCAAT
62572415 ACATGAAGACAAGATCTGCTTTCTTCGACCTACTTCCTACCAATATAGGAAGGCAGAATCTG
194 ACATGAAGACAAGATCTGCTTTCTTCGACCTACTTCCTACCAATATAGGAAGGCAGAATCTG
*
62572477 CATCTTCGATCTACTTCACTCCAATACATGAAGATAAGATCTGCTTTCTTCGATCTACTTCGCCA
1 CATCTTCGATCTACTTCACGCCAATACATGAAGATAAGATCTGCTTTCTTCGATCTACTTCGCCA
*
62572542 CCAGTATGGGAAGACAAGATCTGCATCTTCGATCCATTTCCTACCAATATAGGAAGATAGGATCA
66 CCAATATGGGAAGACAAGATCTGCATCTTCGATCCATTTCCTACCAATATAGGAAGATAGGATCA
62572607 GCTATCTCCGATCTACTTCTTGCCCCGGGAGATAGAACTATCTTTGATCTACTTCACGCCAATAC
131 GCTATCTCCGATCTACTTCTTGCCCCGGGAGATAGAACTATCTTTGATCTACTTCACGCCAATAC
*
62572672 ACGAAGACAAGATCTGCTTTCTTCGACCTACTTCCTACCAATATAGGAAGGCAGAATCTG
196 ATGAAGACAAGATCTGCTTTCTTCGACCTACTTCCTACCAATATAGGAAGGCAGAATCTG
62572732 CATCTTCGATCTACTTCACGCCAATACATGAAGATAAGATCTGCTTTCTTCGATCTACTTCGCCA
1 CATCTTCGATCTACTTCACGCCAATACATGAAGATAAGATCTGCTTTCTTCGATCTACTTCGCCA
62572797 CCAATATGGGAAGACAAGATCTGCATCTTCGATCCATTTCCTACCAATATAGGAAGATAGGATCA
66 CCAATATGGGAAGACAAGATCTGCATCTTCGATCCATTTCCTACCAATATAGGAAGATAGGATCA
62572862 GCTATCTCCGATCTACTTCTTGCCCCGGGAGATAGAACTATCTTTGATCTACTTCACGCCAATAC
131 GCTATCTCCGATCTACTTCTTGCCCCGGGAGATAGAACTATCTTTGATCTACTTCACGCCAATAC
62572927 ATGAAGACAAGATCTGCTTTCTTCGACCTACTTCCTACCAATATAGGAAGGCAGAATCTG
196 ATGAAGACAAGATCTGCTTTCTTCGACCTACTTCCTACCAATATAGGAAGGCAGAATCTG
62572987 CATCTTCGATCTACTTCACGCCAATACATGAAGATAAGATCTGCTTTCTTCGATCTACTTCGCCA
1 CATCTTCGATCTACTTCACGCCAATACATGAAGATAAGATCTGCTTTCTTCGATCTACTTCGCCA
*
62573052 CCAGTATGGGAAGACAAGATCTGCATCTTCGATCCATTTCCTACCAATATAGGAAGATAGGATCA
66 CCAATATGGGAAGACAAGATCTGCATCTTCGATCCATTTCCTACCAATATAGGAAGATAGGATCA
62573117 GCTATCTCCGATCTACTTCTTGCCCCGGGAGATAGAACTATCTTTGATCTACTTCACGCCAATAC
131 GCTATCTCCGATCTACTTCTTGCCCCGGGAGATAGAACTATCTTTGATCTACTTCACGCCAATAC
*
62573182 ATGAAGACAAGATCTGCTTTCTTCGACCTACTTCCTACCAATATAGGAAGGCAAAATCTG
196 ATGAAGACAAGATCTGCTTTCTTCGACCTACTTCCTACCAATATAGGAAGGCAGAATCTG
62573242 CATCTTCGATCTACTTCACGCCAATACATGAAGATAAGATCTGCTTTCTTCGATCTACTTCGCCA
1 CATCTTCGATCTACTTCACGCCAATACATGAAGATAAGATCTGCTTTCTTCGATCTACTTCGCCA
*
62573307 CCAGTATGGGAAGACAAGATCTGCATCTTCGATCCATTTCCTACCAATATAGGAAGATAGGATCA
66 CCAATATGGGAAGACAAGATCTGCATCTTCGATCCATTTCCTACCAATATAGGAAGATAGGATCA
62573372 GCTATCTCCGATCTACTTCTTGCCCCGGGAGATAGAACTATCTTTGATCTACTTCACGCCAATAC
131 GCTATCTCCGATCTACTTCTTGCCCCGGGAGATAGAACTATCTTTGATCTACTTCACGCCAATAC
62573437 ATGAAGACAAGATCTGCTTTCTTCGACCTACTTCCTACCAATATAGGAAGGCAGAATCTG
196 ATGAAGACAAGATCTGCTTTCTTCGACCTACTTCCTACCAATATAGGAAGGCAGAATCTG
62573497 CATCTTCGATCTACTTCACGCCAATACATGAAGATAAGATCTGCTTTCTTCGATCTACTTCGCCA
1 CATCTTCGATCTACTTCACGCCAATACATGAAGATAAGATCTGCTTTCTTCGATCTACTTCGCCA
62573562 CCAATATGGGAAGACAAGATCTGCATCTTCGATC
66 CCAATATGGGAAGACAAGATCTGCATCTTCGATC
62573596 TACTTCACGC
Statistics
Matches: 1101, Mismatches: 18, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
255 1082 0.98
256 2 0.00
257 17 0.02
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (255 bp):
CATCTTCGATCTACTTCACGCCAATACATGAAGATAAGATCTGCTTTCTTCGATCTACTTCGCCA
CCAATATGGGAAGACAAGATCTGCATCTTCGATCCATTTCCTACCAATATAGGAAGATAGGATCA
GCTATCTCCGATCTACTTCTTGCCCCGGGAGATAGAACTATCTTTGATCTACTTCACGCCAATAC
ATGAAGACAAGATCTGCTTTCTTCGACCTACTTCCTACCAATATAGGAAGGCAGAATCTG
Found at i:62573828 original size:44 final size:43
Alignment explanation
Indices: 62572390--62573846 Score: 795
Period size: 44 Copynumber: 34.0 Consensus size: 43
62572380 GAGATAGAAC
* * * *
62572390 TATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTG
1 TATCTTCGATCTACTTCACACCAATATAGGAAGACAAGATCTG
* * *
62572433 CTTTCTTCGACCTACTTC-CTACCAATATAGGAAGGC-AGAATCTG
1 -TATCTTCGATCTACTTCAC-ACCAATATAGGAAGACAAG-ATCTG
* * * * *
62572477 CATCTTCGATCTACTTCACTCCAATACATGAAGATAAGATCTG
1 TATCTTCGATCTACTTCACACCAATATAGGAAGACAAGATCTG
* * * *
62572520 CTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTG
1 -TATCTTCGATCTACTTC-ACACCAATATAGGAAGACAAGATCTG
* * * * * *
62572565 CATCTTCGATCCATTTC-CTACCAATATAGGAAGATAGGATCAG
1 TATCTTCGATCTACTTCAC-ACCAATATAGGAAGACAAGATCTG
* *** ** * * *
62572608 CTATCTCCGATCTACTTCTTGCC----CCGGGAGA-TAGAAC--
1 -TATCTTCGATCTACTTCACACCAATATAGGAAGACAAGATCTG
* * * *
62572645 TATCTTTGATCTACTTCACGCCAATACACGAAGACAAGATCTG
1 TATCTTCGATCTACTTCACACCAATATAGGAAGACAAGATCTG
* * *
62572688 CTTTCTTCGACCTACTTC-CTACCAATATAGGAAGGC-AGAATCTG
1 -TATCTTCGATCTACTTCAC-ACCAATATAGGAAGACAAG-ATCTG
* * * * *
62572732 CATCTTCGATCTACTTCACGCCAATACATGAAGATAAGATCTG
1 TATCTTCGATCTACTTCACACCAATATAGGAAGACAAGATCTG
* * *
62572775 CTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTG
1 -TATCTTCGATCTACTTC-ACACCAATATAGGAAGACAAGATCTG
* * * * * *
62572820 CATCTTCGATCCATTTC-CTACCAATATAGGAAGATAGGATCAG
1 TATCTTCGATCTACTTCAC-ACCAATATAGGAAGACAAGATCTG
* *** ** * * *
62572863 CTATCTCCGATCTACTTCTTGCC----CCGGGAGA-TAGAAC--
1 -TATCTTCGATCTACTTCACACCAATATAGGAAGACAAGATCTG
* * * *
62572900 TATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTG
1 TATCTTCGATCTACTTCACACCAATATAGGAAGACAAGATCTG
* * *
62572943 CTTTCTTCGACCTACTTC-CTACCAATATAGGAAGGC-AGAATCTG
1 -TATCTTCGATCTACTTCAC-ACCAATATAGGAAGACAAG-ATCTG
* * * * *
62572987 CATCTTCGATCTACTTCACGCCAATACATGAAGATAAGATCTG
1 TATCTTCGATCTACTTCACACCAATATAGGAAGACAAGATCTG
* * * *
62573030 CTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTG
1 -TATCTTCGATCTACTTC-ACACCAATATAGGAAGACAAGATCTG
* * * * * *
62573075 CATCTTCGATCCATTTC-CTACCAATATAGGAAGATAGGATCAG
1 TATCTTCGATCTACTTCAC-ACCAATATAGGAAGACAAGATCTG
* *** ** * * *
62573118 CTATCTCCGATCTACTTCTTGCC----CCGGGAGA-TAGAAC--
1 -TATCTTCGATCTACTTCACACCAATATAGGAAGACAAGATCTG
* * * *
62573155 TATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTG
1 TATCTTCGATCTACTTCACACCAATATAGGAAGACAAGATCTG
* * * *
62573198 CTTTCTTCGACCTACTTC-CTACCAATATAGGAAGGCAAAATCTG
1 -TATCTTCGATCTACTTCAC-ACCAATATAGGAAGACAAGATCTG
* * * * *
62573242 CATCTTCGATCTACTTCACGCCAATACATGAAGATAAGATCTG
1 TATCTTCGATCTACTTCACACCAATATAGGAAGACAAGATCTG
* * * *
62573285 CTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTG
1 -TATCTTCGATCTACTTC-ACACCAATATAGGAAGACAAGATCTG
* * * * * *
62573330 CATCTTCGATCCATTTC-CTACCAATATAGGAAGATAGGATCAG
1 TATCTTCGATCTACTTCAC-ACCAATATAGGAAGACAAGATCTG
* *** ** * * *
62573373 CTATCTCCGATCTACTTCTTGCC----CCGGGAGA-TAGAAC--
1 -TATCTTCGATCTACTTCACACCAATATAGGAAGACAAGATCTG
* * * *
62573410 TATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTG
1 TATCTTCGATCTACTTCACACCAATATAGGAAGACAAGATCTG
* * *
62573453 CTTTCTTCGACCTACTTC-CTACCAATATAGGAAGGC-AGAATCTG
1 -TATCTTCGATCTACTTCAC-ACCAATATAGGAAGACAAG-ATCTG
* * * * *
62573497 CATCTTCGATCTACTTCACGCCAATACATGAAGATAAGATCTG
1 TATCTTCGATCTACTTCACACCAATATAGGAAGACAAGATCTG
* * *
62573540 CTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTG
1 -TATCTTCGATCTACTTC-ACACCAATATAGGAAGACAAGATCTG
* * * * *
62573585 CATCTTCGATCTACTTCACGCCGATACATGAAGACAAGATCTG
1 TATCTTCGATCTACTTCACACCAATATAGGAAGACAAGATCTG
* * *
62573628 CTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTG
1 -TATCTTCGATCTACTTC-ACACCAATATAGGAAGACAAGATCTG
* * * *
62573673 CATCTTCGATCCACTTC-CTACCAATATAGGAAGATAGGATCTG
1 TATCTTCGATCTACTTCAC-ACCAATATAGGAAGACAAGATCTG
* * * * *
62573716 ATATCTTCGATCTTCTTCACGCCAATACATGAAGATAAGATCTG
1 -TATCTTCGATCTACTTCACACCAATATAGGAAGACAAGATCTG
* * * *
62573760 CATCTTCGATCCACTTC-CTACCAATATAGGAAGATAGGATCTG
1 TATCTTCGATCTACTTCAC-ACCAATATAGGAAGACAAGATCTG
* * * *
62573803 ATATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTG
1 -TATCTTCGATCTACTTCACACCAATATAGGAAGACAAGATCTG
62573847 CTTTAATGAC
Statistics
Matches: 1050, Mismatches: 283, Indels: 160
0.70 0.19 0.11
Matches are distributed among these distances:
36 72 0.07
39 12 0.01
40 40 0.04
41 16 0.02
42 6 0.01
43 317 0.30
44 468 0.45
45 119 0.11
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (43 bp):
TATCTTCGATCTACTTCACACCAATATAGGAAGACAAGATCTG
Found at i:62574879 original size:16 final size:17
Alignment explanation
Indices: 62574858--62574892 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
62574848 TGGCCTCTCC
62574858 TTTTTCTTTTT-ATTTT
1 TTTTTCTTTTTCATTTT
62574874 TTTTTCTTTTTCATTTT
1 TTTTTCTTTTTCATTTT
62574891 TT
1 TT
62574893 CATTTTCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.06, C:0.09, G:0.00, T:0.86
Consensus pattern (17 bp):
TTTTTCTTTTTCATTTT
Found at i:62575349 original size:16 final size:16
Alignment explanation
Indices: 62575328--62575374 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
62575318 CTCCAGTAGA
62575328 GGTTTTTCTTTTATTT
1 GGTTTTTCTTTTATTT
*
62575344 GGTTTTT-TTTTGTTT
1 GGTTTTTCTTTTATTT
*
62575359 -TTTTTTCTTTTTATTT
1 GGTTTTTC-TTTTATTT
62575375 TCTCATTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 5 0.19
15 7 0.27
16 14 0.54
ACGTcount: A:0.04, C:0.04, G:0.11, T:0.81
Consensus pattern (16 bp):
GGTTTTTCTTTTATTT
Found at i:62575375 original size:23 final size:23
Alignment explanation
Indices: 62575357--62575400 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
62575347 TTTTTTTTGT
* *
62575357 TTTTTTTTCTTTTTATTTTCTCA
1 TTTTTTTACTTTTTATTTTTTCA
*
62575380 TTTTTTTACTTTTTCTTTTTT
1 TTTTTTTACTTTTTATTTTTT
62575401 TTTGCCCCCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.07, C:0.11, G:0.00, T:0.82
Consensus pattern (23 bp):
TTTTTTTACTTTTTATTTTTTCA
Found at i:62575376 original size:11 final size:10
Alignment explanation
Indices: 62575330--62575403 Score: 60
Period size: 10 Copynumber: 7.1 Consensus size: 10
62575320 CCAGTAGAGG
62575330 TTTTTCTTTT
1 TTTTTCTTTT
* **
62575340 ATTTGGTTTT
1 TTTTTCTTTT
*
62575350 TTTTTGTTTT
1 TTTTTCTTTT
62575360 TTTTTCTTTT
1 TTTTTCTTTT
62575370 TATTTTCTCATTT
1 T-TTTTCT--TTT
*
62575383 TTTTACTTTT
1 TTTTTCTTTT
62575393 TCTTTT-TTTT
1 T-TTTTCTTTT
62575403 T
1 T
62575404 GCCCCCACTG
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
10 34 0.65
11 9 0.17
12 5 0.10
13 4 0.08
ACGTcount: A:0.05, C:0.08, G:0.04, T:0.82
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:62575402 original size:16 final size:15
Alignment explanation
Indices: 62575347--62575402 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 15
62575337 TTTATTTGGT
* *
62575347 TTTTTTTTGTTTTTT
1 TTTTTTTTATTTTTC
62575362 TTTCTTTTTATTTTCTC
1 TTT-TTTTTATTTT-TC
*
62575379 ATTTTTTTACTTTTTC
1 TTTTTTTTA-TTTTTC
62575395 TTTTTTTT
1 TTTTTTTT
62575403 TGCCCCCACT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
15 3 0.09
16 24 0.71
17 7 0.21
ACGTcount: A:0.05, C:0.09, G:0.02, T:0.84
Consensus pattern (15 bp):
TTTTTTTTATTTTTC
Found at i:62579090 original size:3 final size:3
Alignment explanation
Indices: 62578983--62579079 Score: 90
Period size: 3 Copynumber: 32.3 Consensus size: 3
62578973 GGGTATAAAT
* * * * * * *
62578983 ATA ATG ATA GTA ATA ATA ATA GTA GTA ATA ATA CTA ACA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
62579031 A-A GATA ATA ATA GTAA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A
1 ATA -ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
62579076 ATA A
1 ATA A
62579080 ACAAATAATA
Statistics
Matches: 76, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
2 3 0.04
3 70 0.92
4 3 0.04
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:62580804 original size:88 final size:88
Alignment explanation
Indices: 62580688--62581348 Score: 730
Period size: 88 Copynumber: 7.6 Consensus size: 88
62580678 AGATCTGGTT
* * * * * ** *
62580688 TCTTCGATCTGCTTCACCGTCAGTACAGGAAGGCAAGATCCACTATCTTCAACTAGCTCCACTAC
1 TCTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTAC
62580753 AACCGAGAGAGGCAAGGTTTGTG
66 AACCGAGAGAGGCAAGGTTTGTG
* * * * * *
62580776 TCTTCGACCTGCTTCGCTGTCAATACAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACCAC
1 TCTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTAC
*
62580841 AACCGAGAGAGGCAAGGTTTGCG
66 AACCGAGAGAGGCAAGGTTTGTG
* * **
62580864 TCTTCGATCTGCTTCGTTGTTAATGCAGGAAGGCAAGATCTGCTATTTTCAACCAGCTCTGCTAC
1 TCTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTAC
*
62580929 ACCCGAGAGAGGCAAGGTTTGTG
66 AACCGAGAGAGGCAAGGTTTGTG
* * * * *
62580952 TCTTCGATCTGCTTCGCTGTTAATGCAGGAATGCAAGATCTGCTATCTTTAAACAGCTCCATTGC
1 TCTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTAC
*
62581017 AACCAATG-GAGGCAAGGTTT-TG
66 AACCGA-GAGAGGCAAGGTTTGTG
* * * * * * * * * *
62581039 TTTTTGATCTGCATCGCTGTTAATGTAGGAATGCAAGATCTGCTATCTTTAAACAGCTCTATTGC
1 TCTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTAC
*
62581104 AACCAATG-GAGGCAAGGTTT-TG
66 AACCGA-GAGAGGCAAGGTTTGTG
* * * * **
62581126 TTTTTGATCTGCTTCGCTGTTAATGTAGGAAGGCAAGATCTGCT-TCTTTAACCAGCTCCACTGT
1 TCTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTAC
* * *
62581190 AACCAATGA-AGGCAAAGCTTGT-
66 AACCGA-GAGAGGCAAGGTTTGTG
* ** * *
62581212 T-TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTA-TCA
1 TCTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACT-A
*
62581275 CAACCGAAAGAGGCAAGGTTTGTG
65 CAACCGAGAGAGGCAAGGTTTGTG
* *
62581299 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTG-TAACTTCA
1 TCTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTCA
62581349 TTGATCTGTC
Statistics
Matches: 500, Mismatches: 65, Indels: 17
0.86 0.11 0.03
Matches are distributed among these distances:
85 39 0.08
86 64 0.13
87 134 0.27
88 262 0.52
89 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (88 bp):
TCTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTAC
AACCGAGAGAGGCAAGGTTTGTG
Found at i:62580810 original size:44 final size:44
Alignment explanation
Indices: 62580762--62580900 Score: 106
Period size: 44 Copynumber: 3.2 Consensus size: 44
62580752 CAACCGAGAG
62580762 AGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATACAGGA
1 AGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATACAGGA
* * * * ** *
62580806 AGGCAAGATCTGTTGTCTTCAACCAGC-TC-C-ACCACA-ACCGAGA
1 AGGCAAGGTTTG-TGTCTTCGACCTGCTTCGCTGTCA-ATACAG-GA
* * * * *
62580849 GAGGCAAGGTTTGCGTCTTCGATCTGCTTCGTTGTTAATGCAGGA
1 -AGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATACAGGA
62580894 AGGCAAG
1 AGGCAAG
62580901 ATCTGCTATT
Statistics
Matches: 68, Mismatches: 19, Indels: 16
0.66 0.18 0.16
Matches are distributed among these distances:
42 5 0.07
43 14 0.21
44 31 0.46
45 15 0.22
46 3 0.04
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.26
Consensus pattern (44 bp):
AGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATACAGGA
Found at i:62585690 original size:19 final size:20
Alignment explanation
Indices: 62585661--62585709 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
62585651 CACTTCGTGA
* *
62585661 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAAATGCATG
*
62585680 CAATGTAATGCAAATGCATG
1 AAATGTAATGCAAATGCATG
62585700 AAATG-AATGC
1 AAATGTAATGC
62585710 CTAAAGAGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (20 bp):
AAATGTAATGCAAATGCATG
Found at i:62588107 original size:3 final size:3
Alignment explanation
Indices: 62588002--62588095 Score: 84
Period size: 3 Copynumber: 31.3 Consensus size: 3
62587992 GGGTATAAAT
* * * * * * *
62588002 ATA ATG ATA GTA ATA ATA ATA GTA GTA ATA ATA CTA ACA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
62588050 A-A GATA ATA ATA GTAA ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA
1 ATA -ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
62588095 A
1 A
62588096 ACAAAATAAT
Statistics
Matches: 73, Mismatches: 14, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
2 3 0.04
3 67 0.92
4 3 0.04
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:62598761 original size:11 final size:11
Alignment explanation
Indices: 62598684--62598774 Score: 50
Period size: 11 Copynumber: 8.5 Consensus size: 11
62598674 CTTTAATGTA
*
62598684 AATATTAAAAT
1 AATATAAAAAT
* *
62598695 AATGTTAAAAT
1 AATATAAAAAT
62598706 AATTATATAAAA-
1 AA-TATA-AAAAT
*
62598718 AATTTAATAAAT
1 AATATAA-AAAT
*
62598730 AA-A-AAATATT
1 AATATAAA-AAT
*
62598740 AA-ATTAAAAT
1 AATATAAAAAT
62598750 AATATAAAAAT
1 AATATAAAAAT
62598761 -ATA-AAAAAT
1 AATATAAAAAT
62598770 AATAT
1 AATAT
62598775 GGGGCAAACT
Statistics
Matches: 62, Mismatches: 9, Indels: 18
0.70 0.10 0.20
Matches are distributed among these distances:
9 7 0.11
10 18 0.29
11 27 0.44
12 6 0.10
13 4 0.06
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (11 bp):
AATATAAAAAT
Found at i:62598773 original size:23 final size:23
Alignment explanation
Indices: 62598710--62598773 Score: 60
Period size: 23 Copynumber: 2.7 Consensus size: 23
62598700 TAAAATAATT
62598710 ATATAAAAAATTTAATAAATAAAAA
1 ATATAAAAAA--TAATAAATAAAAA
*
62598735 ATATTAAATTAA-AAT-AATATAAAA
1 ATA-TAAA-AAATAATAAATA-AAAA
62598759 ATATAAAAAATAATA
1 ATATAAAAAATAATA
62598774 TGGGGCAAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 11
0.71 0.04 0.24
Matches are distributed among these distances:
22 2 0.06
23 11 0.34
24 10 0.31
25 3 0.09
26 4 0.12
27 2 0.06
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (23 bp):
ATATAAAAAATAATAAATAAAAA
Found at i:62599554 original size:16 final size:16
Alignment explanation
Indices: 62599502--62599557 Score: 57
Period size: 16 Copynumber: 3.8 Consensus size: 16
62599492 TAAAATCAAT
62599502 CAAATTAATTTAATTA
1 CAAATTAATTTAATTA
* *
62599518 CAAA-T-ATTGAAAT-
1 CAAATTAATTTAATTA
*
62599531 C-GATTAATTTAATTA
1 CAAATTAATTTAATTA
62599546 CAAATTAATTTA
1 CAAATTAATTTA
62599558 TTTGTTTCAA
Statistics
Matches: 30, Mismatches: 6, Indels: 8
0.68 0.14 0.18
Matches are distributed among these distances:
12 1 0.03
13 2 0.07
14 12 0.40
15 2 0.07
16 13 0.43
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.41
Consensus pattern (16 bp):
CAAATTAATTTAATTA
Found at i:62600176 original size:26 final size:26
Alignment explanation
Indices: 62600147--62600205 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
62600137 AAGTGACGTA
*
62600147 GAAAAGTACCTTTT-AGAAGTATTTTG
1 GAAAAGTA-CTTTTCAGAAGTACTTTG
62600173 GAAAAGTACTTTTCAGAAGTACTTTG
1 GAAAAGTACTTTTCAGAAGTACTTTG
62600199 GAAAAGT
1 GAAAAGT
62600206 TTAATTTAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 5 0.16
26 26 0.84
ACGTcount: A:0.37, C:0.08, G:0.20, T:0.34
Consensus pattern (26 bp):
GAAAAGTACTTTTCAGAAGTACTTTG
Found at i:62602677 original size:30 final size:28
Alignment explanation
Indices: 62602643--62602742 Score: 94
Period size: 29 Copynumber: 3.4 Consensus size: 28
62602633 AAAAATTTTG
* *
62602643 CATTTTAACACCTGAACTTTTCTAAAATTA
1 CATTTTAACCCCT-AA-TTTTATAAAATTA
* *
62602673 CATTTTGACCCCTAATTTTTTCAAAATTA
1 CATTTTAACCCCTAATTTTAT-AAAATTA
*
62602702 CATTTAAACCCCTAAAATTTTAT-AAATTA
1 CATTTTAACCCCT--AATTTTATAAAATTA
*
62602731 CATTTTGACCCC
1 CATTTTAACCCC
62602743 GAAAATTTCT
Statistics
Matches: 59, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
28 5 0.08
29 36 0.61
30 11 0.19
31 7 0.12
ACGTcount: A:0.35, C:0.22, G:0.03, T:0.40
Consensus pattern (28 bp):
CATTTTAACCCCTAATTTTATAAAATTA
Found at i:62602701 original size:29 final size:29
Alignment explanation
Indices: 62602660--62602773 Score: 122
Period size: 29 Copynumber: 3.9 Consensus size: 29
62602650 ACACCTGAAC
**
62602660 TTTTCTAAAATTACATTTTGACCCCTAATT
1 TTTTC-AAAATTACATTTTGACCCCTAAAA
**
62602690 TTTTCAAAATTACATTTAAACCCCTAAAA
1 TTTTCAAAATTACATTTTGACCCCTAAAA
*
62602719 TTTT-ATAAATTACATTTTGACCCCGAAAA
1 TTTTCA-AAATTACATTTTGACCCCTAAAA
* * *
62602748 TTTCTCAAACTAATATTTTGACCCCT
1 TTT-TCAAAATTACATTTTGACCCCT
62602774 CAACTTCCTA
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
28 1 0.01
29 47 0.67
30 21 0.30
31 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.04, T:0.40
Consensus pattern (29 bp):
TTTTCAAAATTACATTTTGACCCCTAAAA
Found at i:62603153 original size:10 final size:10
Alignment explanation
Indices: 62603138--62603199 Score: 67
Period size: 10 Copynumber: 6.3 Consensus size: 10
62603128 AGGGTTTCCG
62603138 AAAGAAGAAA
1 AAAGAAGAAA
*
62603148 AAAGAAGAAG
1 AAAGAAGAAA
*
62603158 GAAGAAGAAGA
1 AAAGAAGAA-A
62603169 AAAGAA-AAA
1 AAAGAAGAAA
62603178 GAAAGAA-AAA
1 -AAAGAAGAAA
62603188 AAA-AAGAAA
1 AAAGAAGAAA
62603197 AAA
1 AAA
62603200 ATTAATTATA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
8 2 0.04
9 10 0.22
10 28 0.62
11 5 0.11
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (10 bp):
AAAGAAGAAA
Found at i:62603173 original size:21 final size:20
Alignment explanation
Indices: 62603137--62603198 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 20
62603127 TAGGGTTTCC
*
62603137 GAAAGAAGAAAAAAGAAGAA
1 GAAAGAAGAAAAAAGAAAAA
*
62603157 GGAAGAAGAAGAAAAGAAAAA
1 GAAAGAAGAA-AAAAGAAAAA
*
62603178 GAAAGAAAAAAAAAAGAAAAA
1 GAAAG-AAGAAAAAAGAAAAA
62603199 AATTAATTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
20 9 0.25
21 23 0.64
22 4 0.11
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (20 bp):
GAAAGAAGAAAAAAGAAAAA
Found at i:62603199 original size:11 final size:11
Alignment explanation
Indices: 62603168--62603200 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
62603158 GAAGAAGAAG
62603168 AAAAG-AAAAA
1 AAAAGAAAAAA
*
62603178 GAAAGAAAAAA
1 AAAAGAAAAAA
62603189 AAAAGAAAAAA
1 AAAAGAAAAAA
62603200 A
1 A
62603201 TTAATTATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 4 0.20
11 16 0.80
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (11 bp):
AAAAGAAAAAA
Found at i:62603444 original size:12 final size:11
Alignment explanation
Indices: 62603424--62603498 Score: 84
Period size: 12 Copynumber: 6.9 Consensus size: 11
62603414 GAAGCAGGCC
62603424 GAAGAAAAAAA
1 GAAGAAAAAAA
62603435 GAAGGAAAAAAA
1 GAA-GAAAAAAA
*
62603447 GAA-AAGAAAA
1 GAAGAAAAAAA
62603457 -AAG-AAAAAA
1 GAAGAAAAAAA
*
62603466 GGAGAAAAAAA
1 GAAGAAAAAAA
*
62603477 GAAGAAAAAGGA
1 GAAGAAAAA-AA
62603489 GAAGAAAAAA
1 GAAGAAAAAA
62603499 GAAAAAAGGA
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
9 7 0.13
10 8 0.15
11 17 0.32
12 21 0.40
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (11 bp):
GAAGAAAAAAA
Found at i:62603473 original size:28 final size:29
Alignment explanation
Indices: 62603431--62603521 Score: 89
Period size: 28 Copynumber: 3.1 Consensus size: 29
62603421 GCCGAAGAAA
62603431 AAAAGAAGGAAAAAAAGAA-AAGAAAAAAG
1 AAAAGAAGGAAAAAAA-AAGAAGAAAAAAG
* *
62603460 AAAA-AAGGAGAAAAAAAGAAGAAAAAGG
1 AAAAGAAGGAAAAAAAAAGAAGAAAAAAG
* * *
62603488 AGAAGAA-AAAAGAAAAAAGGAGGAAAAAAG
1 AAAAGAAGGAAA-AAAAAA-GAAGAAAAAAG
62603518 AAAA
1 AAAA
62603522 AAAGAGGTTC
Statistics
Matches: 50, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
27 2 0.04
28 24 0.48
29 12 0.24
30 12 0.24
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (29 bp):
AAAAGAAGGAAAAAAAAAGAAGAAAAAAG
Found at i:62603485 original size:40 final size:40
Alignment explanation
Indices: 62603426--62603524 Score: 146
Period size: 40 Copynumber: 2.5 Consensus size: 40
62603416 AGCAGGCCGA
62603426 AGAAAAAAAGAAGGAAAAAAAGAAAAGAAAAAAGAAAAAAGG
1 AGAAAAAAAGAA-G-AAAAAAGAAAAGAAAAAAGAAAAAAGG
* *
62603468 AGAAAAAAAGAAGAAAAAGGAGAAGAAAAAAGAAAAAAGG
1 AGAAAAAAAGAAGAAAAAAGAAAAGAAAAAAGAAAAAAGG
*
62603508 AGGAAAAAAGAA-AAAAA
1 AGAAAAAAAGAAGAAAAA
62603525 GAGGTTCAAT
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
39 5 0.09
40 36 0.67
41 1 0.02
42 12 0.22
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (40 bp):
AGAAAAAAAGAAGAAAAAAGAAAAGAAAAAAGAAAAAAGG
Found at i:62603486 original size:20 final size:20
Alignment explanation
Indices: 62603426--62603525 Score: 107
Period size: 20 Copynumber: 5.0 Consensus size: 20
62603416 AGCAGGCCGA
*
62603426 AGAAAAAAAGAAGGAAAAA-A
1 AGAAAAAAAGAA-GAAAAAGG
*
62603446 AGAAAAGAAAAAAGAAAAAAGG
1 AGAAAA-AAAGAAG-AAAAAGG
62603468 AGAAAAAAAGAAGAAAAAGG
1 AGAAAAAAAGAAGAAAAAGG
*
62603488 AGAAGAAAA-AAGAAAAAAGG
1 AGAAAAAAAGAAG-AAAAAGG
*
62603508 AGGAAAAAAGAA-AAAAAG
1 AGAAAAAAAGAAGAAAAAG
62603526 AGGTTCAATT
Statistics
Matches: 69, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
19 9 0.13
20 36 0.52
21 18 0.26
22 6 0.09
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (20 bp):
AGAAAAAAAGAAGAAAAAGG
Found at i:62603502 original size:30 final size:29
Alignment explanation
Indices: 62603425--62603523 Score: 98
Period size: 30 Copynumber: 3.4 Consensus size: 29
62603415 AAGCAGGCCG
62603425 AAGA-AAAAAAGAAGGAAAAAAAGAAAAGAAA
1 AAGAGAAAAAAGAA-GAAAAAAAG--AAGAAA
*
62603456 AA-AGAAAAAAGGAGAAAAAAAGAAGAAA
1 AAGAGAAAAAAGAAGAAAAAAAGAAGAAA
* *
62603484 AAGGAGAAGAAAA-AAGAAAAAAGGAGGAAA
1 AA-GAGAA-AAAAGAAGAAAAAAAGAAGAAA
62603514 AA-AGAAAAAA
1 AAGAGAAAAAA
62603524 AGAGGTTCAA
Statistics
Matches: 60, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
27 4 0.07
28 12 0.20
30 30 0.50
31 14 0.23
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (29 bp):
AAGAGAAAAAAGAAGAAAAAAAGAAGAAA
Found at i:62603523 original size:18 final size:18
Alignment explanation
Indices: 62603452--62603528 Score: 100
Period size: 18 Copynumber: 4.1 Consensus size: 18
62603442 AAAAAGAAAA
62603452 GAAAAAAGAAAAAAGGAG
1 GAAAAAAGAAAAAAGGAG
*
62603470 AAAAAAAGAAGAAAAAGGAG
1 GAAAAAAG-A-AAAAAGGAG
62603490 AAGAAAAAAGAAAAAAGGAG
1 --GAAAAAAGAAAAAAGGAG
*
62603510 GAAAAAAGAAAAAAAGAG
1 GAAAAAAGAAAAAAGGAG
62603528 G
1 G
62603529 TTCAATTCGT
Statistics
Matches: 52, Mismatches: 3, Indels: 8
0.83 0.05 0.13
Matches are distributed among these distances:
18 25 0.48
19 1 0.02
20 18 0.35
21 1 0.02
22 7 0.13
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (18 bp):
GAAAAAAGAAAAAAGGAG
Found at i:62603684 original size:5 final size:5
Alignment explanation
Indices: 62603674--62603716 Score: 50
Period size: 5 Copynumber: 8.0 Consensus size: 5
62603664 CATTTATATT
*
62603674 TTTAA TTTAA TTTAA TTTTAA TTTTAA TTTTAA TTTAT TTTAA
1 TTTAA TTTAA TTTAA -TTTAA -TTTAA -TTTAA TTTAA TTTAA
62603717 ATACTTTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
5 18 0.51
6 17 0.49
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (5 bp):
TTTAA
Found at i:62603691 original size:23 final size:24
Alignment explanation
Indices: 62603665--62603715 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
62603655 GTATTTTGGC
*
62603665 ATTTATATTTTTAA-TTTAATTTA
1 ATTTATAATTTTAATTTTAATTTA
62603688 ATTT-TAATTTTAATTTTAATTTA
1 ATTTATAATTTTAATTTTAATTTA
*
62603711 TTTTA
1 ATTTA
62603716 AATACTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 8 0.33
23 16 0.67
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (24 bp):
ATTTATAATTTTAATTTTAATTTA
Found at i:62603693 original size:6 final size:6
Alignment explanation
Indices: 62603673--62603709 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
62603663 GCATTTATAT
62603673 TTTTAA -TTTAA -TTTAA TTTTAA TTTTAA TTTTAA TTT
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTT
62603710 ATTTTAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 10 0.33
6 20 0.67
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTTAA
Found at i:62603701 original size:22 final size:22
Alignment explanation
Indices: 62603674--62603716 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
62603664 CATTTATATT
62603674 TTTAA-TTTAATTTAATTTTAAT
1 TTTAATTTTAATTT-ATTTTAAT
62603696 TTTAATTTTAATTTATTTTAA
1 TTTAATTTTAATTTATTTTAA
62603717 ATACTTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (22 bp):
TTTAATTTTAATTTATTTTAAT
Found at i:62603901 original size:19 final size:20
Alignment explanation
Indices: 62603879--62603921 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
62603869 TATATTTTGC
62603879 AAAA-TTTT-TCGTGTCTTCA
1 AAAATTTTTCTCGTGT-TTCA
62603898 AAAATTTTTCTCGTGTTTCA
1 AAAATTTTTCTCGTGTTTCA
62603918 AAAA
1 AAAA
62603922 AAATATTCGC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.18
20 12 0.55
21 6 0.27
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.44
Consensus pattern (20 bp):
AAAATTTTTCTCGTGTTTCA
Found at i:62604194 original size:18 final size:18
Alignment explanation
Indices: 62604168--62604690 Score: 232
Period size: 17 Copynumber: 28.7 Consensus size: 18
62604158 AAAAAATTAT
62604168 TTTTC-AAAATTTTCGTG
1 TTTTCAAAAATTTTCGTG
*
62604185 TTTTCAAAAAATTCTCGTG
1 TTTTC-AAAAATTTTCGTG
*
62604204 -TTTCAAAAAATCTTCGTG
1 TTTTC-AAAAATTTTCGTG
*
62604222 TTTTC-AAGA-TTTCG-G
1 TTTTCAAAAATTTTCGTG
* *
62604237 TGTTTCCAAAATTTTCATG
1 T-TTTCAAAAATTTTCGTG
62604256 TTTTCAAAAAAAAAATTTCTCGTG
1 TTTTC-----AAAAATTT-TCGTG
62604280 TTTT-AAAAATTTTTGCGT-
1 TTTTCAAAAA-TTTT-CGTG
* **
62604298 TTTTAAAAACAAATTCGTG
1 TTTTCAAAA-ATTTTCGTG
**
62604317 TTTTCAAAAATCCTCGTG
1 TTTTCAAAAATTTTCGTG
* * *
62604335 TTTACAAAAATTCTGGTG
1 TTTTCAAAAATTTTCGTG
* * *
62604353 -GTTCAATAA-TTCCTGTG
1 TTTTCAAAAATTTTC-GTG
*
62604370 TTTT-AAAAATTTCCGTG
1 TTTTCAAAAATTTTCGTG
* *
62604387 TTTTCAAAAAAAATCTTCGTA
1 TTTTC---AAAAATTTTCGTG
*
62604408 TTTTCAAAAAAAATTT--TG
1 TTTTC--AAAAATTTTCGTG
**
62604426 -TTTCAAAAATCCTCGTG
1 TTTTCAAAAATTTTCGTG
62604443 TTTTCAAAAA-TTTCG-G
1 TTTTCAAAAATTTTCGTG
*
62604459 TGTTTCAAAGA-TTTCGTG
1 T-TTTCAAAAATTTTCGTG
*
62604477 TTTTCAAAAA-TTCCGGTG
1 TTTTCAAAAATTTTC-GTG
62604495 ATTTTACAAAAA-TTTCGTG
1 -TTTT-CAAAAATTTTCGTG
*
62604514 TTTTCTAAAAAAATTTCCGTG
1 TTTTC---AAAAATTTTCGTG
*
62604535 -TTTCAAAAATTTTCATG
1 TTTTCAAAAATTTTCGTG
**
62604552 TTTTCAAAAAATTCCCGTG
1 TTTTC-AAAAATTTTCGTG
* * *
62604571 -CTTCACAAATGTTCGTG
1 TTTTCAAAAATTTTCGTG
* *
62604588 TTTT--AAATTTTTTGTG
1 TTTTCAAAAATTTTCGTG
*
62604604 TTTTCAAAAAAAATTCTCGTG
1 TTTTC---AAAAATTTTCGTG
* *
62604625 -TTTCAAAAAATGTCGTG
1 TTTTCAAAAATTTTCGTG
* *
62604642 TTTTAAAAAAGAATTTCGTG
1 TTTT-CAAAA-ATTTTCGTG
* *
62604662 -TTTCTAAAGTTTTCGTG
1 TTTTCAAAAATTTTCGTG
62604679 -TTTCAAAAATTT
1 TTTTCAAAAATTT
62604691 CGTTTTTTTA
Statistics
Matches: 388, Mismatches: 70, Indels: 96
0.70 0.13 0.17
Matches are distributed among these distances:
15 8 0.02
16 23 0.06
17 113 0.29
18 98 0.25
19 61 0.16
20 40 0.10
21 30 0.08
23 7 0.02
24 8 0.02
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.43
Consensus pattern (18 bp):
TTTTCAAAAATTTTCGTG
Found at i:62604287 original size:23 final size:23
Alignment explanation
Indices: 62604244--62604288 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
62604234 CGGTGTTTCC
62604244 AAAATTTTCATGTTTTCAAAAAA
1 AAAATTTTCATGTTTTCAAAAAA
*
62604267 AAAATTTCTCGTGTTTT-AAAAA
1 AAAATTT-TCATGTTTTCAAAAA
62604289 TTTTTGCGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.40
Consensus pattern (23 bp):
AAAATTTTCATGTTTTCAAAAAA
Found at i:62604288 original size:24 final size:23
Alignment explanation
Indices: 62604244--62604288 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
62604234 CGGTGTTTCC
*
62604244 AAAATTTTCATGTTTTCAAAAAA
1 AAAATTTTCATGTTTTAAAAAAA
*
62604267 AAAATTTCTCGTGTTTTAAAAA
1 AAAATTT-TCATGTTTTAAAAA
62604289 TTTTTGCGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.40
Consensus pattern (23 bp):
AAAATTTTCATGTTTTAAAAAAA
Found at i:62604417 original size:22 final size:21
Alignment explanation
Indices: 62604374--62604423 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
62604364 CCTGTGTTTT
*
62604374 AAAAATTTCCGTGTTTTCAAA
1 AAAAATTTCCGTATTTTCAAA
62604395 AAAAATCTT-CGTATTTTCAAA
1 AAAAAT-TTCCGTATTTTCAAA
62604416 AAAAATTT
1 AAAAATTT
62604424 TGTTTCAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 2 0.07
21 23 0.85
22 2 0.07
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (21 bp):
AAAAATTTCCGTATTTTCAAA
Found at i:62604436 original size:108 final size:105
Alignment explanation
Indices: 62604173--62604634 Score: 329
Period size: 108 Copynumber: 4.2 Consensus size: 105
62604163 ATTATTTTTC
* * * *
62604173 AAAATTTTCGTGTTTTC--AAAAAATTCTCGTGTTTCAAAAAATCTTCGTGTTTTCAAGATTTC-
1 AAAAATTTCGT-TTTTCAAAAAAAATT-TC-TGTTTC-AAAAATCCTCGTGTTTTCAAAAATTCT
* *
62604235 GGTGTTTCCAAAATTTTCATGTTTTCAAAAAAAAAATTTCTCGTGTTTT--AA
62 GGTGCTT-CAAAA-TTTCGTGTTTT------AAAAATTTC-CGTGTTTTCAAA
** *
62604286 AAATTTTTGCGTTTTT-AAAAACAAA-TTCGTGTTTTCAAAAATCCTCGTGTTTACAAAAATTCT
1 AAAAATTT-CGTTTTTCAAAAA-AAATTTC-TG-TTTCAAAAATCCTCGTGTTTTCAAAAATTCT
* *
62604349 GGTGGTTCAATAATTCCTGTGTTTTAAAAATTTCCGTGTTTTCAAA
62 GGTGCTTCAA-AATTTC-GTGTTTTAAAAATTTCCGTGTTTTCAAA
62604395 AAAAATCTTCGTATTTTCAAAAAAAATTT-TGTTTCAAAAATCCTCGTGTTTTCAAAAATT-TCG
1 AAAAAT-TTCGT-TTTTCAAAAAAAATTTCTGTTTCAAAAATCCTCGTGTTTTCAAAAATTCT-G
* *
62604458 GTGTTTCAAAGATTTCGTGTTTTCAAAAA-TTCCGGTGATTTT--AC
63 GTGCTTCAAA-ATTTCGTGTTTT-AAAAATTTCC-GTG-TTTTCAAA
* ** * *
62604502 AAAAATTTCGTGTTTTCTAAAAAAATTTCCGTGTTTCAAAAATTTTCATGTTTTCAAAAAATTCC
1 AAAAATTTCGT-TTTTCAAAAAAAATTT-C-TGTTTCAAAAATCCTCGTGTTTTC-AAAAATTCT
* * **
62604567 CGTGCTTCACAAATGTTCGTGTTTT-AAATTTTTTGTGTTTTCAAA
62 GGTGCTTCA-AAAT-TTCGTGTTTTAAAAATTTCCGTGTTTTCAAA
*
62604612 AAAAATTCTCGTGTTTCAAAAAA
1 AAAAATT-TCGTTTTTCAAAAAA
62604635 TGTCGTGTTT
Statistics
Matches: 291, Mismatches: 28, Indels: 63
0.76 0.07 0.16
Matches are distributed among these distances:
106 20 0.07
107 28 0.10
108 62 0.21
109 42 0.14
110 44 0.15
111 23 0.08
113 44 0.15
114 25 0.09
115 3 0.01
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (105 bp):
AAAAATTTCGTTTTTCAAAAAAAATTTCTGTTTCAAAAATCCTCGTGTTTTCAAAAATTCTGGTG
CTTCAAAATTTCGTGTTTTAAAAATTTCCGTGTTTTCAAA
Found at i:62604586 original size:74 final size:73
Alignment explanation
Indices: 62604448--62604591 Score: 184
Period size: 74 Copynumber: 1.9 Consensus size: 73
62604438 TCGTGTTTTC
* * * * *
62604448 AAAAATTTCGGTGTTTCAAAGATTTCGTGTTTTCAAAAATTCCGGTGATTTTACAAAAATTTCGT
1 AAAAATTTCCGTGTTTCAAAAATTTCATGTTTTCAAAAATTCCCGTGA-CTTACAAAAATTTCGT
62604513 GTTTTCTAA
65 GTTTTCTAA
*
62604522 AAAAATTTCCGTGTTTCAAAAATTTTCATGTTTTCAAAAAATTCCCGTG-CTT-CACAAATGTTC
1 AAAAATTTCCGTGTTTCAAAAA-TTTCATGTTTTC-AAAAATTCCCGTGACTTACAAAAAT-TTC
62604585 GTGTTTT
63 GTGTTTT
62604592 AAATTTTTTG
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
73 6 0.10
74 32 0.52
75 11 0.18
76 12 0.20
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.42
Consensus pattern (73 bp):
AAAAATTTCCGTGTTTCAAAAATTTCATGTTTTCAAAAATTCCCGTGACTTACAAAAATTTCGTG
TTTTCTAA
Found at i:62604625 original size:37 final size:38
Alignment explanation
Indices: 62604582--62604687 Score: 121
Period size: 37 Copynumber: 2.9 Consensus size: 38
62604572 TTCACAAATG
* *
62604582 TTCGTGTTT-TAAATTTTTTGTGTTTTCAAAAAA-AAT
1 TTCGTGTTTCTAAAATTTTCGTGTTTTCAAAAAAGAAT
* * *
62604618 TCTCGTGTTTCAAAAAATGTCGTGTTTT-AAAAAAGAAT
1 T-TCGTGTTTCTAAAATTTTCGTGTTTTCAAAAAAGAAT
*
62604656 TTCGTGTTTCTAAAGTTTTCGTG-TTTCAAAAA
1 TTCGTGTTTCTAAAATTTTCGTGTTTTCAAAAA
62604688 TTTCGTTTTT
Statistics
Matches: 57, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
36 4 0.07
37 37 0.65
38 16 0.28
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.45
Consensus pattern (38 bp):
TTCGTGTTTCTAAAATTTTCGTGTTTTCAAAAAAGAAT
Found at i:62616570 original size:71 final size:73
Alignment explanation
Indices: 62616399--62616995 Score: 418
Period size: 78 Copynumber: 7.8 Consensus size: 73
62616389 CTGTTTTTTT
* * ** *
62616399 AAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCGG-GTCATGCCGAGGTATTTCGTTTACA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACATGCCGAGGTATTTCTTTTA-A
* **
62616463 TTTCTGTTCTTTT
65 -AT-T-TT-TTAA
* * * *
62616476 TAAATTAACTCATATTGCGAGAGGTGAGTTGAGCTTCGGACACATGCCGTGGTATTTCTTTTAAA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACATGCCGAGGTATTTCTTTTAAA
*
62616541 -TTTTT-G
66 TTTTTTAA
62616547 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACATGCCGAGGTATTTCTTTTAAA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACATGCCGAGGTATTTCTTTTAAA
*
62616612 TTTCTGTTCTTCA
66 --T-T-TT-TTAA
* * *
62616625 AAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGTCACATGCCGAGGTATTTCGTTTAAA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACATGCCGAGGTATTTCTTTTAAA
62616690 TTTCTGTTTTTCAAAA
66 ----T-TTTTT---AA
* * *
62616706 AAAATCAACTCATAATGAGAGAGGTGAGTTGAGCCTCGAGTCACATGCCGAGGTATTTCTTTTAA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG-GACACATGCCGAGGTATTTCTTTTAA
62616771 ATTTCGTATTTTCAAA
65 A--T--T-TTTT--AA
* * ** * * *
62616787 AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCT-TGAGTCATGTCGAGGTA-TT-TTTCAAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACATGCCGAGGTATTTCTTTTAAA
**
62616849 TGCTGTTTTTC
66 T--T-TTTTAA
* * * * *
62616860 AAAATTAACTCATAATGCGAGAGATGAGATGAGCCTCGGGTCACATGCCGAGGTA--TCTTTTCA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACATGCCGAGGTATTTCTTTT-A
*
62616923 ATTTCTGTTTTCCAAA
64 A-AT-T-TTTT---AA
* * * * * * *
62616939 AAAATCAACTCATAATGCTAAATGTGAGTTGAGCCTCGGGCCACACGCCGAGCTATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACATGCCGAGGTATT
62616996 CTCGATTTCA
Statistics
Matches: 429, Mismatches: 65, Indels: 48
0.79 0.12 0.09
Matches are distributed among these distances:
71 61 0.14
72 2 0.00
73 33 0.08
74 2 0.00
75 22 0.05
76 11 0.03
77 44 0.10
78 85 0.20
79 60 0.14
80 5 0.01
81 74 0.17
82 30 0.07
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (73 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACATGCCGAGGTATTTCTTTTAAA
TTTTTTAA
Found at i:62616669 original size:149 final size:150
Alignment explanation
Indices: 62616393--62616995 Score: 600
Period size: 149 Copynumber: 3.9 Consensus size: 150
62616383 CAATTTCTGT
* *
62616393 TTTTTTAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCGGGT--CATGCCGAGGTATTTC
1 TTTTTAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC-GGTCACATGCCGAGGTATTTC
* * *** * * * *
62616456 GTTTACATTTCTGTTCTT-TTTAAATTAACTCATATTGCGAGAGGTGAGTTGAGCTTCGGACACA
65 TTTTAAATTTCTGTTCTTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGTCACA
*
62616520 TGCCGTGGTATTTCTTTTAAA
130 TGCCGAGGTATTTCTTTTAAA
* * *
62616541 TTTTTGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACATGCCGAGGTATTTCT
1 TTTTTAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGTCACATGCCGAGGTATTTCT
62616606 TTTAAATTTCTGTTCTTC-AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGTCACAT
66 TTTAAATTTCTGTTCTTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGTCACAT
*
62616670 GCCGAGGTATTTCGTTTAAA
131 GCCGAGGTATTTCTTTTAAA
*
62616690 TTTCTGTTTTTCAAAAAAAATCAACTCATAATGAGAGAGGTGAGTTGAGCCTCGAGTCACATGCC
1 ------TTTTT----AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCG-GTCACATGCC
*
62616755 GAGGTATTTCTTTTAAATTTC-GTATTTTCAAAAAAATCAACTCATATTGC-AAGAGGTGAGTTG
55 GAGGTATTTCTTTTAAATTTCTGT-TCTTC-AAAAAATCAACTCATATTGCGAA-AGGTGAGTTG
* * ***
62616818 AGCCTTGAGT--CATGTCGAGGTATTT-TTCAATTGCTG
117 AGCCTCG-GTCACATGCCGAGGTATTTCTT---TT-AAA
* * * *
62616854 TTTTTCAAAATTAACTCATAATGCGAGAGATGAGATGAGCCTCGGGTCACATGCCGAGGTA--TC
1 TTTTTAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC-GGTCACATGCCGAGGTATTTC
* * * * *
62616917 TTTTCAATTTCTGTT-TTCCAAAAAAATCAACTCATAATGCTAAATGTGAGTTGAGCCTCGGGCC
65 TTTTAAATTTCTGTTCTT-C-AAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTC-GGTC
* *
62616981 ACACGCCGAGCTATT
127 ACATGCCGAGGTATT
62616996 CTCGATTTCA
Statistics
Matches: 387, Mismatches: 38, Indels: 54
0.81 0.08 0.11
Matches are distributed among these distances:
147 2 0.01
148 40 0.10
149 90 0.23
151 2 0.01
152 49 0.13
153 5 0.01
154 60 0.16
155 6 0.02
158 5 0.01
159 38 0.10
160 35 0.09
161 16 0.04
162 35 0.09
163 4 0.01
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.34
Consensus pattern (150 bp):
TTTTTAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGTCACATGCCGAGGTATTTCT
TTTAAATTTCTGTTCTTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGTCACAT
GCCGAGGTATTTCTTTTAAA
Found at i:62616788 original size:81 final size:80
Alignment explanation
Indices: 62616547--62616995 Score: 537
Period size: 81 Copynumber: 5.7 Consensus size: 80
62616537 TAAATTTTTG
* *
62616547 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACATGCCGAGGTATTTCTTTTAAA
1 AAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGTCACATGCCGAGGTATTTCTTTTAAA
*
62616612 TTTCTGTTCTTC--A
66 TTTCTGTTTTTCAAA
* * *
62616625 AAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGTCACATGCCGAGGTATTTCGTTTAAA
1 AAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGTCACATGCCGAGGTATTTCTTTTAAA
62616690 TTTCTGTTTTTCAAAA
66 TTTCTGTTTTTC-AAA
*
62616706 AAAATCAACTCATAATGAGAGAGGTGAGTTGAGCCTCGAGTCACATGCCGAGGTATTTCTTTTAA
1 AAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCG-GTCACATGCCGAGGTATTTCTTTTAA
62616771 ATTTC-GTATTTTCAAA
65 ATTTCTGT-TTTTCAAA
* * * * *
62616787 AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTTGAGT--CATGTCGAGGTA--T-TTTTCA
1 AAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCG-GTCACATGCCGAGGTATTTCTTTTAA
*
62616847 ATTGCTGTTTTTC---
65 ATTTCTGTTTTTCAAA
* * * *
62616860 AAAATTAACTCATAATGCGAGAGATGAGATGAGCCTCGGGTCACATGCCGAGGTA--TCTTTTCA
1 AAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC-GGTCACATGCCGAGGTATTTCTTTTAA
*
62616923 ATTTCTGTTTTCCAAA
65 ATTTCTGTTTTTCAAA
* * * * * *
62616939 AAAATCAACTCATAATGCTAAATGTGAGTTGAGCCTCGGGCCACACGCCGAGCTATT
1 AAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC-GGTCACATGCCGAGGTATT
62616996 CTCGATTTCA
Statistics
Matches: 323, Mismatches: 33, Indels: 27
0.84 0.09 0.07
Matches are distributed among these distances:
73 33 0.10
74 1 0.00
75 12 0.04
76 31 0.10
77 3 0.01
78 73 0.23
79 57 0.18
81 78 0.24
82 35 0.11
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.32
Consensus pattern (80 bp):
AAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGTCACATGCCGAGGTATTTCTTTTAAA
TTTCTGTTTTTCAAA
Found at i:62617198 original size:30 final size:30
Alignment explanation
Indices: 62617163--62617332 Score: 145
Period size: 30 Copynumber: 5.7 Consensus size: 30
62617153 AAAAAATTTG
*
62617163 CATTTTGACCCCTGAACTTTTCTAAAATTA
1 CATTTTGACCCCTAAACTTTTCTAAAATTA
* * ** *
62617193 CATTTTGGCCCTTAATTTTTTTTCAAAATTA
1 CATTTTGACCCCTAAACTTTTCT-AAAATTA
* *
62617224 CA-TTTCAACCCTAAACTTTTCT-AAATTA
1 CATTTTGACCCCTAAACTTTTCTAAAATTA
62617252 CATTTTGA-CCCTATAA--TTTCTTAAAATTA
1 CATTTTGACCCCTA-AACTTTTC-TAAAATTA
*
62617281 CATTTTGACCCCTAAAC-TTCCTCAAAATTA
1 CATTTTGACCCCTAAACTTTTCT-AAAATTA
* * **
62617311 CGTTTCGACCCAAAAACTTTTC
1 CATTTTGACCCCTAAACTTTTC
62617333 CTGCATTTGC
Statistics
Matches: 111, Mismatches: 20, Indels: 17
0.75 0.14 0.11
Matches are distributed among these distances:
27 4 0.04
28 14 0.13
29 23 0.21
30 58 0.52
31 12 0.11
ACGTcount: A:0.31, C:0.24, G:0.05, T:0.41
Consensus pattern (30 bp):
CATTTTGACCCCTAAACTTTTCTAAAATTA
Found at i:62617212 original size:29 final size:29
Alignment explanation
Indices: 62617163--62617291 Score: 127
Period size: 29 Copynumber: 4.4 Consensus size: 29
62617153 AAAAAATTTG
* *
62617163 CATTTTGACCCCTGAACTTTTCTAAAATTA
1 CATTTTGA-CCCTTAATTTTTCTAAAATTA
* *
62617193 CATTTTGGCCCTTAATTTTTTTTCAAAATTA
1 CATTTTGACCCTTAA-TTTTTCT-AAAATTA
** * *
62617224 CATTTCAACCCTAAACTTTTCT-AAATTA
1 CATTTTGACCCTTAATTTTTCTAAAATTA
*
62617252 CATTTTGACCCTATAATTTCT-TAAAATTA
1 CATTTTGACCCT-TAATTTTTCTAAAATTA
62617281 CATTTTGACCC
1 CATTTTGACCC
62617292 CTAAACTTCC
Statistics
Matches: 80, Mismatches: 15, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
28 17 0.21
29 28 0.35
30 17 0.21
31 18 0.22
ACGTcount: A:0.30, C:0.22, G:0.05, T:0.43
Consensus pattern (29 bp):
CATTTTGACCCTTAATTTTTCTAAAATTA
Found at i:62617252 original size:28 final size:28
Alignment explanation
Indices: 62617212--62617332 Score: 100
Period size: 28 Copynumber: 4.2 Consensus size: 28
62617202 CCTTAATTTT
62617212 TTTTCAAAATTACATTTCAACCCTAAAC
1 TTTTCAAAATTACATTTCAACCCTAAAC
* **
62617240 TTTTCTAAATTACATTTTGACCCTATAA-
1 TTTTCAAAATTACATTTCAACCCTA-AAC
* * *
62617268 TTTCTTAAAATTACATTTTGACCCCTAAAC
1 TTT-TCAAAATTACA-TTTCAACCCTAAAC
* * * *
62617298 TTCCTCAAAATTACGTTTCGACCCAAAAAC
1 TT-TTCAAAATTACATTTCAACCC-TAAAC
62617328 TTTTC
1 TTTTC
62617333 CTGCATTTGC
Statistics
Matches: 71, Mismatches: 16, Indels: 11
0.72 0.16 0.11
Matches are distributed among these distances:
28 25 0.35
29 21 0.30
30 25 0.35
ACGTcount: A:0.34, C:0.24, G:0.03, T:0.39
Consensus pattern (28 bp):
TTTTCAAAATTACATTTCAACCCTAAAC
Found at i:62617309 original size:59 final size:59
Alignment explanation
Indices: 62617163--62617321 Score: 180
Period size: 59 Copynumber: 2.7 Consensus size: 59
62617153 AAAAAATTTG
* * *
62617163 CATTTTGACCCCTGAACTTTTCTAAAATTACATTTTGGCCCTTAATTTTTTTTCAAAATTA
1 CATTTTGACCCCTAAACTTTTC-AAAATTACATTTTGACCCTTAA-TTTTCTTCAAAATTA
* * *
62617224 CA-TTTCAACCCTAAACTTTTCTAAATTACATTTTGACCCTATAA-TTTCTT-AAAATTA
1 CATTTTGACCCCTAAACTTTTCAAAATTACATTTTGACCCT-TAATTTTCTTCAAAATTA
* * *
62617281 CATTTTGACCCCTAAACTTCCTCAAAATTACGTTTCGACCC
1 CATTTTGACCCCTAAACTT-TTCAAAATTACATTTTGACCC
62617322 AAAAACTTTT
Statistics
Matches: 83, Mismatches: 12, Indels: 8
0.81 0.12 0.08
Matches are distributed among these distances:
57 9 0.11
58 19 0.23
59 34 0.41
60 19 0.23
61 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.05, T:0.41
Consensus pattern (59 bp):
CATTTTGACCCCTAAACTTTTCAAAATTACATTTTGACCCTTAATTTTCTTCAAAATTA
Found at i:62617556 original size:18 final size:18
Alignment explanation
Indices: 62617535--62617591 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
62617525 AACTTGCAAA
62617535 AAAAAGAAAAAGAAGAGG
1 AAAAAGAAAAAGAAGAGG
62617553 AAAAAGGAGAGAAAG-AGAGG
1 AAAAA-GA-A-AAAGAAGAGG
* * *
62617573 AGAAAGGAGAAGAAGAGG
1 AAAAAGAAAAAGAAGAGG
62617591 A
1 A
62617592 GGGCTTCCGA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
17 3 0.09
18 12 0.38
19 3 0.09
20 10 0.31
21 4 0.12
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (18 bp):
AAAAAGAAAAAGAAGAGG
Found at i:62617571 original size:20 final size:21
Alignment explanation
Indices: 62617543--62617582 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
62617533 AAAAAAAGAA
62617543 AAAGAAGAGGAAAAAGGAGAG
1 AAAGAAGAGGAAAAAGGAGAG
*
62617564 AAAG-AGAGGAGAAAGGAGA
1 AAAGAAGAGGAAAAAGGAGA
62617583 AGAAGAGGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (21 bp):
AAAGAAGAGGAAAAAGGAGAG
Found at i:62617592 original size:18 final size:18
Alignment explanation
Indices: 62617544--62617592 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 18
62617534 AAAAAAGAAA
*
62617544 AAGAAGAGGAAAAAGGAG
1 AAGAAGAGGAGAAAGGAG
*
62617562 AGAAAGAGAGGAGAAAGGAG
1 A-AGA-AGAGGAGAAAGGAG
62617582 AAGAAGAGGAG
1 AAGAAGAGGAG
62617593 GGCTTCCGAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 8 0.31
19 4 0.15
20 14 0.54
ACGTcount: A:0.57, C:0.00, G:0.43, T:0.00
Consensus pattern (18 bp):
AAGAAGAGGAGAAAGGAG
Found at i:62617686 original size:10 final size:10
Alignment explanation
Indices: 62617671--62617720 Score: 59
Period size: 10 Copynumber: 5.2 Consensus size: 10
62617661 AGGGTTTCCG
62617671 AAAGAAGAAA
1 AAAGAAGAAA
*
62617681 AAAGAAGGAA
1 AAAGAAGAAA
* *
62617691 GAAGAAGAAG
1 AAAGAAGAAA
62617701 AAAGAA-AAA
1 AAAGAAGAAA
62617710 AAAGAA-AAA
1 AAAGAAGAAA
62617719 AA
1 AA
62617721 TTATTATAGT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
9 13 0.38
10 21 0.62
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (10 bp):
AAAGAAGAAA
Found at i:62617855 original size:19 final size:19
Alignment explanation
Indices: 62617828--62617871 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
62617818 AGCAGCCCAA
*
62617828 AAAGAAAAAAGAAAAG-AAG
1 AAAGCAAAAA-AAAAGAAAG
62617847 AAAGCAAAAAAAAAGAAAG
1 AAAGCAAAAAAAAAGAAAG
62617866 AAAGCA
1 AAAGCA
62617872 GGCCATCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.77, C:0.05, G:0.18, T:0.00
Consensus pattern (19 bp):
AAAGCAAAAAAAAAGAAAG
Found at i:62617995 original size:10 final size:9
Alignment explanation
Indices: 62617979--62618062 Score: 71
Period size: 10 Copynumber: 8.7 Consensus size: 9
62617969 CAGGCCGAAG
62617979 AAAAAAAGA
1 AAAAAAAGA
62617988 AAAGAAAA-A
1 AAA-AAAAGA
62617997 AGAAAAAAGGA
1 A-AAAAAA-GA
62618008 GAAAAAAAGA
1 -AAAAAAAGA
62618018 AGAAAAAAGAA
1 A-AAAAAAG-A
*
62618029 AAAAAAAGG
1 AAAAAAAGA
*
62618038 AAAAAAGGA
1 AAAAAAAGA
*
62618047 GGAAAAAAGA
1 -AAAAAAAGA
62618057 AAAAAA
1 AAAAAA
62618063 GAGGTTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 16
0.73 0.07 0.19
Matches are distributed among these distances:
9 22 0.36
10 29 0.48
11 9 0.15
12 1 0.02
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:62618013 original size:11 final size:11
Alignment explanation
Indices: 62617999--62618055 Score: 52
Period size: 11 Copynumber: 5.6 Consensus size: 11
62617989 AAGAAAAAAG
62617999 AAAAAAGGAGA
1 AAAAAAGGAGA
*
62618010 AAAAAAGAAG-
1 AAAAAAGGAGA
62618020 AAAAAA-GA-A
1 AAAAAAGGAGA
*
62618029 AAAAAA--AGG
1 AAAAAAGGAGA
*
62618038 AAAAAAGGAGG
1 AAAAAAGGAGA
62618049 AAAAAAG
1 AAAAAAG
62618056 AAAAAAAGAG
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
8 1 0.03
9 13 0.33
10 6 0.15
11 19 0.49
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (11 bp):
AAAAAAGGAGA
Found at i:62618013 original size:18 final size:18
Alignment explanation
Indices: 62617992--62618061 Score: 86
Period size: 20 Copynumber: 3.7 Consensus size: 18
62617982 AAAAGAAAAG
62617992 AAAAAAGAAAAAAGGAGA
1 AAAAAAGAAAAAAGGAGA
* *
62618010 AAAAAAGAAGAAAAAAGAAA
1 AAAAAAG-A-AAAAAGGAGA
*
62618030 AAAAAAGGAAAAAAGGAGG
1 AAAAAA-GAAAAAAGGAGA
62618049 AAAAAAGAAAAAA
1 AAAAAAGAAAAAA
62618062 AGAGGTTCAA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
18 14 0.32
19 14 0.32
20 15 0.34
21 1 0.02
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (18 bp):
AAAAAAGAAAAAAGGAGA
Found at i:62618024 original size:29 final size:28
Alignment explanation
Indices: 62617976--62618062 Score: 111
Period size: 29 Copynumber: 3.0 Consensus size: 28
62617966 AAGCAGGCCG
*
62617976 AAGAAAAAAAGAAAAGAAAAAAGAAAAAAG
1 AAGAAAAAAAG--AAGAAAAAAGAAAAAAA
*
62618006 GAGAAAAAAAGAAGAAAAAAGAAAAAAA
1 AAGAAAAAAAGAAGAAAAAAGAAAAAAA
* *
62618034 AAGGAAAAAAGGAGGAAAAAAGAAAAAAA
1 AA-GAAAAAAAGAAGAAAAAAGAAAAAAA
62618063 GAGGTTCAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
28 17 0.33
29 24 0.47
30 10 0.20
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (28 bp):
AAGAAAAAAAGAAGAAAAAAGAAAAAAA
Found at i:62618061 original size:7 final size:7
Alignment explanation
Indices: 62617976--62618032 Score: 64
Period size: 7 Copynumber: 8.3 Consensus size: 7
62617966 AAGCAGGCCG
62617976 AAGAAAA
1 AAGAAAA
*
62617983 AA-AGAA
1 AAGAAAA
62617989 AAGAAAA
1 AAGAAAA
62617996 AAGAAAA
1 AAGAAAA
*
62618003 AAGGAGAA
1 AA-GAAAA
*
62618011 AA-AAAG
1 AAGAAAA
62618017 AAGAAAA
1 AAGAAAA
62618024 AAGAAAA
1 AAGAAAA
62618031 AA
1 AA
62618033 AAAGGAAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
6 9 0.22
7 26 0.63
8 6 0.15
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (7 bp):
AAGAAAA
Found at i:62618066 original size:18 final size:18
Alignment explanation
Indices: 62617976--62618066 Score: 83
Period size: 20 Copynumber: 4.8 Consensus size: 18
62617966 AAGCAGGCCG
*
62617976 AAGAAAAAAAGAAAAGAAAA
1 AAGAAAAAAAG--AGGAAAA
* *
62617996 AAGAAAAAAGGAGAAAAA
1 AAGAAAAAAAGAGGAAAA
**
62618014 AAGAAGAAAAAAGAAAAAAA
1 AAG-A-AAAAAAGAGGAAAA
*
62618034 AAGGAAAAAAGGAGGAAAA
1 AA-GAAAAAAAGAGGAAAA
62618053 AAGAAAAAAAGAGG
1 AAGAAAAAAAGAGG
62618067 TTCAATTCGT
Statistics
Matches: 59, Mismatches: 9, Indels: 8
0.78 0.12 0.11
Matches are distributed among these distances:
18 19 0.32
19 14 0.24
20 25 0.42
21 1 0.02
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (18 bp):
AAGAAAAAAAGAGGAAAA
Found at i:62618234 original size:16 final size:16
Alignment explanation
Indices: 62618213--62618250 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
62618203 GCATTTATGT
62618213 TTTTAA-TTTAATTTAA
1 TTTTAATTTTAATTT-A
62618229 TTTTAATTTTAATTTA
1 TTTTAATTTTAATTTA
62618245 TTTTAA
1 TTTTAA
62618251 ATACTTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTTAATTTTAATTTA
Found at i:62618436 original size:19 final size:20
Alignment explanation
Indices: 62618414--62618456 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
62618404 TATATTTTGC
62618414 AAAA-TTTT-TCGTGTCTTCA
1 AAAATTTTTCTCGTGT-TTCA
62618433 AAAATTTTTCTCGTGTTTCA
1 AAAATTTTTCTCGTGTTTCA
62618453 AAAA
1 AAAA
62618457 AATATTCGCG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.18
20 12 0.55
21 6 0.27
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.44
Consensus pattern (20 bp):
AAAATTTTTCTCGTGTTTCA
Found at i:62618695 original size:19 final size:19
Alignment explanation
Indices: 62618673--62619188 Score: 168
Period size: 17 Copynumber: 28.3 Consensus size: 19
62618663 TTTGTTTTTC
*
62618673 AAAATTCTCCTGTTTTCAAA
1 AAAATTCTCGTGTTTTC-AA
* *
62618693 AAAAAT-T-AT-TTTTC-A
1 AAAATTCTCGTGTTTTCAA
* * *
62618708 AAATTTTTCGTGTTTTTAA
1 AAAATTCTCGTGTTTTCAA
62618727 AAAATTCTCGTGTTTTCAA
1 AAAATTCTCGTGTTTTCAA
**
62618746 AAACCT-TCGTGTTTT-AA
1 AAAATTCTCGTGTTTTCAA
62618763 AAAA-TCTTCGTGTTTTC--
1 AAAATTC-TCGTGTTTTCAA
* *
62618780 AAGATT-TCG-GTGTTTC-C
1 AAAATTCTCGTGT-TTTCAA
* *
62618797 AAAATTTTCATGTTTTCAAAATA
1 AAAATTCTCGTGTTTTC---A-A
62618820 AAAATTCTCGTGTTTT--A
1 AAAATTCTCGTGTTTTCAA
* * **
62618837 AAATTTTTGCGT-TTTAAAA
1 AAAATTCT-CGTGTTTTCAA
*
62618856 AAAAAT-TCGTGTTTTC-A
1 AAAATTCTCGTGTTTTCAA
* *
62618873 AAAATCCTCGTGTTTT-TA
1 AAAATTCTCGTGTTTTCAA
*
62618891 AAAATTCTGGTG-TTTC-A
1 AAAATTCTCGTGTTTTCAA
*
62618908 ATAATTACT-GTGTTTT-AA
1 AAAATT-CTCGTGTTTTCAA
*
62618926 AAATTTC-CGTGTTTTCAAAA
1 AAAATTCTCGTGTTTTC--AA
* *
62618946 AAAAATCTTCGTATTTTCAAA
1 AAAATTC-TCGTGTTTTC-AA
*
62618967 AAAAAT-T-GTG-TTTC-A
1 AAAATTCTCGTGTTTTCAA
*
62618982 AAAATCCTCGTGTTTTC-A
1 AAAATTCTCGTGTTTTCAA
62619000 AAAATT-TCG-GTGTTTC-A
1 AAAATTCTCGTGT-TTTCAA
*
62619017 AAGATT-TCGTGTTTTC-A
1 AAAATTCTCGTGTTTTCAA
*
62619034 AAAATTC-CGGTGATTTTAAAAA
1 AAAATTCTC-GTG-TTTT--CAA
*
62619056 AAAAAT-TCGTGTTTTCTAAAA
1 AAAATTCTCGTGTTTTC---AA
*
62619077 AAAAAT-TCGTG-TTTC-A
1 AAAATTCTCGTGTTTTCAA
* *
62619093 AAAATTTTCATGTTTTCAA
1 AAAATTCTCGTGTTTTCAA
*
62619112 AAAATTCCCGTG-TTTC-A
1 AAAATTCTCGTGTTTTCAA
*
62619129 CAAATGT-TCGTGTTTT---
1 AAAAT-TCTCGTGTTTTCAA
* * *
62619145 AAAATTTTTGTGTTTTGAAAA
1 AAAATTCTCGTGTTTT--CAA
62619166 AAAATTCTCGTG-TTTCAA
1 AAAATTCTCGTGTTTTCAA
62619184 AAAAT
1 AAAAT
62619189 GTTGTGTTGT
Statistics
Matches: 381, Mismatches: 56, Indels: 120
0.68 0.10 0.22
Matches are distributed among these distances:
15 13 0.03
16 30 0.08
17 104 0.27
18 103 0.27
19 44 0.12
20 23 0.06
21 35 0.09
22 15 0.04
23 14 0.04
ACGTcount: A:0.34, C:0.12, G:0.11, T:0.43
Consensus pattern (19 bp):
AAAATTCTCGTGTTTTCAA
Found at i:62618755 original size:18 final size:18
Alignment explanation
Indices: 62618714--62619115 Score: 99
Period size: 18 Copynumber: 21.9 Consensus size: 18
62618704 TTCAAAATTT
* *
62618714 TTCGTGTTTTTAAAAAAT
1 TTCGTGTTTTCAAAAAAC
*
62618732 TCTCGTGTTTTCAAAAACC
1 T-TCGTGTTTTCAAAAAAC
62618751 TTCGTGTTTT-AAAAAATC
1 TTCGTGTTTTCAAAAAA-C
* *
62618769 TTCGTGTTTTC--AAGAT
1 TTCGTGTTTTCAAAAAAC
* **
62618785 TTCG-GTGTTTCCAAAATT
1 TTCGTGT-TTTCAAAAAAC
* *
62618803 TTCATGTTTTCAAAATAAAAAT
1 TTCGTGTTTTC---A-AAAAAC
***
62618825 TCTCGTGTTTT-AAAATTT
1 T-TCGTGTTTTCAAAAAAC
** *
62618843 TTGCGT-TTTAAAAAAAAA
1 TT-CGTGTTTTCAAAAAAC
*
62618861 TTCGTGTTTTCAAAAATC
1 TTCGTGTTTTCAAAAAAC
* *
62618879 CTCGTGTTTT-TAAAAA-
1 TTCGTGTTTTCAAAAAAC
*
62618895 TTC-TGGTGTTTC-AATAA-
1 TTCGT-GT-TTTCAAAAAAC
*
62618912 TTACTGTGTTTT--AAAAAT
1 TT-C-GTGTTTTCAAAAAAC
62618930 TTCCGTGTTTTCAAAAAAAAATC
1 TT-CGTGTTTTC---AAAAAA-C
* *
62618953 TTCGTATTTTCAAAAAAAA
1 TTCGTGTTTTC-AAAAAAC
*
62618972 TT-GTG-TTTCAAAAATC
1 TTCGTGTTTTCAAAAAAC
* *
62618988 CTCGTGTTTTC-AAAAAT
1 TTCGTGTTTTCAAAAAAC
* *
62619005 TTCG-GTGTTTC-AAAGAT
1 TTCGTGT-TTTCAAAAAAC
62619022 TTCGTGTTTTC-AAAAA-
1 TTCGTGTTTTCAAAAAAC
* *
62619038 TTCCGGTGATTTTAAAAAAAAAA
1 TT-C-GTG-TTTT--CAAAAAAC
*
62619061 TTCGTGTTTTCTAAAAAAAAA
1 TTCGTGTTTTC---AAAAAAC
**
62619082 TTCGTG-TTTCAAAAATT
1 TTCGTGTTTTCAAAAAAC
*
62619099 TTCATGTTTTCAAAAAA
1 TTCGTGTTTTCAAAAAA
62619116 TTCCCGTGTT
Statistics
Matches: 294, Mismatches: 47, Indels: 86
0.69 0.11 0.20
Matches are distributed among these distances:
15 3 0.01
16 22 0.07
17 85 0.29
18 89 0.30
19 26 0.09
20 16 0.05
21 16 0.05
22 25 0.09
23 12 0.04
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.42
Consensus pattern (18 bp):
TTCGTGTTTTCAAAAAAC
Found at i:62618839 original size:22 final size:23
Alignment explanation
Indices: 62618797--62618840 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
62618787 CGGTGTTTCC
*
62618797 AAAATTTTCATGTTTTCAAAATA
1 AAAATTCTCATGTTTTCAAAATA
*
62618820 AAAATTCTCGTGTTTT-AAAAT
1 AAAATTCTCATGTTTTCAAAAT
62618841 TTTTGCGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.43
Consensus pattern (23 bp):
AAAATTCTCATGTTTTCAAAATA
Found at i:62618868 original size:128 final size:129
Alignment explanation
Indices: 62618702--62618967 Score: 312
Period size: 128 Copynumber: 2.1 Consensus size: 129
62618692 AAAAAATTAT
** *
62618702 TTTTCAAAATTTTTCGTGTTTTTAAAAAATTCTCGTGTTTTCAAAAA-CCTTCGTGTTTTAAAAA
1 TTTTCAAAATTTTTCGTGTTTAAAAAAAAATCTCGTGTTTTCAAAAATCC-TCGTGTTTTAAAAA
* * * *
62618766 A-TCTTCGTGTTTTCAA-GATTTCGGTGTTTCCAAAATTTTCATGTTTTCAAAATAAAAATTCTC
65 ATTC-TCGTG-TTTCAATAATTACGGTGTTTCAAAAATTTCCATGTTTTCAAAA-AAAAATTCTC
62618829 GTG
127 GTG
*
62618832 TTTT-AAAATTTTTGCGT-TTTAAAAAAAAAT-TCGTGTTTTCAAAAATCCTCGTGTTTTTAAAA
1 TTTTCAAAATTTTT-CGTGTTTAAAAAAAAATCTCGTGTTTTCAAAAATCCTCGTGTTTTAAAAA
* * * *
62618894 ATTCTGGTGTTTCAATAATTACTGTGTTTTAAAAATTTCCGTGTTTTCAAAAAAAAA-TCTTCGT
65 ATTCTCGTGTTTCAATAATTACGGTGTTTCAAAAATTTCCATGTTTTCAAAAAAAAATTC-TCGT
*
62618958 A
129 G
62618959 TTTTCAAAA
1 TTTTCAAAA
62618968 AAAATTGTGT
Statistics
Matches: 117, Mismatches: 13, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
126 2 0.02
127 19 0.16
128 66 0.56
129 23 0.20
130 7 0.06
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.45
Consensus pattern (129 bp):
TTTTCAAAATTTTTCGTGTTTAAAAAAAAATCTCGTGTTTTCAAAAATCCTCGTGTTTTAAAAAA
TTCTCGTGTTTCAATAATTACGGTGTTTCAAAAATTTCCATGTTTTCAAAAAAAAATTCTCGTG
Found at i:62618972 original size:21 final size:22
Alignment explanation
Indices: 62618924--62618971 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
62618914 ACTGTGTTTT
*
62618924 AAAAATTTCCGTGTTTTCAAAA
1 AAAAATTTCCGTATTTTCAAAA
62618946 AAAAATCTT-CGTATTTTCAAAA
1 AAAAAT-TTCCGTATTTTCAAAA
62618968 AAAA
1 AAAA
62618972 TTGTGTTTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 22 0.92
23 2 0.08
ACGTcount: A:0.48, C:0.12, G:0.06, T:0.33
Consensus pattern (22 bp):
AAAAATTTCCGTATTTTCAAAA
Found at i:62618985 original size:128 final size:128
Alignment explanation
Indices: 62618719--62619055 Score: 291
Period size: 128 Copynumber: 2.6 Consensus size: 128
62618709 AATTTTTCGT
* * *
62618719 GTTTTTAAAAAATTCTCGTGTTTTCAAAAA-CCTTCGTGTTTTAAAAAATCTTCGTGTTTTCAAG
1 GTTTTAAAAAAAAT-TCGTGTTTTCAAAAATCCTTCGTGTTTTAAAAAATCTTCGTGTTTTCAAA
* * * * ***
62618783 ATTTCGGTGTTTCCAAAATTTTCATGTTTTCAAAATAAAAATTCTCGTGTTTTAAAATTTTTGC
65 ATTACGGTGTTTCAAAAATTTCCATGTTTTCAAAATAAAAATTCTCGTATTTTAAAAAAATTGC
* *
62618847 GTTTTAAAAAAAAATTCGTGTTTTCAAAAATCC-TCGTGTTTTTAAAAAT-TCTGGTG-TTTCAA
1 GTTTT-AAAAAAAATTCGTGTTTTCAAAAATCCTTCGTGTTTTAAAAAATCT-TCGTGTTTTCAA
* * *
62618909 TAATTACTGTGTTTTAAAAATTTCCGTGTTTTCAAAA-AAAAA-TCTTCGTATTTTCAAAAAAAA
64 -AATTACGGTGTTTCAAAAATTTCCATGTTTTCAAAATAAAAATTC-TCGTATTTT--AAAAAAA
*
62618972 TTGT
125 TTGC
* *** * *
62618976 G-TTTCAAAAATCCTCGTGTTTTCAAAAAT--TTCG-GTGTTTCAAAGAT-TTCGTGTTTTCAAA
1 GTTTTAAAAAAAATTCGTGTTTTCAAAAATCCTTCGTGT-TTTAAAAAATCTTCGTGTTTTC-AA
* *
62619036 AATTCCGGTGATTTTAAAAA
64 AATTACGGTG-TTTCAAAAA
62619056 AAAAATTCGT
Statistics
Matches: 172, Mismatches: 25, Indels: 25
0.77 0.11 0.11
Matches are distributed among these distances:
125 6 0.03
126 26 0.15
127 52 0.30
128 71 0.41
129 17 0.10
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (128 bp):
GTTTTAAAAAAAATTCGTGTTTTCAAAAATCCTTCGTGTTTTAAAAAATCTTCGTGTTTTCAAAA
TTACGGTGTTTCAAAAATTTCCATGTTTTCAAAATAAAAATTCTCGTATTTTAAAAAAATTGC
Found at i:62619005 original size:109 final size:106
Alignment explanation
Indices: 62618848--62619187 Score: 368
Period size: 109 Copynumber: 3.1 Consensus size: 106
62618838 AATTTTTGCG
* *
62618848 TTTTAAAAAAAAATTCGTGTTTTCAAAAATCCTCGTGTTTTTAAAAATTCTGGTGTTTCAATAAT
1 TTTTCAAAAAAAATTCGTG-TTTCAAAAATCCTCGTGTTTTCAAAAATTCTGGTGTTTCAA-AAT
*
62618913 TACTGTGTTTTAAAAATTTCCGTGTTTTCAAAAAAAAATCTTCGT
64 TTC-GTGTTTTAAAAATTTCCGTGTTTT-AAAAAAAAATCTTCGT
62618958 ATTTTCAAAAAAAATT-GTGTTTCAAAAATCCTCGTGTTTTCAAAAATT-TCGGTGTTTCAAAGA
1 -TTTTCAAAAAAAATTCGTGTTTCAAAAATCCTCGTGTTTTCAAAAATTCT-GGTGTTTCAAA-A
*
62619021 TTTCGTGTTTTCAAAAA-TTCCGGTGATTTTAAAAAAAAA-ATTCGT
63 TTTCGTGTTTT-AAAAATTTCC-GTG-TTTTAAAAAAAAATCTTCGT
** * **
62619066 GTTTTCTAAAAAAAAATTCGTGTTTCAAAAATTTTCATGTTTTCAAAAAATTCCCGTGTTTCACA
1 -TTTTC--AAAAAAAATTCGTGTTTCAAAAATCCTCGTGTTTTC-AAAAATTCTGGTGTTTCA-A
** *
62619131 AATGTTCGTGTTTT-AAAATTTTTGTGTTTTGAAAAAAAAT-TCTCGT
61 AAT-TTCGTGTTTTAAAAATTTCCGTGTTTTAAAAAAAAATCT-TCGT
*
62619177 GTTTCAAAAAA
1 TTTTCAAAAAA
62619188 TGTTGTGTTG
Statistics
Matches: 200, Mismatches: 14, Indels: 33
0.81 0.06 0.13
Matches are distributed among these distances:
108 29 0.14
109 59 0.29
110 34 0.17
111 47 0.23
112 19 0.09
113 12 0.06
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (106 bp):
TTTTCAAAAAAAATTCGTGTTTCAAAAATCCTCGTGTTTTCAAAAATTCTGGTGTTTCAAAATTT
CGTGTTTTAAAAATTTCCGTGTTTTAAAAAAAAATCTTCGT
Found at i:62619038 original size:34 final size:35
Alignment explanation
Indices: 62618702--62619148 Score: 193
Period size: 35 Copynumber: 12.3 Consensus size: 35
62618692 AAAAAATTAT
* * *
62618702 TTTTCAAAATTTTTCGTGTTTTTAAAAAAT-TCTCGTG
1 TTTTCAAAA-ATTTCG-GTGTTTCAAAAATCT-TCGTG
* *
62618739 TTTTCAAAAACCTTC-GTGTTTTAAAAAATCTTCGTG
1 TTTTCAAAAA-TTTCGGTG-TTTCAAAAATCTTCGTG
* * * *
62618775 TTTTC-AAGATTTCGGTGTTTCCAAAATTTTCATG
1 TTTTCAAAAATTTCGGTGTTTCAAAAATCTTCGTG
* * *
62618809 TTTTCAAAATAAAAATTCTC-GTGTTTTAAAATTTTTGCGT-
1 TTTTC-----AAAAATT-TCGGTGTTTCAAAAATCTT-CGTG
** * *
62618849 TTTAAAAAAAAATTC-GTGTTTTCAAAAATCCTCGTG
1 TTT-TCAAAAATTTCGGTG-TTTCAAAAATCTTCGTG
* * *
62618885 TTTTTAAAAA-TTCTGGTGTTTCAATAAT-TACTGTG
1 TTTTCAAAAATTTC-GGTGTTTCAAAAATCTTC-GTG
* *
62618920 TTTT-AAAAATTTCCGTGTTTTCAAAAAAAAATCTTCGTA
1 TTTTCAAAAATTTCGGTG-TTTC----AAAAATCTTCGTG
* *
62618959 TTTTCAAAAAAAATT--GTGTTTCAAAAATCCTCGTG
1 TTTTC--AAAAATTTCGGTGTTTCAAAAATCTTCGTG
*
62618994 TTTTCAAAAATTTCGGTGTTTCAAAGAT-TTCGTG
1 TTTTCAAAAATTTCGGTGTTTCAAAAATCTTCGTG
* * **
62619028 TTTTCAAAAATTCCGGTGATTTTAAAAAAAAAATTCGTG
1 TTTTCAAAAATTTCGGTG--TTT--CAAAAATCTTCGTG
* * *
62619067 TTTTCTAAAAAAAAATTC-GTGTTTCAAAAATTTTCATG
1 TTTTC----AAAAATTTCGGTGTTTCAAAAATCTTCGTG
* * * *
62619105 TTTTCAAAAAATTCCCGTGTTTCACAAATGTTCGTG
1 TTTTC-AAAAATTTCGGTGTTTCAAAAATCTTCGTG
62619141 TTTT-AAAA
1 TTTTCAAAA
62619149 TTTTTGTGTT
Statistics
Matches: 319, Mismatches: 51, Indels: 83
0.70 0.11 0.18
Matches are distributed among these distances:
33 7 0.02
34 59 0.18
35 80 0.25
36 65 0.20
37 13 0.04
38 19 0.06
39 26 0.08
40 29 0.09
41 4 0.01
42 10 0.03
43 7 0.02
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.43
Consensus pattern (35 bp):
TTTTCAAAAATTTCGGTGTTTCAAAAATCTTCGTG
Found at i:62619070 original size:20 final size:20
Alignment explanation
Indices: 62619033--62619096 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 20
62619023 TCGTGTTTTC
62619033 AAAAATTCCGGTGATTTTAAAAA
1 AAAAATT-C-GTG-TTTTAAAAA
*
62619056 AAAAATTCGTGTTTTCTAAAA
1 AAAAATTCGTGTTTT-AAAAA
*
62619077 AAAAATTCGTGTTTCAAAAA
1 AAAAATTCGTGTTTTAAAAA
62619097 TTTTCATGTT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
20 8 0.22
21 21 0.57
22 1 0.03
23 7 0.19
ACGTcount: A:0.47, C:0.09, G:0.11, T:0.33
Consensus pattern (20 bp):
AAAAATTCGTGTTTTAAAAA
Found at i:62619233 original size:37 final size:36
Alignment explanation
Indices: 62619130--62619233 Score: 104
Period size: 37 Copynumber: 2.8 Consensus size: 36
62619120 CGTGTTTCAC
*
62619130 AAATGTTCGTGTTT-TAAAATTTTTGTGTTTTGAAAAA
1 AAAT-TTCGTGTTTCTAAAA-TTTTGTGTTGTGAAAAA
* *
62619167 AAATTCTCGTGTTTCAAAAAATGTTGTGTTGT-AAAAA
1 AAATT-TCGTGTTTC-TAAAATTTTGTGTTGTGAAAAA
*
62619204 AGAATTTCGTGTTTCTAAAGTTTTCGTGTT
1 A-AATTTCGTGTTTCTAAAATTTT-GTGTT
62619234 TCAAAAATTT
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
36 7 0.12
37 32 0.57
38 13 0.23
39 4 0.07
ACGTcount: A:0.31, C:0.07, G:0.17, T:0.45
Consensus pattern (36 bp):
AAATTTCGTGTTTCTAAAATTTTGTGTTGTGAAAAA
Found at i:62619244 original size:17 final size:17
Alignment explanation
Indices: 62618703--62619244 Score: 132
Period size: 17 Copynumber: 29.8 Consensus size: 17
62618693 AAAAATTATT
*
62618703 TTTCAAAATTTTTCGTG
1 TTTCAAAAATTTTCGTG
* *
62618720 TTTTTAAAAAATTCTCGTG
1 --TTTCAAAAATTTTCGTG
**
62618739 TTTTCAAAAACCTTCGTG
1 -TTTCAAAAATTTTCGTG
* *
62618757 TTTTAAAAAATCTTCGTG
1 -TTTCAAAAATTTTCGTG
*
62618775 TTTTC-AAGA-TTTCGGTG
1 -TTTCAAAAATTTTC-GTG
* *
62618792 TTTCCAAAATTTTCATG
1 TTTCAAAAATTTTCGTG
*
62618809 TTTTCAAAATAAAAATTCTCGTG
1 -TTTC-----AAAAATTTTCGTG
* *
62618832 TTTTAAAATTTTTGCGT-
1 TTTCAAAAATTTT-CGTG
* **
62618849 TTTAAAAAAAAATTCGTG
1 TTT-CAAAAATTTTCGTG
**
62618867 TTTTCAAAAATCCTCGTG
1 -TTTCAAAAATTTTCGTG
* * *
62618885 TTTTTAAAAATTCTGGTG
1 -TTTCAAAAATTTTCGTG
* *
62618903 TTTCAATAA-TTACTGTG
1 TTTCAAAAATTTTC-GTG
* *
62618920 TTTTAAAAATTTCCGTG
1 TTTCAAAAATTTTCGTG
* *
62618937 TTTTCAAAAAAAAATCTTCGTAT
1 -TTTC----AAAAATTTTCGT-G
**
62618960 TTTCAAAAAAAATT-GTG
1 TTTC-AAAAATTTTCGTG
**
62618977 TTTCAAAAATCCTCGTG
1 TTTCAAAAATTTTCGTG
62618994 TTTTCAAAAA-TTTCGGTG
1 -TTTCAAAAATTTTC-GTG
*
62619012 TTTCAAAGA-TTTCGTG
1 TTTCAAAAATTTTCGTG
*
62619028 TTTTCAAAAA-TTCCGGTG
1 -TTTCAAAAATTTTC-GTG
* **
62619046 ATTTTAAAAAAAAAATTCGTG
1 --TTT--CAAAAATTTTCGTG
**
62619067 TTTTCTAAAAAAAAATTCGTG
1 -TTTC---AAAAATTTTCGTG
*
62619088 TTTCAAAAATTTTCATG
1 TTTCAAAAATTTTCGTG
**
62619105 TTTTCAAAAAATTCCCGTG
1 -TTTC-AAAAATTTTCGTG
* *
62619124 TTTCACAAATGTTCGTG
1 TTTCAAAAATTTTCGTG
* *
62619141 TTT-TAAAATTTTTGTG
1 TTTCAAAAATTTTCGTG
* *
62619157 TTTTGAAAAAAAATTCTCGTG
1 -TTT---CAAAAATTTTCGTG
*
62619178 TTTCAAAAAATGTT-GTG
1 TTTC-AAAAATTTTCGTG
* *
62619195 TTGTAAAAAAGAATTTCGTG
1 TT-T-CAAAA-ATTTTCGTG
* *
62619215 TTTCTAAAGTTTTCGTG
1 TTTCAAAAATTTTCGTG
62619232 TTTCAAAAATTTT
1 TTTCAAAAATTTT
62619245 GTTTTTTTTT
Statistics
Matches: 391, Mismatches: 87, Indels: 92
0.69 0.15 0.16
Matches are distributed among these distances:
16 26 0.07
17 124 0.32
18 122 0.31
19 43 0.11
20 16 0.04
21 31 0.08
22 19 0.05
23 10 0.03
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (17 bp):
TTTCAAAAATTTTCGTG
Found at i:62622110 original size:21 final size:20
Alignment explanation
Indices: 62622054--62622110 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 20
62622044 CTTTAAACCT
*
62622054 TTTGGGTTCATGATTTAAGA
1 TTTGGGTTCAAGATTTAAGA
* * *
62622074 TTTGAGTTTTAGGATTTAAGA
1 TTTG-GGTTCAAGATTTAAGA
62622095 TTTGGGATTCAAGATT
1 TTTGGG-TTCAAGATT
62622111 CAAAGCAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
20 5 0.17
21 24 0.83
ACGTcount: A:0.26, C:0.04, G:0.25, T:0.46
Consensus pattern (20 bp):
TTTGGGTTCAAGATTTAAGA
Found at i:62623464 original size:30 final size:30
Alignment explanation
Indices: 62623397--62623529 Score: 103
Period size: 30 Copynumber: 4.4 Consensus size: 30
62623387 AACAAAAAAA
* *
62623397 TATAAATTACATTTT-AGCCCATGATCTTTTC
1 TATAAATTACATTTTGACCCCA--AACTTTTC
* *
62623428 -AAAAATTATATTTTGACCCCAAACTTTTC
1 TATAAATTACATTTTGACCCCAAACTTTTC
* *
62623457 TATAAATTACATTTTAACCCTGAAA-TTTTC
1 TATAAATTACATTTTGACCC-CAAACTTTTC
* * *
62623487 TTTAAATTACACTTTGACCCCTTAAC-TTTC
1 TATAAATTACATTTTGACCCC-AAACTTTTC
* *
62623517 CAGAAATTACATT
1 TATAAATTACATT
62623530 ATAGCCCTAT
Statistics
Matches: 80, Mismatches: 17, Indels: 11
0.74 0.16 0.10
Matches are distributed among these distances:
29 7 0.09
30 65 0.81
31 8 0.10
ACGTcount: A:0.34, C:0.20, G:0.05, T:0.41
Consensus pattern (30 bp):
TATAAATTACATTTTGACCCCAAACTTTTC
Found at i:62623494 original size:60 final size:60
Alignment explanation
Indices: 62623397--62623577 Score: 172
Period size: 60 Copynumber: 3.0 Consensus size: 60
62623387 AACAAAAAAA
* *
62623397 TATAAATTACATTTTAGCCCATGATCTTTTCAAAAATTATATTTTGACCCC-AAACTTTTC
1 TATAAATTACATTTTAGCCC-TGATATTTTCTAAAATTATATTTTGACCCCAAAACTTTTC
* * * * * **
62623457 TATAAATTACATTTTAACCCTGAAATTTTCTTTAAATTACACTTTGACCCCTTAAC-TTTC
1 TATAAATTACATTTTAGCCCTGATATTTTC-TAAAATTATATTTTGACCCCAAAACTTTTC
* * * *
62623517 CAGAAATTACATTATAGCCCT-ATATTTTCCTAAAATT-TCATTTTTACCCCAGAAACTTTTC
1 TATAAATTACATTTTAGCCCTGATATTTT-CTAAAATTAT-ATTTTGACCCCA-AAACTTTTC
62623578 ACCCGTTACA
Statistics
Matches: 96, Mismatches: 19, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
59 29 0.30
60 60 0.62
61 7 0.07
ACGTcount: A:0.33, C:0.22, G:0.04, T:0.41
Consensus pattern (60 bp):
TATAAATTACATTTTAGCCCTGATATTTTCTAAAATTATATTTTGACCCCAAAACTTTTC
Found at i:62624095 original size:4 final size:4
Alignment explanation
Indices: 62624088--62624143 Score: 73
Period size: 4 Copynumber: 14.5 Consensus size: 4
62624078 ACGGAGAAGG
*
62624088 AAGA AAGA AAGA AAGA AA-A AAGA AAG- AAGA AAAA AAGA AAGA AA-A
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA
62624133 AAGGA AAGA AA
1 AA-GA AAGA AA
62624144 AAAAATAAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
3 9 0.20
4 34 0.74
5 3 0.07
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:62624109 original size:15 final size:14
Alignment explanation
Indices: 62624091--62624148 Score: 75
Period size: 15 Copynumber: 4.1 Consensus size: 14
62624081 GAGAAGGAAG
62624091 AAAGAAAGAAAGAAA
1 AAAGAAAGAAA-AAA
62624106 AAAGAAAGAAGAAAA
1 AAAGAAAGAA-AAAA
62624121 AAAGAAAG--AAAA
1 AAAGAAAGAAAAAA
*
62624133 AAGGAAAGAAAAAA
1 AAAGAAAGAAAAAA
62624147 AA
1 AA
62624149 TAAAAAAATA
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
12 11 0.28
14 6 0.15
15 21 0.54
16 1 0.03
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (14 bp):
AAAGAAAGAAAAAA
Found at i:62624144 original size:12 final size:12
Alignment explanation
Indices: 62624084--62624146 Score: 67
Period size: 12 Copynumber: 5.2 Consensus size: 12
62624074 CTGAACGGAG
62624084 AAGG-AAGAAAGA
1 AAGGAAAGAAA-A
62624096 AA-GAAAGAAAA
1 AAGGAAAGAAAA
*
62624107 AAGAAAGAAGAAAA
1 AAG-GA-AAGAAAA
*
62624121 AAAGAAAGAAAA
1 AAGGAAAGAAAA
62624133 AAGGAAAGAAAA
1 AAGGAAAGAAAA
62624145 AA
1 AA
62624147 AATAAAAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
11 4 0.09
12 28 0.65
13 2 0.05
14 9 0.21
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (12 bp):
AAGGAAAGAAAA
Found at i:62624146 original size:26 final size:26
Alignment explanation
Indices: 62624082--62624148 Score: 100
Period size: 26 Copynumber: 2.6 Consensus size: 26
62624072 TGCTGAACGG
* *
62624082 AGAAGGAAGAAAGAAAGAAAGAAAAA
1 AGAAAGAAGAAAAAAAGAAAGAAAAA
62624108 AGAAAGAAGAAAAAAAGAAAGAAAAA
1 AGAAAGAAGAAAAAAAGAAAGAAAAA
62624134 AGGAAAGAA-AAAAAA
1 A-GAAAGAAGAAAAAA
62624149 TAAAAAAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
26 31 0.82
27 7 0.18
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (26 bp):
AGAAAGAAGAAAAAAAGAAAGAAAAA
Found at i:62624516 original size:20 final size:21
Alignment explanation
Indices: 62624476--62624519 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
62624466 CATCCAGCAG
62624476 AAAAAAAAAGGAAAGAGAAGA
1 AAAAAAAAAGGAAAGAGAAGA
62624497 AAAAAAAAAGGGAAA-A-AAGA
1 AAAAAAAAA-GGAAAGAGAAGA
62624517 AAA
1 AAA
62624520 GGGCCCATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.32
21 10 0.45
22 5 0.23
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (21 bp):
AAAAAAAAAGGAAAGAGAAGA
Found at i:62624846 original size:20 final size:21
Alignment explanation
Indices: 62624812--62624851 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
62624802 AAAATGTTCG
*
62624812 AAATTCCTCGTGTTTAAATAA
1 AAATTCCTCGCGTTTAAATAA
*
62624833 AAATT-CTCGCGTTTTAATA
1 AAATTCCTCGCGTTTAAATA
62624852 GAATCCCGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (21 bp):
AAATTCCTCGCGTTTAAATAA
Found at i:62627595 original size:25 final size:26
Alignment explanation
Indices: 62627567--62627625 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 26
62627557 TAAAATAATT
*
62627567 ATATAAAAAATTTTAATAA-ATAAAA
1 ATATAAAAAATTTAAATAATATAAAA
*
62627592 ATAT--TAAA-TTAAATAATATAAAA
1 ATATAAAAAATTTAAATAATATAAAA
*
62627615 ATGTAAAAAAT
1 ATATAAAAAAT
62627626 AATATGGGGC
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
22 7 0.27
23 12 0.46
25 7 0.27
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (26 bp):
ATATAAAAAATTTAAATAATATAAAA
Found at i:62633693 original size:22 final size:20
Alignment explanation
Indices: 62633641--62633695 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 20
62633631 AACTTAATCC
*
62633641 ATATAATATGAA-TTTATGT
1 ATATAATATAAATTTTATGT
*
62633660 ATATATTA-AAATTTTATGT
1 ATATAATATAAATTTTATGT
62633679 AATATAAATATAAATTT
1 -ATAT-AATATAAATTT
62633696 AATTAAATTC
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 2 0.07
19 14 0.48
20 4 0.14
21 3 0.10
22 6 0.21
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (20 bp):
ATATAATATAAATTTTATGT
Found at i:62634372 original size:14 final size:14
Alignment explanation
Indices: 62634364--62634393 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
62634354 AGATTTGAGT
62634364 TTTAGGATTCAAGA
1 TTTAGGATTCAAGA
*
62634378 TTTAGGATTCAGGA
1 TTTAGGATTCAAGA
62634392 TT
1 TT
62634394 CAAAGCAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.40
Consensus pattern (14 bp):
TTTAGGATTCAAGA
Found at i:62636497 original size:14 final size:14
Alignment explanation
Indices: 62636487--62636518 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
62636477 AAAATAAAGT
62636487 AAAAAAGATAAAAC
1 AAAAAAGATAAAAC
62636501 AAAAAAG-TAAAA-
1 AAAAAAGATAAAAC
62636513 AAAAAA
1 AAAAAA
62636519 TTGAAAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.33
13 5 0.28
14 7 0.39
ACGTcount: A:0.84, C:0.03, G:0.06, T:0.06
Consensus pattern (14 bp):
AAAAAAGATAAAAC
Found at i:62640774 original size:21 final size:20
Alignment explanation
Indices: 62640735--62640773 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
62640725 TAAAAATCCC
*
62640735 AAAAATTATAATTTATTTTA
1 AAAAATTACAATTTATTTTA
62640755 AAAAATTACAATTTATTTT
1 AAAAATTACAATTTATTTT
62640774 TTTTAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
AAAAATTACAATTTATTTTA
Found at i:62640849 original size:19 final size:20
Alignment explanation
Indices: 62640803--62640839 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
62640793 TGTTTGTTTG
62640803 GAATTTTATAGAAAATTTTA
1 GAATTTTATAGAAAATTTTA
62640823 GAATTTTATA-AAAATTT
1 GAATTTTATAGAAAATTT
62640840 ATGAGTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (20 bp):
GAATTTTATAGAAAATTTTA
Done.