Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 267 of 276
Found at i:88464975 original size:27 final size:27
Alignment explanation
Indices: 88464803--88464985 Score: 249
Period size: 27 Copynumber: 6.8 Consensus size: 27
88464793 CTTACCATAA
*
88464803 AAGGGCAAAACAGTCATTTTACCACAT
1 AAGGGCAAAACAGTCATTTTACCCCAT
* *
88464830 AAGGGCAAAGCAGTCATTTTACTCCAT
1 AAGGGCAAAACAGTCATTTTACCCCAT
* *
88464857 AAGGGAAAAACAGTCATTTTACCTCAT
1 AAGGGCAAAACAGTCATTTTACCCCAT
** **
88464884 AAGGGCAAAGTAGTCATTTTACTTCAT
1 AAGGGCAAAACAGTCATTTTACCCCAT
* *
88464911 AAGGGCAAAAGAGTCATTTTACCCTAT
1 AAGGGCAAAACAGTCATTTTACCCCAT
*
88464938 AAGGGCAAAATAGTCATTTTACCCCAT
1 AAGGGCAAAACAGTCATTTTACCCCAT
*
88464965 AAGGGCAAAATAGTCATTTTA
1 AAGGGCAAAACAGTCATTTTA
88464986 TCGATTAAGG
Statistics
Matches: 138, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 138 1.00
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.27
Consensus pattern (27 bp):
AAGGGCAAAACAGTCATTTTACCCCAT
Found at i:88465205 original size:14 final size:14
Alignment explanation
Indices: 88465186--88465212 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
88465176 TTTACCCGTG
88465186 TGGGGCCCACAAGT
1 TGGGGCCCACAAGT
88465200 TGGGGCCCACAAG
1 TGGGGCCCACAAG
88465213 GCTCATGTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.30, G:0.37, T:0.11
Consensus pattern (14 bp):
TGGGGCCCACAAGT
Found at i:88467397 original size:43 final size:42
Alignment explanation
Indices: 88467256--88467414 Score: 196
Period size: 42 Copynumber: 3.8 Consensus size: 42
88467246 TTAGGGTTAC
88467256 TGAGA-TTACATGTAAGACCATATCTGGGATATGGCATCGATA
1 TGAGACTT-CATGTAAGACCATATCTGGGATATGGCATCGATA
* *
88467298 TGAGACTTCATGTAAGACCATATTTAGGATATGGCATCGATA
1 TGAGACTTCATGTAAGACCATATCTGGGATATGGCATCGATA
* * * *
88467340 TGGGACTTCGTGTAAGACCATAACTGGGTTATTGGCATCGATA
1 TGAGACTTCATGTAAGACCATATCTGGGATA-TGGCATCGATA
* * *
88467383 CGATA-TTACATGTAAGACCATATTTGGGATAT
1 TGAGACTT-CATGTAAGACCATATCTGGGATAT
88467415 AACATTGGAA
Statistics
Matches: 99, Mismatches: 15, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
42 65 0.66
43 34 0.34
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.31
Consensus pattern (42 bp):
TGAGACTTCATGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:88468611 original size:126 final size:126
Alignment explanation
Indices: 88468442--88468708 Score: 534
Period size: 126 Copynumber: 2.1 Consensus size: 126
88468432 GTTAGAAATG
88468442 TGATTTATGGCATGAATGTGAAATGTTTAGTAATGTGGTCTATTGATGAGATGATAAATTTGTGT
1 TGATTTATGGCATGAATGTGAAATGTTTAGTAATGTGGTCTATTGATGAGATGATAAATTTGTGT
88468507 GTTCAATATGGTAACTAGAGAGTAGTTAAATGAAGCCTAATGAAGGTGAAATTGACATGAA
66 GTTCAATATGGTAACTAGAGAGTAGTTAAATGAAGCCTAATGAAGGTGAAATTGACATGAA
88468568 TGATTTATGGCATGAATGTGAAATGTTTAGTAATGTGGTCTATTGATGAGATGATAAATTTGTGT
1 TGATTTATGGCATGAATGTGAAATGTTTAGTAATGTGGTCTATTGATGAGATGATAAATTTGTGT
88468633 GTTCAATATGGTAACTAGAGAGTAGTTAAATGAAGCCTAATGAAGGTGAAATTGACATGAA
66 GTTCAATATGGTAACTAGAGAGTAGTTAAATGAAGCCTAATGAAGGTGAAATTGACATGAA
88468694 TGATTTATGGCATGA
1 TGATTTATGGCATGA
88468709 TAAATGTTGT
Statistics
Matches: 141, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
126 141 1.00
ACGTcount: A:0.34, C:0.06, G:0.25, T:0.34
Consensus pattern (126 bp):
TGATTTATGGCATGAATGTGAAATGTTTAGTAATGTGGTCTATTGATGAGATGATAAATTTGTGT
GTTCAATATGGTAACTAGAGAGTAGTTAAATGAAGCCTAATGAAGGTGAAATTGACATGAA
Found at i:88472809 original size:6 final size:6
Alignment explanation
Indices: 88472786--88472810 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
88472776 ATTTCCCATT
88472786 TTTATC TTTATC TTTATC TTTATC T
1 TTTATC TTTATC TTTATC TTTATC T
88472811 CTGCCTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTATC
Found at i:88472965 original size:32 final size:32
Alignment explanation
Indices: 88472929--88473024 Score: 192
Period size: 32 Copynumber: 3.0 Consensus size: 32
88472919 GACAGTTTGG
88472929 GATTAAGGCATGGACAACAAAGAGTAGAAACT
1 GATTAAGGCATGGACAACAAAGAGTAGAAACT
88472961 GATTAAGGCATGGACAACAAAGAGTAGAAACT
1 GATTAAGGCATGGACAACAAAGAGTAGAAACT
88472993 GATTAAGGCATGGACAACAAAGAGTAGAAACT
1 GATTAAGGCATGGACAACAAAGAGTAGAAACT
88473025 TACCCCATTA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 64 1.00
ACGTcount: A:0.47, C:0.12, G:0.25, T:0.16
Consensus pattern (32 bp):
GATTAAGGCATGGACAACAAAGAGTAGAAACT
Found at i:88476876 original size:17 final size:18
Alignment explanation
Indices: 88476842--88476877 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
88476832 TGAAAAAGGG
*
88476842 TTAAGTCCCAATTGAATA
1 TTAAATCCCAATTGAATA
88476860 TTAAATCCCAA-TGAATA
1 TTAAATCCCAATTGAATA
88476877 T
1 T
88476878 ATGTGTTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.33
Consensus pattern (18 bp):
TTAAATCCCAATTGAATA
Found at i:88478604 original size:21 final size:22
Alignment explanation
Indices: 88478551--88478604 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
88478541 TGTAGGGCTC
*
88478551 ACACGCCCGTGTTGTCCTAGGG
1 ACACGCCCGTGTTGCCCTAGGG
* *
88478573 ACATGCTCGTG-TGACCCT-GGG
1 ACACGCCCGTGTTG-CCCTAGGG
88478594 ACACGCCCGTG
1 ACACGCCCGTG
88478605 CTACAGGCCA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 14 0.54
22 12 0.46
ACGTcount: A:0.15, C:0.33, G:0.31, T:0.20
Consensus pattern (22 bp):
ACACGCCCGTGTTGCCCTAGGG
Found at i:88492807 original size:28 final size:28
Alignment explanation
Indices: 88492776--88492842 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
88492766 ACTCAATGTT
*
88492776 TCGCACACTAAGTGCCATACTCAATAAC
1 TCGCACACTAAGTGCCACACTCAATAAC
** *
88492804 TCGCACACTAAGTGCCACACTTGATATC
1 TCGCACACTAAGTGCCACACTCAATAAC
88492832 TCGCACACTAA
1 TCGCACACTAA
88492843 TTACCGTAGG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.33, C:0.33, G:0.12, T:0.22
Consensus pattern (28 bp):
TCGCACACTAAGTGCCACACTCAATAAC
Found at i:88492914 original size:40 final size:40
Alignment explanation
Indices: 88492870--88492945 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
88492860 AGTTATCGCG
* * *
88492870 AATCGCACACTATGTGCCATATATAGCCGAAGCTATCTCA
1 AATCGCACACTAAGTGCCATATATAGACAAAGCTATCTCA
88492910 AATCGCACACTAAGTGCCATATATAGACAAAGCTAT
1 AATCGCACACTAAGTGCCATATATAGACAAAGCTAT
88492946 GTCGTACCGC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.24
Consensus pattern (40 bp):
AATCGCACACTAAGTGCCATATATAGACAAAGCTATCTCA
Found at i:88497550 original size:16 final size:16
Alignment explanation
Indices: 88497529--88497571 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
88497519 GTAGATCGGC
*
88497529 AAAAGCCAAAATACCG
1 AAAAGCTAAAATACCG
* *
88497545 AAAAGCTGAAATGCCG
1 AAAAGCTAAAATACCG
88497561 AAAAGCTAAAA
1 AAAAGCTAAAA
88497572 GTTTGGCTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.56, C:0.19, G:0.16, T:0.09
Consensus pattern (16 bp):
AAAAGCTAAAATACCG
Found at i:88497825 original size:29 final size:29
Alignment explanation
Indices: 88497782--88497901 Score: 183
Period size: 29 Copynumber: 4.2 Consensus size: 29
88497772 GAAAGCATGT
88497782 ATATGAATGAGATTTGGGCCTAATGGGCC
1 ATATGAATGAGATTTGGGCCTAATGGGCC
88497811 ATATGAATGTA-ATTTGGGCCTAATGGGCC
1 ATATGAATG-AGATTTGGGCCTAATGGGCC
*
88497840 ATACGAAT-ATGATTTGGGCCTAATGGGCC
1 ATATGAATGA-GATTTGGGCCTAATGGGCC
*
88497869 ATATGAATGAGA-TTGGGCCTAGTGGGCC
1 ATATGAATGAGATTTGGGCCTAATGGGCC
88497897 ATATG
1 ATATG
88497902 CCTGTATGTA
Statistics
Matches: 84, Mismatches: 3, Indels: 9
0.88 0.03 0.09
Matches are distributed among these distances:
27 1 0.01
28 20 0.24
29 61 0.73
30 2 0.02
ACGTcount: A:0.28, C:0.14, G:0.30, T:0.28
Consensus pattern (29 bp):
ATATGAATGAGATTTGGGCCTAATGGGCC
Found at i:88500994 original size:33 final size:34
Alignment explanation
Indices: 88500952--88501015 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
88500942 GTCTCAGTTA
*
88500952 GGGCCTTAGCCCA-TTCAGTAACAGTATCAGAGC
1 GGGCCTTAGCCCATTTCAGAAACAGTATCAGAGC
88500985 GGGCCTTAGCCCATTTCAGAAACAGTATCAG
1 GGGCCTTAGCCCATTTCAGAAACAGTATCAG
88501016 TACAAAATGC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 13 0.45
34 16 0.55
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.22
Consensus pattern (34 bp):
GGGCCTTAGCCCATTTCAGAAACAGTATCAGAGC
Found at i:88505438 original size:28 final size:29
Alignment explanation
Indices: 88505358--88505442 Score: 145
Period size: 29 Copynumber: 3.0 Consensus size: 29
88505348 GAGCATAACT
*
88505358 ATAAATGTAATTTGGGCCTAATGGGCCAC
1 ATAAATGTGATTTGGGCCTAATGGGCCAC
88505387 ATAAATGTGATTTGGGCCTAATGGGCCAC
1 ATAAATGTGATTTGGGCCTAATGGGCCAC
*
88505416 ATAAATGTGA-TTGGGCTTAATGGGCCA
1 ATAAATGTGATTTGGGCCTAATGGGCCA
88505443 TATGAAAGAG
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
28 16 0.30
29 38 0.70
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.28
Consensus pattern (29 bp):
ATAAATGTGATTTGGGCCTAATGGGCCAC
Found at i:88511501 original size:61 final size:61
Alignment explanation
Indices: 88511406--88511521 Score: 205
Period size: 61 Copynumber: 1.9 Consensus size: 61
88511396 GCTATGGCGT
*
88511406 AATCACAAGACTGAGGAGGCTACTTGGGAACCTGAGAAGGCAATGCGATGTCAATGCCCTC
1 AATCACAAGACTGAGGAAGCTACTTGGGAACCTGAGAAGGCAATGCGATGTCAATGCCCTC
* *
88511467 AATCACAAGGCTGAGGAAGCTACTTGGGAACCTGAGAAGGTAATGCGATGTCAAT
1 AATCACAAGACTGAGGAAGCTACTTGGGAACCTGAGAAGGCAATGCGATGTCAAT
88511522 ATCCTCAACT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 52 1.00
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.19
Consensus pattern (61 bp):
AATCACAAGACTGAGGAAGCTACTTGGGAACCTGAGAAGGCAATGCGATGTCAATGCCCTC
Found at i:88513130 original size:28 final size:28
Alignment explanation
Indices: 88513073--88513135 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
88513063 TAAATGTAAT
* *
88513073 TTGGGCCTAATGGGCCACATAAATGTGA
1 TTGGGCCTAATGGGACACATAAATGAGA
* *
88513101 TTGGGCTTAATGGGACATATGAAA-GAGA
1 TTGGGCCTAATGGGACACAT-AAATGAGA
88513129 TTGGGCC
1 TTGGGCC
88513136 AAGTGGGCTA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
28 26 0.90
29 3 0.10
ACGTcount: A:0.29, C:0.14, G:0.32, T:0.25
Consensus pattern (28 bp):
TTGGGCCTAATGGGACACATAAATGAGA
Found at i:88516559 original size:27 final size:27
Alignment explanation
Indices: 88516529--88516706 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
88516519 ATATTGAGCC
* * * *
88516529 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* * *
88516556 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
88516583 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAGTCA-AAT
** * *
88516611 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
88516638 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
88516665 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
88516692 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
88516707 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:88516668 original size:82 final size:81
Alignment explanation
Indices: 88516550--88516705 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
88516540 TGCTATATAA
* * *
88516550 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCA-AATCGCA
88516615 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
88516632 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
88516696 CACTTAGTGC
65 CACTTAGTGC
88516706 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 18 0.27
82 48 0.73
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:88521405 original size:28 final size:28
Alignment explanation
Indices: 88521365--88521456 Score: 132
Period size: 28 Copynumber: 3.3 Consensus size: 28
88521355 TGGAAAGTAG
88521365 TTGGGCCTGATAGGCCATATGAATGTGA
1 TTGGGCCTGATAGGCCATATGAATGTGA
*
88521393 TTGGGCCTGATAGGCCATATGAATGTGG
1 TTGGGCCTGATAGGCCATATGAATGTGA
* * *
88521421 TTGGGCCTGATGGGCCATGTGAACGAT-A
1 TTGGGCCTGATAGGCCATATGAATG-TGA
88521449 TTGGGCCT
1 TTGGGCCT
88521457 AAAGGGGCCA
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
28 57 0.98
29 1 0.02
ACGTcount: A:0.21, C:0.16, G:0.35, T:0.28
Consensus pattern (28 bp):
TTGGGCCTGATAGGCCATATGAATGTGA
Found at i:88521831 original size:27 final size:27
Alignment explanation
Indices: 88521773--88522111 Score: 319
Period size: 27 Copynumber: 12.7 Consensus size: 27
88521763 TACTAAAGAG
* *
88521773 AAATTACCAAAATACCCTCG-ATTGTG
1 AAATTACCGAAATACCCTCGAATTGTA
* *
88521799 AAATTACCAAAATACTCTCGAATTGTA
1 AAATTACCGAAATACCCTCGAATTGTA
* * * *
88521826 AAATTATCGAAATACCCCCGACTTGTG
1 AAATTACCGAAATACCCTCGAATTGTA
* *
88521853 AAATTACCGAAACACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGAATTGTA
*
88521880 AAATTACCGAAATA-CC-CAAATTTGTA
1 AAATTACCGAAATACCCTCGAA-TTGTA
* *
88521906 AAATTATCGAAATACCCTC-AATTGTG
1 AAATTACCGAAATACCCTCGAATTGTA
* *
88521932 AAATTACCAAAATACCCT-TAATTTGTA
1 AAATTACCGAAATACCCTCGAA-TTGTA
* * *
88521959 AAATTATCGAAATACCTTCGATTTGTA
1 AAATTACCGAAATACCCTCGAATTGTA
** * * * *
88521986 AAATTATTGAAACACCCTCGATTTATG
1 AAATTACCGAAATACCCTCGAATTGTA
* *
88522013 AAATTACCGAAACACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGAATTGTA
* *
88522040 AAATTATCGAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGAATTGTA
* * * * *
88522067 AAATTATCGAAACACCCTTGTAGTGTA
1 AAATTACCGAAATACCCTCGAATTGTA
*
88522094 AAATTACCAAAATACCCT
1 AAATTACCGAAATACCCT
88522112 TGTAGTGTAA
Statistics
Matches: 261, Mismatches: 45, Indels: 13
0.82 0.14 0.04
Matches are distributed among these distances:
25 2 0.01
26 61 0.23
27 196 0.75
28 2 0.01
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGAATTGTA
Found at i:88521873 original size:54 final size:54
Alignment explanation
Indices: 88521773--88522111 Score: 351
Period size: 54 Copynumber: 6.3 Consensus size: 54
88521763 TACTAAAGAG
* * * * *
88521773 AAATTACCAAAATACCCTCGA-TTGTGAAATTACCAAAATACTCTCGAATTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAACACCCTCGAATTGTA
* * * * *
88521826 AAATTATCGAAATACCCCCGACTTGTGAAATTACCGAAACACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAACACCCTCGAATTGTA
** * * *
88521880 AAATTACCGAAATACCC-AAATTTGTAAAATTATCGAAATACCCTC-AATTGTG
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAACACCCTCGAATTGTA
* ** * * * *
88521932 AAATTACCAAAATACCCTTAATTTGTAAAATTATCGAAATACCTTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAACACCCTCGAATTGTA
** * * * *
88521986 AAATTATTGAAACACCCTCGATTTATGAAATTACCGAAACACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAACACCCTCGAATTGTA
* * * * *
88522040 AAATTATCGAAATACCCTCGATTTGTAAAATTATCGAAACACCCTTGTAGTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAACACCCTCGAATTGTA
*
88522094 AAATTACCAAAATACCCT
1 AAATTACCGAAATACCCT
88522112 TGTAGTGTAA
Statistics
Matches: 240, Mismatches: 43, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
52 21 0.09
53 66 0.28
54 153 0.64
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (54 bp):
AAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAACACCCTCGAATTGTA
Found at i:88522017 original size:133 final size:134
Alignment explanation
Indices: 88521773--88522110 Score: 410
Period size: 133 Copynumber: 2.5 Consensus size: 134
88521763 TACTAAAGAG
* * * *
88521773 AAATTACCAAAATACCCTCGATTGTGAAATTACCAAAATACTCTCGAATTGTAAAATTATCGAAA
1 AAATTATCGAAATACCCTCAATTGTGAAATTACCAAAATACCCTCGAATTGTAAAATTATCGAAA
* * *
88521838 TACCCCCGACTTGTGAAATTACCGAAACACCCTCGATTTGTAAAATTACCGAAATACCC-AAATT
66 TACCCCCGACTTGTAAAATTACCGAAACACCCTCGATTTATAAAATTACCGAAACACCCTAAATT
88521902 TGTA
131 TGTA
*
88521906 AAATTATCGAAATACCCTCAATTGTGAAATTACCAAAATACCCT-TAATTTGTAAAATTATCGAA
1 AAATTATCGAAATACCCTCAATTGTGAAATTACCAAAATACCCTCGAA-TTGTAAAATTATCGAA
** * ** * **
88521970 ATACCTTCGATTTGTAAAATTATTGAAACACCCTCGATTTATGAAATTACCGAAACACCCTCGAT
65 ATACCCCCGACTTGTAAAATTACCGAAACACCCTCGATTTATAAAATTACCGAAACACCCTAAAT
88522035 TTGTA
130 TTGTA
* * * * * * * * * *
88522040 AAATTATCGAAATACCCTCGATTTGTAAAATTATCGAAACACCCTTGTAGTGTAAAATTACCAAA
1 AAATTATCGAAATACCCTC-AATTGTGAAATTACCAAAATACCCTCGAATTGTAAAATTATCGAA
88522105 ATACCC
65 ATACCC
88522111 TTGTAGTGTA
Statistics
Matches: 174, Mismatches: 27, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
132 2 0.01
133 107 0.61
134 26 0.15
135 38 0.22
136 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (134 bp):
AAATTATCGAAATACCCTCAATTGTGAAATTACCAAAATACCCTCGAATTGTAAAATTATCGAAA
TACCCCCGACTTGTAAAATTACCGAAACACCCTCGATTTATAAAATTACCGAAACACCCTAAATT
TGTA
Found at i:88522112 original size:27 final size:27
Alignment explanation
Indices: 88521773--88522151 Score: 143
Period size: 27 Copynumber: 14.1 Consensus size: 27
88521763 TACTAAAGAG
* * * *
88521773 AAATTACCAAAATACCCTCG-ATTGTG
1 AAATTACCGAAATACCCTTGTAGTGTA
* * * * *
88521799 AAATTACCAAAATACTCTCGAATTGTA
1 AAATTACCGAAATACCCTTGTAGTGTA
* ** * *
88521826 AAATTATCGAAATACCCCCG-ACTTGTG
1 AAATTACCGAAATACCCTTGTA-GTGTA
* * *
88521853 AAATTACCGAAACACCCTCG-ATTTGTA
1 AAATTACCGAAATACCCTTGTA-GTGTA
*** *
88521880 AAATTACCGAAATACCCAAAT-TTGTA
1 AAATTACCGAAATACCCTTGTAGTGTA
* ** * *
88521906 AAATTATCGAAATACCC-TCAATTGTG
1 AAATTACCGAAATACCCTTGTAGTGTA
* * *
88521932 AAATTACCAAAATACCCTT-AATTTGTA
1 AAATTACCGAAATACCCTTGTA-GTGTA
* *
88521959 AAATTATCGAAATA-CCTTCG-ATTTGTA
1 AAATTACCGAAATACCCTT-GTA-GTGTA
** * * *
88521986 AAATTATTGAAACACCCTCG-A-TTTA
1 AAATTACCGAAATACCCTTGTAGTGTA
* * *
88522011 TGAAATTACCGAAACACCCTCG-ATTTGTA
1 --AAATTACCGAAATACCCTTGTA-GTGTA
* * *
88522040 AAATTATCGAAATACCCTCG-ATTTGTA
1 AAATTACCGAAATACCCTTGTA-GTGTA
* *
88522067 AAATTATCGAAACACCCTTGTAGTGTA
1 AAATTACCGAAATACCCTTGTAGTGTA
*
88522094 AAATTACCAAAATACCCTTGTAGTGTA
1 AAATTACCGAAATACCCTTGTAGTGTA
* * * * *
88522121 AAATGACTGACATACCCCTGTAGGGTA
1 AAATTACCGAAATACCCTTGTAGTGTA
88522148 AAAT
1 AAAT
88522152 GATTGTTTTG
Statistics
Matches: 292, Mismatches: 47, Indels: 27
0.80 0.13 0.07
Matches are distributed among these distances:
25 3 0.01
26 66 0.23
27 216 0.74
28 4 0.01
29 3 0.01
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.29
Consensus pattern (27 bp):
AAATTACCGAAATACCCTTGTAGTGTA
Found at i:88522124 original size:81 final size:80
Alignment explanation
Indices: 88521773--88522111 Score: 405
Period size: 81 Copynumber: 4.2 Consensus size: 80
88521763 TACTAAAGAG
* * * *
88521773 AAATTACCAAAATACCCTCGA-TTGTGAAATTACCAAAATACTCTCGAATTGTAAAATTATCGAA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATCGAA
* * *
88521837 ATACCCCCGACTTGTG
66 ACACCCTCGA-TTGTA
* * **
88521853 AAATTACCGAAACACCCTCGATTTGTAAAATTACCGAAATACCC-AAATTTGTAAAATTATCGAA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATCGAA
* * *
88521917 ATACCCTCAATTGTG
66 ACACCCTCGATTGTA
** * * *
88521932 AAATTACCAAAATACCCTTAATTTGTAAAATTATCGAAATACCTTCGATTTGTAAAATTATTGAA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATCGAA
88521997 ACACCCTCGATT-TA
66 ACACCCTCGATTGTA
* * *
88522011 TGAAATTACCGAAACACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTATCG
1 --AAATTACCAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATCG
* *
88522076 AAACACCCTTGTAGTGTA
64 AAACACCCTCG-ATTGTA
88522094 AAATTACCAAAATACCCT
1 AAATTACCAAAATACCCT
88522112 TGTAGTGTAA
Statistics
Matches: 221, Mismatches: 32, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
79 44 0.20
80 71 0.32
81 102 0.46
82 2 0.01
83 2 0.01
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (80 bp):
AAATTACCAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATCGAA
ACACCCTCGATTGTA
Found at i:88528805 original size:27 final size:27
Alignment explanation
Indices: 88528774--88528951 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
88528764 TAAATTGTAC
88528774 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
88528801 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
88528827 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
88528855 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
88528883 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
88528910 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
88528937 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
88528952 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:88528888 original size:82 final size:81
Alignment explanation
Indices: 88528775--88528930 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
88528765 AAATTGTACA
* *
88528775 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
88528839 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
88528856 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
88528921 TGCGAGTTGA
65 TGCGAATTGA
88528931 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:88528942 original size:82 final size:81
Alignment explanation
Indices: 88528771--88528951 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
88528761 GATTAAATTG
* *
88528771 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
88528836 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
88528852 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
88528916 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
88528934 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
88528952 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:88536868 original size:27 final size:27
Alignment explanation
Indices: 88536837--88537014 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
88536827 TAAATTGTAC
88536837 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
88536864 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
88536890 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
88536918 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
88536946 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
88536973 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
88537000 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
88537015 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:88536951 original size:82 final size:81
Alignment explanation
Indices: 88536838--88536993 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
88536828 AAATTGTACA
* *
88536838 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
88536902 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
88536919 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
88536984 TGCGAGTTGA
65 TGCGAATTGA
88536994 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:88537005 original size:82 final size:81
Alignment explanation
Indices: 88536834--88537014 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
88536824 GATTAAATTG
* *
88536834 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
88536899 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
88536915 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
88536979 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
88536997 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
88537015 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:88542601 original size:11 final size:11
Alignment explanation
Indices: 88542587--88542622 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
88542577 TTTAAACTAC
88542587 TTTTTATTTTA
1 TTTTTATTTTA
*
88542598 TTTTTCTTTTA
1 TTTTTATTTTA
*
88542609 TTTTAATTTTA
1 TTTTTATTTTA
88542620 TTT
1 TTT
88542623 CATCCTTAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:88545664 original size:29 final size:29
Alignment explanation
Indices: 88545602--88545716 Score: 103
Period size: 29 Copynumber: 4.0 Consensus size: 29
88545592 TACCTGTATT
* * *
88545602 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
* *
88545630 TAGCCCTTTAGGCCCAAA-C-CATCTGTATA
1 TGGCCCATTAGGCCCAAATCACAT-T-TATA
88545659 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
* * * *
88545688 CGGCCCGTTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
88545716 T
1 T
88545717 TCATGCTCAC
Statistics
Matches: 70, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
27 2 0.03
28 25 0.36
29 38 0.54
30 2 0.03
31 3 0.04
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.27
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTTATA
Found at i:88545664 original size:57 final size:58
Alignment explanation
Indices: 88545595--88545703 Score: 148
Period size: 58 Copynumber: 1.9 Consensus size: 58
88545585 ATTCACATAC
* * * *
88545595 CTGTATTTGGCCCATTAAGCCC-AATCATATTCATATAGCCCTTTAGGCCCAAACCAT
1 CTGTATATGGCCCATTAAGCCCAAATCACATTCATACAGCCCGTTAGGCCCAAACCAT
* * *
88545652 CTGTATATGGCCCATTAGGCCCAAATCACATTTATACGGCCCGTTAGGCCCA
1 CTGTATATGGCCCATTAAGCCCAAATCACATTCATACAGCCCGTTAGGCCCA
88545704 GTCACATTCA
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 20 0.45
58 24 0.55
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.28
Consensus pattern (58 bp):
CTGTATATGGCCCATTAAGCCCAAATCACATTCATACAGCCCGTTAGGCCCAAACCAT
Found at i:88547140 original size:16 final size:16
Alignment explanation
Indices: 88547116--88547147 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
88547106 AAGTTCAGGA
88547116 TTTTAGGATTTTTGGG
1 TTTTAGGATTTTTGGG
*
88547132 TTTTGGGATTTTTGGG
1 TTTTAGGATTTTTGGG
88547148 GCGTTACAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.09, C:0.00, G:0.34, T:0.56
Consensus pattern (16 bp):
TTTTAGGATTTTTGGG
Found at i:88547369 original size:13 final size:13
Alignment explanation
Indices: 88547351--88547376 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
88547341 AAGCAATCGA
88547351 ACACAGGCATGTC
1 ACACAGGCATGTC
88547364 ACACAGGCATGTC
1 ACACAGGCATGTC
88547377 CCTATCGAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.31, G:0.23, T:0.15
Consensus pattern (13 bp):
ACACAGGCATGTC
Found at i:88558594 original size:11 final size:11
Alignment explanation
Indices: 88558578--88558603 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
88558568 TAAAGTTTAA
88558578 ATAATCAATAC
1 ATAATCAATAC
88558589 ATAATCAATAC
1 ATAATCAATAC
88558600 ATAA
1 ATAA
88558604 ATGCCTATGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (11 bp):
ATAATCAATAC
Found at i:88570298 original size:11 final size:11
Alignment explanation
Indices: 88570282--88570335 Score: 83
Period size: 11 Copynumber: 4.8 Consensus size: 11
88570272 TAGTTTCTTC
88570282 AAAAAAATTCAAA
1 AAAAAAATTC--A
88570295 AAAAAAATTCA
1 AAAAAAATTCA
88570306 AAAAAAATTCA
1 AAAAAAATTCA
88570317 AAAAAAATT-A
1 AAAAAAATTCA
88570327 AAAAAAATT
1 AAAAAAATT
88570336 TGGTTTCCAT
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
10 10 0.24
11 21 0.51
13 10 0.24
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.19
Consensus pattern (11 bp):
AAAAAAATTCA
Found at i:88570300 original size:13 final size:13
Alignment explanation
Indices: 88570282--88570323 Score: 70
Period size: 13 Copynumber: 3.4 Consensus size: 13
88570272 TAGTTTCTTC
88570282 AAAAAAATTCAAA
1 AAAAAAATTCAAA
88570295 AAAAAAATTC--A
1 AAAAAAATTCAAA
88570306 AAAAAAATTCAAA
1 AAAAAAATTCAAA
88570319 AAAAA
1 AAAAA
88570324 TTAAAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 11 0.41
13 16 0.59
ACGTcount: A:0.79, C:0.07, G:0.00, T:0.14
Consensus pattern (13 bp):
AAAAAAATTCAAA
Found at i:88570319 original size:21 final size:21
Alignment explanation
Indices: 88570282--88570335 Score: 81
Period size: 21 Copynumber: 2.4 Consensus size: 21
88570272 TAGTTTCTTC
88570282 AAAAAAATTCAAAAAAAAAATTCA
1 AAAAAAATTC--AAAAAAAATT-A
88570306 AAAAAAATTCAAAAAAAATTA
1 AAAAAAATTCAAAAAAAATTA
88570327 AAAAAAATT
1 AAAAAAATT
88570336 TGGTTTCCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
21 10 0.33
22 10 0.33
24 10 0.33
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.19
Consensus pattern (21 bp):
AAAAAAATTCAAAAAAAATTA
Found at i:88570393 original size:15 final size:16
Alignment explanation
Indices: 88570373--88570414 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
88570363 GATATCAAGT
88570373 TGAAAAAAAAA-TTCG
1 TGAAAAAAAAATTTCG
88570388 TGAAAAAAAAATTTCG
1 TGAAAAAAAAATTTCG
88570404 TGAAAAAAAAA
1 TGAAAAAAAAA
88570415 GAAGAAGCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 11 0.42
16 15 0.58
ACGTcount: A:0.64, C:0.05, G:0.12, T:0.19
Consensus pattern (16 bp):
TGAAAAAAAAATTTCG
Found at i:88577458 original size:40 final size:40
Alignment explanation
Indices: 88577421--88577604 Score: 198
Period size: 40 Copynumber: 4.6 Consensus size: 40
88577411 GCTACTCGTT
*
88577421 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
88577461 CAATTGCCTTCGGGACTTAACCCGGATT-TAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
88577501 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * *
88577540 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
88577581 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
88577605 ACATCATTCA
Statistics
Matches: 120, Mismatches: 16, Indels: 16
0.79 0.11 0.11
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 74 0.62
41 14 0.12
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:88577523 original size:79 final size:81
Alignment explanation
Indices: 88577388--88577605 Score: 229
Period size: 79 Copynumber: 2.8 Consensus size: 81
88577378 AAATCACGTA
** * *
88577388 CCTTCGGAAT-TTAA-CCGGATATAGCT-ACTC-GTTCAAATGCCTTCGGGACATAGCCCGG-TT
1 CCTTCGG-ATCTTAACCCGGATATAG-TAACTCAGCACAAATGCCTTCGGGACTTAGCCCGGAAT
*
88577448 ATAGTAACTCGCACAATTG
64 -TAGTAACTCGCACAAATG
*
88577467 CCTTCGGGA-CTTAACCCGGATTTAGTAACTCA-CACAAATGCCTTCGGG-CTTAGCCCGGAATT
1 CCTTC-GGATCTTAACCCGGATATAGTAACTCAGCACAAATGCCTTCGGGACTTAGCCCGGAATT
*
88577529 AGTATCTCGCACAAATG
65 AGTAACTCGCACAAATG
** * * *
88577546 CCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 CCTTCGGATCTTAACCCGGATATAGTAACTCAGCACAAATGCCTTCGGGACTTAGCCCGGA
88577606 CATCATTCAA
Statistics
Matches: 117, Mismatches: 13, Indels: 17
0.80 0.09 0.12
Matches are distributed among these distances:
78 3 0.03
79 67 0.57
80 47 0.40
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (81 bp):
CCTTCGGATCTTAACCCGGATATAGTAACTCAGCACAAATGCCTTCGGGACTTAGCCCGGAATTA
GTAACTCGCACAAATG
Found at i:88585506 original size:39 final size:40
Alignment explanation
Indices: 88585385--88585569 Score: 191
Period size: 40 Copynumber: 4.7 Consensus size: 40
88585375 GCTACTCGTT
*
88585385 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* * *
88585425 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
88585465 CAAATGCCTTCGGG-CTTAGCTCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
88585504 CAAATGCCTT-TGGATCTTAGTCCGGATAT-GTTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAG-TAAC-TCGCA
88585545 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
88585570 CATCATTCAA
Statistics
Matches: 119, Mismatches: 20, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
38 2 0.02
39 31 0.26
40 73 0.61
41 13 0.11
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:88585529 original size:79 final size:82
Alignment explanation
Indices: 88585385--88585569 Score: 204
Period size: 79 Copynumber: 2.3 Consensus size: 82
88585375 GCTACTCGTT
* * *
88585385 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
*
88585449 GATTTAG-TAACTCA-CA
66 GATAT-GTTAACTCAGCA
* * * **
88585465 CAAATGCCTTCGGG-CTTAGCTCGGAAT-TAGTATCTCGCACAAATGCCTT-TGGATCTTAGTCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* *
88585527 GGATATGTTCACTTAGCA
65 GGATATGTTAACTCAGCA
88585545 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
88585570 CATCATTCAA
Statistics
Matches: 88, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
78 4 0.05
79 53 0.60
80 31 0.35
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
GATATGTTAACTCAGCA
Found at i:88589696 original size:33 final size:33
Alignment explanation
Indices: 88589649--88589715 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
88589639 ATTAAAATGA
* *
88589649 TGTGGCAATTCTCAAAGAATAAGTGGGAAAGAG
1 TGTGACAATTCTCAAAGAATAAGTAGGAAAGAG
* *
88589682 TGTGACAATTCTCAAAGAGTAATTAGGAAAGAG
1 TGTGACAATTCTCAAAGAATAAGTAGGAAAGAG
88589715 T
1 T
88589716 TTGTACTGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.09, G:0.27, T:0.24
Consensus pattern (33 bp):
TGTGACAATTCTCAAAGAATAAGTAGGAAAGAG
Found at i:88600218 original size:21 final size:21
Alignment explanation
Indices: 88600194--88600266 Score: 64
Period size: 21 Copynumber: 3.7 Consensus size: 21
88600184 TACTGTGGGG
*
88600194 GAGAACATAAAAGGTGGACAT
1 GAGAACAAAAAAGGTGGACAT
* *
88600215 GAGAAGAAAAAAGG-GG---G
1 GAGAACAAAAAAGGTGGACAT
* *
88600232 GAGGACATAAAAGGTGGACAT
1 GAGAACAAAAAAGGTGGACAT
*
88600253 GAGAAGAAAAAAGG
1 GAGAACAAAAAAGG
88600267 GTTGTCTTGA
Statistics
Matches: 38, Mismatches: 10, Indels: 8
0.68 0.18 0.14
Matches are distributed among these distances:
17 11 0.29
18 2 0.05
20 2 0.05
21 23 0.61
ACGTcount: A:0.51, C:0.05, G:0.36, T:0.08
Consensus pattern (21 bp):
GAGAACAAAAAAGGTGGACAT
Found at i:88600232 original size:38 final size:38
Alignment explanation
Indices: 88600190--88600267 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
88600180 CCTGTACTGT
88600190 GGGGGAGAACATAAAAGGTGGACATGAGAAGAAAAAAG
1 GGGGGAGAACATAAAAGGTGGACATGAGAAGAAAAAAG
*
88600228 GGGGGAGGACATAAAAGGTGGACATGAGAAGAAAAAAG
1 GGGGGAGAACATAAAAGGTGGACATGAGAAGAAAAAAG
88600266 GG
1 GG
88600268 TTGTCTTGAG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.47, C:0.05, G:0.40, T:0.08
Consensus pattern (38 bp):
GGGGGAGAACATAAAAGGTGGACATGAGAAGAAAAAAG
Found at i:88605681 original size:23 final size:22
Alignment explanation
Indices: 88605638--88605681 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
88605628 TTCTAAGTCG
88605638 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
88605661 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
88605682 TTTGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:88605887 original size:51 final size:50
Alignment explanation
Indices: 88605814--88606011 Score: 229
Period size: 51 Copynumber: 3.9 Consensus size: 50
88605804 ATCAATGATG
* * *
88605814 TTCGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATTACTA
1 TTCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA-TACTA
* * * * *
88605865 TTCGATACACGTAGTAGTCTGCATATAGTACTACACACGTGATCGAAACTA
1 TTCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATACTA
* * * *
88605916 TTCGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACC-TA-TCA
1 TTCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATACT-A
*
88605965 TTCCGGTACACGTAGTAGCCTGCACATAGTACTACACACGGGACCAT
1 TT-CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
88606012 CACTTTCACT
Statistics
Matches: 122, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
48 1 0.01
49 4 0.03
50 39 0.32
51 76 0.62
52 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (50 bp):
TTCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATACTA
Found at i:88606031 original size:101 final size:102
Alignment explanation
Indices: 88605821--88606007 Score: 263
Period size: 101 Copynumber: 1.8 Consensus size: 102
88605811 ATGTTCGGTT
* *
88605821 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATTACTATTCGATACACGTAGTAGTCTG
1 CACATAGTAGCCTGCACATAGTACTACACATGCGACCATTACTATTCGATACACGTAGTAGCCTG
* * * *
88605886 CATATAGTACTACACACGTGATCGAAACTATTCGGTA
66 CACATAGTACTACACACGGGATCCAAACTATTCCGTA
* *
88605923 CGCATAGTAGCCTGCACATAGTACTACACATGCGACC--TA-TCATTCCGGTACACGTAGTAGCC
1 CACATAGTAGCCTGCACATAGTACTACACATGCGACCATTACT-ATT-CGATACACGTAGTAGCC
88605985 TGCACATAGTACTACACACGGGA
64 TGCACATAGTACTACACACGGGA
88606008 CCATCACTTT
Statistics
Matches: 77, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
99 1 0.01
100 5 0.06
101 36 0.47
102 35 0.45
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (102 bp):
CACATAGTAGCCTGCACATAGTACTACACATGCGACCATTACTATTCGATACACGTAGTAGCCTG
CACATAGTACTACACACGGGATCCAAACTATTCCGTA
Found at i:88608838 original size:42 final size:42
Alignment explanation
Indices: 88608758--88608839 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
88608748 CTTTTTCTCT
* **
88608758 ATGCCATAGTCCAACTATGGTCTTACACATATTTACATATTG
1 ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTG
*
88608800 ATGCCATAGCCCAGCTATGGTCTTACACAGTA-GCACATAT
1 ATGCCATAGCCCAACTATGGTCTTACACA-TATGCACATAT
88608840 CACATTGATG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 33 0.94
43 2 0.06
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (42 bp):
ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTG
Found at i:88611521 original size:45 final size:45
Alignment explanation
Indices: 88611457--88611544 Score: 131
Period size: 45 Copynumber: 2.0 Consensus size: 45
88611447 ACAGATACTC
* * *
88611457 GGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTCT
1 GGTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGTCT
* *
88611502 GGTGGAATCAACACATAGCAGCCACTTTACTAATCAATGATGT
1 GGTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGT
88611545 TCGGTTCACA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (45 bp):
GGTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGTCT
Found at i:88611621 original size:51 final size:51
Alignment explanation
Indices: 88611551--88611691 Score: 158
Period size: 51 Copynumber: 2.8 Consensus size: 51
88611541 ATGTTCGGTT
* * * * * *
88611551 CACATAGTAGTCTGTACATAGTACTACAAATGTGACCATTACCATTCGATG
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATAACCATCCGATA
* * * * *
88611602 CATATAGTAGCCTGCACATAGTACTACACACGTGATCGA-AACTATCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGA-CCATAACCATCCGATA
*
88611653 CGCATAGTAGCCTGCACATAGTACTACACATGTGACCAT
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCAT
88611692 CACTTTCACT
Statistics
Matches: 73, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
50 2 0.03
51 69 0.95
52 2 0.03
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.26
Consensus pattern (51 bp):
CACATAGTAGCCTGCACATAGTACTACACATGTGACCATAACCATCCGATA
Found at i:88611710 original size:51 final size:50
Alignment explanation
Indices: 88611552--88611723 Score: 134
Period size: 51 Copynumber: 3.4 Consensus size: 50
88611542 TGTTCGGTTC
* * * * * *
88611552 ACATAGTAGTCTGTACATAGTACTACAAATGTGACCATTACCATTCGA-TGC
1 ACATAGTAGCCTGCACATAGTACTACACATGTGACCA-TAACTTTC-ACTGT
* * * * *
88611603 ATATAGTAGCCTGCACATAGTACTACACACGTGATCGA-AACTATC-CGGT
1 ACATAGTAGCCTGCACATAGTACTACACATGTGA-CCATAACTTTCACTGT
* *
88611652 ACGCATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTTTCACTTTT
1 A--CATAGTAGCCTGCACATAGTACTACACATGTGACCATAACTTTCAC-TGT
* *
88611705 ACATAGTGGCCTACACATA
1 ACATAGTAGCCTGCACATA
88611724 ATCTATGTCA
Statistics
Matches: 94, Mismatches: 20, Indels: 14
0.73 0.16 0.11
Matches are distributed among these distances:
49 2 0.02
50 6 0.06
51 81 0.86
52 3 0.03
53 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (50 bp):
ACATAGTAGCCTGCACATAGTACTACACATGTGACCATAACTTTCACTGT
Found at i:88620487 original size:26 final size:25
Alignment explanation
Indices: 88620436--88620495 Score: 59
Period size: 26 Copynumber: 2.4 Consensus size: 25
88620426 TGCATAACAG
* * * *
88620436 ATAAATTTTAAAAAATGTTCATATA
1 ATAATTTTTAAAAAATATTAAAATA
88620461 ATAATTTTTATAAAAATATTAAAATA
1 ATAATTTTTA-AAAAATATTAAAATA
88620487 A-AGATTTTT
1 ATA-ATTTTT
88620496 CACGTATTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 10 0.34
26 19 0.66
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (25 bp):
ATAATTTTTAAAAAATATTAAAATA
Found at i:88620781 original size:13 final size:13
Alignment explanation
Indices: 88620766--88620828 Score: 72
Period size: 13 Copynumber: 4.8 Consensus size: 13
88620756 TCTTCATTGT
*
88620766 TTTTGAAAAGTGT
1 TTTTGAAAAGTGC
*
88620779 TTTTGAAAAGTGA
1 TTTTGAAAAGTGC
* *
88620792 TGTGGAAAAGTGC
1 TTTTGAAAAGTGC
* *
88620805 TTTTGAGAAGTAC
1 TTTTGAAAAGTGC
88620818 TTTTGAAAAGT
1 TTTTGAAAAGT
88620829 TTAGTTTAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 41 1.00
ACGTcount: A:0.33, C:0.03, G:0.25, T:0.38
Consensus pattern (13 bp):
TTTTGAAAAGTGC
Found at i:88647648 original size:27 final size:27
Alignment explanation
Indices: 88647598--88647649 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
88647588 TTTGCTTTGA
** *
88647598 AAATATGGCGACATTATTTGTTTGGCG
1 AAATATGGCGACATTACATATTTGGCG
88647625 AAATATGGCGACATTACATATTTGG
1 AAATATGGCGACATTACATATTTGG
88647650 TGAGAAGTGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.31, C:0.12, G:0.23, T:0.35
Consensus pattern (27 bp):
AAATATGGCGACATTACATATTTGGCG
Found at i:88651218 original size:27 final size:28
Alignment explanation
Indices: 88651135--88651231 Score: 169
Period size: 28 Copynumber: 3.5 Consensus size: 28
88651125 AAATTGTACG
*
88651135 GCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
88651163 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
88651191 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
88651218 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
88651232 GACTTAATAT
Statistics
Matches: 67, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 24 0.36
28 43 0.64
ACGTcount: A:0.26, C:0.12, G:0.29, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:88651242 original size:27 final size:27
Alignment explanation
Indices: 88651135--88651244 Score: 114
Period size: 28 Copynumber: 4.0 Consensus size: 27
88651125 AAATTGTACG
* * *
88651135 GCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGA-CTTGAATATATA
* *
88651163 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTGAATATATA
* *
88651191 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTGAATATATA
*
88651218 GCACTGAGTGTGCGGACTT-AATATATA
1 GCACTAAGTGTGC-GACTTGAATATATA
88651245 CTTTTGAATC
Statistics
Matches: 76, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
27 30 0.39
28 46 0.61
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.34
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTGAATATATA
Found at i:88652774 original size:22 final size:22
Alignment explanation
Indices: 88652749--88652792 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
88652739 TCCGGCGACG
* * *
88652749 GTCTCGGGTTTGGGGTGTTACA
1 GTCTCGGGCTCGGGGCGTTACA
88652771 GTCTCGGGCTCGGGGCGTTACA
1 GTCTCGGGCTCGGGGCGTTACA
88652793 AACCAACTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.09, C:0.20, G:0.41, T:0.30
Consensus pattern (22 bp):
GTCTCGGGCTCGGGGCGTTACA
Found at i:88662252 original size:46 final size:46
Alignment explanation
Indices: 88662185--88662313 Score: 204
Period size: 46 Copynumber: 2.8 Consensus size: 46
88662175 TATTTGGGCA
*
88662185 TCCGAGCTCGTTAAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
*
88662231 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
* * * *
88662277 CCCGAGCTTGTTGAGTTGAGTCTGAGTGCGCTTATGG
1 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
88662314 GCGGGTTACA
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.19, C:0.19, G:0.31, T:0.32
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
Found at i:88669723 original size:46 final size:46
Alignment explanation
Indices: 88669656--88669831 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
88669646 TATTTGGGCA
* *
88669656 TCCGAGCTCGTTAAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
88669702 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
88669747 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
88669795 CCCGAGCTCATTGAGTTGAGTCTGAGTGCGCTTATGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
88669832 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 59 0.55
47 29 0.27
48 3 0.03
50 5 0.05
51 2 0.02
ACGTcount: A:0.20, C:0.19, G:0.31, T:0.30
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:88669811 original size:93 final size:93
Alignment explanation
Indices: 88669652--88669821 Score: 295
Period size: 93 Copynumber: 1.8 Consensus size: 93
88669642 AGGATATTTG
* * *
88669652 GGCATCCGAGCTCGTTAAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAGCTCGTTGAG
1 GGCATCCGAGCTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCATTGAG
88669717 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
88669745 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCATTGAG
1 GGCATCCGAGCTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCATTGAG
*
88669810 TTGAGTCTGAGT
66 TTGAGTCCGAGT
88669822 GCGCTTATGG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.29
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCATTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:88680260 original size:13 final size:13
Alignment explanation
Indices: 88680242--88680272 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
88680232 GGCCGGCCAT
88680242 GACAAATAGGGTG
1 GACAAATAGGGTG
88680255 GACAAATAGGGTG
1 GACAAATAGGGTG
88680268 GACAA
1 GACAA
88680273 GGTGTGATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.42, C:0.10, G:0.35, T:0.13
Consensus pattern (13 bp):
GACAAATAGGGTG
Found at i:88681748 original size:40 final size:40
Alignment explanation
Indices: 88681682--88682052 Score: 412
Period size: 40 Copynumber: 9.3 Consensus size: 40
88681672 TGTTCGGATG
* * * *
88681682 ATAACCGGGCTAAGTCCTG-AGAGCATTTGAGCTAGTGGCT
1 ATAACCGGGCTAAGTCCCGAAG-GCATTTGTGCAAGTGACT
* * *
88681722 A-ATTCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCT-ACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACT
* * * *
88681762 ATATCCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGCT-ATT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACT
* * * *
88681802 ATATCCGGGCTAAGTCCCGAAGGCATGTGTGCGAGTTA-T
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACT
* * *
88681841 TTTACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACT
* * *
88681881 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACT
*
88681921 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACT
*
88681961 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACT
* * * *
88682001 ATAACCAGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACT
*
88682041 ATATCC-GGCTAA
1 ATAACCGGGCTAA
88682053 ACTCCGAAGG
Statistics
Matches: 293, Mismatches: 32, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
39 42 0.14
40 247 0.84
41 4 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACT
Found at i:88681937 original size:119 final size:120
Alignment explanation
Indices: 88681726--88682052 Score: 489
Period size: 119 Copynumber: 2.7 Consensus size: 120
88681716 GTGGCTAATT
* * * * *
88681726 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCGTTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
* * ** * * *
88681791 TGCGAGCT-ATTATATCCGGGCTAAGTCCCGAAGGCATGTGTGCGAGTTA-TTTTA
66 AGCTAG-TGGCTATATCCGGGCTAAGTCCCGAAGGCATGTGTGCAAGTTACTATAA
88681845 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
* *
88681910 AGCTAGTGGCTATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAA
66 AGCTAGTGGCTATATCCGGGCTAAGTCCCGAAGGCATGTGTGCAAGTTACTATAA
*
88681965 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAACCAGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
88682030 AGCTAGTGGCTATATCC-GGCTAA
66 AGCTAGTGGCTATATCCGGGCTAA
88682053 ACTCCGAAGG
Statistics
Matches: 190, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
118 1 0.01
119 106 0.56
120 83 0.44
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (120 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
AGCTAGTGGCTATATCCGGGCTAAGTCCCGAAGGCATGTGTGCAAGTTACTATAA
Found at i:88682062 original size:199 final size:199
Alignment explanation
Indices: 88681682--88682062 Score: 518
Period size: 199 Copynumber: 1.9 Consensus size: 199
88681672 TGTTCGGATG
* *
88681682 ATAACCGGGCTAAGTCCTGAGAGCATTTGAGCTAGTGGCTAATTCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAGAGCATTTGAGCTAGTGGCTAATACCGGGCTAAGTCCCGAAGGCA
* * * * * * *
88681747 TTCGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGCTATTATATCCGGGC
66 TTCGTGCAAGCTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGCTACTATAACCAGGC
* * * * *
88681812 TAAGTCCCGAAGGCATGTGTGCGAGTTATTTTACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGT
131 TAAGTCCCGAAGGCATGTGAGCGAGTGACTATACCGGGCTAACTCCCGAAGGCATTTGTGCAAGT
88681877 TACT
196 TACT
88681881 ATAACCGGGCTAAGTCCCGA-AGGCATTTGAGCTAGTGGCT-ATAACCGGGCTAAGTCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAGA-GCATTTGAGCTAGTGGCTAAT-ACCGGGCTAAGTCCCGAAGG
* * *
88681944 CATTTGTGCAAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAACCAG
64 CATTCGTGCAAGCTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGCTACTATAACCAG
* * *
88682009 GCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCC-GGCTAAACT-CCGAAGG
129 GCTAAGTCCCGAAGGCATGTGAGCGAGTGACTATA-CCGGGCT-AACTCCCGAAGG
88682063 TACTTGGTTT
Statistics
Matches: 158, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
198 3 0.02
199 150 0.95
200 5 0.03
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (199 bp):
ATAACCGGGCTAAGTCCCGAGAGCATTTGAGCTAGTGGCTAATACCGGGCTAAGTCCCGAAGGCA
TTCGTGCAAGCTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGCTACTATAACCAGGC
TAAGTCCCGAAGGCATGTGAGCGAGTGACTATACCGGGCTAACTCCCGAAGGCATTTGTGCAAGT
TACT
Found at i:88688843 original size:119 final size:119
Alignment explanation
Indices: 88688671--88688956 Score: 409
Period size: 119 Copynumber: 2.4 Consensus size: 119
88688661 GTGGCTAATT
* * * *
88688671 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCT-ACTATATCCGGGCTAAGTCCCGAAGGCGTTT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAG-TGACTATATCCGGGCTAAGTCCCGAAGGCATTT
* * * *
88688735 GTGCGAGCTATTATATCCGGGCTAAGTCCCGAAGGCATGTGTGCGAGTTA-TTTTA
65 CTGCGAGCTATTATA-CCGGGCTAAGTCCCGAAGGCATGTGTGCAAGTTACTATAA
*
88688790 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-TCCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGACTA-TATCCGGGCTAAGTCCCGAAGGCATTT
* *
88688854 CTGCGAGTTATTATACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAA
65 CTGCGAGCTATTATACCGGGCTAAGTCCCGAAGGCATGTGTGCAAGTTACTATAA
*
88688909 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCC-GGCTAA
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGACTATATCCGGGCTAA
88688957 ACTCCGAAGG
Statistics
Matches: 151, Mismatches: 12, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
118 40 0.26
119 110 0.73
120 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.26
Consensus pattern (119 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTC
TGCGAGCTATTATACCGGGCTAAGTCCCGAAGGCATGTGTGCAAGTTACTATAA
Found at i:88688932 original size:79 final size:79
Alignment explanation
Indices: 88688630--88688932 Score: 391
Period size: 79 Copynumber: 3.8 Consensus size: 79
88688620 TCGGATGATA
* *
88688630 ACCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTA-ATTCCGGGCTAAGTCCCGAAGGCA-
1 ACCGGGCTAAGTCCCGAAG-GCATTTGTGCTAGTGACTATA-TCCGGGCTAAGTCCCGAAGGCAT
* *
88688692 TTCGTGCGAGCTACTAT
64 TTC-TGCGAGTTATTAT
* * *
88688709 ATCCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGCT-ATTATATCCGGGCTAAGTCCCGAAGGCAT
1 A-CCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTCCCGAAGGCAT
* * *
88688773 GTGTGCGAGTTATTTT
64 TTCTGCGAGTTATTAT
*
88688789 ACCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-TCCGGGCTAAGTCCCGAAGGCATT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-TATCCGGGCTAAGTCCCGAAGGCATT
88688853 TCTGCGAGTTATTAT
65 TCTGCGAGTTATTAT
* * *
88688868 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTT
88688933 GAGCTAGTGG
Statistics
Matches: 195, Mismatches: 21, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.01
79 127 0.65
80 61 0.31
81 5 0.03
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.25
Consensus pattern (79 bp):
ACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTT
CTGCGAGTTATTAT
Found at i:88688947 original size:40 final size:39
Alignment explanation
Indices: 88688631--88688956 Score: 349
Period size: 40 Copynumber: 8.2 Consensus size: 39
88688621 CGGATGATAA
* * *
88688631 CCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTA-ATT
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGT-ACTATA-T
*
88688671 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
* *
88688711 CCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGCTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
* * *
88688751 CCGGGCTAAGTCCCGAAGGCATGTGTGCGAGTTATTTTA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
* *
88688790 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTA-TAT
* *
88688830 CCGGGCTAAGTCCCGAAGGCATTTCTGCGAGTTATTATA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
* *
88688869 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
* * *
88688909 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATAT
88688949 CC-GGCTAA
1 CCGGGCTAA
88688957 ACTCCGAAGG
Statistics
Matches: 249, Mismatches: 27, Indels: 21
0.84 0.09 0.07
Matches are distributed among these distances:
38 1 0.00
39 74 0.30
40 169 0.68
41 5 0.02
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAT
Found at i:88689983 original size:58 final size:58
Alignment explanation
Indices: 88689892--88690007 Score: 214
Period size: 58 Copynumber: 2.0 Consensus size: 58
88689882 AATTCATTAA
88689892 AAATTAACCAGAGATAATTAGAAGTCATGCCATATATGTATAGTTTCCTTTTCGAGTC
1 AAATTAACCAGAGATAATTAGAAGTCATGCCATATATGTATAGTTTCCTTTTCGAGTC
* *
88689950 AAATTAACCAGATATAATTAGAAGTCATTCCATATATGTATAGTTTCCTTTTCGAGTC
1 AAATTAACCAGAGATAATTAGAAGTCATGCCATATATGTATAGTTTCCTTTTCGAGTC
88690008 TAGTTTCTAT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (58 bp):
AAATTAACCAGAGATAATTAGAAGTCATGCCATATATGTATAGTTTCCTTTTCGAGTC
Found at i:88690246 original size:28 final size:28
Alignment explanation
Indices: 88690213--88690310 Score: 70
Period size: 29 Copynumber: 3.2 Consensus size: 28
88690203 TTGACGAAAC
88690213 TGATTTTCTAGTTTTGAAACTCAAGATA
1 TGATTTTCTAGTTTTGAAACTCAAGATA
* * * * * *
88690241 TGATTTTTAATATTTTCATGAAAAATTGACGAAA
1 TGA-TTTT-CTAGTTT--TG--AAACTCAAGATA
*
88690275 CTGATTTTCGAGTTTTGAAACTCAAGATA
1 -TGATTTTCTAGTTTTGAAACTCAAGATA
88690304 TGATTTT
1 TGATTTT
88690311 TAAGGCGACA
Statistics
Matches: 50, Mismatches: 13, Indels: 14
0.65 0.17 0.18
Matches are distributed among these distances:
28 10 0.20
29 12 0.24
30 5 0.10
31 2 0.04
32 2 0.04
33 4 0.08
34 12 0.24
35 3 0.06
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (28 bp):
TGATTTTCTAGTTTTGAAACTCAAGATA
Found at i:88690256 original size:63 final size:63
Alignment explanation
Indices: 88690188--88690313 Score: 243
Period size: 63 Copynumber: 2.0 Consensus size: 63
88690178 TATATGAGTC
*
88690188 TATTTTCATGAAAAATTGACGAAACTGATTTTCTAGTTTTGAAACTCAAGATATGATTTTTAA
1 TATTTTCATGAAAAATTGACGAAACTGATTTTCGAGTTTTGAAACTCAAGATATGATTTTTAA
88690251 TATTTTCATGAAAAATTGACGAAACTGATTTTCGAGTTTTGAAACTCAAGATATGATTTTTAA
1 TATTTTCATGAAAAATTGACGAAACTGATTTTCGAGTTTTGAAACTCAAGATATGATTTTTAA
88690314 GGCGACAGTG
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.40
Consensus pattern (63 bp):
TATTTTCATGAAAAATTGACGAAACTGATTTTCGAGTTTTGAAACTCAAGATATGATTTTTAA
Found at i:88716768 original size:9 final size:9
Alignment explanation
Indices: 88716754--88716796 Score: 77
Period size: 9 Copynumber: 4.8 Consensus size: 9
88716744 TTAATTTAAC
88716754 AAACACATT
1 AAACACATT
88716763 AAACACATT
1 AAACACATT
*
88716772 GAACACATT
1 AAACACATT
88716781 AAACACATT
1 AAACACATT
88716790 AAACACA
1 AAACACA
88716797 CATTAAATGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.56, C:0.23, G:0.02, T:0.19
Consensus pattern (9 bp):
AAACACATT
Found at i:88716799 original size:11 final size:10
Alignment explanation
Indices: 88716754--88716803 Score: 61
Period size: 9 Copynumber: 5.2 Consensus size: 10
88716744 TTAATTTAAC
88716754 AAACACATT-
1 AAACACATTA
88716763 AAACACATT-
1 AAACACATTA
*
88716772 GAACACATT-
1 AAACACATTA
88716781 AAACACATTA
1 AAACACATTA
88716791 AACACACATTA
1 AA-ACACATTA
88716802 AA
1 AA
88716804 TGTAACAGTC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
9 25 0.68
10 2 0.05
11 10 0.27
ACGTcount: A:0.56, C:0.22, G:0.02, T:0.20
Consensus pattern (10 bp):
AAACACATTA
Found at i:88718655 original size:40 final size:40
Alignment explanation
Indices: 88718600--88718739 Score: 187
Period size: 40 Copynumber: 3.5 Consensus size: 40
88718590 CGGATGATAA
* *
88718600 CCGGGCTAAGTCCCG-AGAGCATTTGAGCTAG-TAGCTA-ATT
1 CCGGGCTAAGTCCCGAAG-GCATTCGAGCGAGCTA-CTATA-T
*
88718640 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGAGCGAGCTACTATAT
* *
88718680 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTAATATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGAGCGAGCTACTATAT
88718720 CCGGGCTAAGTCCCGAAGGC
1 CCGGGCTAAGTCCCGAAGGC
88718740 GTTTGTACGA
Statistics
Matches: 93, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
40 88 0.95
41 5 0.05
ACGTcount: A:0.24, C:0.26, G:0.29, T:0.21
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAGCGAGCTACTATAT
Found at i:88718751 original size:40 final size:40
Alignment explanation
Indices: 88718639--88718753 Score: 194
Period size: 40 Copynumber: 2.9 Consensus size: 40
88718629 AGTAGCTAAT
*
88718639 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTAATATA
88718679 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTAATATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTAATATA
* * *
88718719 TCCGGGCTAAGTCCCGAAGGCGTTTGTACGAGCTA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTA
88718754 TTATTGTAAC
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 71 1.00
ACGTcount: A:0.23, C:0.26, G:0.29, T:0.23
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTAATATA
Found at i:88720229 original size:39 final size:39
Alignment explanation
Indices: 88720144--88720323 Score: 197
Period size: 39 Copynumber: 4.6 Consensus size: 39
88720134 GCTACTCGTT
* * *
88720144 CAAATGCCTTCGGGACATGGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAT-TAGTAACTCGCA
*
88720184 CAAATGCCTTCGGGACTTAACCCGGATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
*
88720223 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-ATTAGTAACTCGCA
* * * *
88720262 CAAATGCCTTC-GGATCTTAGTCTC-GATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAG-CCCGGAT-TAGTAAC-TCGCA
88720303 CAAA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGACTTAGCC
88720324 AGTACATCAT
Statistics
Matches: 121, Mismatches: 12, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
38 11 0.09
39 52 0.43
40 45 0.37
41 13 0.11
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
Found at i:88733741 original size:51 final size:51
Alignment explanation
Indices: 88733665--88733764 Score: 191
Period size: 51 Copynumber: 2.0 Consensus size: 51
88733655 AAGCATGGCC
*
88733665 GAATCTCTTCAATATTTCCTCCTCCTAAACACCAACCAACCGAACATGATT
1 GAATCTCTTCAACATTTCCTCCTCCTAAACACCAACCAACCGAACATGATT
88733716 GAATCTCTTCAACATTTCCTCCTCCTAAACACCAACCAACCGAACATGA
1 GAATCTCTTCAACATTTCCTCCTCCTAAACACCAACCAACCGAACATGA
88733765 AGCAAGAAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.34, C:0.35, G:0.06, T:0.25
Consensus pattern (51 bp):
GAATCTCTTCAACATTTCCTCCTCCTAAACACCAACCAACCGAACATGATT
Found at i:88734078 original size:85 final size:85
Alignment explanation
Indices: 88733949--88734127 Score: 331
Period size: 85 Copynumber: 2.1 Consensus size: 85
88733939 TATTTTATTG
* *
88733949 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGGTTT
88734014 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
*
88734034 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTGTGACATGGTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGGTTT
88734099 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
88734119 CCCATGCTC
1 CCCATGCTC
88734128 ATGGCCGGCC
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 91 1.00
ACGTcount: A:0.26, C:0.28, G:0.09, T:0.37
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGGTTT
TAGCCATAACATCTTGTCCA
Found at i:88735079 original size:119 final size:120
Alignment explanation
Indices: 88734903--88735118 Score: 296
Period size: 119 Copynumber: 1.8 Consensus size: 120
88734893 TACTCGTTCA
* *
88734903 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCACACAAATGCCTTCGGGACTTAGCCCGGTT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAGCCCGGAT
*
88734968 ATAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCAGATTTAGTAACTCGCACC
* * * *
88735023 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCACACAAATGCCTTCGGGA-CTTAGCCCGG
* *
88735085 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTA
88735119 GCCCGGACAT
Statistics
Matches: 84, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 4 0.05
119 60 0.71
120 20 0.24
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAGCCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCACC
Found at i:88735109 original size:79 final size:80
Alignment explanation
Indices: 88734901--88735125 Score: 244
Period size: 79 Copynumber: 2.8 Consensus size: 80
88734891 GCTACTCGTT
* * * *
88734901 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCA-CACAAATGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAACCCAGATATAGTAACT-AGCACAAA-GCCTTCGGGACTTAGCCCG
*
88734965 G-TTATAGTAACTCGCA
64 GAATATAGTAACTCGCA
* * *
88734981 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAACCCAGATATAGTAACTAGCA-CAAAGCCTTCGGGACTTAGCCCGG
*
88735045 AAT-TAGTATCTCGCA
65 AATATAGTAACTCGCA
** * * *
88735060 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAACCCAGATATAGTAAC-TAGCACAAAGCCTTCGGGACTTAGCCCG
88735124 GA
64 GA
88735126 CATCATTCGA
Statistics
Matches: 122, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.02
79 58 0.48
80 58 0.48
81 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAACCCAGATATAGTAACTAGCACAAAGCCTTCGGGACTTAGCCCGGA
ATATAGTAACTCGCA
Found at i:88735125 original size:40 final size:41
Alignment explanation
Indices: 88734901--88735125 Score: 259
Period size: 40 Copynumber: 5.6 Consensus size: 41
88734891 GCTACTCGTT
* * *
88734901 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAAC-TCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTCGCA
*
88734941 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTCGCA
* * *
88734981 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTCGCA
* *
88735021 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTTCGCA
* * * *
88735060 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTTCGCA
88735101 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
88735126 CATCATTCGA
Statistics
Matches: 161, Mismatches: 18, Indels: 12
0.84 0.09 0.06
Matches are distributed among these distances:
38 2 0.01
39 30 0.19
40 117 0.73
41 12 0.07
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTCGCA
Found at i:88736982 original size:39 final size:39
Alignment explanation
Indices: 88736927--88737037 Score: 177
Period size: 39 Copynumber: 2.8 Consensus size: 39
88736917 GGCTGTCGCA
* *
88736927 ATTATATCCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTT
1 ATTATA-CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTT
88736967 ATTATACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTT
1 ATTATACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTT
*
88737006 ACTATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATTAT-ACCGGGCTAAGTCCCGAAGGCATTTG
88737038 AGCTAGTGGC
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
39 35 0.52
40 32 0.48
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (39 bp):
ATTATACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTT
Found at i:88737070 original size:39 final size:40
Alignment explanation
Indices: 88736929--88737070 Score: 128
Period size: 39 Copynumber: 3.6 Consensus size: 40
88736919 CTGTCGCAAT
* * * * * * *
88736929 TATATCCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTAT
1 TATAACCGGGCTAACTCCCGAAGGCATTTGAGCAAGTGAC
* * *
88736969 TAT-ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTAC
1 TATAACCGGGCTAACTCCCGAAGGCATTTGAGCAAGTGAC
* * *
88737008 TATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGC
1 TATAACCGGGCTAACTCCCGAAGGCATTTGAGCAAGTGAC
*
88737048 TATATCC-GGCTAAACT-CCGAAGG
1 TATAACCGGGCT-AACTCCCGAAGG
88737071 TACTTGGTTT
Statistics
Matches: 90, Mismatches: 10, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
39 46 0.51
40 44 0.49
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
TATAACCGGGCTAACTCCCGAAGGCATTTGAGCAAGTGAC
Found at i:88739619 original size:44 final size:44
Alignment explanation
Indices: 88739551--88739723 Score: 185
Period size: 44 Copynumber: 4.0 Consensus size: 44
88739541 ATAGGAATTC
* * *
88739551 CGATATCTGTTCTGTGTGTAAGACCACGTCT-GAGACGTTGGCAT
1 CGATATCTGTTTTGCGTGTAAGACCACGTCTAG-GACATTGGCAT
* *
88739595 CGATTTCTGTTTTGCGTGTAAGACCATGTCTAGGACATTGGCAT
1 CGATATCTGTTTTGCGTGTAAGACCACGTCTAGGACATTGGCAT
* * *
88739639 CG-TATCTGATTT-CGTGTAAGACC-CTGTCTGGGACAGTGGCAT
1 CGATATCTGTTTTGCGTGTAAGACCAC-GTCTAGGACATTGGCAT
* * * *
88739681 CGATATTTG-ATTACATGTAAGACCACGTCTAGGACATTGGCAT
1 CGATATCTGTTTTGCGTGTAAGACCACGTCTAGGACATTGGCAT
88739724 TGTATATGTT
Statistics
Matches: 109, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
42 30 0.28
43 38 0.35
44 40 0.37
45 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (44 bp):
CGATATCTGTTTTGCGTGTAAGACCACGTCTAGGACATTGGCAT
Found at i:88739667 original size:42 final size:43
Alignment explanation
Indices: 88739566--88739723 Score: 187
Period size: 43 Copynumber: 3.7 Consensus size: 43
88739556 TCTGTTCTGT
* * *
88739566 GTGTAAGACCACGTCT-GAGACGTTGGCATCGATTTCTGTTTTGC
1 GTGTAAGACCACGTCTAG-GACATTGGCATCGATATCTGATTT-C
*
88739610 GTGTAAGACCATGTCTAGGACATTGGCATCG-TATCTGATTTC
1 GTGTAAGACCACGTCTAGGACATTGGCATCGATATCTGATTTC
* * * *
88739652 GTGTAAGACC-CTGTCTGGGACAGTGGCATCGATATTTGATTAC
1 GTGTAAGACCAC-GTCTAGGACATTGGCATCGATATCTGATTTC
*
88739695 ATGTAAGACCACGTCTAGGACATTGGCAT
1 GTGTAAGACCACGTCTAGGACATTGGCAT
88739724 TGTATATGTT
Statistics
Matches: 98, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
42 28 0.29
43 41 0.42
44 28 0.29
45 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (43 bp):
GTGTAAGACCACGTCTAGGACATTGGCATCGATATCTGATTTC
Found at i:88742898 original size:30 final size:30
Alignment explanation
Indices: 88742862--88742918 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
88742852 TTTACAAGCC
** *
88742862 TAGGGGCAAAAGTATAATTTTGTCAAAGTT
1 TAGGGGCAAAAACATAATTTTGCCAAAGTT
88742892 TAGGGGCAAAAACATAATTTTGCCAAA
1 TAGGGGCAAAAACATAATTTTGCCAAA
88742919 ATGTGATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.40, C:0.11, G:0.21, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAACATAATTTTGCCAAAGTT
Found at i:88743629 original size:26 final size:26
Alignment explanation
Indices: 88743598--88743680 Score: 75
Period size: 26 Copynumber: 3.3 Consensus size: 26
88743588 TTTAGGTCAC
88743598 ATGTGTAGTACTAAGTGTAGGCTACT
1 ATGTGTAGTACTAAGTGTAGGCTACT
* ** *
88743624 ACGTGTACCA-GATAGT-TAGG-TCAC-
1 ATGTGTAGTACTA-AGTGTAGGCT-ACT
*
88743648 ATGTGTAGTACTAAGTGCAGGCTACT
1 ATGTGTAGTACTAAGTGTAGGCTACT
88743674 ATGTGTA
1 ATGTGTA
88743681 TTTGACAACT
Statistics
Matches: 42, Mismatches: 9, Indels: 12
0.67 0.14 0.19
Matches are distributed among these distances:
24 11 0.26
25 13 0.31
26 18 0.43
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (26 bp):
ATGTGTAGTACTAAGTGTAGGCTACT
Found at i:88743658 original size:50 final size:50
Alignment explanation
Indices: 88743589--88743838 Score: 261
Period size: 50 Copynumber: 5.0 Consensus size: 50
88743579 TAAAATGGTT
* *
88743589 TTAGGTCACATGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATAG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
* * *** * *
88743639 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTATTTGACAAC
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TAG
* * * * * *
88743690 TTTGATTACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
* * * *
88743740 TTAGGTCACGTGTGTAATACTAAGTGCAGGCTACTACATGTTCCAGATTG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
* * * *
88743790 TT-GGTCGCGTGTGTAGTACTGAGTGCAGGATACTA-TTCGTACCAGATAG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGT-GTACCAGATAG
88743839 CTTCAGTTAC
Statistics
Matches: 164, Mismatches: 34, Indels: 5
0.81 0.17 0.02
Matches are distributed among these distances:
48 1 0.01
49 38 0.23
50 85 0.52
51 40 0.24
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (50 bp):
TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
Found at i:88744053 original size:16 final size:15
Alignment explanation
Indices: 88744032--88744061 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
88744022 GAATGGAGTA
88744032 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
88744048 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
88744062 TAAAATAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:88747894 original size:13 final size:13
Alignment explanation
Indices: 88747878--88747903 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
88747868 AGATTTTCTT
88747878 ATCTCTCTTTCCC
1 ATCTCTCTTTCCC
88747891 ATCTCTCTTTCCC
1 ATCTCTCTTTCCC
88747904 TCACAAATAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.46, G:0.00, T:0.46
Consensus pattern (13 bp):
ATCTCTCTTTCCC
Found at i:88751229 original size:11 final size:9
Alignment explanation
Indices: 88751174--88751238 Score: 103
Period size: 9 Copynumber: 6.9 Consensus size: 9
88751164 TTCATTTAAC
88751174 AAACACATT
1 AAACACATT
88751183 AAAACACATT
1 -AAACACATT
88751193 AAACACATT
1 AAACACATT
88751202 AAACACATT
1 AAACACATT
88751211 AAACACATT
1 AAACACATT
88751220 AAACACACATT
1 -AA-ACACATT
88751231 AAACACAT
1 AAACACAT
88751239 GTAACAATAA
Statistics
Matches: 53, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
9 33 0.62
10 13 0.25
11 7 0.13
ACGTcount: A:0.57, C:0.23, G:0.00, T:0.20
Consensus pattern (9 bp):
AAACACATT
Found at i:88751229 original size:20 final size:19
Alignment explanation
Indices: 88751174--88751238 Score: 114
Period size: 18 Copynumber: 3.4 Consensus size: 19
88751164 TTCATTTAAC
88751174 AAACACATTAAAACACATT
1 AAACACATTAAAACACATT
88751193 AAACACATT-AAACACATT
1 AAACACATTAAAACACATT
88751211 AAACACATTAAACACACATT
1 AAACACATTAAA-ACACATT
88751231 AAACACAT
1 AAACACAT
88751239 GTAACAATAA
Statistics
Matches: 44, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
18 18 0.41
19 11 0.25
20 15 0.34
ACGTcount: A:0.57, C:0.23, G:0.00, T:0.20
Consensus pattern (19 bp):
AAACACATTAAAACACATT
Found at i:88751244 original size:20 final size:19
Alignment explanation
Indices: 88751174--88751244 Score: 108
Period size: 20 Copynumber: 3.7 Consensus size: 19
88751164 TTCATTTAAC
*
88751174 AAACACATTAAAACACATT
1 AAACACATTAACACACATT
88751193 AAACACATTAA-ACACATT
1 AAACACATTAACACACATT
88751211 AAACACATTAAACACACATT
1 AAACACATT-AACACACATT
88751231 AAACACATGTAACA
1 AAACACAT-TAACA
88751245 ATAAATTATT
Statistics
Matches: 49, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
18 16 0.33
19 13 0.27
20 19 0.39
21 1 0.02
ACGTcount: A:0.56, C:0.23, G:0.01, T:0.20
Consensus pattern (19 bp):
AAACACATTAACACACATT
Found at i:88752042 original size:29 final size:29
Alignment explanation
Indices: 88751999--88752134 Score: 105
Period size: 29 Copynumber: 4.7 Consensus size: 29
88751989 TGTCGGCGAT
*
88751999 CATCAAATATGAAAAGGGATAGCTTCGAC
1 CATCGAATATGAAAAGGGATAGCTTCGAC
* * * * * *
88752028 TATCAAATATGAAAATGTATAGCTTTGGC
1 CATCGAATATGAAAAGGGATAGCTTCGAC
* * * *
88752057 TATCGATTAT-AACAAGGGAT-GGTGACGAC
1 CATCGAATATGAA-AAGGGATAGCT-TCGAC
* * *
88752086 CATCGATTAGTGAAAAGGGATGGCTTCAAC
1 CATCGAATA-TGAAAAGGGATAGCTTCGAC
88752116 CATCGAATATGAAAAGGGA
1 CATCGAATATGAAAAGGGA
88752135 CGGTTACGAC
Statistics
Matches: 84, Mismatches: 18, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
28 4 0.05
29 57 0.68
30 19 0.23
31 4 0.05
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (29 bp):
CATCGAATATGAAAAGGGATAGCTTCGAC
Found at i:88752106 original size:30 final size:28
Alignment explanation
Indices: 88752058--88752149 Score: 96
Period size: 29 Copynumber: 3.1 Consensus size: 28
88752048 AGCTTTGGCT
88752058 ATCGATTAT-AACAAGGGATGGTGACGACC
1 ATCGATTATGAA-AAGGGATGGT-ACGACC
* *
88752087 ATCGATTAGTGAAAAGGGATGGCTTCAACC
1 ATCGATTA-TGAAAAGGGATGG-TACGACC
* *
88752117 ATCGAATATGAAAAGGGACGGTTACGACC
1 ATCGATTATGAAAAGGGATGG-TACGACC
88752146 ATCG
1 ATCG
88752150 TTTAGCACAC
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
29 29 0.55
30 21 0.40
31 3 0.06
ACGTcount: A:0.35, C:0.17, G:0.27, T:0.21
Consensus pattern (28 bp):
ATCGATTATGAAAAGGGATGGTACGACC
Found at i:88752146 original size:29 final size:30
Alignment explanation
Indices: 88752070--88752149 Score: 101
Period size: 29 Copynumber: 2.7 Consensus size: 30
88752060 CGATTATAAC
* *
88752070 AAGGGATGGTGACGACCATCGATTAGTGAA
1 AAGGGATGGTTACGACCATCGAATAGTGAA
*
88752100 AAGGGATGGCTT-CAACCATCGAATA-TGAA
1 AAGGGATGG-TTACGACCATCGAATAGTGAA
*
88752129 AAGGGACGGTTACGACCATCG
1 AAGGGATGGTTACGACCATCG
88752150 TTTAGCACAC
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
28 2 0.05
29 20 0.47
30 20 0.47
31 1 0.02
ACGTcount: A:0.34, C:0.17, G:0.30, T:0.19
Consensus pattern (30 bp):
AAGGGATGGTTACGACCATCGAATAGTGAA
Found at i:88756993 original size:15 final size:16
Alignment explanation
Indices: 88756973--88757002 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
88756963 TGGTGCCTTG
88756973 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
88756988 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
88757003 ATCATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:88759390 original size:21 final size:20
Alignment explanation
Indices: 88759347--88759391 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
88759337 GTTTGAAATT
* **
88759347 TGTTCAAAGTATTTTTTAAG
1 TGTTCAAAGTATTCTCAAAG
88759367 TGTTCAAAGTGATTCTCAAAG
1 TGTTCAAAGT-ATTCTCAAAG
88759388 TGTT
1 TGTT
88759392 TGAAATTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.29, C:0.09, G:0.18, T:0.44
Consensus pattern (20 bp):
TGTTCAAAGTATTCTCAAAG
Found at i:88760685 original size:29 final size:30
Alignment explanation
Indices: 88760643--88760700 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
88760633 ATAATCTAAA
* *
88760643 TTACCCGCACCAGCT-CAACAGACTCGAGG
1 TTACCCACACCAGCTAAAACAGACTCGAGG
*
88760672 TTACCCACACCAGCTAAAACAGCCTCGAG
1 TTACCCACACCAGCTAAAACAGACTCGAG
88760701 TCTCTCCCCT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 14 0.56
30 11 0.44
ACGTcount: A:0.31, C:0.38, G:0.17, T:0.14
Consensus pattern (30 bp):
TTACCCACACCAGCTAAAACAGACTCGAGG
Found at i:88770017 original size:16 final size:16
Alignment explanation
Indices: 88769996--88770026 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
88769986 TCATCCAAAG
88769996 TTTTTATATATTATTA
1 TTTTTATATATTATTA
*
88770012 TTTTTATATGTTATT
1 TTTTTATATATTATT
88770027 TTATATGTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (16 bp):
TTTTTATATATTATTA
Found at i:88775409 original size:40 final size:39
Alignment explanation
Indices: 88775219--88775402 Score: 185
Period size: 40 Copynumber: 4.6 Consensus size: 39
88775209 CGGATGATGT
* * * *
88775219 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* *
88775259 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
* *
88775299 CCAGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
88775337 TCCGAGTTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
88775378 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
88775403 AACGAGTAGC
Statistics
Matches: 120, Mismatches: 17, Indels: 14
0.79 0.11 0.09
Matches are distributed among these distances:
39 33 0.28
40 77 0.64
41 10 0.08
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:88775425 original size:79 final size:79
Alignment explanation
Indices: 88775274--88775425 Score: 193
Period size: 79 Copynumber: 1.9 Consensus size: 79
88775264 CTAAGATCCG
* **
88775274 AAGGCATTTGTGCGAGTTACTAATTCCAGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATC
1 AAGGCATTTGTGCGAGTTACTAATACCAGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAATC
88775339 CGAGTTAAGTCCCA
66 CGAGTTAAGTCCCA
* * * *
88775353 AAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTAT
1 AAGGCATTTGTGCGAGTTACTAAT-ACCAGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAA
88775416 ATCCG-GTTAA
63 ATCCGAGTTAA
88775426 ATTCCGAAGG
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
78 2 0.03
79 36 0.57
80 25 0.40
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (79 bp):
AAGGCATTTGTGCGAGTTACTAATACCAGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAATC
CGAGTTAAGTCCCA
Found at i:88782564 original size:120 final size:120
Alignment explanation
Indices: 88782351--88782663 Score: 450
Period size: 120 Copynumber: 2.6 Consensus size: 120
88782341 TGTGTGCATG
*
88782351 ATGCTAGTGATTTTATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAA
1 ATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAA
*
88782416 GTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGTCCCGAAGGCATTT
66 GTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTT
*
88782471 ATGCTAGTGATTTTATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAA
1 ATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAA
*
88782536 GTCCCGAAGGCATTTATGCTAGTGATTTTATCTGGGCTAAGACCCGAAGGCATTT
66 GTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTT
* * * * * * * * * * *
88782591 GTGCGAGTTG-CTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTA
1 ATGCTAG-TGATTTTATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTA
* *
88782654 AATTCCGAAG
65 AGTCCCGAAG
88782664 AAACTTGGGT
Statistics
Matches: 174, Mismatches: 18, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
119 13 0.07
120 159 0.91
121 2 0.01
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.31
Consensus pattern (120 bp):
ATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAA
GTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTT
Found at i:88782611 original size:80 final size:80
Alignment explanation
Indices: 88782351--88782663 Score: 441
Period size: 80 Copynumber: 3.9 Consensus size: 80
88782341 TGTGTGCATG
*
88782351 ATGCTAGTGATTTTATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAA
1 ATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAA
88782416 GTCCCGAAGGCATTT
66 GTCCCGAAGGCATTT
*
88782431 ATGCTAGTGATTTTATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAA
1 ATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAA
88782496 GTCCCGAAGGCATTT
66 GTCCCGAAGGCATTT
* *
88782511 ATGCTAGTGATTTTATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCTGGGCTAA
1 ATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAA
*
88782576 GACCCGAAGGCATTT
66 GTCCCGAAGGCATTT
* * * * * * * * * * *
88782591 GTGCGAGTTG-CTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTA
1 ATGCTAG-TGATTTTATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTA
* *
88782654 AATTCCGAAG
65 AGTCCCGAAG
88782664 AAACTTGGGT
Statistics
Matches: 212, Mismatches: 20, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
79 12 0.06
80 198 0.93
81 2 0.01
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.31
Consensus pattern (80 bp):
ATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAA
GTCCCGAAGGCATTT
Found at i:88782627 original size:40 final size:40
Alignment explanation
Indices: 88782351--88782590 Score: 444
Period size: 40 Copynumber: 6.0 Consensus size: 40
88782341 TGTGTGCATG
* *
88782351 ATGCTAGTGATTTTATCCGGGTTAAGACCCGAAGGCATTT
1 ATGCTAGTGATTTTATCCGGGCTAAGTCCCGAAGGCATTT
88782391 ATGCTAGTGATTTTATCCGGGCTAAGTCCCGAAGGCATTT
1 ATGCTAGTGATTTTATCCGGGCTAAGTCCCGAAGGCATTT
88782431 ATGCTAGTGATTTTATCCGGGCTAAGTCCCGAAGGCATTT
1 ATGCTAGTGATTTTATCCGGGCTAAGTCCCGAAGGCATTT
88782471 ATGCTAGTGATTTTATCCGGGCTAAGTCCCGAAGGCATTT
1 ATGCTAGTGATTTTATCCGGGCTAAGTCCCGAAGGCATTT
88782511 ATGCTAGTGATTTTATCCGGGCTAAGTCCCGAAGGCATTT
1 ATGCTAGTGATTTTATCCGGGCTAAGTCCCGAAGGCATTT
* *
88782551 ATGCTAGTGATTTTATCTGGGCTAAGACCCGAAGGCATTT
1 ATGCTAGTGATTTTATCCGGGCTAAGTCCCGAAGGCATTT
88782591 GTGCGAGTTG
Statistics
Matches: 196, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 196 1.00
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (40 bp):
ATGCTAGTGATTTTATCCGGGCTAAGTCCCGAAGGCATTT
Found at i:88783406 original size:72 final size:72
Alignment explanation
Indices: 88783289--88783433 Score: 272
Period size: 72 Copynumber: 2.0 Consensus size: 72
88783279 TTAATCACTA
*
88783289 TCATAATTTGTGCTAGTTATGCTAAAAGGGCTAGTTGAATCATGGAAACTATGAAATAGGTAAAG
1 TCATAATTTGTGCTAGTTATGCTAAAAGGACTAGTTGAATCATGGAAACTATGAAATAGGTAAAG
88783354 TCTACCT
66 TCTACCT
*
88783361 TCATAATTTGTGCTATTTATGCTAAAAGGACTAGTTGAATCATGGAAACTATGAAATAGGTAAAG
1 TCATAATTTGTGCTAGTTATGCTAAAAGGACTAGTTGAATCATGGAAACTATGAAATAGGTAAAG
88783426 TCTACCT
66 TCTACCT
88783433 T
1 T
88783434 AAAGGCAGAT
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (72 bp):
TCATAATTTGTGCTAGTTATGCTAAAAGGACTAGTTGAATCATGGAAACTATGAAATAGGTAAAG
TCTACCT
Found at i:88783742 original size:61 final size:61
Alignment explanation
Indices: 88783647--88783764 Score: 200
Period size: 61 Copynumber: 1.9 Consensus size: 61
88783637 CTGTTCCGAC
* *
88783647 TTTGGAAATTCATTCTAAATTAACCAGAGATAATTATAAGTCATGCCATATATGCATCGAA
1 TTTGGAAATTCATTATAAATTAACCAGAGATAATTAGAAGTCATGCCATATATGCATCGAA
* *
88783708 TTTGGAAATTTATTATAAATTAACCAGAGATAATTAGAAGTCATGCCATATTTGCAT
1 TTTGGAAATTCATTATAAATTAACCAGAGATAATTAGAAGTCATGCCATATATGCAT
88783765 AGATTCCTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 53 1.00
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.35
Consensus pattern (61 bp):
TTTGGAAATTCATTATAAATTAACCAGAGATAATTAGAAGTCATGCCATATATGCATCGAA
Found at i:88785887 original size:20 final size:20
Alignment explanation
Indices: 88785858--88785902 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
88785848 AGCACATATA
* *
88785858 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
88785878 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
88785898 TTCAT
1 TTCAT
88785903 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:88791932 original size:47 final size:47
Alignment explanation
Indices: 88791692--88791958 Score: 198
Period size: 47 Copynumber: 5.7 Consensus size: 47
88791682 TTCGTGTGTA
* *
88791692 AGCCAGTGTAAGA-CATGTATGGGACATGCATCGGGCACATT---ATGAG
1 AGCCAGTGTAAGACCATGTCTGGGACATGCATC--GTAC-TTGAGATGAG
* *
88791738 AGCCAATGTAAGACCATGTCTAGGACATGGCATCGGTA-TTGAGATGAG
1 AGCCAGTGTAAGACCATGTCTGGGACAT-GCATC-GTACTTGAGATGAG
* * * * * * *
88791786 GGCTAGTGTAAG-GCATGTCTGGGACATCCATCGTCCTCGAGAAGTA-
1 AGCCAGTGTAAGACCATGTCTGGGACATGCATCGTACTTGAGATG-AG
* * * *
88791832 AGCCAGTGTAAGA-CATGTCTGGGACATACCTCGGGTA--TGAAATGAT
1 AGCCAGTGTAAGACCATGTCTGGGACATGCATC--GTACTTGAGATGAG
*
88791878 AGTCAGTGTAAGACCATGTCTGGGACATGGCATCG-ACTTGAGATGTA-
1 AGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGTACTTGAGATG-AG
*
88791925 AGCCAGTGTAAGACCGTGTCTGGGACATGGCATC
1 AGCCAGTGTAAGACCATGTCTGGGACAT-GCATC
88791959 AGCACCTTAC
Statistics
Matches: 178, Mismatches: 27, Indels: 31
0.75 0.11 0.13
Matches are distributed among these distances:
45 6 0.03
46 66 0.37
47 81 0.46
48 25 0.14
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (47 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGCATCGTACTTGAGATGAG
Found at i:88791945 original size:140 final size:140
Alignment explanation
Indices: 88791689--88791952 Score: 338
Period size: 140 Copynumber: 1.9 Consensus size: 140
88791679 TCATTCGTGT
* *
88791689 GTAAGCCAGTGTAAGACATGTATGGGACATGCATCGGGCACATTATGAGAGCCAATGTAAGACCA
1 GTAAGCCAGTGTAAGACATGTATGGGACATACATCGGGCACATAATGAGAGCCAATGTAAGACCA
* * *
88791754 TGTCTAGGACATGGCATCGGTATTGAGATGAGGGCTAGTGTAAGGCATGTCTGGGACATCCATCG
66 TGTCTAGGACATGGCATCGGTATTGAGATGAGAGCCAGTGTAAGCCATGTCTGGGACATCCATCG
88791819 TCCTCGAGAA
131 TCCTCGAGAA
* * * * * * *
88791829 GTAAGCCAGTGTAAGACATGTCTGGGACATACCTCGGGTATGA-AATGATAGTCAGTGTAAGACC
1 GTAAGCCAGTGTAAGACATGTATGGGACATACATCGGGCA-CATAATGAGAGCCAATGTAAGACC
* *
88791893 ATGTCTGGGACATGGCATC-G-ACTTGAGATGTA-AGCCAGTGTAAGACCGTGTCTGGGACAT
65 ATGTCTAGGACATGGCATCGGTA-TTGAGATG-AGAGCCAGTGTAAG-CCATGTCTGGGACAT
88791953 GGCATCAGCA
Statistics
Matches: 106, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
138 1 0.01
139 19 0.18
140 85 0.80
141 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.23
Consensus pattern (140 bp):
GTAAGCCAGTGTAAGACATGTATGGGACATACATCGGGCACATAATGAGAGCCAATGTAAGACCA
TGTCTAGGACATGGCATCGGTATTGAGATGAGAGCCAGTGTAAGCCATGTCTGGGACATCCATCG
TCCTCGAGAA
Found at i:88805418 original size:38 final size:37
Alignment explanation
Indices: 88805348--88805504 Score: 181
Period size: 38 Copynumber: 4.1 Consensus size: 37
88805338 ATTTGATGTG
* *
88805348 TATCCGGGCTTAAAGACCCACAGGCTATATGCTGGAATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCT-TATGCTGGAATTA
88805388 TATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAA-TA
1 TATCCGGGTTAAATCCCGCAGGCTT-ATGCTGG-AATTA
* * *
88805426 TATCCGGGTTAAATCTCGCAGGCTTTGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGC-TTATGCTGGAATTA
* *
88805464 TATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTA-TGCTGGAATTA
88805502 TAT
1 TAT
88805505 ATGAGTTTAA
Statistics
Matches: 104, Mismatches: 8, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
37 3 0.03
38 84 0.81
39 9 0.09
40 8 0.08
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.31
Consensus pattern (37 bp):
TATCCGGGTTAAATCCCGCAGGCTTATGCTGGAATTA
Found at i:88826183 original size:22 final size:20
Alignment explanation
Indices: 88826126--88826183 Score: 53
Period size: 21 Copynumber: 2.8 Consensus size: 20
88826116 AGTGTTACTG
* *
88826126 CTTCACACGGGTATTTGCCT
1 CTTCACACGGGCATTTGCCC
* *
88826146 CTGTCACATGGCCATTTGCTACC
1 CT-TCACACGGGCATTTGC--CC
88826169 CTTCACACGGGCATT
1 CTTCACACGGGCATT
88826184 GGACCCCCAC
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
20 2 0.07
21 13 0.45
22 11 0.38
23 3 0.10
ACGTcount: A:0.17, C:0.33, G:0.19, T:0.31
Consensus pattern (20 bp):
CTTCACACGGGCATTTGCCC
Found at i:88833733 original size:45 final size:45
Alignment explanation
Indices: 88833669--88833759 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
88833659 AATGTGACAT
88833669 CTCCAGATTCGGCCATAACGTCCAGGCCGGGTTTGGGGTGTTACA
1 CTCCAGATTCGGCCATAACGTCCAGGCCGGGTTTGGGGTGTTACA
88833714 CTCCAGATTCGGCCATAACGTCCAGGCCGGGTTTGGGGTGTTACA
1 CTCCAGATTCGGCCATAACGTCCAGGCCGGGTTTGGGGTGTTACA
88833759 C
1 C
88833760 GCCCCTGTCA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.18, C:0.27, G:0.31, T:0.24
Consensus pattern (45 bp):
CTCCAGATTCGGCCATAACGTCCAGGCCGGGTTTGGGGTGTTACA
Found at i:88847446 original size:12 final size:12
Alignment explanation
Indices: 88847429--88847456 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
88847419 GCCCTTTCAA
88847429 TATCAATATCAG
1 TATCAATATCAG
88847441 TATCAATATCAG
1 TATCAATATCAG
88847453 TATC
1 TATC
88847457 CAACAACTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.39, C:0.18, G:0.07, T:0.36
Consensus pattern (12 bp):
TATCAATATCAG
Found at i:88852103 original size:12 final size:12
Alignment explanation
Indices: 88852086--88852113 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
88852076 AAAAATTCGC
88852086 AGTTATATGCTA
1 AGTTATATGCTA
88852098 AGTTATATGCTA
1 AGTTATATGCTA
88852110 AGTT
1 AGTT
88852114 CAGTAAGTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (12 bp):
AGTTATATGCTA
Found at i:88853634 original size:39 final size:40
Alignment explanation
Indices: 88853589--88853756 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
88853579 CGGGGTTTAG
* * *
88853589 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
88853628 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
88853668 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
88853708 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
88853749 CCGGATAT
1 CCGGATAT
88853757 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:88853739 original size:41 final size:40
Alignment explanation
Indices: 88853612--88853756 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
88853602 CTCGCACAAG
* * * * *
88853612 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
88853652 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
88853692 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
88853733 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
88853757 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:88861074 original size:42 final size:42
Alignment explanation
Indices: 88860956--88861117 Score: 218
Period size: 42 Copynumber: 3.8 Consensus size: 42
88860946 TACTTTTCCA
*
88860956 ATGCCATATCCCAGATATGGTCTTACATGTAA-TCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACACG-AAGTCTCATATTG
* * * *
88860998 ATTCCAATAGCCCAGCTATGGTCTTACACAAAGTCTCATATTG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAGTCTCATATTG
* * *
88861041 ATGCCATATCCCAAATATGGTCTTATACGAAGTCTCATACTG
1 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATTG
*
88861083 ATGCCATATCCCAGATATGGTCTTACACGTAGTCT
1 ATGCCATATCCCAGATATGGTCTTACACGAAGTCT
88861118 TAGTAACCCT
Statistics
Matches: 103, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
42 69 0.67
43 34 0.33
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATTG
Done.