Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 65 of 141
Found at i:19168248 original size:47 final size:47
Alignment explanation
Indices: 19168190--19168349 Score: 223
Period size: 47 Copynumber: 3.4 Consensus size: 47
19168180 AATGAGGAAG
* * *
19168190 AAGTGGAAGTTTATTTGCAAAAGTGGTGACTTGTCCACAATATTATA
1 AAGTGGCAGTTTATCTGCAAAAGTGGTGACTTGTCCATAATATTATA
* *
19168237 AAGTGGCAGTTTATCTGCAAAAGTGGTGACTTGTCCATAATTTTATT
1 AAGTGGCAGTTTATCTGCAAAAGTGGTGACTTGTCCATAATATTATA
* * **
19168284 AAGTGGCAGTTCATCTACAAAAGTGGTGGTTTGTCCATAATATTATTA
1 AAGTGGCAGTTTATCTGCAAAAGTGGTGACTTGTCCATAATATTA-TA
19168332 AA-TGGCAGTTTATCTGCA
1 AAGTGGCAGTTTATCTGCA
19168350 TTACTGTGAC
Statistics
Matches: 99, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
47 96 0.97
48 3 0.03
ACGTcount: A:0.31, C:0.12, G:0.21, T:0.36
Consensus pattern (47 bp):
AAGTGGCAGTTTATCTGCAAAAGTGGTGACTTGTCCATAATATTATA
Found at i:19169521 original size:21 final size:21
Alignment explanation
Indices: 19169496--19169537 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
19169486 ATACATGGTA
*
19169496 AAAGGTATTGATAATTTTTGT
1 AAAGGTATCGATAATTTTTGT
*
19169517 AAAGGTATCGATACTTTTTGT
1 AAAGGTATCGATAATTTTTGT
19169538 GTAAATTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.31, C:0.05, G:0.19, T:0.45
Consensus pattern (21 bp):
AAAGGTATCGATAATTTTTGT
Found at i:19169772 original size:22 final size:24
Alignment explanation
Indices: 19169747--19169790 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
19169737 ATTTTGTTCA
19169747 ACTTTAACTT-TTAT-TCAAAAAC
1 ACTTTAACTTGTTATATCAAAAAC
*
19169769 ACTTTAATTTGTTATATCAAAA
1 ACTTTAACTTGTTATATCAAAA
19169791 GATATTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.41, C:0.14, G:0.02, T:0.43
Consensus pattern (24 bp):
ACTTTAACTTGTTATATCAAAAAC
Found at i:19173508 original size:3 final size:3
Alignment explanation
Indices: 19173500--19173558 Score: 93
Period size: 3 Copynumber: 20.0 Consensus size: 3
19173490 TTTCATTTTC
* *
19173500 TCT TCT TCT TCT TCT TCT TCT TCT TCT TAT TCT TAT TCT TCT TCT TC-
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
19173547 TCT TCT TCT TCT
1 TCT TCT TCT TCT
19173559 ATTGCCCAGG
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
2 2 0.04
3 49 0.96
ACGTcount: A:0.03, C:0.31, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:19173974 original size:57 final size:56
Alignment explanation
Indices: 19173819--19173984 Score: 183
Period size: 56 Copynumber: 2.9 Consensus size: 56
19173809 GTTGGGTTAG
* * * * * * *
19173819 TGGTGGAAAAGAATAAAGAAAAAAAAGTGGTGGGCCATGGTATT-ATGAAGGGCTTG
1 TGGTGGAAAAGAATAAAG-ATAAATAGTGGTGGGCGAAGGCATTAATGAAGGGCATA
* * * *
19173875 TGGTGGAAAGGAA-AAAAATAAATAAGTGGTGGGCGAATGCATTAATGAAGTGCATA
1 TGGTGGAAAAGAATAAAGATAAAT-AGTGGTGGGCGAAGGCATTAATGAAGGGCATA
*
19173931 TGGTGGAAAAGAATAATGATGAAATAGTGGTGGGCGAAGGCATTAATGAAGGGC
1 TGGTGGAAAAGAATAAAGAT-AAATAGTGGTGGGCGAAGGCATTAATGAAGGGC
19173985 CTGTTGAACG
Statistics
Matches: 90, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
54 4 0.04
55 18 0.20
56 33 0.37
57 31 0.34
58 4 0.04
ACGTcount: A:0.40, C:0.05, G:0.34, T:0.21
Consensus pattern (56 bp):
TGGTGGAAAAGAATAAAGATAAATAGTGGTGGGCGAAGGCATTAATGAAGGGCATA
Found at i:19174032 original size:30 final size:30
Alignment explanation
Indices: 19173998--19174055 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
19173988 TTGAACGGTC
*
19173998 AAATGGGTTGCTAAGAAATGAAATTGGGTT
1 AAATGGGTTACTAAGAAATGAAATTGGGTT
*
19174028 AAATGGGTTATTAAGAAATGAAATTGGG
1 AAATGGGTTACTAAGAAATGAAATTGGG
19174056 CAAGATCCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.40, C:0.02, G:0.29, T:0.29
Consensus pattern (30 bp):
AAATGGGTTACTAAGAAATGAAATTGGGTT
Found at i:19174640 original size:15 final size:15
Alignment explanation
Indices: 19174620--19174649 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
19174610 TTAGTGGAGA
19174620 AAAAGCAGATTCGAT
1 AAAAGCAGATTCGAT
19174635 AAAAGCAGATTCGAT
1 AAAAGCAGATTCGAT
19174650 TATCGCAAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.20
Consensus pattern (15 bp):
AAAAGCAGATTCGAT
Found at i:19179552 original size:22 final size:22
Alignment explanation
Indices: 19179524--19179569 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
19179514 GGAAATCATT
19179524 TCCACTTCATTCAACCACTTGG
1 TCCACTTCATTCAACCACTTGG
19179546 TCCACTTCATTCAACCACTTGG
1 TCCACTTCATTCAACCACTTGG
19179568 TC
1 TC
19179570 TGAATTGGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.22, C:0.37, G:0.09, T:0.33
Consensus pattern (22 bp):
TCCACTTCATTCAACCACTTGG
Found at i:19182035 original size:17 final size:17
Alignment explanation
Indices: 19182001--19182044 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
19181991 GAAATTATTA
* *
19182001 AAATAAGTTTTTATATT
1 AAATAAGTTATTAAATT
19182018 AAATAAGTTATTAAATT
1 AAATAAGTTATTAAATT
*
19182035 -ATTAAGTTAT
1 AAATAAGTTAT
19182045 ATTATTAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 9 0.38
17 15 0.62
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (17 bp):
AAATAAGTTATTAAATT
Found at i:19183129 original size:100 final size:99
Alignment explanation
Indices: 19182934--19183148 Score: 317
Period size: 102 Copynumber: 2.2 Consensus size: 99
19182924 AGAGTACGAG
****
19182934 AAAAAGT-AAAAAAAAAATTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTTAAATTTTTTTT
1 AAAAAGTAAAAAAAAAAATTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTTAAA--TAAAAT
* * *
19182998 TTACTTTTTTTGTGTTAGATAAGATATCAGTATACAA
64 TTACTTTTTTCGTGTCAAATAAGATATCAGTATAC-A
19183035 AAAAAGTAAAAAAAAAAATTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTTTAAA-AAAATT
1 AAAAAGTAAAAAAAAAAATTGGTGGTGGCCTGGCAATGGCCGGCACCACC-TTTTAAATAAAATT
19183099 TACTTTTTTCGTGTCAAATAAGATATCAGTATACA
65 TACTTTTTTCGTGTCAAATAAGATATCAGTATACA
19183134 AAAAAGTAAAAAAAA
1 AAAAAGTAAAAAAAA
19183149 TTACTTTTTT
Statistics
Matches: 105, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
99 16 0.15
100 33 0.31
101 7 0.07
102 42 0.40
103 7 0.07
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (99 bp):
AAAAAGTAAAAAAAAAAATTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTTAAATAAAATTT
ACTTTTTTCGTGTCAAATAAGATATCAGTATACA
Found at i:19183149 original size:52 final size:52
Alignment explanation
Indices: 19183089--19183200 Score: 190
Period size: 51 Copynumber: 2.2 Consensus size: 52
19183079 ACCACCTTTT
*
19183089 TAAAAAAATTTACTTTTTTCGTGTCAAATAAGATATCAGTATAC-AAAAAAG
1 TAAAAAAAATTACTTTTTTCGTGTCAAATAAGATATCAGTATACGAAAAAAG
* *
19183140 TAAAAAAAATTACTTTTTTCGTGTCAGATAAGCTATCAGTATACGAAAAAAG
1 TAAAAAAAATTACTTTTTTCGTGTCAAATAAGATATCAGTATACGAAAAAAG
19183192 TAAAAAAAA
1 TAAAAAAAA
19183201 AATTGGTGGT
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
51 41 0.72
52 16 0.28
ACGTcount: A:0.49, C:0.10, G:0.11, T:0.30
Consensus pattern (52 bp):
TAAAAAAAATTACTTTTTTCGTGTCAAATAAGATATCAGTATACGAAAAAAG
Found at i:19185848 original size:97 final size:98
Alignment explanation
Indices: 19185661--19186113 Score: 504
Period size: 97 Copynumber: 4.5 Consensus size: 98
19185651 CCTATATATA
* * * *
19185661 TTTTAAAAAAGGTGGTGTCGGCCATTGGCAGGCCACCACTAAATTTTTTTTAACTTTTTTCGTAT
1 TTTTTAAAAAGGTGGTGCCGGCCATTGCCAGGCCACCAC-AAATTTTTTTTTACTTTTTTCGTAT
* *
19185726 ACTGATAGCTTATCTGATACGAAAAAAGTAATTT
65 ACTGATATCTTATCTGACACGAAAAAAGTAATTT
* * *
19185760 TTTTTAAAAAGGTGATGCCGGCCATTGGCAGGCCACCAC-AATTTTTTTTTACTTTTTTTGTATA
1 TTTTTAAAAAGGTGGTGCCGGCCATTGCCAGGCCACCACAAATTTTTTTTTACTTTTTTCGTATA
* * *
19185824 CTGATACCTTATTTGACACGAAAAAAGAAATTTT
66 CTGATATCTTATCTGACACGAAAAAAGTAA-TTT
* *
19185858 TTTTTAAAAAAAGGTGGCGCTGGCCATTGCCAGGCCACCACTAAAAAAAATAATTTTTTTTTTAC
1 TTTTT--AAAAAGGTGGTGCCGGCCATTGCCAGGCCACCAC--------A-AA-TTTTTTTTTAC
* * **
19185923 TTTTTTCGTATACTGATATCTTATCTGAAACGAAAAAATTAAAAAT
54 TTTTTTCGTATACTGATATCTTATCTGACACGAAAAAAGT-AATTT
* * *
19185969 TTTTT--AAAGGTGGTGCCGGCTATTTCCAGGCCACCACGAATTTTTTTTTACTTTTTTCGTATA
1 TTTTTAAAAAGGTGGTGCCGGCCATTGCCAGGCCACCACAAATTTTTTTTTACTTTTTTCGTATA
* *
19186032 CTAATATCTTATCTGACACGAAAAATGTAA-TT
66 CTGATATCTTATCTGACACGAAAAAAGTAATTT
*
19186064 TTTTT--AAAGGTGGTGCCGGCCATTTCCAGGCCACCACCAAATTTTTTTTT
1 TTTTTAAAAAGGTGGTGCCGGCCATTGCCAGGCCACCA-CAAATTTTTTTTT
19186114 TTTACTTTTT
Statistics
Matches: 305, Mismatches: 33, Indels: 35
0.82 0.09 0.09
Matches are distributed among these distances:
95 36 0.12
96 14 0.05
97 96 0.31
98 10 0.03
99 36 0.12
100 30 0.10
107 28 0.09
110 2 0.01
111 51 0.17
112 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (98 bp):
TTTTTAAAAAGGTGGTGCCGGCCATTGCCAGGCCACCACAAATTTTTTTTTACTTTTTTCGTATA
CTGATATCTTATCTGACACGAAAAAAGTAATTT
Found at i:19189119 original size:16 final size:16
Alignment explanation
Indices: 19189098--19189128 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19189088 CATATTAGAG
19189098 CATATAAATTTGAAAT
1 CATATAAATTTGAAAT
*
19189114 CATATATATTTGAAA
1 CATATAAATTTGAAA
19189129 ACTTTTTCAA
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:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (16 bp):
CATATAAATTTGAAAT
Found at i:19190113 original size:21 final size:22
Alignment explanation
Indices: 19190080--19190120 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
19190070 GAGGAGTTAG
19190080 ATTTTATTTTATTTTTATTAAA
1 ATTTTATTTTATTTTTATTAAA
19190102 ATTTTA-TTTATTTTTATTA
1 ATTTTATTTTATTTTTATTA
19190121 TTAAAAATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (22 bp):
ATTTTATTTTATTTTTATTAAA
Found at i:19191748 original size:15 final size:15
Alignment explanation
Indices: 19191728--19191767 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
19191718 ACAATAGGTG
19191728 GTTCGCAT-TCAATTA
1 GTTCGCATATC-ATTA
19191743 GTTCGCATATCATTA
1 GTTCGCATATCATTA
*
19191758 GTTCACATAT
1 GTTCGCATAT
19191768 AACAAACCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 21 0.91
16 2 0.09
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.40
Consensus pattern (15 bp):
GTTCGCATATCATTA
Found at i:19193956 original size:8 final size:8
Alignment explanation
Indices: 19193939--19193999 Score: 70
Period size: 8 Copynumber: 7.5 Consensus size: 8
19193929 AATACATAAA
19193939 TTTT-CTT
1 TTTTCCTT
19193946 TTTTCCTT
1 TTTTCCTT
19193954 TTTTCCTT
1 TTTTCCTT
*
19193962 TTTCCCTT
1 TTTTCCTT
19193970 TCTTTCCTT
1 T-TTTCCTT
**
19193979 TTATTATTT
1 TT-TTCCTT
19193988 TTTTCCTT
1 TTTTCCTT
19193996 TTTT
1 TTTT
19194000 TTTCTTTTTC
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
7 4 0.09
8 28 0.62
9 13 0.29
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.75
Consensus pattern (8 bp):
TTTTCCTT
Found at i:19193988 original size:25 final size:24
Alignment explanation
Indices: 19193943--19193999 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
19193933 CATAAATTTT
*
19193943 CTTTTTTCCTTTTTTCCTTTTTCC
1 CTTTTTTCCTTTTTTCATTTTTCC
*
19193967 CTTTCTTTCCTTTTATT-ATTTTTTTC
1 CTTT-TTTCCTTTT-TTCA-TTTTTCC
19193993 CTTTTTT
1 CTTTTTT
19194000 TTTCTTTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
24 4 0.14
25 12 0.43
26 12 0.43
ACGTcount: A:0.04, C:0.23, G:0.00, T:0.74
Consensus pattern (24 bp):
CTTTTTTCCTTTTTTCATTTTTCC
Found at i:19195957 original size:13 final size:13
Alignment explanation
Indices: 19195927--19195974 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
19195917 GTTGAGGAAA
* *
19195927 TAATTTAATTAAG
1 TAATTAAATTAAT
* *
19195940 AAATTAATTTAAT
1 TAATTAAATTAAT
19195953 TAATTAAATTAAT
1 TAATTAAATTAAT
*
19195966 TGATTAAAT
1 TAATTAAAT
19195975 AAATAATCTT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (13 bp):
TAATTAAATTAAT
Found at i:19210396 original size:43 final size:43
Alignment explanation
Indices: 19210335--19210458 Score: 153
Period size: 43 Copynumber: 2.9 Consensus size: 43
19210325 ATTTCTGAAA
*
19210335 TGTGTTTTCATGTAAGACCACGTCTGGGATGTTGGCATCGACT
1 TGTGTTTACATGTAAGACCACGTCTGGGATGTTGGCATCGACT
* * *
19210378 TGTGTTTACGTGTAAGACC-CTGTCTGGGATAG-TGGCGTCGATT
1 TGTGTTTACATGTAAGACCAC-GTCTGGGAT-GTTGGCATCGACT
* * *
19210421 TGTGATCACATGTAAGACCACGTTTGGGATGTTGGCAT
1 TGTGTTTACATGTAAGACCACGTCTGGGATGTTGGCAT
19210459 TGTACGAGCT
Statistics
Matches: 68, Mismatches: 9, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
42 2 0.03
43 64 0.94
44 2 0.03
ACGTcount: A:0.19, C:0.17, G:0.30, T:0.34
Consensus pattern (43 bp):
TGTGTTTACATGTAAGACCACGTCTGGGATGTTGGCATCGACT
Found at i:19228178 original size:37 final size:38
Alignment explanation
Indices: 19228080--19228171 Score: 141
Period size: 37 Copynumber: 2.4 Consensus size: 38
19228070 ATCACATAGC
*
19228080 ACGCCACACAGGCTTCACCGAATACGCCATTACAGAAT
1 ACGCCACACAGGCTTCACCAAATACGCCATTACAGAAT
* * *
19228118 ATGCCATACGGGCTTCACCAAATACG-CATTACAGAAT
1 ACGCCACACAGGCTTCACCAAATACGCCATTACAGAAT
19228155 ACGCCACACAGGCTTCA
1 ACGCCACACAGGCTTCA
19228172 GTAAATATAC
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
37 25 0.53
38 22 0.47
ACGTcount: A:0.34, C:0.33, G:0.16, T:0.17
Consensus pattern (38 bp):
ACGCCACACAGGCTTCACCAAATACGCCATTACAGAAT
Found at i:19229808 original size:26 final size:26
Alignment explanation
Indices: 19229778--19229848 Score: 108
Period size: 26 Copynumber: 2.8 Consensus size: 26
19229768 GAATTTTTTT
19229778 AAAATTTTATTGGGGGTAAAATCGTC
1 AAAATTTTATTGGGGGTAAAATCGTC
* *
19229804 AAAATTTTATCGGGGGTAAAATTGTC
1 AAAATTTTATTGGGGGTAAAATCGTC
*
19229830 AAAATTTTACT-GGGGTAAA
1 AAAATTTTATTGGGGGTAAA
19229849 TTTGGGGTGA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
25 8 0.20
26 33 0.80
ACGTcount: A:0.37, C:0.07, G:0.23, T:0.34
Consensus pattern (26 bp):
AAAATTTTATTGGGGGTAAAATCGTC
Found at i:19247382 original size:18 final size:19
Alignment explanation
Indices: 19247347--19247382 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
19247337 TCAAACTACA
*
19247347 AAAAAAAATCATTTTTTAG
1 AAAAAAAATCATTATTTAG
19247366 AAAAAAAAT-ATTATTTA
1 AAAAAAAATCATTATTTA
19247383 TCATTAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (19 bp):
AAAAAAAATCATTATTTAG
Found at i:19256197 original size:23 final size:22
Alignment explanation
Indices: 19256145--19256197 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
19256135 TCCTCGTCTT
*
19256145 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
19256167 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
19256190 TTTCTTTT
1 TTTCTTTT
19256198 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:19266842 original size:9 final size:9
Alignment explanation
Indices: 19266828--19266901 Score: 105
Period size: 9 Copynumber: 8.3 Consensus size: 9
19266818 TTTTGGTTAA
*
19266828 GAATTACCC
1 GAATTAACC
*
19266837 GAATTACCC
1 GAATTAACC
*
19266846 GAATTACCC
1 GAATTAACC
19266855 GAATTAACC
1 GAATTAACC
*
19266864 AAATTAACC
1 GAATTAACC
19266873 GAATTAACC
1 GAATTAACC
19266882 GAATTAACC
1 GAATTAACC
19266891 GAATT-ACC
1 GAATTAACC
19266899 GAA
1 GAA
19266902 AAATACCCGA
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
8 6 0.10
9 56 0.90
ACGTcount: A:0.42, C:0.26, G:0.11, T:0.22
Consensus pattern (9 bp):
GAATTAACC
Found at i:19271735 original size:7 final size:7
Alignment explanation
Indices: 19271723--19271747 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
19271713 TAGTCGATTC
19271723 GTATTTA
1 GTATTTA
19271730 GTATTTA
1 GTATTTA
19271737 GTATTTA
1 GTATTTA
19271744 GTAT
1 GTAT
19271748 ATAACTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (7 bp):
GTATTTA
Found at i:19274202 original size:127 final size:127
Alignment explanation
Indices: 19274050--19274468 Score: 675
Period size: 125 Copynumber: 3.3 Consensus size: 127
19274040 GCCAAATAGG
*
19274050 AACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTTAGTACTTTTGTTGACATTGCATCC
1 AACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTTAGTACTTTTGCTGACATTGCATCC
* *
19274115 TGCTTGAAGCATTTTTGACATTATTTGCTCAGAAACATCTTCTCAAAATTATTTTTTTCAGA
66 TGCTTGAAGCGTTTTTGACACTATTTGCTCAGAAACATCTTCTCAAAATTATTTTTTTCAGA
* * * *
19274177 AACTACTGTAGCAAAAGAGCGTCCACGTGAGAGCTTCTTTCAGTACTTTTGCTAACATTGCTTCC
1 AACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTTAGTACTTTTGCTGACATTGCATCC
*
19274242 TGCTTGAAGCGTTTTTGACACTATTTTCTCAGAAACATCTTCTCAAAA-T-TTTTTTTCAGA
66 TGCTTGAAGCGTTTTTGACACTATTTGCTCAGAAACATCTTCTCAAAATTATTTTTTTCAGA
* * * *
19274302 AACAACTGTAGTAAAACAGCGTCCACGTGGGAGCTTCTTTTAGTACTTTTGCTGACAATGCATCC
1 AACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTTAGTACTTTTGCTGACATTGCATCC
* *
19274367 TGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACATCTTCTCAAAATTA-TTTTTTCAGG
66 TGCTTGAAGCGTTTTTGACACTATTTGCTCAGAAACATCTTCTCAAAATTATTTTTTTCAGA
*
19274428 AACTATTGTAGCAAAAGAGCGTCCACGTGGGAGCTT-TTTTA
1 AACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTTA
19274469 AATTAACAAA
Statistics
Matches: 267, Mismatches: 23, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
125 119 0.45
126 43 0.16
127 105 0.39
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (127 bp):
AACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTTAGTACTTTTGCTGACATTGCATCC
TGCTTGAAGCGTTTTTGACACTATTTGCTCAGAAACATCTTCTCAAAATTATTTTTTTCAGA
Found at i:19274712 original size:99 final size:97
Alignment explanation
Indices: 19274507--19274940 Score: 498
Period size: 97 Copynumber: 4.4 Consensus size: 97
19274497 CTAAACCCTA
* * * *
19274507 AACCTTAAACCCTAATTTATTTGA-TTTTTCCTTAAAAACCCAAAACCCAAAACACTAAATCCTA
1 AACCCTAAACCCTAATTTATTTGATTTTTTCCTTAAAAACCCTAAACCCTAAACCCT-AAT-C--
** * *
19274571 ATATATATTTTTTTAAATTTATAATTAATTTACTCAAAT
62 -TA-AT-TTTTTAAAAATTTATAATTAATTTATTCAAGT
* * * *
19274610 AACCCCAAACCCTAATTTATTTGATTTTTTCTTTAAAAATCCTAAACACTAAACCCTAATCTAAT
1 AACCCTAAACCCTAATTTATTTGATTTTTTCCTTAAAAACCCTAAACCCTAAACCCTAATCTAA-
19274675 TTTTTTTAAAAATTTATAATTAATTTATTCAAGT
65 -TTTTTTAAAAATTTATAATTAATTTATTCAAGT
* *
19274709 AACCCTAAACCCTAATTTATTTGATTTTTTTCTTAAAAACCCTAAACCCTAAACTCTAATCTAAT
1 AACCCTAAACCCTAATTTATTTGATTTTTTCCTTAAAAACCCTAAACCCTAAACCCTAATCTAAT
19274774 TTTTTAAAAATTTATAATTAATTT-TCTCAAGT
66 TTTTTAAAAATTTATAATTAATTTAT-TCAAGT
* * * ** *
19274806 AACCTTAAACCCTAATTTATTTCATTTTTTCCTTAAAAACCATAAATGCTAAACCTTAATCTAAT
1 AACCCTAAACCCTAATTTATTTGATTTTTTCCTTAAAAACCCTAAACCCTAAACCCTAATCTAAT
** * *
19274871 TTTTTAAAAATTTATAATTAACCTAAACTCTA--
66 TTTTTAAAAATTTATAATTAA--TTTATTCAAGT
* *
19274903 AACCCTAAACCCTTATTTATTTAATTTTTTCCTTAAAA
1 AACCCTAAACCCTAATTTATTTGATTTTTTCCTTAAAA
19274941 CCTTAAAATC
Statistics
Matches: 291, Mismatches: 33, Indels: 20
0.85 0.10 0.06
Matches are distributed among these distances:
96 1 0.00
97 144 0.49
98 1 0.00
99 92 0.32
100 1 0.00
102 1 0.00
103 25 0.09
104 26 0.09
ACGTcount: A:0.39, C:0.18, G:0.01, T:0.41
Consensus pattern (97 bp):
AACCCTAAACCCTAATTTATTTGATTTTTTCCTTAAAAACCCTAAACCCTAAACCCTAATCTAAT
TTTTTAAAAATTTATAATTAATTTATTCAAGT
Found at i:19274860 original size:196 final size:198
Alignment explanation
Indices: 19274497--19274940 Score: 544
Period size: 196 Copynumber: 2.2 Consensus size: 198
19274487 TTAAGTAACC
* * *
19274497 CTAAACCCTAAACCTTAAACCCTAATTTATTTGA-TTTTTCCTTAAAAACCCAAAACCCAAAACA
1 CTAAACTCAAAACCCTAAACCCTAATTTATTTGATTTTTTCCTTAAAAACCCAAAACCCAAAACA
**
19274561 CTAAATCCTAATATATATTTTTTTAAATTTATAATTAATTTACTCAAATAACCCCAAACCCTAAT
66 CTAAATCC--ATATATATTTTTAAAAATTTATAATTAATTTACTCAAATAACCCCAAACCCTAAT
* *
19274626 TTATTTGATTTTTTCTTTAAAAATCCTAAACACTAAACCCTAATCTAATTTTTTTTAAAAATTTA
129 TTATTTCATTTTTTCCTTAAAAATCCTAAACACTAAACCCTAATCTAA--TTTTTTAAAAATTTA
19274691 TAATTAA
192 TAATTAA
** * * * *
19274698 -TTTATTCAAGTAACCCTAAACCCTAATTTATTTGATTTTTTTCTTAAAAACCCTAAACCCTAAA
1 CTAAACTCAA--AACCCTAAACCCTAATTTATTTGATTTTTTCCTTAAAAACCCAAAACCCAAAA
* * * **
19274762 CTCT-AAT-C-TA-AT-TTTTTAAAAATTTATAATTAATTTTCTCAAGTAACCTTAAACCCTAAT
64 CACTAAATCCATATATATTTTTAAAAATTTATAATTAATTTACTCAAATAACCCCAAACCCTAAT
** *
19274822 TTATTTCATTTTTTCCTTAAAAA-CCATAAATGCTAAACCTTAATCTAATTTTTTAAAAATTTAT
129 TTATTTCATTTTTTCCTTAAAAATCC-TAAACACTAAACCCTAATCTAATTTTTTAAAAATTTAT
19274886 AATTAA
193 AATTAA
* * *
19274892 CCTAAACTCTAAACCCTAAACCCTTATTTATTTAATTTTTTCCTTAAAA
1 -CTAAACTCAAAACCCTAAACCCTAATTTATTTGATTTTTTCCTTAAAA
19274941 CCTTAAAATC
Statistics
Matches: 209, Mismatches: 28, Indels: 19
0.82 0.11 0.07
Matches are distributed among these distances:
194 57 0.27
195 2 0.01
196 87 0.42
197 2 0.01
198 2 0.01
200 4 0.02
201 1 0.00
202 26 0.12
203 28 0.13
ACGTcount: A:0.39, C:0.19, G:0.01, T:0.41
Consensus pattern (198 bp):
CTAAACTCAAAACCCTAAACCCTAATTTATTTGATTTTTTCCTTAAAAACCCAAAACCCAAAACA
CTAAATCCATATATATTTTTAAAAATTTATAATTAATTTACTCAAATAACCCCAAACCCTAATTT
ATTTCATTTTTTCCTTAAAAATCCTAAACACTAAACCCTAATCTAATTTTTTAAAAATTTATAAT
TAA
Found at i:19275543 original size:11 final size:11
Alignment explanation
Indices: 19275517--19275584 Score: 56
Period size: 10 Copynumber: 6.3 Consensus size: 11
19275507 CCTCTCTCGT
19275517 AATTCCTCTC-
1 AATTCCTCTCA
19275527 AATTCCTCTCA
1 AATTCCTCTCA
19275538 AATTCCT-TCCAA
1 AATTCCTCT-C-A
19275550 AATT-CTCTCA
1 AATTCCTCTCA
*
19275560 AATTTCT-TCCAA
1 AATTCCTCT-C-A
19275572 AATT-CTCTCA
1 AATTCCTCTCA
19275582 AAT
1 AAT
19275585 CTATATTTAA
Statistics
Matches: 50, Mismatches: 0, Indels: 16
0.76 0.00 0.24
Matches are distributed among these distances:
10 21 0.42
11 17 0.34
12 12 0.24
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.38
Consensus pattern (11 bp):
AATTCCTCTCA
Found at i:19275557 original size:22 final size:22
Alignment explanation
Indices: 19275527--19275584 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
19275517 AATTCCTCTC
19275527 AATTCCTCTCAAATTCCTTCCAA
1 AATT-CTCTCAAATTCCTTCCAA
*
19275550 AATTCTCTCAAATTTCTTCCAA
1 AATTCTCTCAAATTCCTTCCAA
19275572 AATTCTCTCAAAT
1 AATTCTCTCAAAT
19275585 CTATATTTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 30 0.88
23 4 0.12
ACGTcount: A:0.33, C:0.29, G:0.00, T:0.38
Consensus pattern (22 bp):
AATTCTCTCAAATTCCTTCCAA
Found at i:19275611 original size:51 final size:52
Alignment explanation
Indices: 19275554--19275669 Score: 166
Period size: 51 Copynumber: 2.3 Consensus size: 52
19275544 TTCCAAAATT
* * *
19275554 CTCTCAAATTT-CTTCCAAAATTCTCTCAAATCTATATTTAATTTTAATTTC
1 CTCTCAAATTTCCTTCAAAAATTCTCTCAAATCCATATTTAATTTAAATTTC
19275605 CTCTC-AATTTCCTTCAAAAATTCTCTCAAATCCATATTTAATTTAAATTTC
1 CTCTCAAATTTCCTTCAAAAATTCTCTCAAATCCATATTTAATTTAAATTTC
* *
19275656 TTCTC-ACTTTCCTT
1 CTCTCAAATTTCCTT
19275670 TTTTAAAATA
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
50 5 0.08
51 54 0.92
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.47
Consensus pattern (52 bp):
CTCTCAAATTTCCTTCAAAAATTCTCTCAAATCCATATTTAATTTAAATTTC
Found at i:19277105 original size:23 final size:23
Alignment explanation
Indices: 19277047--19277115 Score: 81
Period size: 23 Copynumber: 3.1 Consensus size: 23
19277037 TCCAGTGGAT
19277047 CCTAATTTAATTAAAAGCCCTAAA
1 CCTAATTTAATTAAAAGCCCT-AA
* *
19277071 CC---CTTAAATAAAAGCCCTAA
1 CCTAATTTAATTAAAAGCCCTAA
*
19277091 CCTAATTTAATTAAAAACCCTAA
1 CCTAATTTAATTAAAAGCCCTAA
19277114 CC
1 CC
19277116 CTAACCTAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
20 4 0.11
21 14 0.38
23 17 0.46
24 2 0.05
ACGTcount: A:0.45, C:0.26, G:0.03, T:0.26
Consensus pattern (23 bp):
CCTAATTTAATTAAAAGCCCTAA
Found at i:19277125 original size:24 final size:23
Alignment explanation
Indices: 19277079--19277126 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
19277069 AACCCTTAAA
* **
19277079 TAAAAGCCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAACCTAAT
19277102 TAAAAACCCTAACCCTAACCTAAT
1 TAAAAACCCTAA-CCTAACCTAAT
19277126 T
1 T
19277127 CATTTAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.44, C:0.27, G:0.02, T:0.27
Consensus pattern (23 bp):
TAAAAACCCTAACCTAACCTAAT
Found at i:19279595 original size:125 final size:124
Alignment explanation
Indices: 19279292--19279642 Score: 420
Period size: 125 Copynumber: 2.8 Consensus size: 124
19279282 CCCAAACATA
* * * * *
19279292 CTACTGTAGAAAAATCGCGTCCACAAGGGCGCGATTTCACAAATTCTTCCCAAATAGCATCCTGG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
*
19279357 TATAAGCGATTTTATATTATTTACAT-AGAAACGTCAAAAAAAATTATAGATTAAAAGAC
66 TAAAAGCGATTTTATATTATTTAC-TCAGAAACGTCAAAAAAAATTATAGATTAAAAGAC
* * * * * *
19279416 CTACTGTAGCAAAAGCGC-ACTGATGAGGCCGCAATTTCACAAATTGTTCTCAAATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTC-CACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTG
* * * * *** ****
19279480 CTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAATAGTTATTTCTTCTGTGAC
65 CTAAAAGCGATTTTATATTATTTACTCAGAAACGTCAAAAAA-AATTATAGATTAAAAGAC
*
19279541 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATACCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
*
19279606 TAAAAGTGATTTTATATTATTTTA-TCAGAAACGTCAA
66 TAAAAGCGATTTTATATTA-TTTACTCAGAAACGTCAA
19279643 CTCAAAATTA
Statistics
Matches: 189, Mismatches: 33, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
123 2 0.01
124 88 0.47
125 95 0.50
126 4 0.02
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.29
Consensus pattern (124 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAAAAGCGATTTTATATTATTTACTCAGAAACGTCAAAAAAAATTATAGATTAAAAGAC
Found at i:19282744 original size:22 final size:22
Alignment explanation
Indices: 19282695--19282759 Score: 71
Period size: 22 Copynumber: 2.9 Consensus size: 22
19282685 GCTTAATATT
19282695 ATTTTAAATTTA-T-TATTAAC
1 ATTTTAAATTTATTGTATTAAC
*
19282715 ATTGTTTAAATTTATTGTATTACC
1 A-T-TTTAAATTTATTGTATTAAC
*
19282739 ATTTTAATTTTATATGTATTA
1 ATTTTAAATTTAT-TGTATTA
19282760 TTTTTCTAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
20 1 0.03
21 1 0.03
22 20 0.53
23 9 0.24
24 7 0.18
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.57
Consensus pattern (22 bp):
ATTTTAAATTTATTGTATTAAC
Found at i:19282954 original size:18 final size:17
Alignment explanation
Indices: 19282931--19282974 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
19282921 TTATGTAGTA
19282931 TTTATTTTTAACTATATT
1 TTTATTTTTAA-TATATT
* *
19282949 TTTATTTATTTATTTATT
1 TTTATTT-TTAATATATT
19282967 TTTATTTT
1 TTTATTTT
19282975 CCAAATTCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 1 0.04
18 19 0.83
19 3 0.13
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTATTTTTAATATATT
Found at i:19286519 original size:24 final size:24
Alignment explanation
Indices: 19286500--19286545 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
19286490 ATTTTTGAGC
19286500 CAATT-TTCATTCATTCTTTTCGAA
1 CAATTATTCATTCATTCTTTT-GAA
* *
19286524 TAATTATTCTTTCATTCTTTTG
1 CAATTATTCATTCATTCTTTTG
19286546 GATTTTCTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 5 0.26
25 14 0.74
ACGTcount: A:0.22, C:0.17, G:0.04, T:0.57
Consensus pattern (24 bp):
CAATTATTCATTCATTCTTTTGAA
Found at i:19287355 original size:13 final size:13
Alignment explanation
Indices: 19287333--19287375 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
19287323 TCAAGAAATC
*
19287333 AAAATCAAAAAAG
1 AAAATGAAAAAAG
19287346 AAAATGAAAAAAG
1 AAAATGAAAAAAG
* *
19287359 AAAAAGAACAAA-
1 AAAATGAAAAAAG
19287371 AAAAT
1 AAAAT
19287376 AACAAAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
12 4 0.15
13 22 0.85
ACGTcount: A:0.79, C:0.05, G:0.09, T:0.07
Consensus pattern (13 bp):
AAAATGAAAAAAG
Found at i:19289669 original size:45 final size:45
Alignment explanation
Indices: 19289609--19289739 Score: 192
Period size: 45 Copynumber: 2.9 Consensus size: 45
19289599 GAAATAGGTT
* *
19289609 GAAGATAGCAGATCTTGTCTTTCTGTATTGGCAGCAAAGTAGATC
1 GAAGATAGCAAATCTTGTCTTTCTGTATTGGCAGCGAAGTAGATC
*
19289654 GAAGTTAGCAAATCTTGTC-TTCTTGTATTGGCAGCGAAGTAGATC
1 GAAGATAGCAAATCTTGTCTTTC-TGTATTGGCAGCGAAGTAGATC
** *
19289699 GAAGATATAAAATCTTGTCTTCCTGTATTGGCAGCGAAGTA
1 GAAGATAGCAAATCTTGTCTTTCTGTATTGGCAGCGAAGTA
19289740 AATTGAGGTC
Statistics
Matches: 77, Mismatches: 7, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
44 3 0.04
45 72 0.94
46 2 0.03
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (45 bp):
GAAGATAGCAAATCTTGTCTTTCTGTATTGGCAGCGAAGTAGATC
Found at i:19289852 original size:88 final size:87
Alignment explanation
Indices: 19289578--19289880 Score: 259
Period size: 88 Copynumber: 3.4 Consensus size: 87
19289568 ACCACAAAGC
* *
19289578 CTTATCTCCCTGAGCAGCAGTGAAATAGGTTGAAGATAGCAGATCTTGTCTTTCTGTATTGGCAG
1 CTTATCTCCCTGAGCAGCAGTGAAGTAGGTTGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAG
* * * * *
19289643 CAAAGTAGATCGAAGTTAGCAAAT
66 CGAAGTAGATCGAA--AACCACAG
* * * *** * * * ** *
19289667 CTTGTCTTCTTGTATTGGCAGCGAAGTAGATCGAAGATATAAAATCTTGTCTTCCTGTATTGGCA
1 CTTATCTCCCTG-AGCAGCAGTGAAGTAGGTTGAAGATAGCAGATCTTGTCTTCCTGTATTGGCA
* * ***
19289732 GCGAAGTAAATTG-AGGTCACAAG
65 GCGAAGTAGATCGAAAACCAC-AG
* * * *
19289755 CCTTGTCTCCCTGAGCAGCAATGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCA
1 -CTTATCTCCCTGAGCAGCAGTGAAGTAGGTTGAAGATAGCAGATCTTGTCTTCCTGTATTGGCA
19289820 GCGAAGTAGATCGAAAACCACAG
65 GCGAAGTAGATCGAAAACCACAG
* *
19289843 CTTTATCTCCCTAAGCAGTAGT-AGAGTAGGTTGAAGAT
1 C-TTATCTCCCTGAGCAGCAGTGA-AGTAGGTTGAAGAT
19289881 TGTAGATCCT
Statistics
Matches: 161, Mismatches: 47, Indels: 13
0.73 0.21 0.06
Matches are distributed among these distances:
87 3 0.02
88 83 0.52
89 24 0.15
90 51 0.32
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (87 bp):
CTTATCTCCCTGAGCAGCAGTGAAGTAGGTTGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAG
CGAAGTAGATCGAAAACCACAG
Found at i:19289896 original size:44 final size:44
Alignment explanation
Indices: 19289846--19289952 Score: 214
Period size: 44 Copynumber: 2.4 Consensus size: 44
19289836 ACCACAGCTT
19289846 TATCTCCCTAAGCAGTAGTAGAGTAGGTTGAAGATTGTAGATCC
1 TATCTCCCTAAGCAGTAGTAGAGTAGGTTGAAGATTGTAGATCC
19289890 TATCTCCCTAAGCAGTAGTAGAGTAGGTTGAAGATTGTAGATCC
1 TATCTCCCTAAGCAGTAGTAGAGTAGGTTGAAGATTGTAGATCC
19289934 TATCTCCCTAAGCAGTAGT
1 TATCTCCCTAAGCAGTAGT
19289953 GGAGCAGATC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 63 1.00
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (44 bp):
TATCTCCCTAAGCAGTAGTAGAGTAGGTTGAAGATTGTAGATCC
Found at i:19290023 original size:132 final size:132
Alignment explanation
Indices: 19289886--19290489 Score: 895
Period size: 132 Copynumber: 4.6 Consensus size: 132
19289876 AAGATTGTAG
* * *
19289886 ATCCTATCTCCCTAAGCAGTAGTAGAGTAGGTTGAAGATTGTAGATCCTATCTCCCTAAGCAGTA
1 ATCCTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTA
* *
19289951 GTGGAGCAGATCAAAAACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGGTTTAAGCCAC
66 GTGGAGCAGATCAAAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCAC
19290016 CA
131 CA
* * *
19290018 GTCCTATCTCCCTTACCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTA
1 ATCCTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTA
* *
19290083 GTGGAGCAGATCAAAGACGGTGAATCTTATCTTCCCAATGTAGTAGGGAAGCATG-TTTAAGCTA
66 GTGGAGCAGATCAAAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCA-GATTTAAGCCA
19290147 CCA
130 CCA
* ** * * * *
19290150 GTTTTGTCTCCCTGAGCAACAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTTCCTAAGCAGTA
1 ATCCTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTA
19290215 GTGGAGCAGATCAAAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCAC
66 GTGGAGCAGATCAAAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCAC
19290280 CA
131 CA
* * * * * * *
19290282 ATCCTATCTCCCTAAACAGCAATGGAGTAGGTTGAAGAATGCAGATCCCGTATCCCTAAGCAATA
1 ATCCTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTA
* * * *
19290347 GTGGAGCAGATCAAAGACGGTGAATTTTATATTCCCAAGGTAGTAGGGAATCAGATTTAAACCAC
66 GTGGAGCAGATCAAAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCAC
19290412 CA
131 CA
** * *
19290414 ATCCTATCTCCCTAAGCAATAGTGGAGTAAGTTGAAGATTGTAGATCATGTCTCCCTAAGCAGTA
1 ATCCTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTA
*
19290479 GTGGAGAAGAT
66 GTGGAGCAGAT
19290490 AGAAGGCAGC
Statistics
Matches: 422, Mismatches: 48, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
131 1 0.00
132 420 1.00
133 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (132 bp):
ATCCTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTA
GTGGAGCAGATCAAAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCAC
CA
Found at i:19293730 original size:89 final size:89
Alignment explanation
Indices: 19293573--19293856 Score: 338
Period size: 89 Copynumber: 3.2 Consensus size: 89
19293563 ACTATAAGCT
* * * * * * *
19293573 TTGCCTCCCTGAGTTTGCAGTGAAGCAAACTAAAGATAACAGATCATGCCTTCCTATACTGACT-
1 TTGCCTCCCTGAGTTTGTAGTGGAGCAGACTAAAGATAACAGATCTTGTCTTCCTGTACTG-GTA
* *
19293637 GTGAAGCATATCGAAGACACTAGCC
65 GTGAAGCAGATCGAAGACACCAGCC
* * * *
19293662 TTGCCTCTCTGAGTTTGTAGCGGAGCAGACTAAAGATAGCAGATCTTGTCTTCCTGTATTGGTAG
1 TTGCCTCCCTGAGTTTGTAGTGGAGCAGACTAAAGATAACAGATCTTGTCTTCCTGTACTGGTAG
*
19293727 TGAAACAGATCGAAGACACCAGCC
66 TGAAGCAGATCGAAGACACCAGCC
* * * * *
19293751 TTGCCTCCCTGAGTTTGTAGTAGAGCAGACTGAAA-ACAACAAATCTTGTCTTCTTGTACTGGCA
1 TTGCCTCCCTGAGTTTGTAGTGGAGCAGACT-AAAGATAACAGATCTTGTCTTCCTGTACTGGTA
*
19293815 GTGAAGCAGATCGAAAACACCAGCC
65 GTGAAGCAGATCGAAGACACCAGCC
* *
19293840 TTGCCTCTCTGGGTTTG
1 TTGCCTCCCTGAGTTTG
19293857 CGGTGGAGTA
Statistics
Matches: 166, Mismatches: 27, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
88 1 0.01
89 162 0.98
90 3 0.02
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (89 bp):
TTGCCTCCCTGAGTTTGTAGTGGAGCAGACTAAAGATAACAGATCTTGTCTTCCTGTACTGGTAG
TGAAGCAGATCGAAGACACCAGCC
Found at i:19294161 original size:85 final size:84
Alignment explanation
Indices: 19294056--19294305 Score: 250
Period size: 85 Copynumber: 2.9 Consensus size: 84
19294046 TTAAAACCAC
*
19294056 AGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCCAGTCTTATCTCTCTGAAGTTGTAG
1 AGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGTAG
* *
19294121 TGGGGCAGACTAAAGACGGT
66 TGGAGCAGACTAAAG-CGCT
* * * * * * * * *
19294141 -GAATCTTATCTCCCTAAAGTTGCAACAGAGTAGATTGAAGCCAATAATCCTATCTCCCTGAAGT
1 AG-ATCTTATCTCTCTGAAGTTGC-AGAGAGCAGATCGCATCC---AGTCTTATCTCCCTGAAGT
* *
19294205 TGTAGTGGAGCAGATTAAAGTGCT
61 TGTAGTGGAGCAGACTAAAGCGCT
* * * **
19294229 AGATATTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCTAGTCTTATCTCCCTAAAGTTACA
1 AGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGTA
*
19294294 GTAGAGCAGACT
65 GTGGAGCAGACT
19294306 GAATAAACCA
Statistics
Matches: 128, Mismatches: 30, Indels: 14
0.74 0.17 0.08
Matches are distributed among these distances:
84 1 0.01
85 47 0.37
86 13 0.10
87 1 0.01
88 31 0.24
89 35 0.27
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (84 bp):
AGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGTAG
TGGAGCAGACTAAAGCGCT
Found at i:19294220 original size:44 final size:45
Alignment explanation
Indices: 19294102--19294224 Score: 113
Period size: 44 Copynumber: 2.8 Consensus size: 45
19294092 CATCCAGTCT
* * * ** *
19294102 TATCTCTCTGAAGTTGTAGTGGGGCAGACTAAAGACGGTGAATCT
1 TATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGACAATGAATCC
* * *** * * *
19294147 TATCTCCCTAAAGTTGCAACAGAGTAGATTGAAGCCAAT-AATCC
1 TATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGACAATGAATCC
19294191 TATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAG
1 TATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAG
19294225 TGCTAGATAT
Statistics
Matches: 57, Mismatches: 21, Indels: 1
0.72 0.27 0.01
Matches are distributed among these distances:
44 31 0.54
45 26 0.46
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.28
Consensus pattern (45 bp):
TATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGACAATGAATCC
Found at i:19294321 original size:173 final size:170
Alignment explanation
Indices: 19294013--19294481 Score: 507
Period size: 173 Copynumber: 2.7 Consensus size: 170
19294003 TGAAGAAACC
* ** *
19294013 AATCCTATCTCCCCGAAGTTGCAGTAGAGCGAATTAAAACCACAGATCTTATCTCTCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTAGAGCG-ATTAAATGC-TAGATCTTATCTCTCTGAAGTTG
* * * * * *
19294078 CAGAGAGCAGATCGCATCCAGTCTTATCTCTCTGAAGTTGTAGTGGGGCAGACT-AAAGACGGTG
64 CAGAGAGCAGATCGCATCAAGTCTTATCTCCCTGAAGTTGTAGTAGAGCAGACTGAAAAAC-G-C
* * *
19294142 AATCTTATCTCCCTAAAGTTGCAACAGAGTAGATTGAAGCCAAT
127 AATCTTATCTCCCTAAAGTAGCAACAGAGTAGATTAAAACCAAT
* * *
19294186 AATCCTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGTGCTAGATATTATCTCTCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTAGAGC-GATTAAA-TGCTAGATCTTATCTCTCTGAAGTTG
* * **
19294251 CAGTAGAGCAGATCGCATCTAGTCTTATCTCCCTAAAGTTACAGTAGAGCAGACTGAATAAAC-C
64 CAG-AGAGCAGATCGCATCAAGTCTTATCTCCCTGAAGTTGTAGTAGAGCAGACTGAA-AAACGC
* * ****
19294315 AATCTTATCTCCTTGAAGTAGTTGTAGAGTAGATTAAAACCAAT
127 AATCTTATCTCCCTAAAGTAGCAACAGAGTAGATTAAAACCAAT
* * *
19294359 AATCCTATCTCTCTGAAGTTGCAGTTA-ATTGC-ATTAAAATGATGGATCTTATCTCTCTGAAGT
1 AATCCTATCTCCCTGAAGTTGCAG-TAGA--GCGATT-AAATGCTAGATCTTATCTCTCTGAAGT
*
19294422 TGCAGCAGAGCAGATCGC-TACAAGTCTTATCTCCCTGAAGTTGTAGTAAAGCAGACTGAA
62 TGCAG-AGAGCAGATCGCAT-CAAGTCTTATCTCCCTGAAGTTGTAGTAGAGCAGACTGAA
19294482 GATAGCAAAT
Statistics
Matches: 249, Mismatches: 37, Indels: 20
0.81 0.12 0.07
Matches are distributed among these distances:
172 1 0.00
173 191 0.77
174 50 0.20
175 4 0.02
176 3 0.01
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (170 bp):
AATCCTATCTCCCTGAAGTTGCAGTAGAGCGATTAAATGCTAGATCTTATCTCTCTGAAGTTGCA
GAGAGCAGATCGCATCAAGTCTTATCTCCCTGAAGTTGTAGTAGAGCAGACTGAAAAACGCAATC
TTATCTCCCTAAAGTAGCAACAGAGTAGATTAAAACCAAT
Found at i:19295935 original size:23 final size:22
Alignment explanation
Indices: 19295871--19296017 Score: 79
Period size: 23 Copynumber: 6.5 Consensus size: 22
19295861 AGTGTATTGT
* *
19295871 ATATTATTATTTTAGATTTATC
1 ATATTACTATTTTAAATTTATC
* *
19295893 ATGTTGTATTATTTGT-AATTTATC
1 AT-AT-TACTATTT-TAAATTTATC
*
19295917 AATATTACTATTTTAAATTCATC
1 -ATATTACTATTTTAAATTTATC
* *
19295940 GT-TAACATTATTTTAAATTTATC
1 ATATTAC--TATTTTAAATTTATC
* *
19295963 ATGTATATCTATTTCAAATTTAT-
1 ATAT-TA-CTATTTTAAATTTATC
* *
19295986 -TATTAATATTTTCAAATTTATT
1 ATATTACTATTTT-AAATTTATC
19296008 ATA-TACTATT
1 ATATTACTATT
19296018 ATTTTTGGAT
Statistics
Matches: 97, Mismatches: 15, Indels: 26
0.70 0.11 0.19
Matches are distributed among these distances:
20 5 0.05
21 13 0.13
22 12 0.12
23 32 0.33
24 30 0.31
25 4 0.04
26 1 0.01
ACGTcount: A:0.34, C:0.07, G:0.04, T:0.54
Consensus pattern (22 bp):
ATATTACTATTTTAAATTTATC
Found at i:19296000 original size:21 final size:23
Alignment explanation
Indices: 19295948--19296009 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 23
19295938 TCGTTAACAT
*
19295948 TATTTT-AAATTTATCATGTATA
1 TATTTTCAAATTTATTATGTATA
*
19295970 TCTATTTCAAATTTATTAT-TA-A
1 TAT-TTTCAAATTTATTATGTATA
19295992 TATTTTCAAATTTATTAT
1 TATTTTCAAATTTATTAT
19296010 ATACTATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
21 15 0.43
22 5 0.14
23 5 0.14
24 10 0.29
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.56
Consensus pattern (23 bp):
TATTTTCAAATTTATTATGTATA
Found at i:19296019 original size:115 final size:116
Alignment explanation
Indices: 19295899--19296112 Score: 251
Period size: 115 Copynumber: 1.9 Consensus size: 116
19295889 TATCATGTTG
* * * * *
19295899 TATTATTTGT-AATTTATCA-ATATTACTATTTTA-AATTCATCGTTAACATTATTTTAAA-TTT
1 TATTATTTGTGAATTTATCACATATGACTATTCTAGAATT-ATCATCAA-AAT-TTTTAAATTTT
19295960 ATCATGTA-TATCTATTTCAAATTTATTAT-TAATATTTTCAAATTTATTATATAC
63 AT-ATGTATTAT-TATTTCAAATTTATTATATAATATTTTCAAATTTATTATATAC
* * * *
19296014 TATTATTTTTGGATTTATCACGTATGATTATTCTAGAATTATCATCAAAATTTTTAAATTTTATA
1 TATTATTTGTGAATTTATCACATATGACTATTCTAGAATTATCATCAAAATTTTTAAATTTTATA
*
19296079 TGTATTATTATTTCAAATTTATTATATATTATTT
66 TGTATTATTATTTCAAATTTATTATATAATATTT
19296113 ATTGTAAATT
Statistics
Matches: 83, Mismatches: 10, Indels: 11
0.80 0.10 0.11
Matches are distributed among these distances:
115 38 0.46
116 25 0.30
117 16 0.19
118 4 0.05
ACGTcount: A:0.35, C:0.07, G:0.04, T:0.54
Consensus pattern (116 bp):
TATTATTTGTGAATTTATCACATATGACTATTCTAGAATTATCATCAAAATTTTTAAATTTTATA
TGTATTATTATTTCAAATTTATTATATAATATTTTCAAATTTATTATATAC
Found at i:19296124 original size:24 final size:23
Alignment explanation
Indices: 19296066--19296124 Score: 59
Period size: 24 Copynumber: 2.4 Consensus size: 23
19296056 CATCAAAATT
19296066 TTTAAATT-TTATATGTATTATTA
1 TTTAAATTATTATA-GTATTATTA
19296089 TTTCAAATTTATTATA-TATTATTTA
1 TTT-AAA-TTATTATAGTATTA-TTA
19296114 TTGTAAATTAT
1 TT-TAAATTAT
19296125 CCAATTCATT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
23 3 0.10
24 12 0.39
25 10 0.32
26 6 0.19
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (23 bp):
TTTAAATTATTATAGTATTATTA
Found at i:19296263 original size:3 final size:3
Alignment explanation
Indices: 19296255--19296281 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
19296245 TACATATTAC
19296255 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
19296282 CTATATAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:19296738 original size:20 final size:20
Alignment explanation
Indices: 19296713--19296750 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
19296703 TTTATATCAT
19296713 TGTTAATATTGCATTAAACC
1 TGTTAATATTGCATTAAACC
19296733 TGTTAATATTGCATTAAA
1 TGTTAATATTGCATTAAA
19296751 ACTTCGCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.42
Consensus pattern (20 bp):
TGTTAATATTGCATTAAACC
Found at i:19301476 original size:14 final size:14
Alignment explanation
Indices: 19301457--19301484 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
19301447 CGTCTTAGTA
19301457 AATCTATTACATTC
1 AATCTATTACATTC
19301471 AATCTATTACATTC
1 AATCTATTACATTC
19301485 CCCGAAGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.43
Consensus pattern (14 bp):
AATCTATTACATTC
Found at i:19308164 original size:18 final size:18
Alignment explanation
Indices: 19308134--19308185 Score: 77
Period size: 18 Copynumber: 2.8 Consensus size: 18
19308124 TAAATGATTT
19308134 TTTTAATTAAGTAATAATA
1 TTTTAA-TAAGTAATAATA
19308153 TTTTAATAAGTAATAATA
1 TTTTAATAAGTAATAATA
* *
19308171 TTTTATTAATTAATA
1 TTTTAATAAGTAATA
19308186 TTATAATACA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
18 25 0.81
19 6 0.19
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (18 bp):
TTTTAATAAGTAATAATA
Found at i:19309188 original size:16 final size:17
Alignment explanation
Indices: 19309171--19309203 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
19309161 GACAGAATTG
19309171 AAATGAGAATT-AAATGA
1 AAAT-AGAATTGAAATGA
19309188 AAATAGAATTGAAATG
1 AAATAGAATTGAAATG
19309204 GATCATGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.58, C:0.00, G:0.18, T:0.24
Consensus pattern (17 bp):
AAATAGAATTGAAATGA
Found at i:19313872 original size:33 final size:33
Alignment explanation
Indices: 19313821--19313885 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
19313811 ATCATTCTCA
19313821 TAAATAATTCTTAACTCAACCTATTTTTGTAAG
1 TAAATAATTCTTAACTCAACCTATTTTTGTAAG
* *
19313854 TAAATAATTGTTATCTCAACCTATTTTTGTAA
1 TAAATAATTCTTAACTCAACCTATTTTTGTAA
19313886 ATAATTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.35, C:0.14, G:0.06, T:0.45
Consensus pattern (33 bp):
TAAATAATTCTTAACTCAACCTATTTTTGTAAG
Found at i:19314095 original size:16 final size:16
Alignment explanation
Indices: 19314074--19314109 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
19314064 CTATTAAAAT
* *
19314074 AAAAATTACAAACACA
1 AAAAATAACAAAAACA
19314090 AAAAATAACAAAAACA
1 AAAAATAACAAAAACA
19314106 AAAA
1 AAAA
19314110 CTTCAATCAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.78, C:0.14, G:0.00, T:0.08
Consensus pattern (16 bp):
AAAAATAACAAAAACA
Found at i:19329188 original size:32 final size:32
Alignment explanation
Indices: 19329152--19329212 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
19329142 AAATAAACAC
19329152 ATAATTATTCATTT-AATA-TTATAACTATTCAA
1 ATAA-TATT-ATTTAAATAGTTATAACTATTCAA
*
19329184 ATAATATTATTTAAATAGTTATAATTATT
1 ATAATATTATTTAAATAGTTATAACTATT
19329213 TTTCAAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 4 0.15
31 8 0.31
32 14 0.54
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (32 bp):
ATAATATTATTTAAATAGTTATAACTATTCAA
Found at i:19329374 original size:32 final size:32
Alignment explanation
Indices: 19329332--19329392 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
19329322 TTTTTTGAAA
19329332 AATAATTATAACTATTTAAAT-AAT-ATTATTTG
1 AATAATTATAA-TA-TTAAATGAATAATTATTTG
*
19329364 AATAGTTATAATATTAAATGAATAATTAT
1 AATAATTATAATATTAAATGAATAATTAT
19329393 GTGTTTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 6 0.23
31 5 0.19
32 15 0.58
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (32 bp):
AATAATTATAATATTAAATGAATAATTATTTG
Found at i:19329385 original size:20 final size:20
Alignment explanation
Indices: 19329351--19329392 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
19329341 AACTATTTAA
** *
19329351 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
19329371 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
19329391 AT
1 AT
19329393 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:19329522 original size:25 final size:25
Alignment explanation
Indices: 19329490--19329542 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
19329480 GGAATGGAAT
19329490 TTCATCTAGAAAACACACCAACAAA
1 TTCATCTAGAAAACACACCAACAAA
19329515 TTCATCTAGAAAACACACCAACAAA
1 TTCATCTAGAAAACACACCAACAAA
19329540 TTC
1 TTC
19329543 TAATATTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.49, C:0.28, G:0.04, T:0.19
Consensus pattern (25 bp):
TTCATCTAGAAAACACACCAACAAA
Found at i:19333613 original size:27 final size:27
Alignment explanation
Indices: 19333583--19333952 Score: 185
Period size: 27 Copynumber: 13.7 Consensus size: 27
19333573 ATCTCCTAGA
19333583 GGTATAAT-AATCATTTTACCCTATGAG
1 GGTAT-ATCAATCATTTTACCCTATGAG
* * *
19333610 GGTAT-TTAGGTCATTTTACCCTATGGG
1 GGTATATCA-ATCATTTTACCCTATGAG
* * * *
19333637 GGTATTTCGATCATTCTACCCTATGGG
1 GGTATATCAATCATTTTACCCTATGAG
** * *
19333664 GGTATATCGGTTACTTTACCCTATGAG
1 GGTATATCAATCATTTTACCCTATGAG
* * * *
19333691 GGTATTTCAGTCATTTTATCCTAT-AA
1 GGTATATCAATCATTTTACCCTATGAG
* * ** * *
19333717 GATATTTCGGTCATTTTATCCTATGGG
1 GGTATATCAATCATTTTACCCTATGAG
* ** * * *
19333744 GGTATTTCGGTTATTCTACCCTATGGG
1 GGTATATCAATCATTTTACCCTATGAG
* *
19333771 GGTATTTCGATCATTTTACCCTAT-AGG
1 GGTATATCAATCATTTTACCCTATGA-G
* * * * *
19333798 GGTATTTCAGTCATTATATCCTATGGG
1 GGTATATCAATCATTTTACCCTATGAG
* ** * * * *
19333825 GGTATTTCGGTCATTCTATCGTATGGG
1 GGTATATCAATCATTTTACCCTATGAG
* *
19333852 GGTATTTCAATCATTCTACCCTAT-AGG
1 GGTATATCAATCATTTTACCCTATGA-G
* * *
19333879 GGTATTTCGATCATTTTACCCTATGGG
1 GGTATATCAATCATTTTACCCTATGAG
* * *
19333906 GGTATTTCGATCATTCTACCCTATG-G
1 GGTATATCAATCATTTTACCCTATGAG
* * *
19333932 GGATATTTCGATTATTTTACC
1 GG-TATATCAATCATTTTACC
19333953 TATTTTAGGG
Statistics
Matches: 285, Mismatches: 49, Indels: 18
0.81 0.14 0.05
Matches are distributed among these distances:
25 1 0.00
26 27 0.09
27 256 0.90
28 1 0.00
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.41
Consensus pattern (27 bp):
GGTATATCAATCATTTTACCCTATGAG
Found at i:19333641 original size:54 final size:54
Alignment explanation
Indices: 19333591--19333952 Score: 406
Period size: 54 Copynumber: 6.7 Consensus size: 54
19333581 GAGGTATAAT
* *
19333591 AATCATTTTACCCTATGAGGGTATTTAGGTCATTTTACCCTATGGGGGTATTTC
1 AATCATTCTACCCTATGAGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTC
* * * * * *
19333645 GATCATTCTACCCTATGGGGGTATATCGGTTACTTTACCCTATGAGGGTATTTC
1 AATCATTCTACCCTATGAGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTC
* * * * * *
19333699 AGTCATTTTATCCTAT-AAGATATTTCGGTCATTTTATCCTATGGGGGTATTTC
1 AATCATTCTACCCTATGAGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTC
** * * * *
19333752 GGTTATTCTACCCTATGGGGGTATTTCGATCATTTTACCCTATAGGGGTATTTC
1 AATCATTCTACCCTATGAGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTC
* * * * * * *
19333806 AGTCATTATATCCTATGGGGGTATTTCGGTCATTCTATCGTATGGGGGTATTTC
1 AATCATTCTACCCTATGAGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTC
*
19333860 AATCATTCTACCCTAT-AGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTC
1 AATCATTCTACCCTATGA-GGGTATTTCGGTCATTTTACCCTATGGGGGTATTTC
* * *
19333914 GATCATTCTACCCTATG-GGGATATTTCGATTATTTTACC
1 AATCATTCTACCCTATGAGGG-TATTTCGGTCATTTTACC
19333953 TATTTTAGGG
Statistics
Matches: 255, Mismatches: 49, Indels: 8
0.82 0.16 0.03
Matches are distributed among these distances:
53 44 0.17
54 211 0.83
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.41
Consensus pattern (54 bp):
AATCATTCTACCCTATGAGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTC
Found at i:19333704 original size:81 final size:81
Alignment explanation
Indices: 19333593--19333940 Score: 429
Period size: 81 Copynumber: 4.3 Consensus size: 81
19333583 GGTATAATAA
* * *
19333593 TCATTTTACCCTATGAGGGTATTT-AGGTCATTTTACCCTATGGGGGTATTTCGATCATTCTACC
1 TCATTCTACCCTATGAGGGTATTTCA-GTCATTTTACCCTATAGGGGTATTTCGATCATTTTACC
*
19333657 CTATGGGGGTATATCGG
65 CTATGGGGGTATTTCGG
* * * * * *
19333674 TTACTT-TACCCTATGAGGGTATTTCAGTCATTTTATCCTATA-AGATATTTCGGTCATTTTATC
1 TCA-TTCTACCCTATGAGGGTATTTCAGTCATTTTACCCTATAGGGGTATTTCGATCATTTTACC
19333737 CTATGGGGGTATTTCGG
65 CTATGGGGGTATTTCGG
* * * *
19333754 TTATTCTACCCTATGGGGGTATTTC-GATCATTTTACCCTATAGGGGTATTTC-AGTCATTATAT
1 TCATTCTACCCTATGAGGGTATTTCAG-TCATTTTACCCTATAGGGGTATTTCGA-TCATTTTAC
19333817 CCTATGGGGGTATTTCGG
64 CCTATGGGGGTATTTCGG
* * * * *
19333835 TCATTCTATCGTATGGGGGTATTTCAATCATTCTACCCTATAGGGGTATTTCGATCATTTTACCC
1 TCATTCTACCCTATGAGGGTATTTCAGTCATTTTACCCTATAGGGGTATTTCGATCATTTTACCC
*
19333900 TATGGGGGTATTTCGA
66 TATGGGGGTATTTCGG
19333916 TCATTCTACCCTATG-GGGATATTTC
1 TCATTCTACCCTATGAGGG-TATTTC
19333941 GATTATTTTA
Statistics
Matches: 233, Mismatches: 25, Indels: 18
0.84 0.09 0.07
Matches are distributed among these distances:
79 3 0.01
80 70 0.30
81 156 0.67
82 4 0.02
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.41
Consensus pattern (81 bp):
TCATTCTACCCTATGAGGGTATTTCAGTCATTTTACCCTATAGGGGTATTTCGATCATTTTACCC
TATGGGGGTATTTCGG
Found at i:19338082 original size:23 final size:22
Alignment explanation
Indices: 19338039--19338082 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
19338029 TTCTAAGTCG
19338039 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
19338062 ATATTCACTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
19338083 TTAGTCAATT
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:0.27, G:0.00, T:0.36
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:19338284 original size:51 final size:50
Alignment explanation
Indices: 19338226--19338412 Score: 196
Period size: 51 Copynumber: 3.7 Consensus size: 50
19338216 TCGGTTCACA
* * *
19338226 TAGTAGCCTACACATAGTACTATACATGTGACCATTACCATCTGATACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCA-TACCATCTGGTACACG
* * * * ** *
19338277 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAACTATCTGGTATGCA
1 TAGTAGCCTGCACATAGTACTACACATGTGA-CCATACCATCTGGTACACG
* * * * *
19338328 TAGTAGCCTGTACATGGTACTACACATGCGACC-TATCATTCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATACCA-TCTGGTACACG
*
19338378 TAGTAGCCCGCACATAGTACTACACATGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACATGTGACCAT
19338413 CACTTTCACT
Statistics
Matches: 107, Mismatches: 26, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
49 2 0.02
50 37 0.35
51 66 0.62
52 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCATACCATCTGGTACACG
Found at i:19341039 original size:20 final size:20
Alignment explanation
Indices: 19341005--19341046 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
19340995 AACTATTTAA
** *
19341005 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
19341025 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
19341045 AT
1 AT
19341047 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:19342609 original size:32 final size:32
Alignment explanation
Indices: 19342548--19342782 Score: 269
Period size: 32 Copynumber: 7.4 Consensus size: 32
19342538 GAATGTCTAC
** *
19342548 AAGCCATAAGT-ACAATAATATGATTGGCACA
1 AAGCCATAAGTAACGGTAATATGATCGGCACA
* * *
19342579 AAGCCATAAGTAGCAGTGATATGATCGGCACA
1 AAGCCATAAGTAACGGTAATATGATCGGCACA
* *
19342611 CAGCCATCAGTAACGGTAATATGATCGGCACA
1 AAGCCATAAGTAACGGTAATATGATCGGCACA
19342643 AAGCCATCAA-TAACGGTAATATGATCGGCACA
1 AAGCCAT-AAGTAACGGTAATATGATCGGCACA
* * *
19342675 AAGCCATCAA-TAATGGTAATATGACCGGTACA
1 AAGCCAT-AAGTAACGGTAATATGATCGGCACA
* **
19342707 AAGCCATTAGTAACGGTAATATGATCGATACA
1 AAGCCATAAGTAACGGTAATATGATCGGCACA
* * *
19342739 AAGCCATCAGTAACGGTAATATGATCGGTATA
1 AAGCCATAAGTAACGGTAATATGATCGGCACA
*
19342771 AAGCCATCAGTA
1 AAGCCATAAGTA
19342783 GCATCGCAGC
Statistics
Matches: 180, Mismatches: 21, Indels: 5
0.87 0.10 0.02
Matches are distributed among these distances:
31 12 0.07
32 167 0.93
33 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.21
Consensus pattern (32 bp):
AAGCCATAAGTAACGGTAATATGATCGGCACA
Found at i:19342802 original size:26 final size:26
Alignment explanation
Indices: 19342773--19342829 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
19342763 TCGGTATAAA
* *
19342773 GCCATCAGTAGCATCGCAGCAAAACT
1 GCCAGCAGAAGCATCGCAGCAAAACT
* * *
19342799 GCCAGCAGAAGTATTGCAGCAAAGCT
1 GCCAGCAGAAGCATCGCAGCAAAACT
19342825 GCCAG
1 GCCAG
19342830 TAATAGTATA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.33, C:0.28, G:0.25, T:0.14
Consensus pattern (26 bp):
GCCAGCAGAAGCATCGCAGCAAAACT
Found at i:19342981 original size:24 final size:24
Alignment explanation
Indices: 19342954--19343011 Score: 82
Period size: 24 Copynumber: 2.4 Consensus size: 24
19342944 CCATGCTCAG
*
19342954 AATCAGTCA-ATCAAATCACAGACA
1 AATCAGTCATACCAAA-CACAGACA
*
19342978 AATCAGTCATACCAAACACAGATA
1 AATCAGTCATACCAAACACAGACA
19343002 AATCAGTCAT
1 AATCAGTCAT
19343012 TTAACCACAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
24 26 0.84
25 5 0.16
ACGTcount: A:0.48, C:0.24, G:0.09, T:0.19
Consensus pattern (24 bp):
AATCAGTCATACCAAACACAGACA
Found at i:19343106 original size:27 final size:27
Alignment explanation
Indices: 19343071--19343209 Score: 181
Period size: 27 Copynumber: 5.1 Consensus size: 27
19343061 TTCACCCACT
19343071 AGGGCATTACGATCATTTTACCCTACA
1 AGGGCATTACGATCATTTTACCCTACA
* * *
19343098 AGGGTATTACGGTTATTTTACCCTACA
1 AGGGCATTACGATCATTTTACCCTACA
*
19343125 GGGGCATTACGATCATTTTACCCTACA
1 AGGGCATTACGATCATTTTACCCTACA
* * *
19343152 TGGGTATTACGTTCATTTTA-CCTCACA
1 AGGGCATTACGATCATTTTACCCT-ACA
* *
19343179 AGGGCATTACGGTCATTTTACCCTATA
1 AGGGCATTACGATCATTTTACCCTACA
19343206 AGGG
1 AGGG
19343210 TATTTTAGTC
Statistics
Matches: 96, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
26 3 0.03
27 90 0.94
28 3 0.03
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (27 bp):
AGGGCATTACGATCATTTTACCCTACA
Found at i:19343137 original size:54 final size:54
Alignment explanation
Indices: 19343071--19343213 Score: 218
Period size: 54 Copynumber: 2.6 Consensus size: 54
19343061 TTCACCCACT
19343071 AGGGCATTACGATCATTTTACCCTACAAGGGTATTACGGTT-ATTTTACC-CTACA
1 AGGGCATTACGATCATTTTACCCTACAAGGGTATTAC-GTTCATTTTACCTC-ACA
* *
19343125 GGGGCATTACGATCATTTTACCCTACATGGGTATTACGTTCATTTTACCTCACA
1 AGGGCATTACGATCATTTTACCCTACAAGGGTATTACGTTCATTTTACCTCACA
* *
19343179 AGGGCATTACGGTCATTTTACCCTATAAGGGTATT
1 AGGGCATTACGATCATTTTACCCTACAAGGGTATT
19343214 TTAGTCATTT
Statistics
Matches: 81, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
53 3 0.04
54 77 0.95
55 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (54 bp):
AGGGCATTACGATCATTTTACCCTACAAGGGTATTACGTTCATTTTACCTCACA
Found at i:19343269 original size:27 final size:27
Alignment explanation
Indices: 19343153--19343273 Score: 93
Period size: 27 Copynumber: 4.5 Consensus size: 27
19343143 TACCCTACAT
* * * *
19343153 GGGTATTACGTTCATTTTACCTCA-CAA
1 GGGTATTTCGGTCATTCTACC-CATCGA
* * * *
19343180 GGGCATTACGGTCATTTTACCCTAT-AA
1 GGGTATTTCGGTCATTCTACCC-ATCGA
** *
19343207 GGGTATTTTAGTCATTTTACCCATCGA
1 GGGTATTTCGGTCATTCTACCCATCGA
* *
19343234 GGGTATTTCGGTTATTCTACCCTTCGA
1 GGGTATTTCGGTCATTCTACCCATCGA
19343261 GGGTATTTCGGTC
1 GGGTATTTCGGTC
19343274 TAGATATCGA
Statistics
Matches: 78, Mismatches: 13, Indels: 6
0.80 0.13 0.06
Matches are distributed among these distances:
26 3 0.04
27 75 0.96
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (27 bp):
GGGTATTTCGGTCATTCTACCCATCGA
Found at i:19350931 original size:16 final size:16
Alignment explanation
Indices: 19350900--19350936 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
19350890 AAGTGAAGAA
19350900 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
19350916 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
19350932 TATTA
1 TATTA
19350937 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:19351020 original size:26 final size:25
Alignment explanation
Indices: 19350948--19351022 Score: 64
Period size: 26 Copynumber: 2.9 Consensus size: 25
19350938 AATAAAATTG
*
19350948 AAATATTAAAT-ATTAAAT-TATATT
1 AAATA-TAAATAATTAAATATATACT
* * *
19350972 AATTATACTAATAATTTATTATATGACT
1 AAATATA--AATAATTAAATATAT-ACT
19351000 AAATATAAATAATTAAATATATA
1 AAATATAAATAATTAAATATATA
19351023 TGTTTAATAA
Statistics
Matches: 39, Mismatches: 7, Indels: 9
0.71 0.13 0.16
Matches are distributed among these distances:
23 2 0.05
24 4 0.10
25 4 0.10
26 18 0.46
27 3 0.08
28 8 0.21
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (25 bp):
AAATATAAATAATTAAATATATACT
Found at i:19351091 original size:5 final size:6
Alignment explanation
Indices: 19351075--19351099 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
19351065 TTAATATTTT
19351075 TAAAAA TAAAAA TAAAAA TAAAAA T
1 TAAAAA TAAAAA TAAAAA TAAAAA T
19351100 TATTATCAAT
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:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
TAAAAA
Found at i:19363537 original size:16 final size:19
Alignment explanation
Indices: 19363516--19363555 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 19
19363506 TTTATGAACA
19363516 AATTTTTA-CTT-AGTT-T
1 AATTTTTACCTTCAGTTGT
19363532 AA-TTTTACCTTCAGTTGT
1 AATTTTTACCTTCAGTTGT
19363550 AATTTT
1 AATTTT
19363556 GATTTCCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
15 5 0.25
16 5 0.25
17 4 0.20
18 3 0.15
19 3 0.15
ACGTcount: A:0.25, C:0.10, G:0.07, T:0.57
Consensus pattern (19 bp):
AATTTTTACCTTCAGTTGT
Found at i:19363570 original size:23 final size:23
Alignment explanation
Indices: 19363544--19363589 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
19363534 TTTTACCTTC
*
19363544 AGTTGTAATTTTGATTTCCTTTT
1 AGTTATAATTTTGATTTCCTTTT
* * *
19363567 AGTTATAGTTTTTATTTCGTTTT
1 AGTTATAATTTTGATTTCCTTTT
19363590 TTCTATTTTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.17, C:0.07, G:0.13, T:0.63
Consensus pattern (23 bp):
AGTTATAATTTTGATTTCCTTTT
Found at i:19367644 original size:15 final size:14
Alignment explanation
Indices: 19367601--19367645 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 14
19367591 TAATTCTATT
19367601 TTTATTTTTATTTA
1 TTTATTTTTATTTA
*
19367615 TTATATATTTATTTA
1 TT-TATTTTTATTTA
*
19367630 CTTTATTTTTCTTTA
1 -TTTATTTTTATTTA
19367645 T
1 T
19367646 CAACTAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 3 0.12
15 21 0.81
16 2 0.08
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTATTTTTATTTA
Found at i:19376780 original size:23 final size:23
Alignment explanation
Indices: 19376754--19376861 Score: 65
Period size: 23 Copynumber: 4.4 Consensus size: 23
19376744 CAACAATTTG
19376754 GACAGCATTTATATACCAAACTA
1 GACAGCATTTATATACCAAACTA
* * * *
19376777 GACATCATTT-TCACACCAAAATTTG
1 GACAGCATTTAT-ATACC-AAA-CTA
** *
19376802 GACAGCATATATATATACAACAATTTG
1 GACAGCAT-T-TATATAC--CAAACTA
* *
19376829 GGCAGCATTTATATACCTAACTA
1 GACAGCATTTATATACCAAACTA
19376852 GACAGCATTT
1 GACAGCATTT
19376862 TCACACCAAA
Statistics
Matches: 64, Mismatches: 13, Indels: 16
0.69 0.14 0.17
Matches are distributed among these distances:
22 1 0.02
23 25 0.39
24 3 0.05
25 15 0.23
26 2 0.03
27 14 0.22
28 3 0.05
29 1 0.02
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (23 bp):
GACAGCATTTATATACCAAACTA
Found at i:19376906 original size:23 final size:23
Alignment explanation
Indices: 19376874--19377375 Score: 351
Period size: 23 Copynumber: 21.5 Consensus size: 23
19376864 ACACCAAAAT
* *
19376874 TTGGACAGCATATATACAACAAT
1 TTGGGCAGCATATATACAACAAA
* * * *
19376897 TTGGGTAGCATTTATATACCAAA
1 TTGGGCAGCATATATACAACAAA
* * *
19376920 CTAGGCAGCATATATACAAAAAA
1 TTGGGCAGCATATATACAACAAA
* * * *
19376943 TTGAGCAGCATTTTTACACAAAAAA
1 TTGGGCAGCA--TATATACAACAAA
*
19376968 TTGGACAGCATATATACAACAAA
1 TTGGGCAGCATATATACAACAAA
* * *
19376991 TTGGGCAGAATATATATACCAAA
1 TTGGGCAGCATATATACAACAAA
* * * * *
19377014 TTGAGCCGCATTTTTACATCAAAA
1 TTGGGCAGCATATATACAAC-AAA
* * *
19377038 TTGGACAGCATATATACAACCAT
1 TTGGGCAGCATATATACAACAAA
*
19377061 TTGGGCAGCATAAATACAACAAA
1 TTGGGCAGCATATATACAACAAA
* * * * *
19377084 TTGAGTAGCATTTTTACACCAAAAA
1 TTGGGCAGCATATATACA--ACAAA
*
19377109 TTGGACAGCATATATACAACAAA
1 TTGGGCAGCATATATACAACAAA
* * *
19377132 TTGGGCAGAATATATATACCAAA
1 TTGGGCAGCATATATACAACAAA
* * * * *
19377155 TTGAGCCGCATTTTTACATCAAAA
1 TTGGGCAGCATATATACAAC-AAA
* *
19377179 TTGGACAGCATATATACTACAAA
1 TTGGGCAGCATATATACAACAAA
* * *
19377202 TTGGGCAGGATATATATACCAAA
1 TTGGGCAGCATATATACAACAAA
* * * * *
19377225 TTGAGCCGCATTTTTACATCAAAA
1 TTGGGCAGCATATATACAAC-AAA
* *
19377249 TTGGACAGCATATATACAACAAT
1 TTGGGCAGCATATATACAACAAA
*
19377272 TTGGGCAGCATAAATACAACAAA
1 TTGGGCAGCATATATACAACAAA
* * *
19377295 TTGAGCAGCACT-TTTACACCAAAAA
1 TTGGGCAGCA-TATATACA--ACAAA
* * *
19377320 TTGGACAGCCTATATGCAACAAA
1 TTGGGCAGCATATATACAACAAA
* *
19377343 TTGAGCAGTATATATACAACAAA
1 TTGGGCAGCATATATACAACAAA
19377366 TT-GGCAGCAT
1 TTGGGCAGCAT
19377376 TTAAGCATCA
Statistics
Matches: 353, Mismatches: 115, Indels: 23
0.72 0.23 0.05
Matches are distributed among these distances:
22 6 0.02
23 244 0.69
24 52 0.15
25 51 0.14
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.26
Consensus pattern (23 bp):
TTGGGCAGCATATATACAACAAA
Found at i:19376929 original size:71 final size:71
Alignment explanation
Indices: 19376737--19376930 Score: 300
Period size: 75 Copynumber: 2.7 Consensus size: 71
19376727 AACTATACTA
* *
19376737 CATAT-TACAACAATTTGGACAGCATTTATATACCAAACTAGACATCATTTTCACACCAAAATTT
1 CATATATACAACAATTTGGGCAGCATTTATATACCAAACTAGACAGCATTTTCACACCAAAATTT
19376801 GGACAG
66 GGACAG
*
19376807 CATATATATATACAACAATTTGGGCAGCATTTATATACCTAACTAGACAGCATTTTCACACCAAA
1 C----ATATATACAACAATTTGGGCAGCATTTATATACCAAACTAGACAGCATTTTCACACCAAA
19376872 ATTTGGACAG
62 ATTTGGACAG
* *
19376882 CATATATACAACAATTTGGGTAGCATTTATATACCAAACTAGGCAGCAT
1 CATATATACAACAATTTGGGCAGCATTTATATACCAAACTAGACAGCAT
19376931 ATATACAAAA
Statistics
Matches: 113, Mismatches: 6, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
70 1 0.01
71 45 0.40
74 4 0.04
75 63 0.56
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (71 bp):
CATATATACAACAATTTGGGCAGCATTTATATACCAAACTAGACAGCATTTTCACACCAAAATTT
GGACAG
Found at i:19377068 original size:70 final size:71
Alignment explanation
Indices: 19376923--19377377 Score: 614
Period size: 70 Copynumber: 6.5 Consensus size: 71
19376913 TACCAAACTA
* *
19376923 GGCAGCATATATACAAAAAATTGAGCAGCATTTTTACA-CAAAAAATTGGACAGCATATATACAA
1 GGCAGAATATATACAACAAATTGAGCAGCATTTTTACATC-AAAAATTGGACAGCATATATACAA
19376987 CAAATTG
65 CAAATTG
* * *
19376994 GGCAGAATATATATACCAAATTGAGCCGCATTTTTACATC-AAAATTGGACAGCATATATACAAC
1 GGCAGAATATATACAACAAATTGAGCAGCATTTTTACATCAAAAATTGGACAGCATATATACAAC
* *
19377058 CATTTG
66 AAATTG
* * * *
19377064 GGCAGCATAAATACAACAAATTGAGTAGCATTTTTACACCAAAAATTGGACAGCATATATACAAC
1 GGCAGAATATATACAACAAATTGAGCAGCATTTTTACATCAAAAATTGGACAGCATATATACAAC
19377129 AAATTG
66 AAATTG
* * * *
19377135 GGCAGAATATATATACCAAATTGAGCCGCATTTTTACATC-AAAATTGGACAGCATATATACTAC
1 GGCAGAATATATACAACAAATTGAGCAGCATTTTTACATCAAAAATTGGACAGCATATATACAAC
19377199 AAATTG
66 AAATTG
* * * *
19377205 GGCAGGATATATATACCAAATTGAGCCGCATTTTTACATC-AAAATTGGACAGCATATATACAAC
1 GGCAGAATATATACAACAAATTGAGCAGCATTTTTACATCAAAAATTGGACAGCATATATACAAC
*
19377269 AATTTG
66 AAATTG
* * * * * *
19377275 GGCAGCATAAATACAACAAATTGAGCAGCACTTTTACACCAAAAATTGGACAGCCTATATGCAAC
1 GGCAGAATATATACAACAAATTGAGCAGCATTTTTACATCAAAAATTGGACAGCATATATACAAC
19377340 AAATTG
66 AAATTG
* *
19377346 AGCAGTATATATACAACAAATTG-GCAGCATTT
1 GGCAGAATATATACAACAAATTGAGCAGCATTT
19377378 AAGCATCAAA
Statistics
Matches: 340, Mismatches: 41, Indels: 7
0.88 0.11 0.02
Matches are distributed among these distances:
70 198 0.58
71 141 0.41
72 1 0.00
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.26
Consensus pattern (71 bp):
GGCAGAATATATACAACAAATTGAGCAGCATTTTTACATCAAAAATTGGACAGCATATATACAAC
AAATTG
Found at i:19377069 original size:141 final size:140
Alignment explanation
Indices: 19376923--19377377 Score: 662
Period size: 141 Copynumber: 3.2 Consensus size: 140
19376913 TACCAAACTA
*
19376923 GGCAGCATATATACAAAAAATTGAGCAGCATTTTTACACAAAAAATTGGACAGCATATATACAAC
1 GGCAGCATATATACAACAAATTGAGCAGCATTTTTACAC-AAAAATTGGACAGCATATATACAAC
19376988 AAATTGGGCAGAATATATATACCAAATTGAGCCGCATTTTTACATCAAAATTGGACAGCATATAT
65 AAATTGGGCAGAATATATATACCAAATTGAGCCGCATTTTTACATCAAAATTGGACAGCATATAT
* *
19377053 ACAACCATTTG
130 ACAACAAATTG
* *
19377064 GGCAGCATAAATACAACAAATTGAGTAGCATTTTTACACCAAAAATTGGACAGCATATATACAAC
1 GGCAGCATATATACAACAAATTGAGCAGCATTTTTACA-CAAAAATTGGACAGCATATATACAAC
19377129 AAATTGGGCAGAATATATATACCAAATTGAGCCGCATTTTTACATCAAAATTGGACAGCATATAT
65 AAATTGGGCAGAATATATATACCAAATTGAGCCGCATTTTTACATCAAAATTGGACAGCATATAT
*
19377194 ACTACAAATTG
130 ACAACAAATTG
* * * *
19377205 GGCAGGATATATATACCAAATTGAGCCGCATTTTTACATC-AAAATTGGACAGCATATATACAAC
1 GGCAGCATATATACAACAAATTGAGCAGCATTTTTACA-CAAAAATTGGACAGCATATATACAAC
* * * * * * * * *
19377269 AATTTGGGCAGCATAAATACAACAAATTGAGCAGCACTTTTACACCAAAAATTGGACAGCCTATA
65 AAATTGGGCAGAATATATATACCAAATTGAGCCGCATTTTTACATC-AAAATTGGACAGCATATA
*
19377334 TGCAACAAATTG
129 TACAACAAATTG
* *
19377346 AGCAGTATATATACAACAAATTG-GCAGCATTT
1 GGCAGCATATATACAACAAATTGAGCAGCATTT
19377378 AAGCATCAAA
Statistics
Matches: 283, Mismatches: 29, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
140 70 0.25
141 212 0.75
142 1 0.00
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.26
Consensus pattern (140 bp):
GGCAGCATATATACAACAAATTGAGCAGCATTTTTACACAAAAATTGGACAGCATATATACAACA
AATTGGGCAGAATATATATACCAAATTGAGCCGCATTTTTACATCAAAATTGGACAGCATATATA
CAACAAATTG
Found at i:19377203 original size:211 final size:211
Alignment explanation
Indices: 19376924--19377377 Score: 750
Period size: 211 Copynumber: 2.2 Consensus size: 211
19376914 ACCAAACTAG
* *
19376924 GCAGCATATATACAAAAAATTGAGCAGCATTTTTACACAAAAAATTGGACAGCATATATACAACA
1 GCAGAATATATACAACAAATTGAGCAGCATTTTTACAC-AAAAATTGGACAGCATATATACAACA
19376989 AATTGGGCAGAATATATATACCAAATTGAGCCGCATTTTTACATCAAAATTGGACAGCATATATA
65 AATTGGGCAGAATATATATACCAAATTGAGCCGCATTTTTACATCAAAATTGGACAGCATATATA
* * *
19377054 CAACCATTTGGGCAGCATAAATACAACAAATTGAGTAGCATTTTTACACCAAAAATTGGACAGCA
130 CAACAATTTGGGCAGCATAAATACAACAAATTGAGCAGCACTTTTACACCAAAAATTGGACAGCA
*
19377119 TATATACAACAAATTGG
195 TATATACAACAAATTGA
* * * *
19377136 GCAGAATATATATACCAAATTGAGCCGCATTTTTACATC-AAAATTGGACAGCATATATACTACA
1 GCAGAATATATACAACAAATTGAGCAGCATTTTTACA-CAAAAATTGGACAGCATATATACAACA
*
19377200 AATTGGGCAGGATATATATACCAAATTGAGCCGCATTTTTACATCAAAATTGGACAGCATATATA
65 AATTGGGCAGAATATATATACCAAATTGAGCCGCATTTTTACATCAAAATTGGACAGCATATATA
*
19377265 CAACAATTTGGGCAGCATAAATACAACAAATTGAGCAGCACTTTTACACCAAAAATTGGACAGCC
130 CAACAATTTGGGCAGCATAAATACAACAAATTGAGCAGCACTTTTACACCAAAAATTGGACAGCA
*
19377330 TATATGCAACAAATTGA
195 TATATACAACAAATTGA
*
19377347 GCAGTATATATACAACAAATTG-GCAGCATTT
1 GCAGAATATATACAACAAATTGAGCAGCATTT
19377378 AAGCATCAAA
Statistics
Matches: 224, Mismatches: 17, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
210 8 0.04
211 183 0.82
212 32 0.14
213 1 0.00
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.26
Consensus pattern (211 bp):
GCAGAATATATACAACAAATTGAGCAGCATTTTTACACAAAAATTGGACAGCATATATACAACAA
ATTGGGCAGAATATATATACCAAATTGAGCCGCATTTTTACATCAAAATTGGACAGCATATATAC
AACAATTTGGGCAGCATAAATACAACAAATTGAGCAGCACTTTTACACCAAAAATTGGACAGCAT
ATATACAACAAATTGA
Found at i:19378133 original size:28 final size:28
Alignment explanation
Indices: 19378101--19378198 Score: 160
Period size: 28 Copynumber: 3.5 Consensus size: 28
19378091 TAATAAGTTT
19378101 GCACACTTAGTGCTTAATAATCAATCTC
1 GCACACTTAGTGCTTAATAATCAATCTC
19378129 GCACACTTAGTGCTTAATAATCAATCTC
1 GCACACTTAGTGCTTAATAATCAATCTC
* * * *
19378157 GCACACTTAGTGCTTTACAATTAAACTC
1 GCACACTTAGTGCTTAATAATCAATCTC
19378185 GCACACTTAGTGCT
1 GCACACTTAGTGCT
19378199 AATCTCATTA
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 66 1.00
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.32
Consensus pattern (28 bp):
GCACACTTAGTGCTTAATAATCAATCTC
Found at i:19403984 original size:34 final size:31
Alignment explanation
Indices: 19403946--19404068 Score: 95
Period size: 34 Copynumber: 3.7 Consensus size: 31
19403936 GCTACCGAAT
*
19403946 TGATCTGTTATAAGCATGCTTATTGCTATCGTAA
1 TGATCTATTATAAGCATG-TTATTGCTA-C-TAA
* * *
19403980 TGATCTATTATAAGTATGATAATTTCTACTATA
1 TGATCTATTATAAGCATG-TTATTGCTACTA-A
* * *
19404013 TCGA-CTTGTTATAAGTATGTTATTGCTACCTTAT
1 T-GATC-TATTATAAGCATGTTATTGCTA-C-TAA
19404047 TGATCTATTATAAGCATGTTAT
1 TGATCTATTATAAGCATGTTAT
19404069 GTTACATTGC
Statistics
Matches: 72, Mismatches: 11, Indels: 13
0.75 0.11 0.14
Matches are distributed among these distances:
32 2 0.03
33 28 0.39
34 40 0.56
35 2 0.03
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.45
Consensus pattern (31 bp):
TGATCTATTATAAGCATGTTATTGCTACTAA
Found at i:19404086 original size:17 final size:17
Alignment explanation
Indices: 19404064--19404096 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
19404054 TTATAAGCAT
19404064 GTTATGTTACATTGCAC
1 GTTATGTTACATTGCAC
19404081 GTTATGTTACATTGCA
1 GTTATGTTACATTGCA
19404097 TGGGGTGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.15, G:0.18, T:0.42
Consensus pattern (17 bp):
GTTATGTTACATTGCAC
Found at i:19406374 original size:14 final size:15
Alignment explanation
Indices: 19406350--19406378 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
19406340 GAAACTAGAG
19406350 AAAGAATAAAAGATA
1 AAAGAATAAAAGATA
19406365 AAAG-ATAAAAGATA
1 AAAGAATAAAAGATA
19406379 GGCTAGGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (15 bp):
AAAGAATAAAAGATA
Found at i:19407143 original size:28 final size:28
Alignment explanation
Indices: 19407111--19407242 Score: 192
Period size: 28 Copynumber: 4.7 Consensus size: 28
19407101 TGACTTTCGA
*
19407111 CACTAAGTGTGCGAATTTAATTGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
19407139 CACTAAGTGTGCGAGTTTAATTTGTAAAG
1 CACTAAGTGTGCGAGTTTAA-TTGTAAAG
*
19407168 CACTAAGTGTGCGAGTTTAATGGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* * **
19407196 CACTAAGTGTGCGAGTTTGATTATTGAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
*
19407224 CACTAAGTGTGCGAATTTA
1 CACTAAGTGTGCGAGTTTA
19407243 TTAAATATTT
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
28 66 0.70
29 28 0.30
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTAATTGTAAAG
Found at i:19407199 original size:57 final size:56
Alignment explanation
Indices: 19407111--19407242 Score: 203
Period size: 57 Copynumber: 2.3 Consensus size: 56
19407101 TGACTTTCGA
*
19407111 CACTAAGTGTGCGAATTTAATTGTAAAGCACTAAGTGTGCGAGTTTAATT-TGTAAAG
1 CACTAAGTGTGCGAATTTAATGGTAAAGCACTAAGTGTGCGAGTTTAATTAT-T-AAG
* * *
19407168 CACTAAGTGTGCGAGTTTAATGGTAAAGCACTAAGTGTGCGAGTTTGATTATTGAG
1 CACTAAGTGTGCGAATTTAATGGTAAAGCACTAAGTGTGCGAGTTTAATTATTAAG
19407224 CACTAAGTGTGCGAATTTA
1 CACTAAGTGTGCGAATTTA
19407243 TTAAATATTT
Statistics
Matches: 69, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
56 20 0.29
57 48 0.70
58 1 0.01
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (56 bp):
CACTAAGTGTGCGAATTTAATGGTAAAGCACTAAGTGTGCGAGTTTAATTATTAAG
Found at i:19408075 original size:23 final size:22
Alignment explanation
Indices: 19408003--19408287 Score: 137
Period size: 23 Copynumber: 12.0 Consensus size: 22
19407993 GCTGCCCAAA
19408003 TTGTCATATATATGCTGTCCAAATTT
1 TTGT-ATATA-ATGCTGT-CAAA-TT
* * *
19408029 TTGATGTAAAAATGCTGTCCAATT
1 TTG-TAT-ATAATGCTGTCAAATT
*
19408053 TTGTATATACATGCTGTTAAATT
1 TTGTATATA-ATGCTGTCAAATT
*
19408076 TTGTGTATAAGTGCTGTCCAAATT
1 TTGTATATAA-TGCTGT-CAAATT
* * * *
19408100 GGTGTATGT-ATGCTGCCTAATTT
1 -TTGTATATAATGCTGTC-AAATT
*
19408123 TTGGTGA-ATCAATGCTGTCCAATT
1 TT-GT-ATAT-AATGCTGTCAAATT
*
19408147 TTGTATATACATGCTGTTAAATT
1 TTGTATATA-ATGCTGTCAAATT
*
19408170 TTGTGTATAAGTGCTGTCCAAATT
1 TTGTATATAA-TGCTGT-CAAATT
* * * *
19408194 GGTGTATGT-ATGCTGCCTAATTT
1 -TTGTATATAATGCTGTC-AAATT
*
19408217 TTGGTGA-ATCAATGCTGTCCAATT
1 TT-GT-ATAT-AATGCTGTCAAATT
* *
19408241 TTGTATACACATGCTGTTAAATT
1 TTGTATATA-ATGCTGTCAAATT
*
19408264 TTGTGTATAAGTGCTGTCCAAATT
1 TTGTATATAA-TGCTGT-CAAATT
19408288 GGTGTATGTA
Statistics
Matches: 195, Mismatches: 39, Indels: 52
0.68 0.14 0.18
Matches are distributed among these distances:
22 13 0.07
23 107 0.55
24 34 0.17
25 27 0.14
26 11 0.06
27 3 0.02
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.42
Consensus pattern (22 bp):
TTGTATATAATGCTGTCAAATT
Found at i:19408149 original size:94 final size:95
Alignment explanation
Indices: 19408013--19408383 Score: 577
Period size: 94 Copynumber: 3.9 Consensus size: 95
19408003 TTGTCATATA
* * *
19408013 TATGCTGTCCAAATTTTTGATGTAA-AAATGCTGTCCAATTTTGTATATACATGCTGTTAAATTT
1 TATGCTG-CCTAATTTTTGGTGAAATAAATGCTGTCCAATTTTGTATATACATGCTGTTAAATTT
19408077 TGTGTATAAGTGCTGTCCAAATTGGTGTATG
65 TGTGTATAAGTGCTGTCCAAATTGGTGTATG
*
19408108 TATGCTGCCTAATTTTTGGTG-AATCAATGCTGTCCAATTTTGTATATACATGCTGTTAAATTTT
1 TATGCTGCCTAATTTTTGGTGAAATAAATGCTGTCCAATTTTGTATATACATGCTGTTAAATTTT
19408172 GTGTATAAGTGCTGTCCAAATTGGTGTATG
66 GTGTATAAGTGCTGTCCAAATTGGTGTATG
* *
19408202 TATGCTGCCTAATTTTTGGTG-AATCAATGCTGTCCAATTTTGTATACACATGCTGTTAAATTTT
1 TATGCTGCCTAATTTTTGGTGAAATAAATGCTGTCCAATTTTGTATATACATGCTGTTAAATTTT
19408266 GTGTATAAGTGCTGTCCAAATTGGTGTATG
66 GTGTATAAGTGCTGTCCAAATTGGTGTATG
* * * * *
19408296 TATGCTGCCTAATTTTTGGTGAAAAAAAATGCTGTCCAATTTTATATATATATGCTGCTCAATTT
1 TATGCTGCCTAATTTTTGGTG-AAATAAATGCTGTCCAATTTTGTATATACATGCTG-TTAAATT
*
19408361 TTGATGTATAAGAGCTGTCCAAA
64 TTG-TGTATAAGTGCTGTCCAAA
19408384 CAGGGTAGAT
Statistics
Matches: 259, Mismatches: 12, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
93 2 0.01
94 195 0.75
95 7 0.03
96 29 0.11
97 8 0.03
98 18 0.07
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.41
Consensus pattern (95 bp):
TATGCTGCCTAATTTTTGGTGAAATAAATGCTGTCCAATTTTGTATATACATGCTGTTAAATTTT
GTGTATAAGTGCTGTCCAAATTGGTGTATG
Found at i:19408292 original size:23 final size:22
Alignment explanation
Indices: 19407968--19408294 Score: 110
Period size: 23 Copynumber: 14.0 Consensus size: 22
19407958 TTTATGCTTA
* *
19407968 AATGCTG-CCCAATTGATGTATT
1 AATGCTGTCCAAATTGGTGTA-T
* * *
19407990 TATGCTGCCCAAATT-GTCATAT
1 AATGCTGTCCAAATTGGT-GTAT
* *
19408012 ATATGCTGTCCAAATTTTTGATGTAAA
1 A-ATGCTGTCCAAA---TTGGTGT-AT
* * *
19408039 AATGCTGTCCAATTTTGTATAT
1 AATGCTGTCCAAATTGGTGTAT
* *
19408061 ACATGCTGT-TAAATTTTGTGTAT
1 A-ATGCTGTCCAAA-TTGGTGTAT
19408084 AAGTGCTGTCCAAATTGGTGTAT
1 AA-TGCTGTCCAAATTGGTGTAT
* * *
19408107 GTATGCTG-CCTAATTTTTGGTGAAT
1 -AATGCTGTCC-AA--ATTGGTGTAT
* * *
19408132 CAATGCTGTCCAATTTTGTATAT
1 -AATGCTGTCCAAATTGGTGTAT
* *
19408155 ACATGCTGT-TAAATTTTGTGTAT
1 A-ATGCTGTCCAAA-TTGGTGTAT
19408178 AAGTGCTGTCCAAATTGGTGTAT
1 AA-TGCTGTCCAAATTGGTGTAT
* * *
19408201 GTATGCTG-CCTAATTTTTGGTGAAT
1 -AATGCTGTCC-AA--ATTGGTGTAT
* * * *
19408226 CAATGCTGTCCAATTTTGTATAC
1 -AATGCTGTCCAAATTGGTGTAT
* *
19408249 ACATGCTGT-TAAATTTTGTGTAT
1 A-ATGCTGTCCAAA-TTGGTGTAT
19408272 AAGTGCTGTCCAAATTGGTGTAT
1 AA-TGCTGTCCAAATTGGTGTAT
19408295 GTATGCTGCC
Statistics
Matches: 228, Mismatches: 47, Indels: 59
0.68 0.14 0.18
Matches are distributed among these distances:
22 25 0.11
23 139 0.61
24 11 0.05
25 32 0.14
26 18 0.08
27 3 0.01
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.41
Consensus pattern (22 bp):
AATGCTGTCCAAATTGGTGTAT
Found at i:19408310 original size:46 final size:46
Alignment explanation
Indices: 19408072--19408311 Score: 245
Period size: 46 Copynumber: 5.1 Consensus size: 46
19408062 CATGCTGTTA
19408072 AATTTTGTGTATAAGTGCTGTCCAAATTGGTGTATGTATGCTGCCT
1 AATTTTGTGTATAAGTGCTGTCCAAATTGGTGTATGTATGCTGCCT
* * * * ** *
19408118 AATTTTTGGTGAATCAA-TGCTGTCCAATTTTGTATATACATGCTG-TT
1 AA-TTTT-GTGTAT-AAGTGCTGTCCAAATTGGTGTATGTATGCTGCCT
19408165 AAATTTTGTGTATAAGTGCTGTCCAAATTGGTGTATGTATGCTGCCT
1 -AATTTTGTGTATAAGTGCTGTCCAAATTGGTGTATGTATGCTGCCT
* * * * *** *
19408212 AATTTTTGGTGAATCAA-TGCTGTCCAATTTTGTATACACATGCTG-TT
1 AA-TTTT-GTGTAT-AAGTGCTGTCCAAATTGGTGTATGTATGCTGCCT
19408259 AAATTTTGTGTATAAGTGCTGTCCAAATTGGTGTATGTATGCTGCCT
1 -AATTTTGTGTATAAGTGCTGTCCAAATTGGTGTATGTATGCTGCCT
19408306 AATTTT
1 AATTTT
19408312 TGGTGAAAAA
Statistics
Matches: 152, Mismatches: 30, Indels: 24
0.74 0.15 0.12
Matches are distributed among these distances:
45 4 0.03
46 65 0.43
47 20 0.13
48 59 0.39
49 4 0.03
ACGTcount: A:0.24, C:0.13, G:0.20, T:0.42
Consensus pattern (46 bp):
AATTTTGTGTATAAGTGCTGTCCAAATTGGTGTATGTATGCTGCCT
Found at i:19411680 original size:171 final size:171
Alignment explanation
Indices: 19411395--19411739 Score: 672
Period size: 171 Copynumber: 2.0 Consensus size: 171
19411385 CAGTTGAAGG
19411395 TTTTTTGACCGAAGCTCCAGTTTTAGTTTAGCCAGAATCGGGTAAAGAGTTTGTTATCTATAGTG
1 TTTTTTGACCGAAGCTCCAGTTTTAGTTTAGCCAGAATCGGGTAAAGAGTTTGTTATCTATAGTG
19411460 ATGCATCTTTAAATGGTTTGGGTTGTGTTTTGATGCAAGAAGGCAAAGTTGTAGCCTATGCCTCG
66 ATGCATCTTTAAATGGTTTGGGTTGTGTTTTGATGCAAGAAGGCAAAGTTGTAGCCTATGCCTCG
*
19411525 AGACAGTTAAAGCCGCATGAAAAGAACTATCCGACGCATGA
131 AGACAATTAAAGCCGCATGAAAAGAACTATCCGACGCATGA
19411566 TTTTTTGACCGAAGCTCCAGTTTTAGTTTAGCCAGAATCGGGTAAAGAGTTTGTTATCTATAGTG
1 TTTTTTGACCGAAGCTCCAGTTTTAGTTTAGCCAGAATCGGGTAAAGAGTTTGTTATCTATAGTG
*
19411631 ATGCATCTTTAAATGGTTTGGGTTGTGTTTTGATGCAAGAAGGCAAAGTTGTAGCCTATGCCTTG
66 ATGCATCTTTAAATGGTTTGGGTTGTGTTTTGATGCAAGAAGGCAAAGTTGTAGCCTATGCCTCG
19411696 AGACAATTAAAGCCGCATGAAAAGAACTATCCGACGCATGA
131 AGACAATTAAAGCCGCATGAAAAGAACTATCCGACGCATGA
19411737 TTT
1 TTT
19411740 GGAATTGGCC
Statistics
Matches: 172, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
171 172 1.00
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.32
Consensus pattern (171 bp):
TTTTTTGACCGAAGCTCCAGTTTTAGTTTAGCCAGAATCGGGTAAAGAGTTTGTTATCTATAGTG
ATGCATCTTTAAATGGTTTGGGTTGTGTTTTGATGCAAGAAGGCAAAGTTGTAGCCTATGCCTCG
AGACAATTAAAGCCGCATGAAAAGAACTATCCGACGCATGA
Found at i:19414731 original size:28 final size:28
Alignment explanation
Indices: 19414699--19414830 Score: 192
Period size: 28 Copynumber: 4.7 Consensus size: 28
19414689 TGACTTTCGA
*
19414699 CACTAAGTGTGCGAATTTAATTGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
19414727 CACTAAGTGTGCGAGTTTAATTTGTAAAG
1 CACTAAGTGTGCGAGTTTAA-TTGTAAAG
*
19414756 CACTAAGTGTGCGAGTTTAATGGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* * **
19414784 CACTAAGTGTGCGAGTTTGATTATTGAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
*
19414812 CACTAAGTGTGCGAATTTA
1 CACTAAGTGTGCGAGTTTA
19414831 TTAAATATTT
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
28 66 0.70
29 28 0.30
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTAATTGTAAAG
Found at i:19414787 original size:57 final size:56
Alignment explanation
Indices: 19414699--19414830 Score: 203
Period size: 57 Copynumber: 2.3 Consensus size: 56
19414689 TGACTTTCGA
*
19414699 CACTAAGTGTGCGAATTTAATTGTAAAGCACTAAGTGTGCGAGTTTAATT-TGTAAAG
1 CACTAAGTGTGCGAATTTAATGGTAAAGCACTAAGTGTGCGAGTTTAATTAT-T-AAG
* * *
19414756 CACTAAGTGTGCGAGTTTAATGGTAAAGCACTAAGTGTGCGAGTTTGATTATTGAG
1 CACTAAGTGTGCGAATTTAATGGTAAAGCACTAAGTGTGCGAGTTTAATTATTAAG
19414812 CACTAAGTGTGCGAATTTA
1 CACTAAGTGTGCGAATTTA
19414831 TTAAATATTT
Statistics
Matches: 69, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
56 20 0.29
57 48 0.70
58 1 0.01
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (56 bp):
CACTAAGTGTGCGAATTTAATGGTAAAGCACTAAGTGTGCGAGTTTAATTATTAAG
Found at i:19415612 original size:23 final size:23
Alignment explanation
Indices: 19415565--19415623 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
19415555 TTATGCTTAA
* *
19415565 ATGCTGCCC-AATTGATGTATTT
1 ATGCTGCCCAAATTGATATATAT
19415587 ATGCTGCCCAAATTG-TCATATAT
1 ATGCTGCCCAAATTGAT-ATATAT
*
19415610 ATGCTGTCCAAATT
1 ATGCTGCCCAAATT
19415624 TTTGATGTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 10 0.31
23 22 0.69
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.37
Consensus pattern (23 bp):
ATGCTGCCCAAATTGATATATAT
Found at i:19415671 original size:23 final size:22
Alignment explanation
Indices: 19415599--19415977 Score: 176
Period size: 23 Copynumber: 16.0 Consensus size: 22
19415589 GCTGCCCAAA
19415599 TTGTCATATATATGCTGTCCAAATTT
1 TTGT-ATATA-ATGCTGT-CAAA-TT
* * *
19415625 TTGATGTAAAAATGCTGTCCAATT
1 TTG-TAT-ATAATGCTGTCAAATT
*
19415649 TTGTATATACATGCTGTTAAATT
1 TTGTATATA-ATGCTGTCAAATT
*
19415672 TTGTGTATAAGTGCTGTCCAAATT
1 TTGTATATAA-TGCTGT-CAAATT
* * * *
19415696 GGTGTATGT-ATGCTGCCTAATTT
1 -TTGTATATAATGCTGTC-AAATT
*
19415719 TTGGTGA-ATCAATGCTGTCCAATT
1 TT-GT-ATAT-AATGCTGTCAAATT
*
19415743 TTGTATATACATGCTGTTAAATT
1 TTGTATATA-ATGCTGTCAAATT
*
19415766 TTGTGTATAAGTGCTGTCCAAATT
1 TTGTATATAA-TGCTGT-CAAATT
* * * *
19415790 GGTGTATGT-ATGCTGCCTAATTT
1 -TTGTATATAATGCTGTC-AAATT
*
19415813 TTGGTGA-ATCAATGCTGTCCAATT
1 TT-GT-ATAT-AATGCTGTCAAATT
*
19415837 TTGTATATACATGCTGTTAAATT
1 TTGTATATA-ATGCTGTCAAATT
*
19415860 TTGTGTATAAGTGCTGTCCAAATT
1 TTGTATATAA-TGCTGT-CAAATT
* * * *
19415884 GGTGTATGT-ATGCTGCCTAATTT
1 -TTGTATATAATGCTGTC-AAATT
*
19415907 TTGGTGA-ATCAATGCTGTCCAATT
1 TT-GT-ATAT-AATGCTGTCAAATT
* *
19415931 TTGTATACACATGCTGTTAAATT
1 TTGTATATA-ATGCTGTCAAATT
*
19415954 TTGTGTATAAGTGCTGTCCAAATT
1 TTGTATATAA-TGCTGT-CAAATT
19415978 GGTATATGTA
Statistics
Matches: 265, Mismatches: 53, Indels: 72
0.68 0.14 0.18
Matches are distributed among these distances:
22 18 0.07
23 148 0.56
24 46 0.17
25 39 0.15
26 11 0.04
27 3 0.01
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.42
Consensus pattern (22 bp):
TTGTATATAATGCTGTCAAATT
Found at i:19415745 original size:94 final size:94
Alignment explanation
Indices: 19415609--19416073 Score: 761
Period size: 94 Copynumber: 4.9 Consensus size: 94
19415599 TTGTCATATA
* * *
19415609 TATGCTGTCCAAATTTTTGATGTAA-AAATGCTGTCCAATTTTGTATATACATGCTGTTAAATTT
1 TATGCTG-CCTAATTTTTGGTG-AATCAATGCTGTCCAATTTTGTATATACATGCTGTTAAATTT
19415673 TGTGTATAAGTGCTGTCCAAATTGGTGTATG
64 TGTGTATAAGTGCTGTCCAAATTGGTGTATG
19415704 TATGCTGCCTAATTTTTGGTGAATCAATGCTGTCCAATTTTGTATATACATGCTGTTAAATTTTG
1 TATGCTGCCTAATTTTTGGTGAATCAATGCTGTCCAATTTTGTATATACATGCTGTTAAATTTTG
19415769 TGTATAAGTGCTGTCCAAATTGGTGTATG
66 TGTATAAGTGCTGTCCAAATTGGTGTATG
19415798 TATGCTGCCTAATTTTTGGTGAATCAATGCTGTCCAATTTTGTATATACATGCTGTTAAATTTTG
1 TATGCTGCCTAATTTTTGGTGAATCAATGCTGTCCAATTTTGTATATACATGCTGTTAAATTTTG
19415863 TGTATAAGTGCTGTCCAAATTGGTGTATG
66 TGTATAAGTGCTGTCCAAATTGGTGTATG
*
19415892 TATGCTGCCTAATTTTTGGTGAATCAATGCTGTCCAATTTTGTATACACATGCTGTTAAATTTTG
1 TATGCTGCCTAATTTTTGGTGAATCAATGCTGTCCAATTTTGTATATACATGCTGTTAAATTTTG
*
19415957 TGTATAAGTGCTGTCCAAATTGGTATATG
66 TGTATAAGTGCTGTCCAAATTGGTGTATG
** * * * *
19415986 TATGCTGCCTAATTTTTGGTGAAAAAAAATGCTGTCCAATTTTATATATATATGCTGCTCAATTT
1 TATGCTGCCTAATTTTTGGTG--AATCAATGCTGTCCAATTTTGTATATACATGCTG-TTAAATT
*
19416051 TTGATGTATAAGAGCTGTCCAAA
63 TTG-TGTATAAGTGCTGTCCAAA
19416074 CAGGGTAGAT
Statistics
Matches: 352, Mismatches: 13, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
93 2 0.01
94 288 0.82
95 7 0.02
96 29 0.08
97 8 0.02
98 18 0.05
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.42
Consensus pattern (94 bp):
TATGCTGCCTAATTTTTGGTGAATCAATGCTGTCCAATTTTGTATATACATGCTGTTAAATTTTG
TGTATAAGTGCTGTCCAAATTGGTGTATG
Found at i:19441220 original size:20 final size:20
Alignment explanation
Indices: 19441184--19441222 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
19441174 CGACGCCAAT
19441184 TCTGTAAGTATTCTGAAAAC
1 TCTGTAAGTATTCTGAAAAC
*
19441204 TCTGATAAGT-TTTTGAAAA
1 TCTG-TAAGTATTCTGAAAA
19441223 TATGAGTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.38
Consensus pattern (20 bp):
TCTGTAAGTATTCTGAAAAC
Found at i:19442813 original size:18 final size:18
Alignment explanation
Indices: 19442790--19442825 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
19442780 CATCATATGT
19442790 CAGTTTGGGATGTGTGCC
1 CAGTTTGGGATGTGTGCC
19442808 CAGTTTGGGATGTGTGCC
1 CAGTTTGGGATGTGTGCC
19442826 GATACAGGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.17, G:0.39, T:0.33
Consensus pattern (18 bp):
CAGTTTGGGATGTGTGCC
Found at i:19447207 original size:9 final size:9
Alignment explanation
Indices: 19447193--19447228 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
19447183 GATAAAGTAA
19447193 AATTAAATT
1 AATTAAATT
19447202 AATTAAATT
1 AATTAAATT
*
19447211 AATCAAATT
1 AATTAAATT
19447220 AATTAAATT
1 AATTAAATT
19447229 TAATATGATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (9 bp):
AATTAAATT
Found at i:19450167 original size:16 final size:16
Alignment explanation
Indices: 19450146--19450204 Score: 66
Period size: 16 Copynumber: 3.7 Consensus size: 16
19450136 TTAATCACTT
19450146 TAATATTAAATTAATA
1 TAATATTAAATTAATA
**
19450162 TAATATTTATCTTAATA
1 TAATA-TTAAATTAATA
* *
19450179 -AATATTATATTAATT
1 TAATATTAAATTAATA
19450194 TAATATTAAAT
1 TAATATTAAAT
19450205 CTTATTAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
15 9 0.25
16 18 0.50
17 9 0.25
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (16 bp):
TAATATTAAATTAATA
Found at i:19450182 original size:21 final size:20
Alignment explanation
Indices: 19450158--19450198 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
19450148 ATATTAAATT
*
19450158 AATATAATATTTATCTTAATA
1 AATATAATATTAAT-TTAATA
*
19450179 AATATTATATTAATTTAATA
1 AATATAATATTAATTTAATA
19450199 TTAAATCTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
AATATAATATTAATTTAATA
Found at i:19450184 original size:32 final size:32
Alignment explanation
Indices: 19450147--19450260 Score: 98
Period size: 32 Copynumber: 3.7 Consensus size: 32
19450137 TAATCACTTT
19450147 AATATTAAATTAATATAATATTTATCTTAATA
1 AATATTAAATTAATATAATATTTATCTTAATA
* * *
19450179 AATATTATATTAATTTAATATTAAATCTT-AT-
1 AATATTAAATTAATATAATATT-TATCTTAATA
*
19450210 --TA--AAA-TAATAGAATATTTATCTTAGATA
1 AATATTAAATTAATATAATATTTATCTTA-ATA
* *
19450238 AACATTAAATTAAATTTAATATT
1 AATATTAAATT-AATATAATATT
19450261 AAACTATTAA
Statistics
Matches: 62, Mismatches: 10, Indels: 18
0.69 0.11 0.20
Matches are distributed among these distances:
25 5 0.08
26 10 0.16
27 4 0.06
29 2 0.03
30 1 0.02
32 25 0.40
33 6 0.10
34 9 0.15
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.46
Consensus pattern (32 bp):
AATATTAAATTAATATAATATTTATCTTAATA
Found at i:19450196 original size:5 final size:6
Alignment explanation
Indices: 19450145--19450202 Score: 56
Period size: 5 Copynumber: 10.7 Consensus size: 6
19450135 CTTAATCACT
* *
19450145 TTAATA TTAA-A TTAATA -TAATA TTTATC TTAATA --AATA TT-ATA
1 TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA
19450188 TTAAT- TTAATA TTAA
1 TTAATA TTAATA TTAA
19450203 ATCTTATTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
4 4 0.10
5 20 0.48
6 18 0.43
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (6 bp):
TTAATA
Found at i:19450211 original size:58 final size:58
Alignment explanation
Indices: 19450149--19450278 Score: 192
Period size: 58 Copynumber: 2.2 Consensus size: 58
19450139 ATCACTTTAA
* * *
19450149 TATTAAATTAATATAATATTTATCTTA-ATAAATATTATATT-AATTTAATATTAAATC
1 TATTAAAATAATATAATATTTATCTTAGATAAACATTAAATTAAATTTAATATTAAA-C
*
19450206 TTATTAAAATAATAGAATATTTATCTTAGATAAACATTAAATTAAATTTAATATTAAAC
1 -TATTAAAATAATATAATATTTATCTTAGATAAACATTAAATTAAATTTAATATTAAAC
19450265 TATTAAAATAATAT
1 TATTAAAATAATAT
19450279 TATTTTTGAA
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
58 38 0.58
59 13 0.20
60 14 0.22
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.45
Consensus pattern (58 bp):
TATTAAAATAATATAATATTTATCTTAGATAAACATTAAATTAAATTTAATATTAAAC
Found at i:19462270 original size:58 final size:56
Alignment explanation
Indices: 19462194--19462347 Score: 181
Period size: 57 Copynumber: 2.7 Consensus size: 56
19462184 GAATTTTTTG
*
19462194 TTTGAAAACACGAGAATTTTG-AGACACAATAACTCTTTTTTATTGAAAACACAAAAATT
1 TTTGAAAACACGAGAATTTTGAAAACACAA-AA-T-TTTTTT-TTGAAAACACAAAAATT
*
19462253 TTT-AAAACACGAGAATTTTTTGAAAACACGAAATTTTTTTTTGAAAACACAAAAATT
1 TTTGAAAACACGAGAA--TTTTGAAAACACAAAATTTTTTTTTGAAAACACAAAAATT
19462310 TTTGAAATAC-CG-GAATTTTTGAAAACACAAAGATTTTT
1 TTTGAAA-ACACGAGAA-TTTTGAAAACACAAA-ATTTTT
19462348 GAAACACGAA
Statistics
Matches: 86, Mismatches: 3, Indels: 14
0.83 0.03 0.14
Matches are distributed among these distances:
56 15 0.17
57 29 0.34
58 23 0.27
59 6 0.07
60 7 0.08
61 6 0.07
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.34
Consensus pattern (56 bp):
TTTGAAAACACGAGAATTTTGAAAACACAAAATTTTTTTTTGAAAACACAAAAATT
Found at i:19462300 original size:40 final size:38
Alignment explanation
Indices: 19462251--19462364 Score: 105
Period size: 35 Copynumber: 3.1 Consensus size: 38
19462241 AACACAAAAA
* *
19462251 TTTTTAAAACACGAGAATTTTTTGAAA-ACACGAAATTTT
1 TTTTTAAAACAC-AAAAATTTTTGAAATAC-CGAAATTTT
*
19462290 TTTTTGAAAACACAAAAATTTTTGAAATACCGGAA---T
1 TTTTT-AAAACACAAAAATTTTTGAAATACCGAAATTTT
* * *
19462326 TTTTGAAAACACAAAGATTTTTGAAACA-CG-AATTTT
1 TTTTTAAAACACAAAAATTTTTGAAATACCGAAATTTT
19462362 TTT
1 TTT
19462365 AATTTTTCCT
Statistics
Matches: 64, Mismatches: 6, Indels: 13
0.77 0.07 0.16
Matches are distributed among these distances:
33 2 0.03
34 2 0.03
35 21 0.33
36 9 0.14
39 21 0.33
40 9 0.14
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.38
Consensus pattern (38 bp):
TTTTTAAAACACAAAAATTTTTGAAATACCGAAATTTT
Found at i:19462364 original size:17 final size:18
Alignment explanation
Indices: 19462231--19462363 Score: 107
Period size: 18 Copynumber: 7.3 Consensus size: 18
19462221 AATAACTCTT
*
19462231 TTTTATTGAAAACACAAAA
1 TTTT-TTGAAAACACGAAA
*
19462250 ATTTTT-AAAACACGAGAA
1 TTTTTTGAAAACACGA-AA
19462268 TTTTTTGAAAACACGAAA
1 TTTTTTGAAAACACGAAA
*
19462286 TTTTTTTTTGAAAACACAAAA
1 ---TTTTTTGAAAACACGAAA
* *
19462307 ATTTTTGAAATAC-CGGAA
1 TTTTTTGAAA-ACACGAAA
19462325 -TTTTTGAAAACAC-AAA
1 TTTTTTGAAAACACGAAA
*
19462341 GATTTTTG-AAACACG-AA
1 -TTTTTTGAAAACACGAAA
19462358 TTTTTT
1 TTTTTT
19462364 TAATTTTTCC
Statistics
Matches: 95, Mismatches: 9, Indels: 23
0.75 0.07 0.18
Matches are distributed among these distances:
16 9 0.09
17 26 0.27
18 29 0.31
19 14 0.15
21 17 0.18
ACGTcount: A:0.44, C:0.11, G:0.10, T:0.36
Consensus pattern (18 bp):
TTTTTTGAAAACACGAAA
Found at i:19462874 original size:7 final size:7
Alignment explanation
Indices: 19462862--19462903 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
19462852 CTTTCCCCTC
19462862 CCTTTTT
1 CCTTTTT
19462869 CCTTTTT
1 CCTTTTT
19462876 -CTTTTT
1 CCTTTTT
* *
19462882 TCTTCTT
1 CCTTTTT
19462889 CCTTTCTT
1 CCTTT-TT
19462897 CCTTTTT
1 CCTTTTT
19462904 TTTCTTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
6 6 0.20
7 17 0.57
8 7 0.23
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (7 bp):
CCTTTTT
Found at i:19462908 original size:21 final size:20
Alignment explanation
Indices: 19462867--19462909 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
19462857 CCCTCCCTTT
19462867 TTCCTTTTTCTTTTTTCTTC
1 TTCCTTTTTCTTTTTTCTTC
19462887 TTCCTTTCTTCCTTTTTT-TTC
1 TTCCTTT-TT-CTTTTTTCTTC
19462908 TT
1 TT
19462910 TTTTCGGCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.33
21 7 0.33
22 7 0.33
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (20 bp):
TTCCTTTTTCTTTTTTCTTC
Found at i:19463211 original size:15 final size:15
Alignment explanation
Indices: 19463193--19463230 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
19463183 GATTTTTTTA
19463193 TTTTTTCTCTTTCCT
1 TTTTTTCTCTTTCCT
*
19463208 TTTTTTTTCTTTCCT
1 TTTTTTCTCTTTCCT
*
19463223 TTTCTTCT
1 TTTTTTCT
19463231 TTCTTTTTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTTCTCTTTCCT
Found at i:19463212 original size:21 final size:20
Alignment explanation
Indices: 19463186--19463256 Score: 56
Period size: 21 Copynumber: 3.5 Consensus size: 20
19463176 TATTTTAGAT
19463186 TTTTTTATTTTTTCTCTTTCC
1 TTTTTTATTTTTTCTCTTT-C
19463207 TTTTTT-TTTCTTTC-CTTTTC
1 TTTTTTATTT-TTTCTC-TTTC
* * *
19463227 TTCTTTCTTTTTCTTTCTTTC
1 TTTTTTATTTTT-TCTCTTTC
*
19463248 TTTCTTATT
1 TTTTTTATT
19463257 CCATTTTTCT
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
20 12 0.30
21 27 0.68
22 1 0.03
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTTTTATTTTTTCTCTTTC
Found at i:19463213 original size:17 final size:18
Alignment explanation
Indices: 19463196--19463267 Score: 64
Period size: 18 Copynumber: 4.1 Consensus size: 18
19463186 TTTTTTATTT
19463196 TTTCTCTTTCC-TTTTT-
1 TTTCTCTTTCCTTTTTTC
19463212 TTT-TCTTTCCTTTTCTTC
1 TTTCTCTTTCCTTTT-TTC
*
19463230 TTTCT-TTTTCTTTCTTTC
1 TTTCTCTTTCCTTT-TTTC
*
19463248 TTTCT-TATTCCATTTTTC
1 TTTCTCT-TTCCTTTTTTC
19463266 TT
1 TT
19463268 CCTTCTCCGT
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
15 7 0.15
16 6 0.13
17 2 0.04
18 25 0.53
19 7 0.15
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTCTCTTTCCTTTTTTC
Found at i:19463225 original size:27 final size:27
Alignment explanation
Indices: 19463195--19463247 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
19463185 TTTTTTTATT
*
19463195 TTTTC-TCTTTCCTTTTTTTTTCTTTCC
1 TTTTCTTCTTT-CTTTTTCTTTCTTTCC
19463222 TTTTCTTCTTTCTTTTTCTTTCTTTC
1 TTTTCTTCTTTCTTTTTCTTTCTTTC
19463248 TTTCTTATTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 19 0.79
28 5 0.21
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (27 bp):
TTTTCTTCTTTCTTTTTCTTTCTTTCC
Found at i:19463902 original size:60 final size:60
Alignment explanation
Indices: 19463815--19463971 Score: 147
Period size: 59 Copynumber: 2.6 Consensus size: 60
19463805 AATATGGGGC
* * *
19463815 CAAAATGTAATTTTTAGAAAAGTTTAGGGGCCCAAATGAAAATTTAAGAAAGTTAAAAGGT
1 CAAAATGTAATATGTAGAAAAGTTTAGGGGCCAAAATGAAAATTTAA-AAAGTTAAAAGGT
* * * * * *
19463876 CAAAATGTAA-ATGTAGGAAAGTTTAGGGTCCAAAATGCAATTTTGAAAAGTTAAAGGGT
1 CAAAATGTAATATGTAGAAAAGTTTAGGGGCCAAAATGAAAATTTAAAAAGTTAAAAGGT
* ** * * * *
19463935 TAAAAAATAAT-TTTAAAAAAGTTTAAGGGTCAAAATG
1 CAAAATGTAATATGTAGAAAAGTTTAGGGGCCAAAATG
19463972 TAATTTTTTA
Statistics
Matches: 77, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
59 39 0.51
60 28 0.36
61 10 0.13
ACGTcount: A:0.46, C:0.06, G:0.20, T:0.28
Consensus pattern (60 bp):
CAAAATGTAATATGTAGAAAAGTTTAGGGGCCAAAATGAAAATTTAAAAAGTTAAAAGGT
Found at i:19463976 original size:30 final size:30
Alignment explanation
Indices: 19463787--19463978 Score: 142
Period size: 30 Copynumber: 6.4 Consensus size: 30
19463777 TTTTTTGGGA
* * *
19463787 AAAATGTAATTTTAGGAAAA-TAT-GGGGCC
1 AAAATGTAATTTTA-GAAAAGTTTAAGGGTC
* *
19463816 AAAATGTAATTTTTAGAAAAGTTTAGGGGCC
1 AAAATGTAA-TTTTAGAAAAGTTTAAGGGTC
* * * * *
19463847 CAAATGAAAATTTA-AGAAAGTTAAAAGGTC
1 AAAATGTAATTTTAGA-AAAGTTTAAGGGTC
* * *
19463877 AAAATGTAAATGTAGGAAAGTTT-AGGGTCC
1 AAAATGTAATTTTAGAAAAGTTTAAGGGT-C
* * *
19463907 AAAATGCAATTTT-GAAAAGTTAAAGGGTT
1 AAAATGTAATTTTAGAAAAGTTTAAGGGTC
** *
19463936 AAAAAATAATTTTAAAAAAGTTTAAGGGTC
1 AAAATGTAATTTTAGAAAAGTTTAAGGGTC
19463966 AAAATGTAATTTT
1 AAAATGTAATTTT
19463979 TTATTTTAAA
Statistics
Matches: 127, Mismatches: 28, Indels: 15
0.75 0.16 0.09
Matches are distributed among these distances:
29 36 0.28
30 78 0.61
31 13 0.10
ACGTcount: A:0.45, C:0.05, G:0.20, T:0.30
Consensus pattern (30 bp):
AAAATGTAATTTTAGAAAAGTTTAAGGGTC
Done.